MEPS academic program review 2014
Molecular and Environmental Plant Sciences Texas A&M University
External Review Molecular and Environmental Plant Sciences Graduate Program Self Study March 2014
Molecular and Environmental Plant Sciences 1 MEPS academic program review 2014
Molecular and Environmental Plant Sciences Texas A&M University
Molecular and Environmental Plant Sciences Graduate Program Self Study
March 2014 College of Agriculture and Life Sciences College of Geosciences College of Science
Molecular and Environmental Plant Sciences 2 MEPS academic program review 2014
TABLE OF CONTENTS
EXECUTIVE SUMMARY 5 1. INTRODUCTION 8 1.1 Welcome 1.2 Charge to the Review Team 2. TEXAS A&M UNIVERSITY SYSTEM 10 2.1 Texas A&M University 2.2 The College of Agriculture and Life Sciences (COALS) 2.3 Aggie Traditions 2.4 Graduate Interdisciplinary Programs 3. MEPS PROGRAM STRUCTURE 18 3.1 Program History 3.2 Program Description 3.3 University Administration of MEPS Program 3.4 Administrative Structure of the MEPS Program 3.4.1 Executive Committee and Chair 3.4.2 Program Coordinator 3.4.3 Admissions Committee 3.4.4 Symposium Committee 3.4.5 Nomination and Awards Committee 3.5 Budget Allocations and Program Expenditures 3.5.1 Funding for current graduate students 4. THE MEPS GRADUATE PROGRAM 31 4.1 Admission Requirements and Procedures 4.2 The Curriculum 4.2.1 Master of Molecular and Environmental Plant Sciences 4.2.2 Doctoral Degree 4.2.3 Degree Plan 4.2.4 Advisory Committee 4.2.5 Designated MEPS Courses 4.2.6 MEPS funded Assistantships 4.2.7 MEPS Graduate Student Engagement 5. MEPS STUDENTS 39 5.1 New MEPS Student Enrollment Trends 5.2 MEPS Student Enrollment Trends and Retention 5.2.1 Country of Origin of MEPS Students 5.3 Student Publications and Presentations 5.4 MEPS Student Graduation 6. MEPS FACULTY 45 6.1 Faculty Teaching in MEPS Program 6.2 Faculty Advising 6.3 Research Funding for MEPS Program Faculty 6.4 Faculty Publications 6.5 Demographics of MEPS Faculty 7. VISION, GOALS, AND ASSESSMENT 51
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7.1 Texas A&M University Vision 2020 7.2 College of Agriculture and Life Sciences- Grand Challenges 7.3 Strategic Plan/Program Assessment 7.3.1 MEPS Program Vision 7.3.2 MEPS Program Mission 7.3.3 MEPS Program Goals 7.4 Learning Outcomes 8. STRENGTHS AND WEAKNESSES 55 8.1 Program Strengths 8.1.1 Value of an Interdisciplinary degree 8.1.2 Flexible Degree 8.1.3 Faculty Diversity and Research Expertise 8.1.4 Affiliated Scientists 8.1.5 Faculty Recruiting 8.1.6 Plant Science Community 8.1.7 Participation of New Faculty 8.1.8 Annual MEPS Spring Symposium 8.1.9 Excellent Students 8.1.10 Facilities, Equipment, etc 8.1.11 Student Placement 8.2 Program Weaknesses 8.2.1 External Program Visibility 8.2.2 Lack of Physical Program Office Space 8.2.3 Curriculum Weaknesses 8.2.4 Internal Program Identity 8.2.5 Recruiting Activities 8.2.6 Loss of Critical Faculty Expertise 8.2.7 Critical mass 8.2.8 Informal Learning Opportunities 8.2.9 Lack of Plant Growth and Greenhouse Facilities 9. PLANS FOR THE NEXT 1-3 YEARS 60 9.1 Establish a MEPS External Advisory Committee 9.2 Seek to Establish Additional MEPS Endowed Scholarships 9.3 Establish a MEPS journal club. 9.4 Establish Remote Sensing Focus 9.5 Establish On-Going Internships for MEPS students 10. APPENDICES 61 APPENDIX A Short Biographies of MEPS Faculty APPENDIX B MEPS Symposium APPENDIX C Characteristics of Texas Doctoral Programs
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EXECUTIVE SUMMARY
This is the third external review of the Molecular and Environmental Plant Sciences (MEPS) program, and this document was prepared specifically for this purpose. Texas A&M University established the interdisciplinary MEPS graduate degree program in 1989. At present there are 10 university approved interdisciplinary programs (IDP) at Texas A&M University. One new IDP, Ecology and Evolutionary Biology, is in the process of being approved by the University and Texas Higher Education Coordinating Board (THECB). Interdisciplinary faculty act through an executive committee and a program chair who guide the program. The MEPS program currently comprises 54 faculty in 8 departments in the Colleges of Agriculture and Life Sciences, Science, and Geosciences. Not all of the 54 members of the MEPS faculty are counted as active. At present, 42 faculty are active members in terms of functioning as a MEPS student chair since the last review in 2006. Faculty who participate in MEPS supervise and fund students in their respective departments, but they also supervise and fund students in the MEPS program. The MEPS program is structured to provide interdisciplinary breadth. Courses offered through the program provide students with an understanding of molecular and biochemical mechanisms that regulate plant function at the cellular, whole plant and community scale. The program offers two degrees: a Master of Science and a Ph.D.
The Master of Science is a research-based thesis degree designed as a base of core disciplinary knowledge in basic plant sciences that provides structural flexibility to accommodate students working at the basic or applied cellular, whole plant or plant environmental community interaction level. The Ph.D. is a dissertation-based research degree designed to give students a comprehensive knowledge of basic molecular and whole plant function while again providing flexibility outside of the core curriculum to accommodate the broad level of disciplinary training afforded by the individual MEPS faculty. Both degrees are designed to prepare students for academic, government or industry research careers.
Enrollment in the program has fluctuated between approximately 25 to 40 students. Due to funding limitations, the program admits 4-9 students per year. Two to three of these students are offered initial 9-month MEPS rotational assistantships prior to being recruited and supported by MEPS faculty. Other MEPS students are self supported by home country scholarships, recruited on competitive Texas A&M University fellowships, or recruited directly into MEPS faculty programs. All rotational MEPS students are supported with a full stipend and coverage of tuition, fees and healthcare costs. Overall, about 13% of the students have pursued a master’s degree and about 87% the doctorate. The student demographic is roughly 30% of domestic origin and 70% international. There are slightly more female than male MEPS students. The enrollment of under-represented minority students averages 10%. The master’s students are largely U.S. citizens. The doctoral program has a 1:3 ratio between domestic and international students. The population of international students is diverse, comprising students from numerous countries. Of the 21 students who have graduated from the program, all but 2 are employed in plant science disciplines. Doctoral degree graduates are working in academic or industry and government research positions. The core MEPS faculty have excelled in publication and external funding. MEPS faculty members have generated approximately $43 million in external funding between 2007 and 2012. These funds have supported dynamic research programs and contributed to MEPS graduate student support.
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Funding from the Office of Graduate and Professional Studies (OGAPS) has been steady, and as such our student enrollment has been level. Current MEPS funding is calculated on a complex but fair formula that multiplies the number of MEPS students by the number of unique MEPS student faculty Chairs or Co-Chairs by weight student credit hour. The funding comes from a $1 million dollar pool of OGAPS funds that is split between the 12 current IDP at TAMU. This pool of funds is understood to be independent of the funds TAMU Colleges and their departments. However, during the recent economic downturn, financial resources became limited for departments and their faculty and their student graduation dropped to the point where the home departments of several MEPS faculty were in danger of losing degree programs through the THECB. As such, some departments justifiably increased the pressure on faculty to recruit students through their departmental rather the MEPS or other IDP programs. This issue may continue to significantly impact the viability of the MEPS program. Despite the financial limitations, the MEPS program has been aggressive in seeking University and external fellowship and scholarship support to help faculty recruit students. These efforts will need to continue and increase for the sake of current faculty who based on the student skill and interest find it easier to attract the graduate students through the MEPS program than through their home department. The dilemma revolving around struggling departments with low graduation rates, IDP that form successful interdisciplinary faculty and graduate student recruiting communities, and the perception that IDPs are draining resources, and contributing departmental decline needs to be solved between Texas A&M University, college and departmental level administration in consultation with the THECB. Leaving the dilemma to a confrontation between IDP faculty and their home department supervisors is dysfunctional for all of Texas A&M University leading to poor student and faculty retention.
Modern basic research laboratory equipment is adequate and available for MEPS faculty and student use on the TAMU campus. Additionally, there are13 Texas A&M University AgriLife Research and Extension Centers along with satellite research stations available throughout the state for agricultural and ecological research. However, modern plant growth facilities are completely inadequate. Modern facilities containing temperature controlled greenhouses and growth chambers are available in the Borlaug Center, which houses the Institute for Plant Genomics and Biotechnology (IPGB)(http://ipgb.tamu.edu/ipgb). The facility contains laboratory space for 8 current faculty, 8 small multi-user temperature controlled greenhouses, 4 large multi- user temperature controlled greenhouses, and 22 plant growth chambers. Because the greenhouses are multi-user, individual experiment temperature and daylength control is problematic to impossible. At its inception, the Borlaug Center was developed as a community- wide (2 colleges and 3 state agencies, and USDA-ARS) facility available to plant science faculty throughout the 8 departments of MEPS regardless of whether the faculty members were located in the IPGB. Under its current management, the facility has become organized as an IPGB member-only use facility for use of growth chambers, and increasingly the smaller greenhouses. Other, much older, greenhouses exist under departmental management. . While a few of these are in good condition, many are dilapidated to dysfunctional. Thus most of the plant-science community including the 54 MEPS faculty and an additional133 broader plant science community faculty within departments, must contend among each other for the use of 4 large modern but multi-user greenhouses in the Borlaug Center. To put this problem in a larger context than competition among faculty members, Texas A&M University is the Land Grant
Molecular and Environmental Plant Sciences 6 MEPS academic program review 2014 university of Texas. Together with three state agencies (Texas AgriLife Research and Extension, and the Texas Forest Service) it is charged with conducting and disseminating agricultural and state ecological research. This is a huge responsibility especially given that Texas is a large populated state with a future water shortage, based on aprojected increasing population and a decreasing above- and below- ground water supply for municipal, ecological, and agricultural use. As such, the current condition of plant growth facilities for undergraduate and graduate student training and faculty research is wholly inadequate for the tremendous responsibilities bestowed on the Texas A&M System.
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1. INTRODUCTION
1.1 Welcome Howdy. On behalf of the Graduate Interdisciplinary Faculty of Molecular and Environmental Plant Sciences Program the students and the entire Texas A&M University community, let me welcome you to Texas A&M University and sincerely thank you for your time and external view and expert analysis on the program. This external review is a required periodic review of all Texas A&M University academic programs. The document provides an overview of the program, its history, faculty, students, curriculum, and our overall efforts at developing the next generation of plant scientists. We are honored you are serving on this review, and we value the experience you bring to the process. We look forward to your feedback as we strive for excellence.
Dirk Hays Chair Molecular and Environmental Plant Sciences Department of Soil and Crop Sciences 227 Heep Center, 2474-TAMU, Texas A&M University College Station, Texas 77843 979-458-0032 phone; 979-845-0456 fax [email protected]
1.2 Charge to the Review Team Thank you for assisting us with continuous quality improvement of academic programs for the Molecular and Environmental Plant Sciences (MEPS) Interdisciplinary Graduate Program at Texas A&M University. The Academic Program Review (APR) to which you are contributing is part of a periodic review of all Texas A&M University academic programs. APR affords an opportunity to assess the standards of our programs and to learn from review team members’ experiences with similar programs. In addition to the charge to the committee, this self- evaluation will provide you with a brief overview of the MEPS graduate programs. The review team is charged with examining the program and making recommendations that we may use to develop a vision and schedule for improving the MEPS program. Resources that you will have for this assessment are this self-study, other materials that may be provided by the Department and our office, information you gain through personal interactions while visiting Texas A&M University, and any additional information that you request. Within the broad charge of informing continuous quality improvement are the following specific questions that the APR process would like you to address:
Based on the data / information provided in the self-study report or gathered by the review team, what are the department’s overall strengths and weaknesses?
How well do the department’s strategic goals align with those of its college and with those of Texas A&M University?
How would you compare this department/program with its peers?
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What improvements (including student learning and faculty development) has the department/program made since the previous program review?
With only current resources or a modest infusion of new ones, what specific recommendations could improve the department/program’s performance, marginally or significantly?
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2. TEXAS A&M UNIVERSITY SYSTEM The Texas A&M University System (TAMUS) is one of the larger systems of higher education in the U.S. The System comprises 11 universities (Fig.1), seven state agencies, and a health science center. TAMUS educates more than 120,000 students and serves about 22 million Texans each year. With nearly 27,000 faculty and staff, TAMUS has a physical presence in 250 of the state’s 254 counties and a programmatic presence in every Texas county. TAMUS brings in more than $772 million annually in externally funded research helping to drive the state’s economy.
Figure 1. The Texas A&M University System within the State
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The Texas A&M University System consists of the following entities:
Universities: Texas A&M University – College Station (flagship university) Texas A&M University at Galveston (branch) Texas A&M University at Qatar (branch in the Middle East) Prairie View A&M University Texas A&M University at Commerce Tarleton State University at Stephenville West Texas A&M University at Canyon Texas A&M University at Kingsville Texas A&M University at Corpus Christi Texas A&M International University at Laredo Texas A&M University at Texarkana Texas A&M University Central Texas at Killeen Texas A&M University at San Antonio Texas A&M Health Science Center
State Agencies: Texas A&M AgriLife Research Texas A&M AgriLife Extension Service Texas A&M Engineering Experiment Station Texas A&M Engineering Extension Service Texas A&M Forest Service Texas A&M Veterinary Medical Diagnostic Laboratory Texas A&M Transportation Institute
2.1 Texas A&M University On October 4, 1876, Texas A&M University started as Texas’ first public institution of higher learning. To date, the university has awarded more than 380,000 degrees. It is one of a select few academic institutions in the nation to hold triple federal designations as a Land-Grant, Sea-Grant and Space-Grant University. It offers more than 120 undergraduate degree programs and 240 M.S. and Ph.D. degree programs. Texas A&M University operates two branch campuses that award “Texas A&M University” degrees in Galveston and Qatar. The university also operates centers in Mexico, Costa Rica and Italy to facilitate education, research, and outreach. The annual research portfolio at the University is estimated to be in excess of $689 million in FY 2010, placing it among the top 20 universities nationwide and third behind MIT and University of California-Berkeley for universities without medical schools. More than 80% of the 2,800 faculty members hold doctoral degrees. The faculty includes Nobel Prize, National Medal of Science, and Wolf Prize recipients. There are over two dozen faculty members who are members of the National Academy of Sciences, National Academy of Engineering or the Institute of Medicine. Texas A&M University is also home to The George Bush Presidential Library and Museum and the associated Bush School of Government and Public Service.
There are more than 50,000 Aggies currently enrolled on the main campus in College Station of which more than 9,500 are graduate students. Texas A&M University is the country’s sixth
Molecular and Environmental Plant Sciences 11 MEPS academic program review 2014 largest university in terms of student enrollment. It ranks among the top U.S. universities in attracting international students with more than 4,500 students from 120 countries. It consistently ranks among the country’s top 20 universities in terms of enrollment of National Merit Scholars.
These are the 10 academic colleges at Texas A&M University: • College of Agriculture and Life Sciences • College of Architecture • Bush School of Government and Public Service • College of Education and Human Development • College of Geosciences • College of Liberal Arts • College of Science • College of Veterinary Medicine and Biomedical Sciences • Dwight Look College of Engineering • Mays Business School
2.2 The College of Agriculture and Life Sciences (COALS) The College of Agriculture and Life Sciences is composed 14 Departments hosting 400 faculty, and 7,000+ students. COALS is also home to 14 Departments, 7 institutes. It also services as the administrative home for 4 state agencies, 13 Texas A&M University Research and Extension Centers, 4 TVMDL Centers, 94 TFS offices, and 258 Texas A&M University County Extension Offices (see Figure 2).
Departments: Agricultural Economics Agricultural Leadership, Education & Communications Animal Science Biochemistry & Biophysics Biological & Agricultural Engineering Ecosystem Science and Management Entomology Horticultural Sciences Nutrition and Food Science Plant Pathology & Microbiology Poultry Science Recreation, Park and Tourism Sciences Dept. Soil & Crop Sciences Wildlife & Fisheries Sciences State Agencies Texas A&M University AgriLife Research, Texas A&M University AgriLife Extension, Texas Forest Service (TFS), Texas Veterinary Medical Diagnostic Laboratory (TVMDL) Institutes National Center for Foreign Animal and Zoonotic Disease Defense
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Institute for Obesity Research and Program Evaluation Institute of Plant Genomics and Biotechnology Institute of Renewable Natural Resources Norman E. Borlaug Institute for International Agriculture Texas A&M Institute for Genomic Medicine (TIGM) Texas Water Resources Institute
Texas A&M University AgriLife Research
Texas A&M University AgriLife Extension
Texas Forest Service (TFS)
Texas Veterinary Medical Diagnostic Laboratory (TVMDL)
Figure 2. Texas A&M University, College of Agriculture and Life Sciences State Agencies location.
2.3 Aggie Traditions
Aggie Ring One of the greatest moments in the life of every Aggie is the day that he or she receives an Aggie Ring. This tradition began with the Class of 1889. The original rings were very different from the one worn today because, at that time, several companies made different versions of the Aggie
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Ring. E.C. Jonas, Class of 1894, designed a ring that is similar to the ring worn today. There have been only slight changes to this design, including the name of the institution in 1964, from the Agricultural and Mechanical College of Texas to Texas A&M University. The Aggie Ring is rich in symbolism and tradition and is perhaps the most recognizable and enduring symbol of the Aggie Network. The Ring can only be obtained through the Association of Former Students when students must meet eligibility requirements, including completion of at least 95 hours of coursework, before they can order their Aggie Ring. Traditionally, students wear their ring with the class year facing them to signify that their time at A&M is not yet complete.
Silver Taps By far, one of Texas A&M’s most honored traditions is Silver Taps. Silver Taps is held for a student who passes away while enrolled at A&M. This final tribute is held the first Tuesday of the month when a student has passed away the previous month. The first Silver Taps was held in 1898 and honored Lawrence Sullivan Ross, the former governor of Texas and president of A&M College. Silver Taps is currently held in the Academic Plaza. On the day of Silver Taps, a small card with the deceased students name, class, major, and date of birth is placed as a notice at the base of the academic flagpole. Around 10:15 that night, all campus lights are extinguished and hymns chime from Albritton Tower. Students silently gather at the statue of Lawrence Sullivan Ross. At 10:30 p.m., the Ross Volunteer Firing Squad marches into the plaza to honor the deceased with a 21-gun salute. Buglers then play a special rendition of Silver Taps by Colonel Richard Dunn. Taps is played three times from the dome of the Academic Building: once to the north, south, and west. It is not played to the east because the sun will never rise on that Aggie again. After the buglers play, the students leave from Academic Plaza in complete silence.
Muster Muster began in June of 1883 as members of the Ex-Cadets Association came together to “live over again our college days, the victories and defeats won and lost upon drill ground and classroom” and to “let every alumni answer a roll call.” In 1922, April 21st became a formalized day of events for all A&M clubs to celebrate San Jacinto Day in the same fashion. Since then, events that occurred on April 21st have grown in size and number. Muster gained national recognition in 1942 when newspapers reported that a Muster ceremony was held by 24 Aggies on the island of Corregidor in the Philippines just days before the land fell to the Japanese. Throughout World War II, there were reports of Aggies coming together from across the globe. Two men were said to have held Muster in a submarine. Accounts such as these inspired Aggies to establish annual Musters around the world and to inaugurate the first campus Muster ceremony in 1944. Today Aggie Muster is celebrated in more than 400 places worldwide. The ceremony brings together more Aggies and friends of Aggies on one occasion than any other at any other university in the world. Students coordinate the
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Campus Muster that is held for students, faculty and Former Students of the Brazos Valley. Each year Muster is dedicated to the 50-year reunion class. The Campus Muster involves a day of activities for students of past and present. Former Students enjoy a special program including personalized tours of the campus. At noon, all Aggies converge at the Academic Plaza to enjoy food, friendship and entertainment with a barbecue, reminiscent of the early years at Texas A&M. The day closes with the “Roll Call for the Absent” ceremony, when over thirteen thousand people come together to honor and remember those who are no longer with us. Following the Singing Cadets, Aggie Band and Muster speaker, lights are dimmed and the roll call is called for Aggies who are no longer with us. As each name is called, a candle is lit and a friend or family member answers “here” to remind us all that each Aggie, though no longer present in body, will always remain with us in spirit.
Corps of Cadets The tradition of the Texas A&M University Corps of Cadets, a student military organization, is as old as the university itself. Originally established as an all male military college, Texas A&M remained a primarily all male military institution with mandatory membership in the Cadet Corps until 1965, when Corps membership became voluntary. The Corps brings young women and men from all walks of life into the ultimate Aggie experience. The military inspired cadet program provides students a structured lifestyle where academic excellence is emphasized, balanced with a university life rich in extra- curricular and leadership opportunities available only to Corps members. Through the Corps experience, cadets learn master management and organizational skills and build their leadership capability. Many cadets graduate with an Academic Certificate in Leadership Studies along with their selected degree and begin careers in business, nonprofit or government. However, approximately 40 percent become commissioned officers and join one of the Military services upon graduation. Texas A&M has consistently produced more military officers than any other institution in the nation, except for the service academies. More than 225 of its graduates have become generals or admirals. The Cadet Corps at Texas A&M sent over 20,229 former cadets into World War II, 14,123 of them as commissioned officers, more than the combined totals of both military academies. The Corp includes members of the world famous Texas A&M University Aggie Band.
The Big Event In 1982 Joe Nussbaum, then Vice President of the Student Government Association at Texas A&M University, started The Big Event as a means for students to show their gratitude by completing various tasks at area residents’ homes. The Big Event provides the students of Texas A&M University with the opportunity to say "Thank You" to the community of Bryan/College Station for their continued support throughout the years. This past year, over 17,500 students
Molecular and Environmental Plant Sciences 15 MEPS academic program review 2014 volunteered to complete almost 1,650 jobs, performing tasks that range from painting, to yard work, and to cleaning. Already the largest one- day, student-run service project in the nation, The Big Event has expanded to 95 other schools across the nation and now to international schools in Spain, Australia, Germany & Italy. The Big Event Committee is responsible for planning and organizing all events surrounding this day, allowing students to work with residents in their community.
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2.4 Graduate Interdisciplinary Degree Programs At Texas A&M University, graduate degrees are awarded by traditional discipline-based academic departments, as well as by graduate interdisciplinary faculties. Graduate interdisciplinary faculties are relatively new to Texas A&M University with the earliest such faculty being officially recognized only in 1989. The formation of interdisciplinary faculties is primarily a faculty-driven process, created when faculty members and researchers from diverse academic departments who have overlapping programmatic interests come together to capitalize on their collective strengths. According to the University rules, an Interdisciplinary Degree Program (IDP) involves a group of faculty from more than one discipline representing single or multiple colleges, organized and administered for the purpose of enhancing research and scholarly activities and overseeing graduate education for a degree program not offered in any existing academic unit. Approval of interdisciplinary degrees themselves is granted through the Texas Higher Education Coordinating Board (THECB). Oversight of IDPs falls under the responsibility of the Council of Participating Deans, which consists of the deans of the colleges having faculty participating in the IDP, together with the Dean of Faculties and Associate Provost and Provost for Graduate Studies. Faculty participation in an IDP may be incorporated into promotion, tenure, and merit raise decisions based upon recommendations of the IDP. In addition, graduate degrees granted by IDPs are also subject to external review as part of the University’s commitment to academic excellence. Currently, there are 12 Interdisciplinary Degree Programs at the university level that are approved by the Texas Higher Education Coordinating Board. The newest Ecology and Evolutionary Biology was approved by the Texas A&M University Board of Regents in February 2014. These are:
Interdisciplinary Degree Programs Masters Doctorate Agribusiness MAB Biotechnology MBIOT Ecology and Evolutionary Biology Ph.D. Engineering Systems Management MS (Online) Food Science and Technology MS Ph.D. Genetics MS Ph.D. Materials Science and Engineering MS, ME Ph.D. Molecular and Environmental Plant Sciences MS Ph.D. Neuroscience MS Ph.D. Nutrition MS Ph.D. Toxicology MS Ph.D. Water Management and Hydrological Science MS, MWM Ph.D.
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3. MEPS PROGRAM STRUCTURE 3.1 Program History Formation of the Department of Plant Sciences. In the early 1960’s, the College of Agriculture consolidated several departments; one of the “weddings” consisted of the Department of Plant Physiology and Pathology joining the Department of Genetics to form the Department of Plant Sciences under David Rosberg as Head. During the thirty-year period from 1950 and 1980, the University (renamed in the mid 1960’s) experienced tremendous growth, and the Department’s faculty grew in number (total of 28 including 9 plant physiologists) and moved into a new building, the first “academic” building on campus to be fully air-conditioned. For a depiction of the history and evolution of the MEPS program see Figure 3.
Dept. of Plant Physiology Dept of Genetics and Pathology
Dept. of Plant Sciences (1960s)
Dept of Plant Pathology and Plant Physiologist Geneticist Microbiology (1983)
Dept. of Dept. of Dept. of Dept. of Soil and Biochemistry & Forestry Horticulture Crop Sciences Biophysics Dept. of Ecosystems Dept. of Range Science Management Management
Dept. of Atmospheric Dept. of Biological & Sciences Agricultural Engineering
1984-IDP of Plant Physiology 1989- IDP of Plant Physiology and Biotechnology 1999-IDP of Molecular and Environmental Sciences
Figure 3. History of Plant Physiology and Evolution of the MEPS program at Texas A&M.
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About 1980, the plant pathologists became dissatisfied with the multiple-discipline department and felt they could develop their discipline more fully in a separate department. After a period of study and debate, the Dean of the College of Agriculture converted the existing unit into a Department of Plant Pathology and Microbiology in 1983. Plant physiologists and geneticists were assigned to departments in the College complementary to their personal research interests and in keeping with their preferences. All of the plant physiologists were reassigned; the distribution was: Biochemistry (3), Forest Science (1), Horticulture (1) and Soil and Crop Science (4).
Formation of the Faculty of Plant Physiology. It was apparent to Dean of Agriculture H.O. Kunkel that the reassignment of plant physiologists along lines of research interests would not allow coordination of teaching activities nor support discipline identity. In early 1983, he appointed a Steering Committee to form an interdepartmental and intercollegiate Faculty of Plant Physiology. Members of this committee represented all plant science related departments in the College of Agriculture, and the Department of Biology in the College of Science. Page W. Morgan served as chair. The committee prepared by-laws and a program description which was approved by the appropriate deans. The Faculty was authorized to begin operation in December of 1984. The Faculty was assigned to the Department of Soil and Crop Sciences (SCSC) for administrative purposes.
The steering committee benefited from the experience of the Faculty of Genetics, first organized in the 1960’s, because there were several geneticists in the College of Agriculture who were not in the Department of Plant Sciences. With the dissolution of the Department of Plant Sciences, the Faculty of Genetics was reorganized to include members from other colleges (Science, Medicine and Veterinary Medicine) with terminal degrees in genetics. The committee defined Plant Physiology as a “hybrid discipline using tools and techniques from a number of pure disciplines to investigate plant function and behavior”. They further held that “approaches of the discipline range from molecular to whole plant.” Thus a terminal degree in plant physiology was not required for membership, and members were accepted who were studying plant function and behavior, regardless of their primary discipline identification. On this basis, 40 charter members were accepted from 8 departments in 3 colleges (Agriculture, Engineering and Science).
The primary mission of the Faculty was to coordinate teaching, administer the M.S. and Ph.D. degree programs and to advance the discipline. Most of the charter members did not identify plant physiology as their primary discipline and had not previously been able to direct students to degrees in Plant Physiology. Access to the Plant Physiology degree program was a significant advantage for some members as well as those Department of Plant Science faculty members being transferred. Many students had no preference as to whether their degrees were in Biochemistry, Biology or Plant Physiology, so there was less of a tendency to use the Plant Physiology degrees by members of the Faculty housed in the Departments of Biochemistry and Biology. There was no change in course offerings as a result of the formation of the Faculty. There was no specific research function specified for the Faculty.
An initial application for university approval was lost, but subsequently the Faculty Senate granted recognition as an Intercollegiate Faculty in 1988. From its formation until 1993, the chairs in order of service were: Page Morgan, Roberta Smith, Ron Newton, Greg Cobb, Don
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Vietor and Bill Park. In 1993, due to declining interest, a change in the by-laws for direct election of the chair for a period of 4 years. Page Morgan was elected and succeeded by Wayne Jordan. In 2002, Marla Binzel became chair of MEPS. She coordinated the last MEPS academic program review in 2006. Jean Gould was chair of MEPS from 2007 to 2010, while the current chair Dirk Hays has been chair from September 2010 to present.
The first name change. In 1989, the Program Development Committee of the Faculty undertook an internal review of the program and its organization. The committee took special note of the rapid evolution of tools generated by molecular genetics and cellular biology and their incorporation into plant physiological investigations. Some faculty expressed concern that the Faculty might be incorrectly perceived as representing only “classical” plant physiology. The definition of plant physiology and qualifications for membership adapted at the formation of the Faculty in 1983 insured that the discipline would not be static and that had not been the case. Nevertheless, to insure that an incorrect perception was not conveyed internally or externally, the name of the group was change in April of 1991 to the Faculty of Plant Physiology and Plant Biotechnology (FPPB). This change applied to the name of the Faculty only, not the degree.
A second name change. The Faculty underwent an external doctoral review, initiated by then Vice President of Research and Associate Provost Robert Kennedy in 1998. Included in the recommendations of that external review team (Appendix A) for an overhaul of the plant science graduate program was that the FPPB consider changing the name of the faculty and the degree to become more inclusive of the diversity of plant scientists at TAMU. Following extensive discussion and debate, a vote was held and the name “Faculty of Molecular and Environmental Plant Sciences (MEPS)” was chosen. This change was extended to include a change in the name of the degrees granted by the faculty as well.
The new name of the Faculty received internal approval of the Faculty Senate in the Fall of 1999. The Texas Higher Education Coordinating Board approved a request to change the name of M.S. and Ph.D. degrees from Plant Physiology to Molecular and Environmental Plant Sciences effective September 1, 2000.
Prospective members are nominated by MEPS faculty through their respective department heads, voted to membership by full MEPS members, and approved by the appropriate dean. The MEPS Faculty comprises 54 full and 7 associate members. Associate members, researchers and adjunct faculty, have all the rights and privileges of full members except they may not vote nor hold elected office. As of August 1, 2013, there are 32 graduate students enrolled in MEPS M.S. and Ph.D. degree programs. Three Ph.D.s graduated from the program in academic year 2011-2012
Institute of Plant Genomics and Biotechnology. In 1988, Charles Arntzen came to TAMU as Vice Chancellor of Agriculture, coalescing the roles of Dean of the College of Agriculture (which was renamed College of Agriculture and Life Sciences under his term), and Director of TAES and Texas Agricultural Extension Service (TAES, since renamed Texas Cooperative Extension). He conferred with many individuals about the needs of various programs, one of which was the broad area of plant sciences. One early result of these discussions was the conclusion that more molecular/ biotechnological research was needed in the College of Agriculture and that there was a deficiency of facilities for transgenic/recombinant DNA work.
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Dean Arntzen appointed a committee to develop a program of requirements for a $7.5 million facility to support molecular research on the plants in the College of Agriculture. The committee was chaired by Page Morgan and had members from Biochemistry, Entomology, Forest Science, Horticulture, Plant Pathology and Soil and Crop Sciences, as well as an additional representative of the plant breeders in TAES. This committee met with Dean Arntzen and then visited relatively new laboratory/growth chamber/greenhouse containment facilities at Monsanto and Washington University in St. Louis. Roger Beachy visited the College of Agriculture and Life Sciences as a consultant and made recommendations. The committee then developed an operational plan for the facility that would: (a) support plant/crop improvement facilities, (b) take advantage of institutional strengths in plant breeding, plant physiology/ biochemistry and pest management disciplines, (c) foster interdisciplinary collaboration of molecular biologists with workers in other areas, especially plant breeding, and (d) provide a working environment to foster interaction. The plan specifically viewed the facilities as one in which a molecular oriented researcher from each of the listed departments would be assigned laboratories. The Department of Biology and the USDA were added as partners to the plan during development. Service laboratories, plant growth chambers and containment-rated greenhouses were part of the facility. Several elements in the plan fostered collaboration: (1) lab leaders remained members of their home departments for tenure and promotions and (2) facilities (tissue culture, DNA sequencing, plant growing spaces, etc.) in the building were to be made available to plant scientists campus- wide. While the facility was under construction, John Mullet was selected as Director. Mullet, TAES Associate Director Robert Merrifield and Page Morgan submitted a USDA facilitates grant which was funded for $7 million. Those funds were allocated in the proposal to: (1) purchase of plant growth chambers, (2) construction of a headhouse/greenhouse to increase plant culture space, and (3) construction of additional lab space. In the latter category is a plant science training laboratory which houses laboratory courses taught as part of the MEPS program, as well as non-credit training courses. The facility was initially named the Southern Crop Improvement Facility (SCIF) and became the Borlaug Center for Southern Crop Improvement when the building was dedicated to Norman Borlaug in 1999. The programmatic title of the research unit was the Crop Biotechnology Center until 2001, when the Board of Regents approved the restructuring of the Center into the Institute of Plant Genomics and Biotechnology (IPGB).
The facility contains laboratory space for 8 current faculty, 8 small multi-user temperature controlled greenhouses, 4 large multi-user temperature controlled greenhouses, and 22 plant growth chambers. Membership in the Institute extends broadly beyond those housed in the Borlaug Institute. That said, this original model of the Borlaug Institute as a community wide collaborative facility has deteriorated very significantly in the past few years, and is now managed as a facility primarily restricted for the use of faculty housed in the facility. Many members of the IPGB are also members of MEPS. As a result of the formation of the Institute, scientists trained in the techniques of plant molecular biology have been added to faculties in the departments of Biology, Entomology, Forest Science, Horticulture, Plant Pathology and Soil and Crop Sciences.
Originally the IPGB was established to foster interdisciplinary collaboration across the plant science community at TAMU. It represents an informal, intercollegiate, interagency research organization, much as the MEPS IDP represents a relatively informal intercollegiate teaching
Molecular and Environmental Plant Sciences 21 MEPS academic program review 2014 and graduate training organization. Again, this original model of the IPGB has changed under its current direction.
3.2 Program Description The Faculty of Molecular and Environmental Plant Sciences (MEPS) currently has 54 members in the Colleges of Agriculture and Life Sciences, Geosciences, and Science and from three state agencies Texas A&M University Agrilife Research, AgriLife Extension, Engineering Experiment Station and the Texas Forest Service. The MEPS program is financially administered through the Department of Soil and Crop Sciences and home departments in terms of individual student funding. Degree programs are available leading to MS and PhD degree in molecular and environmental plant sciences. Program requirements are determined and supervised by MEPS faculty. Degree programs are prepared on an individual basis by the graduate students in consultation with their advisory committee. Students hold appointments, for administrative purposes, in the department of their major professors.
MEPS Program Participating Colleges and Departments: College of Agriculture and Life Sciences Biological and Agricultural Engineering Ecosystem Science and Management Entomology Horticultural Sciences Plant Pathology and Microbiology Soil and Crop Sciences College of Geosciences Atmospheric Sciences College of Science Biology
3.3 University Administration of MEPS Program Interdisciplinary graduate programs, unlike conventional department-based programs, are a hybrid and rely on academic departments for administrative support staff, accounting, office space, and computer facilities. The level of support varies depending on the program and the department providing support. The current University administrative structure for managing IDPs, including the MEPS Program, requires that each IDP have a home dean who then reports to the Provost (Figure 4). The IDPs also report to the Dean of Faculties and Associate Provost for major policy issues. The MEPS Program is assigned to the College of Agriculture and Life Sciences whose dean has overall responsibility of the program. Since its inception the MEPS program has been “housed” in the Department of Soil and Crop Sciences. The “home” department provides office space, part-time administrative support, and accounting functions.
3.4 Administrative Structure of MEPS Program 3.4.1 Executive Committee and Chair The MEPS program is administered through a four member elected Executive Committee and an elected Chair. The executive committee members serve 2-year terms. The committee establishes the long term planning for MEPS, and approves the MEPS curriculum, nominates updates and assigns course responsibilities, completes yearly program reviews through the Texas A&M
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University online Weave system, and approves budget allocations. The current faculty serving as MEPS chair and on the Executive, Admissions, Symposium and Nomination Committees are listed in Table 1.
MEPS Chair The Chair of MEPS administers yearly academic reviews through the WEAVE online system, through the Program Coordinator administers program funds and approves spending, attends Graduate Program Council meetings, represents the MEPS program at Office of Graduate and Professional Studies (OGAPS) meetings, acts as the official advisor to graduate students, approves degree plans, defense exams, proposals, and dissertation and thesis degrees. The chair crafts graduate admission offer letters, nominates students for graduate fellowships through the MEPS program, and officially admits students into the program that have been selected by the Admissions Committee.
3.4.2 Program Coordinator Mrs. LeAnn Hague was hired in 2012 as the Program Coordinator. She serves and assists the MEPS chair and the Executive and Admissions Committee members. She manages day-to-day activities of the program, including, but not limited to advising graduate students, responding to inquiries, responding to emails from faculty and other Texas A&M personnel, drafting memos, letters, and other correspondence, and arranging seminars. She is also responsible for compiling and disseminating graduate applications for review by the faculty, correspondence with applicants, handling general graduate program inquiries, and compiling data for required reports. The Program Coordinator position is tremendously important to the success of the MEPS program and we are very fortunate that Ms. Hague has provided outstanding service to the students, faculty and program.
3.4.3 Admissions Committee The admissions committee yearly nominates students from MEPS graduate applicants for admission as MS or PhD students. The committee is comprised of 4 to 6 elected members with no more than 2 members representing one department. The committee primarily nominates graduate students for two or three 9-month rotational MEPS assistantships from funds provided by OGAPS. Additionally the admissions committee also approves additional students nominated by individual faculty intending to support students on their grant funding.
3.4.4 Symposium Committee On a yearly basis the MEPS program sponsors and administers a MEPS Fall and Spring Symposium. The MEPS Fall Symposium provides the opportunity for new students to meet current students and faculty and for all MEPS participants to view ongoing MEPS student research (see Appendix B). The MEPS Spring Symposium focuses on plant signaling as a overall theme with yearly focuses to this theme. Plant signaling is a theme that ranges from cellular signal transduction to plant responses to biotic and abiotic environments. The Spring Symposium will include seven invited national and international speakers,a poster session for current students, and oral presentations selected from student submitted abstracts. The Spring Symposium attracts students and faculty from Texas A&M University, Universities throughout Texas and faculty from universities in Louisiana, Arkansas, and Oklahoma (See Appendix 3).
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Figure 4. Structure for Interdisciplinary Degree Programs at Texas A&M University.
3.4.5 Nomination and Awards Committee The Nomination and Awards Committee nominates new faculty for membership in the MEPS program, nominates new Executive Committee members and a Chair of the program. Additionally the committee nominates MEPS faculty for MEPS, University and society awards.
3.5 Budget Allocations and Program Expenditures Funding for the MEPS program is provided by the Provost through the Office of Graduate and Professional Studies (OGAPS). Funding for the last three years and the current year is presented in Table 3.4. MEPS funding from OGAPS is calculated on a very fair formula as follows:
$Funding = [Chair support($15,000)] + [Staff support($300*# students) + ($250*# chairs/co-chairs)] + [Graduate Enhancement (WSCH*$12)] + [Strategic Support ($300*#PhD students) + ($240*#MS students) ($500#PhDgraduated) + ($400*#MS graduated)]
*WSCH = weighted student credit hour.
Funds are used primarily for the MEPS Program Coordinator position and to support graduate students stipend, tuition and fees a fringe benefits (Table 2). In FY 2007 to present the MEPS program coordinator support was $20,000 for a half-time position. Program funds are also used
Molecular and Environmental Plant Sciences 24 MEPS academic program review 2014 to fund travel scholarships for students, and supports both the MEPS Fall and Spring Symposiums.
Table 1. Faculty of MEPS committee membership
Executive Committee Chair Dirk Hays Soil and Crop Sciences Jason West Ecosystems Sciences Management Hisashi Koiwa Horticulture Wayne Varsaw Biology Russell Jessup Soil and Crop Sciences Outgoing Committee Tom Cothren Soil and Crop Sciences Member
Seminar Chair Jason West Ecosystems Sciences Management Alan Pepper Biology Hisashi Koiwa Horticulture Scott Finlayson Soil and Crop Sciences Akihito Fukudome MEPS Student Representative Enamul Huq Institute of Cellular and Molecular Biology, University of Texas Carol Loopstra Ecosystems Sciences Management Thomas McKnight Biology Wayne Versaw Biology
Admissions Chair Clint Magill Plant Pathology Betsy Pierson Horticulture Russell Jessup Soil and Crop Sciences Xiuren Zhang Biochemistry and Biophysics Patricia Klein Horticulture Paul deFigueiredo Plant Pathology and Microbiology
Nomination and Awards Chair Michael Kolomiets Plant Pathology
The chair support is fixed at $15,000 per IDP. The support for the staff and other budget items, which is calculated based number of MEPS PhD and MS student is shown in Table 2 and 3. Graduate enhancement and staff support funds are based on weight student credit hours (WSCH) basis which is a factor of the number of students in both MEPS undergraduate and graduate courses (Table 2 and Table 3). Funding in Table 3 is calculated on a funding by department basis. As is evident, at present, faculty in the Department of Soil and Crop Sciences and Horticulture contribute to over 80% of the funding to the MEPS program based on teaching
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MEPS courses and student training. Ecosystems Sciences Management and Biochemistry were previously strong contributors to the MEPS program (Figure 5).
Potential exists for this funding level to rise or fall based on several factors. Factors that have and may continue to contribute to funding decline include: i. loss of critical faculty to other institutions who recruited students to MEPS and contributed very significantly to MEPS student training and teaching (in SCSC Wayne Jordan, Jeffery Chen, Scott Senseman, and Don Vietor; in ESSM Mark Tjoelker, Jean Gould, Kostya Krutovsky, Robert Washington-Allen; in Horticulture Astrid Volder, Marla Binzel and Steve King); ii. Loss of faculty interest in recruiting students to MEPS; iii. migration of some MEPS faculty to other IDPs; iv. low funding; and v. pull by MEPS faculty from home departments to recruit new or transfer existing students into their home departments. Hopefully, this trend will be offset by recent hires who are enthusiastic supporters of MEPS, fantastic grant getters, and MEPS efforts to recruit existing faculty in MEPS with expertise in plant breeding, molecular genetics, plant based food chemistry, turf grass ecology, agriculture engineering, plant microbe interactions, and others. MEPS will continue to push these efforts, by providing a voice for the replacement of key faculty and plant science disciplinary expertise. Additionally, in some cases there is more faculty interest in recruiting graduate students through MEPS because of the high quality new graduate student applicants we attract through the application process. Additionally, it is critical that Texas A&M University College Administration Deans recognize the critical loss of expertise in key disciplines of plant sciences such as plant cell biology and tissue culture, ecological physiology, plant root biology, molecular and population genetics, and crop ecology. Without replacement of these losses Texas A&M University will lose its standing as a top ranked graduate institution for the plant sciences.
3.5.1 Funding for Current Graduate Students The majority of MEPS’ allocation is used for graduate student support. Graduate student support includes research assistantships, scholarships, tuition, and fee payments. These assistantships occur as 9-month rotational fellowships. On a yearly basis 2-3 students are recruited into MEPS rotational fellowships. Where possible, scholarships through MEPS are offered to help recruitment. The MEPS Program Coordinator, the MEPS Chair and MEPS faculty have actively nominated 2-3 graduate applicants for Texas A&M University OGAPS or College of Agriculture competitive fellowships such as the Merit or Diversity Fellowships while also actively recruiting students with Fulbright Fellowships and other national and international fellowships. These fellowships offer full or partial stipend support for 1-3 years plus coverage of tuition and fees for the years funded by the OGAPS Fellowship. These efforts have resulted in MEPS obtaining an extra $1,174,290 in student fellowship support since 2007. This has added to student numbers and allowed for the recruitment 1-5 additional students per year in addition to the 2-3 per year MEPS rotational fellowships (Table 4). We expect these efforts to continue and increase. MEPS also submitted an IGERT proposal in 2010 focused on coalescing a graduate degree program focused on crop, urban and ecological remote sensing. We will proceed forward with this vision.
In addition, a number of graduate students are recruited and supported by MEPS faculty through their research budgets, and this support is not included in the table. Our doctoral students are primarily supported from research funds provided by the chair of their advisory committee. All of our doctoral students receive support. Current sources of MEPS student funding are listed in
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Table 4.
Table 2. MEPS Program Budget 2010 2011 2012 2013 2014 Budget Budget Budget Budget Budget Source COALS $43,000 $43,000 College of Science $3,000 $3,000 Regents $13,000 $13,720 Provosts Office $24,000 $24,000 $75,000 $71,234 $73,458 Total Income $83,000 $83,720 $75,000 $71,234 $73,458 Balance Fwd $5,800 $2,233 $5,090 Total Spendable $83,000 $83,720 $80,800 $73,467 $78,548 Funding for Chair -$4,150
Expense
Grad Student Support Stipends/Fellowships/ Rotation Fellowships $45,000 $45,000 $45,090 $40,000 $30,000 Fringe & Ins $6,302 $4,200 $4,200 Fall Symp Awards $600 $600 $300 $300 $300 Tuition & Fees pad $1,000 $1,000 $8,700 $5,600 $8,400 Travel Scholarships $4,000 $4,000 $4,000 $4,000 Prosp Student Trav $1,000 $1,000 $1,000
Fall Symposium $500 $500 $100 $100 $100 Luncheons $500 $500 $50 $50 Spring Symposium $7,000 $7,000 $1,500 $4,500 Phone Bill $500 $500 $120 MEPS Review $1,000 Chair Incentive $6,000 $5,000 MEPS Staff $20,000 $20,000 $20,000 $20,000 $20,000 TOTAL BUDGET $80,100 $86,100 $80,662 $75,750 $78,500
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Table 3. OGAPS formula funding contributed to MEPS per department FY 2013-2014.
Formula Funding Source of Support
Staff Support/ Graduate Chair Department Graduate Total Enhancement Support (Training)
Biochemistry $1,100 $2,747 $3,847 Biology $550 $558 $1,108 Entomology $550 $3,345 $3,895 Ecosystems Science Management $1,100 $929 $2,029 Horticulture $3,350 $11,764 $15,114 Plant Pathology and Microbiology $1,100 $5,389 $6,489 Soil and Crop Sciences $5,550 $20,426 $15,000 $40,976 Total $13,300 $45,158 $15,000 $73,458
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45000
40000 BCBP 35000 BIOL 30000 ENTO ESSM 25000 HORT 20000 SCSC PLPM Funding ($) Funding 15000
10000
5000
0
Figure 5. Weighted student credit hour funding contributed to MEPS by department.
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Table 4. 2013-2014 MEPS Student Funding
Name Degree Dept Advisor Funding Sources Aksoy, Emre PHD HORT Koiwa NSF Grant Saudi Arabia Alsolami, Wail Faris MS SCSC Hays Fellowship Texas A&M AgriLife Bruton, Richard PHD SCSC Hays Cropping Systems CONACYT Fellow, Camarillo, Fatima PHD SCSC Hays Mexico Casto, Anna PHD SCSC Rotating MEPS Fellowship China Scholar Chen, Yuanyuan PHD SCSC Murray Council Monsanto Beachell Borlaug International Chick, Chris PHD SCSC Hays Scholar Texas A&M AgriLife Delgado, Alfredo MS SCSC Hays Cropping Systems Monsanto Beachell Elsayed,Ahmed Borlaug International Abdelfattah PHD SCSC Hays Scholar TAMU Diversity Finley, Cameron PHD PLPA/HORT Kolomiets/Pierson Fellowship JASSO Fellowship, Fukodome, Akihito PHD HORT Koiwa Japan Ge, Chunxiao PHD BICH Xiuren Zhang NSF Grant China Scholar Gu, Xiangkun PHD SCSC Hays Council Holalu, Srinidhi PHD SCSC Finlayson NSF Grant Huggins, Trevis PHD SCSC Hays Bayer Crop Sciences Ibanez, Facundo PHD HORT Lombardini Fulbright Islam, MD Habibul PHD ESSM Krutovsky/Faridi USDA Grant Koehn, Desiree MS HORT King/Koiwa RA Horticulture Kumar, Krishna PHD BIOL Griffing TA Biology Lei, Jiaxin PHD ENTO Salzman USDA Grant Li, Xiao PHD PLPA Yuan US DOE Li, Yalin MS SCSC Hays Self Funded Lu, Mengmeng PHD ESSM Loopstra/Krutovsky USDA Grant Mahnaz Kiani Fariz PHD HORT Klein Masor, Laura Lee PHD SCSC Hays USDA Grant Pacheco, Arlene PHD SCSC Hays Bayer Crop Sciences Patil, Nikhil PHD HORT Klein CONACYT Fellow, Sanchez, Manuel PHD SCSC Wherley/Jessup Mexico Syrenne, Ryan PHD PLPA Yuan US DOE
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Xu, Guangyuan PHD BCBP He NSF Grant Xuan, Lin PHD SCSC Rotating MEPS Fellowship Zarghami, Homa PHD SCSC Hays USDA Grant
4. THE MEPS GRADUATE PROGRAM 4.1 Admission Requirements and Procedures Admission to the MEPS program requires meeting all the Texas A&M University requirements and approval by the MEPS admissions committee. Grades earned during the applicant's entire college career are considered, and a satisfactory grade point average is required. All basic applications are filed electronically and transcripts and letters of reference are submitted to the Texas A&M Office of Admissions. TAMU requires all applicants to submit a satisfactory General Record Exam score taken within the previous five years. The standard portions of the exam are required. To allow sufficient time for Texas A&M to receive scores, applicants should take the GRE by May to apply for fall admission and June for spring admission. TAMU requires a satisfactory Test of English as a Foreign Language (TOEFL) score from within the last two years from applicants whose native language is not English. Exception is made for those applicants completing all four years of a baccalaureate degree in the United States or achieving a GRE Verbal score of 400 (old format) or 146 in the new scoring format
4.2 The Curriculum General requirements for graduate degrees are established by the University and address such issues as residency, credit hours required, limitations to use of transfer work and undergraduate credits, etc. The Chair of the MEPS program will advise entering students until they choose a permanent advisor. First year students recruited as rotational fellows through MEPS funds will normally undertake two or three laboratory rotations with MEPS faculty pursuing research in the student's area of interest. A permanent advisor is chosen by the end of the first year. A formal degree program (list of academic courses) is then developed jointly by the student, advisor and members of his/her advisory committee. This approach provides flexibility to customize student education and training rather than provide a one-size-fits-all education. Policies and requirements specific to graduate degrees in Molecular and Environmental Plant Sciences are as follows:
4.2.1 Master of Science Requirements for the M.S. Degree Students must complete at least 32 credit hours including the following: At least 14 hours from graduate (600 level) MEPS or related courses from other- departments including at least 2 courses from the MEPS core curriculum shown below. The exact courses are to be determined jointly by the student and his/her advisory committee (see section 4.2.4). Statistics 651 or equivalent. Not more than 6 hours of courses at the 400 level may be counted toward the 32-hour requirement. One seminar course (1 hour) MEPS 681 Graduate Orientation One seminar course (1 hour) MEPS 681 or equivalent in the student's home department where the student presents a seminar. Not more than 8 hours of MEPS 691 (Research). TA one course for a minimum of one semester is strongly encouraged.
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Completion of a final examination and a thesis.
Check List for Master of Science Degree 1. Meet with departmental Graduate Advisor, before first semester registration. 2. Establish Advisory Committee by the end of student’s second long semester. 3. Submit a degree plan to OGAPS prior to the start of the student’s third long semester and no later than 90 days prior to final oral or thesis defense. 4. Submit thesis proposal, before the end of the student’s third long semester. Must have approval of Advisory Committee, Departmental Graduate Advisor and Office of Graduate and Professional Studies (OGAPS). 5. Apply for degree, pay graduation fees during the first week of student’s final semester. 6. Confirm with Advisory Committee that all degree plan courses are complete, submit thesis to Advisory Committee, before submitting request to schedule final exam. International students should confirm with their committee chair that all English Language Requirements have been completed. 7. Complete residence requirement, if applicable. 8. Submit request for permission to schedule final exam. Must be received by OGAPS at least 10 working days prior to the exam. Additional time requirements are on the OGAPS calendar for deadlines. NOTE: Results are to be submitted to OGAPS within 10 working days of the exam. Get approval from Advisory Committee and departmental Graduate Ad- visor. 9. Upload one approved final copy of the thesis as a single .PDF file (thesis.tamu.edu) and submit a signed approval page to the Thesis Office (Evans Library, 845-2225). See OGAPS calendar for each semester’s deadlines and get approval from Advisory Committee and departmental Graduate Advisor. 10. If required, submit Research Focus and Benefits form. (See Thesis Manual for format: http://thesis.tamu.edu/thesis-manual.) See OGAPS calendar for each semester’s deadlines and get approval from Advisory Committee and departmental Graduate Advisor. 11. NOTE: Students must be continuously registered until all degree requirements are met.
4.2.2 Doctoral Degree Requirements for the Ph.D. Degree Complete at least 96 credit hours beyond the B.S. degree or 64 hours beyond the M.S. degree to include the following: A minimum of 20 hours in MEPS courses or related departmental courses including at least 3 courses from the MEPS core curriculum shown below. The exact courses for the degree program are to be determined jointly by the student and his/her advisory committee (see section 4.2.4). Not more than 6 hours of undergraduate level (400) courses may be applied to the degree program (more may be needed as leveling or prerequisites, but only 6 hours may be used to meet the credit hour requirements for the degree. Students should take Biochemistry 601 if they lack an adequate background in biochemistry and Genetics 603 if they lack an adequate background in genetics. Students lacking a rigorous, contemporary background in plant physiology should take MEPS 601.
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Statistics 651 or 652 or equivalent. One seminar course (1 hour) MEPS 681 Graduate Orientation Second seminar course (1 hour each) a departmental course in which students are required to present a seminar. Additional hours of 685 (Directed Studies), 689 (Special Topics) and 691 (Research) courses to meet the credit hour requirements for the degree. TA one course for a minimum of one semester is strongly encouraged. Satisfactory completion of a qualifying examination, final examination and a dissertation.
Check List for Doctor of Philosophy Degree 1. Meet with departmental Graduate Advisor before first semester registration and get approval. 2. Establish advisory committee by the end of student’s second long semester. 3. Submit degree plan prior to the start of the student’s third long semester and no later than 90 days prior to preliminary examination. Get approval from Advisory Committee, depart- mental Graduate Advisor and the Office of Graduate and Professional Studies (OGAPS). 4. Complete English proficiency requirements, if applicable, before preliminary exams. 5. Review eligibility requirements for the preliminary exams several weeks before the pro- posed date. Have checklist signed by Advisory Committee chair, departmental Graduate Advisor. Submit list with preliminary exam scores. 6. Prior to the end of their third long semester and several weeks before they anticipate taking their prelims, students should review the eligibility requirements for the preliminary exam. Students should obtain the preliminary exam checklist form from the OGAPS homepage (ogs.tamu.edu). This checklist must be approved by the student’s advisory committee chair and departmental Graduate Advisor. This checklist must be attached to the “report of exam results” and forwarded to OGAPS after completion of the preliminary exams. 7. Complete the dissertation proposal by the end of the third or fourth long semester so that it can be used as a guide and contract for the student and advisor. 8. Determine dates of prelim exams, notify OGAPS, and announce schedule to committee, and MEPS at least 10 working days prior to the beginning of the preliminary exam. The time frame from the first written exam until the oral exam should be no greater than three weeks. Additional time requirements and deadlines are posted on the OGAPS calendar or in the graduate catalog. 9. Complete prelim exams prior to the end of the student’s fifth long semester, and submit the Report of the Preliminary Examination and the Preliminary Examination checklist to OG- APS within 10 working days of completing the prelim oral exam. All prelim exams, including the oral prelim, MUST be completed at least 14 weeks prior to the student’s dissertation defense. 10. OGAPS will notify the student and chair of any discrepancies/problems with the exams. 11. Complete residence requirement before submitting request to schedule Final Exam. 12. Apply for degree, pay graduation fees during the first week of the final semester. 13. If required, submit Research Focus and Benefits form. 11. Confirm with advisory committee that all degree plan courses are complete, submit dissertation to advisory committee well before submitting request to schedule final exam. 12. Submit request for permission to hold and announce final oral exam at least 10 working
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days prior to the exam. 13. Upload one approved final copy of the dissertation as a single .PDF file (thesis.tamu.edu) and submit a signed approval page to the Thesis Office (979-845-2225). Students should check the OGAPS calendar for semester deadlines relative to submission and graduation. The dissertation must be approved by the advisory committee, co-chair if applicable, and departmental Graduate Advisor. 14. Note: Students must be continuously registered until all degree requirements are met.
4.2.3 Degree Plan The Degree Plan establishes all course work required for the graduate degree and also establishes the Graduate Advisor and Advisory Committee. It will list the courses that a student must complete for their degree. In addition, prerequisite courses that the student’s Advisory Commit- tee recommends are necessary to fill in gaps in the student’s previous training or education may be listed. Degree Plans are submitted electronically http://ogsdpss.tamu.edu. Degree plans must be completed and filed with OGS prior to registration for a third term for Master candidates and fourth term for Doctoral candidates (excluding summer terms) and no later than 90 days prior to the date of the final oral examination or thesis defense for Masters candidates or preliminary exam for Doctoral Candidates.
4.2.4 Advisory Committee Entering students will be assigned a temporary academic advisor to guide them in course selection and assist with other administrative requirements until a permanent faculty advisor is selected (usually after 1 or 2 semesters). The Chair of MEPS acts as the student’s academic advisor until a permanent advisor is chosen. The permanent advisor then becomes the Chair of the Advisory Committee (e.g., major professor). In addition, the Advisory Committee will include: A minimum of three (for MS degree) or four (for Ph.D. degree) members of the Graduate Faculty with one member outside of the home department of the student and Chair. The Chair and at least one other member must also be members of MEPS.
4.2.5 Designated MEPS Courses Core Curriculum MEPS 601 Plant Physiology MEPS 605 Plant Biochemistry BIOL 635 Plant Molecular Biology ESSM 621 Physiological Plant Ecology (formerly RELM 607)
Molecular and Environmental Plant Sciences Course Descriptions
MEPS 313. Introduction to Plant Physiology. Credit 3. General course dealing with principal life processes of higher plants; influence of environmental factors on these processes. Agricultural and ecological significance of life processes of plants. Prerequisites: BIOL 101; CHEM 102 or CHEM 104; CHEM 222 or CHEM 228. MEPS 601. Physiology of Plants. (3-0). Credit 3. Advanced physiology of higher plants, includes water relations, mineral metabolism, biochemistry, growth, development, hormones,
Molecular and Environmental Plant Sciences 34 MEPS academic program review 2014 environmental signals and stress physiology. Emphasis on current literature and research trends; cellular and sub-cellular mechanisms related to whole plant behavior. Prerequisites: BICH 410 and MEPS 313 or approval of instructor. MEPS 605. Plant Biochemistry. (3-0). Credit 3. Major metabolic pathways in plant metabolism; emphasis on biochemistry unique to plants. Prerequisites: BICH 410; MEPS 313. MEPS 610. Physiological and Molecular Basis for Plant Stress Response. (3-0). Credit 3. Provide the tools to understand the molecular and physiological consequences caused by environmental factors (abiotic and biotic) on plant growth and development and the mechanisms of stress adaptation to stress. Prerequisite: MEPS 313 or equivalent. Cross-listed with HORT 610. MEPS 611. Plant Nutrition. (3-0). Credit 3. Inorganic nutrition of plants; solute absorption, accumulation and translocation, growth in artificial media, physiological roles of various elements, and biophysical/molecular aspects of solute transport; genetic regulation of mineral nutrition and transport. Prerequisite: MEPS 313 or equivalent. MEPS 612. Phytohormones and Plant Growth Regulators. (3 0). Credit 3. Biosynthesis mechanisms of action and developmental roles of the classes or groups of plant hormones; uses of hormones and synthetic growth regulators in plant production. Prerequisite: MEPS 313. MEPS 618. Root Biology. (3-0). Credit 3. Basic concepts and current topics in root-soil ecology; managed and natural ecosystems including grasslands, cropping systems and forests; role of roots in the rhizosphere, the effects of soil, nutrient and water stress and climate change in C and N cycling and carbon sequestration; participate in discussions and critique recent literature. Prerequisite: Approval of instructor. Cross-listed with HORT 618. MEPS 619, Plant Associated Microorganisms (3-0). Credit 3, Basic concepts and current topics in plant-microbe interactions including the diversity of plant-associated microorganisms; the plant as a microbial environment; endophytes; microbial roles in plant nutrition and fitness. Will discuss issues related to sustainable agriculture and uses of microorganisms for improving plant health. Students will discuss and critique recent literature. Was taught previously as MEPS 689 Fall 2010, Spring 2013 and will be taught as 619 Spring 2015. Cross-listed with HORT 619 and PLPA 619. MEPS 620. Plant Cell Structure and Function. (3-0). Credit 3. Overview of plant cell organization, function and physiology to incorporate whole-plant processes with sub-cellular, molecular and genetic mechanisms; origin of eukaryotic cells, nuclear organization and processes, cell cycle, organelle biogenesis and inheritance, photosynthesis, endomembrane system, cell trafficking, symplast, cytoskeleton, extracellular matrix, cell wall, disease, plant microbe interaction, development and differentiation. Prerequisites: MEPS 313 or equivalent, graduate classification, or permission of the instructor. ESSM 621. Physiological Plant Ecology. (3-0). Credit 3. Investigation of physiological mechanisms influencing ecological patterns and processes, including plant acclimation and adaptation in contrasting habitats, abiotic controls on species productivity and distribution, relevant conceptual and experimental approaches, and integration among ecological scales. Prerequisites: RENR 205 or MEPS 313 or equivalent; graduate classification. MEPS 630. Post-Harvest Biology, Physiology and Genetics of Plants. (3-0). Credit 3. Overview of biological, physiological and genetic mechanisms which impart phenotypes associated with quality and value of plant products; current emphasis in areas of ripening, senescence, fruit and flower development, and relevant applications of biotechnology will be focus of course. Prerequisite: Approval of instructor. Cross-listed with HORT 630.
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BIOL 635. Plant Molecular Biology. (3-0). Credit 3. Molecular aspects of plant growth, development, reproduction and evolution, emphasizing the structure, function, regulation, interaction and manipulation of plant genes; practical applications of plant molecular biology. MEPS 650. Plant Cell Culture for Crop Improvement. (3-1). Credit 3. Focus on techniques in plant cell culture which can be applied to all crop plants, including agronomic crops, horticulture and forestry crops for germplasm improvement. Prerequisites: MEPS 313; CHEM 101; graduate classification. MEPS 654. Analysis of Complex Genomes. (3-0). Credit 3. History and current status of genetic and molecular analysis of higher eukaryotic genomes; coverage of techniques for dissection of genomes into manage- able parts; investigations in genetics, breeding and evolution; emphasis on quantitative inheritance, genetic mapping, physical mapping, map-based cloning, with examples drawn from a wide range of organisms. Prerequisite: GENE 603. Cross- listed with GENE 654 and SCSC 654. MEPS 655. Analysis of Complex Genomes Lab. (0-7). Credit 3. Laboratory methods in molecular genetic techniques for genetic mapping, physical mapping, and map-based cloning of both qualitative and quantitative phenotypes. Prerequisite: GENE 603 or equivalent or approval of instructor. Cross-listed with SCSC 655 and GENE 655. MEPS 671. Plant Growth and Development. (3-0). Credit 3. Comprehensive analysis of plant development primarily focused on the molecular and cellular processes underlying morphogenesis, vegetative growth and reproduction; role of the major phytohormones as coordinators of development will be analyzed; plastic development responses to conditioning environmental signals. Prerequisites: MEPS 601 or approval of instructor. Cross-listed with SCSC 671. MEPS 673. Environmental Mechanisms of Plant Growth. (4-0). Credit 1. Analysis of physical and molecular mechanisms of whole plant responses to environment. Prerequisites: MEPS 313 and BICH 410 or con- current registration or approval of instructor. (Four weeks) MEPS 676. Solute Transport and Utilization in Plants. (4-0). Credit 1. Analysis of inorganic nutrient uptake, long distance transportation and genetic control of nutrient acquisition. Prerequisites: MEPS 313 and BICH 410 (or concurrent registration) or approval of instructor. (Four weeks) MEPS 677. Plant Growth and Development. (4-0). Credit 1. Analysis of mechanisms of hormone action during vegetative and reproductive development, gene expression during development, photomorphogenesis and photoperiodism, dormancy and tropisms. Prerequisites: MEPS 313 and BICH 410 or concurrent registration or approval of instructor. (Four weeks) MEPS 681. Seminar. Credit 1 each semester. Professional development for students pursuing careers in plant physiology; oral and poster presentations, writing skills, grantsmanship, job search and the promotion and tenure process. MEPS 685. Directed Studies. Credit 1 to 4 each semester. Individual problems or research not pertaining to thesis or dissertation. Prerequisite: MEPS 313. MEPS 689. Special Topics in... Credit 1 to 4. Selected topics in an identified area of plant physiology. May be repeated for credit. Prerequisite: Approval of instructor. Root Biology ,Credit 3. Plant Cell Biology, Credit 3. Plant Hormone Analysis, Credit 3. Plant Stress Response, Credit 4 Plant-Associated Microorganisms, Credit 3
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MEPS 691. Research. Credit 1 or more each semester. Original investigations in support of thesis or dissertation.
There are a large number of courses offered on campus that satisfy the 14 (M.S.) or 20 (Ph.D.) hours in “MEPS courses or related departmental courses” besides those offered by MEPS or on the list of core courses. Some of the courses used or potentially used are listed below.
ANSC 689-602 Data Programming for Biologists BICH 628 Computational Biology BICH 635 Nuclei acid-protein interactions BICH General Biochemistry I BIOL 602 Fundamentals of TEM in Biology BIOL 651 Bioinformatics BIOL 672 Mol. Biology of Photosynthesis and Light Signal Transduction BIOL/BICH 650 Genomics ESSM 601 Forest Ecosystems and Global Change ESSM 609 Plant and Range Ecology ESSM 622 Nutrient Cycling ESSM 634 Plant Functional Ecology ESSM 635 Forest Biotechnology GENE 603 Genetics GENE 606 Quantitative Phylogenetics GENE 612 Population Genetics GENE 631 Biochemical Genetics GENE 689-601 DNA Microarray Analysis GENE/ANSC626 Analyses of Gene Expression GENE/BICH 431 Molecular Genetics GENE/SCSC 643 Quantitative Genetics and Plant Breeding PLPA 617 Molecular Plant Pathogen Interactions SCSC 603 Cytological and Histological Principles in Plant Breeding SCSC 607 Crop Physiology SCSC 611 Introduction to Environmental Biophysics SCSC 641 Plant Breeding I SCSC 642 Plant Breeding II SCSC 689-600 Plant Growth and Development
4.2.6 MEPS Funded Assistantships MEPS Program Assistantships The MEPS program offers assistantships to qualified, incoming students. The MEPS program typically offers 2-3 assistantships through MEPS funds, while adding additional rotational students through nomination of MEPS applicants for University and College Fellowships. A MEPS assistantships award provides a monthly stipend that includes insurance. Assistantships provide a monthly stipend and usually cover the cost of the student’s insurance. An assistantship also requires a minimum number of registered hours per semester in addition to 20 hours of work for the department. In previous years MEPS offered undergraduate courses in Plant Physiology that provided teaching assistant positions. Due to curriculum redevelopment in the Department
Molecular and Environmental Plant Sciences 37 MEPS academic program review 2014 of Soil and Crop Sciences in the past 3 years these positions have been lost. MEPS 313 Introduction to Plant Physiology exists within the Department of Horticulture and attracts a significant number of students, however this course is presently a 3 hour course with no laboratory. Some home departments do allow MEPS students to TA departmental laboratory courses, though this has been inconsistent.
Program Scholarship Award The MEPS Program now offers its own “Academic Excellence Award” based on the student’s academic success and contributions to the MEPS program. Students submit a letter of application that is reviewed by the MEPS Awards Committee. The award is based upon the committee’s recommendation and may be used by the student however it is needed. Due to low program funding, this award has been placed on hold.
Travel Awards MEPS Travel awards are presently offered as $400-$500 scholarships which are used to cover expenses for attending professional meetings to present papers and/or posters based on the student’s research. Travel awards are provided on a competitive basis.
4.2.7 MEPS graduate student engagement MEPS program website The MEPS program website (https://meps.tamu.edu/) is administered through the Department of Soil and Crop Sciences. The site hosts administration, faculty and student rosters, web-page links, new and existing graduate student information (i.e, application links, degree requirements, MEPS core courses, and links for financial assistance), a history and vision of the program, student and faculty awards and recognition, MEPS Fall and Spring Symposium registration and advertisement links, the MEPS student association, the MEPS by-laws, and links for the Office of Graduate and Professional studies.
MEPS Graduate Student Association The MEPS Graduate Student Association is a MEPS faculty advised association comprised of MEPS students and student elected officers. At present, the MEPS Graduate Student Association does not host a regularly scheduled journal club or student research presentation forum. Correcting this shortcoming is an immediate goal of the MEPS Executive Committee.
Welcome Incoming MEPS Students Luncheon Every fall in September the MEPS Graduate Student Association hosts a New Incoming Student Luncheon. The luncheon functions as a casual social event to introduce new MEPS students to faculty and fellow MEPS students.
Fall Symposium Each fall the MEPS students participate in a symposium by presenting posters regarding their research. A team of Faculty members judges posters. Dinner is served and it is an excellent time for interaction between students. New MEPS students are encouraged to attend.
Spring Symposium Each spring since 2005, the MEPS Program has hosted an Annual Spring Symposium. It brings
Molecular and Environmental Plant Sciences 38 MEPS academic program review 2014 noted experts to campus to participate. The varied topics and experiences of the speakers add to the total learning experience of MEPS students. Attendance is expected of all students with the opportunity for personal visits between small groups of students and symposium speakers over lunch at no cost to participating students. The Spring Symposium is widely advertised and attended by plant science faculty and students at both large state and private universities throughout Texas, Louisiana, Oklahoma, Arkansas, and New Mexico. Annually, the meeting attracts 70 to 150 participants. Outside the invited speakers, faculty and student registrants also submit abstracts. Of these 4-6 students are selected to present their research as oral presentations, the remainder present poster presentations. Registration is free, and where possible some travel scholarships are provided through MEPS, Symposium sponsor funds or NSF Symposium Grants. Flyers and abstracts for the 2013, and 2014 MEPS Spring Symposium are included in Appendix B and https://meps.tamu.edu/symposia/2014/index.html.
Texas A&M University Departmental Seminar Series Each fall and spring academic semester departments, whose faculty are members of the MEPS IDP, each host their own weekly departmental seminar series (see Table 5 for weekly schedule). Each seminar series routinely hosts university, home departmental, invited or Texas Agrilife Research or Extension center faculty. MEPS faculty and students consistently attend these seminar series. The Departments of Biological and Agricultural Sciences, Atmospheric Sciences the Texas Water Resource Institute, The Borlaug Institute for International Agriculture and the new Ecology and Evolutionary Biology IDP also host frequent but irregularly scheduled seminars of plant science research at multiple scales.
Table 5. Texas A&M weekly seminar series of departments with faculty in the MEPS IDP
Monday Tuesday Wednesday Thursday Friday Soil & Crop Sci Horticulture 4- Plant Breeders 4-5PM 5PM Circle 12-1PM Biology 4-5PM Biochemistry 4- 5PM Plant Pathology 4-5PM
5. MEPS STUDENTS 5.1 New MEPS student enrollment trends Since the 2007 MEPS review the total annual enrollment in the program has remained steady (Figure 5). Thirty-eight students have enrolled in the program. Although enrollment varies from year to year (see Table 6) an average 6 students join the program each year. Application-to acceptance ratios average about 5 to 1, and more than 90% of the students who are accepted enroll. Many of our applicants apply to more than one school, and those who are accepted but don’t enroll usually do so based on a better financial aid package from another school.
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Table 6. Applied admitted by ethnicity and gender demographics.
**Note: PLEASE NOTE: Since 2013-2014, 12 new students out of 32 applicants have been admitted into the MEPS program. Of these, 9 were female, 3 male and 3 were domestic while 9 were international. A grand total of 40 graduate students have been enrolled in the MEPS program since 2007.
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5.2 MEPS student enrollment trends and retention Overall student retention has not been a major issue. Of course, we would like to have a 100 percent retention rate, but that is difficult. Of the 40 M.S or Ph.D. degree students only eight have not completed the program to date. Others are on track to complete their degrees. A few of the 8 students who have left the program will not complete. A few are still working on their dissertations and are enrolled for the minimum hours although not currently supported. Most left for personal, financial, or career change reasons. Master’s degree students comprise 10 to 15% of the students enrolled in the program. This balance between master’s and doctoral students reflects the fact that MEPS attract students primarily interested in academic, government or industry careers requiring Ph.D. degrees.
From a gender perspective over 50% of the students are female. This ratio is fairly consistent in the master’s and doctoral degree programs across the years of admission (see Figure 6 and Table 7).
40
35
30
25
20 Female Male 15
Student Numbers Total
10
5
0 2007 2008 2009 2010 2011 2012 2013 YEAR
Figure 6. Total annual enrollment and enrollment by gender.
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Table 7. Number of students enrolled in MEPS by year, by degree, and gender.
Female Male Total Year PhD MS PhD MS PhD MS 2007 19 2 11 2 30 4 2008 14 2 11 1 25 3 2009 13 1 10 1 23 2 2010 13 1 8 2 21 3 2011 10 1 13 2 23 3 2012 9 2 12 2 21 4
5.2.1 Country of Origin of MEPS Students Roughly one third of the students in the MEPS program are domestic with the remainder being international (Figure 4). Currently 9 students are U.S. citizens and 23 students are international.
Bangladesh 3% USA 28% China 28%
Uraguay 3% Egypt Turkey 3% 6% St. Kitts India Saudi3% Arabia 10% 3% Mexico Japan Iran 7% 3% 3%
Figure 7. Country of origin of currently enrolled students
Nearly two thirds of our domestic students are from Texas. Our master’s students are predominately U.S. citizens while our doctoral program reflects nearly an equal balance between domestic and international students. Our international students are truly diverse hailing from some 11 different countries (Figure 7).
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5.3.Student Publications and Presentations The program has not maintained a cumulative total on the number of MEPS student publications and presentations. However, from 2009-2012, as part of the student learning objectives, we have identified publication and presentation objectives for our master’s and doctoral students. Data is collected from both yearly faculty achievement reports and a university collected 18 characteristic report the MEPS program collects on MEPS faculty for the university on a yearly basis. Neither sources of data are complete. The students in the MEPS degree program are averaging approximately 20 published manuscripts per year with and average student enrollment of 24 students during the same period. The MEPS faculty averaged 5.4 publications per year or 293 publications from 2010 to 2012 (Table 8 ).
In general student productivity is reasonable yet could improve in terms of both student publications and students being given the opportunity to attend society conferences.
Table 8. Student and faculty publication productivity 2009-2012.
2009 2010 2011 2012 Total MEPS Faculty Number 32 41 44 42 NA MEPS Faculty Publications NR 89 89 115 293 MEPS Student Number 25 24 26 25 NA MEPS Student Publications NR 17 17 23 57
5.4 MEPS Student Graduation Our mission is to “prepare the next generation of basic and applied plant scientists, through teaching and research.” A metric of our success in meeting this mission is how many students we place in permanent positions. We are falling short of our mission. We have current job placement information for 32 of the MEPS graduates since 2007 (as shown in Table 9 and Table 10). Of these, 10 are in non-permanent postdoctoral or research scientist positions. On a general observation, most of these students graduated from MEPS faculty whose focus are more basic plant molecular biology disciplines. Students with more applied research training appear to be transitioning to more permanent academic, industrial or government positions. This discrepancy may not be surprising given the large number of universities that train plant molecular biologists versus the more limited number of institutions that train plant breeders, horticulturist, agronomist etc., for academic and industry positions. Some students received MS degrees and have transitioned into PhD programs.
Table 9. Number of MEPS students graduated by degree, gender and year. Year Female Male Total PhD MS Total PhD MS Total PhD MS Total 2008 5 5 3 3 8 13 2009 2 1 3 2 2 4 1 7 2010 2 1 3 2 1 3 4 1 7 2011 3 3 2 2 5 8 2012 2 2 1 1 3 5 Total 14 2 16 10 1 11 24 2 40
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Table 10. MEPS Student Employment After Graduation: 2007-2013 Graduates. Grad Date Last First Degree Chair Current Employment Urriola Research with foreign 2013 Jazmina PHD Keerti Rathore Simons government Part time employment at 2013 Chen Yuan PHD Tom Cothren TAMU Postdoctoral Research 2013 Gawde Archana PHD Joseph Awika Associate with Mississippi State University Postdoctoral Research 2012 Chittoori Ratnaprabha PhD Lee Tarpley Associate at Boise State University Postdoctoral Research Kendal Associate at Boyce 2012 Manohar Murli PhD Hirschi/Bhimu Thompson Research Center, Patil Cornell, NY Postdoctoral Research 2011 Arnold Marianne PhD Jean Gould Associate at TAMU Postdoctoral Research 2011 Weers Brock PhD John Mullet Associate at TAMU Research Assistant - MD 2011 Rao Sheetal PhD Marla Binzel Anderson Cancer Center Postdoctoral Research 2010 Seeve Candace PhD Carol Loopstra Associate USDA-ARS Columbia, MO Graduate Student at TAMU 2010 Thompson Sean MS - PhD in Plant Breeding Senior Market Research 2010 Feng Yue PhD Hisashi Koiwa Analyst, Shire Pharmaceuticals Tom Postdoctoral Research 2010 Mandadi Kranthi PhD McKnight Associate at TAMU Postdoctoral Research 2010 Palle Sreenath PhD Carol Loopstra Associate at TAMU
2010,2014 Rothe Julie MS/PhD Dirk Hays Breeder Syngenta
Assistant Professor 2010 Mason Richard PhD Dirk Hays University of Arkansas 2009 Pillai Tushara PhD Terry Gentry unknown Line Development Breeder 2009 Beecher Francis MS Dirk Hays at Monsanto 2009 Lindgren Kourtnee MS Texas Tech Medical School
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Table 10 (continued). MEPS Student Employment After Graduation: 2007-2013 Graduates. Grad Date Last First Degree Chair Current Employment Instructor and Assistant Director in Clinical Kendal Cytogenetics, Department 2009 Mei Hui PhD Hirschi/Jean of Genetics and Genomic Gould Sciences, Icahn School of Medicine at Mount Sinai Assistant Research Scientist 2009 Mohammed Abdul PhD Lee Tarpley - Texas AgriLife Research 2008 Jeffery Jennifer PhD unknown Instructor, Baylor College of Medicine; Director of Thomas Bioinformatics and 2008 Hollister Emily PhD Boutton Microbial Ecology, Texas Children's Microbiome Center Private Agricultural 2008 Rounds Elliott MS Lee Tarpley Industry Company Alvarado Director of Plant Health, 2007 Veria PhD Terry Thomas Chavez Stoller USA 2007 Do Jung PhD Dirk Hays 2007 Gutierrez Libardo PhD Menz Syngenta Seeds, Inc. 2007 Byun Bo PhD Alan Pepper unknown Postdoctoral Research 2007 Hur Jung-Im PhD Terry Thomas Associate at UCLA Postdoctoral Research Associate, Medical 2007 Morris James PhD Kendal Hirschi University of South Carolina Leo Adhya Educational Society 2007 Sagaram Madhulika PhD Lombardini Founder Horticulture Extension 2007 Scheiner Justin MS Specialist * Only includes graduates through 2013
6. MEPS FACULTY Texas A&M University established in 1989 the interdisciplinary MEPS graduate degree program. Interdisciplinary faculty acts through an executive committee and a program chair who guide the program. The MEPS program currently comprises 54 faculty, 42 of which are counted as core faculty, in 8 departments in the Colleges of Agriculture and Life Sciences, Science, and Geosciences. Faculty who participate in MEPS supervise and fund students in their respective departments, but they also supervise and fund students in the MEPS program. The MEPS program is structured to provide interdisciplinary breadth. Courses offered through the program provide students with an understanding of molecular and biochemical mechanism that regulate
Molecular and Environmental Plant Sciences 45 MEPS academic program review 2014 plant function at the cellular and whole plant and community scale.
6.1 Faculty Teaching in MEPS Program One of the features that attract students to the MEPS program is the faculty. The expertise of the MEPS faculty extends from model systems to rangeland, molecular genetics and genomics to crop physiology and ecology (refer to Appendix A for curriculum vitae from the individual faculty). The addition of Ron Lacey from the Department of Biological and Agricultural Engineering brings a new dimension to the program. Besides the 8 TAMU departments represented (Table 11, Figure 7), we have faculty members from the TAMU AgriLife Research and Extension Centers located around the state, USDA/ARS, the Texas Forest Service, the US Forest Service, and faculty such as Kendal Hirschi who is part of Baylor College of Medicine, but also holds an adjunct faculty position at TAMU.
Table 11. MEPS Faculty 2013-2014 Last Name First Name DEPT *Awika Joseph Soil and Crop Sciences *Boutton Thomas Ecosystem Science & Management Byram Tom Ecosystem Science & Management *Cisneros-Zevallos Luis Horticultural Sciences Cobb B. Gregory Horticultural Sciences *Cothren J. Tom Soil and Crop Sciences Davies Fred Horticultural Sciences *DeFigueiredo Paul Plant Pathology & Microbiology *Devarenne Timothy Biochemistry/Biophysics *Dickman Martin Plant Pathology & Microbiology *Faridi Nurul Ecosystem Science & Management *Finlayson Scott Soil and Crop Sciences *Gentry Terry Soil and Crop Sciences *Gould Jean Ecosystem Science & Management *Griffing Lawrence Biology Hall Timothy Biology *Hays Dirk Soil and Crop Sciences *He Ping Biochemistry/Biophysics Heilman James Soil and Crop Sciences *Hirschi Kendal Horticultural Sciences *Ibrahim Amir Soil and Crop Sciences Isakeit Thomas Plant Pathology & Microbiology Jessup Russell Soil and Crop Sciences Johnson Charlie Genomics and Bioinformatics Kiniry Jim USDA/ARS *Klein Patricia Horticultural Sciences Klein Robert USDA/ARS
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*Koiwa Hisashi Horticultural Sciences *Kolomiets Mike Plant Pathology & Microbiology Lacey Ronald Biological and Agricultural Engineering *Lombardini Leonardo Horticultural Sciences *Loopstra Carol Ecosystem Science & Management *Magill Clint Plant Pathology & Microbiology *McKnight Thomas Biology *Moore Georgianne Ecosystem Science & Management *Mullet John Biochemistry/Biophysics *Park William Biochemistry/Biophysics *Patil Bhimu Horticultural Sciences *Pepper Alan Biology *Pierson Betsy Horticultural Sciences Qin Hongmin Biology *Rathore Keerti Soil and Crop Sciences Schade Gunnar Atomospheric Science *Shan Libo Plant Pathology & Microbiology *Stelly David Soil and Crop Sciences *Tarpley Lee Soil and Crop Sciences *Versaw Wayne Biology *West Jason Ecosystem Science & Management *Wherley Ben Soil and Crop Sciences *White Richard Soil and Crop Sciences *Yuan Joshua Plant Pathology & Microbiology *Zhang Hongbin Soil and Crop Sciences *Zhang Xiuren Biochemistry/Biophysics *Zhu-Salzman Keyan Entomology Bold designates new faculty since last review *Denotes faculty who have functioned as a MEPS student chair
The MEPS program and their home departments have lost critical faculty through retirement, early retirement, and to other institutions. These faculty recruited students to MEPS and contributed very significantly to MEPS student training and teaching (in SCSC Wayne Jordan, Jeffery Chen, Scott Senseman, and Don Vietor; in ESSM Mark Tjoelker, Jean Gould, Kostya Krutovsky, Robert Washington-Allen; in Horticulture Astrid Volder, Marla Binzel and Steve King).
Texas A&M University is making some effort to rebuild the plant science faculty, through a combination of refilling some of the original positions, plus the addition of new positions associated with the university’s ‘faculty re-investment program’. There are at least eight new faculty on campus with expertise in the plant sciences. These new faculty, especially those involved in molecular aspects of plant biology, have all sought out membership in MEPS. New disciplines that are represented by new faculty include 3 plant breeders, 1 cereal chemist, 1 soil
Molecular and Environmental Plant Sciences 47 MEPS academic program review 2014 microbiologist and 3 plant pathologists. These new faculty teach several of our MEPS courses or allied courses that are regularly attended by MEPS students, train their graduate students in the MEPS program, and actively serve on MEPS committees. These new hires have contributed to our improved student numbers, with 32 students currently enrolled.
Promotion and tenure decisions are initiated by the department, and then submitted for evaluation at the college and eventually university levels. Departments are supposed to solicit input from the intercollegiate faculties if the faculty being considered for promotion or tenure reports membership in an interdisciplinary program in their dossier. In the past 5 years, for all but one faculty that MEPS has been asked to provide input, tenure and promotion decisions have been positive. Enforcement of the university rule requiring this input has been uneven, and not all departments or colleges have requested input when MEPS members have gone up for tenure or promotion.
6.2 Faculty Advising University rules and those of the MEPS program govern the formation of student advisory committees and degree plans. Students in the master’s degree program must select a graduate chair, form an advisory committee, and file their degree plan by the end of the second semester. Prior to forming their committee, the MEPS chair or Program Coordinator provides advising. A master’s degree advisory committee consists of no fewer than three members, one of which must be members of the MEPS faculty and one must be external to the student’s home department.
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Atomospheric Science
Biochemistry/Biophysics
Biological and Agricultural 0%2% 9% Engineering 26% 2% Biology 11%
Ecosystem Science & Management Entomology 13% 15% Genomics and 2% 2% Bioinformatics 17% Horticultural Sciences
Plant Pathology & Microbiology Soil and Crop Sciences
Figure 7. Distribution of MEPS Faculty by Department only core faculty from Table 12 included.
The committee chair must be a member of the MEPS faculty. Doctoral students often have identified a chair from the MEPS faculty who has agreed to serve in that capacity before they can be admitted to the program. Those admitted as 9-month MEPS Rotational Fellows receive advising from the MEPS chair or Program Coordinator. The rotational Fellows typically rotate through 3 MEPS faculty programs during the span of 9 months. The MEPS chair provides assistance in finding suitable lab rotations for the students. At the end of nine months the rotation fellow joins and is supported by a MEPS faculty. Ph.D. students have until the end of their third semester to finalize their advisory committee and file their degree plan. Advisory committees for the doctoral degree will consist of no fewer than four members, one of whom must be a member of the MEPS faculty. At least 42 different members of the MEPS faculty have or are currently chairing student committees, and nearly all members of the faculty have served on a student committee. Table 4 is a list of current students and their committee chairs.
6.3 Research Funding for MEPS Program Faculty Faculty who participate in the MEPS program have exceptional records not only in their publication records but also in receiving MEPS-related external grants. Grants support students in their respective departments as well as students in the MEPS program. Collectively, the core group of 41 active MEPS faculty members has generated approximately $43 million in external
Molecular and Environmental Plant Sciences 49 MEPS academic program review 2014 funding from competitive funding programs between 2007 and 2012 (Figure 8 and 9). These totals do not include millions of dollars per year funded through state and university initiatives, or student fellowships. The funds have supported robust research programs that helped steer the intellectual and scientific direction of the graduate program in addition to providing both financial support and research opportunities for students. Funding sources included USDA, NSF, DOE, Department of Transportation, USAID, Fulbright, and major US corporations. The funding record reflects the commitment of the faculty to Texas A&M University, as a Tier 1 Research Institution, to maintain highly productive research programs that help attract the world’s best faculty and graduate students.
12 10 8 6
Millions 4 2 0 FY07 FY08 FY09 FY10 FY11 FY12
Year Figure 8. Faculty external funding 2007-2012
6.4 Faculty Publications Collectively, the MEPS faculty are prolific publishers in the plant sciences. Over the past 5-7 years they have produced more than 298 publications, including books, book chapters and journal articles. This is not a complete record of their career publications as faculty are requested, for purposes of this report, to limit their publication listing to two pages. Many faculty have CVs that are more than 50 pages. Very brief MEPS faculty CVs are listed in Appendix A.
6.5 Demographics of MEPS Faculty Participation as a member of the MEPS program is a voluntary action of each faculty member assigned to an academic home department. The MEPS program does not make hiring decisions and has no control over the Texas A&M University faculty diversity. Thus the MEPS faculty is a reflection of department hiring practices. The MEPS program supports University efforts to increase faculty diversity.
A review of the MEPS faculty indicates that of the 42 active members: 19 members of
Molecular and Environmental Plant Sciences 50 MEPS academic program review 2014 international origin, 8 female members and 1 members of Hispanic origin. The MEPS faculty diverse intellectual teaching, research, and publication backgrounds are indicated in Appendix A.
300
250
200
150
100 Thousands 50
0 FY07 FY08 FY09 FY10 FY11 FY12 Year Figure 9. Average MEPS faculty external funding per core faculty member 2007-2012.
VISION, GOALS, AND ASSESSMENT 7.1 Texas A&M University Vision 2020 The Southern Association of Colleges and Schools Commission (SACS) and the Texas Higher Education Coordinating Board (THECB) assesses the quality of Texas A&M University as a whole. In 1999, Texas A&M embarked upon a comprehensive evaluation and planning program to meet the SACS and THECB guidelines and with the aim of securing recognition as a consensus “Top 10” public university by the year 2020. The program known as “Vision 2020” (vision2020.tamu.edu) was intended to build upon Texas A&M’s tradition of excellence, while identifying areas requiring improvement and recommending necessary action, without sacrificing the core values upon which the university is solidly founded or its proud and unique heritage. The report, Vision 2020: Creating a Culture of Excellence, sets forth individual recommendations categorized into 12 “imperatives” relating to all aspects of Texas A&M and its relationships with students, faculty, staff, the community, and the state, nation, and world it proudly serves. In 2012, Vision 2020 was updated through a campus-wide process of internal assessment called the Academic Master Plan and a University strategic plan called Action 2015: Education First. The document identified a number of imperatives that the university will target over the next decade. Of relevance to this review is the commitment to graduate education.
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The 12 imperatives are: 1. Elevate the Faculty and their Teaching, Research, and Scholarship 2. Strengthen the Graduate Programs 3. Enhance the Undergraduate Academic Experience 4. Build the Letters, Arts, and Sciences Core 5. Build on the Tradition of Professional Education 6. Diversify and Globalize the Texas A&M Community 7. Increase Access to Knowledge Resources 8. Enrich the Campus Environment 9. Build Community and Metropolitan Connections 10. Demand Enlightened Governance and Leadership 11. Attain Resource Parity with the Best Public Universities 12. Meet the Commitment to Texas
7.2 College of Agriculture and Life Sciences- Grand Challenges During the 2012-2013 academic year, the College of Agriculture and Life Sciences embarked on an exciting interdisciplinary, faculty-driven initiative to chart our top priorities for the future. This year-long process, which included a series of lectures, white paper development, and a town hall meeting, culminated with the identification of five Grand Challenges – feeding our world, protecting our environment, improving our health, enriching our youth, and growing our economy. The MEPS faculty were instrumental in developing 3 of the Colleges white paper documents for developing a vision and plan for the 5 grand challenges.
Feeding Our World- The challenge involves feeding 9 billion people by the year 2050 through advances in technology, increasing the awareness for the need to increase funding for agricultural research, improving food distribution, storage, and technology adoption in developing countries. Protecting our Environment- Agriculture and a healthy environment must go hand in hand. The challenge focuses environmental sustainability and restoring the health of our ecosystems through surveying and protecting endangered wildlife species, revitalizing rangelands, designing parks and trails throughout Texas, studying the effects of climate change and developing biofuels for a clean and secure energy future. Improving our Health-The challenge focuses recreation and weight control to designing fruits and vegetables with more phytonutrients for cancer prevention to using the latest biotechnology advancements to search for new drugs. Enriching our Youth- The challenge focuses on providing a world class education while providing opportunities such study abroad, field experiences, internships, undergraduate research and a wide choice of student organizations that all allow students to develop leadership, organizational and communication skills to become society-ready graduates. Growing our Economy- The United States has greater competition in the global marketplace because more countries are producing goods. As a result, their citizens have more disposable income. The challenge focuses on reaching new markets by using technology and innovation to add value to existing products, and create new products to meet previously unseen needs, while protecting the environment from increased pressures on land, air and water needed to produce more food and fiber.
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ALIGNMENT OF MEPS PROGRAM WITH THIS IMPERATIVE: Imperative 2: Strengthen Graduate Programs In any view to the future, the challenges of solving complex problems are certain to require interdisciplinary work. It is critical that the University foster an adaptive culture that embraces and encourages interdisciplinary research while continuing to embrace and encourage individual research. Texas A&M University and especially the College of Agriculture and Life Sciences, Science and Geosciences do make significant efforts to encourage and foster individual faculty, teams of scholars and practicing professionals from multiple disciplines to cross structural boundaries and create collaborative partnerships to advance the frontiers of knowledge in meeting increasingly complex societal challenges.
The interdisciplinary nature of the MEPS Program has demonstrated a faculty resolve despite limited institutional commitment to foster an integrated and interdisciplinary plant sciences program at Texas A&M University.
Imperative 12: Meet Our Commitment to Texas Texas A&M is a public, land-grant institution that prepares educated problem-solvers to lead the state. The diverse population of Texas should have access to the best public education in America without having to leave the state. To further fulfill our mission, Texas A&M does engage in partnership with communities, industry, non-profit organizations and government entities to help solve the most difficult societal problems.
ALIGNMENT OF MEPS PROGRAM WITH THIS IMPERATIVE: Most MEPS program graduates are employed by universities, major US agribusinesses and by government and CGIAR research centers focusing on advancing agricultural productivity, environmental and ecological sustainability, and new basic plant science research. As such, MEPS faculty and students are addressing this challenge at multiple scales and levels.
7.3 Strategic Plan/Program Assessment 7.3.1 MEPS Program Vision Molecular and Environmental Plant Sciences seeks to understand the molecular basis for functions and behavior of plants in natural environments. It blends botany, ecology, molecular biology, chemistry, genetics and physics. Traditionally, plant scientists have been interested in the improvement of agriculture, and many of the most basic findings on photoperiodism, mineral nutrition, plant growth regulators, morphogenesis, postharvest physiology and plant competition have had major effects on modern agriculture. Today the unifying goal of plant science is to understand and improve plants. This goal involves significant interdisciplinary interactions with molecular genetics, plant breeding, environmental physics, agronomy, plant pathology and microbiology, and other plant-agriculture disciplines.
Graduate degree programs are individually designed to prepare graduates for careers in specialized areas of the discipline including molecular biology, metabolism, development, physiological ecology and environmental or crop physiology. Faculty members hold appointments in the Departments of Atmospheric Sciences, Biochemistry and Biophysics, Biology, Biological and Agricultural Engineering, Ecosystem Science and Management,
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Entomology, Horticultural Sciences, Plant Pathology and Microbiology, and Soil and Crop Sciences. Courses in these departments support the curriculum along with those in chemistry, genetics, mathematics, physics and statistics.
All graduate students participate in the student seminar program, the faculty-sponsored visiting scientist seminar program, other faculty-sponsored special programs, the core curriculum of courses and regional and national scientific meetings. These activities lend continuity and unity to the graduate student group just as research topics and the selection of supporting courses lend diversity to individual programs.
Vision The Faculty of Molecular and Environmental Plant Sciences will promote the unification of plant sciences at Texas A&M University through active support of departmental and interdisciplinary efforts to develop internationally recognized programs of excellence in research and graduate education.
7.3.2 MEPS Program Mission The mission of the MEPS program is to serve the faculty and students of TAMU by providing leadership, intercollegiate focus and organizational structure for contemporary training of future researchers, teachers and entrepreneurs and add value to the department-based intellectual environment in all disciplines of plant sciences.
7.3.3 MEPS Program Goals The goal of the MEPS program is as follows: To actively promote a more unified approach in plant science programs. To enhance internal and external recognition of our programs of service, research, and graduate education. To increase numbers of assistantships offered by the program through aggressive pursuit of training grants. To enhance communications and interactions among and between faculty and graduate students. To support plant science-based departmental curricula by providing relevant, interdisciplinary plant biology courses. To support research program development and graduate student enrichment by bringing recognized research leaders and grant program administrators to campus. To complement and extend strong plant science research and training programs by maximizing opportunities for collaboration. To enrich the graduate education and training program by providing opportunities for leadership development and participation in extracurricular professional activities. To provide faculty members with opportunities for professional development through active participation in leadership of the Faculty.
The vision and mission statements encompass two important features. Recognition is given to the large and diverse programs in plant sciences currently organized along departmental or commodity lines. Our vision is that the Faculty will provide expertise and leadership to facilitate integration and synergism among all plant science programs. In fulfilling this role, we envision
Molecular and Environmental Plant Sciences 54 MEPS academic program review 2014 that Faculty members can build on existing strengths to evolve recognized programs of excellence in research and graduate education that will elevate visibility of not only the MEPS program, but also the overall program in plant components of life sciences at TAMU.
7.4 Learning Outcomes The MEPS program has maintained a set of learning outcomes for each student graduating from the program through the development of a required core course curriculum all MEPS students are required to take and pass. The core courses are:
MEPS 601 Plant Physiology MEPS 605 Plant Biochemistry BIOL 635 Plant Molecular Biology ESSM 621 Physiological Plant Ecology
Broadly the MEPS program expects graduates to demonstrate knowledge within the broad spectrum of modern plant sciences, through an interdisciplinary program that includes core competencies in plant physiology, plant ecological physiology, plant molecular biology and plant biochemistry as well as competency in individual tailored curricula specific to the student and faculty chairs research thesis and dissertations. The core competencies include understanding, plant water relations, mineral metabolism, photosynthesis, primary and secondary metabolism, plant growth and development, plant hormones biosynthesis and action, environmental signals and stress physiology. At the ecological level students are expected to understand physiological mechanisms influencing ecological patterns and processes, including plant acclimation and adaptation in contrasting habitats, abiotic and biotic controls on species productivity and distribution, and relevant conceptual and experimental approaches.
Achievement target- MEPS program students are demonstrating their disciplinary competence in these topics through the high grades obtained in the MEPS required core curriculum, passing student committee preliminary written and oral exams and successful defense and publishing of their thesis and dissertation research.
8. STRENGTHS AND WEAKNESSES 8.1 Program Strengths 8.1.1 Value of an Interdisciplinary Degree Prospective students likely chose to apply to the MEPS program due to a perceived value that the interdisciplinary MEPS degree over other TAMU departmental degrees; even some existing TAMU graduate students in departmental programs will take on the additional steps and paperwork to apply to and transfer into the MEPS program (provisional upon their advisor’s approval) once they become familiar with MEPS. Students with more basic interests such as molecular biology, genetics or biotechnology are sometimes concerned about possible limitations to their future career options if their degree is in traditional agriculture areas such as Forestry, Horticulture or Agronomy. Students seek the interdisciplinary MEPS degree as a means to be more marketable and for a greater diversity of potential career paths. MEPS is currently the only interdisciplinary program at TAMU that focuses on recruiting graduate students interested in plant science.
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8.1.2 Flexible Degree The MEPS degree program is quite flexible, and allows students and their advisory committees to determine the most appropriate courses, sequence of classes and amount of coursework above a minimum set by the program. This flexibility encourages graduate training to be tailored to each individual student, taking into account their unique backgrounds and goals.
8.1.3 Faculty Diversity and Research Expertise The MEPS program has diverse faculty, with broad representation from different disciplines, genders, ethnicities and professorial ranks is an asset to our program. With respect to disciplines, the faculty expertise is diverse and ranges from the most basic molecular genetics and genomics, to plant breeders, ecologists and agronomists (See Appendix A for CVs).
8.1.4 Affiliated Scientists The MEPS program also has a number of scientists from other universities (i.e. Baylor School of Medicine), USDA-ARS, and off campus research and extension centers participating in the MEPS program. These individuals can serve as co-chairs or committee members, and enhance the breadth of training that we can offer to our students.
8.1.5 Faculty Recruiting Interdisciplinary programs such as MEPS help to make TAMU attractive basic science faculty who are being recruited into commodity or traditional agriculture oriented departments. Prospective faculty see the opportunity to teach courses in MEPS, and attract students who want to receive training in an interdisciplinary program.
8.1.5 Plant Science Community The MEPS program helps bring together plant scientists who are not only administratively divided between colleges and departments but also physically separated in buildings scattered across a large campus.
8.1.7 Participation of New Faculty New faculty hires in the plant sciences (i.e. Plant Pathology, Biology, Horticulture, etc.) have sought election and are actively recruited into MEPS by the faculty to provide a means to accelerate their assimilation into the plant science community. The MEPS program provides access to a pool of prospective students. This is especially important to new faculty whose new programs have yet to attract the individual attention of prospective students. The new faculty also ensures that MEPS continues to have faculty with the most current research skills.
8.1.8 Annual MEPS Spring Symposium The MEPS program has developed a very successful Annual MEPS Spring Symposium (see Appendix B). Due to the abundance of seminar series with scheduling conflicts, audience drain, etc., the MEPS Seminar Committee shifted to a two-day symposium format. This format was used for the first time in 2005, and has been a great success since. Students, post-docs and faculty from campus departments, other institutions, as well as off-campus centers and USDA- ARS have participated, with attendance ranging from 75-150 during different times of the day. As mentioned, the symposium is widely attended by plant science faculty and students from universities throughout Texas, Louisiana, Oklahoma, Arkansas, and New Mexico. The MEPS
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Chair has emphasized that the symposium should be student centered and a chance for student registrants to present oral presentations and poster presentations. This aspect of the MEPS Spring Symposium is improving.
8.1.9 Excellent Students MEPS attracts applicants with outstanding qualifications, both in terms of measures of academic performance (GPR and GRE) and prior research experiences. Once enrolled, our students continue to exhibit their excellence, both in the classroom and in their research. Student recruitment in terms of domestic student applicants has been limited to 5 to 6 applicants per year. Additionally, outside of direct recruitment efforts, MEPS attracts very few underrepresented minority student applicants. The MEPS program will need to reverse this trend.
8.1.10 Facilities, Equipment, etc MEPS students have access to excellent facilities and equipment, adequate laboratory space is available, and library resources, especially electronic access, are convenient. State of the art plant growth facilities are available in the Institute of Plant Genomics and Biotechnology. This facility was originally designated for plant science community-wide use, however recent changes to its management have altered the facility to a member use only facility.
8.1.11 Student Placement Student placement in permanent academic, industry or government research positions has been reasonable on an individual discipline basis, yet significant improvements in this aspect are still needed.
8.2 PROGRAM WEAKNESSES 8.2.1 External Program Visibility The program’s external visibility should be improved. The lack of external visibility not only hampers student recruiting, particularly among underrepresented groups, but also hinders student career placement. One effort to improve the program’s visibility is develop a MEPS brochure for distribution at state, national, and international conferences and the successful award of an NSF IGERT, REU or USDA recruitment grant will improve the programs visibility.
8.2.2 Lack of Physical Program Office Space The MEPS program has lost a dedicated staff support. It currently shares a part time Program Coordinator position with the Department of Soil and Crop Sciences (SCSC). In this role the shared Program Coordinator not only assists the MEPS program with most programmatic functions such as recruiting, student correspondence, university reports, and student degree administration along with the MEPS Chair, but also supports the SCSC new distance education PhD and MS degree in Plant Breeding as well as serving the broader functions for the departmental degree programs as she does for the MEPS program. The lack of physical office space contributes to visibility issues, especially when prospective students contact the program or on campus visiting. The lack of a designated office also contributes to difficulties in retaining and organizing program records and files, which are not only important to efficient program operations, and are increasingly necessary to fulfill reporting mandates associated with program and institutional accountability. The lack of institutional infrastructure (office space and
Molecular and Environmental Plant Sciences 57 MEPS academic program review 2014 designated staff assistance) is impediments to the program being able to put together a competitive training grant proposal. Reviewers are not only concerned about the quality of the participating faculty and availability of research facilities when examining these proposals, but are looking for evidence that sufficient infrastructure is in place to ensure that the administrative activities associated with the grant would be well managed.
8.2.3 Curriculum Weaknesses The MEPS course curriculum provides a good disciplinary knowledge foundation. What is lacking however is hands-on laboratory oriented courses within all of the sub-disciplines of MEPS. Students request these opportunities on a regular basis. The MEPS program should make increased efforts to gage student interests for the types of laboratory courses they want and make efforts to accommodate those requests. Additionally, new courses in high-throughput remote sensing based plant phenotyping needs to be a priority for course development and a specialized degree within the MEPS program.
8.2.4 Internal Program Identity Maintaining a sense of community amongst faculty and students remains the largest challenged by both the physical distances that people are distributed across campus, and the wide diversity of disciplines. The graduate orientation seminar course for first year students was primarily established to foster a cohort group amongst incoming MEPS students. The course provides an orientation to graduate school at TAMU, while also providing the students an opportunity to get to know each other. The class is well received and some non-MEPS graduate students (i.e. plant breeding) also enroll in the course. Despite this, cohesion amongst the students, and amongst the MEPS faculty is very poor and may reflect the need to identify a new MEPS program Chair, or greater emphasis by existing MEPS Committees to establish new activities such as student run journal club series that fosters increased interaction.
8.2.5 Recruiting Activities We are attracting an insufficient pool of well-qualified applicants despite the limited number of new students that our faculty can support each year through grants and contracts. Some new MEPS faculty have been unable to find qualified students willing to join their program. A more pro-active marketing of our program would not only attract a deeper pool of applicants, but would also elevate the visibility of the program.
8.2.6 Loss of Critical Faculty Expertise Since the last review there has been considerable turnover of faculty at TAMU. Retirements and relocations, and early retirements during budget shortfalls were particularly prevalent in the plant sciences. In addition to the retirement of several of the founding members of the early MEPS program, other institutions have been very successful in attracting many key faculty in plant cell and molecular biology. A few examples of the faculty who relocated or retired are: Jeff Chen, Wayne Jordan, Kostya Krutovsky, Mark Tjoelker, Astrid Volder, Marla Binzel, Robert Washington-Allen, William Payne, Scott Senseman Page Morgan, Don Vietor, Monica Menz, Steve King (bold denotes faculty lost from recruitment to new positions). These departures not only impacted our ability to teach MEPS courses, but also contributed to the decline in the total number of students obtaining degrees from the program. It is critical that Texas A&M University College Administration Deans recognize the critical loss of expertise in
Molecular and Environmental Plant Sciences 58 MEPS academic program review 2014 key disciplines of plant sciences such as plant cell biology and tissue culture, ecological physiology, plant root biology, molecular and population genetics, and crop ecosystem ecology. Without replacement of these losses Texas A&M University will lose its’ standing as a top ranked graduate institution for the plant sciences. Additionally, many of these disciplinary expertise losses are critical given the state of Texas projected water shortage caused by population growth and global climate change. Replacement of lost faculty in the departments of Soil and Crop Sciences, Horticulture, and Ecosystems Science and Management are critical priorities and the university should explore the reasons for the high number of relocated faculty.
8.2.7 Critical Mass The extent of disciplinary diversity, physical distances separating faculty and students, and limited number of students in the program create a strong need for MEPS to protect and grow its critical mass. At present, the MEPS program existence in terms financial support and programmatic function is kept alive by very few MEPS faculty. A drop in the number of students participating in the program will continue to erode the MEPS IDP. The Texas Higher Education Coordinating Board has threatened to close low graduation rate degree programs. A few MEPS program home departments are in real danger of losing their degree programs. As a consequence, departments have pushed MEPS faculty to matriculate students through departmental degrees. This has resulted in a recent trend of some MEPS faculty recruiting and admitting qualified students through MEPS program, yet then transferring students to home department degree programs. This issue will continue to erode the viability of the program and will need to be addressed by Texas A&M University administration. Additionally, and new IDP program Evolutionary and Ecological Biology has recently been approved. This new IDP may be more attractive to Ecosystem Science and Management faculty. As such, we anticipate some erosion in MEPS faculty participation and potential reductions in student recruitment could occur.
8.2.8 Informal Learning Opportunities We recognize that there is an increasing tendency of current students to compartmentalize and seek less scientific interaction and exchange outside of the time they spend in the lab/field. We recall our own graduate training that was often enriched by extensive time spent in journal clubs, departmental and lab oriented research meetings, and scientific debates. The MEPS program does not have a current journal club program. This needs to be re-established by MEPS faculty and students.
8.2.9 Lack of Plant Growth and Greenhouse Facilities As mentioned, State of the art plant growth facilities are available in the Institute of Plant Genomics and Biotechnology. This facility was originally designated for plant science community-wide use, however recent changes to its management have altered the facility to a member-use only facility for growth chamber space and increasingly small greenhouse space. The facility contains laboratory space for 8 current faculty, 8 small multi-user temperature controlled greenhouses, 4 large multi-user temperature controlled greenhouses, and 22 plant growth chambers. Because the greenhouses are multi-user, individual experiment temperature and daylength control is problematic to impossible. The broader plant science community 54 MEPS members and 133 additionally plant science or agriculture related faculty is left to contend with 30 to 50 year old greenhouse structures, many of which are in a state of complete
Molecular and Environmental Plant Sciences 59 MEPS academic program review 2014 disrepair and dilapidation. If faculty retention and new faculty start-up investments are expected to pay dividends for Texas A&M University, new efforts will need to be made in building new state-of-the-art plant growth facilities. This is especially true given the dire present and projected state of Texas water resources for agriculture and urban use.
9. PLANS FOR THE NEXT 1-3 YEARS 9.1 Establish a MEPS External Advisory Committee The MEPS program functions without an external advisory committee. However, an external advisory committee can provide several benefits. It is envisioned that the Committee will provide feedback and guidance in terms of • Providing academic training to the students • Developing skills to be successful in academic and industry recruiting trends • Strengthening the curriculum to be responsive to plant science trends • Increasing program visibility • Enhancing student recruitment • Developing internship and placement programs
The committee would meet once a year on campus for a day-long meeting. During these meetings, the Advisory Committee will interact with the students, faculty, and TAMU administrators.
9.2 Seek to Establish Additional MEPS Endowed Scholarships The establishment of endowed MEPS fellowship should be a priority. This will allow MEPS to recruit more competitively. Potential donors will be identified and approached to establish scholarships or fellowships for MEPS students.
9.3 Establish a MEPS journal club. The MEPS program needs to re-establish a MEPS faculty and student run journal club.
9.4 Establishment of a New Remote Sensing Focus Use of remote sensing via manned or unmanned digital imaging for ecological and field based plant phenotyping and physiology studies is a rapidly growing trend in plant sciences. Texas A&M University in addition to local USDA-ARS has outstanding existing expertise in this arena, yet no formal degree program or specialization exists to attract new students. The MEPS faculty and Chair will seek to establish a high throughput remote sensing based plant phenotyping/physiology degree specialization within the MEPS degree program. This endeavor should attract both new students and faculty to the MEPS program.
9.5 Establish On-Going Internships for MEPS students A number of government, industry and CGIAR institutions and MEPS students would benefit would from student internships. It will be the goal of the MEPS program to develop formal internship programs with these institutions in the coming years.
Molecular and Environmental Plant Sciences 60 LIST OF APPENDICES
APPENDIX A
Faculty Curricula Vitae
APPENDIX B
Symposia 1. 2013 Fall Poster Competition Flyer 2. 2013 Spring Symposium Flyer 3. 2014 Spring Symposium Flyer
APPENDIX C
18 Characteristics 1. 2012 - 18 Characteristics Report 2. 2013 – 18 Characteristics Report
APPENDIX A Faculty Curricula Vitae
Curriculum Vitae: Joseph M. Awika
FACULTY CV [Brief]
I. ABOUT
Name: Joseph M. Awika
Title:Associate Professor Affiliations: Soil & Crop Science Department Nutrition and Food Science Department Molecular and Environmental Plant Sciences Institution: Texas A&M University, College Station, Texas.
Research Interest
Grain chemistry and biochemistry: Identify secondary plant metabolites and minor grain constituents that impact food quality and human health. The goal is to understand how the structure of phenolics and related compounds in grains and pulses interact duringfood processing to affect product quality and biomarkers for human health. Interactions of grain polyphenols with food macromolecules (carbohydrates, proteins) are of interest. New applications for grain polyphenols are also under investigation. We collaborate with nutritional biochemists to employ various in vitro and in vivo models for disease prevention. We aim to maximize the impact of grain components in prevention of chronic disease.
Grain processing and quality: Understanding relationship between final product quality and grain genetics, composition and physical properties.Of special interest are functional attributescontributed by specific protein fractions of wheat, sorghum and other grains, as well as starch composition and molecular weight profile. We work closely with plant breeders and molecular geneticists to identify phenotypic traits that impart desirable functional attributes for intended products.
International activities: We actively collaborate with various international institutions in Zambia, Kenya, South Africa, Mexico, and China to develop strategies that address grain quality, safety, and nutrition and food security.
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Curriculum Vitae: Joseph M. Awika
BIOSKETCH Education
2003 PhD, Food Science & Technology, Texas A&M University, College Station, TX 1996 B.S., Dairy Science & Tech,Egerton University, Kenya Past Positions and Experiences 2008 – 2013: Assistant Professor, Texas A&M University, College Station, TX. 2006 – 2008: Assistant Professor, University of Missouri, Columbia, MO. 2004 – 2005: Assistant Professor, Arkansas State University, AR. 2004 – 2006: Adjunct Assistant Professor, University of Arkansas, Fayetteville, AR.
Teaching activities FSTC 305. Fundamental Baking. (2-3). Credit 3. II
Fundamentals of baking; chemical and physical properties of ingredients, methods of baking all products, fundamental reactions of dough, fermentation and oven baking. Prerequisite: CHEM 222 or 227 or approval of instructor. Offered every fall.
FSTC 401. Food Product Development (2-3). Credit 3. II
Design and develop new food products using principles of food chemistry, food processing, nutrition, sensory analysis and statistics; team collaborate to improve food product characteristics to meet the needs of changing society. Prerequisites: FSTC 311, 312, 313, 314, 315, 326 or registration therein. Currently open to FSTC seniors only.
FSTC 631. Food Carbohydrates. (3-0). Credit 3.
Chemistry, structure, functionality and nutritional properties of food carbohydrates; fiber chemistry, functionality and nutritional properties, artificial sweeteners, starch structure and functionality and hydrocolloid functionality. Prerequisite: BICH 410. Offered in fall, odd years.
FSTC 681. Seminar in Food Science. (1-0). Credit 1.
Oral reports and discussions of current research and developments in food technology designed to broaden understanding of problems and to stimulate research.
Publications
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Curriculum Vitae: Joseph M. Awika
A. Selected peer reviewed, refereed journal articles [total = 31]
1. Awika, J.M., Rooney, L.W., Wu, X., Prior L., and Cisneros-Zevallos, L. 2003. Screening methods to measure antioxidant activity of sorghum and sorghum products. Journal of Agricultural and Food Chemistry 51, 6657-6662. 2. Awika, J.M., Dykes, L., Gu, L., Rooney, and L.W., Prior, L. 2003. Processing of sorghum (Sorghum bicolor) and sorghum products alters procyanidin oligomer and polymer distribution and content. Journal of Agricultural and Food Chemistry 51, 5516-5521. 3. Awika, J.M., Rooney, LW, and Waniska, RD. 2004. Properties of 3-deoxyanthocyanins from sorghum. Journal of Agricultural and Food Chemistry 52, 4388-4394. 4. Awika, J.M.,and Rooney, LW. 2004. Sorghum phytochemicals and their potential impact on human health. Phytochemistry 65, 1199-1221. 5. Awika, J.M., Rooney, LW, and Waniska, RD. 2005. Anthocyanins from black sorghum and their antioxidant properties. Food Chemistry 90, 293-304. 6. L. He, L. Yang, M. Lin, J. Awika, D. R. Ledoux, H. Li, and A. Mustapha. 2008. A New approach to measure melamine, cyanuric acid, and melamine cyanurate using surface enhanced Raman Spectroscopy coupled with gold nanosubstrates. Sensing and Instrumentation for Food Quality and Safety 2, 66–71. 7. J.M. Awika.2008. Behavior of 3-deoxyanthocyanidins in the presence of phenolic copigments. Food Research International 41, 532-538. 8. M. Lin, L. He, J. Awika, L.Yang, and D. R. Ledoux, H. Li. 2008. Detection of melamine in gluten, chicken feed and processed foods using surface-enhanced Raman Spectroscopy and HPLC. Journal of Food Science 73, T129-T134. 9. L. Yang, J.D. Browning,and J. M. Awika. 2009. Sorghum 3-deoxyanthocyanins possess strong phase II enzyme inducer activity and cancer cell growth inhibition properties. Journal of Agricultural and Food Chemistry, 57, 1797-1804. 10. J. N. Alviola, T. Jondikoand J. M. Awika. 2010. Effect of cross-linked resistant starch on wheat tortilla quality. Cereal Chemistry, 87, 221–225. 11. Leonnard O. Ojwangand J. M. Awika. 2010. Stability of apigeninidin and its methoxylated derivatives in the presence of sulfites. Journal of Agricultural and Food Chemistry, 58, 9077- 9082. 12. Yang, L., Allred, K., Geera, B., Allred, C., and Awika, J. 2012. Sorghum phenolics demonstrate estrogenic action and induce apoptosis in non-malignant colonocytes. Nutrition and Cancer, 64, 419-427. 13. L. O. Ojwang, L. Dykes, J. M. Awika. 2012. Ultra performance liquid chromatography- tandem quadrupole mass spectrometer profiling of anthocyanins and flavonolsin cowpea (Vignaunguiculata) of varying genotypes. Journal of Agricultural and Food Chemistry60,
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Curriculum Vitae: Joseph M. Awika
3735-3744. 14. Geera, B., Ojwang, L., Awika, J. 2012. New highly stable dimeric 3-deoxyanthocyanidin pigments from Sorghum bicolorleaf sheath. Journal of Food Science, 77, C566-C572. 15. T. O. Jondiko, N.J. Alviola, D.B. Hays, A. Ibrahim, M. Tilley, and J.M. Awika.2012. Effect of high molecular weight glutenin subunit allelic composition on wheat flour tortilla quality. Cereal Chemistry,89, 155-161. 16. Beecher F, Mason E., Mondal S., Awika J., Hays D., Ibrahim A. 2012. Identification of quantitative trait loci (QTLs) associated with maintenance of wheat (TriticumaestivumDesf.) quality characteristics under heat stress conditions. Euphytica, 188, 361-368. 17. Frederico Barros, Joseph M. Awika, Lloyd W. 2012. Interaction of tannins and other sorghum phenolic compounds with starch and effects on in vitro starch digestibility. Journal of Agricultural and Food Chemistry60, 11609-11617. 18. Ojwang, L.O., L. Yang,L. Dykes, J. M. Awika.2013. Proanthocyanidin profile of cowpea (Vignaunguiculata) reveals catechin-O-glucoside as the dominant compound. Food Chemistry. 139, 35-43. 19. Nderitu, A. M.,L. Dykes, J. M. Awika, Minnaar, A., Duodu, K. G. 2013. Phenolic composition and inhibitory effect against oxidative DNA damage of cooked cowpeas as affected by simulated in vitro gastrointestinal digestion. Food Chemistry. 141, 1763-1771.
B. Books and book chapters
1. Advances in Cereal Science: Implications to Food Processing and Health Promotion, ACS Symposium Series. Oxford University Press: 2011. Awika, J. M., Piironen, V., Bean, S, eds. ISBN13: 978-0-8412-2636-4 2. Rooney, LW, Awika, JM. 2005. Specialty sorghums for health foods. Pages 283-312, in Abdel-Aal, E. and Wood, P., eds. Specialty Grains for Food and Feed, Eagan Press, MN.
3. Awika, JM. 2011. Health promoting effects of cereal and cereal products. Chapter 4, in Tokusoglu, O., and Hall, C., eds. Fruits and Cereal Bioactives: Sources, Chemistry and Applications, CRC Press.
4. Awika, JM. 2011. Effect of bioactive components on dough rheology, baking and extrusion. Chapter 17, in Tokusoglu, O., and Hall, C., eds. Fruits and Cereal Bioactives: Sources, Chemistry and Applications, CRC Press.
5. Awika, J. M., Sorghum Flavonoids: Unusual Compounds with Promising Implications for Health. In Advances in Cereal Science: Implications to Food Processing and Health Promotion, American Chemical Society: 2011; Vol. 1089, pp 171-200.
6. Awika, J. M., Major Cereal Grains Production and Use around the World. In Advances in Cereal Science: Implications to Food Processing and Health Promotion, Awika, J. M., Piironen, V., Bean, S., Ed. American Chemical Society: 2011; Vol. 1089, pp 1-13.
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Curriculum Vitae: Joseph M. Awika
II. CURRENT LAB PERSONNEL AND RESEARCH ACTIVITIES
Dr. Frederico Barros, Research Associate. Project:Interaction of proanthocyanidins with starch and their impact on starch functionality and digestibility.
Dr. Liyi Yang, Research Associate Projects:Sorghum flavonoids in colon cancer preventiontargeting estrogen receptor activation mechanism; new applications for 3-deoxyanthocyanis; cereal grain quality.
Mr. Tom Jondiko, PhD student, FSTC. Project:Impact of glutenin subunit compositon and pentosans on fundamental dough rheology; use of multivariate models to predict product quality.
Shima Agah, PhD student, FSTC. Project:Chemical basis for synergistic interactions of polyphenols and implications to food quality and human health.
Kristen Dunn, MS, FSTC. Project:Proanthocyanidin-starch interactions and impact on starch digestibility.
Amy Collison, MS. FSTC. Project: Effect of genetics on anthocyanin and co-pigment composition of specialty corn; impact on color stability and processing quality.
Dorothy Herman, MS, FSTC. Project: Modifying behavior of 3-deoxyanthocyanins in aqueous systems
Audrey Girrard, MS, FSTC Project: TBD
Derrick Amoako, MS, FSTC Project: TBD
III. HONORS AND AWARDS National: -2002-2003: American Association of Cereal Chemists Foundation Fellowship -2001-2002: Bill Doherty Memorial Fellowship (American Association of Cereal Chemists) -2000-2001: American Association of Cereal Chemists Graduate Fellowship University: -2002: Tom Slick Senior Graduate Research Fellowship, Texas A&M University
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Curriculum Vitae: Joseph M. Awika
-2002-2003: Outstanding Graduate Student, Food Science &Tech. Intercollegiate Faculty Award, Texas A&M University -2002-2003: Academic Excellence Award, Food Science & Tech., Texas A&M University -2001-2002: Academic Excellence Award, Food Science & Tech., Texas A&M University Regional/State: -2000-2001: Institute of Food Technologists (Longhorn) Scholarship -1999-2000: Institute of Food Technologists (Longhorn) Scholarship -2000-2001: Texas Food Processors Association Scholarship -1999-2000: Texas Food Processors Association Scholarship Appointments Associate Editor, Journal of the Science of Food and Agriculture: 2011 – present Technical Committee Member, Bioactive Compounds in Grains, American Association of Cereal Chemists International, 2011 - present Symposium Organizer and Chair, American Chemical Society: Cereal Chemistry and Health Symposium, 231st National Meeting, Anaheim CA, Mar 25-31, 2011. Product Development Competition Judge, Institute of Food Technologists (IFT) Product Development Competition: Developing Solutions for Developing Countries. Appointed September 2009 to a 3 year term (2010 – 2012). Award Selection Committee Jury Member, Institute of Food Technologists (IFT) Bernard L. Oser Award: Appointed 2009/2010; 2010/2011. National Program Research Review Panel Member, USDA-ARS Office of Scientific Quality Review. 2010 External Examiner, Doctoral candidate, Monterrey Tech, Monterrey, Mexico 2012-2013. External Examiner, Doctoral and MS candidates, University of Pretoria, South Africa; 2009-2012. Local Section Chair, American Chemical Society: University of Missouri, 2007-2008. National/International awards by graduate advisees Ms. Dorothy Herman won FIRST PLACE in graduate research competition at the Sorghum Improvement Conference of North America (SICNA) annual meeting, August 28-30, 2013, in Lubbock, TX. Ms. Kristen Dunn won SECOND PLACE in graduate research competition at the Sorghum Improvement Conference of North America (SICNA) annual meeting, August 28-30, 2013, in Lubbock, TX
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Curriculum Vitae: Joseph M. Awika
Mr. Frederico Barros won the SECOND PLACE, graduate research competition at the American Association of Cereal Chemists International Annual Meeting in Hollywood, FL, in October 2012. Presentation was based on part of his PhD research. Mr. Tom Jondiko was awarded the highly competitive American Association of Cereal Chemists International (AACCI)Milling & Baking Division M. Rella Dwyer Graduate Fellowship, 2012-2013. Mr. Leonnard Ojwang won the FIRST PLACE, graduate research competition at the American Association of Cereal Chemists International Annual Meeting in Palm Springs, CA, in October 2011. Presentation was based on part of his PhD research. Mr. Tom Jondiko was awarded a highly competitive American Association of Cereal Chemists International Graduate Fellowship, 2011-2012. Mr. Frederico Barros was awarded a highly competitive American Association of Cereal Chemists International Graduate Fellowship, 2011-2012. T Jondiko, L. Yang, F. Barros, A. Gawde. Won 2nd Place at the American Association of Cereal Chemists International product development team competition in Palm Springs, CA, Oct 2011. L. Ojwang, K. Siska, Y. Tuncil, T. Kim. Won 3rd Place at the American Association of Cereal Chemists International product development team competition in Palm Springs, CA, Oct 2011. Ms. Yang, Liyi won SECOND PLACE in graduate research competition at American Association of Cereal Chemists International Annual Meeting in Baltimore, MD, in October 2009. Presentation was based on part of her MS research. Ms. Liyi Yang won FIRST PLACE in graduate research competition at the Sorghum Improvement Conference of North America (SICNA) biennial meeting, Feb 25-26, 2009, in Grapevine, TX.
IV. PROFESSIONAL MEMBERSHIPS
American Association of Cereal Chemists International (AACCI): 1998 – present Institute of Food Technologists (IFT) 1998 – present American Chemical Society (ACS) 2003 – 2012
V. SUMMARY OF RELEVANT ACCOMPLISHMENTS
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Curriculum Vitae: Joseph M. Awika
Summary of graduate students receiving degrees
Role Year Total <2008 2009 2010 2011 2012 2013 PhD Chair or Co-chair 0 0 0 0 2 2 4 Committee Member 0 0 0 0 3 3 6 MS Chair or Co-chair 2 1 1 0 1 1 6 Committee Member 2 1 5 3 5 3 19 Total 4 2 6 3 11 9* 35 *partial
Grants and contracts summary
Type and Role Career Total to all PIs Allocated to (US $) Awika (US $) External PI 5,866,782 1,595,898 Co-PI 102,000 18,000 Total (PI + Co-PI) 5,834,753 1,479,866 Internal PI 798,400 101,900 Co-PI 425,000 99,500 Total (PI + Co-PI) 1,223,400 201,400 Grand Total 7,192,182 1,815,295
Summary of Publications and Scholarly Work Type Total Refereed/peer reviewed journal articles 31 Scientific Abstracts 67 Books 1 Book Chapters 5
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BIOGRAPHICAL SKETCH
THOMAS W. BOUTTON
Department of Ecosystem Science and Management Telephone: (979) 845-8027 Texas A&M University Fax: (979) 845-6430 College Station, TX 77843 E-mail: [email protected]
A. Research Expertise and Areas of Interest
For the past 25 years, my research group has focused on understanding the biogeochemical consequences of land cover/land use changes and their implications for the climate system. Our work has been aimed primarily at understanding how ecosystem C, N, and P storage and dynamics are altered during grassland to woodland transitions. I also serve as co-director of the Stable Isotopes for Biosphere Sciences Lab, which is a comprehensive facility for biogeochemical and isotopic analyses of the plant-soil-water-atmosphere system.
B. Professional Preparation
B.A. Biology, St. Louis University, June 1973 M.S. Biology, University of Houston, June 1976 Ph.D. Botany, Brigham Young University, December 1979
C. Appointments
2011-now Associate Department Head for Graduate Programs, Dept. Ecosystem Science & Management 2010-now Senior Faculty Fellow, Texas A&M AgriLife Research, Texas A&M University System 2006-now Regents Professor, Dept. Ecosystem Science & Management, Texas A&M University 2006-2009 Affiliate Faculty Member, Dept. Crop & Soil Science, Oregon State University 2006-2007 Visiting Scholar, Dept. Earth and Atmospheric Sciences, Purdue University 1994-now Professor, Dept. Ecosystem Science & Management, Texas A&M University 1987-1994 Associate Professor, Dept. Rangeland Ecology & Management, Texas A&M University 1985-1987 Assistant Professor, Dept. Pediatrics, Baylor College of Medicine, Houston, TX 1983-1985 Instructor, Dept. Pediatrics, Baylor College of Medicine, Houston, TX 1982-1983 Postdoctoral Fellow, Dept. Pediatrics, Baylor College of Medicine, Houston, TX 1980-1982 Postdoctoral Fellow, Dept. Biology, Augustana College, Sioux Falls, SD
D. Honors and Awards
Senior Faculty Fellow, Texas A&M AgriLife Research, 2010 Regents Professor, Texas A&M University System, 2006 Best Poster, Soil Biology and Biochemistry, Soil Science Society of America Meeting, 2006 Outstanding Graduate Teacher, Rangeland Ecology & Management, Texas A&M, 2005-2006 Leu Distinguished Lecturer, University of Nebraska, 2004 Outstanding Achievement Award, Society for Range Management, 2004 Faculty Fellow, Texas A&M AgriLife Research, 2003 Best Poster, Forest & Rangeland Soils, Soil Science Society of America Meeting, 2002 Fellow, Soil Science Society of America, 2001 Fellow, American Society of Agronomy, 2001 Most Effective Graduate Course (Nutrient Cycling), Texas A&M University, 2000, 2002 Most Effective Graduate Course (Ecology & Land Use), Texas A&M University, 2002 Royal Society for Chemistry Lecturer, 1999 Stapledon Lecturer, Biotechnology and Biological Sciences Research Council, UK, 1999 Royal Society for Chemistry Lecturer, 1997 Editor's Citation for Excellence, Soil Science Society of America Journal, 1994
E. Recent Publications (* denotes grad student, postdoc, or undergrad student)
Creamer CA*, Filley TR, Olk DC, Stott DE, Boutton TW, Dooling V. 2013. Changes to soil organic N dynamics with leguminous woody plant encroachment into grasslands. Biogeochemistry 113: 307-321. Bai E*, Boutton TW, Liu F*, Wu XB, Archer SR. 2013. 15N isoscapes in a subtropical savanna parkland: Spatial-temporal perspectives. Ecosphere 4(1): 4. http://dx.doi.org/10.1890 /ES12-00187.1 Creamer CA*, Filley TR, Boutton TW. 2013. Long-term incubations of size-separated soil fractions to inform soil organic carbon decay dynamics. Soil Biology and Biochemistry 57: 496-503. Creamer CA*, Filley TR, Olk DC, Plante AF, Peltre C, Top SM, Boutton TW. 2012. Degree of woody plant encroachment into grasslands controls soil carbohydrate and amino compound changes during long-term laboratory incubation. Organic Geochemistry 52: 23-31. Hall SA, Boutton TW, Lintz CR, Baugh TG. 2012. New correlation of stable carbon isotopes with changing late-Holocene fluvial environments in the Trinity River basin of Texas, USA. The Holocene 22: 541-549. Bai E*, Boutton TW, Liu F*, Wu XB, Archer SR, Hallmark CT. 2012. Spatial variation of soil δ13C and its relation to carbon input and soil texture in a subtropical lowland woodland. Soil Biology and Biochemistry 44: 102-112. Bai E*, Boutton TW, Liu F*, Wu XB, Archer SR. 2012. Spatial patterns of soil δ13C reveal grassland-to- woodland successional processes. Organic Geochemistry 42: 1512-1518. Liu F*, Wu XB, Bai E*, Boutton TW, Archer SR. 2011. Quantifying soil organic carbon in complex landscapes. Global Change Biology 17: 1119-1129. Creamer CA*, Filley TR, Boutton TW, Oleynik S, Kantola IB*. 2011. Controls on soil carbon accumulation during woody plant encroachment into grasslands: Evidence from physical fractionation, soil respiration, and the isotopic composition of respired CO2. Soil Biology and Biochemistry 43: 1678-1687. Boutton TW, Liao JD*. 2010. Changes in soil nitrogen storage and δ15N with woody plant encroachment in a subtropical savanna parkland landscape. Journal of Geophysical Research 115: G03019, doi:10.1029/2009 JG 001184, 2010. Liu F, Wu XB, Bai E, Boutton TW, Archer SR. 2010. Spatial scaling of ecosystem C and N in a subtropical savanna landscape. Global Change Biology 16: 2213-2223. Hollister EB, Schadt CW, Palumbo AV, Ansley RJ, Boutton TW. 2010. Structural and functional diversity of soil bacterial and fungal communities following woody plant encroachment in the southern Great Plains. Soil Biology and Biochemistry 42: 1816-1824. Biederman L, Boutton TW. 2010. Spatial variation in biodiversity and trophic structure of soil nematode communities in a subtropical savanna parkland: responses to woody plant encroachment. Applied Soil Ecology 46: 168-176. Kovda I, Morgun E, Boutton TW. 2010. Vertic processes and specificity of organic matter properties and distribution in vertisols. Eurasian Soil Science 43: 1467-1476. Ansley RJ, Boutton TW, Mirik M, Kramp BA, Castellano MJ. 2010. Seasonal fire effects on herbaceous composition in a C3/C4 grassland invaded by Prosopis, a fire-resistant shrub. Applied Vegetation Science 13: 520-530. Morgun EG, Boutton TW, Jessup KD. 2010. Assessment of the mobility and time of renewal of the densimetric fractions of organic matter in chestnut soils from the ratio of stable carbon isotopes. Eurasian Soil Science 43: 533-540. Biederman L, Boutton TW. 2009. Biodiversity and trophic structure of soil nematode communities change following woody plant invasion of grassland Soil Biology and Biochemistry 41: 1943-1950. Bai E, Boutton TW, Wu XB, Liu F, Archer SR. 2009. Landscape-scale vegetation dynamics inferred from spatial patterns of soil δ13C in a subtropical savanna parkland. Journal of Geophysical Research 114: G01019, doi:10.1029/2008JG000839, 2009. Dai X, Vietor DM, Boutton TW, Hons FM, Provin TL, White RH, Munster CL. 2009. Effect of composted biosolids on soil organic carbon storage during establishment of turfgrass sod. HortScience 44: 503-507.
F. Recent Grant Funding
West J, Boutton TW, Hons F, Sparks J. 2014-2015. Identifying sources of N2O production in agroecosystems: A step towards more effective mitigation. Texas A&M AgriLife Air Quality Research Program ($132,960). Ahmed, I, Boutton TW, Strom KB. 2011-2014. Hydrologic influences on soil organic carbon loss monitoring using stable isotopes. USDA/NIFA-CBG Program (2011-38821-30970) ($499,999). Hewitt DG, Fulbright TE, Boutton TW, Gann K, Hines S, Ortega-Santos A, DeYoung R. 2013-2015. Dietary overlap between wildlife and livestock assessed with stable isotopes. East Wildlife Foundation ($361,934). Scanlon B, DeLaune P, Boutton T, Schwartz R, Haney R. 2010-2013. Groundwater nitrogen source identification and remediation in the Texas High Plains and Rolling Plains Regions. Texas State Soil and Water Conservation Board (TSSWCB 09-03) ($487,064). Boutton TW, Scott A. 2010-2013. Soil carbon storage and dynamics in the western Gulf Coastal Plain as impacted by forest management. U.S. Forest Service Cooperative Agreement (l0-CA-11330124-093) ($25,000). Filley T, Boutton TW, Stott D. 2005-2010. Collaborative Research: Impacts of vegetation change on stabilization and microbial accessibility of soil organic matter: A microbiological, isotopic, and molecular study. NSF Biogeosciences Program (EAR-0525349) ($445,615). Jastrow JD, Matamala R, Filley TR, Boutton TW, Gonzalez-Meler MA, Six J. 2006-2009. Soil carbon responses to atmospheric CO2. US Department of Energy, Climate Change Research Division, Terrestrial Carbon Processes Program ($1,050,000).
G. Synergistic Activities
Co-Director: Stable Isotopes for Biosphere Science Laboratory, Department of Ecosystem Science and Management, Texas A&M University, 1987-present. Lab consists of two isotope ratio mass spectrometers, 3 elemental analyzers, a discrete chemistry analyzer, DOC/DON analyzer, a gas chromatograph, and sample preparation equipment. This lab has supported the research of approximately 120 faculty, postdocs, and graduate students from TAMU and other universities. Session Co-Organizer and Co-Chair: “Global Change and the Biogeochemistry of Dryland Ecosystems,” annual meeting of the American Geophysical Union, 2012. Advisory Panel Member: US Department of Energy, Terrestrial Ecology Program, 2011-present. Advisory Panel Member: National Science Foundation, 2008-2011. Committee Member: NEON Domain Science and Education Coordination Committee, Southeastern Region, 2009-present. Advisory Board and Faculty Mentor: Sloan Foundation Minority Ph.D. Fellowship Program, and Texas A&M Hispanic Leadership Program in Agriculture and Natural Resources, 2007-present. NAME: Byron L. Burson
TITLE: Research Geneticist, USDA-ARS
EDUCATION: B.S. Oklahoma State University, Agronomy, 1962 M.S. Texas A&M University, Cytogenetics and Plant Breeding, 1965 Ph.D. Texas A&M University, Cytogenetics and Plant Breeding, 1967
PROFESSIONAL EXPERIENCE: Assistant Professor, Agronomy Department, Mississippi State University, 1967-1971 Associate Professor, Agronomy Department, Mississippi State University, 1971-1975 Research Geneticist, USDA-ARS, Grassland, Soil, and Water Research Laboratory, Temple, TX, 1975-1993 Research Geneticist, USDA-ARS, Southern Plains Agricultural Research Center, College Station, TX, 1993-present Adjunct Professor, Department of Soil & Crop Sciences, Texas A&M University, 1995-present Member, Molecular and Environmental Plant Sciences Faculty, Texas A&M University, 2000-present
PROFESSIONAL ACTIVITIES: Membership in Professional Societies American Association for the Advancement of Science American Forage and Grassland Council American Genetic Association American Society of Agronomy Crop Science Society of America
Advisory Committees National Crop Germplasm Committee for Forage and Turf Grasses, 1985- present Chairman, Crop Germplasm Committee, 1991-1994 Chairman, Warm-Season Grass Sub-committee, 1986-1991 USDA-ARS representative on Association of Official Seed Certifying Agencies (AOSCA) National Grass Variety Review Board, 1998-2001
Honors and Awards 1974: Recipient, Sigma Xi Research Award, Mississippi State University 1982: Recipient, $2,000 Travel Grant from Fulbright Commission 1992: Fellow, American Society of Agronomy 1994: Fellow, Crop Science Society of America 1998: Fellow, American Association for the Advancement of Science 2000: Merit Award, American Forage and Grassland Council Member, Alpha Zeta Member, Sigma Xi Member, Gamma Sigma Delta Member, Phi Kappa Phi
Research Activities Research activities are focused on the cytogenetics, reproductive biology, wide hybridization, and genetic improvement of warm-season grasses. This includes: determining the cytogenetic behavior of complex polyploid grass species and hybrids; establishing phylogenetic relationships among different species in agamic complexes; identifying and circumventing incompatibility barriers that prevent hybridization between distantly related species; determining the method of reproduction of various grasses, including apomictic mechanisms; and using this fundamental information to develop novel breeding approaches to develop true breeding apomictic cultivars. Recent research activities have included using molecular tools to: 1) map economically important genes, including those controlling apomixis and dioecy and 2) determine phylogenetic relationships among different grass species.
Graduate Student Advisory Activities Co-chair of advisory committee of three Ph.D and three M.S. students. Member of advisory committee of seven Ph.D. and eight M.S. students. Presently serving as a member of advisory committee of three Ph.D. and two M.S. candidates.
Recent Publications (90 Referred Publications, 8 Book Chapters, and 120+ Proceedings and Abstracts)
Venuto, B.C., Croughan, S.S., Pitman, W.D., Jessup, R W., Renganayaki, K. and Burson, B. L. Variation among hexaploid Paspalum dilatatum Poir. regenerants from tissue culture. Aust. J. Exp. Agric. 47:1109-1116. 2007.
Singh, M., Burson, B.L. and Finlayson, S.A. Isolation of candidate genes for apomictic development in buffelgrass (Pennisetum ciliare). Plant Mol. Biol. 64:673-682. 2007.
Kuhlman, L.C., Burson, B.L., Klein, P.E., Klein, R.R., Stelly, D.M., Price, H.J. and Rooney, W.L. Genetic recombination in Sorghum bicolor x S. macrospermum interspecific hybrids. Genome 51:749-756. 2008.
Burson, B.L., Tischler, C.R. and Ocumpaugh, W.R. Breeding for reduced post-harvest seed dormancy in switchgrass: Registration of TEM-LoDorm switchgrass germplasm. J. Plant Reg. 3:99-103. 2009.
Genovesi, A.D., Jessup, R.W., Engelke, M.C. and Burson, B.L. Interploid St. Augustinegrass [Stenotaphrum secundatum (Walt.) Kuntze] hybrids recovered by embryo rescue. In Vitro Cell. Dev. Biol.-Plant 45:656-666. 2009.
Burson, B.L., Venuto, B.C. and Hussey, M.A. Registration of ‘Sabine’ dallisgrass. J. Plant Reg. 3:132-137. 2009.
Kuhlman, LC., Burson, B.L., Stelly, D.M., Klein, P.E., Klein, R.R., Price, H.J. and Rooney, W.L. Early-generation germplasm introgression from Sorghum macrospermum into sorghum (Sorghum bicolor). Genome 53:419-429. 2010.
Jessup, R.W., Renganayaki, K., Reinert, J.A., Genovesi, A.D., Engelke, M.C., Paterson, A.H., Kamps, T.L., Schulze, S., Howard, A.N., Giliberto, B. and Burson, B.L. Genetic mapping of fall armyworm resistance in zoysiagrass. Crop Sci. 51:1774-1783. 2011.
Jessup, R.W., Whitmire, D.K., Farrow, Z.L. and Burson, B.L. Molecular characterization of non-flowering perennial Sorghum spp. hybrids. Am. J. Exp. Agric. 2:9-20. 2012.
Burson, B.L., Actkinson, J., Hussey, M.A. and Jessup, R.W. Ploidy determination of buffel grass accessions in the USDA National Plant Germplasm System collection by flow cytometry. S. Afr. J. Bot. 79:91-95. 2012.
Bartek, M.S., Hodnett, G.L., Burson, B.L., Stelly, D.M. and Rooney, W.L. Pollen tube growth after intergeneric pollinations of iap-homozygous Sorghum. Crop Sci. 52:1553-1560. 2012.
Washburn, J.D., Murray S.C., Burson, B.L., Klein, R.R. and Jessup, R.W. Targeted mapping of quantitative trait locus regions for rhizomatousness in chromosome SBI-01 and analysis of overwintering in a Sorghum bicolor x S. propinquum population. Mol. Breeding 31:153-162. 2013.
Washburn, J.D., Whitmire, D.K., Murray, S.C., Burson, B.L., Wickersham, T.A., Heitholt, J.J. and Jessup, R.W. Estimation of rhizome composition and over-wintering ability in perennial Sorghum spp. using near infrared spectroscopy (NIRS). BioEnergy Res. 6:822-829. 2013.
Dowling, C.D., Burson, B.L., Foster, J.L., Tarpley, L., and Jessup, R.W. Confirmation of pearl millet-napiergrass hybrids using EST-derived simple sequence repeats (SSR) markers. Am. J. Plant Sci. 4:1004-1012. 2013.
Thomas D. Byram Western Gulf Forest Tree Improvement Program Geneticist and Assistant Professor Texas A&M Forest Service and Department of Ecosystem Science and Management (12 month appointment)
Forest Science Laboratory College Station, TX 77843-2585 Telephone: (979) 845-2556 FAX: (979) 845-3272 email: [email protected]
Education
1975 B.A (Biology) Hendrix College, Conway, AR 1978 M.S. (Forestry) Texas A&M University, College Station, TX 2000 Ph.D. (MEPS) Texas A&M University, College Station, TX
Experience
1976-1978 Research Assistant, Department of Forest Science, Texas A&M University, College Station, TX. 1978-2001 Assistant Geneticist, Texas Forest Service. 2001-Present Geneticist, Texas A&M Forest Service. Responsible for the direction of the TFS Pine and Hardwood Tree Improvement Programs, Western Gulf Forest Tree Improvement Program – Pine, Western Gulf Forest Tree Improvement Program – Hardwood, and Urban Tree Improvement Program. 2001-Present Assistant Professor, Department of Ecosystem Science and Management. Research problems addresses operational tree improvement problems for both pine and hardwood species.
Professional Memberships
Society of American Foresters SAF Genetics and Tree Improvement Working Group Seed Orchard Pest Management Subcommittee of the Southern Forest Tree Improvement Committee (Current Chair)
Awards
Tony Squillace Award (Southern Forest Tree Improvement Conference): 1995 and 1999 USDA 2011 Honor Award for Excellence - Conifer Translational Genomics Team
Other Activities and Responsibilities
Member – Nine Graduate Student Committees (two current) Supervise – One Post Doctorial Research Associate Committee member – Science Advisory Committee for the PINEREFSEQ Loblolly Pine Genome Project USDA/NIFA
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Committee member - Science and Outreach Advisory Committee for the USDA/IFAS Grant: Allele Discovery for Economic Pine Traits I and II (ADEPT) Invited Opponent – 2007 Ph.D. Disputation, SLU Umeå, Sweden Member, Farm Services Advisory Committee. Member, USDA-Forest Service Resistance Screening Center Steering Committee. Served as reviewer for Forest Science, Canadian Journal of Forestry Research, Southern Journal of Applied Forestry, Tree Genetics and Genomes.
Directs the activities of the Western Gulf Forest Tree Improvement Program - Pine. This program has 11 members operating in the states of Arkansas, Louisiana, Mississippi, Oklahoma and Texas. The major efforts are to coordinate activities among members and supply the technical guidance to conduct applied tree improvement programs. Responsible for the direction of the Western Gulf Forest Tree Improvement Program - Hardwood. This program has 5 members in the states of Arkansas, Louisiana, and Texas. Past efforts have been committed to preserving genetic material suitable for advance generation breeding, and producing interim seed supplies of improved strains of hardwood trees for reforestation efforts. Current efforts also involve projects to study natural regeneration problems and natural stand management in bottomland hardwoods. Responsible for the operation of the Texas A&M Forest Service Pine Tree Improvement Program. The tree improvement program and seed orchards produce three improved genetic varieties of loblolly pine, rust resistant slash pine, shortleaf pine, longleaf pine, and improved Virginia pine for Christmas tree production. Leads the Texas A&M Forest Service Urban Tree Improvement Program. This is a cooperative effort among the Texas A&M Forest Service, municipalities and commercial nurseries to develop and produce improved strains of trees for urban environments. Responsible for the Texas A&M Forest Service Hardwood Tree Improvement Program. This program produces genetically superior hardwood seedlings for regeneration efforts.
Total Publications - Authored or coauthored:
Peer reviewed, refereed journal articles: 17 Invited presentations at national and regional meetings: 21 Invited presentations at user groups: 9 Volunteer presentations at national meetings: 4 Volunteer presentations at regional meetings: 13 Book chapters: 1 Technical reports: 26
Recent Publications and presentations
Peer reviewed, refereed journal articles.
Chhatre, V., T. D. Byram, D. B. Neale, J. L. Wegrzyn and K. V. Krutovsky. 2013. Genetic structure and association mapping of adaptive and selective traits in the East Texas loblolly pine (Pinus taeda L.) breeding populations. Tree Genetics and Genomes. 9:1161- 1178.
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McKeand, S.E., E.J. Jokela, D.A. Huber, T.D. Byram, H. L. Allen, B. Li, T.J. Mullin. 2006. Performance of improved genotypes of loblolly pine across different soils, climates, and silvicultural inputs. Forest Ecology and Management 227:178-184. Byram, T.D., J.H. Myszewski, D.P. Gwaze and W.J. Lowe. 2005. Improving wood quality in the Western Gulf Forest Tree Improvement Program: The problem of multiple breeding objectives. Tree Genetics and Genomes 1(3): 1-8. Byram, T. D., T.J. Mullin, T. L. White, and J.P. van Buijtenen. 2005. Tree Improvement: Alternative visions for the next decade. Southern Journal of Applied Forestry 29(2): 88- 95. Bridgwater, F. E., T. Kubisiak, T.D. Byram, and S. E. McKeand. 2005. Risks management with current deployment strategies for genetically improved loblolly and slash pines. Southern Journal of Applied Forestry 29(2): 80-87. Myszewski, J. H., F. E. Bridgwater, and T. D. Byram 2003. Determination of the minimum number of stool bed ortets required to capture a desirable genotype from full-sib family crosses. Southern Journal of Applied Forestry 27(3): 160-206. McKeand, S., T. Mullin, T Byram, and T White. 2003. Deployment of genetically improved loblolly and slash pine in the south. J. For. 101(3): 32-37.
Invited presentations.
Byram, T.D., N. Wheeler, E.M. Raley, J.W. Richardson. 2011. Evaluating Alternative Forest Tree Breeding Strategies: A simulation Approach. International Symposium: Genomics- Based Breeding in Forest Trees. 22-24 June 2011. Davis, CA USA. Byram, T.D., S. McKeand, R. Whetten, F. Isik, D. Huber, G. Howe, N. Wheeler, C. D. Nelson, B. St. Clair, J. Wegrzyn, and D. Neale. 2011. Conifer Translational Genomics Network: Bringing genomics based breeding to application. Proc. 31st S. For. Tree Impr. Conf. pp. 73. McKeand, S.E., B.J. Zobel, T.D. Byram, and D.A. Huber. 2007. Southern Pine Tree Improvement – A Living Success Story. Joint Meeting of the Southern Forest Tree Improvement Committee and the Western Forest Genetics Association. Galveston, TX, June 19-22. Proc. 29th S. For. Tree Impr. Conf. pp. 3-5. Byram, T.D. and W.J. Lowe. 2007. Economic Orchard Replacement: The Advancing-Front Orchard and its Implications for Group Merit Selection and Half-Sib Family Forestry in the Southern USA. Seed Orchard Conference, Umeå, Sweden, September 26-28, 2007. Byram, T.D. and E. McCall. 2007. Tree Improvement: Who should pay and how do we organize? Society of American Foresters National Convention, Portland Oregon, Oct 23- 26. Genetics and Tree Imp. Working Group. Byram, T.D. 2006. The future of tree improvement: So what happens next? Inland Empire Tree Improvement Cooperative Annual Meeting: Silviculture and Genetics in a Changing World. Feb. 15, 2006. Coeur ‘d Alene, ID. van Buijtenen. J.P. and T.D. Byram 2005. A random walk through the history of breeding for wood quality. 28th Southern Tree Improvement Conference. In press. Myszewski, J., T. D. Byram, and F Bridgwater. 2005. Parameter estimation for stochastic simulation of multiple traits over more than one generation. North American Quantitative Forest Genetics Group. Presentation. Byram, T.D., J. H. Myszewski, D. P. Gwaze, W. J. Lowe. 2004. Improving wood quality in the Western Gulf Forest Tree Improvement Program: The problem of multiple breeding objectives. In. Li, B. and S. McKeand, eds. Forest Genetics and Tree Breeding in the Age 3
of Genomics: Progress and Future, IUFRO Joint Conference of Division 2. Nov. 1-4, 2004. Charleston, SC. pp. 347-358. McKeand, S. E., E. J. Jokela, D. A. Huber, T. D. Byram, H. L. Allen, B. Li, and T. J. Mullin. 2004. Performance of improved genotypes of loblolly pine across different soils, climates and silvicultural inputs. Long-term site productivity of loblolly pine plantations in the southern United States. July 12-13, 2004, New Orleans Louisiana. White, T. L. and T. D. Byram. 2004. Slash pine tree improvement. In: E.D. Dickens, J.P. Barnett, W.G. Hubbard and E.J. Jokela (Editors). Slash Pine Symposium General Technical Report-2003. Gen. Tech. Rep. SRS-76. Asheville, NC: U.S. Department of Agriculture, Forest Service, Southern Research Station. pp. 7-19.
Volunteer presentations.
Koralewski, T.E., T.D. Byram, E.M. Raley. 2013. A climate change response function for loblolly pine (Pinus taeda) from the Western Gulf region of the United States. IUFRO Working Group 2.02.20, Feb 4-7 Jacksonville, FL. Chhatre, V.D., T. D. Byram, D.B. Neale, J.L. Wegrzyn, K.V. Krutovsky. 2011. Association mapping of adaptive and breeding traits in east Texas loblolly pine (Pinus taeda L.) breeding populations using high-density SNP genotyping. Proc. 31st S. For. Tree Impr. Conf. pp. 19-22. Byram, T.D., E.M. Raley, and D.P. Gwaze. 2007. Performance of Nuttall Oak (Quercus texana Buckl.) provenances at age 10 in the Western Gulf Region. Joint Meeting of the Southern Forest Tree Improvement Committee and the Western Forest Genetics Association. Galveston, TX, June 19-22. Proc. 29th S. For. Tree Impr. Conf. pp. 28-38. Raley, E.M., J.H. Myszewski, and T.D. Byram. 2007. The potential of acoustics to determine family differences for wood quality in a loblolly pine trial. Joint Meeting of the Southern Forest Tree Improvement Committee and the Western Forest Genetics Association. Galveston, TX, June 19-22. Proc. 29th S. For. Tree Impr. Conf. pp. 49-55. Myszewski, J. H., T. D. Byram, and F. Bridgwater. 2005. Parameter-based stochastic simulation of selection and breeding for multiple traits. Poster. 13th Biennial Southern Silvicultural Conference. February 28-March 4. Memphis TN. Byram, T.D., A.C. Mangini, S.E. McKeand. 2003. Cone and seed insect pest research: The role of the southwide studies. Proc 27th S. For.Tree Imp. Conf. Stillwater, OK. pp. 116-125. Bridgwater. F.E., C.D. Nelson, T.D. Byram, T.L. Kubisiak, C. Young, and R.L. Doudrick. 2003. Development of differential screening panels for slash pine-fusiform rust reaction types. Abstract in Proc 27th S. For. Tree Imp. Conf. Stillwater, OK. p. 60. Gwaze, D.P., T.D. Byram and E.M. Raley. 2003. Performance of Nuttall oak (Quercus texana Bukl.) provenances in the western gulf region. Proc. 27th S. For Tree Imp. Conf., Stillwater, OK. pp. 126-137. Raley, E.M, D.P. Gwaze, and T.D. Byram. 2003. An evaluation of height as an early selection criterion for volume and predictor of site index gain in the western gulf. Proc. 27th S. For Tree Imp. Conf., Stillwater, OK. pp. 45-55.
4
Luis Cisneros-Zevallos, Ph.D. Associate Professor Department of Horticultural Sciences Food Science Graduate Program Director-Plant Bioactives & Bioprocessing Research Laboratory Texas A&M University College Station, Texas 77843-2133 Phone: 979-8453244 Fax: 979 -8450627 E-mail: [email protected]
Research Program Research interest includes two major areas, a) drug discovery of bioactive compounds with health promoting properties against chronic diseases from commercial and native crops and, b) post-harvest biology of crops including the biosynthesis of secondary metabolites under stress conditions and the interaction between microorganisms and plant surfaces.
Academic Background Doctor of Philosophy, Food Science. University of California, Davis, 1998. Department of Food Science and Technology Master of Science, Food Science. University of California, Davis, 1995. Department of Food Science and Technology Engineer, and Bachelor of Science, Food Industries Engineering National Agrarian University - La Molina, Lima, Peru, 1988 Department of Food Industries Engineering
Professional Experience 2004-present Department of Horticultural Sciences, Texas A&M University, College Station. Associate Professor. 1998-2004 Department of Horticultural Sciences, Texas A&M University, College Station. Assistant Professor. 1992-1998 Department of Food Science and Technology, University of California, Davis. Research Assistant. 1988-1991 Department of Food Engineering, National Agrarian University – La Molina, Peru. Teaching Instructor.
Relevant Refereed Publications since 2009 Heredia B and Cisneros-Zevallos L. 2009. The effect of exogenous ethylene and methyl jasmonate on PAL activity, phenolic profiles and antioxidant capacity of carrots (Daucus carota L.) under different wounding intensities. Postharvest Biology & Technology, 51: 242-249. Heredia B and Cisneros-Zevallos L. 2009. The effect of exogenous ethylene and methyl jasmonate on the accumulationof phenolic antioxidants in selected whole and wounded fresh produce. Food Chem. 115: 1500-1508. Zevillanos R, Cisneros-Zevallos L and Cisneros FH. 2009. Characterization of starch from two ecotypes of Andean achira roots (Canna edulis). J. Agric. Food Chem. accepted. Jacobo-Velazquez D and Cisneros-Zevallos L. 2009. Correlations of antioxidant activity againts phenolic content revisited: A new approach in data analysis for food and medicinal plants. J Food Sci. accepted. Villarreal E, Lombardini L and Cisneros-Zevallos L. 2009. Electron beam irradiation effects on phytochemical constituents and antioxidant capacity of pecan kernels [Carya illinoinensis (Wangenh.) K. Koch] during storage. J. Agric. Food Chem. Accepted. Malik N, Perez J, Lombardini L, Cornacchia R, Cisneros-Zevallos L and Bradford J. 2009. Phenolic compounds and fatty acid composition of organic and conventional grown pecan kernels. J Sci Food Agric. accepted. Nihal R, He C, Cisneros-Zevallos L and Davies F. 2009. Hypobaria and hypoxia affects growth and phytochemical contents of lettuce. Scientia Horticulturae 122: 171-178.. Cevallos-Casals, B and Cisneros-Zevallos L. 2009. Impact of germination on phenolic content and antioxidant activity of 13 edible seed species. Food Chemistry, accepted. Jacobo-Velazquez, D. A. Hernandez-Brenes, C. Cisneros-Zevallos, L. Benavides, J. 2010. Partial purification and enzymatic characterization of avocado (Persea americana Mill, cv. Hass) lipoxygenase. Food Research International, 43, 4: 1079-1085. Feng, Y., Cao, C.M., Vikram, M., Park, S., Kim, H.J., Hong, J.C., Cisneros-Zevallos, L., and Koiwa, H. 2011. A Three-Component gene expression system and its application for inducible flavonoid overproduction in transgenic arabidopsis thaliana. PLoS One 6, e17603. Jacobo-Velazquez, D; Martinez-Hernandez G, Rodriguez S, Cao CM and Cisneros-Zevallos, L. 2011. Plants as biofactories: Physiological role of reactive oxygen species on the accumulation of phenolic antioxidants in carrot tissue under wounding and hyperoxia Stress. J. Agric. Food Chem. accepted. Puerta-Gomez and Cisneros-Zevallos, L. 2011. Postharvest studies beyond fresh market eating quality: Phytochemical antioxidant changes in peach and plum fruit during ripening and advanced senescence. Postharvest Biology & Technology, 60: 220-224. Becerra-Moreno A, Benavides J, Cisneros-Zevallos, L and Jacobo-Velazquez D. 2012. Plants as biofactories: Glyphosate-induced production of shikimic acid and phenolic antioxidants in wounded carrot tissue. J. Agric. Food Chem. 60 (45): 11378-86 Jacobo-Velazquez D and Cisneros-Zevallos, L. 2012. An alternative use of horticultural crops: stressed plants as biofactories of bioactive phenolic compounds. Agriculture, 2, 259-271. Zhang M, Ann Ellis E, Cisneros-Zevallos L and Akbulut M. 2012. Uptake and translocation of polymeric nanoparticulate drug delivery systems into ryegrass. RSC Adv, 2, 9679-9686. Perez KL, Lucia LM, Cisneros-Zevallos L, Castillo A and Taylor TM. 2012. Efficacy of antimicrobials for the disinfection of pathogen contaminated green bell pepper and of consumer cleaning methods for the decontamination of knives. Int J Food Microbiol, 156, 1, 76-82. He C, Jacobo-Velazquez D, Cisneros-Zevallos L and Davies T. 2012. Hypobaria and hypoxia affects phytochemical production, gas exchange, and growth of lettuce. Photosynthetica, accepted. Surjadinata B and Cisneros-Zevallos, L. 2011. Biosynthesis of Phenolic Antioxidants in Carrot Tissue Increases with Wounding Intensity . Food Chem. Accepted.
CURRICULUM VITAE
NAME: J. Tom Cothren
CURRENT TITLE: Professor of Agronomy Department of Soil and Crop Sciences Texas A&M University, College Station, Texas 77843-2474 (979) 845-0360, FAX (979) 845-0456
EDUCATION: B.S. (Chemistry), East Central University, Ada, OK 1966 M.S. (Natural Sciences), Oklahoma State University, Stillwater, OK 1970 Ph.D. (Plant Physiology), Oklahoma State University, Stillwater, OK 1970
PROFESSIONAL AND ACADEMIC APPOINTMENTS:
Graduate Assistant, Oklahoma State University, 1966-1967 NDEA Fellow, Oklahoma State University, 1967-1970 Postdoctoral Research Associate, University of Arkansas, 1970-1976 Assistant/Associate Professor of Agronomy, University of Arkansas, 1976-1982 Associate Professor/Professor of Agronomy, Texas A&M University, 1982-Present
PROFESSIONAL ACTIVITIES AND RECOGNITION:
NDEA Doctoral Fellowship, Oklahoma State University, Stillwater (1967-1970) American Society of Agronomy, Membership Committee Chair, Arkansas (1977-1982) Plant Growth Regulator Society of America, Vice President (1981-1982) Plant Growth Regulator Society of America, President (1982-1983) Plant Growth Regulator Society of America, Steering Committee, (1981-1984) Chairman of Cotton Physiology Conferences, Beltwide Cotton Research Prod. Conf. (1987) Executive Committee, Plant Physiology Faculty, TAMU (1986-1988) Award in Excellence Program, Team Research, TAES (1989) Chair of the C-3 Division (Crop Production) of American Society of Agronomy (1990) Executive Committee Cotton Physiology Conference, (1994-1996) Biosphere 2 Science Consortium, (1994-1996) Fellow of American Society of Agronomy (1996) Fellow of Crop Science Society of America (1997) Special Achievement Award for Teaching, TAMU (1997) Outstanding Research Award in Cotton Physiology, Beltwide Cotton Physiology Conf. (2000)
PROFESSIONAL ORGANIZATIONS:
American Society of Plant Biologists American Society of Agronomy Crop Science Society of America Plant Growth Regulation Society of America Sigma Xi
PROFESSIONAL SOCIETY OFFICES HELD, SOCIETY COMMITTEES
a. American Society of Agronomy 1) Chaired session of C-3 at National American Society of Agronomy Meetings, Anaheim, CA. 1988. 2) Organized and chaired symposium on "Efficient Water Use in Crops" for C-3 division at National American Society of Agronomy Meetings, Las Vegas, NV. 1989. 3) Member of A439 Werner L. Nelson Award for Diagnosis of Yield-Limiting Factors. 1992, 1993. 4) American Society of Agronomy, 1991-C101, Committee in President-Elect Nomination, Member.
INTERNATIONAL INVOLVEMENT:
Invited to submit article on "Future of growth regulation of cotton" by the British Plant Growth Regulator Group for publication in the British PGR Bulletin. 1980. Invited presentation on "Mepiquat chloride research in cotton" to BASF Herbicide and PGR Research Conference. March, 1982. Limburgerhof, Germany. Attended joint session of the Japanese Growth Regulator Society and the Plant Growth Regulator Society of America. Honolulu, HI. 1987. Invited presentation on “PGR Use in Cotton” to plenary session of the 1st World Cotton Research Conference. Brisbane, Australia 1995. Oosterhuis, D.M., K. Kosmidou and J.T. Cothren. 1998. Managing cotton growth and development with growth regulators. p. 13. Abst. of World Cotton Conference 2. Sept. 6-12, 1998. Athens, Greece.
SELECTED PUBLICATIONS:
Books: Smith, C.W., and J.T. Cothren (eds.). 1999. Cotton: Origin, History, Technology, and Production. John Wiley & Sons, Inc., New York, NY. 850 pp.
Book Chapters: da Costa, V. and J.T. Cothren. 2012. Cotton flowering and fruiting: control and modification with plant growth regulators, Chapter 7 in D.M. Oosterhuis and J.T. Cothren (ed.), Flowering and Fruiting in Cotton. The Cotton Foundation. Cordova, Tennessee, p. 79-108.
Cothren, J.T. and D.M. Oosterhuis. 2010. Use of growth regulators in cotton production. In Physiology of Cotton. J.M. Stewart, D.M. Oosterhuis, J.J. Heitholt and J.R. Mauney (eds.). Springer, pp.289-303
Cothren, J.T., and D.M. Oosterhuis. Use of plant growth regulators in cotton. In Cotton Physiology. Stewart, J.M., D. Oosterhuis, and J.J. Heitholt (eds.). Kluwer Publisher. 2006.
Cothren, J.T., C.O. Gwathmey, and R.B. Ames. 2001. Physiology of cotton defoliation and desiccation. Chapter 2. In Cotton Harvest Management: Use and Influence of Harvest Aids. Number Five. The Cotton Foundation Reference Series. J.R. Supak and C.E. Snipes (eds.). pp. 21-55.
Crawford, S.T., J.T. Cothren, and D.E. Sohan. 2001. The history of cotton harvest aids. Chapter 1. In Cotton Harvest Management: Use and Influence of Harvest Aids. Number Five. The Cotton Foundation Reference Series. J.R. Supak and C.E. Snipes (eds.). pp. 1-19.
Cothren, J.T., J.E. Matocha, and L.E. Clark. 2000. Integrated crop management for sorghum. In Sorghum: Origin, History, Technology, and Production. Wiley Crop Science Series. John Wiley and Sons, Inc. C.W. Smith and R.A. Fredriksen (eds.). pp. 409-441.
Cothren, J.T. 1999. Cotton Physiology. Chapter 2.2 In Cotton: Origin, History, Technology, and Production. Wiley Crop Science Series. John Wiley and Sons, Inc. New York, NY. pp. 207-268.
Recent Refereed Publications:
Wen, Y., D.L. Rowland, G. Piccinni, J.T. Cothren, D.I. Leskovar, A.R. Kemanian, and J.D. Woodard. 2013. Lint yield, lint quality, and economic returns of cotton production under traditional and regulated deficit irrigation schemes in Southwest Texas. J. of Cotton Science 17:10-22.
Husmoen, D., D.M. Vietor, F.M. Rouquette, Jr., and J.T. Cothren. 2012. Variation of responses to water between ‘Tifton 85’ and ‘Tifway’ or ‘Coastal’ Bermudagrass. Crop Sci. 52(5):2385-2391.
Mohammed, A.R., J.T. Cothren, and L. Tarpley. 2012. High night temperature and abscisic acid affect rice productivity through altered photosynthesis, respiration and spikelet fertility. Submitted to Crop Sci. (In Revision).
Chen, Y., Y. Wen, Y. Chen, J.T. Cothren, X. Zhang, Y. Wang, W.A. Payne, and D. Chen. 2012. Effects of extreme air temperature and humidity on the insecticidal expression level of Bt cotton. 2012. J. of Integrative Agriculture. 11:1836-1844. da Costa, V.A. and J.T. Cothren. 2011. Drought effects on gas exchange, chlorophyll, and plant growth of 1-methylcyclopropene treated cotton. Agron. J. 103: 1230-1241. da Costa, V.A., J.T. Cothren, and J.B. Bynum. 2011. Abiotic stress effects on plant growth and yield components of 1-MCP treated cotton plants. Agron. J. 103: 1591-1596.
Lin, M., T.W. Starman, Y. Wang, G. Niu, and J.T. Cothren. 2011. Deferring flowering of nobile dendrobium hybrids by holding plants under low temperature after vernalization. Scientia Horticulturae. 130:869-873.
Cottee, N.S., D.K.Y. Tan, M.P. Bange, J.T. Cothren, and L.C. Campbell. 2010. Multi-level determination of heat tolerance in cotton (Gossypium hirsutum L.) under field conditions. Crop Sci. 50 (6): 2553-2564.
Viator, R.P., C.O. Gwathmey, J.T. Cothren, J.T. Reed, E.D. Vories, R.C. Nuti, K.L, Edmisten and R. Wells. 2008. Influence of ultranarrow row and conventional row cotton on the last effective boll population. Agron. J. 100:1327-1331.
Bynum, J.B. and J.T. Cothren. 2008. Indicators of last effective boll population and harvest aid timing in cotton. Agron. J. 100:1106-1111.
Clawson, E.L., J.T. Cothren, D.C. Blouin and J.L. Satterwhite. 2008. Timing of maturity in ultra- narrow and conventional row cotton as affected by nitrogen fertilizer rate. Agron. J. 100:421-431. Name: Harry T. Cralle Rank: Associate Professor Unit: Department of Soil and Crop Sciences Appointment: 100% teaching, College of Agriculture Date of appointment: July 15, 1983
Education 1983 Ph.D. Dept. of Agronomy and Plant Genetics Agronomy University of Minnesota 1979 M.S. Dept. of Agronomy and Plant Genetics Agronomy University of Minnesota 1977 B.S. (High Honors) Department of Agriculture Plant and Soil Science Illinois State University 1972-4 Graduate Studies Department of Philosophy Philosophy De Paul University 1972 B.A. (Magna Cum Laude) Department of Philosophy Philosophy Loyola University (Chicago)
Teaching
SCSC 105: World Food and Fiber Crops (3 credit hours) Fall and Spring Semester Enrollment of about 130 students per semester Two lecture sections each with two lectures/week and ten total labs per semester Supervision of five lab instructors per semester Approved to satisfy three credit hours of the Science Credit requirement of the TAMU Core Curriculum
SCSC 201: Great Plains Settlement & Farming (3 credit hours) Fall Semester Enrollment of about 70 students per semester
SCSC 330: Social and Ethical Aspects of International Cropping Systems (3 credit hours) Spring Semester Enrollment of about 60 students per semester
SCSC 613: Ethical Aspects of International Cropping Systems (3 credit hours) Online only Summer Semester Enrollment of five or more students
Publications
Refereed journal articles published: Cralle, H.T. T.B. Fojtasek, K.H. Carson, J.M. Chandler, T.D. Miller, S.A. Senseman, R.W. Bovey, and M. J. Stone. 2003. Wheat (Triticum aestivum) and ryegrass (Lolium multiflorum) competition as affected by phosphorus nutrition. Weed Sci. 51:425-429.
Stone, M.J., H.T. Cralle, J.M. Chandler, T.D. Miller, and R.W. Bovey. 1999. Wheat yield loss in response to Italian ryegrass in diverse environments. J. Prod. Agric. 12:229- 231.
Carson, K.H., H.T. Cralle, J.M. Chandler, T.D. Miller, R.W. Bovey, S.A. Senseman, and M.J. Stone. 1999. Triticum aestivum and Lolium multiflorum interaction during drought. Weed Sci. 47:440-445.
Pace, P.F., H.T. Cralle, J.T. Cothren, and S.A. Senseman. 1999. Photosynthate and dry matter partitioning in short- and long-season cotton cultivars. Crop Sci. 39:1065-1069.
Pace, P.F., H.T. Cralle, Sherif H. M. El-Halawany, J.T. Cothren, and S.A. Senseman. 1999. Drought-induced changes in shoot and root growth of young cotton plants. The Journal of Cotton Science 4:1-5.
Pace, P.F., S.A. Senseman, M.L. Ketchersid, and H.T. Cralle. 1999. Supercritical fluid extraction and solid-phase extraction of AC 263,222 and imazethapyr from three Texas soils. Arch. Environ. Contam. Toxical. 37:440-444.
Bovey, R. W., P. F. Pace, and H. T. Cralle. 1998. Effect of hand defoliation on herbicide efficacy in honey mesquite. J. Range Manage. 51:432-435
Stone, M. J., H. T. Cralle, J. M. Chandler, T. R. Miller, and K. H. Carson. 1998. Above and below ground interference of wheat by Italian ryegrass (Lolium multiflorum). Weed Sci. 46:438-441
Cralle, H. T. and R. W. Bovey. 1996. Total nonstructural carbohydrates and regrowth in honey mesquite (Prosopis glandulosa) Weed Science 44:566-569.
Vietor, D.M., H. T. Cralle, and M. Chandler. 1992. Science, technology and systems: a hierarchy of inquiry. Weed Technology 6:452-461.
Vietor, D. M., F. R. Miller, and H. T. Cralle. 1990. Nonstructural carbohydrates on axillary branches and main stem of senescent and nonsenescent sorghum types. Crop Science 30:97-100.
Vietor, D. M., H. T. Cralle, and F. R. Miller. 1989. Partitioning of 14C-photosynthate and biomass in relation to senescence characteristics of Sorghum bicolor (L.) Moench. Crop Science 29: 1049-1053.
Cralle, H. T. and G. H. Heichel. 1988. Photosynthate partitioning in alfalfa before harvest and during regrowth. Crop Science 28:948-953.
Cralle, H. T., G. H. Heichel, and D. K. Barnes. 1987. Photosynthate partitioning in plants of alfalfa population selected for high and low nodule mass. Crop Science 27:96- 100.
Cralle, H. T. and G. H. Heichel. 1986. Photosynthate and dry matter distribution in effectively and ineffectively nodulated alfalfa. Crop Science 26:117-121.
Cralle, H. T. and G. H. Heichel. 1985. Interorgan photosynthate partitioning in alfalfa. Plant Physiology 79:381-385.
Cralle, H. T. and G. H. Heichel. 1982. Temperature and chilling sensitivity of nodule nitrogenase activity of unhardened alfalfa. Crop Science 22:300-304.
Cralle, H. T. and G. H. Heichel. 1981. Nitrogen fixation and vegetative regrowth of alfalfa and birdsfoot trefoil after successive harvests or floral debudding. Plant Physiology 67:898-905.
Books:
Cralle, H. T. 1991. Agronomy: World Food Supply, Modern Crop Production, Biotechnology. Perege Press, Geneva, WI. 315 pp.
Cralle, H. T. and T. Barr. 1991. Advanced Plant and Soil Science. Instructional Material Services. T.A.M.U. 400 pp.
Cralle, H. T. 1986. Agronomy: The Science and Technology of Crop Growth, Breeding, and Production. Paladin House, Geneva, WI. 358 pp.
Cralle, H. T. 1986. Agronomy: From World Hunger to Biotechnology. Pereage Press, Geneva, WI. 265 pp.
Cralle, H. T. 1986. Instructor's Guide to Agronomy. Paladin House, Geneva, WI. 55 pp.
Book Chapters:
Vietor, D. M. and H. T. Cralle. 1990. Comparison: Stage 5 of the soft systems approach. In Systems Approaches for Improvement in Agriculture and Resource Management by Kathleen Wilson and G. E. B. Morren, Jr. Macmillan Publishing Co., NY
Cralle, H. T. and D. M. Vietor. 1989. Solar Energy. In Biomass Handbook. Ed. by C. W. Hall and A. Kitani. Gordon and Breach Publishers, NY.
Heichel, G. H., R. H. Delaney, and H. T. Cralle. 1988. Carbon assimilation, partitioning, a n d u tilization. In Alfalfa Science and Technology. Ed. by D. K. Barnes and R. R. Hill. American Society of Agronomy, Madison, WI.
Dr. Fred T. Davies
Fred Davies is a Regents Professor, Dept. of Horticultural Sciences, faculty of Molecular and Environmental Plant Sciences, and AgriLife Research Faculty Fellow at Texas A&M University. He received a B.A. and M.S. from Rutgers University, and a PhD in Horticultural Sciences and Plant Physiology from the University of Florida. He has been a Visiting Scientist at the USDA Horticultural Crops Laboratory (Oregon), CINVESTAV Plant Biology Institute (Mexico) and International Potato Center (Peru). He has also been a Visiting Professor at Oregon State University, Monterrey Tech. Univ. (Mexico), National Agrarian University of Peru, and Bogor Agricultural University [IPB (Indonesia)]. He has taught courses in plant propagation, and nursery production and management since 1979. He chaired the graduate seminar program for 23 years. He has co-authored some 13 teaching manuals, publications and books including the last 4 editions of Hartmann and Kester’s Plant Propagation-Principles and Practices, which is the world-wide standard for propagation texts. He has co-authored over 150 research and technical publications.
He is currently on a one-year assignment (funded by U.S. Dept. of State and TAMU) in Washington, D.C., as a Senior Science Advisor (Jefferson Science Fellow – National Academy of Sciences) at USAID, Bureau of Food Security / Office of Agricultural Research & Policy. He was a J.S Guggenheim Fellow, Fulbright Senior Fellow to Mexico, Peru and Indonesia, and Fellow of the International Plant Propagators’ Society. He is a Fellow of the American Society of Horticultural Sciences, ASHS. He received the Distinguished Achievement Award for Nursery Crops from the ASHS, L.M. Ware Distinguished Research Award-ASHS-SR and S.B. Meadows Award of Merit-International Plant Propagators Society-SR. He is a recipient of the Association of Former Students Distinguished Achievement Award for Teaching -TAMU, Chancellor of Agriculture’s Award in Excellence in Undergraduate Teaching –TAMU, L.M. Ware Distinguished Teaching Award, ASHS-SR, L.C. Chadwick Educator’s Award, American Nursery and Landscape Association and Norman Jay Coleman Research Award, ANLA. He was the International Division Vice-President of the ASHS. He was President and is currently Editor of the IPPS-SR. He was ASHS President and Chair of the ASHS Board of Directors.
His research has centered on: 1) plant stress (water, nutrition), 2) mycorrhizal effects on host plant physiology, 3) low-pressure controlled crop production systems for NASA, 4) developmental aspects of adventitious root formation — including tissue culture systems and plant acclimation and 5) ornamental crop production systems. http://aggie-horticulture.tamu.edu/faculty/davies/index.html
BIOGRAPHICAL SKETCH
NAME Paul de Figueiredo POSITION TITLE Associate Professor eRA COMMONS USER NAME (credential, e.g., agency login) PDEFIGUEIREDO EDUCATION/TRAINING (Begin with baccalaureate or other initial professional education, such as nursing, include postdoctoral training and residency training if applicable.) DEGREE INSTITUTION AND LOCATION MM/YY FIELD OF STUDY (if applicable) Rice University, Houston TX B.A. 1986 Mathematics & Political Science Stanford, Palo Alto CA M.A. 1989 Religious Studies Cornell, Ithaca NY Ph.D. 1997 Biochemistry, Molecular & Cell Biology MIT, Cambridge MA Postdoc 1998-1999 Vertebrate genetics U. Washington, Seattle WA Postdoc 2000-2005 Microbiology
A. POSITIONS AND HONORS PROFESSIONAL EXPERIENCE 1986-1987 Consultant, Arthur Anderson & Co. 1989-1991 Biologist, Clinical Hematology, NHLBI NIH 1999 Consultant, Neural Computing Systems, Inc. 2005 Asst. Professor, Department of Plant Pathology and Microbiology, Texas A&M University 2006 Member, Faculty of Genetics, Texas A&M University 2006 Member, Program in Biotechnology, Texas A&M University 2006 Member, Faculty of Molecular and Environmental Plant Sciences, Texas A&M University 2007 Member, Center for Microencapsulation and Drug Delivery, Texas A&M System 2007 Member, Program in the Biology of Filamentous Fungi, Texas A&M University 2007 Adjunct faculty, Department of Veterinary Pathobiology, Texas A&M University 2010 Investigator, Borlaug Center, Texas A&M University 2011 Assoc. Professor, Dept. of Plant Pathology and Microbiology, Texas A&M University 2011 Joint faculty, Dept of Microbial and Molecular Pathogenesis, Texas A&M Health Science Center 2013 Member, Faculty of Evolutionary and Ecology, Texas A&M University 2013 Assoc. Professor, Dept. of Microbial Pathogenesis and Immunology, Texas A&M Health Science Center
OTHER EXPERIENCE AND PROFESSIONAL ACTIVITIES 2004 Founder, AvanViva, Inc., a biotechnology company 2008, 2010 Panel Member, NSF Integrated and Organismal systems (IOS) 2008-2012 Panel Member, NIH Special Emphasis Panel/Scientific Review Group ZRG1 IDM-A, Intracellular bacterial pathogenesis 2009-2012 Panel Member, NSF Chemical, Bioengineering, Environmental, and Transport Systems (CBET) 2011 Panel Member, CDC-NIH Family History and Diamond Blackfan Anemia 2005-present Member, American Association for the Advancement of Science 2010-present Associate Editor, Frontiers in Cellular and Infection Microbiology 2011-present Member, American Society for Microbiology (ASM) 2011-present Member, American Society for Cell Biology (ASCB) 2011-present Member, American Chemical Society (ACS) 2013-present Associate Editor, Frontiers in Cell and Developmental Biology
SELECTED HONORS National Merit Scholar, Graduate Research Assistantship (Stanford), NIH Graduate Research Training Grant recipient (Cornell), Du Pont Teaching Prize (Cornell), Fuertes Writing Prize (Cornell), Biochemistry Teaching Prize (Cornell), The American Society for Cell Biology/Hybridon Predoctoral Travel Award (Cornell), Harvard
PHS 398/2590 (Rev. 06/09) Page Biographical Sketch Format Page
Biotechnology Business Plan Competition, Runner Up (Harvard Business School), MIT 50K Business Plan Competition. Semifinalist (MIT), Mexican American and Latino Research Center Fellow (Texas A&M), Alfred P. Sloan Foundation Minority Program Mentor (Texas A&M), Hispanic Leadership Program Mentor (Texas A&M), Oak Ridge Associated University Junior Faculty Award
B. SERVICE TEXAS A&M UNIVERSITY 2006-2013 Co-Director, Research Experience for Undergraduates, Texas A&M Agrilife Research 2008-present Faculty mentor, University Scholars Program 2009-2010 Chair, Seminar Committee, Plant Pathology and Microbiology 2009 Member, Biosafety Evaluation Sub-Committee, Council of Principal Investigators 2009-2012 Faculty Mentor, “Invisible Jungle”, a weekly National Public Radio broadcast 2009-2012 Member, Graduate Student Recruiting Committee, Faculty of Genetics 2009-2012 Member, Curriculum Committee, Biotechnology Program 2009-2012 Member, Graduate Admissions Committee, Molecular and Environmental Plant Sciences 2010-2012 Member, Internal Advisory Board, Norman Borlaug Center 2012 Graduate Advisor, Department of Plant Pathology and Microbiology 2012 Chair, Graduate Program Committee, Department of Plant Pathology and Microbiology 2012-present Member, Institutional Biosafety Committee
C. PUBLICATIONS (30 total, 1 in press, 1 in review)
SELECTED RECENT PUBLICATIONS 1. Qin QM, Pei J, Ancona V, Shaw BD, Ficht TA, de Figueiredo P. RNAi screen of endoplasmic reticulum- associated host factors reveals a role for IRE1a in supporting Brucella replication. PLOS PATHOG. 2008 Jul 25;4(7):e1000110 PMID: 18654626
2. Jupiter D, Ficht TA, Samuel J, Qin Q, de Figueiredo P. DNA watermarking of infectious agents: progress and prospects. PLOS PATHOG. 2010 Jun 17;6(6):e1000950. PMID: 20585560
3. Qin, Q, Luo J, Lin X, Pei J, Ficht TA, de Figueiredo P. Functional analysis of host factors that mediate Cryptococcus neoformans intracellular trafficking. PLOS PATHOG. 2011. Jun;7(6):e1002078. Epub 2011 Jun 16. PMID: 21698225
4. Bechler M., de Figueiredo P, Brown WJ. A PLA1-2 punch regulates the Golgi complex. TRENDS CELL BIOL. 2011 Nov 28, PMID: 22130221
5. Dickman MB, de Figueiredo P. Comparative pathobiology of pathogenic fungi of plants and animals. PLOS PATHOG. 2011. December; 7(12): e1002324. PMID: 22194681
6. Criscitiello M, de Figueiredo P. Fifty shades of immune defense. PLOS PATHOG. 2013 9(2): e1003110. doi:10.1371/journal.ppat.1003110 PMID: 23408882
7. Han A, Hou H, Li L, Kim HS, de Figueiredo P. Microfabricated devices in microbial bioenergy sciences. TRENDS IN BIOTECHNOL. 2013. pii: S0167-7799(12)00221-1. PMID: 23453527
8. Criscitiello M, Dickman MB, Samuel JE and de Figueiredo P. Tripping on acid: trans-Kingdom perspectives on biological acids in immunity and pathogenesis PLOS PATHOG. 2013. 9(7): e1003402. doi:10.1371/journal.ppat.1003402. PMID: 23874196
9. Dickman and de Figueiredo. Death be not proud––cell death control in host fungal interactions PLOS PATHOG. 2013. 9(9): e1003542. doi:10.1371/journal.ppat.1003542
10. Erbay C, Pu X, Choi W, Choi M-J, Ryu Y, Hou H, Lin F, de Figueiredo P, Yu C, and Han A. Tentacle-like Carbon Nanotube Electrodes for High-Performance Microbial Electrochemical Cells
PHS 398/2590 (Rev. 06/09) Page Biographical Sketch Format Page
NANO LETTERS. 2013. In review
11. Pandey, A., S. Li Deng, T.A. Ficht , de Figueiredo P. 2013. Drosophila S2 Cell Model of Brucella Infection: An Attractive Tool to Study Host-Pathogen Interactions. In Methods in Molecular Biology. Human Press (O’Callaghan, ed.) In press
D. RESEARCH SUPPORT Current support 1. The Bill & Melinda Gates Foundation (PI: de Figueiredo; co-PIs: McMurray, Ficht), Defeating antibiotic resistance before it emerges, 5/2012-11/2014
2. NSF DBI (PI: Gonzalez; co-PI: de Figueiredo), REU: The Plant-Microbe Interface, 4/2011-4/2014
3. The Bill & Melinda Gates Foundation (PI: Han; co-PI: de Figueiredo), Hybrid Microbial-Electrochemical System for Waste Utilization, 11/2011-6/2014
4. Defense Threat Reduction Agency (PI: Han; co-PI: de Figueiredo), Microfuidics Based High Throughput Analysis of Polymicrobial Interactions, 6/11-10/13
5. Texas A&M Genomics and Bioinformatics Seed Grant Program (PI: Ficht; co-PI: de Figueiredo), Subcellular pathogenomics, 7/2012-7/2013
6. Qatar National Research Fund (QNRF) (PI: Sadr; co-PI: Han; co-PI: de Figueiredo), Microfluidic Platforms for High-Throughput Screening of Microbes Utilizing Wastewater, 9/11/2012-9/10/2015
7. Texas A&M-–Weizmann Research Program (PI: Ficht, co-PIs: de Figueiredo, Elazar), Mechanisms mediating intracellular parasitism by Cryptococcus neoformans, 7/2012-7/2014
8. Texas A&M AgriLife Research (PI: de Figueiredo, co-PI: Dickman), A Universal Small Molecule System for the Non-lytic Secretion of Oils from Living Cells. 9/13-9/15
Prior support (last 3 years)
9. Shwachman Diamond Research Foundation (PI: de Figueiredo), Development of small molecule therapeutics for Shwachman Diamond Syndrome, 11/2011-4/2013
10. Leaf Energy, Inc. (PI: Dickman; co-PI: de Figueiredo), Microdiesel–– a next generation biofuel platform, 6/2012-6/2013
11. Congressionally Directed Medical Research Program (PI: de Figueiredo), Shwachman Diamond Syndrome: Linking Bone Marrow Failure to Global Acetylome Dysregulation, 11/2011-11/2012
12. NSF/CBET (PI: Paul de Figueiredo; co-PI: Han), Microbe-mediated electricity generation, 8/2009-8/2012
13. Shwachman Diamond Syndrome Foundation (SDSF) (PI: de Figueiredo), Development of small molecule therapeutics for Shwachman Diamond syndrome, 11/2010-11/2011
14. Diamond Blackfan Anemia Foundation (DBAF) (PI: de Figueiredo), Discovery of therapeutics for treating Diamond Blackfan Anemia. 5/2010-5/2011
15. Department of Defense Army Research Office (PI: de Figueiredo; co-PIs–– Samuel, Ficht, Rice-Ficht, Adams), Confocal microscopy instrumentation for biodefense research
16. USDA APHIS (PI: de Figueiredo; Appel, co-PI), Cyclic di-GMP regulation Xylella fastidiosa virulence, 3/2007-3/2010
PHS 398/2590 (Rev. 06/09) Page Biographical Sketch Format Page
17. NIH NIAID (PI: de Figueiredo), Microscopy for infectious disease research, 1/2010
18. NIH NIDDK (PI: de Figueiredo), Supplement for undergraduate research, 6/2009-8/2010
19. NIH MLPCN (PI: de Figueiredo), Drug discovery for bone marrow failure diseases, 6/2009-6/2011, No monies, resources only
20. NIH NIAID, (PI: de Figueiredo; co-PI: Ficht), Identification and analysis of host factors that support Brucella infection, 2/08-1/2010
21. NSF IOS (PI: de Figueiredo; co-PI: Ficht), Molecular analysis of Brucella host factors, 8/2008-8/2011
PHS 398/2590 (Rev. 06/09) Page Biographical Sketch Format Page Devarenne, Timothy - Page !1
Timothy P. Devarenne Present Posi on: Associate Professor, Department of Biochemistry & Biophysics, Molecular and Environmental Plant Sciences program, Texas A&M University Fields: - Signal transduc on and regula on of protein kinases involved in the control of plant cell death and plant-pathogen interac ons. - Molecular biology of algal hydrocarbon biosynthesis and algal cell biology. Educa on 2001-2006 Postdoctoral Fellow, Boyce Thompson Ins tute for Plant Research, Cornell University, Ithaca, NY, Field: Molecular Plant-Pathogen interac ons, Advisor: Gregory B. Mar n 1995-2000 Ph.D., University of Kentucky, Lexington, KY, Field: Plant Physiology/Molecular Biology/Biochemistry, Advisor: Joe Chappell 1991-1993 M.S., Michigan Technological University, Houghton, MI, Field: Plant Physiology, Advisor: John H. Adler 1987-1991 B.S., Michigan Technological University, Houghton, MI, Field: General Biology, Advisor: John H. Adler Professional Experience: 2012-present Associate Professor, Department of Biochemistry and Biophysics, Molecular and Environmental Plant Sciences program, Texas A&M University 2011 - 2012 Assistant Professor, TAMU Molecular and Environmental Plant Sciences program May 2009 Research Fellow, Japan Society for the Promo on of Science, Laboratory of Aqua c Natural Products Chemistry, Graduate School of Agricultural and Life Sciences, The University of Tokyo May 2007 Visi ng Scien st, Laboratory of Marine Biochemistry, Graduate School of Agricultural and Life Sciences, The University of Tokyo 2006 - 2012 Assistant Professor, Department of Biochemistry and Biophysics, Texas A&M University 2001 – 2006 Postdoctoral Fellow, Boyce Thompson Ins tute for Plant Research 2000 Visi ng Scien st, Laboratory of Marine Biochemistry, Graduate School of Agricultural and Life Sciences, The University of Tokyo 1995 – 2000 Graduate Research Assistant, Agronomy Department, University of Kentucky 1994 – 1995 Research Technician, Biology Department, DePaul University 1993 – 1994 Research Technician, Biology Department, Michigan Technological University 1991 – 1993 Graduate Research Assistant, Biology Department, Michigan Technological University 1991 Summer Research Internship, CIBA-GEIGY (now Syngenta), Research Triangle Park, North Carolina 1990 Summer Research Internship, CIBA-GEIGY (now Syngenta), Research Triangle Park, North Carolina 1988 – 1991 Undergraduate Student Researcher, Biology Department, Michigan Technological University Current Research Funding: • Regula on of tomato cell death by the protein kinase Adi3 during resistance to Pseudomonas syringae. USDA-NIFA-AFRI, Understanding Plant-Associated Microorganisms Devarenne, Timothy - Page !2
and Plant-Microbe Interac ons. Role: PI. Funding period: 11.15.2013-11.14.2016. Total funding: $371,294 • The nuclear role of the plant cell death suppressor Adi3. NSF-MCB-Systems and Synthe c Biology #1244068. Role: PI. Funding period: 09.01.2013-08.31.2014. Total funding: $134,869; Devarenne total funding: $84,346. • Characteriza on of defense mechanisms in the green microalga Botryococcus braunii. Texas A&M University - Na onal Council of Science and Technology, México (Consejo Nacional de Ciencia y Tecnología, CONACYT) Collabora ve Research Grant Program. Funding Period: 01.14.2013-12.31.2013. Total Funding: $24,000; Devarenne total funding: $6,000. • Microalgae lab-on-chip photobioreactor pla orm for gene c screening and metabolic analysis leading to scalable biofuel produc on. NSF-EFRI-PSBR #1240478. This is a group of 5 PIs. Role: Co-PI. Funding period: 08.15.2012-08.14.2016. Total funding: $2,000,000; Devarenne total funding: $540,000. • Synthe c crops for direct drop-in biofuel produc on through rerou ng photosynthe c intermediates and engineering terpenoid pathways. DOE-ARPA-E-PETRO. #DE-AR0000203. This is group of 8 PIs. Role: Co-PI. Funding period: 02.15.2012-02.14.2015. Total funding: $1,800,000; Devarenne total funding: $204,832. Professional Development/Involvement: Chair, Phosphoregula on Minisymposium, ASPB annual mee ng 2010. Montréal, Canada. Sabba cal host for Dr. Robb VanPu e, McKendree University, October-November, 2009. Sabba cal host for Dr. Edmundo Lozoya-Gloria, CINVESTAV Unidad Irapuato, México, planned for 2014. Grant review panel member for USDA-NIFA-AFRI, NSF-IOS. Manuscript reviewer for: African Journal of Biotechnology (’11), Applied Energy (’11), Archives of Biochemistry and Biophysics (’07), Biochimica Biophysica Acta - Molecular and Cell Biology of Lipids (’12), Biologia - Cellular & Molecular Biology (’13), European Journal of Phycology (’12), FEBS le ers (‘10), FEMS Microbiology Le ers (’07), Interna onal Journal of Molecular Science (’10), Journal of Agriculture & Food Chemistry (’07), Journal of Biological Chemistry (’06, ’08, ’10, ’11), Journal of Environmental & Analy cal Toxicology (’12), Journal of Experimental Botany (’13), Journal of Phycology (’02), Journal of Plant Research (’12), Journal of Proteome Research (’12), Molecular Biology of the Cell (‘02), Molecules (’12), New Phytologist (’12), Phytochemistry (’08), Plant Cell (’03, ’08), Plant Cell Reports (’09), Plant Growth Regula on (’07), The Plant Journal (’02-’05), Plant Molecular Biology (’08), Plant Physiology (’09, ’11), Plant Physiology & Biochemistry (’12), PLoS One (’11, ’12, ’13), PLoS Pathogens (’10, ’11). Grant Proposal Reviewer for: Hungarian Scien fic Research Fund (’12), Kentucky Science & Engineering Founda on (’10), Natural Sciences and Engineering Research Council of Canada (’07), Na onal Science Founda on (’04, ’06, ’12, ’13), Netherlands Organiza on for Scien fic Research (’07), Polish Na onal Science Center (’13), United States-Israel Bina onal Science Founda on (’04), USDA-CSREES-NRI (’03, ’04), USDA-NIFA-AFRI (’10). Member of American Society of Plant Biologists (ASPB) since 1991. Member of the Japan Society for the Promo on of Science USA Alumni Associa on since 2011. Execu ve Commi ee member, Japan Society for the Promo on of Science USA Alumni Associa on, 2013. Departmental Ac vi es: Department of Biochemistry and Biophysics Seminar Chairman, 2007-present. Devarenne, Timothy - Page !3
Faculty advisor, Biochemistry Graduate Associa on, 2007-2009. Graduate Program Commi ee member, 2008-present. Faculty search commi ee, Center for Phage Technology Assistant Professor Posi ons, Fall 2012. Chair, Departmental Awards Commi ee, 2013-present Teaching at TAMU: BICH 303, Elements of Biological Chemistry, Fall 2007, Spring 2009, 2010, 2011, 2012, 2013; 3 credits BICH 407, Horizons in Biological Chemistry II The Biochemistry and Ethics Behind Current Biofuels, Fall 2008, 2009, 2010, 2011, 2012, 2013; 1 credit BICH 671, Molecular Biophysics journal club, Spring 2008, Fall 2008; 1 credit BICH 675, Plant Biochemistry and Genomics journal club, every semester, Spring 2008 - present; 1 credit Publica ons (*Devarenne as corresponding author; †postdoctoral researcher, #graduate student, §undergraduate, or ¶research technician in Devarenne lab) out of 32 total: 1.Gray JW#, Nelson Di rich AC#, Chen S, Avila J#, Giavalisco P, Devarenne TP* (2013) Two Pdk1 phosphoryla on sites on the plant cell death suppressor Adi3 contribute to substrate phosphoryla on. Biochim Biophys Acta - Proteins Proteom. 1834:1099-1106. (Published online March 16, 2013). 2.Avila J# and Devarenne TP* (2013) Ubiqui na on of the tomato cell death suppressor Adi3 by the RING E3 ubiqui n ligase AdBiL. Biochem. Biophys. Res. Commun. 430:119-124. (Published online November 22, 2012). 3.Weiss TL#, Roth R, Goodson C, Vitha S, Black I, Azadi P, Rusch J, Holzenburg A, Devarenne TP*, Goodenough U* (2012) Colony organiza on in the green alga Botryococcus braunii (Race B) is specified by a complex extracellular matrix. Eukaryo c Cell. 11:1424-1440. (Devarenne and Goodenough co-corresponding authors. Cover image/ar cle for December 2012 issue. Published online August 31, 2012). 4.Molnár I, Lopez D, Wisecaver JH, Devarenne TP, Weiss TL#, Pellegrini M, Hacke JD (2012) Bio- crude transcriptomics: Gene discovery and metabolic network reconstruc on for the biosynthesis of the terpenome of the hydrocarbon oil-producing green alga, Botryococcus braunii race B (Showa). BMC Genomics. 13:576. 5.Avila J#, Gregory OG, Su D#, Deeter TA§, Chen S, Silva-Sanchez C, Xu S, Mar n GB, Devarenne TP* (2012) The β-subunit of the SnRK1 complex is phosphorylated by the plant cell death suppressor Adi3. Plant Physiol. 159:1277-1290. (published online May 9, 2012; recommended by Faculty of 1000). 6.Nelson Di rich AC#, Devarenne TP* (2012) Perspec ves in PDK1 evolu on: insights from photosynthe c and non-photosynthe c organisms. Plant Sig & Behav. 7:642-649. 7.Niehaus TD, Kinison S, Okada S, Yo Y-S, Bell SA, Cui P¶, Devarenne TP, Chappell J (2012) Func onal Iden fica on of triterpene methyltransferases from Botryococcus braunii, race B. J Biol Chem. 287:8163-8173. (published online January 12, 2012). 8.Nelson Di rich AC#, Devarenne TP* (2012) Characteriza on of a PDK1 homologue from the moss Physcomitrella patens. Plant Physiol. 158:1018-1033. (published online December 7, 2011). 9.Nelson Di rich AC#, Devarenne TP* (2012) An ATP analog-sensi ve version of the tomato cell death suppressor protein kinase Adi3 for use in substrate iden fica on. Biochim Biophys Acta - Proteins Proteom. 1824:269-273. (published online October 17, 2011). Devarenne, Timothy - Page !4
10.Weiss TL#, Johnston, JS, Fujisawa K, Okada S, Devarenne TP* (2011) Genome size and phylogene c analysis of the A and L races of Botryococcus braunii. J App Phycol. 23:833-839. (published online September 8, 2010). 11.Devarenne TP* (2011) The plant cell death suppressor Adi3 interacts with the autophagic protein Atg8h. Biochem. Biophys. Res. Commun. 412:699-703. (published online August 16, 2011). 12.Niehaus TD, Okada S, Devarenne TP, Wa DS, Sviripa V, Chappell J (2011) Iden fica on of unique mechanisms for triterpene biosynthesis in Botryococcus braunii. Proc. Natl. Acad. Sci. USA. 108:12260-12265 (published online July 11, 2011). 13.Lu D, Lin W, Wu S, Gao X, Cheng C, Avila J#, Heese A, Devarenne TP, He P, Shan L (2011) Direct ubiqui na on of pa ern recogni on receptor FLS2 a enuates plant innate immunity. Science. 332:1439-1442. 14.Weiss TL#, Chun HJ, Okada S, Vitha S, Holzenburg A, Laane J, Devarenne TP* (2010) Raman spectroscopy analysis of botryococcene hydrocarbons from the green microalga Botryococcus braunii. J Biol Chem. 285:32458–32466. (published online August 12, 2010). 15.Ek-Ramos MJ†, Avila J#, Cheng C, Mar n GB, Devarenne TP* (2010) The T-loop extension of the tomato protein kinase AvrPto-dependent Pto-interac ng protein 3 (Adi3) directs nuclear localiza on for suppression of plant cell death. J Biol Chem. 285:17584-17594. (published online April 6, 2010). 16.Weiss TL#, Johnston JS, Fujisawa K, Sumimoto K, Okada S, Chappell J, Devarenne TP* (2010) Phylogene c placement, genome size, and GC-content of the liquid hydrocarbon producing green microalga Botryococcus braunii var. Berkeley (Showa) (Chlorophyta). J. Phycol. 46:534-540. (published online April 5, 2010). 17.Devarenne TP* and Mar n GB (2007) Manipula on of plant programmed cell death pathways during plant-pathogen interac ons. Plant Sig & Behav. 2:188-190. 18.Devarenne TP, Ekengren SK, Pedley KF, Mar n GB (2006) Adi3 is a Pdk1-interac ng AGC kinase that nega vely regulates plant cell death. EMBO J. 25, 255-265. 19.Okada S, Devarenne TP, Murakami M, Abe H, Chappell J (2004) Characteriza on of botryococcene synthase enzyme ac vity, a squalene synthase-like ac vity from the green microalgae Botryococcus braunii, race B. Arch. Biochem. Biophys. 422:110-118. 20.Devarenne TP, Ghosh A, Chappell J (2002) Regula on of tobacco squalene synthase; a key enzyme in sterol biosynthesis. Plant Physiol. 129:1095-1106. 21.Okada S, Devarenne TP, Chappell J (2000) Molecular characteriza on of squalene synthase from the green microalgae Botryococcus braunii, race B. Arch. Biochem. Biophys. 373:307-17. 22.Thai L, Rush JS, Maul JE, Devarenne TP, Rodgers DL, Chappell J, Waechter CJ (1999) Farnesol is u lized for isoprenoid biosynthesis in plant cells via farnesyl diphosphate formed by successive monophosphoryla on reac ons. Proc. Natl. Acad. Sci. USA 96:13080-13085. 23.Devarenne TP, Shin DH, Back K, Yin S, Chappell J (1998) Molecular characteriza on of tobacco squalene synthase and regula on in response to fungal elicitor. Arch. Biochem. Biophys. 349:205-215. 24.Dean JV, Devarenne TP (1997) Peroxidase-mediated conjuga on of glutathione to unsaturated phenylpropanoids. Evidence against glutathione S-transferase involvement. Physiol. Plant. 99:271-278. 25.Dean JV, Devarenne TP, Lee I-S, Orlofsky LE (1995) Proper es of a Maize glutathione S- transferase that conjugates coumaric acid and other phenylpropanoids. Plant Physiol. 108:985-994. CURRICULUM VITAE
Dr. Martin B. Dickman Director, Institute for Plant Genomics and Biotechnology Professor, Department of Plant Pathology & Microbiology Center for Cell Death and Differentiation Texas A&M University 2123 TAMU, College Station, TX 77843-2123
Education 1979 B.S. in Horticulture, University of Hawaii, Hilo 1982 M.S. in Plant Pathology, University of Hawaii 1986 Ph.D. University of Hawaii, Plant Pathology
Research and/or Professional Experience 2006-pres. Director, Institute for Plant Genomics and Biotechnology, Texas A&M University 2006-pres. Professor, Department of Plant Pathology and Microbiology, Texas A&M University 2006-pres. Christine Richardson Professor of Agriculture, Texas A&M University 2003-2004 Charles Bessey Professor of Plant Pathology, University of Nebraska 1997-2003 Professor, Plant Pathology, University of Nebraska 1993-1997 Associate Professor, Plant Pathology, University of Nebraska 1987-1993 Assistant Professor, Plant Pathology, University of Nebraska 1986-1987 Post-doctoral Research Fellow, Institute of Biological Chemistry, Washington State U.
Consulting Positions 1998-2005 Consultant, IDUN Pharmaceuticals, San Diego (Programmed Cell Death) 2012- Scientific Director, VG Energy
Honors and Awards Received 1991 Junior Faculty Recognition for Excellence in Research Award University of Nebraska 2002 Distinguished Alumni Award- University of Hawaii-Hilo 2003-2005 Charles Bessey Professor of Plant Pathology- University of Nebraska 2003 Fellow, American Phytopathological Society 2006 Christine Richardson Professor of Agriculture-Texas A&M University 2011 E.C. Stakman Award for Research Excellence in Plant Pathology 2011 Fellow-American Association for the Advancement of Science (AAAS)
Editor/Editorial Boards 1991-2000 Associate Editor, Applied and Environmental Microbiology 1996-2000 Associate Editor, Mycologia 1997-2013 Senior Editor, Physiological and Molecular Plant Pathology 1996-1999 Senior Editor, Archives of Microbiology 2001-2005 American Phytopathological Society-Senior Editor-APS Press 2009- Senior Editor-GM Crops 2010- Review Editor-Frontiers in Cellular and Infection Microbiology 2010- Review Editor-Frontiers in Plant Biotechnology 2012- Editor-in-Chief Molecular Plant Pathology 2013- Academic Editor -Microbial Cell
Membership in Professional Societies American Association for the Advancement of Science American Phytopathological Society Genetics Society of America American Society for Microbiology British Society for Plant Pathology
Professional Activities 1990-2001 Chairman and Founder, Genetic Basis for Pathogenicity in the Genus Colletotrichum Regional Research Group, NCR-173 1990 US-AID International Development Grant Program Grant Review Committee 1996 USDA-CSRS Competitive Grants - Panel Member Plant Pathology 1997-1999 USDA-CSRS Competitive Grants - Panel Member - Special Grants 2001-2002 BARD –PANEL MANAGER -Crop protection 2003 National Science Foundation-Microbial Genome and Sequencing Panel 2005-2007 American Phytopathological Society-Honors and Awards Committee 2005 USDA-CSRS Comp Grants-PROGRAM MANAGER-Biology of Plant Assoc Micro 2006 Department of Energy- Energy Biosciences Panel Member 2009-2011 USDA- OSQR Program Review Panel Member, NPR 303-Plant Disease Resistance Hosted (along with Julie Borlaug) Texas Youth Institute-World Food Prize 2007-2008 Oklahoma Center for the Advancement of Science and Technology (OCAST) Panel Member 2009 OCAST- Program Manager 2007-2009 National Institute of Health (NIH) Development- Panel Member 2007 National Science Foundation (NSF) Symbiosis, Defense and Self-Recognition Panel Member 2009-2012 American Phytopathological Society-Scientific Program Board 2011- International Atomic Energy Agency IAEA-Panel Member-Mutation Breeding Program 2011- IITA Banana Improvement Program –Africa 2012-2014 Technical Advisory Committee (TAC) Binational Agriculture Research and Development Fund (BARD) –Israel/United States 2012- 2014 Wolf Foundation Award-Panel
Synergistic Activities: Along with Drs. Jan Leach and Thomas Wolpert, the first ever Internet 2 course was developed and delivered by myself and Drs. Leach and Wolpert. This course, Molecular Plant Pathology, has been the focus of a lead article in the Chronicle of Higher Education.
Selected Peer Reviewed Publications (105 total)
Dickman, M.B., Park, Y.K., Oltersdorf, T., Li, W., Clemente, T., and French, R. 2001. Abrogation of disease development in plants expressing animal anti-apoptotic genes. Proc. Natl. Acad. Sci. 98: 6957-6962.
Chen, S., and Dickman, M.B. 2003. Bcl-2 family members inhibit oxidative stress-induced programmed cell death in Saccharomyces cerevisiae. Free Radical Biology in Medicine 34: 1315- 1325.
Jae, H-J.,Chen S., Ke, N., Godzik, A.,Dickman, M.B.,and Reed, J.C. 2004. Evolutionarily conserved cytprotection provided by Bax inhibitor-1 (BI-1) homologs from animals, plants and yeast. Gene 323: 101-113. Chen, C., and Dickman, M.B. 2004. Dominant active Rac and dominant negative Rac revert the dominant active Ras phenotype in Colletotrichum trifolii by distinct signaling pathways. Mol. Microbiol. 51: 1493-1507.
Chen, C., and Dickman, M.B. 2005. Proline suppresses apoptosis in the fungal pathogen Colletotrichum trifolii. Proc. Natl. Acad. Sci. USA 102: 3459-3464. (Includes Commentary)
Xu. J.R. Dickman, M. B. and Sharon, A. 2006. The dawn of fungal pathogen genomics. Annual Review of Phytopathology 44: 337-366.
Doukhanina, E.V., Chen, S., van der Zalm, E. Godzik, A., Reed, J. and Dickman, M.B. 2006. Identification and functional characterization of the BAG protein family in Arabidopsis thaliana. Journal of Biological Chemistry 281:18793-18801.
Khanna, H.K., Paul, Y.Y., Harding, R.M., Dickman, M.B., and Dale, J.L. 2007. Inhibition of Agrobacterium-Induced Cell Death by Anti-apoptotic Gene expression Leads to Very High Transformation Efficiency in Banana. Mol. Plant-Microbe Inter.20: 1048-1054.
Krishnan, N., Dickman, M. B. and Becker, D.F. 2008. Proline modulates the intracellular redox environment and protects mammalian cells against oxidative stress. Free Radical Biology and Medicine 44:671-681.
Kim. K.Y., Min, J-Y., and Dickman, M. B. 2008. Oxalic acid is an elicitor of plant programmed cell death during Sclerotinia sclerotiorum disease development. Molecular Plant Microbe Interactions 21:605-612.
Kabbage, M. and Dickman, M.B. 2008. The BAG proteins: A ubiquitous family of chaperone regulators. Cellular and Molecular Life Sciences 65:1390-1402.
Williams, B., and Dickman, M.B. 2008. Plant programmed cell death: can’t live with it; can’t live without it. Molecular Plant Pathology 9: 531-544.
Williams, B., Kabbage, M., Britt, R., and Dickman, M.B. 2010. AtBAG7, a unique endoplasmic reticulum-localized Bcl-2 associated athanogene is involved in stress responses in Arabidopsis. Proc. Natl.Acad. Sci. 107: 6088-6093.
Amselem, J., Cuomo. C., van Kan Kan, J….…………..and Dickman, M.B.2011. Genomic analysis of the necrotrophic fungal pathogens Sclerotinia sclerotiorum and Botrytis cinerea. PLoS Genetics 7:e1002230
Williams, B., Kabbage, M., Kim, H-J., Britt, R. and Dickman. M.B. 2011. Tipping the balance: Sclerotinia sclerotiorum secreted oxalic acid suppresses host defenses by manipulating the host redox environment. PLoS Pathogens 7:1-10.
Kim H-J, Chen, C, Kabbage M and Dickman M.B. 2011. Identification and Characterization of Sclerotinia sclerotiorum NADPH Oxidases. Applied and Environmental Microbiology 77:7721- 7729
Dickman, M.B. and de Figuerido, P. 2011. Comparative pathobiology of fungal pathogens of plants and animals. PLoS Pathogens 7:e1002324
Bar-Dror, T., Dermastia, M., Kladnik, A., Znidaric., M.T., Novak, M.P., Meir, S., Burd,S., Philosoph-Hadas,S., Ori,N., Sonego,L., Dickman, M.B. and Lers, A. 2011. Programmed cell death occurs in an asymmetric manner during abscission. Plant Cell 23:4146-4163
O’Connell, R., et al., 2012. Life-style transitions in plant pathogenic Colletotrichum fungi deciphered by genome and transcriptome analyses. Nature Genetics 44: 1060-1065
Kabbage, M; Williams, B., Dickman, MB. 2013. Cell death control: The interplay of apoptosis and autophagy in the pathogenicity of Sclerotinia sclerotiorum. PLoS Pathogens 9: e1003287
Dickman, M.B. and Fluhr, R. 2013. Centrality of host cell death in plant-microbe interactions. Annu. Rev. Phytopathol. 51: 25.1-25.28.
Zhu W, Wei W, Fu Y, Cheng J, Xie J, Li, G, Yi, X, Kang. Z, Dickman, M.B. and Jiang, D.. (2013). A secretory protein of necrotrophic fungus Sclerotinia sclerotiorum that suppresses host resistance. PLoS ONE 8: e53901.
Criscitiello, M.F., Dickman, M.B., Samuel, J.E., and de Figueiredo P. 2013. Tripping on acid: Trans- kingdom perspectives on biological acid use in immunity and pathogenesis. PLoS Pathogens 9: e1003402.
Dickman, M.B. and de Figueiredo, P. 2013. Death be not proud—cell death control in host fungal interactions. PLoS Pathogens (In press)
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Curriculum vitae
Scott A. Finlayson Associate Professor Dept. of Soil and Crop Sciences, Texas A&M University 9798479287 [email protected]
A. PROFESSIONAL PREPARATION
College/University Major Degree &Year Simon Fraser University Biology BSc, 1986 The University of Calgary Botany PhD, 1994 Texas A&M University Plant Development PostDoc 1994-2002
B. ACADEMIC/PROFESSIONAL APPOINTMENTS
2009-Present Associate Professor, Soil and Crop Sciences, Texas A&M University 2002-2009 Assistant Professor, Soil and Crop Sciences, Texas A&M University 2002-present Faculty member Molecular and Environmental Plant Sciences
C. RESEARCH INTERESTS
The main focus of my research program is investigating the roles of environmental signals as conditioners of plant growth and development, and discovering the mechanisms through which they work. My lab also has a longstanding interest in hormone homeostasis and signaling that supports our main focus and provides many collaborative opportunities.
D. TEACHING
I teach SCSC307 “Crop Biology and Physiology”, a combined lecture/lab course for undergraduate students. I also offer two graduate level courses: MEPS/SCSC671 “Plant Development”, and occasionally teach a lab course in plant hormone and small metabolite analysis.
E. SELECTED PUBLICATIONS
(1) Krishna Reddy SR, Holalu S, Casal JJ, Finlayson SA. (2013) Abscisic acid regulates Arabidopsis axillary bud outgrowth responses to the ratio of Red:Far Red light. Plant Physiol 163: 1047-1058
1 Curriculum vitae
(2) Cagnola JI, Ploschuk E, Benech-Arnold T, Finlayson SA, Casal JJ (2012) Stem transcriptome reveals mechanisms to reduce the energetic cost of shade-avoidance responses in tomato. Plant Physiol 160: 1110-1119 (3) Su H, Finlayson SA (2012) 1-Methylcyclopropene prevents cotton physiological and molecular responses to ethylene. Plant Growth Regul 68: 57-66 (4) Su H, Abernathy SD, White RH, Finlayson SA (2011) Photosynthetic photon flux density and phytochrome B interact to regulate branching in Arabidopsis. Plant Cell Environ 34: 1986-1998 (5) Spiers JD, Davies Jr. FT, He C, Starman TW, Finlayson SA, Senseman SA, Heinz KM (2011) Fertilization Affects Constitutive and Wound-Induced Chemical Defenses in Gerbera jamesonii. J Environ Hort 29:180-184 (6) Finlayson SA, Krishnareddy SR, Kebrom TH, Casal JJ (2010) Phytochrome regulation of branching in Arabidopsis. Plant Physiol 152: 1914-1927 (7) Kebrom TH, Brutnell TP, Finlayson SA (2010) Suppression of sorghum axillary bud outgrowth by shade, phyB and defoliation signalling pathways. Plant Cell Environ 33: 48- 58 (8) Clark G., Torres J., Finlayson SA, Guan X, Handley C, Lee J, Kays JE, Chen ZJ, Roux SJ (2009) Apyrases (NTPDases) and Extracellular Nucleotides Regulate Cotton Fiber Elongation in Cultured Ovules. Plant Physiol 152: 10.1104/pp.109.147637 (9) Finlayson SA, Hays DB, Morgan PW (2007) phyB-1 sorghum maintains responsiveness to simulated shade, irradiance and R:FR. Plant Cell Environ 30: 952-962 (10) Singh M, Burson BL, Finlayson SA (2007) Isolation of candidate genes for apomictic development in buffelgrass (Pennisetum ciliare). Plant Mol Biol 64: 673-682 (11) Finlayson, SA (2007) Arabidopsis TEOSINTE BRANCHED1-LIKE 1 regulates axillary bud outgrowth and is homologous to monocot TEOSINTE BRANCHED1. Plant Cell Physiol. 48: 667-677 (12) Hays DB, Do JH, Mason RE, Morgan G, Finlayson SA (2007) Heat stress induced ethylene production in developing wheat grains induces kernel abortion and increased maturation in a susceptible cultivar. Plant Sci 172: 1113-1123
2 Curriculum vitae
(13) Kebrom TH, Burson BL, Finlayson SA (2006) Phytochrome B represses Teosinte Branched1 expression and induces sorghum axillary bud outgrowth in response to light signals. Plant Physiol 140: 1109-1117 (14) Finlayson SA, Mullet JE, Morgan PW (2006) Phytochrome B and shade signals regulate phytochrome A expression. Physiol Plant 127: 326-337 (15) Salzman RA, Brady JA, Finlayson SA, Buchanan CD, Sun F, Klein PE, Klein RR, Pratt LH, Cordonnier-Pratt M-M, and Mullet JE (2005) Transcriptional profiling of sorghum induced by methyl jasmonate, salicylic acid, and aminocyclopropane carboxylic acid reveals cooperative regulation and novel gene responses. Plant Physiol 138: 352-368 (16) Finlayson SA, Gohil HL, Kato-Noguchi H, Lee I-J, Morgan PW (2004) Circadian Ethylene Synthesis in Sorghum bicolor: Expression and Control of the System at the Whole Plant Level. J Plant Growth Reg 23: 29-36 (17) Morgan PW, Finlayson SA, Childs KL, Mullet JE, Rooney WL (2002) Opportunities to improve yield in grasses: Lessons from sorghum. Crop Sci 42: 1791-1799 (18) Morgan PW, Finlayson SA (2000) Physiology and genetics of maturity and height. In CW Smith and RA Frederiksen eds. Sorghum: Origin, History, Technology and Production. John Wiley and Sons, Inc., New York, NY. (19) Finlayson SA, Lee I-J, Mullet JE, Morgan PW (1999) The mechanism of phytochrome B regulation of rhythmic ethylene production in Sorghum bicolor. Plant Physiol 119: 1083- 1089 (20) Finlayson SA, He C-J, Drew MC, Mullet JE, Morgan PW (1999) Phytochrome B and ethylene rhythms in sorghum: biosynthetic mechanism and developmental effects. In AK Kanellis, C Chang, D Grierson, H Klee and JC Pech eds. Biology and Biotechnology of the Plant Hormone Ethylene II. Kluwer Academic Publishers, Dordrecht. (21) Finlayson SA, Lee I-J, Morgan PW (1998) Phytochrome B and the regulation of circadian ethylene production in Sorghum bicolor. Plant Physiol 116: 17-25. Cover paper. (22) Finlayson SA, Reid DM, Morgan PW (1997) Root and leaf specific ACC oxidase activity in corn and sunflower seedlings. Phytochemistry 45: 869-877 (23) He C-J, Finlayson SA, Drew MC, Jordan WR, Morgan PW (1996) Ethylene biosynthesis during aerenchyma formation in roots of Zea mays L. subjected to mechanical impedance and hypoxia. Plant Physiol 112: 1679-1685
3 Curriculum vitae
(24) Finlayson SA, Reid DM (1996) The effect of CO2 on ethylene evolution and elongation rate in roots of sunflower (Helianthus annuus L.) seedlings. Physiol Plant 98: 875-881 (25) Finlayson SA, Liu J.-H., Reid DM (1996) Localization of ethylene biosynthesis in roots of sunflower (Helianthus annuus L.) seedlings. Physiol Plant 96: 36-42 (26) Morgan PW, Childs KL, Foster KR, Lee I-J, Finlayson SA, Ulanch PE, Mullet JE, Miller FR (1996) Sorghum mutants and photoperiodic flowering. In WR Briggs, RL Heath and EM Tobin eds. Regulation of plant growth and development by light. ASPP, Baltimore.
(27) Finlayson SA, Reid DM (1994) The influence of CO2 on ACC oxidase activity from roots of sunflower (Helianthus annuus L.) seedlings. Phytochemistry 35: 847-851 (28) Finlayson SA, Foster KR, Reid DM (1991) Transport and metabolism of 1- aminocyclopropane-1-carboxylic acid in sunflower (Helianthus annuus L.) seedlings. Plant Physiol 96: 1360-1367
F. OTHER ACTIVITIES
Member of the editorial board of “Advances in Botany”.
Ad hoc reviewer for the following journals: Plant Cell, Plant Physiology, Plant Journal, Planta, PLoS Genetics PLoS One, Journal of Experimental Botany, Journal of Plant Growth Regulation, Phytochemistry, Plant Science, Journal of Plant Physiology, Annals of Botany, New Phytologist, Plant Growth Regulation, Journal of Plant Interactions, Theoretical and Applied Genetics, Environmental and Experimental Botany, Molecular Biotechnology, Plant Cell Reports, Crop Science, Developmental Biology Journal.
Ad hoc reviewer for the following granting programs: NSF, USDA-NRICGP, US-Israel Binational Agriculture Research and Development Fund (BARD), Netherlands Organization for Scientific Research, Singapore National Research Foundation, Austrian Science Fund and U.S. Army Corps of Engineers Engineer Research and Development Center (ERDC).
4 CURRICULUM VITAE December 12, 2013
I. PERSONAL INFORMATION Name: Terry Joe Gentry Title: Associate Professor Address: 550A Heep Center 2474 TAMU College Station, TX 77843 Department: Soil and Crop Sciences Date of initial appointment: January 1, 2006
II. EDUCATION 2003-2005 Postdoctoral Research Associate, Oak Ridge National Laboratory 1999-2003 Doctor of Philosophy (Microbiology & Immunology), University of Arizona 1995-1998 Master of Science (Agronomy), University of Arkansas 1988-1993 Bachelor of Science (Agronomy), University of Arkansas
III. EXPERIENCE 2006-Present Assistant/Associate Professor, Department of Soil and Crop Sciences, Texas A&M University 2003-2005 Postdoctoral Research Associate, Environmental Sciences Division, Oak Ridge National Laboratory 1999-2003 Graduate Research/Teaching Associate, Department of Soil, Water, and Environmental Science, University of Arizona 1995-1999 Research Specialist/Graduate Assistant, Department of Crop, Soil, and Environmental Sciences, University of Arkansas 1993-1995 Research Analyst, Agronomy, Agricultural Experiment Station, University of the Virgin Islands
Undergraduate Courses Taught SCSC 405 – Soil and Water Microbiology, 4 credit hour course offered in fall and spring semesters. Discussion of the roles of soil and water microorganisms in the sustainability and productivity of various ecosystems with specific emphasis on plant-microbial interactions, nutrient cycling, degradation of pesticides and other xenobiotics, generation of trace gases, and soil and water quality. The laboratory portion of the course reinforces these concepts and provides hands-on experience with current techniques in soil and water microbiology.
SCSC 425 (489) - Biofuels and the Environment, 2 credit hour course offered in fall semester of even-numbered years. Stacked with SCSC 625. Discussion of different biofuel crops, production systems, and conversion technologies. Impacts of biofuel cropping systems on sustainability of yields and various aspects of soil and water quality. Environmental issues related to use/disposal of biofuel by-products. Economics and net C and energy budgets for various biofuel production systems.
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Curriculum Vitae – Terry J. Gentry
SCSC 455 – Environmental Soil Science, 3 credit hour course offered every spring semester. Stacked with SCSC 657. Environmental aspects of soil receiving organic and inorganic materials involved with crop production and from wastes associated with agriculture, industry and municipalities; soil properties largely determine environmentally sound practices of applying these materials and the quantities that may be added without polluting air, soil and water resources.
Graduate Courses Taught SCSC 625 (689) - Biofuels and the Environment, 2 credit hour course offered in fall semester of even-numbered years. Stacked with SCSC 425. Discussion of different biofuel crops, production systems, and conversion technologies. Impacts of biofuel cropping systems on sustainability of yields and various aspects of soil and water quality. Environmental issues related to use/disposal of biofuel by-products. Economics and net C and energy budgets for various biofuel production systems.
SCSC 637 (689) - Environmental Microbiology, 3 credit hour course offered in fall semester of odd-numbered years. Microbial diversity and interactions in various environments with emphasis on soil and freshwater systems. Molecular methods for detection and characterization of indigenous and introduced microorganisms. Environmental sources and fate of pathogens. Biotechnological applications of environmental microorganisms.
SCSC 657 (689) – Environmental Soil Science, 3 credit hour course offered every spring semester. Stacked with SCSC 455. Environmental aspects of soil receiving organic and inorganic materials involved with crop production and from wastes associated with agriculture, industry and municipalities; soil properties largely determine environmentally sound practices of applying these materials and the quantities that may be added without polluting air, soil and water resources.
Peer-Reviewed Journal Articles (publications since 2011; out of 55 total articles) Cardenas, E., W.-M Wu, M.B. Leigh, J. Carley, S. Carroll, T. Gentry, J. Luo, D. Watson, B. Gu, M. Ginder-Vogel, P.K. Kitanidis, P.M. Jardine, J. Zhou, C.S. Criddle, T.L. Marsh. and J.M. Tiedje. 2010. Significant association between sulfate-reducing bacteria and uranium-reducing microbial communities as revealed by a combined massively parallel sequencing–indicator species approach. Appl. Environ. Microbiol. 76:6778-6786. Gao, W., T.J. Gentry, T.L. Mehlhorn, S.L. Carroll, P.M. Jardine, and J. Zhou. 2010. Characterization of Co(III) EDTA-Reducing bacteria in metal- and radionuclide- contaminated groundwater. Geomicrobiology J. 27:93-100. Gontcharova, V., E. Youn, R.D. Wolcott, E.B. Hollister, T.J. Gentry, and S.E. Dowd. 2010. Black Box Chimera Check (B2C2): a Windows-based software for batch depletion of chimeras from bacterial 16S rRNA gene datasets. Open Microbiol. J. 4:47-52. Gonzalez-Chavez, M.C.A., J.A. Aitkenhead-Peterson, T.J. Gentry, D. Zuberer, F. Hons, and R. Loeppert. 2010. Soil microbial community, C, N, and P responses to long-term tillage and crop rotations. Soil Till. Res. 106:285-293. Harmel, R.D., R. Karthikeyan, T. Gentry, and R. Srinivasan. 2010. Effects of agricultural management, land use, and watershed scale on E. coli concentrations in runoff and streamflow. Trans. ASABE 53:1833-1841.
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Curriculum Vitae – Terry J. Gentry
He, Z., Y. Deng, J.D. Van Nostrand, Q. Tu, M. Xu, C.L. Hemme, X. Li, L. Wu, T.J. Gentry, Y. Yin, J. Liebich, T.C. Hazen, and J. Zhou. 2010. GeoChip 3.0 as a high-throughput tool for analyzing microbial community composition, structure, and functional activity. ISME J. 4:1167-1179. Hemme, C.L., Y. Deng, T.J. Gentry, M.W. Fields, L. Wu, S. Barua, K. Barry, S.G. Tringe, D.B. Watson, Z. He, T.C. Hazen, J.M. Tiedje, E.M. Rubin, and J. Zhou. 2010. Metagenomic insights into evolution of a heavy metal-contaminated groundwater microbial community. ISME J. 4:660-672. Hollister, E.B., A.S. Engledow, A.J. Hammett, T.L. Provin, H.H. Wilkinson, and T.J. Gentry. 2010. Shifts in microbial community structure along an ecological gradient of hypersaline soils and sediments. ISME J. 4:829-838. Hollister, E.B., A.K. Forrest, H.H. Wilkinson, D.J. Ebbole, S.A. Malfatti, S.G Tringe, M.T. Holtzapple, and T.J. Gentry. 2010. Structure and dynamics of the microbial communities underlying the carboxylate platform for biofuel production. Appl. Microbiol. Biotechnol. 88:389-399. Lancaster, S.H., E. Hollister, S.A. Senseman, and T.J. Gentry. 2010. Effects of repeated glyphosate applications on soil microbial community composition and the mineralization of glyphosate. Pest Manag. Sci. 66:59–64. Pillai, T.R., W. Yan, H.A. Agrama, W.D. James, A.M.H. Ibrahim, A.M. McClung, T.J. Gentry, and R.L. Loeppert. 2010. Total grain-arsenic and arsenic-species concentrations in diverse rice cultivars under flooded conditions. Crop Sci. 50:2065-2075. Xu, M. W-M. Wu, L. Wu, Z. He, J.D. Van Nostrand, Y. Deng, J. Luo, J. Carley, M. Ginder- Vogel, T.J. Gentry, B. Gu, D. Watson, P.M. Jardine, T.L. Marsh, J.M. Tiedje, T. Hazen, C.S. Criddle, and J. Zhou. 2010. Responses of microbial community functional structures to pilot-scale uranium in situ bioremediation. ISME J. 4:1060-1070. Golub, K.W., A.D. Smith, E.B. Hollister, T.J. Gentry, and M.T. Holtzapple. 2011. Investigation of intermittent air exposure on four-stage and one-stage anaerobic semi-continuous mixed- acid fermentations. Bioresour. Technol. 102:5066-5075. Holgate, L.C., J.A. Aitkenhead-Peterson, and T.J. Gentry. 2011. Irrigation water chemistry: Impact on microbial community composition and biogeochemical leaching under perennial ryegrass (Lolium perenne [L.]). ISRN Ecology. Vol 2011; Article ID 797910; 9 p.; doi:10.5402/2011/797910. Hollister, E., A.J. Hammett, M. Holtzapple, T. Gentry, and H. Wilkinson. 2011. Microbial community composition and dynamics in a semi-industrial-scale facility operating under the MixAlco™ bioconversion platform. J. Appl. Microbiol. 110:587-596. Hu, P., A.S. Wang, A.S. Engledow, E.B. Hollister, K.L. Rothlisberger, J.E. Matocha, D.A. Zuberer, T.L. Provin, F.M. Hons, and T.J. Gentry. 2011. Inhibition of the germination and growth of Phymatotrichopsis omnivora (Cotton Root Rot) by oilseed meals and isothiocyanates. Appl. Soil Ecol. 49:68-75. Somenahally, A.S., E.B. Hollister, R.H. Loeppert, W. Yan, and T.J. Gentry. 2011. Microbial communities in rice rhizosphere altered by intermittent and continuous flooding in fields with long-term arsenic application. Soil Biol. Biochem. 43:1220-1228. Somenahally, A.S., E.B. Hollister, W. Yan, T.J. Gentry, and R.H. Loeppert. 2011. Water management impacts on arsenic speciation and iron-reducing bacteria in contrasting rice- rhizosphere compartments. Environ. Sci. Technol. 45:8328-8335.
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Curriculum Vitae – Terry J. Gentry
Van Nostrand, J.D., L. Wu, W. Wu, Z. Huang, T.J. Gentry, Y. Deng, J. Carley, S. Carroll, Z. He, B. Gu, J. Luo, C.S. Criddle, D.B. Watson, P.M. Jardine, T.L. Marsh, J.M. Tiedje, T.C. Hazen, and J. Zhou. 2011. Dynamics of microbial community composition and function during in situ bioremediation of a uranium-contaminated aquifer. Appl. Environ. Microbiol. 77:3860- 3869. Deng, L., S.A. Senseman, T.J. Gentry, D.A. Zuberer, T.L. Weiss, T.P. Devarenne, and E.R. Camargo. 2012. Effect of selected herbicides on growth and hydrocarbon content of Botryococcus braunii (Race B). Ind. Crops Prod. 39:154-161. Forrest, A.K., E.B. Hollister, T.J. Gentry, H.H. Wilkinson, and M.T. Holtzapple. 2012. Comparison of mixed-acid fermentations inoculated with six different mixed cultures. Bioresour. Technol. 118:343-349. Hollister, E.B., A.K. Forrest, H.H. Wilkinson, D.J. Ebbole, S.G. Tringe, S.A. Malfatti, M.T. Holtzapple, and T.J. Gentry. 2012. Mesophilic and thermophilic conditions select for unique but highly parallel microbial communities to perform carboxylate platform biomass conversion. PLoS ONE 7(6): e39689. doi:10.1371/journal.pone.0039689. Ng, J., E.B. Hollister, M.C.A. González-Chávez, F.M. Hons, D.A. Zuberer, J.A. Aitkenhead- Peterson, R. Loeppert, and T.J. Gentry. 2012. Impacts of cropping systems and long-term tillage on soil microbial population levels and community composition in dryland agricultural setting. ISRN Ecology. Vol 2012; Article ID 487370; 11 pages; doi:10.5402/2012/487370. Rothlisberger, K.L., F.M. Hons, T.J. Gentry, and S.A. Senseman. 2012. Oilseed meal effects on the emergence and survival of crop and weed species. Appl. Environ. Soil Sci. Vol 2012; Article ID 769357; 10 pages; doi:10.1155/2012/769357. Wagner, K.L., L.A. Redmon, T.J. Gentry, and R.D. Harmel. 2012. Assessment of cattle grazing effects on E. coli runoff. Trans. ASABE. 55:2111-2122. Wang, A.S., P. Hu, E.B. Hollister, K.L. Rothlisberger, A. Somenahally, T.L. Provin, F.M. Hons, and T.J. Gentry. 2012. Impact of Indian mustard (Brassica juncea) and flax (Linum usitatissimum) seed meal applications on soil carbon, nitrogen, and microbial dynamics. Appl. Environ. Soil Sci. Vol 2012; Article ID 351609; 14 p; doi:10.1155/2012/351609. Harclerode, C., T.J. Gentry, and J.A. Peterson. 2013. A geographical approach to tracking Escherichia coli and other water quality constituents in a Texas coastal plains watershed. Environ. Monit. Assess. 185:4659-4678. Harmel, R.D., K.L., Wagner, E. Martin, T.J. Gentry, R. Karthikeyan, M. Dozier, and C. Coufal. 2013. Impact of poultry litter application and land use on E. coli runoff from small agricultural watersheds. Biol. Eng. Trans. 6:3-16. Hollister, E.B., P. Hu, A.S. Wang, F.M. Hons, and T.J. Gentry. 2013. Differential impacts of brassicaceous and non-brassicaceous oilseed meals on soil bacterial and fungal communities. FEMS Microbiol. Ecol. 83:632-641. McCrary, K.J., C.L. Harclerode Case, T.J. Gentry, and J.A. Aitkenhead-Peterson. 2013. Escherichia coli regrowth in disinfected sewage effluent: effect of DOC and nutrients on regrowth in laboratory incubations and urban streams. Water Air Soil Pollut. 224:1412. Sullivan, B.A., T. Gentry, and R. Karthikeyan. 2013. Characterization of tetracycline-resistant bacteria in an urbanizing subtropical watershed. J. Appl. Microbiol. 115:774-785. Wagner, K.L., L.A. Redmon, T.J. Gentry, R.D. Harmel, R. Knight, C.A. Jones, and J.L. Foster. 2013. Effects of an off-stream watering facility on cattle behavior and instream E. coli levels. Texas Water J. 4:1-13.
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Biographical Sketch
CURRICULUM VITAE
Name: Dirk Boudreaux Hays Title: Associate Professor and Chair Molecular & Environmental Plant Sciences Address: Department of Soil & Crop Sciences, Texas A&M University
A. Education/Training INSTITUTION AND LOCATION DEGREE YEAR(s) FIELD OF STUDY Texas A&M University B.S. 1986-91 Biochemistry University of Calgary Ph.D. 1992-96 Plant Physiology B. Positions and Employment Chair Molecular and Environmental Plant Sciences and Associate Professor, 8/2009 - Present- Texas AgriLife Research, Department of Soil and Crop Sciences, Texas A&M University, Plant Physiological Geneticist. Assistant Professor, 1/2002- 8/2009 Texas AgriLife Research, Department of Soil and Crop Sciences, Texas A&M University, Cereal Grain Development and Quality Genetics C. Awards and Honors 1. US Fulbright Fellow 2012-South Central Asia to Bangladesh, India. 2. Col. of Agric. and Life Sci., Texas AgriLIFE, Vice Chancellors Award in Excell.: Team Collaboration (2013). 3. Texas AgriLIFE Advanced Leadership Program (2010-present). 4. Col. of Agric. and Life Sci., Texas AgriLIFE, Vice Chancellors Award in Excell.: Diversity (2010). D. Professional Experience USDA, ARS, PSWCRL (Stillwater, OK) 1997-98 Res. Plant Physiologist USDA,ARS,GMPRC,PSERU (Manhattan, 1999-01 Res. Geneticist KS) E. Teaching Duties 1. The Physiology of Plant, Molecular and Environmental Plant Sciences (MEPS)-601- Yearly. 2. Crop Stress Management, Soil and Crop Sciences (SCSC)-402, Yearly. F. Synergistic Activities 1. Chair to the Molecular and Environmental Plant Sci. Intercollegiate Faculty, Texas A&M Univ. (2010 – Pres.). 2. Awarded grant and fellowships totaling $20,839,981 total over 11 years at TAMU of which $5,081,909 was to Hays for an average of $461,992 per year in funds to Hays. Awarded external funding of $13,486,938 total $2,669,063 to Hays since hired in 2002. 3. Obtained awards or $1,625,450 in graduate student fellowships for recruitment of students and Environmental Plant Sciences, Agronomy, and Soil Sciences Program. G. Graduate Student Supervised (Current position). 7M.S.; 20 Ph.D. 1. Current: 15 Ph.D (6 female, 9 male); 2 M.S. (1 male, 1 female) Ph.D.: Brijesh Angira, Henry Awika, Fatima Caramillo, Chris Chick, Ahmed Elsayed, Xiangkun Gu, Trevis Huggins, Laura Masor, Suheb Mohammed, Arlene Pacheco, Julie Rothe, Padma Sengadon, Sean Thompson, Homa Zargami M.S.: Wail Faris, Yalin Lin
Dirk B. Hays 1
Biographical Sketch
2. Graduated: 5 Ph.D. (3 female, 2 male); 5 M.S. (3 female, 2 male) Ph.D.: Jung Hwa Do (Ricetech, US), Suchismita Mondal (breeder CIMMYT, Mex), Francis Beecher (breeder, Monsanto, US), Richard E. Mason (Assist. Prof. U. Ark), Babitha Jampala (Post Doc., Univ. Maryland); M.S.: Ostillo Portillo (Ph.D. TAMU), Jennifer Winn (Ph.D. UT Southwestern), Ashima Poudel (CIMMYT), Suchismita Mondal (breeder CIMMYT, Mex), Francis Beecher (breeder, Monsanto, US)
3. Postdoctoral Fellow Supervised: 3 Advised: Zhuping Yang (breeder, Pioneer Hybrid), Tesfamichael Kabroom (Texas AgiLife Research), Arun Sharma (breeder, Sakata Seed).
LIST OF RECENT PUBLICATIONS: note bold denotes advised students 1. Acuña-Galindo MA, Subramanian NK, Hays DB, Mason, RE. 2013.Meta-analysis of wheat QTL regions associated with adaptation to drought and heat stress. Theoretical and Applied Genetics (submitted). 2. Mondal, S, Mason RE, Huggins, T., Ibrahim A, Hays DB. 2013. QTL mapping of leaf cuticular waxes, canopy temperature depression and yield componets during preproductive high temperature stress, Euphytica (submitted). 3. Basnet BR, Ibrahim AMH, Chen X, Singh RP, Hays DB, Mason ER, Bowden R, Liu S, Devkota RN, Subramanian NK, Rudd JC. 2013. Molecular Mapping of Stripe Rust Resistance in Hard Red Winter Wheat TAM 111 Adapted in the U.S. High Plains, Euphytica (accepted). 4. Liu S, Rudd JC, Bai G, Haley SD, Ibrahim AMH, Xue Q, Hays DB, Graybosch RA, Devkota RN, Amand P. 2013. Molecular Markers Linked to Genes Important for Hard Winter Wheat Production and Marketing in the U.S. Great Plains. Crop Science (accepted). 5. R. Esten Mason, Dirk B. Hays, Suchismita Mondal, Amir M.H. Ibrahim, and Bhoja R. Basnet, 2013. QTL for yield, yield components and canopy temperature depression in wheat under late sown field conditions, Euphytica DOI 10.1007/s10681-013-0951-x. 6. Meeks, M.; Murray, S.; Hague, S.; Hays, D. 2013. Measuring Maize Seedling Drought Response in Search of Tolerant Germplasm. Agronomy 3: 135-147; doi:10.3390/agronomy3010135. 7. Awika, H., Rooney, W.L., Weers, B., Mullet J.E., Hays, D.B. 2012. QTL mapping of leaf wax load and canopy temperature depression and their association with QTL for staygreen in sorghum, Theoretical and Applied Genetics (submitted). 8. Mondal, S, Mason RE, Ibrahim A, Hays DB. 2012. Defining the Molecular and Physiological role of Leaf Cuticular Waxes in Reproductive Stage Heat Tolerance, Journal of Agronomy and Crop Science, (submitted). 9. Bampala B., Rooney WL, Peterson GC, Hays DB. 2012. Estimating the relative effects of the endosperm traits of waxy and high protein digestibility on yield in grain sorghum. Field Crop Research 139: 57-62. 10. Ali, M., A.M.H. Ibrahim, J. Rudd, D. Hays, S. Malla, and Z. Ristic. 2012. Family-based QTL mapping of heat stress tolerance in wild tetraploid wheat (Triticum turgidum L.)s. Euphytica 10.1007/s10681-012-0824-8. *¶
2 Dirk B. Hays Biographical Sketch
11. Cooper, J., A.M.H. Ibrahim, J. Rudd, D. Hays, J. Baker, and S. Malla. 2012. Increasing Hard Winter Wheat Yield Potential via Synthetic Wheat: I. Path-coefficient Analysis of Yield and its Components. Crop Science 52:2014-2022. 12. Cooper, J., A.M.H. Ibrahim, J. Rudd, D. Hays, J. Baker, and S. Malla. 2012. Increasing Hard Winter Wheat Yield Potential via Synthetic Wheat: II. Heritability and Combining Ability of Yield and its Components. Crop Science (accepted). 13. Tom O. Jondiko, Novie J. Alviola, Dirk. B. Hays, Amir Ibrahim, Michael Tilley, and Joseph M. Awika, 2012 ,Effect of high molecular weight glutenin subunit allelic composition on wheat flour tortilla quality. Cereal Chemistry 89:155-161. 14. Beecher, F., Mason, R.E., Mondal, S., Hays, D.B. 2012. Identification and validation of QTL associated with maintenance of bread making quality under heat stress in wheat (Triticum aestivum L.). Euphytica 188:361-368. 15. Mason, R.E., Mondal, S., Beecher, F.W, Hays, D.B. 2011 Genetic loci linking improved heat tolerance in wheat (Triticum aestivum L.) to lower leaf and spike temperatures under controlled conditions. Euphytica. 180:181-194. 16. Meeks, M., Murray, S. C. , Hague, S., Hays D., Ibrahim, A. M. H.. 2011. Genetic Variation for Maize Epicuticular Wax Response to Drought Stress at Flowering, J. Agronomy & Crop Sci. (2011) ISSN 0931-2250. 17. Mugode L., Portillio O.R., Hays D.B., Rooney L.W., Taylor R.N. 2011. Influence of high protein digestibility sorghums on free amino nitrogen (FAN) production during malting and mashing. Journal of the Institute of Brewing 117: 422-426. 18. Mason R.E., Mondal S., Beecher F., Ibrahim A., Hays D.B. 2010. Quantitative loci regulating yield maintenance under reproductive stage heat stress in wheat. Euphytica 174: 423-436. 19. Kebrom TH1*, Brutnell2 T.P., Hays D.B.1, Finlayson S.A. 20101 Vegetative axillary bud dormancy induced by shade and defoliation signals in the grasses. Plant Signaling and Behavior, 5: 317-319. 20. Ali M., Ibrahim A.H.,Hays, D.B., Ristic Z. Fu J. 2010. Response of Wild Tetraploid Wheat (Triticum turgidum L.) to Heat Stress. J. Crop Improv. 24:228-243. 21. Wu, Xiaorong; Jampala, B.; Robbins, A.; Hays, D.; Yan, Shuping; Xu, Feng; Rooney, William; Shi, Yong-Cheng; and D. Wang, 2010, Ethanol Fermentation Performance of Grain Sorghums with Modified Endosperm Matrices J. of Agriculture and Food 58: 9556-9562. 22. Mondal S., Hays D.B., Waniska R.D., Alviola N.J., Tilley M., Bean S., Glover K.D. 2009. Use of Near-Isogenic Wheat Lines to Determine Gliadin Composition and Functionality in Flour Tortillas. J. of Agriculture and Food Chemistry 57: 1600-1605. 23. Winn J., Mason R.E., Robbins A., Rooney W.L., Prom L., Hays D.B. 2009. Identification of the loci controlling the grain endosperm high protein digestibility trait in sorghum. International Plant Genome (doi 10.1155/2009/471853). 24. Mondal S., Tilley M., Waniska R.D., Alviola N.J., Tilley M., Bean S., Glover K.D., Hays D.B. 2008. Use of Near-Isogenic Wheat Lines to Determine Glutenin Composition and Functionality in Flour Tortillas. J. of Agriculture and Food Chemistry 56: 179-184. 25. Hays D.B., Do J.H., Mason R.E., Finlayson S.A., Morgan G. 2007. Heat stress induced ethylene during early grain development induces kernel abortion and early desiccation in a susceptible cultivar. Plant Sci. 172: 1113-1123. Book Chapters:
3 Dirk B. Hays Biographical Sketch
21. Rothe J, Hays D, 2012. New Fuels: Cyanobacteria, Future Transportation Fuels Study, Nat. Petroleum Council 22. Rothe J, Hays D, 2012. New Fuels: Macroalgae, Future Transportation Fuels Study, Nat. Petroleum Council 23. Sengadon P, Hays D, 2012. New Fuels: Production of fatty acid-based fuels in genetically engineered bacteria, Future Transportation Fuels Study, Nat. Petroleum Council 24. Reynolds M.P., Hays D.B.2 Chapman S. 2010. “Breeding for adaptation to heat and drought stress” In: Climate change and crop production, Reynolds M.P. (Ed.), CABI Inc. 25. Hays D.B., Mason R.E., Do J.H. 2007. Developments in Plant Breeding 11; Wheat Production in Stressed Environments, by H.T. Buck, J.E. Nisi, N. Salomón (Eds) Springer pp373-383.
4 Dirk B. Hays CURRICULUM VITA
NAME AND TITLE: James L. Heilman, Professor of Environmental Physics Department of Soil and Crop Sciences Texas A&M University, College Station, TX 77843-2474 (979) 845-7169; FAX (979) 845-0456, email [email protected]
EDUCATION: Ph.D. (Agronomy) Kansas State University, 1977 M.S., Agronomy, South Dakota State University, 1974 B.S., Engineering Physics, South Dakota State University, 1972
PROFESSIONAL AND ACADEMIC APPOINTMENTS: Professor, Associate Professor, TAMU, 1980-present Research Soil Physicist, Remote Sensing Institute, South Dakota State Univ., 1977-1980
HONORS AND AWARDS: Fellow, American Society of Agronomy, 2003; Big 12 Faculty Fellowship, 2002; Award of Commendation for Outstanding Achievement in the field of Water Resources, National Association of Water Institute Directors and National Association of Land Grant Universities, 1989
TEACHING: SCSC 307 – Crop Biology and Physiology SCSC 309 – Water in Soil and Plants
RESEARCH: Greenhouse gas emission, energy exchange, and water use in managed and unmanaged ecosystems, plant- environment interactions, plant-water relations
REFEREED PUBLICATIONS Heilman, J. L., M. E. Litvak, K. J. McInnes, J. F. Kjelgaard, R. H. Kamps and S. Schwinning. 2012. Water-storage capacity controls energy partitioning and water use in karst ecosystems on the Edwards Plateau, Texas. Ecohydrology DOI: 10.1002/eco.1327 Elkington, R. J., K. T. Rebel, J. L. Heilman, M. E. Litvak, S. C. Dekker and G. W. Moore. 2012. Species- specific water use by woody plants on the Edwards Plateau, Texas. Ecohydrology DOI: 10.1002/eco.1344 Tokumoto, I., J. L. Heilman, K. J. McInnes, C. L. S. Morgan, and R. H. Kamps. 2012. Calibration and use of neutron moisture and gamma density probes in rocky soils. Soil. Sci. Soc. Am. J. 76:2136- 2142 Jarvis, J.D., R. Collett, G. Wingenbach, J. L. Heilman and D. Fowler. 2012. Developing a foundation for constructing new curricula in soil, crop, and turfgrass sciences. J. Nat. Resour. Life Sci. Educ. 41:7-14 Tokumoto, I., J. L. Heilman, K. J. McInnes and R. H. Kamps. 2011. Sealing neutron probe access-tubes in rocky soils using expandable polyurethane foam. Soil Sci. Soc. Am. J. 75:1922-1925 Bendevis, M. A., M. Keith Owens, J. L. Heilman and K. J. McInnes. 2010. Carbon gain and water loss from two evergreen trees in a semiarid woodland. Ecohydrology 3:107-115. Heilman, J. L., K. J. McInnes, and J. F. Kjelgaard. 2009. Energy balance and water use in a subtropical karst woodland on the Edwards Plateau, Texas. J. Hydrol. 373:426-435. Savage, M. J., and J. L. Heilman. 2009. Infared calibration of net radiometers and infrared thermometers. Agric. For. Meteorol. 149:1279-1293. Kjelgaard, J.F., J. L. Heilman, K. J. McInnes, M. K. Owens and R. H. Kamps. 2008. Carbon dioxide exchange in a subtropical, mixed C3/C4 grassland on the Edwards Plateau, TX. Agric. For. Meteorol. 148:153-163. Manyame, C., C. L. Morgan, J. L. Heilman, D. Fatondji, B. Gerard and W. A. Payne. 2007. Modeling hydruaulic properties of sandy soils in Niger using pedotransfer functions. Geoderma 141:407-415. Fejes, E., D. Roelke, G. Gable, J. Heilman, K. McInnes and D. Zuberer. 2005. Microalgal productivity, community composition, and pelagic food-web dynamics in a semi-tropical, turbid salt marsh isolated from freshwater inflow. Estuaries 28:96-107. Heinsch, F. A., J. L. Heilman, K. J. McInnes, D. R. Cobos, D. A. Zuberer and D. L. Roelke. 2004. Carbon dioxide exchange in a high marsh on the Texas Gulf Coast: effects of freshwater availability. Agric. For. Meteorol. 125:159-172. Ham, J. M., and J. L. Heilman. 2003. Experimental test of density and energy-balance corrections on CO2 flux as measured using open-path eddy covariance. Agron. J. 95:1393:1403 Gilbert, R. A., J. L. Heilman and A. S. R. Juo. 2003. Diurnal and seasonal light transmission to cowpea in sorghum-cowpea intercrops in Mali. J. Agron. Crop Sci. 189:1-8. Noborio, K., K. J. McInnes and J. L. Heilman. 2002. On measuring soil thermal properties with a dual-probe heat pulse technique. J. Jpn. Soc. Soil Phys. 90:3-9. Campbell, C. S., J. L. Heilman, K. J. McInnes, L. T. Wilson, J. C. Medley, G. Wu and D. R. Cobos. 2001. Seasonal variation in radiation use efficiency of irrigated rice. Agric. For. Meteorol. 110:45-54. Campbell, C. S., J. L. Heilman, K. J. McInnes, L. T. Wilson, J. C. Medley, G. Wu and D. R. Cobos. 2001. Diel and seasonal variation in CO2 flux of irrigated rice. Agric. For. Meteorol. 108:15-27. Heilman, J. L., F. A. Heinsch, D. R. Cobos and K. J. McInnes. 2000. Energy balance of a high marsh on the Texas Gulf Coast: Effect of water availability. J. Geophys. Res.105:22371-22377. Gesch, R. W. and J. L. Heilman. 1999. Responses of photosynthesis and phosphorylation of the light- harvesting complex of photosystem II to chilling temperature in ecologically divergent cultivars of rice. Environ. Exp. Bot. 41:257-266. Heilman, J. L., D. R. Cobos, F. A. Heinsch, C. S. Campbell and K. J. McInnes. 1999. Tower-based conditional sampling for measuring ecosystem-scale carbon dioxide exchange in coastal wetlands. Estuaries 32:584-591. Roel A., J. L. Heilman and G. N. McCauley. 1999. Water use and plant response in two rice irrigation methods. Agric. Water Manage. 39:35-46. Wakamiya-Noborio, I., J. L. Heilman, R. J. Newton and M. G. Messina. 1999. Diurnal changes in water conduction in loblolly pine (Pinus taeda) and Virginia pine (P. Virginiana) during soil dehydration. Tree Physiology 19:575-581. McInnes, K. J., C. S. Campbell and J. L. Heilman. 1998. Separation and dispersion of conditionally sampled eddies through an intake tube. Agron. J. 90:845-850. Noborio, K., K. J. McInnes and J. L. Heilman. 1997. Construction and applications of a computer-controlled multiplexing TDR system. Trans. JSIDRE 188:129-135. Zeng, W. and J. L. Heilman. 1997. Sensitivity of evapotranspiration of cotton and sorghum to changes in climate and carbon dioxide. Theor. Appl. Climatol. 57:245-254. Noborio, K., K. J. McInnes and J. L. Heilman. 1996. Measurements of cumulative infiltration and wetting front location by time domain reflectometry. Soil Sci. 161:480-483. Heilman, J. L., K. J. McInnes, R. W. Gesch, R. J. Lascano and M. J. Savage. 1996 Effect of trellising on the energy balance of a vineyard. Agric. For. Meteorology 81:79-93. McInnes, K. J., J. L. Heilman and R. J. Lascano. 1996. Aerodynamic conductances along the soil surface in a vineyard. Agric. For. Meteorol. 79:29-37. Noborio, K., K. J. McInnes and J. L. Heilman. 1996. Measurements of soil water content, heat capacity and thermal conductivity with a single TDR probe. Soil Science 161:22-28. Noborio, K., K. J. McInnes and J. L. Heilman. 1996. A 2-D finite element model for solution, heat and solute transport in furrow-irrigated soil: I. Theory. Soil Sci. Soc. Am. J. 60:1001-1009. Noborio, K., K. J. McInnes and J. L. Heilman. 1996. A 2-D finite element model for solution, heat and solute transport in furrow-irrigated soil: II. Comparison with field-measured values. Soil Sci. Soc. Am. J. 60:1010-1021. Savage, M. J., K. J. McInnes and J. L. Heilman. 1996. The "footprints" of eddy correlation and other micrometeorological measurements. South African J. Sci. 92:137-142. Savage, M. J., K. J. McInnes and J. L. Heilman. 1995. Placement height of eddy correlation sensors above a short turfgrass surface. Agric. For. Meteorol. 74:195-204. Lascano, R. J., R. L. Baumhardt, S. K. Hicks and J. L. Heilman. 1994. Soil and plant water evaporation from strip-tilled cotton: Measurement and simulation. Agron. J. 86:987-994. Noborio, K., K. J. McInnes and J. L. Heilman. 1995. Field measurements of soil electrical conductivity and water content by time-domain reflectometry. Computer Electronics Agric. 11:131-142. Heilman, J. L., K. J. McInnes, M. J. Savage, R. W. Gesch and R. J. Lascano. 1994. Soil and canopy energy balances in a west Texas vineyard. Agric. For. Meteorol. 71:99-114. McInnes, K. J., J. L. Heilman and M. J. Savage. 1994. Aerodynamic conductances along a bare ridge-furrow tilled soil surface. Agric. For. Meteorol. 68:119-131 Yang, C.-M. and J. L. Heilman. 1993. Response of rice (Oryza Sativa L.) to short-term high temperature: Growth, development and yield. Jour. Agric. Res. China 42:1-11. Heilman, J. L., K. J. McInnes, R. W. Gesch and R. J. Lascano. 1992. Evaporation from ridge-tilled soil covered with herbicide-killed winter wheat. Soil Sci. Soc. Am. J. 56:1278-1286. Zajicek, J. M. and J. L. Heilman. 1991. Water use by crape myrtle (Lagerstroemia indica) cultivars as affected by surface materials in the urban landscape. HortScience 26:1207-1210. Heilman, J. L. and R. W. Gesch. 1991. Effects of turfgrass evaporation on external temperatures of buildings. Theor. Appl. Climatol. 43:185-194. Yang, C.-M. and J. L. Heilman. 1991. Diurnal and seasonal stomatal behaviors of rice plants grown in controlled environment. Chinese Agron. J. 1:147-154. Yang, C.-M. and J. L. Heilman. 1991. Short-term high temperature effects on stomatal behaviors of rice plants. I. Occurring at the vegetative stage. Jour. Agric. Res. China 40:233-242. Yang, C.-M. and J. L. Heilman. 1991. Short-term high temperature effects on stomatal behaviors of rice plants. II. Occurring at the grain-filling stage. Jour. Agric. Res. China 40:243-247. McInnes, K. J., J. L. Heilman and R. W. Gesch. 1990. Momentum roughness and zero-plane displacement of ridge-furrow tilled soil. Agric. For. Meteorol. 55:167-179. Ham, J. M., J. L. Heilman and R. J. Lascano. 1991. Soil and canopy energy balances of a row crop at partial cover. Agron. J. 83:744-753. Ham, J. M. and J. L. Heilman. 1990. Aerodynamic and surface resistances affecting energy transport in a sparse crop. Agric. For. Meteorol. 53:267-284 Ham, J. M., J. L. Heilman and R. J. Lascano. 1990. Determination of soil evaporation and transpiration from energy balance and stem flow measurements. Agric. For. Meteorol. 52:287-301. Heilman, J. L. and J. M. Ham. 1990. Measurement of mass flow rate of sap in Ligustrum japonicum. HortScience 25:465-467. Ham, J. M. and J. L. Heilman. 1989. Dynamics of a heat balance stem flow gauge during high flow. Agron. J. 82:147-152. Heilman, J. L., C. L. Brittin and J. M. Zajicek. 1989. Water use of shrubs as affected by energy exchange with building walls. Agric. For. Meteorol. 48:345-357. Heilman, J. L., C. L. Brittin and C. M. U. Neale. 1988. Fetch requirements for Bowen ratio measurements of latent and sensible heat fluxes. Agric. For. Meteorol. 44:261-273. Heilman, J. L. and M. R. Kress. 1987. Effects of vegetation on spectral irradiance at the soil surface. Agron. J. 79:765-768. Martin, R. D., Jr. and J. L. Heilman. 1986. Spectral reflectance patterns of flooded rice. Photo. Engr. and Rem. Sensing 52:1885-1890. Heilman, J. L. and W. E. Boyd. 1986. Soil background effects on the spectral response of a three component rangeland scene. Rem. Sens. Environ. 19:127-137. Newton, R. W., J. L. Heilman and C. H. M. van Bavel. 1983. Integrating passive microwave measurements with a soil moisture/heat flow model. Ag. Water Management 7:379-389. Moore, D. G., J. C. Harlan, J. L. Heilman, D. O. Ohlen and W. D. Rosenthal. 1983. Infrared remote sensing for monitoring rainfall. Ag. Water Management 7:363-368. Heilman, J. L. and D. G. Moore. 1982. Evaluating water table depth using Heat Capacity Mapping Mission (HCMM) data. Photo. Engr. and Rem. Sensing 48:1903-1906. Heilman, J. L., W. E. Heilman and D. G. Moore. 1982. Evaluating the crop coefficient using spectral reflectance. Agron. J. 74:967-971. Heilman, J. L. and D. G. Moore. 1982. Evaluating near surface soil moisture using Heat Capacity Mapping Mission data. Rem. Sens. Environ. 12:117-121. Heilman, J. L., W. E. Heilman and D. G. Moore. 1981. Remote sensing of canopy temperature at incomplete cover. Agron. J. 73:403-406. Heilman, J. L. and D. G. Moore. 1981. HCMM detection of high soil moisture areas. Rem. Sens. Environ. 11:73-76. Heilman, J. L. and D. G. Moore. 1980. Thermography for estimating soil moisture under a developing crop canopy. J. Appl. Meteorol. 19:324-328. Kanemasu, E. T., J. L. Heilman, J. O. Bagley and W. L. Powers. 1977. Using Landsat data to estimate evapotranspiration of winter wheat. Environ. Management 1:515-520. Heilman, J. L., E. T. Kanemasu, J. O. Bagley and V. P. Rasmussen. 1977. Evaluating soil moisture and yield of winter wheat in the great Plains using Landsat data. Rem. Sens. Environ. 6:315-326. Heilman, J. L., E. T. Kanemasu and G. M. Paulsen. 1977. Estimating dry matter accumulation in soybean. Can. J. Bot. 55:2196-2201. Heilman, J. L., E. T. Kanemasu, N. J. Rosenberg and B. L. Blad. 1976. Thermal scanner measurement of canopy temperatures to estimate evapotranspiration. Rem. Sens. Environ. 5:137-145. Heilman, J. L. and E. T. Kanemasu. 1976. An evaluation of a resistance form of the energy balance to estimate evapotranspiration. Agron. J. 68:607-611. Blad, B. L., E. T. Kanemasu, N. J. Rosenberg, M. W. Baradas, S. B. Verma and J. L. Heilman. 1975. Evapotranspiration estimates based on remotely sensed crop temperature tested at three locations in the central Great Plains. Bull. Amer. Meteorol. Soc.
Book Chapters/Refereed Symposia Proceedings: Litvak, M.E., S. Schwinning and J. L. Heilman. 2010. Woody plant rooting depth and ecosystem function of savannas: a case study from the Edwards Plateau karst, Texas, USA. In Hill, MJ. and N.P. Hanan (eds.) Ecosystem function in global savannas: Measurement and modeling at landscape to global scales. McInnes, K. J. and J. L. Heilman. Relaxed Eddy Accumulation. 2005. Micrometeorological Measurements in Agricultural Systems. ASA Monograph 47. Lascano, R. J., R. L. Baumhardt, S. K. Hicks, S. R. Evett and J. L. Heilman. 1996. Daily measurement and calculation of crop water use. Proc. International Conference on ET and Irrigation Scheduling. Lascano, R. J., R. L. Baumhardt, S. K. Hicks and J. L. Heilman. 1995. Daily measurement of cotton water use with an integrated system. p. 579-587. In Proc.Water for Texas Conf., 24th, Austin, TX. Texas Water Development Board, Austin. Savage, M. J. and J. H. Heilman. 1993. Aerodynamic measurement of evaporation. In Lorentz, S. W. Kenzle and M. C. Dent. Proceedings of the 6th South African National Hydrological Symposium, pp 63-70. Heilman, J. L. 1983. Introduction to part 5: Remote sensing of plant stress and water use. In Stone, J. F. and W. O. Willis (eds.), Plant production and management under drought conditions. Elsevier Science Publishers, p. 301. November 21st, 2013 Brief Curriculum Vitae Kendal D. Hirschi, Ph.D. Personal Statement I work on the basic mechanisms of plant nutrient transport and creating rationale strategies for the nutritional enhancement of crops. My group has published work utilizing bacteria, yeast, plants, mice, zebrafish and humans as experimental tools to study molecular nutrition. We collaborate with faculty at the Children’s Nutrition Research and at the Vegetable and Fruit Improvement Center at Texas A&M University (where I am Associate Director). Obtaining help from nutritional scientists, we perform clinical trials addressing how changes in plant architecture alter nutrient bioavailability. My research focuses on bridging the chasm between plant biology and nutritional sciences. Generations of nutritional scientists have cataloged the nutrients in foods, while in the last decade plant genome projects have facilitated the development of genetic tools to manipulate nutrient content; however, few studies have assessed the impact that these genetic modifications have on nutrient bioavailability.
Education: 1981 – 1984 B.S. Biochemistry, University of Arizona, Tucson, AZ 1986 – 1988 M.S. Microbiology, Arizona State University, Tempe, AZ 1988 – 1993 Ph.D. Plant Pathology, University of Arizona, Tucson, AZ 1993 – 1997 Fellow Postdoctoral Fellowship, Whitehead Institute, MIT
Current Faculty Positions: 2008 – Present Professor, Departments of Pediatrics & Human and Molecular Genetics, Baylor College of Medicine, Children's Nutrition Research Center, and Professor, Department of Horticulture, Texas A&M University 2006 – Present Associate Director of Research, Vegetable and Fruit Improvement Center, Texas A&M University Courtesy Faculty Appointment(s) at Other Institutions:
2003 – Present Professor, Department of Biochemistry and Cell Biology, Rice University Honors/Awards:
1993 – 1996 Helen Hay Whitney Postdoctoral Fellowship, Whitehead Institute, M.I.T., award for salary and expenses
1995 M.I.T. Course Instructor, chosen to teach advanced undergraduates a full semester course in plant genetics and molecular biology
2001 International Advisory Committee, Intracellular Signaling in Plant and Animal Systems, Kiev, Ukraine
2003 Organizing Committee, 1st Pan-American Plant Membrane Biology Meeting, Cuernavaca Mexico
2004 Organizing Committee, International Plant Membrane Biology, Montpellier, France
2004 – 2007 American Society of Plant Biologists, Charles Reid Barnes Life Award Committee 2006 Principal Organizer, 2nd Pan American Plant Membrane Biology Meeting, South Padre Island, Texas
2007 Organizing Committee International Plant Membrane Biology, Valencia, Spain 2007 – 2015 American Society of Plant Biologists, Dennis R. Hoagland Award Committee Kendal D. Hirschi, Ph.D. Page 2 of 4 Brief Curriculum Vitae Last Updated: 11-21-13 2010 Organizing Committee, III Pan American Plant Membrane Biology Workshop, Puebla, Mexico 2010 Organizing Committee, International Plant Membrane Biology, Adelaide, Australia 2011 Innovation Award, Institute of Biosciences and Bioengineering, Rice University, Houston, Texas
Journal Editorial Boards 2009 – 2014 Editorial Board, Journal of Biological Chemistry
Review Panels: 1999 – Present ad hoc Reviewer, National Science Foundation 1999 – Present ad hoc Reviewer, U.S. Department of Agriculture 2003 – Present Signal Transduction Panel, NSF 2004 Plants and Environmental Adaptation Panel, USDA 2006 Integrative Plant Biology Panel, NSF 2007 – 2010 Integrative Systems Proposal Review Panel, Physiological and Structural Systems Cluster, NSF 2008 Integrative Organismal Systems Proposal Review Panel for Physiological and Structural Systems Cluster, NSF
Professional Societies & Elected Positions: 1989 – Present American Society of Plant Physiologists 2004 – Present American Society for Biochemistry and Molecular Biology 2004 – 2007 American Society of Plant Biologists, Charles Reid Barnes Life Award Committee 2007 – 2015 American Society of Plant Biologists, Dennis R. Hoagland Award Committee
Selected Peer-Reviewed Publications (96 peer-reviewed; past 5 years; 2009-2013)
1. Han, J-S, Park S, Shigaki T, Hirschi KD, Kim CK. (2009) Improved watermelon quality using bottle grourd rootstock expressing a Ca2+/H+ antiporter. Mol Breeding, 24(3):201-211, (DOI: 10.1007/s11032-009-9284-9).
2. Hawthorne KM, Morris J, Hotze T, Hirschi KD, Abrams SA. (2009) Biotechnologically-modified carrots: Calcium absorption relative to milk. J Bioequivalence Bioavailability, 1(1):34-38, (DOI: 10.4172/jbb.1000006).
3. Korenkov V, King B, Hirschi KD, Wagner GJ. (2009) Root-selective expression of AtCAX4 and AtCAX2 results in reduced lamina cadmium in field-grown Nicotiana tabacum L. Plant Biotechnol J., 7(3):219-226, (PMID: 19175521).
4. Mei H, Cheng N-H, Zhao J, Park S, Escareno R, Pittman J, Hirschi KD. (2009) Root development under metal stress in Arabidopsis thaliana requires the H+/cation antiporter CAX4. New Phytol., 183(1):95-105, (PMID: 19368667).
5. Park S, Elless MP, Park J, Jenkins A, Lim W, Chambers IV E, Hirschi KD. (2009) Sensory analysis of calcium-biofortified lettuce. Plant Biotechnol J., 7(1):106-117, (PMID: 19021875).
6. Zhao J, Connorton JM, Guo Y-Q, Li X, Shigaki T, Hirschi KD, Pittman JK. (2009) Functional studies of split Arabidopsis Ca2+/H+ exchangers. J Biol Chem., 284(49): 34075-34083, (PMID: 19819871).
7. Zhao J, Shigaki T, Mei H, Guo Y-Q, Cheng N-H, Hirschi KD. (2009) Interaction between Arabidopsis Ca2+/H+ exchangers CAX1 and CAX3. J Biol Chem., 284(7): 4605-4615, (PMID: 19098009).
KDH-Brief CV.doc Kendal D. Hirschi, Ph.D. Page 3 of 4 Brief Curriculum Vitae Last Updated: 11-21-13 8. Li L, Cheng N-H, Hirschi KD, Wang X. (2010) Structure of Arabidopsis chloroplastic monothiol glutaredoxin AtGRXcp. Acta Crystallogr D Biol Crystallogr., 66(Pt 6):725-732, (PMID: 20516625).
9. Manohar M, Mei H, Franklin AJ, Sweet EM, Shigaki T, Riley BB, MacDiarmid CW, Hirschi KD. (2010) Zebrafish (Danio rerio) endomembrane antiporter similar to a yeast cation/H+ transporter is required for neural crest development. Biochemistry, 49(31):6557-6566, (PMID: 20578725).
10. Shigaki T, Mei H, Marshall J, Li X, Manohar M, Hirschi KD. (2010) The expression of the open reading frame of Arabidopsis cAX1, but not its cDNA, confers metal tolerance in yeast. Plant Biology, 12(6):935- 939, (PMID: 21061745).
11. Cheng N-H, Liu J-Z, Liu X, Wu Q, Thompson SM, Lin J, Chang J, Whitham SA, Park S, Cohen JD, Hirschi KD. (2011) Arabidopsis monothiol glutaredoxin, AtGRXS17, is critical for temperature-dependent postembryonic growth and development via modulating auxin response. J Biol Chem., 286(23):20398-20406, (PMID: 21515673).
12. Cheng N-H, Zhang W., Chen W-Q, Jin J, Cui X, Butte NF, Chan L, Hirschi KD. (2011) A mammalian monothiol glutaredoxin, Grx3, is critical for cell cycle progression during embryogenesis. FEBS J., 278(14):2525-2539, (PMID: 21575136).
13. Conn SJ, Gilliham M, Athman A, Schreiber AW, Baumann U, Møller I, Cheng N-H, Stancombe MA, Hirschi KD, Webb AAR, Burton R, Kaiser BN, Tyerman SD, Leigh RA. (2011) Cell-specific vacuolar calcium storage mediated by CAX1 regulates apoplastic calcium concentration, gas exchange, and plant productivity in Arabidopsis. Plant Cell, 23(2):240-257, (PMID: 21258004).
14. Manohar M, Shigaki T, Hirschi KD. (2011) Plant cation/H+ exchangers (CAXs): Biological functions and genetic manipulations. Plant Biology, 13(4):561-569,(PMID: 21668596).
15. Manohar M, Shigaki T, Mei H, Park S, Marshall J, Aguilar J, Hirschi KD. (2011) Characterization of Arabidopsis Ca2+/H+ exchanger CAX3. Biochemistry, 50(28):6189-6195, (PMID: 21657244).
16. Wu Q, Shigaki T, Williams KA, Han J-S, Kim CK, Hirschi KD, Park S. (2011) Expression of an Arabidopsis Ca2+/H+ antiporter CAX1 variant in petunia enhances cadmium tolerance and accumulation. J Plant Physiol., 168(2):167-173, (PMID: 20633955).
17. Cho D, Villiers F, Kroniewicz L, Lee S, Seo YJ, Hirschi KD, Leonhardt N, Kwak JM. (2012) Vacuolar CAX1 and CAX3 influence auxin transport in guard cells via regulation of apoplastic pH. Plant Physiol., 160(3):1293-1302, (PMID: 22932758; PMCID: 3490596).
18. Emery L, Whelan S, Hirschi KD, Pittman, JK. (2012) Protein phylogenetic analysis of Ca2+/cation antiporters and insights into their evolution in plants. Front. Plant Sci., 3(1):1-19, (PMID: 22645563).
19. Hirschi KD. (2012) New foods for thought. Trends Plant Sci., 17(3):123-125, (PMID: 22265093).
20. Punshon T, Hirschi KD, Yang J, Lanzirotti A, Lai B, Guerinot ML. (2012) The role of CAX1 and CAX3 in elemental distribution and abundance in Arabidopsis seed. Plant Physiol., 158(1):352-362, (PMID: 22086421).
21. Undurraga SF, Santos MP, Paez-Valencia J, Yang H, Hepler PK, Facanha AR, Hirschi KD, Gaxiola RA. (2012) Arabidopsis sodium dependent and independent phenotypes triggered by H+-PPase up-regulation are SOS1 dependent. Plant Sci., 183(Feb 2012):96-105, (PMID: 22195582).
KDH-Brief CV.doc Kendal D. Hirschi, Ph.D. Page 4 of 4 Brief Curriculum Vitae Last Updated: 11-21-13 22. Wu Q, Lin J, Liu J-Z, Wang X, Lim W, Oh W, Park J, Rajasheka CB, Whitham SA, Cheng N-H, Hirschi KD, Park S. (2012). Ectopic expression of Arabidopsis glutaredoxin AtGRXS17 enhances thermotolerance in tomato. Plant Biotechnol. J., 10(8):945-955, (PMID: 22762155).
23. Wu Q, Shigaki T, Han JS, Kim CK, Hirschi KD, Park S. (2012) Ectopic expression of a maize calreticulin mitigates calcium deficiency-like disorders in CAX1-expressing tobacco and tomato (cover article). Plant Mol Biol., 80(6):609-619, (PMID: 23007728).
24. Yang J, Punshon T, Guerinot ML, Hirschi KD. (2012) Plant calcium content: Ready to remodel. J. Nutrients, 4(8):1120-1136, (PMID: 23016135).
25. Liu X, Liu S, Feng Y, Liu JZ, Chen Y, Pham K, Deng H, Hirschi KD, Wang X, Cheng N. (2013) Structural insights into the N-terminal GIY-YIG endonuclease activity of Arabidopsis glutaredoxin AtGRXS16 in chloroplasts. Proc Natl Acad Sci U S A., 110(23):9565-9570. (PMID: 23690600).
26. Li X, Yang J, Morris J, Hester A, Nakata PA, Hirschi KD. (2013) Genetically modified Medicago truncatula lacking calcium oxalate has increased calcium bioavailability and partially rescues vitamin D receptor knockout mice phenotypes. J Bioequivalence Bioavailability, 5(1):047-052, (Not Listed in Pub Med).
27. Punshon T, Tappero R, Ricachenevsky FK. Hirschi KD, Nakata P. (2013) Contrasting calcium localization and speciation in leaves of Medicago truncatula mutant COD5 analyzed via synchrotron X-ray techniques. Plant Journal, 76(4):627-33. (PMID: 24033783).
Selected Book Chapters (past 5 years; 2009-2013)
1. Hirschi KD. Nutrient biofortification of food crops. In: Annual Reviews of Nutrition. Eds.: Cousins R, Bier D, Bowman B, Dean L. Publisher: Annual Reviews, Inc., Palo Alto, California, U.S.A., Vol. 29, p. 401-421, 2009, (PMID: 19400753).
2. Mei H, Shigaki T, Hirschi KD. Yeast as a tool for plant Ca+ transporter research [Review]. Current Topics in Plant Biology-Research Trends, 9, 79-86, 2009.
3. Connorton JM, Hirschi KD, Pittman JK. Mechanism and evolution of calcium transport across the plant plasma membrane, Section II: Plasma membrane transporters. In: The Plant Plasma Membrane, Plant Cell Monographs 19. Eds.: Murphy AS, Peer W, and Schultz B. Publisher: Springer-Verlag Berlin, Heidelberg, Germany, p. 275-289, 2011.
4. Hirschi KD and Thompson S. Calcium biofortification of crops (Chapter 17, Section II). In: Nutritional Genomics: The Impact of Dietary Regulation of Gene Function on Human Disease, Eds.: WR Bidlack and RL Rodriguez. Publisher: CRC Press: Taylor & Francis Group, LLC, Boca Raton, Florida, p. 317-330, 2011.
KDH-Brief CV.doc BIBLIOGRAPHICAL SKETCHE: Amir M. Ibrahim, Ph.D. EDUCATION: Ph.D. 1998 - Plant Breeding and Genetics, Colorado State University, Fort Collins, Colorado. M.S. 1994 - Crop Production, American University of Beirut, Beirut, Lebanon. B.S. (HONOR) 1991 - Crop Science, University of Gezira, Wad Medani, Sudan. PROFESSIONAL EXPERIENCE: Professor of Soil and Crop Sciences and Small Grains Breeder/Geneticist (Small Grains Program Leader; 9/2012 – Present), Soil and Crop Sciences Department, Texas A&M University Associate Professor of Soil and Crop Sciences and Small Grains Breeder/Geneticist (Small Grains Program Leader; 9/2007 – 8/2012), Soil and Crop Sciences Department, Texas A&M University Assistant – Associate Professor of Plant Science and Winter Wheat Breeder/Geneticist (6/2000 – 6/2007), South Dakota State University Postdoctoral Research Associate, Wheat Breeding and Genetics, Department of Soil and Crop Sciences, Colorado State University (9/1998 - 6/2000) Graduate Research Assistant, Wheat Breeding and Genetics, Department of Soil and Crop Sciences, Colorado State University (8/1995 -9/1998) Visiting Scientist, International Maize and Wheat Improvement Center (CIMMYT), Mexico (1/1995- 8/1995 Research Scientist, Wheat Breeding, Agricultural Research Corporation, Wad Medani, Sudan; and Adjunct Faculty, University of Gezira, Wad Medani, Sudan (7/1994- 1/1995) TEACHING: SCSC 660: Experimental designs in agriculture. PRODUCT DEVELOPMENT: Released and co-released ten wheat cultivars. GRANTS FUNDED: $36,357,969 funded total; $3,528,805 to Ibrahim since 2000. Professional Affiliations: American Society of Agronomy, Crop Science Society of America, Sigma Xi Selected referred publications (2010 - present): 1. Malla, S., A.M.H. Ibrahim, Y. Yen, W. Berzonsky, K.D. Glover, and J. SteinMalla, S. 2010. Quantitative Trait Loci Analysis of Novel Fusarium Head Blight Resistance in Tokai 66. Am. J. Agri. & Biol. Sci. 5:62- 69. 2. Ibrahim, A.M.H., J. Johnson, R. Sutton, G. Morgan, J. Rudd, L.R. Nelson, A. Knutson, J.J. Heitholt, and G.D. Buntin. 2010. Registration of ‘TAMsoft 700’ wheat. Journal of Plant Registrations 4:50-54. 3. Ali, M., A.M.H. Ibrahim, Dirk B. Hays, Z. Ristic, and J. Fu. 2010. Wild tetraploid wheat (Triticum turgidum L.) response to heat stress. Journal of Crop Improvement 24:228-243. 4. Gu, X.-Y., L. Zhang, K. Glover, C. Chu, S.S. Xu, J.D. Faris, T.L. Friesen, A. M.H. Ibrahim. 2010. Genetic variation of seed dormancy in synthetic hexaploid wheat-derived populations. Crop Sci. 50:1318–1324. 5. Malla, S., A.M.H. Ibrahim, Y. Yen, W.A. Berzonsky and J. Stein. 2010. QTL Analysis of Novel FHB Resistance in SD97060. International Journal of Plant Breeding 4: 47-54. 6. Malla, S., A.M.H. Ibrahim, K.D. Glover and W. A. Berzonsky. 2010. Combining Ability of Fusarium head blight resistance in wheat. Commun. Biometry Crop Sci 5:116-126. 7. Mason, R.E., S. Mondal, F.W. Beecher, A. Pacheco, B. Jampala, A.M.H. Ibrahim, D.B. Hays. 2010. QTL associated with heat susceptibility index in wheat (Triticum aestivum L.) under short-term reproductive stage heat stress. Euphytica 174: 423-436. 8. Pillai, T.R., W. Yan, H. A. Agrama, A.M.H. Ibrahim, T. J. Gentry, R. H. Loeppert. 2010. Total grain- arsenic and arsenic-species concentration in diverse rice cultivars under flooded conditions. Crop Sci. 50:2065-2075. 9. Malla, S., A.M.H. Ibrahim, Kalsbeck, R. Little, C. Ren, and K. Glover. 2010. Comparison of Shifted Multiplicative Model, Rank Correlation, and Biplot Analysis for Clustering Winter Wheat Environments. Euphytica 174:357–370. 10. Glover, J.D., J.P. Reganold, L.W.Bell, J. Borevitz, E.C. Brummer, E.S. Buckler, C.M. Cox, T.S. Cox, T.E. Crews, S.W. Culman, L.R. DeHaan, D. Eriksson, B.S. Gill, J. Holland, F. Hu, B.S. Hulke, A.M.H. Ibrahim, W. Jackson, S.S. Jones, S.C. Murray, A.H. Paterson, E. Ploschuk, E.J. Sacks, S. Snapp, D. Tao, D.L. Van Tassel, L.J. Wade, D.L. Wyse, Y. Xu. 2010. Increased food and ecosystem security via perennial grains. Science 328:1638-1639. 11. Baenziger, P.S., R. A. Graybosch, L. A. Nelson, T. Regassa, R. N. Klein, D. D. Baltensperger, D. K. Santra, A. M. H. Ibrahim, W. Berzonsky, J. M. Krall, L. Xu, S. N. Wegulo, M. L. Bernards, Y. Jin, J. Kolmer, J. H. Hatchett, Ming-Shun Chen, and Guihua Bai. 2011. Registration of 'NH03614 CL' Wheat. J. Plant Registrations 5:75-80. 12. Boote, K.J., A.M.H. Ibrahim, R. Lafitte, R.L. McCulley, C. Messina, S.C. Murray, J.E. Specht, S. Taylor, M.E. Westgate, K. Glasener, C.G. Bijil, and J.H. Giese. 2011. Position statement on crop adaptation to climate change. Crop Sci. 51:2337-2343. 13. Abdelghafor, Ranya F., Abdelmoneim I. Mustafa, Amir M.H. Ibrahim and Padmanaban G. Krishnan. 2011. Quality of Bread from Composite Flour of Sorghum and Hard White Winter Wheat. Adv. J. Food Sci. Technol. 3: 9-15. 14. Basnet, B.R., Ali, M.B., Ibrahim, A.M.H., Payne, T., Mosaad, M.G. 2011. Evaluation of genetic bases and diversity of Egyptian wheat cultivars released during the last 50 years using coefficient of parentage. Communications in Biometry and Crop Science 6: 31–47. 15. Malla, S., A.M.H. Ibrahim, Y. Yen, K.D. Glover, and W.A. Berzonsky. 2011. Association of Fhb1 and Qfhs.ifa-5A in Spring Versus Winter Growth Habits in Bread Wheat (Triticum aestivum L.). Journal of Agricultural Science 4:39-48. 16. Basnet, B.R., K. Glover, Y. Yen, S. Chao, and A.M.H. Ibrahim. 2012. A QTL on chromosome 2DS of 'Sumai 3' increases susceptibility to Fusarium Head Blight in wheat. Euphytica 186:91-101. 17. Meeks, M., S. Murray, S. Hague1, D. Hays, and A.M.H. Ibrahim. 2012. Genetic variation for maize epicuticular wax response to drought stress at flowering. J. Agronomy & Crop Science 198:161-172. 18. Cooper, J., A.M.H. Ibrahim, J. Rudd, D. Hays, J. Baker, and S. Malla. 2012. Increasing Hard Winter Wheat Yield Potential via Synthetic Wheat: I. Path-coefficient Analysis of Yield and its Components. Crop Science 52: 2014-2022. 19. Beecher, F., E. Mason, S. Mondal, Amir M. H. Ibrahim, and D. Hays. 2012. Identification of Quantitative Trait Loci (QTLs) Associated with Maintenance of Wheat (Triticum aestivum Desf.) End-use Quality under Heat Stress Conditions. Eupytica 188:361–368. 20. Butcher, J.D., K. M. Crosby, A.M.H. Ibrahim, D. I. Leskovar, L. Jifon, K.S. Yooi, and B. Patil. 2012. Environmental and genotypic variation of Capsaicinoid and flavonoid concentrations in Habanero (Capsicum chinense) peppers. HortScience 47:574-579. 21. Jondiko, T., L. Novie, D. Hays, A.M.H. Ibrahim, M. Tilley, and J. Awika. 2012. Effect of high molecular weight glutenin allele substations on wheat flour tortilla quality. Cereal Science 89:155-161. 22. Rudd, J.C., R.N. Devkota, J.A. Baker, A.M. Ibrahim, D. Worrall, M.D. Lazar, R. Sutton, L.W. Rooney, L.R. Nelson, B. Bean, R. Duncan, B.W. Seabourn, R. Bowden, Y. Jin, and R.A. Graybosch. 2012. Registration of ‘TAM 113’ Wheat. Crop Sci. 7:63-68. 23. Emir Islamovic, Donald E. Obert, Rebekah E. Oliver, Stephen A. Harrison, Amir Ibrahim, Juliet M. Marshall, Kelci J. Miclaus, Gongshe Hu, and Eric W. Jackson. 2012. Genetic dissection of grain beta glucan and amylose content in barley (Hordeum vulgare L.). Mol Breeding DOI 10.1007/s11032-012- 9764-1. 24. Ali, M., A.M.H. Ibrahim, S. Malla, J. Rudd, and D. Hays. 2013. Family-based QTL mapping of heat stress tolerance in primitive tetraploid wheat (Triticum turgidum L.). Euphytica 192:189-203. 25. Thompson, W.H., D Pietsch, J.M. Blumenthal, A.M.H. Ibrahim, and D. D. Baltensperger. 2013. Agronomic Optimum Seeding Rate for Irrigated Maize in Texas is Concomitant to Growing Season Mean Daily Minimum Temperature. J. Agronomy & Crop Science ISSN 0931-2250. 26. Emir Islamovic, D. E. Obert, R. E. Oliver, J. M. Marshall, K.J. Miclaus, A. Hang, S. Chao, G. Lazo, S. Harrison, A.M.H. Ibrahim, E. N. Jellen, P. J. Maughan, R. H. Brown and E. W. Jackson. 2013. A new genetic linkage map of barley (Hordeum vulgare L.) facilitates genetic dissection of height and spike length and angle. Field Crops Research (In press). 27. Cooper, J., A.M.H. Ibrahim, J. Rudd, D. Hays, J. Baker, and S. Malla. 2013. Increasing Hard Winter Wheat Yield Potential via Synthetic Wheat: II. Heritability and Combining Ability of Yield and its Components. Crop Science 53: 67-73. 28. Basnet B. R., Ibrahim A. M. H., Rudd J., Singh R.P., Huerta-Espino J. and Herrera S. 2013. Genetic analysis of Adult plant Stripe and leaf rust resistance in spring wheat line Quaiu3. Plant Disease 97:728- 736.
CURRICULUM VITAE - 2013
NAME: Thomas Isakeit
ACADEMIC RANK: Professor and extension plant pathologist
ADDRESS: Department of Plant Pathology and Microbiology, Texas A & M University 2132 TAMU, College Station, TX 77843-2132 Phone: (979) 862-1340 (office); Fax: (979) 845-6483 E-mail: [email protected]
EDUCATION: Ph.D. Plant Pathology, Michigan State University, East Lansing, Sept.,1988. Deleterious Effect of Atrazine on Cochliobolus sativus in Soil. Research advisor: John L. Lockwood M.Sc. Plant Pathology, Michigan State University, East Lansing, August, 1984. The Disease-Supporting Capability of Soils of Different Fungistatic Capacity. Research advisor: John L. Lockwood B.Sc. Agriculture, University of Alberta, Edmonton, May, 1980. (Majors: plant pathology and horticulture)
PROFESSIONAL EXPERIENCE: September, 2005 - present: Professor and extension plant pathologist, Dept. Plant Pathology and Microbiology, Texas A&M University, College Station. (75% extension, 25% research) September, 1999 - August, 2005. Associate professor and extension plant pathologist, Dept. Plant Pathology and Microbiology, Texas A&M University, College Station. (75% extension, 25% research) February, 1993 - August, 1999. Assistant professor and extension plant pathologist, Dept. Plant Pathology and Microbiology, Texas A&M University, Weslaco and College Station. (100% extension). January, 1992 - February, 1993. Post-doctoral research associate. Department of Plant Pathology, University of Arizona, Tucson, AZ. Dr. M. E. Stanghellini, supervisor. August, 1991 - December, 1991. Visiting scientist. Bureau of Sugar Experiment Stations, Tully Sugar Experiment Station, Tully, Queensland, Australia. October, 1988 - July, 1991. Post-doctoral research associate. Department of Plant Pathology, University of California - Berkeley. Drs. Albert Weinhold, Milton Schroth & Joseph Hancock, supervisors.
PROFESSIONAL ASSOCIATIONS AND ACTIVITIES: Member, American Phytopathological Society (1983 to present) Member, Canadian Phytopathological Society (1985 to present)
TEACHING EXPERIENCE (GUEST LECTURER) – TEXAS A&M UNIVERSITY: BESC 201 (Introduction to bioenvironmental sciences); HORT 325 (Vegetable crop production) PLPA 301 (Introductory plant pathology); PLPA 611 (Advanced plant pathology) PLPA 613 (Advanced plant pathology laboratory); PLPA 623 (Diseases of Field Crops) PLPA 625 (Plant pathogenic fungi); PLPA 626 (Diagnosis of plant diseases); PLPA 690 (Theory of Research) Advisor for Melanie Edwards, PLPA 685 (Directed studies in plant pathology, 1 credit
GRADUATE ADVISING: Committee Chair: David Laughlin (Ph.D., PLPM); Brandon Hassett (M.Sc., 2012, PLPM) Committee Co-Chair: Noe Montes (Ph.D., 2004, PLPM) (with G. Odvody); Scott Fichtner (M.Sc., 2001, PLPM) (with T. Wheeler) Committee Member: Lauren Kalns (Ph.D., ENTO); Ivan Dario Barrero Farfan (Ph.D.,2013, CSS); José G. Franco (Ph.D., HORT); Ghada Radwan (Ph.D.,2013, PLPM); Curtis Cribben (M.Sc., 2013, BAEN); M. Cody McKee (M.Sc.,
Isakeit, C.V. 1 2012, CSS); Gerald N. De La Fuente (M.Sc., 2012, CSS); Seriba Katile (Ph.D., 2007, PLPM); Rebecca Corn (M.Sc., 2007, CSS); Hsiao-Yi Hung (M.Sc., 2007, CSS); Kerry Mayfield (M.Sc., 2006, Ph.D. 2011, CSS); Travis Faske (Ph.D., 2006, PLPM); Halima Atta (Ph.D., 2006, CSS); Melanie L. Edwards (Ph.D. 2005, CSS); Brett Ochs (M.Sc., 2005, CSS); Ahmed Sabry (Ph.D., 2003, PLPM); Jonathan Sinclair (Ph.D., 2003, HORT); Jorge Gonzalez (M.Sc. 2003, HORT); Sandeep Bhatnagar (M.Sc., 2001, Ph.D., 2004, CSS); Anitha Ramaswamy (M.Sc., 2001, PLPM)
TECHNICAL PUBLICATIONS AT TEXAS A&M (FULL-LENGTH, REFEREED): De La Fuente, G.N., S.C. Murray, T. Isakeit, Y.-S. Park, Y. Yan, M.L. Warburton, and M.V. Kolomiets. 2012. Characterization of genetic diversity and linkage disequilibrium of ZmLOX4 and ZmLOX5 loci in maize. PLOS ONE 8(1):e53973. Doi:10.1371/journal.pone.0053973 Rothrock, C.S., S.A. Winters, P.K. Miller, E. Gbur, L.M. Verhalen, B.E. Greenhagen, T. S. Isakeit, W.E. Batson, Jr., F.M. Bourland, P.D. Colyer, T.A. Wheeler, H.W. Kaufman, G.L. Sciumbato, P.M. Thaxton, K.S. Lawrence, W.S. Gazaway, A.Y. Chambers, M.A. Newman, T. L. Kirkpatrick, J.D. Barham, P.M. Phipps, F.M. Shokes, L.J. Littlefield, G.B. Padgett, R.B. Hutmacher, R.M. Davis, R.C. Kemerait, D.R. Sumner, K.W. Seebold, Jr., J.D. Mueller and R.H. Garber. 2012. Importance of fungicide seed treatment and environment on seedling diseases of cotton. Plant Dis. 96:1805-1817. doi: dx.doi.org/10.1094/PDIS-01-12-0031-SR Yan, Y., S. Christensen, T. Isakeit, J. Engelberth, R. Meeley, A. Hayward, R.J.N. Emery, and M.V. Kolomiets. 2012. Disruption of OPR7 and OPR8 reveals the versatile functions of jasmonic acid in maize development and defense. The Plant Cell 24:1420-1436. doi: 10.1105/tpc.111.094151. Christensen, S., E. Borrego,W.B. Shim,T.Isakeit, M. Kolomiets, M. 2012. Quantification of fungal colonization, sporogenesis, and production of mycotoxins using kernel bioassays. Journal of Visualized Experiments (62), e3727, DOI : 10.3791/3727 Mayfield, K., F. J. Betrán, T. Isakeit, G. Odvody, S. C. Murray, W.L.Rooney, and J.C. Landivar. 2012. Registration of maize germplasm lines Tx736, Tx739, Tx740, for reducing preharvest aflatoxin accumulations. Journal of Plant Registrations. doi: 10.3198/jpr2010.12.0675crg https://www.crops.org/files/publications/jpr/new-articles/6-1-c10-12- 0675crg.pdf Mayfield, K. L., S. C. Murray, W. L. Rooney, T. Isakeit, and G. A. Odvody. 2011. Confirmation of QTL Reducing Aflatoxin in Maize Testcrosses. Crop Science 51:2489-2498. doi: 10.2135/cropsci2011.02.0112 Radwan, G.L., T. Isakeit, C.W. Magill, R.Perumal, L.K. Prom, and C.R. Little. 2011. Screening exotic sorghum germplasm, hybrids and elite lines for resistance to a new virulent pathotype (P6) of Peronosclerospora sorghi causing downy mildew. Plant Health Progress, doi:10.1094/PHP-2011-0323-01-RS. http://www.plantmanagementnetwork.org/sub/php/research/2011/p6/ Ojiambo, P.S., G.J.Holmes, M.L. Adams, M. Babadoost, S.C. Bost, R. Boyles, M. Brooks, W. Britton, J. Damicone, D.S.Egel, K.L. Everts, D.M. Ferrin, A.J. Given, B.K. Gugino, M.K. Hausbeck, D.M. Ingram, T. Isakeit, A.P. Keinath, T. Keever, D. Langston, M.T. McGrath, S.A. Miller, R. Mulrooney, S. Rideout, E. Roddy,K.W. Seebold, E.J. Sikora, A. Thornton, R.L.Wick, C.A. Wyenandt, C. A. 2011. Cucurbit downy mildew ipmPIPE: a next generation web-based interactive tool for disease management and extension outreach. Plant Health Progress, doi: 10.1094/PHP-2011-0411- 01-RV. http://www.plantmanagementnetwork.org/sub/php/review/2011/cucurbit/ Prom, L.K., T. Isakeit, R. Perumal, J.E. Erpelding, W. Rooney, and C. W. Magill. 2011. Evaluation of the Ugandan sorghum accessions for grain mold and anthracnose resistance. Crop Protection, 30:566-571. doi:10.1016/j.cropro.2010.12.025 Montes-García, N., L.K. Prom, H. Williams-Alanis, and T. Isakeit. 2009. Effect of temperature and relative humidity on sorghum ergot development in northern Mexico. Australasian Plant Pathology, 38:632-637. Prom, L. K.,R. Perumal, J.Erpelding, T. Isakeit, N. Montes-Garcia,and C.W. Magill. 2009. A pictorial technique for mass screening of sorghum germplasm for anthracnose (Colletotrichum sublineolum) resistance. The Open Agriculture Journal 3:20-25. doi: 10.2174/1874331500903010020 Gao, X., M. Brodhagen, T. Isakeit, S.H. Brown, C. Göbe, J. Betrán, I. Feussner, N.P. Keller, and M. V. Kolomiets. 2009. Inactivation of the lipoxygenase ZmLOX3 increases susceptibility of maize to Aspergillus spp. Molecular Plant- Microbe Interactions 22: 222-231. Isakeit, T., L.K. Prom, M. Wheeler, L.S. Puckhaber, and J. Liu. 2008. Mycotoxigenic potential of ten Fusarium species grown on sorghum and in vitro. Plant Pathology Journal 7: 183-186. Isakeit, T., X. Gao, and M. Kolomiets. 2007. Increased resistance of a maize mutant lacking the 9-lipoxygenase
Isakeit, C.V. 2 gene, ZmLOX3, to root rot caused by Exserohilum pedicellatum. J. Phytopathology 155:758-760. Published online doi: 10.1111/j.1439-0434.2007.01301.x Montes-Garcia, N., T. Isakeit, G.N. Odvody, L.K. Prom, and W.L. Rooney. 2007. Effect of storage temperature and sphacelium age on Claviceps africana conidia survival. Plant Pathology Journal 6:312-317. Robertson-Hoyt, L.A., J. Betrán, G. A. Payne, D.G. White, T. Isakeit, C.M. Maragos, T.L. Molnár, and J.B. Holland. 2007. Relationships among resistances to Fusarium and Aspergillus ear rots and contamination by fumonisin and aflatoxin in maize. Phytopathology 97:311-317. Betrán, F.J., S. Bhatnagar, T. Isakeit, G. Odvody, and K. Mayfield. 2006. Aflatoxin accumulation and associated traits in QPM maize inbreds and their testcrosses. Euphytica 152:247-257. Fichtner, S.M., T. Isakeit, T.A. Wheeler, H.W. Kaufman, and J.R. Gannaway. 2005. Evaluation of several approaches to manage Meloidogyne incognita and cotton seedling disease complexes in the high plains of Texas. J. Nematol. 37:66-70. Prom, L.K., J.E. Erpelding, T. Isakeit, and N. Montes. 2005. Inoculation techniques for identifying resistance in sorghum genotypes to sorghum ergot. J. New Seeds 9-22. Prom, L.K., T. Isakeit, G.N. Odvody, C.M. Rush, H.W. Kaufman, and N. Montes. 2005. Survival of Claviceps africana within sorghum panicles at several Texas locations. Plant Dis. 89: 39-43. Betrán, F.J. and T. Isakeit. 2004. Aflatoxin accumulation in maize hybrids of different maturities. Agron. J. 96:565- 570. Prom, L.K. and T. Isakeit. 2003. Laboratory, greenhouse, and field assessment of fourteen fungicides for activity against Claviceps africana, causal agent of sorghum ergot. Plant Dis. 87:252-258. Betrán, F.J., T. Isakeit, and G. Odvody. 2002. Aflatoxin accumulation of white and yellow maize inbreds in diallel crosses. Crop Sci. 42:1894-1901. Gulya, T.J., P. J. Shiel, T. Freeman, R.L. Jordan, T. Isakeit and P.H. Berger. 2002. Host range and characterization of Sunflower mosaic virus. Phytopathology 92:694-702. Zhang, J.X., B.D. Bruton, M.E. Miller, and T. Isakeit. 1999. Relationship of developmental stage of cantaloupe fruit to black rot susceptibility and enzyme production by Didymella bryoniae. Plant Disease 83:1025-1032.
SHORT TECHNICAL PUBLICATIONS AND ABSTRACTS AT TEXAS A&M (REFEREED): Isakeit, T., S.D. Collins, W.L. Rooney, and L.K. Prom. 2013. Effect of fungicides on the reaction of sorghum hybrids to anthracnose in Burleson County, Texas, 2012. Plant Disease Management Reports 7:FC044. www.plantmanagementnetwork.org/pub/trial/pdmr/reports/2013/FC044.pdf Isakeit, T., S. Murray, J. Savage, and R. McHugh. 2013. Aflatoxin and fumonisin in transgenic corn hybrids in Burleson County, Texas, 2012. Plant Disease Management Reports 7:FC030. http://www.plantmanagementnetwork.org/pub/trial/pdmr/reports/2013/FC030.pdf Isakeit, T., B.T. Hassett, and K.L. Ong. 2012. First report of leaf spot of sesame caused by Xanthomonas sp. in the United States. Plant Disease 96:1222. (Photo of disease on cover.) Isakeit, T., S.D. Collins, W.L. Rooney, and L.K. Prom. 2012. Effect of fungicides on the reaction of sorghum hybrids to disease in Burleson County, Texas, 2011. Plant Disease Management Reports 6:FC020. www.plantmanagementnetwork.org/pub/trial/pdmr/reports/2012/FC020.pdf Isakeit, T., S. Murray, J. Wilborn, and B. Hassett. 2012. Aflatoxin and fumonisin in transgenic corn hybrids in Burleson County, Texas, 2011. Plant Disease Management Reports 6:FC019. www.plantmanagementnetwork.org/pub/trial/pdmr/reports/2012/FC019.pdf Isakeit, T., S. Murray, and J. Wilborn. 2011. Efficacy of Afla-Guard (Aspergillus flavus NRRL 21882) to control mycotoxins on corn in Burleson County, Texas, 2010. Plant Disease Management Reports 5:FC091. www.plantmanagementnetwork.org/pub/trial/PDMR/reports/2011/FC091.pdf Isakeit, T., S. Murray, and K. Mayfield. 2011. Aflatoxin and fumonisin in transgenic corn hybrids in Burleson County, Texas, 2009. Plant Disease Management Reports 5:FC090. www.plantmanagementnetwork.org/pub/trial/PDMR/reports/2011/FC090.pdf Isakeit, T., D. Pietsch, and J.Blumenthal. 2011. Reaction of sorghum hybrids to grain mold and grain weathering in southern and central Texas, 2010. Plant Disease Management Reports 5:FC089. www.plantmanagementnetwork.org/pub/trial/PDMR/reports/2011/FC089.pdf Isakeit, T., and A. Scott, Jr. 2010. Evaluation of fungicides for control of Asian soybean rust in Hidalgo County, Texas, 2008. Plant Disease Management Reports 4:FC082. www.plantmanagementnetwork.org/pub/trial/PDMR/reports/2010/FC082.pdf
Isakeit, C.V. 3 Isakeit, T., S. Murray, and K. Mayfield. 2010. Efficacy of Afla-Guard (Aspergillus flavus NRRL 21882) to control aflatoxin on corn in Burleson County, Texas, 2009. Plant Disease Management Reports 4:FC081. www.plantmanagementnetwork.org/pub/trial/PDMR/reports/2010/FC081.pdf Hernandez-Zepeda, C., T. Isakeit, A. Scott, Jr., and J.K. Brown. 2010. First report of Okra yellow mosaic Mexico virus in okra in the United States. Plant Dis. 94:924. Isakeit, T., J.E. Woodward, C. Niu, and R.J.Wright. 2010. First report of Sclerotinia stem rot of canola caused by Sclerotinia sclerotiorum in Texas. Plant Dis. 94:792. Isakeit, T., J. Starr, R. Lemon, D. Mott, and V. Saladino. 2009. Evaluation of chemicals for control of reniform nematodes on cotton in Burleson County, Texas, 2008. Plant Disease Management Reports 3:N001. www.plantmanagementnetwork.org/pub/trial/PDMR/reports/2009/N001.pdf Isakeit, T. and Y. Jo. 2008. Occurrence of telia of Phakopsora pachyrhizi on kudzu in Texas. Plant Dis. 92: 1369. Isakeit, T. and G.N. Odvody. 2008. Reaction of grain sorghum hybrids to sorghum downy mildew pathotype 6, 2008. Plant Disease Management Reports 2:FC095.www.plantmanagementnetwork.org/pub/trial/PDMR/reports/2008/FC095.pdf Isakeit, T., J. Stapper, and D. Pietsch. 2008. Reaction of corn hybrids to northern corn leaf blight and southern rust in San Patricio County, Texas, 2007. Plant Disease Management Reports 2:FC040. www.plantmanagementnetwork.org/pub/trial/PDMR/reports/2008/FC040.pdf Isakeit, T., K. Mayfield, R. Sutton, K. Ong, and J.W. Dorner. 2008. Efficacy of Aflaguard (Aspergillus flavus NRRL 21882) to control aflatoxin on corn in Texas, 2007. Plant Disease Management Reports 2:FC042. www.plantmanagementnetwork.org/pub/trial/PDMR/reports/2008/FC042.pdf Isakeit, T., J. Starr, T. Faske, R. Lemon, and D. Mott. 2008. Evaluation of chemicals for control of reniform nematodes on cotton in Burleson County, Texas, 2007. Plant Disease Management Reports 2:N026. www.plantmanagementnetwork.org/pub/trial/PDMR/reports/2008/N026.pdf Isakeit, T., P. McGuill, and D. Pietsch. 2008. Reaction of sorghum hybrids to grain mold and grain weathering in Wharton County, Texas, 2007. Plant Disease Management Reports 2:FC041. www.plantmanagementnetwork.org/pub/trial/PDMR/reports/2008/FC041.pdf Isakeit, T., S.D. Collins, W.L. Rooney, and L.K. Prom. 2008. Reaction of sorghum hybrids to anthracnose, grain mold and grain weathering in Burleson County, Texas, 2007. Plant Disease Management Reports 2:FC003. www.plantmanagementnetwork.org/pub/trial/PDMR/reports/2008/FC003.pdf
BOOK CHAPTERS: Betrán, J., T. Isakeit, and G. Odvody. 2005. Breeding corn to reduce preharvest aflatoxin contamimation. In: Aflatoxin and Food Safety, H.K. Abbas, Ed., CRC Press Taylor and Francis Group, Boca Raton, FL, pp. 353-377. Isakeit, T. 2002. Phymatotrichopsis root rot. In: Compendium of Umbelliferous Crop Diseases, R.M. Davis and R.N. Raid, eds., APS Press, St. Paul, MN, p. 37. (with photo) Isakeit, T., G.N. Odvody, and R.A. Frederiksen. 2000. Disease management. In: Compendium of sorghum diseases, Second Ed., R.A. Frederiksen and G.N. Odvody, eds., APS Press, St. Paul, MN, pp.65-67.
TEXAS A&M UNIVERISTY SYSTEM INTERNATIONAL SERVICE: - Plant pathology consulting in Guatemala, The Borlaug Institute. Guatemala Food for Progress Program, Chimaltenango, Guatemala, Aug. 30 – Sept. 1, 2011, Aug. 30 – Sept. 3, 2010, Nov. 2-6, 2009, Feb. 16-19, 2009, Aug. 25-30, 2008. - Field training in plant disease diagnosis, to four technicians from Guatemala, on behalf of the Borlaug Institute for International Agriculture, Lower Rio Grande Valley, Texas. Apr. 13-17, 2009. - Evaluation of the Laboratorio de Diagnóstico Fitosanitario, Sanidad Vegetal del MIDA, Tapia/Tocumen, Panama, through the Borlaug Institute, Nov. 17-21, 2008.
AWARDS: 2012 Texas A&M AgriLIFE Extension Team Award for Superior Service (Cotton Root Rot Team) International IPM Award of Excellence (Soybean rust – pest information platform for extension and education (PIPE), 7th International IPM Symposium, Memphis, TN, Mar. 27-29, 2012 (team award) 2011 Texas Plant Protection Association Academic/Agency Award 2010 Texas AgriLIFE Extension Team Award for Superior Service (Pecan IPM Program Team)
Isakeit, C.V. 4
Russell W. Jessup Assistant Professor of Perennial Grass Breeding Department of Soil and Crop Sciences 370 Olsen Blvd.; 431B Heep Ctr. Texas A&M University College Station, TX 77843-2474 Email: [email protected] Phone: 979-315-4242 Fax: 979-845-0456 http://soilcrop.tamu.edu/staff/jessup-russell-w/
Education Ph.D. Texas A&M University Plant Breeding 2005 M.S. Texas A&M University Plant Breeding 1999 B.S. Texas A&M University Plant & Env. Soil Sci. 1997
Work Experience Assistant Professor of Perennial Grass Breeding, Texas AgriLife Research, Department of Soil and Crop Sciences, Texas A&M University. 2009 to present Plant Breeder: AL Bioenergy Farm Director, Mendel Biotechnology, Biofuel Feedstock Development. 2007 to 2009 Post-doctoral Research Geneticist, Forage & Turf Grasses, SPARC-USDA-ARS. 2005 to 2007 Research Associate, Forages, Dept. Soil & Crop Sci., Texas A&M University. 2002 to 2005
Research Impact Statement Development of perennial grasses designed for multifunctional biomass biorefinery platforms. Parallel breeding & product development pipelines of perennial grass feedstocks designed for biofuel, forage, turf, ornamental, and renewable bioproduct markets. Perennial grass comparative genomics and cytogenetics lab development.
Professional Activities (selected) Crop Science Society of America. 1997 to present National Association of Plant Breeders. 2012 to present Assistant Editor: 1) AgroCrop Science Journal, 2) Advances in Crop Science & Technology Journal, 3) Journal of Genetics Study
Current Grant Support BP. Perennial Energy Grass Breeding & Evaluation. USDA-ARS. Polyploid Genomics of Perennial Warm-Season Grasses for the Southen United States. Texas Department of Agriculture. Determining Best Management Practices for Sod Production of Native Grass Mixtures.
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Peer Reviewed Publications (Last 4 Years) Jessup, R.W. 2013. ‘Seeded-Yet-Sterile’ Perennial Biofuel Feedstocks. Adv. Crop Sci. Tech. 1(2): DOI: http://dx.doi.org/10.4172/acst.1000e102. Dowling, C.D., Burson, B.L., Foster, J.L., Tarpley, L., Jessup, R.W. 2013. Confirmation of Pearl Millet-Napiergrass Hybrids Using EST-derived Simple Sequence Repeat (SSR) Markers. American Journal of Plant Sciences 4: 1004-1012. DOI:10.4236/ajps.2013.45124. Washburn J.D., Whitmire D.K., Murray S.C., Burson B.L., Wickersham T.A., Heitholt J.J., Jessup R.W. 2013. Estimation of rhizome composition and overwintering ability in perennial Sorghum spp. using Near-Infrared Spectroscopy (NIRS). Bioenerg. Res. DOI 10.1007/s12155-013-9305-8. Washburn, J.D., Murray, S.C., Burson, B.L., Klein, R.R., Jessup, R.W. 2013. Targeted mapping of QTL regions for rhizomatousness in chromosome SBI-01 and analysis of overwintering in a Sorghum bicolor x S. propinquum population. Molecular Breeding. Mol Breeding 31: 153-162. DOI: 10.1007/s11032-012-9778-8. Jessup, R.W., Whitmire, D.K., Burson, B.L. 2012. Molecular characterization of non-flowering perennial Sorghum spp. hybrids. American Journal of Experimental Agriculture. 2(1):9-20. Burson, B.L., Actkinson, J., Jessup, R.W., Hussey, M.A. 2012. Ploidy determination of buffel grass accessions in the USDA National Plant Germplasm System collection by flow cytometry. South African Journal of Botany. 79:91-95. Jessup, R.W. 2012. Perennialism and weediness in the Saccharinae. p. 503-515. In A.H. Paterson (ed.) Genomics of the Saccharineae, Springer, New York, NY. Jessup, R.W. 2012. Forages for bioenergy production. Page 239 to 248 in Proc. 6th SIMFOR Annual Meeting. Vicosa MG, Brazil. Jessup, R.W. 2011. Development and status of dedicated energy crops in the United States. p. 97- 112. In D. Tomes, P. Lakshmanan, D. Songstad (eds.) Biofuels, Springer, New York, NY. Jessup, R.W., Renganayaki, K., Burson, B.L., Howard, A.N., Giliberto, B., Engelke, M.C., Genovesi, A.D., Reinert, J.A., Kamps, T.L., Schulze, S., Paterson, A.H. 2011. Genetic mapping of fall armyworm resistance in zoysiagrass. Crop Sci. 51 (4): 1774-1783. doi:10.2135/cropsci2010.09.0553. Jessup, R.W. 2009. Development and status of dedicated energy crops in the United States. Vitro Cell. Dev. Biol. Plant 45(3): 282–290. Genovesi, A.D., Jessup, R.W., Engelke, M.C., Burson, B.L. 2009. Interploid St. Augustinegrass [Stenotaphrum secundatum (Walt.)] hybrids recovered by embryo rescue. Vitro Cell. Dev. Biol. Plant 45(6): 659–666.Petty, J. T., Brady Gutta, Richard Herd, Jennifer Fulton, James Stiles, Michael Strager, Julie Svetlick [sic], and Paul Ziemkiewicz. 2008. Identifying cost-effective restoration strategies in mining impacted West Virginia watersheds. Proceedings of the American Society of Mining and Reclamation 25:837-855.
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BIOGRAPHICAL SKETCH Provide the following information for the Senior/key personnel and other significant contributors. Follow this format for each person. DO NOT EXCEED FOUR PAGES.
NAME POSITION TITLE Charles D. Johnson eRA COMMONS USER NAME (credential, e.g., agen- Director, Genomics & Bioinformatics cy login) EDUCATION/TRAINING INSTITUTION AND LOCATION DEGREE YY FIELD OF STUDY Texas A&M University B.S. 1988 Agronomy Clemson University M.S. 1993 Plant Physiology Texas A&M University Ph.D. 2000 Plant Physiology Texas A&M University Postdoc 2003 Computational Biology University of Louisville Postdoc 2004 Bioinformatics
Employment and Appointments Associate member Texas A&M University graduate faculty 2013- present Associate Director 8/2013-present Center for Bioinformatics and Genomics System Engineering Texas A&M System, College Station, TX Director 6/2010-present Genomics and Bioinformatics Texas A&M AgriLife, College Station, TX President 2007-2010 BioMath Solutions, LLC, Austin TX Senior Manager: Statistics / Bioinformatics 2006 – 2007 Asuragen, Inc. Austin, TX Manager of Expression Bioinformatics 2004 – 2006 Ambion, Inc. Austin TX
Publications 1. Garcia MR, Amstalden M, Williams SW, Johnson CD, Nizielski SE, Keisler DH, and Williams GL. Leptin and pubertal development in heifers: relationship of ob gene expression to circulating leptin as measured by heterologous radioimmunoassay. 1999. Biol. Reprod. 60 (Suppl. 1): 253. 2. Johnson CD, Balagurunathan Y, Lu KP, Tadesse M, Falahatpisheh MH, Carroll RJ, Dougherty ER, Afshari CA, Ramos KS. Genomic profiles and predictive biological networks in oxidant-induced atherogenesis. Physiol Genomics. 2003 May 13;13(3):263-75. PMID: 12657712 3. Johnson CD, Balagurunathan Y, Tadesse MG, Falahatpisheh MH, Brun M, Walker MK, Dougherty ER, Ramos KS. Unraveling gene-gene interactions regulated by ligands of the aryl hydrocarbon receptor. Environ Health Perspect. 2004 Mar;112(4):403-12. PMID: 15033587 4. Partridge CR, Johnson CD, Ramos KS. In vitro models to evaluate acute and chronic injury to the heart and vascular systems. Toxicol In Vitro. 2005 Aug;19(5):631-44. Review. PMID: 15893448 5. Partridge CR, Williams ES, Barhoumi R, Tadesse MG, Johnson CD, Lu KP, Meininger GA, Wilson E, Ramos KS. Novel genomic targets in oxidant-induced vascular injury. J Mol Cell Cardiol. 2005 Jun;38(6):983-96. Epub 2005 Apr 19. PMID: 15910882 6. Thackaberry EA, Jiang Z, Johnson CD, Ramos KS, Walker MK. Toxicogenomic Profile of 2,3,7,8- Tetrachlorodibenzo-p-dioxin in the Murine Fetal Heart: Modulation of Cell Cycle and Extracellular Matrix Genes. Toxicol Sci. 2005 PMID: 16120747 7. Charles R. Partridge, Charles D. Johnson, Kenneth S. Ramos In vitro models to evaluate acute and chronic injury to the heart and vascular systems Toxicology in Vitro, Volume 19, Issue 5, August 2005, Pages 631-644 8. Richard Shippy, Paul Wolber, Wendell D. Jones, Roderick V. Jensen, Stephanie Fulmer-Smentek, Charles D. Johnson, P. Scott Pine, Cecilie Boysen, Xu Guo, Eugene Chudin, Yongming Andrew Sun, James C. Willey, Jean Thierry-Mieg, Danielle Thierry-Mieg, Robert A. Setterquist, Mike Wilson, Anne Bergstrom Lucas, Natalia Novoradovskaya, Adam Papallo, Yaron Turpaz, Shawn C. Baker, Janet A Warrington, Leming Shi, and Damir Herman. Using RNA sample titrations to assess microarray platform performance and normalization techniques. Nat Biotechnol. 2006 Sep;24(9):1123-31. 9. Leming Shi, Laura H. Reid, Richard Shippy, Shawn C. Baker, Patrick J. Collins, Francoise de Longueville, Ernest S. Kawasaki, Kathleen Y. Lee, Yuling Luo, Yongming Andrew Sun, Janet A. Warrington, James C. Willey, Robert A. Setterquist, Gavin M. Fischer, David J. Dix, Yvonne P. Dragan, Federico M. Goodsaid, Damir Herman, Roderick V. Jensen, Charles D. Johnson, Wendell D. Jones, Edward K. Lobenhofer, Raj K. Puri, Uwe Scherf, Jean Thierry-Mieg, Weida Tong, Charles Wang, Mike Wilson,, Lu Zhang,, William Slikker, Jr. The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements. Nat Biotechnol. 2006 Sep 8;24(9):1151-1161 10. Charles D Johnson ; Yoganand Balagurunathan ; Edward R. Dougherty ; Cynthia A Afshari ; Qiang He ; Kenneth S. Ramos. Insight into redox regulated gene networks in vascular cells 2007. Bioinformation 1(10) 11. Vasker Bhattacherjee, Partha Mukhopadhyay, Saurabh Singh, Charles Johnson, John T. Philipose, Courtney P. Warner, Robert M. Greene, M. Michele Pisano (2007) Neural crest and mesoderm lineage-dependent gene expression in orofacial development Differentiation 75 (5), 463–477. 12. Charles Johnson, Aurora Esquela-Kerscher, Giovanni Stefani, Mike Byrom, Kevin Kelnar, Dmitriy Ovcharenko, Mike Wilson, Xiaowei Wang, Jeffrey Shelton, Jaclyn Shingara, Lena Chin, David Brown and Frank J. Slack. The let-7 microRNA represses cell proliferation pathways in human cells. Cancer Res. 2007 Aug 15;67 (16):7713-22 17699775 13. Dmitriy Ovcharenko, Kevin Kelnar, Charles Johnson, Nan Leng, and David Brown. 2007 Genome scale microRNA and siRNA screens identify small RNA modulators of TRAIL-induced death receptor apoptosis pathway. Cancer Research Cancer Research 67: 10782-10788 14. Leming et. al. (201 authors), The MAQC-II Project: A comprehensive study of common practices for the development and validation of microarray-based predictive models. 2010. Accepted for Publication, Nature Biotechnology. 15. Ying Wang, Noushin Ghaffari, Charles D Johnson, Ulisses M Braga-Neto, Hui Wang, Rui Chen, Huaijun Zhou Evaluation of the coverage and depth of transcriptome by RNA-Seq in chickens BMC Bioinformatics 2011, 12(Suppl 10):S5 (18 October 2011) 16. Ryan Doan, Noah D Cohen, Jason Sawyer, Noushin Ghaffari, Charlie D Johnson, Scott V Dindot. Whole-Genome Sequencing and Genetic Variant Analysis of a Quarter Horse Mare. BMC Genomics, 2012; 13 (1): 78 17. Clavijo et. al.(17 authors). Identification and analysis of the first 2009 pandemic H1N1 influenza virus from feral swine. Emerging Infectious Diseases Journal. Zoonoses and Public Health. DOI: 10.1111/zph.12006 18. A Nikooienejad, R Metz, BJ Yoon, CD Johnson; Fast DNA barcode generating algorithm using Radix Coding method. GENSiPS, 2012 ISBN: 978-1-4673-5234-5 19. E Atashpaz-Gargari, MS Esfahani, R Metz, CD Johnson; OBGene: Optimal barcode generator for NGS experiments.- GENSiPS, 2012 ISBN: 978-1-4673-5234-5 20. N Ghaffari, MR Youse, CD Johnson, I Ivanov, ER Dougherty Modeling the Next Generation Sequencing sample processing pipeline for the purposes of classification BMC bioinformatics 14 (1), 307 2013 21. Leming, Shi et al. (200 authors), FDA SEQC RNASEQ Quality Control Study, submitted Nature Biotechnology, 2013 Plant Science 22. Johnson, J.R., and Johnson C.D. 1992. Two Zesty Alternatives to Bell Pepper. American Vegetable Grower. 5:24-27. 23. Johnson, J.R., and Johnson C.D. 1992. Nitrogen Fertility and Cultivar Influence Collard Yield and Leaf Nitrogen Content. Clemson University Vegetable Report. 24. Johnson, J.R., and Johnson C.D. 1992. Habanero Pepper: World’s Hottest Pepper Comes to South Carolina. Clemson University Vegetable Report . 25. Johnson, J.R., and Johnson C.D. 1993. Cash In On New Markets For Collards. American Vegetable Grower. 1:34-26. 26. Johnson, C. D., and Decoteau D. R. 1996. Nitrogen and potassium fertility affects Jalapeno pepper plant growth, pod yield, and pungency. HortScience 31:1119-1123. Book Chapter 1) Brun M., Johnson C.D., and Ramos K.S.. Clustering: revealing intrinsic dependencies in microarray data, Genomic Signal Processing: Perspectives, Genomic Signal Processing and Statistics, eds. E. R. Dougherty, I. Shmulevich, J. Chen, and Z. J. Wang, EURASIP Book Series on Signal Processing and Communication, Hindawi Publishing Corporation, 2005. 2) Davison, T. S., Johnson, C. D., and Andruss, B. F. (2006). Analyzing Micro-RNA Expression Using Microarrays. Methods Enzymol. 411, 14-34. Patents (US and EU) 1. CD Johnson, MW Byrom, AG Bader, FJ Slack, D Brown, D Ovcharenko, K Kelnar FUNCTIONS AND TARGETS OF LET-7 MICRO RNAS. 2012 US Patent 20,120,282,696 2. Bader, A.G.; Byrom, M.; Johnson, C.D.; Brown, D.; MIR-200 REGULATED GENES AND PATHWAYS AS TARGETS FOR THERAPEUTIC INTERVENTION 2009 EP Patent 2,076,599 3. Bader, A.G.; Byrom, M.; Johnson, C.D.; Brown, D.; MIR-143 REGULATED GENES AND PATHWAYS AS TARGETS FOR THERAPEUTIC INTERVENTION 2009 EP Patent 2,094,848 4. Byrom, M.; Johnson, C.D.; Brown, D.; Bader, A.G.; MIRNA REGULATED GENES AND PATHWAYS AS TARGETS FOR THERAPEUTIC INTERVENTION 2009 EP Patent 2,102,341 5. Byrom, M.; Patrawala, L.; Johnson, C.D.; Brown, D.; Bader, A.G.; miR-16 REGULATED GENES AND PATHWAYS AS TARGETS FOR THERAPEUTIC INTERVENTION 2009 EP Patent 2,102,342 6. Bader, A.G.; Byrom, M.; Johnson, C.D.; Brown, D.; MIR-20 REGULATED GENES AND PATHWAYS AS TARGETS FOR THERAPEUTIC INTERVENTION 2009 EP Patent 2,104,734 7. Bader, A.G.; Byrom, M.; Johnson, C.D.; Brown, D.; MIR-21 REGULATED GENES AND PATHWAYS AS TARGETS FOR THERAPEUTIC INTERVENTION 2009 EP Patent 2,104,735 8. Bader, A.G.; Byrom, M.; Johnson, C.D.; Brown, D.; MIR-126 REGULATED GENES AND PATHWAYS AS TARGETS FOR THERAPEUTIC INTERVENTION 2009 EP Patent 2,104,736 9. Johnson, C.D.; Byrom, M.; Bader, A.G.; Slack, F.J.; Brown, D.; Ovcharenko, D.; Kelnar, K.; FUNCTIONS AND TARGETS OF LET-7 MICRO RNAS 2009 EP Patent 2,104,737 10. Bader, A.G.; Byrom, M.; Johnson, C.D.; Brown, D.; Patrawala, L.; MIR-15, MIR-26, MIR-31, MIR- 145, MIR-147, MIR-188, MIR-215, MIR-216 MIR-331, MMU-MIR-292-3P REGULATED GENES AND PATHWAYS AS TARGETS FOR THERAPEUTIC INTERVENTION 2010 EP Patent 2,145,001 11. Bader, A.G.; Patrawala, L.; Byrom, M.; Johnson, C.D.; Brown, D.; MIR-34 REGULATED GENES AND PATHWAYS AS TARGETS FOR THERAPEUTIC INTERVENTION 2010 EP Patent 2,167,138 12. Ovcharenko, D.; Johnson, C.D.; Bader, A.G.; Brown, D.; miR-10 Regulated Genes and Pathways as Targets for Therapeutic Intervention 2008 US Patents 20090192114 13. Bader, A.G.; Byrom, M.; Johnson, C.D.; Brown, D.; mir-21 Regulated genes and pathways as targets for therapeutic intervention 2008 US Patents 20090192102 14. Bader, A.G.; Patrawala, L.; Wiggins, J.F.; Byrom, M.W.; Johnson, C.D.; Brown, D.; miR-34 Regulated Genes and Pathways as Targets for Therapeutic Intervention 2008 US Patents 20090227533 15. Byrom, M.W.; Patrawala, L.; Johnson, C.D.; Brown, D.; Bader, A.G.; miR-16 REGULATED GENES AND PATHWAYS AS TARGETS FOR THERAPEUTIC INTERVENTION 2007 US Patents 20090175827 16. Bader, A.G.; Byrom, M.; Johnson, C.D.; Brown, D.; miR-20 Regulated Genes and Pathways as Targets for Therapeutic Intervention 2008 US Patents 20090163434 17. Bader, A.G.; Byrom, M.W.; Patrawala, L.; Johnson, C.D.; Brown, D.; miR-15, miR-26, miR-31, miR-145, miR-147, miR-188, miR-215, miR-216, miR-331, mmu-miR-292-3P REGULATED GENES AND PATHWAYS AS TARGETS FOR THERAPEUTIC INTERVENTION 2008 US Patents 20090131356 18. Bader, A.G.; Byrom, M.W.; Johnson, C.D.; Brown, D.; miR-143 REGULATED GENES AND PATHWAYS AS TARGETS FOR THERAPEUTIC INTERVENTION 2008 US Patents 20090232893 19. Bader, A.G.; Byrom, M.W.; Patrawala, L.; Johnson, C.D.; Brown, D.; miR-126 REGULATED GENES AND PATHWAYS AS TARGETS FOR THERAPEUTIC INTERVENTION 2008 US Patents 20. Bader, A.G.; Byrom, M.W.; Johnson, C.D.; Brown, D.; miR-200 REGULATED GENES AND PATHWAYS AS TARGETS FOR THERAPEUTIC INTERVENTION 2008 US Patents
Scientific Software 1. mirInform: Led the development of miRInform® an automated data packaging and interactive exploration software tool that was launched as part of the DiscovArray product. Project manager, responsible for planning, design, implementation management, and marketing. Has been used over the last five years at Asuragen Inc. to process and deliver the majority of their service projects. 2. miRNA –QC Tool: Distributed by Affymetrix for three years as their primary signal process and analysis tool for their miRNA array product line.- http://goo.gl/Of7Ox Used throughout the miRNA field and part of hundreds of papers. The software was produced by BioMath Solutions LLC, under contract to Affymetrix. 3. FlexmiR – Data Analysis Software: Distributed by Luminex Inc. the software conducts signal process and basic statistical analysis and provides the user with basic plate QC information, both in figure and table form. The software has an intuitive and easy to use graphical user interface (GUI) and require no programming skills to operate. The software a key part of their miRNA product line. The software was produced by BioMath Solutions LLC, under contract to Luminex. Microarray Design 1. Led bioinformatics team at Asuragen that developed the first custom Affymetrix miRNA array - DiscovArray®, Served as consultant to Affymetrix on their commercial miRNA array development and developed the analysis method and designed the analysis software used by Affymetrix (see miRNA-QC Tool)
Ambion TechNotes 1) Robert Setterquist, Mike Wilson, Charles Johnson, Shika Agarwal, Sharmili Moturi. Synthesize High Yields of Biotinylated aRNA. Ambion TechNote 12(3) page17-18 2) Penn Whitley, Sharmili Moturi, Jose Santiago, Charles Johnson, Robert Setterquist. Improved Microarray Sensitivity using Whole Blood RNA Samples. Ambion, Inc. TechNote 12(3) page 20-22 3) Charlie Johnson, Robert Setterquist, Sharmili Moturi, Charmaine San Jose, Penn Whitley. Increase Signal and Detect More Genes on Affymetrix® Arrays Ambion, Inc. TechNote 12(4) page 28-29
Synergistic Activities As director of the Texas A&M AgriLife Genomics and Bioinformatics Service, I am responsible for promoting and facilitating genomics research across the Texas A&M system by providing individualized consulting services, access to instrumentation through a professional lab service group and bioinformatics analysis team. Worked with >500 of researchers over the last 3 years and assisted in the submission of over 250 genomics related grant applications. Biographical Sketch
Patricia E. Klein, Associate Professor
Education and Training: Texas A & M University Horticulture B.S., 1982 Texas Tech University Crop Science M.S., 1984 Texas A & M University Biochemistry Ph.D., 1989 University of Kentucky Plant Pathology Post-doc. 1989-1991 University of Kentucky Plant Pathology NSF Post-doc. 1991-1993
Research and Professional Experience: Associate Head for Graduate Programs, Dept. of Horticultural Sciences, Texas A & M University, October 2013 - present Associate Professor, Dept. of Horticultural Sciences, Texas A & M University, 2002-present Assistant Professor, Dept. of Horticultural Sciences, Texas A & M University, 2002 Assistant Professor, Dept. Biochem. & Biophys., Texas A & M University, 1997-2002 Research Associate, USDA-ARS, Eastern Regional Research Center, 1995-1997 Assistant Professor, Dept. of Horticulture and Landscape Architecture, University of Kentucky, 1993- 1995
Synergistic Activities: Panel member for USDA-NRI, 2005; USDA-NIFA, 2011; 2013 Member of the Interdisciplinary Molecular and Environmental Plant Sciences Program - TAMU, 1999- present Member of the American Society of Plant Biologists, 2002-present Member of the American Society for Horticultural Scientists, 2012-present Associate Editor - The Plant Genome, 2005-present Member of the Gramene Scientific Advisory Board, 2005-present, Kansas State University Sorghum Translational Genomics Program Scientific Advisory Board, 2007-2010 Ad-hoc Reviewer – Theoretical and Applied Genetics, PLoS One, Plant Physiology, Crop Science, BMC Genomics
Patents Awarded or Submitted: A.K. Borrell, D.R. Jordan, J. Mullet and P. Klein (2011) Drought Tolerant Plants. Provisional Patent Application Number: 61/561763 The Sorghum Aluminum Tolerance Gene, SbMate - United States Patent 7582809 awarded 9/1/2009 Discovery and Utilization of Sorghum Genes (Ma5/Ma6) - Patent application number: 20100024065
Courses Taught: HORT201H – Honors section of Horticultural Sciences and Practices HORT301 – Garden Science HORT691 – Research MEPS691 – Research
Grant Funding: PI or Co-PI on 14 external grants since 2000 totaling ~$13.8M of which ~$3.8M has directly supported the P. E. Klein research program.
Collaborators and Other Affiliations: (i) Collaborators/Co-authors Gary Adams, Texas A & M University Andrew Borrell, DEEDI, Queensland, Australia John Burke, USDA-ARS, Lubbock Gloria Burow, USDA-ARS, Lubbock Byron Burson, USDA-ARS, College Station Cleve Franks, Pioneer Hi-Bred Tom Ficht, Texas A & M University Allison Rice-Ficht, Texas A & M University David Jordan, DEEDI, Queensland, Australia Robert Klein, USDA-ARS, College Station Leon Kochian, USDA-ARS, Ithaca Stephen Kresovich, University of South Carolina Emma Mace, DEEDI, Queensland, Australia Monica Menz, Syngenta Fred Miller, MMR Genetics John Mullet, Texas A & M University Seth Murray, Texas A & M University Gary Pederson, Texas AgriLife Research William Rooney, Texas A & M University Alan Rousell, Texas A & M University David Stelly, Texas A & M University Wilfred Vermerris, University of Florida Yi-Hong Wang, University of Louisiana-Lafayette Doreen Ware, USDA-ARS, Cold Spring Harbor Z. Xin, USDA-ARS, Lubbock
(ii) Graduate and Post-Graduate Advisors: Dr. John Burke, USDA-ARS, Lubbock, Texas Dr. John Mullet, Texas A & M University Dr. John Shaw, University of Kentucky
(iii) Thesis Advisee: (Total = 4) Current: Mahnaz Kianifariz, Co-chair (2016), Nikhil Patil (2016); Former: Bin Zhou (2006), Jason Anderson, Co-chair (2010).
(iv) Postgraduate-Scholar Sponsor: (Total = 8) Current: Millie Burrell; Former: Diana Toups-Dugas – Postdoctoral Associate, USDA-ARS, College Station, TX; Arun Sharma – Breeder, Sakata Seeds; Jaehee Jung – Computer Scientist, Samsung; Elizabeth Summers – Research Scientist, Texas A&M; Christina Buchanan– Scientist, Signature Science; Ron Salzman – Scientist, Stoler Co.; Jeong-soon Kim – Research Scientist, USDA-ARS, Winter Park, FL.
Publications within past 4 years: 1. Wang, Y-H., A. Acharya, A.M. Burrell, R.R. Klein, P.E. Klein, and K.H. Hasenstein (2013) Mapping and Candidate Genes Associated with Saccharification Yield in Sorghum. Genome 56: 659-665. dx.doi.org/10/1139/gen-2013-0134. 2. Evans, J., R.F. McCormick, D. Morishige, S.N. Olson, B. Weers, J. Hilley, P. Klein, W. Rooney and J. Mullet (2013) Extensive Variation in the Density and Distribution of DNA Polymorphisms in Sorghum Genomes. PLOS ONE. doi: 10.1371/journal.pone.0079192. 3. Olson, A., R.R. Klein, D.V. Dugas, Z. Lu, M. Regulski, P.E. Klein and D. Ware (2013) Expanding and Vetting Sorghum bicolor Gene Annotations through Transcriptome and Methylome Sequencing. Plant Genome. doi: 10.3835/plantgenome2013.08.0025. 4. Morishige, D.T., P.E. Klein, J.L. Hilley, S.M.E. Sahraeian, A. Sharma and J.E. Mullet (2013) Digital Genotyping of Sorghum – A Diverse Plant Species with a Large Repeat-Rich Genome. BMC Genomics doi: 10.1186/1471-2164-14-448. 5. Klein, R.R., F.R. Miller, P.E. Klein, and J.J. Burke (2013) Registration of Partially Converted Germplasm from 44 Accessions of the USDA-ARS Ethiopian and Sudanese Sorghum Collections. J. of Plant Registrations doi: 10.3198/jpr2012.08.0025crgs. 6. Wang, Y-H., H.D. Upadhyaya, A.M. Burrell, S.M.E. Sahraeian, R.R. Klein and P.E. Klein (2013) Genetic Structure and Linkage Disequilibrium in a Diverse, Representative Collection of the C4 Model Plant, Sorghum bicolor. G3: Genes, Genomes, Genetics doi: 10.1534/g3.112.004861. 7. Felderhoff, T.J., S.C. Murray, P.E. Klein, A. Sharma, M.T. Hamblin, S. Kresovich, W. Vermerris, and W.L. Rooney (2012) QTLs for Energy-Related Traits in a Sweet × Grain Sorghum [Sorghum bicolor (l.) Moench] Mapping Population. Crop. Sci. doi: 10.2135/cropsci2011.11.0618. 8. Dugas, D.V., M.K. Monaco, A. Olsen, R.R. Klein, S. Kumari, D. Ware and P.E. Klein (2011) Functional Annotation of the Transcriptome of Sorghum bicolor in Response to Osmotic Stress and Abscisic Acid. BMC Genomics. 12: 514. 9. Murphy, R.L., R.R. Klein, D.T. Morishige, J.A. Brady, W.L. Rooney, F.R. Miller, D.V. Dugas, P.E. Klein and J.E. Mullet (2011) Coincident Light and Clock Regulation of PRR37 Controls Photoperiodic Flowering in Sorghum. Proc. Natl. Acad. Sci. USA. 108: 16469-16474. 10. Jordan, D., R.R. Klein, K. Sakrewski, R. Henzell, P.E. Klein and E. Mace (2011) Mapping and Characterization of Rf5: A New Gene Conditioning Pollen Fertility Restoration in A1 and A2 Cytoplasm in Sorghum (Sorghum bicolor (L.) Moench). Theor. Appl. Genet. 123: 383-396. 11. O’Shea, B., S. Khare, P. Klein, A. Rousell, L.G. Adams, T.A. Ficht and A.C. Rice-Ficht (2011) Amplified Fragment Length Polymorphism Reveals Specific Epigenetic Distinctions between Mycobacterium avium subspecies paratuberculosis Isolates of Varying Invasion Types. J. of Clin. Microbiol. 49: 2222-2229. 12. Burow, G.B., R.R. Klein, C.D. Franks, P.E. Klein, K.F. Schertz, G.A. Pederson, Z. Xin and J.J. Burke (2010) Registration of the BTx623/IS3620C Recombinant Inbred Mapping Population of Sorghum. J. Plant Registrations 5: 141-145. 13. Jordan, D.R., E.S. Mace, R.G. Henzell, P.E. Klein and R.R. Klein (2010) Molecular Mapping and Candidate Gene Identification of the Rf2 Gene for Pollen Fertility Restoration in Sorghum (Sorghum bicolor (L.) Moench). Theor. Appl. Genet. doi: 10.1007/s00122-009-1255-3. 14. Kuhlman, L.C. B.L. Burson, D. Stelly, P. Klein, R.R. Klein, H.J. Price, and W.L. Rooney (2010) Early-generation Germplasm Introgression from Sorghum macrospermum into Sorghum (S. bicolor). Genome 53: 419-429.
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Vitae Summary Hisashi Koiwa, PhD
Current Position Associate Professor Sep, 2008-present Dept. Horticultural Sciences
Education: B.S. (Agricultural Chemistry) - 1991, Kyoto University, Kyoto, Japan. M.S. (Agricultural Chemistry) - 1993, Kyoto University, Kyoto, Japan. Ph.D. (Agricultural Chemistry) - 1996, Kyoto University, Kyoto, Japan.
Professional Experience:
1996-1999 Post Doctoral Research Associate (Plant stress response) - Dept. Hort., Purdue University Appointment:
1999-Aug, 2002 Research Plant Biologist, Dept of Hort. & LA, Purdue University Aug, 2002-Aug 2008 Assistant Professor, Dept of Hort. Sci., Texas A&M University Sep, 2008-present Associate Professor, Dept of Hort. Sci., Texas A&M University
Research Interests. It is estimated that 65 to 87% of the potential yield of annual crops is lost due to abiotic or biotic stress, i.e. salinity, drought, extremes of temperature, flooding, nutrient deficiency and infestations. Many of these stresses impose ion/osmotic imbalance to the plant cells that leads to lower growth rate and eventually, crop failures. Stress adaptation responses of plants include dynamic transcriptome changes that coordinate the protection of plant cells from environmental extremes and facilitate re-establishment of cellular and organismal homeostasis. My research focus is to identify abiotic stress responsive determinants using model plant genetic systems, such as Arabidopsis thaliana, and to apply the knowledge and technology to improve stress tolerance of crop plants.
Courses Taught MEPS605 Plant Biochemistry (3 credits) MEPS610/HORT610 Physiol. Molec. Basis Plant Stress Responses (taught with Dr. Lombardini, total 3 credits) Additional participations in different classes (see below)
List of current research project. Hatch TEX08842 Molecular basis for plant osmotic stress tolerance Duration: 5 years (6/08/2009-6/07-2014) Personnel: 0
Grants and contracts NSF Role of Arabidopsis CTD-phosphatase-like 1 in gene silencing pathway Duration 4 years (3/01/2010-2/28/2014) Personnel: 1 postdoc 2 graduate students 1 visiting scholar
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Publications: Refereed Research Papers: (20 most recent, total 60) 1. Kang, J.S., Frank, J., Kang, C.H., Kajiura, H., Vikram, M., Ueda, A., Kim, S., Bahk, J.D., Triplett, B., Fujiyama, K., Lee, S.Y., von Schaewen, A., and Koiwa, H. (2008) Salt tolerance of Arabidopsis thaliana requires maturation of N-glycosylated proteins in the Golgi apparatus. Proc .Natl. Acad. Sci. USA 105, 5933-5938.
2. von Schaewen, A., Frank, J., and Koiwa, H. (2008) Role of complex N-glycans in plants, Plant Signaling Behavior 3, 871-873
3. Ueda, A. Li, P., Feng, Y., Vikram, M., Kim, S., Kang, C.H., Kang, J.S., Bahk, J.D., Lee, S.Y., Fukuhara, T., Staswick, P.E., Pepper, A.E., and Koiwa, H. (2008) The Arabidopsis thaliana carboxyl- terminal domain phosphatase-like 2 regulates plant growth, stress and auxin responses, Plant Mol. Biol. 67, 683-697.
4. Bang, W.Y., Kim, S.W., Jeong, I.S., Koiwa, H., Bahk, J.D. (2008) The C-terminal region (640-967) of Arabidopsis CPL1 interacts with the abiotic stress- and ABA-responsive transcription factors, Biochem Biophys Res Comm, 372, 907-912.
5. Frank, J., Kaulfurst-Soboll, H., Rips, S., Koiwa, H., von Schaewen, A. (2008) Comparative Analyses of Arabidopsis cgl1 (complex glycan 1) Mutants and Genetic Interaction with stt3a (staurosporin & temperature-sensitive 3a). Plant Physiol. 148, 1354-1367
6. Vikram, M., Koiwa, H. (2009) Glyphosate resistance as a versatile selection marker for Arabidopsis transformation. Plant Mo. Biol. Rep. 27, 132-138
7. Kang, C.H., Feng, Y., Vikram, M., Jeong, I.S., Lee, J.R., Bahk, J.D., Yun, D.J., Lee, S.Y., and Koiwa, H. (2009) Arabidopsis thaliana PRP40s are RNA polymerase II C-terminal domain-associating proteins. Arch Biochem Biophys 484, 30-38.
8. Feng, Y.. Kang, J. S., Kim, S., Yun, D. J., Lee, S. Y., Bahk, J. D., Koiwa, H. (2010) Arabidopsis SCP1- like small phosphatases differentially dephosphorylate RNA polymerase II C-terminal domain. Biochem. Biophys. Res. Commun., 397, 355-360
9. Kajiura, H., Koiwa, H., Nakazawa, Y., Okazawa, A., Kobayashi, A., Seki, T., and Fujiyama, K. (2010) Two Arabidopsis thaliana Golgi a-mannosidases I are responsible for plant N-glycan maturation. Glycobiology 20, 235-47
10. Haeweker, H., Rips, S. Koiwa, H., Salomon, S., Saijo, Y., Chinchilla, D., Robatzek, S., and von Schaewen, A. (2010) Pattern recognition receptors require N-glycosylation to mediate plant immunity, J. Biol. Chem 285, 4629-4636
11. Jin, Y.M., Jung, J., Jeon, H., Won, S.Y., Feng, Y., Kang, J.S., Lee, S.Y., Cheong, J.J., Koiwa, H., and Kim, M. (2011) AtCPL5, a novel Ser-2-specific RNA polymerase II C-terminal domain phosphatase, positively regulates ABA and drought responses in Arabidopsis. New Phytol. 190, 57-74
12. Feng, Y., Cao, C.M., Vikram, M., Park, S., Kim, H.J., Hong, J.C., Cisneros-Zevallos, L., and Koiwa, H. (2011) A three-component gene expression system and its application for inducible flavonoid overproduction in transgenic Arabidopsis thaliana. PLoS One 6, e17603
13. Chi, Y.H., Jing, X., Lei, J., Ahn, J.E., Koo, Y.D., Yun, D.J., Lee, S.Y., Behmer, S.T., Koiwa, H., and Zhu- Salzman, K. (2011) Stability of AtVSP in the insect digestive canal determines its defensive capability. J Insect Physiol 57, 391-399
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14. Kaulfuerst-Soboll, H., Rips, S., Koiwa, H., Kajiura, H., Fujiyama, K., and von Schaewen, A. (2011) Reduced immunogenicity of Arabidopsis hybrid glycosylation1 (hgl1) N-glycans due to altered accessibility of xylose and core fucose epitopes. J Biol Chem. 286, 22955-64
15. Wu, X., Koiwa, H. (2011) One-step casting of Laemmli discontinued sodium dodecyl sulfate- polyacrylamide gel electrophoresis gel. Anal. Biochem. 421, 347-349
16. Guo, F., Lei, J., Sun, Y., Chi, Y.H., Ge, F., Patil, B.S., Koiwa, H., Zeng, R., and Zhu-Salzman, K. (2012). Antagonistic regulation, yet synergistic defense: effect of bergapten and protease inhibitor on development of cowpea bruchid Callosobruchus maculatus. PLoS One 7, e41877.
17. Aksoy, E., Jeong, I., and Koiwa, H. (2013) Loss of Function of Arabidopsis C-terminal Domain Phosphatase-like 1 (CPL1) Activates Iron Deficiency Responses at the Transcriptional Level. Plant Physiology 161, 330-345.
18. Aksoy, E., and Koiwa, H. (2013) Arabidopsis CTD-phosphatase-like 1 regulates iron nutrition and cadmium tolerance, Plant Signaling & Behavior 8, e24120.
19. Jeong, I., Aksoy, E., Fukudome, A., Akhter, S., Hiraguri, A., Fukuhara, T., Bahk, J.D., and Koiwa, H. (2013) Arabidopsis C-Terminal Domain Phosphatase-Like 1 functions in miRNA accumulation and DNA methylation. PLoS One, 8, e74739
20. Jeong, I., Fukudome, A., Aksoy, E., Bang, W.Y., Kim, S., Guan, Q., Bahk, J.D., May, K.A., Russell, W.K., Zhu, J. and Koiwa, H. (2013) Regulation of Osmotic Stress Signaling by Arabidopsis C-terminal Domain Phosphatase-like 1 Requires Interaction with a K-homology Domain-containing Protein, PLoS One, in press
Reviews: 1. Koiwa, H., Bressan, R. A. and Hasegawa, P. M. (1997) Regulation of protease inhibitors and plant defense. Trends Plant Sci. 2, 379-384.
2. Bohnert, H. J., Ayoubi, P., Borchert, C., Bressan, R. A., Burnap, R. L., Cushman, J. C., Cushman, M. A., Deyholos, M., Fisher, R., Galbraith, D. W., Hasegawa, P. M., Jenks, M., Kawasaki, S., Koiwa, H., Kore-eda, S., Lee, B.-H., Michalowski, C. B., Misawa, E., Nomura, M., Oztuk, N., Postier, B., Prade, R., Song, C.-P., Tanaka, Y., Wang, H. & Zhu, J.-K. (2001). A genomics approach towards salt stress tolerance. Plant Physiol. Biochem., 39, 295-311.
Conference Proceeding: 1. Vikram M., Feng Y, Park S., Yoo, K. S., and Koiwa, H. (2009) Designing a molecular switch to optimize phenylpropanoid neutraceuticals in vegetables Acta Hort 841:615-618
Book Chapters: 1. Koiwa, H., Bressan, R. A. and Hasegawa, P. M. (2000) Regulation of plant defense against herbivorous pests., (2000) In Recombinant protease inhibitors in plants-The plant response to herbivorous pests., Biotechnology Intelligence Unit 3, (D. Michaud, ed), pp65-79, Eurekah.com, Texas.
2. Koiwa, H. (2004) Salt stress and ion homeostasis. In Crosstalks between plant environmental responses and development. (K. Shinozaki, K. Okada, and A. Oka, eds) Springer-Verlag, Tokyo pp. 181-188. (in Japanese)
3. Koiwa, H. (2006) Phosphorylation of RNA polymerase II C-terminal domain and plant osmotic-stress responses In Genetic Engineering of Stress Tolerant Plant. Toward the Improvement of Global Environment and Food Supply. (A. K. Rai and T. Takabe, ed.) , Science Publishers, inc, pp. 47-58
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4. Koiwa, H. (2009) Pathways and Genetic Determinants for Cell Wall–based Osmotic Stress Tolerance in the Arabidopsis thaliana Root System, in Genes for Plant Abiotic Stress (M. A. Jenks, A.J. Wood, eds), Wiley-Blackwell. p. 35-53.
C. Service (5% Effort) 1. Current Activities Coordinator: Exchange program between Molecular and Environmental Plant Science program and Gyongsang National University in Korea
Committees MEPS program committee, Spring 2010-present MEPS executive committee, Fall 2011-present MEPS symposium organization committee 2004-2006, 2008-2009, 2012 (chair), present Seminar host for Dr. Paul M. Hasegawa (MEPS symposium 2005) Seminar host for Dr. Eduardo Blumwald (MEPS symposium 2006) Seminar host for Dr. Jian-Kang Zhu (MEPS symposium 2008) Seminar host for Dr. Robert Last (MEPS symposium 2009) Other Borlaug Center External Advisory Committee (2006-present)
2. Administrative duties: N/A
3. Professional, scientific activities Review panels for grants and journals Editorial Board Member The Journal of Biological Chemistry The Open Plant Science Journal
Professional association involvement Affiliation American Society of Plant Biologists American Society of Biochemistry and Molecular Biology Japanese Society of Plant Physiologist Japan Society for Bioscience, Biotechnology, and Agrochemistry Sigma Xi
4 Michael V. Kolomiets Curriculum Vitae
CURRICULUM VITAE
Mikhailo (Michael) V. Kolomiets Department of Plant Pathology & Microbiology (PLPM) Molecular and Environmental Plant Sciences Interdepartmental Program (MEPS) Whole Systems Genomics for Improved Human, Animal, and Environmental Wellbeing Program of Biology of Filamentous Fungi (PBOFF) Texas A&M University College Station, TX 77843-2132 CONTACT INFORMATION Business Address: Texas A&M University Department of Plant Pathology and Microbiology 2132 TAMU College Station, TX, 77843-2132 Phone: (979)-458-4624 e-mail: [email protected] Web Page: http://plantpathology.tamu.edu/people/faculty/dr-michael-v-kolomiets/ I. EDUCATION AND PROFESSIONAL APPOINTMENTS Professional Preparation Kiev State University, Kiev, Ukraine Genetics B.S. and MS, 1986 Institute of Plant Sciences, St. Petersburg, Russia Biochemistry Ph.D. equivalent, 1991 Major Advisor: G. Samorodova-Bianki Iowa State University, Ames, IA Horticulture Ph.D., 1998 Co-advisors: D. H. Hannapel and R. Gladon University of Missouri-Columbia Molecular Genetics of Maize 1998-1999 (Post-doctoral Fellow) Advisor: G. Johal Pioneer Hi-Bred/DuPont, USA Disease Resistance Group 1999-2002 (Post-doctoral Fellow) Advisors: G. Johal and N. Yalpani Appointments 2008-present Associate Professor, Department of Plant Pathology & Microbiology, Texas A&M University, College Station, TX. 2011 (03-09) Visiting Professor, Institute of Plant Biochemistry, University of Goettingen, Goettingen, Germany. 2002-2008 Assistant Professor, Department of Plant Pathology & Microbiology, Texas A&M University, College Station, TX. 1999-2002 Post-doctoral Research Associate, Disease Resistance Group, Pioneer Hi-Bred International – a DuPont company, Johnston, IA. 1998-1999 Post-doctoral Research Fellow, Department of Agronomy, University of Missouri- Columbia, Columbia, MO. 1993-1998 Graduate Research Assistant, Department of Horticulture, Iowa State University, Ames 1988-1993 Senior Research Fellow and Chair, Biotechnology Laboratory, Institute of Horticulture, Kiev, Ukraine. 1986-1988 Senior Agronomist, Institute of Horticulture, Kiev, Ukraine. II. SERVICE Society Memberships American Phytopathological Society
1 Michael V. Kolomiets Curriculum Vitae
American Society for Plant Biologists FacultyRow, America's Top Faculty™, selected as a member in 2013 Membership on Committees, Boards, and Panels Chair Graduate Program Committee, PLPA, Texas A&M University 2013-2014 Graduate Adviser PLPA, Texas A&M University 2013-2014 Member Assessment Committee, PLPA, Texas A&M University 2013-2014 Chair Assessment Committee, PLPA, Texas A&M University 2012-2013 Member Science Advisory Board, Washington D.C. 2010-present Member Council of Principal Investigators, Texas A&M University 2009-2012 Member Advisory Committee for the Institute of Plant Genomics and Biotechnology, Texas A&M University 2008-2010 Member New Faculty Search Committee – four positions in Plant Biology Programs, Institute for Plant Genomics and Biotechnology 2007-2008 Member Mycotoxin Task Force, COALS 2003-current Member NSF Grant Panel 2010, 2011, 2012 Member Molecular and Environmental Plant Sciences Interdepartmental Program (MEPS) Executive Committee, Texas A&M University 2009-2012 Member Editorial Board for MaizeGDB 2008 Member MEPS Symposium Committee, Texas A&M University 2004-2010 Co-Chair Facilities and Equipment Committee 2005-2006 Member Graduate Program Committee, Department of Plant Pathology and Microbiology 2005-2007 Member Undergraduate Program Committee, Department of Plant Pathology and Microbiology 2006-2007 Member Facilities and Equipment Committee, Department of Plant Pathology 2002-2003 Member Seminar Committee, Department of Plant pathology and Microbiology 2004-2005 Chair Seminar Comm., Department of Plant Pathology, Texas A&M University 2003 Member New Faculty Search Committee 2002 Faculty Member MEPS Program, Texas A&M University 2002-2012 Faculty Member Whole Systems Genomics Interdepartmental Program, Texas A&M University 2010-2012 Committee Activities in Professional Societies Member, Mycotoxicology Committee, American Phytopathological Society, 2004-current Member, Molecular Biology and Biochemistry Committee, American Phytopathological Society, 2005- 2007 Reviewer for Journals Plant Cell, Plant Journal, Plant Physiology, Molecular Plant-Microbe Interactions, Physiological and Molecular Plant Pathology, Phytopathology, Plant Molecular Biology, Molecular Plant Pathology, Phytochemistry, PLOS ONE, Crop Science, Microbiology, Plant Signaling and Behavior, FEBS, Planta, BMC Plant Biology, BMC Bioinformatics, Toxins, Journal of Chemical Ecology, Journal of Agriculture and Food Science, Journal of Phytopathology, Trends in Microbiology, Genetics, Food Protection, Journal of Molecular Evolution, and many other international journals. Ad-hoc Reviewer for Funding Agencies NSF (several programs from Biological Directorate, e.g. IOS, Plant Genome Program, IOB) USDA NIFA (several programs) BARD (Bi-National Research Program funding collaborative research between US and Israel scientists) The New Eurasia Foundation (http://www.neweurasia.ru/en) Texas A&M University programs including CONACYT (collaboration between Texas A&M and Mexico) 2 Michael V. Kolomiets Curriculum Vitae
III. TEACHING AND SUPERVISORY ACTIVITIES COURSE DESCRIPTIONS PLPA 617: MOLECULAR PLANT-PATHOGEN INTERACTIONS. Taught: Spring '03, '05, '07, Fall '09, Spring '11, '13. PLPA 301/601: PLANT PATHOLOGY. Taught: Spring 03, '04, '06, Fall '07, '08, '10, '11, '12, '13 PLPA 484 W. FIELD EXPERIENCE. Writing Intensive, 3 credits, taught every semester including Summer sessions, 2010-2013. Invited Short Courses Taught Abroad July 19-29, 2011, Summer Graduate Short Course (10 days, 120 graduate students attended lectures), Molecular Plant-Pathogen Interactions, Huandzhou Agricultural University, Wuhan, China. April 27-May 8, 2012, Eurasian Gumilev University, Astana, Kazakhstan, Biochemistry and Molecular Plant Responses to Pathogen Infections, 16 graduate students attended the lectures). Supervision of Research Projects (internships) for Undergraduate Students: Regular internships: Since 2002, I have trained and supervised research projects of 55 undergraduate students either as a paid student-workers or PLPA 485 or PLPA 484 W Internship course students. Trained five NSF-funded Research for Undergraduate Students, two Louis Stokes Alliance for Minority Participation (LSAMP), two University Undergraduate Research Scholars (2): Thesis Advisor & Postdoctoral Sponsor Served as a Major Advisor or co-Advisor for 11 Ph.D. (two of them will join the lab in Fall 2013) and two M.S. graduate students, supervised five post-doctoral scientists, served on 15 Ph.D. and six M.S. Graduate Student Committees. Graduate Advisory Committee Member (TAMU career total 21 students): Graduate Student Involvement Degree Chair or Co-chair Member Master of Agriculture 1 0 Master of Science 1 6 Ph.D. 9 15 Visiting Scholars, Graduate Students and Faculty Hosted three visiting professors, trained four visiting graduate students,trained two visiting Postdoctoral Research Fellows IV. Research Areas of Research Interest Molecular plant pathogen/insect/nematode/beneficial microorganisms’ interactions. Maize genetics, molecular biology and biochemistry. Maize lipid signaling in the regulation of mycotoxin biosynthesis by seed-infecting fungi. Maize interaction with rhizosphere microbiome and allelopathy (root-mediated chemical signaling between plants). Major focus: establish physiological functions of oxidized non-volatile and volatile lipids (oxylipins) in molecular signaling in defense against diverse pathogens, insect herbivores, and abiotic stresses including drought and salt tolerance and maize growth and reproductive development. V. Professional Honors and Awards
3 Michael V. Kolomiets Curriculum Vitae
Recipient Best Research Faculty of 2013 academic year, Department of Plant Pathology and Microbiology, Texas A&M University 2012-2013 Recipient Outstanding Young Faculty Award, interdisciplinary Molecular and Environmental Plant Sciences (MEPS) program, Texas A&M University 2011 Recipient Outstanding Professor Award, Department of Plant Pathology and Microbiology, Texas A&M University 2005 Recipient Research Excellence Award, Iowa State University 1998
VI. Publications and Profession Output A. PEER-REVIEWED/REFEREED PUBLICATIONS (most recent first): Ozalvo R, Cabrera J, Escobar C, PChristensen SA, Kolomiets MV, Castresana C, Iberkleid I, Brown Horowitz S. (2013) Two closely related members of Arabidopsis 13-LOXs, LOX3 and LOX4, reveal distinct functions in response to plant-parasitic nematode infection. Molecular Plant Pathology: (in print). PGChristensen S, PGNemchenko A, GPark Y-S, GBorrego E, GHuang P-C, Eric A. Schmelz EA, Kunze S, Feussner I, Nasser Yalpani N, Meeley R, Kolomiets MV (2013) The novel maize 9-lipoxygenase, ZmLOX12, is required to mount an effective defense against Fusarium verticillioides. Molecular Plant Pathogen Interactions: (accepted). GNasie Constantino, Fatemeh Mastouri, GRamadhika Damarwinasis, GEli Borrego, Maria Eugenia Moran- Diez, Charles M Kenerley, PXiquan Gao and Michael V Kolomiets. (2013) Root-expressed 9- lipoxygenase, ZmLOX3, is a major suppressor of Trichoderma-triggered induced systemic resistance in maize. Frontiers in Plant Sciences: (invited original research paper for a special issue on root-to-shoot signaling in plant-insect and plant-pathogen interactions, accepted) Ivan D. Barrero Farfan, Gerald De La Fuente, Seth C. Murray, Thomas Isakeit, GPei-Cheng Huang, Marilyn Warburton, Paul Williams, Gary L. Windham, Michael Kolomiets. (2013) Whole genome association study for drought, aflatoxin resistance, and important agronomic traits in maize in a subtropical environment. PLOS ONE: (submitted) PUBLISHED: Papers 1-21 were published during my work at TAMU. 1. De La Fuente GN, Murray SC, Isakeit T, GPark Y-S, PYan Y, Warburton ML, Kolomiets MV (2013) Characterization of Genetic Diversity and Linkage Disequilibrium of ZmLOX4 and ZmLOX5 Loci in Maize. PLOS ONE 8(1): e53973. doi:10.1371/journal.pone.0053973. 2. PGChristensen S, PGNemchenko A, GBorrego E, Murray I, Sobhy I, Bosak L, DeBlasio S, Erb M, Robert CAM, Vaughn K, Gӧbel C, Tumlinson J, Feussner I, Jackson D, Turlings TCJ, Engelberth J, Nansen C, Meeley R, Kolomiets MV (2013). The maize lipoxygenase, ZmLOX10, mediates green leaf volatile, jasmonate, and herbivore-induced plant volatile production for defense against insect attack. Plant Journal 74:59–73 3. PYan Y, PGChristensen S, Isakeit T, Engelberth J, Meeley R, Hayward, Emery N, Kolomiets M (2012) Disruption of OPR7 and OPR8 Reveals the Versatile Functions of JA in Maize Development and Defense. Plant Cell 24:1420-1436. 4. Kumar V, Parkhi V, Joshi SG, PGChristensen S, Jayaprakasha GK, Patil BS, Kolomiets MV, Rathore KS. (2012) A novel, conditional, lesion mimic phenotype in cotton cotyledons due to the expression of an endochitinase gene from Trichoderma virens. Plant Science 183:86-95. 5. PGChristensen S, PGBorrego E, Shim WB, Isakeit T, Kolomiets M. (2011) Quantification of fungal colonization, sporogenesis, and production of mycotoxins using kernel bioassays. J. Vis. Exp., e3727, DOI: 10.3791/3727. 6. PGChristensen S, Kolomiets M (2011) The lipid language of plant-fungal interactions. Fungal Genetics and Biology. 48:4-14. (Invited Review, 6th most downloaded paper in Fungal Genetics and
4 Michael V. Kolomiets Curriculum Vitae
Biology: http://top25.sciencedirect.com/journal/10871845?utm_source=ESJ001&utm_campaign=&utm_ content=&utm_medium=email&bid=7SX6E5F:6PC3W2F.
7. Mukherjee M, Kim J-E, GPark J-S, Kolomiets MV, Shim W-B. (2011) Regulators of G-protein signaling in Fusarium verticillioides mediate differential host-pathogen responses on nonviable versus viable maize kernels. Molecular Plant Pathology 12: 479–491. 8. GPark Y-S, Kunze S, Ni X, Feussner I, Kolomiets MV. (2010) Comparative molecular and biochemical characterization of segmentally duplicated 9-lipoxygenase genes ZmLOX4 and ZmLOX5 of maize. Planta. 231:1425-1437. 9. PGao X, Kolomiets M. (2009). Host-derived lipids and oxylipins are crucial signals in modulating mycotoxin production by fungi. Toxin Reviews: 28: 79–88 (invited Review). 10. PGao X, Brodhagen M, Isakeit T, Brown SH, Göbel C, Betran J, Feussner I, Keller NP, Kolomiets MV. (2009) Inactivation of the lipoxygenase ZmLOX3 increases susceptibility of maize to Aspergillus spp. Molecular Plant Microbe Interact. 22:222-231. 11. Nansen C, Kolomiets M, PGao X. 2008. Considerations regarding the use of hyperspectral imaging data in classifications of food products, exemplified by analysis of maize kernels. Journal Agric Food Chem. 56:2933-8. 12. PGao X, Starr J, Göbel C, Engelberth J, Feussner I, Tumlinson J, Kolomiets M. 2008. Maize 9- lipoxygenase ZmLOX3 controls development, root-specific expression of defense genes, and resistance to root-knot nematodes. Molecular Plant Microbe Interact. 21:98-109. 13. PGao X, Stumpe M, Feussner I, Kolomiets M. 2008. A novel plastidial lipoxygenase of maize (Zea mays) ZmLOX6 encodes for a fatty acid hydroperoxide lyase and is uniquely regulated by phytohormones and pathogen infection. Planta. 227(2):491-503. 14. PGao X, Starr J, Göbel C, Engelberth J, Feussner I, Tumlinson J, Kolomiets M. 2008. Maize 9- lipoxygenase ZmLOX3 controls development, root-specific expression of defense genes and resistance to root-knot nematodes. Molecular Plant Microbe Interact. 21: 98-109. 15. Djonović S, Vargas WA, Kolomiets M, Horndeski M, Wiest A, Kenerley C (2007). A proteinaceous elicitor Sm1 from the beneficial fungus Trichoderma virens is required for induced systemic resistance in maize. Plant Physiology 145: 875-889. 16. PGao X, Shim WB, Göbel C, Kunze S, Feussner I, Meeley R, Balint-Kurti P, Kolomiets M (2007). Disruption of a maize 9-lipoxygenase results in increased resistance to fungal pathogens and reduced levels of contamination with the mycotoxin fumonisin. Molecular Plant Microbe Interact. 20: 922-933. The article was chosen as the EDITOR’S PICK of the August issue of MPMI. 17. Isakeit T, PGao X, Kolomiets M. 2007. Increased resistance of a maize mutant lacking the 9- lipoxygenase gene, ZmLOX3, to root rot caused by Exserohilum pedicellatum. Journal of Phytopathology 155: 758-760. 18. Isakeit T, PGao X, Kolomiets M. 2007. Exserohilum pedicellatum root rot of corn in Texas. Plant Disease 91: 634. 19. GNemchenko A, Kunze S, Feussner I, Kolomiets M. 2006. Duplicate maize 13-lipoxygenase genes are differentially regulated by circadian rhythm, cold stress, wounding, pathogen infection and hormonal treatments. Journal of Experimental Botany 57: 3767-3779. 20. Sagaram US, Kolomiets M, Shim WB 2006. Regulation of fumonisin biosynthesis in Fusarium verticillioides-maize system. The Plant Pathology Journal 22: 203-210. 21. GZhang J, Simmons C, Yalpani N, Crane V, Wilkinson H, Kolomiets M. (2005) Genomic analysis of the 12-oxo-phytodienoic acid reductase gene family of Zea mays. Plant Molecular Biol. 59:323-343. 22. GKolomiets MV, Hannapel DJ, Chen H, Tymeson M, Gladon RJ. (2001) Lipoxygenase is involved in the control of potato tuber development. Plant Cell. 13:613-626.
5 Michael V. Kolomiets Curriculum Vitae
23. GKolomiets MV, Chen H, Gladon RJ, Braun EJ, Hannapel DJ (2000) A leaf lipoxygenase of potato induced specifically by pathogen infection. Plant Physiology 124: 1121-1130. 24. Troyan V.M., Kozeko L.E., Overchuk O.V., Babenko V.M., Musatenko L.I., Pidhaets’kyi A.A., GKolomiets MV, Gladon RJ, Hannapel DJ (1999) The lipoxygenase activity in leaves of Solanum tuberosum L. inoculated with virulent race of Phytophthora infestans (Mont.) de Bary. Proceedings of National Academy of Ukraine 10: 168-172. 25. GKolomiets MV, Hannapel DJ, Gladon RJ. (1996) Potato lipoxygenase genes expressed during the early stages of tuberization (Accession nos. U60200 and U60201) (PGR 96-065). Plant Physiology 112: 445-446. 26. Kolomiets MV, Hannapel DJ, Gladon RJ (1996) Nucleotide sequence of a cDNA clone for a lipoxygenase from abscisic acid-treated potato leaves (Accession no. U60202) (PGR 96-069). Plant Physiology 112: 445-446. 27. Gladon RJ, Hannapel DJ, Kolomiets MV, Andriyenko MV, Kondratenko PV, Kopan VP (1994) Small- fruit and tree-fruit research centers in Ukraine. HortScience 29: 1213,1214,1393-1395. 28. Kolomiets MV, Samorodova-Bianki GB, Kopan VP, Rostova NB (1991) Use of multimeric factorial analysis of biochemical traits for evaluation of apple hybrid populations. Trudy po Prikladnoy Botanike, Genetice, and Selektsii (translates to Research on Applied Botany, Genetics, and Breeding). All-Union Vavilov's Institute of Plant Industry Bulletin. St. Petersburg, Russia. 202: 27- 31 29. Kolomiets MV, Kopan VP, and Samorodova-Bianki GB. (1990) Multimeric factorial analysis application in studies of apple hybrid populations. Sadovodstvo (translates to Horticulture). Kiev, Ukraine. 39: 93-97 BOOK CHAPTERS: De La Fuente G, Barrero I, Murray SC, Isakeit T, Kolomiets MV (2013). Improving Maize Production under Drought Stress: Traits, Screening Methods, and Environments. Handbook of Plant and Crop Stress, Fourth Edition, Mohammad Pessarakli, Editor, http://www.amazon.com/Handbook-Plant-Stress-Plants-Environment/dp/1439813965 PYuanxin Yan, GEli Borrego and Michael V. Kolomiets (2013). Jasmonate Biosynthesis, Perception and Function in Plant Development and Stress Responses, Lipid Metabolism, Prof. Rodrigo Valenzuela Baez (Ed.), ISBN: 978-953-51-0944-0, InTech, DOI: 10.5772/52675. Available from: http://www.intechopen.com/books/lipid-metabolism/jasmonate-biosynthesis-perception-and- function-in-plant-development-and-stress-responses. This chapter has been downloaded has 1047 times in just 3 months. GBorrego E, Kolomiets MV (2012) Lipid-Mediated Signaling Between Fungi and Plants. Book chapter. Ed. G. Witzany. Biocommunication of Fungi. Publisher, Springer: 249-260 VIII. Grant Support A. Current Hatch Project: TEX09496: Functions of maize oxidized lipids in stress and development. Duration 5 years; 12/20/2011 - 12/19/2016. B. Current Grant Support: Grants and Contracts
Total $’s Type and Role $’s allocated to my program to all PIs External Competitive PI $1,548,362.00 $1,363,599 Co-PI $638,999.00 $224,644.00 Total (PI + CO-PI) $2,187,321.00 $1,558,243 Internal 6 Michael V. Kolomiets Curriculum Vitae
PI $350,000.00 $330,000.00 Co-PI Total (PI + CO-PI) $350,000.00 $330,000.00 Other Commodity Funding $34,500 $34,500 TOTAL $2,581,861.00 $1,952,743.00
ACQUISITION OF RESEARCH FUNDS External funding Current Title: Collaborative Research: Signal Perception and Cellular Mechanisms Governing Oxylipin Mediated Maize - Fungal Crosstalk Agency: National Science Foundation, IOS-0951272 Amount: $485,863 Duration: 2/15/11-2/14/15 PI: Kolomiets
Title: Signals, Genes and Metabolites in Defense Priming Mediated by 12-oxo-phytodienoate Reductases in Maize Agency: National Science Foundation, IOS-0925561 Amount: $469,676 Duration: 09/01/09-8/31/13 PI: Kolomiets
Title: Improving Drought Tolerance and Aflatoxin Resistance In Maize; Education, Extension, and Translational Breeding Via Altered Lipid Metabolism Agency: USDA AFRI Amount: $499,999 Duration: 01/15/10-01/15/14 PIs: Murray/Kolomiets/Isakeit Internal funding Current Title: “Validating five candidate genes for improving maize yield and drought tolerance in Texas A&M AgriLife germplasm” Agency: Texas A&M AgriLife Research, Monocot Improvement Program Amount: $80,000 Duration: 09/01/13 – 31/08/15 PI: Kolomiets Co-PI: Seth Murray (Department of Crops and Soil Sciences
Title: Catalyst Grant, “Elucidating Below-ground Genes and Regulatory Networks that Modulate Above-ground Systemic Defense Against Herbivory” Agency: Whole Systems Genomics for Improved Human, Animal, and Environmental Wellbeing, Texas A&M Initial University Multidisciplinary Research Initiative Amount: $10,000 Duration: 09/01/12 – 12/23/13 PI: Kolomiets Co-PI: Ivan Ivanov
7 Curriculum Vitae Konstantin V. Krutovsky Department of Forest Genetics and Forest Tree Breeding Büsgen-Institute Georg-August-University Göttingen Büsgenweg 2, D-37077 Göttingen Germany E-mail: [email protected] Phone: +49-(0551)-393-35-37 (off.)
RESEARCH INTERESTS
Evolutionary, population, conservation and ecological genetics Environmental stress and adaptive genes Comparative and population genomics Complete pine genome sequencing Genome, QTL, comparative, candidate gene and association mapping Genome breeding Plant molecular systematics and phylogeny Introgressive hybridization, gene flow and mating system Molecular genetic marker development
EDUCATION
Ph.D. 1984 Population Genetics, Laboratory of Population Genetics, N. I. Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia M.Sc. 1979 Genetics, Laboratory of Evolutionary Genetics, Institute of Cytology and Genetics, Russian Academy of Sciences and Department of Life Sciences, Novosibirsk State University, Novosibirsk, Russia B.Sc. 1978 Genetics, Department of Genetics and Embryology, Samara State University, Samara, Russia Diploma 1985 Computer application in information and communication systems, Central Institute of Information Systems and Communication, Moscow, Russia
PROFESSIONAL EXPERIENCE
7/12 – present Professor, Department of Forest Genetics and Forest Tree Breeding, Büsgen- Institute, Georg-August-University Göttingen, Göttingen, Germany 9/12 – present Adjunct Professor, Department of Ecosystem Science & Management, Texas A&M University, College Station, TX, USA 3/12 – present Scientific director, Genome Research and Education Center, Siberian Federal University, Krasnoyarsk, Russia 9/13 – present Leading Research Scientist, Department of Computational Biology, Laboratory of System Biology and Computational Genetics, N.I. Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia 7/05 – 9/12 Associate Professor, Department of Ecosystem Science & Management, Texas A&M University, College Station, TX, USA Krutovsky / CV 2012
1/01 – 6/05 Research Plant Molecular Geneticist / GS12, Institute of Forest Genetics, USDA Forest Service, Pacific Southwest Research Station, Davis, CA, USA 7/97 – 12/00 Faculty Research Associate, Department of Forest Science and Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR, USA 2/94 - 9/97 Visiting Scientist / Courtesy Associate Professor, Department of Forest Science, Oregon State University, Corvallis, OR, USA 4/92 - 12/93 Alexander von Humboldt Foundation Research Fellow, Department of Forest Genetics and Tree Breeding, Georg-August University of Göttingen, Germany 4/91 - 12/91 Visiting Scientist, Department of Forestry, University of Kentucky, Lexington, Kentucky, USA 6/06 – 8/13 Leading Research Scientist, Directorate Group, N.I. Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia 7/90 - 6/06 Senior Research Scientist, Laboratory of Population Genetics, N.I. Vavilov Institute of General Genetics, USSR Academy of Sciences, Moscow, Russia 3/85 - 5/90 Research Scientist, Laboratory of Population Genetics, N. I. Vavilov Institute of General Genetics, USSR Academy of Sciences, Moscow, Russia 2/84 - 3/85 Senior Research Scientist, Laboratory of Toxicology, Kuibyshev Scientific Research Institute of Hygiene, Ministry of Health of the Russian Federation, Kuibyshev, Russia 9/79 - 10/80 Research Scientist, Laboratory of Toxicology, Kuibyshev Scientific Research Institute of Hygiene, Ministry of Health of the Russian Federation, Kuibyshev, Russia
PROFESSIONAL SERVICE AND ASSOCIATION
1981 - present Member, N. I. Vavilov Society of Genetics and Selection, Moscow, Russia 1994 - present Member, Western Forest Genetics Association (WFGA), USA 1996 - present Member, American Association for the Advancement of Science, Washington, USA 1989 - 1994 Member, Scientific Council on Forest Genetics, Breeding, Seed Production and Introduction of the Institute of Forest Genetics and Breeding, Voronezh, Russia 1989 - 1991 Chairman, Scientific Council of Young Scientists of the Institute of General Genetics, USSR Academy of Sciences, Moscow, Russia 1988 - 1991 Member, Scientific Council of the Institute of General Genetics, USSR Academy of Sciences, Moscow, Russia 2006 - present Member / Collaborator, The Conifer Translational Genomics Network (CTGN) (http://dendrome.ucdavis.edu/ctgn/people/)
2012 - present Member, The International Climate-Resilient Crop Genomics Consortium (ICRCGC) (http://climatechangegenomics.org/members.php) 2005 - 2012 Chair, Graduate Curriculum Committee, Genetics (GENE) Program, Texas A&M University
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2006 - 2012 Chair, Graduate Admissions Committee, Molecular and Environmental Plant Sciences (MEPS) Program, Texas A&M University 2012 - present Scientific Director and Program Advisor, Genome Center, Siberian Federal University, Krasnoyarsk, Russia 2006 - present Scientific Advisor, N. I. Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia 2007 - present Member, Editorial Board, Conifers of Boreal Forest (peer-reviewed theoretical and applied research international journal) 2011 - present Associate Editor, BMC Genomics (an Open Access, peer-reviewed theoretical and applied research international journal that considers articles on all aspects of genome-scale analysis, functional genomics, and proteomics; http://www.biomedcentral.com/bmcgenomics/edboard) 2013 - present Member, Editorial Board, Siberian Journal of Forest Science (peer-reviewed theoretical and applied research international journal) 2011 - present Coordinator of IUFRO's Research Group 2.02.00 - Conifer breeding and genetic resources (http://www.iufro.org/science/divisions/division-2/20000/20200/) 2011 - present Member, Scientific Advisory Board, The 3rd World DNA and Genome Day Congress (http://www.dnaday.com/programcommittee.asp) 2001, 2006, 2007 Instructor and Lecturer, Training Courses and Workshops on Forest Biodiversity, Conservation and Forest Genetic Resources organized by Bioversity International (Rome, Italy) and BFW (Federal Research and Training Centre for Forests, Natural Hazards and Landscape, Austria) 2008 Instructor and Lecturer, Workshop on Spatial and temporal variation of genetic structures in tree populations organized by Büsgen Institute, Department of Forest Genetics and Forest Tree Breeding, University of Göttingen and funded by EvolTree (Evolution of Trees as Drivers of Terrestrial Biodiversity, EU-funded Network of Excellence, http://www.evoltree.eu), December 15-19, 2008, Göttingen, Germany 2012 Chair, Instructor and Lecturer, Workshop on Population genetic and genomic approaches to mitigate global climate change impacts on forest genetic resources and to breed more resilient trees organized by Büsgen Institute, Department of Forest Genetics and Forest Tree Breeding, University of Göttingen and funded by EvolTree (Evolution of Trees as Drivers of Terrestrial Biodiversity, EU-funded Network of Excellence, http://www.uni-goettingen.de/en/evoltree-summer- school-in-goettingen/361359.html and http://www.evoltree.eu/index.php/component/jevents/icalrepeat.detail/2012/09/24 /202/-/-), September 24-28, 2012, Göttingen, Germany 2013 Instructor and Lecturer, The School of Young Scientists "Genome Sequencing and Data Analysis", organized by the Institute of Chemical Biology and Fundamental Medicine SB RAS, July 19-21, 2013, Novosibirsk, Russia; http://conf.nsc.ru/seq2013/en)
3 Krutovsky / CV 2012
2008, 2009, 2011 Advisor to international visiting scientists – Dr. Ivan Marin, Nicaragua (fall 2008) and Dr. Modhumita Dasgupta, India (fall 2011 – spring 2012), and hosting Prof. Reiner Finkeldey, Germany during his sabbatical (fall 2009) 2007, 2009, 2011 Co-chair of the 1st, 2nd and 3rd International Conference on Conservation of Forest Genetic Resources in Siberia (CFGRS-2007), July 30 - August 4, 2007 and August 3-9, 2009 (http://www-sbras.nsc.ru/ws/cfgrs2009/index.en.html), and August 23-29, 2011 (http://conf.nsc.ru/cfgrs2011) 2013 – present Scientific coordinator, Bachelor program Molecular Ecosystem Sciences (BMES- 792), Georg-August-University of Göttingen 2011 Co-chair, The International Union of Forest Research Organizations (IUFRO) Working Group 2.02.15 – Breeding and genetic resources of five-needle pines 4th Conference on the Breeding and Genetic Resources of Five-Needle Pines August 8-18, 2011, Tomsk, Russia (http://fiveneedle.narod.ru) 2009 Keynote speaker at the Forest Genetics Workshop “Opportunities, challenges and limitations of genomics-based technologies in forest tree breeding and forest genetics”, organized by Forest Research Institute (FVA), European Forest Institute Central European Regional Office (EFICENT), and Institute of Tree Physiology, University of Freiburg, October 7-9, 2009, Freiburg, Germany (http://www.efi.int/portal/news___events/events/extra/2009/workshop_forest_gen etics/) 2012 Keynote speaker at the AdapCAR and IUFRO (WP 2.02.00) meeting October 3-5, 2012 in Riga, Latvia: Genetic aspects of adaptation and Mitigation: forest health, wood quality and biomass production (http://www.nordicforestresearch.org/adapcar/files/2012/10/Program-AdapCAR- IUFRO-Meeting.pdf) 2012 Keynote speaker at the international conference on „Forest Protection – Innovation for Development“ organized by the Research institute for Silviculture and Mechanization of Forestry (VNIILM), October 28-30, 2012, Pushkino, Russian Federation (http://www.vniilm.ru/conferences/22-oct-12) ad hoc reviewer: American Journal of Botany, Annales Botanici Fennici, Applied Microbiology & Biotechnology, BMC Evolutionary Biology, BMC Genetics, BMC Genomics, Canadian Journal of Forest Research, Conifers of the Boreal Area, Environmental Pollution, European Journal of Forest Research, Journal of Evolutionary Biology, Journal of Heredity, Forest Ecology & Management, Forest Genetics, Forestry Ideas, Genetics, Molecular Biology, Molecular Breeding, Molecular Ecology, Phytopathology, Plant Species Biology, Proceedings of the National Academy of Sciences of the USA, Theoretical & Applied Genetics, Tree Genetics & Genomes; European Commission Research; USDA NRI and NSF Plant Genome Programs; NSF Population and Evolutionary Processes Program; Kansas State University Integrated Genomics Facility Competitive Seed Grants Program; Swedish Research Council for Environment, Agricultural Sciences and Spatial Planning Program (Formas); Qatar National Research Fund (QNRF) - Qatar Foundation - The National Priorities Research Program (NPRP); Rothamsted International African Fellows Program (AFP).
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HONORS AND PROFESSIONAL RECOGNITION
2011 U.S. Department of Agriculture (USDA) Secretary's Honor Award to the members of the Conifer Translational Genomics Network (CTGN) Coordinated Agricultural Project in the category of Helping American promote sustainable agricultural production and biotechnology exports as America works to increase food security. This award is the most prestigious Departmental award presented by the Secretary of Agriculture and recognizes exceptional leadership, contributions, or public service by individuals or groups who support the mission/goals of USDA (http://essm.tamu.edu/awards/2011/most-prestigious- departmental-award/#.UZuBbsq_jQ4). Bioversity International certificate for the contribution in the forest biodiversity education and training, Rome, Italy, 2007 Alexander von Humboldt Foundation Research Fellowship Award, Bonn, Germany, 1992-1993. Institute of General Genetics Outstanding Young Scientists Award, Moscow, 1983, 1986, 1988, 1990 Medal of All-Union Exhibition of People Achievements: Forest Genetics, Tree Improvement and Management, Moscow, USSR, 1987
TEACHING
Ecological Genetics BMES-103 / University of Gottingen (2012-2013) (http://univz.uni- goettingen.de/qisserver/rds?state=verpublish&status=init&vmfile=no&publishid=109210& moduleCall=webInfo&publishConfFile=webInfo&publishSubDir=veranstaltung) Methods in Systems Biology / Genomics BMES-113 / University of Gottingen (2012-2013) (http://univz.uni- goettingen.de/qisserver/rds?state=verpublish&status=init&vmfile=no&moduleCall=webInfo &publishConfFile=webInfoPerson&publishSubDir=personal&keep=y&purge=y&personal.p id=125929) Tropical Forest Genetics M.Forst.1524 / University of Gottingen (2013) (http://www.uni- goettingen.de/de/82077.html) Population Genetics GENE-612 / TAMU (2006-2011) Genetics and Ecosystem Science and Management RLEM-681 / TAMU (2008) Molecular Ecology ESSM/MEPS/GENE-689 (http://treenome.tamu.edu/subpages/essm_689.html) / TAMU (2010-2011)
RESEARCH GRANTS AWARDED Niedersachsen Ministerium für Wissenschaft und Kultur, joint project by the University of Oldenburg and the Georg-August University of Göttingen, PI: Ulrich Brose, CoPIs: Konstantin Krutovsky et al.: http://www.uni-goettingen.de/de/principal- investigators/472907.html, 3 years, 2014-2016, 3,100,000 euro, “Biodiversity - Ecosystem Functioning across marine and terrestrial ecosystems (BEFmate)”. Texas A&M University Whole Systems Genome Initiative (WSGI) Graduate Traineeship Grant for a PhD student Mr. Jeremy S. Johnson, PI: David Cairns, CoPIs: Konstantin Krutovsky, Clint Magill, Seth Murray, 1 year, 9/1/2013-8/31/2014, $24,500; "A genomics approach to seed dispersal at the alpine treeline ecotone and its implications for a changing climate".
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European Union, 7th framework program (FP7), Marie Curie Actions— International Research Staff Exchange Scheme (FP7-PEOPLE-2013-IRSES), # 612587, PI John Doonan, CoPIs: K. V. Krutovsky and others, 4 years, 11/01/2013-10/31/2017, 285,000 euro, “Plant adaptation to heavy metal and radioactive pollution”. European Union, 6th framework program (FP6), EvolTree (EVOLution of TREEs as drivers of terrestrial biodiversity; http://www.evoltree.eu) - a network of excellence that was launched and financially supported since April 2006. The network has been extended under the umbrella of the European Forest Institute (EFI) network. The new consortium is now made up of 23 research groups in 13 European countries. Coordinator from Georg-August- University of Göttingen, Germany – K. V. Krutovsky. European Commission, Life Sciences, Biotechnology and Biochemistry for Sustainable Non- Food Products and Processes Program, 4 years, 2008-2012, NovelTree – research consortium (http://www.noveltree.eu), composed of 15 public and private European partners coordinated by Dr. Catherine Bastien (INRA-Orléans, France) and is designed to enable significant genetic improvement of the composition and characteristics of forest products to satisfy the needs (quality, quantity, sustainability, vulnerability) of consumers and the forest-based sector. NovelTree has received 4.1 million euros. Coordinator from Georg-August-University of Göttingen, Germany – K. V. Krutovsky. Transnational PLant Alliance for Novel Technologies – towards implementing the Knowledge- Based Bio-Economy in Europe (PLANT-KBBE) 2009 Program, a funding initiative in collaboration with the German Federal Ministry of Education and Research (BMBF) and represents the continuation of a common international funding initiative between France, Spain and Germany, Scientific and Technological Cooperation in Plant Genome Research as basis of the 'Knowledge Based Bio-Economy, SustainPine – research consortium “Genomic tools in maritime PINE for enhanced biomass production and SUSTAINable forest management” (http://www.scbi.uma.es/sustainpine), composed of 6 working parties and 11 public and private European partners coordinated by Dr. Francisco M. Cánovas (Universidad de Málaga, BMB, Spain). Coordinator from Georg-August-University of Göttingen, Germany – K. V. Krutovsky. The Ministry of Education and Science of the Russian Federation, Federal Program 1.5 "Research and Pedagogical Cadre for Innovative Russia 2009-2013", 2012-1.5-12-000-1001- 002 PI: K. V. Krutovsky, CoPIs: E.A. Vaganov, I.N. Tretyakova, I.V. Chubugina, N.V. Oreshkova et al., 2 years, 9/24/2012-11/14/2013, 2,000,000 rubles, “Complete de novo sequencing and annotation of Siberian larch genome”. USDA Forest Service Coop Agreement Award #12-CA-11330126-064, PI: K. V. Krutovsky, CoPI: Nurul Islam-Faridi, 1 year, 6/29/2012-4/30/2013, $42,491, “Genomic Analysis of Loblolly Pine - Sequencing and Mapping”. Texas A&M University Whole Systems Genome Initiative (WSGI) Catalyst Research Grant, PI: K. V. Krutovsky, CoPIs: Nurul Islam-Faridi, C. Dana Nelson, 1 year, 9/1/2011-8/31/2012, $10,000; "High-throughput Sequencing of Laser Microscopy-captured Individual Loblolly Pine Chromosome 12". USDA NIFA Agriculture and Food Research Initiative (AFRI) Competitive Grants Program, Climate Change Program 1: Regional Approaches to Climate Change, Program Area Code – A3101, #2011-68002-30185, PI: Timothy Martin, CoPI: Robert Abt, D. Adams, G. Boyd, Ryan Boyles, Harold Burkhart, Tom Byram, Douglas Carter, Wendell Cropper, Frederick
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Cubbage, John Davis, J.-C. Domec, Thomas Fox, Jianbang Gan, D. Grebner, Sabine Grunwald, Tom Hennessey, J. Holliday, William Hubbard, D. Huber, J. Idassi, F. Isik, Kurt Johnsen, Eric Jokela, James Jones, Michael Kane, John King, Konstantin V. Krutovsky (with $696,559 research budget allocated), Carol Loopstra, D. Markewitz, S. McKeand, Steve McNulty, M. Megalos, Martha Monroe, C. Dana Nelson, Asko Noormets, Gary Peter, G. Powell, R. Rubilar, Lisa Samuelson, John Seiler, Shobha Sriharan, Jose Stape, B. Strahm, Ge Sun, Eric Taylor, Robert Teskey, Jason Vogel, Ross Whetten, Rodney Will, D. Wilson, Randolph Wynne, 5 years, 3/1/2011-2/28/2016, $19,976,825; “Integrating research, education and extension for enhancing southern pine climate change mitigation and adaptation” (“PINEMAP”). United States Department of Agriculture (USDA) Cooperative State Research, Education, and Extension Service (CSREES), Food and Agricultural Sciences National Needs Graduate and Postgraduate Fellowship (NNF) Grants Program, # 2009·38420·05631, PI: K. V. Krutovsky, CoPIs: J. Gan, U. Kreuter, C. Loopstra, G. Moore, S. Popescu, W. Rogers, R. Washington-Allen, B. Wilcox, B. Wu, 5 years, January 2, 2010 - August 31, 2014, $349,200, “A Graduate Program in Forest Resource: Developing Integrated Expertise in Forest Resource, Management, Conservation and Restoration”. United States Department of Agriculture (USDA) Cooperative State Research, Education, and Extension Service (CSREES) Current Research Information System (CRIS), Texas Agricultural Experiment Station (TAES) McIntire-Stennis Project, TEX09122-0210381, PI: K. V. Krutovsky, 05/01/2007 - 04/30/2012, $132,800, “Comparative population genomics of drought resistance-related candidate genes in Southern pines”. United States Department of Agriculture (USDA) National Research Initiative Competitive Grant Program (NRICGP), Plant Genome, Bioinformatics, and Genetic Resources, # 2004- 35300-14670, PI: D. B. Neale, CoPIs: K. V. Krutovsky, Glenn T. Howe, and J. B. St. Clair, 3 years, July 2004 - July 2007, $ 490,000, "Association mapping of adaptive traits in Douglas- fir (Pseudotsuga menziesii Mirb. Franco)". USDA NRICGP, Plant Genome, # 1999-01417, PI: S. H. Strauss, CoPIs: K. V. Krutovskii, R. Mohamed, and J. S. Skinner, 2 years, September 1, 1999 - August 31, 2001, $ 200,000, "Genomic diversity of sequences homologous to disease resistance genes in Populus". USDA NRICGP, Entomology, # 1997-35302-4327, PI: R. R. James, CoPIs: K. V. Krutovskii and S. H. Strauss, 1 Year (August 1, 1997 - July 31, 1998), $ 110,000, "Genetic analysis of resistance to Bacillus thuringiensis in the cottonwood leaf beetle". American Philosophical Society, Michaux Fund Committee, # 231353269, PI: K. V. Krutovskii, 1 year, May 1, 1996 - April 30, 1997, $ 4,500, "Bulked segregant analysis of major genes affecting stem defect in Douglas-fir". Ministry of Science and Education of Russian Federation, Russian Fund of Fundamental Investigations (RFFI), # 96-04-49465, D. V. Politov and K. V. Krutovskii, 2 years (1996 - 1997), 1996 – 9,500,000 rubles, 1997 - ~6,000,000 rubles, "Genetic differentiation, evolution, and hybridization of white pines (Genus Pinus, Section Strobus)". G. Soros International Science Foundation, Research Grants, JEB100, D. V. Politov and K. V. Krutovskii, 1 year (January 1, 1995 - December 31, 1995), $ 6,500, "Mechanisms of genetic diversity maintenance in populations of conifers". Ministry of Science and Technological Policy of Russian Federation (Russia) and DAAD (Germany), International scientific projects, "EURASIA", D. V. Politov, F. Bergmann and K.
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V. Krutovskii, 1993-1995, 1993 – 5,100,000 rubles, 1994 – 6,000,000 rubles, 1995 – 8,000,000 rubles, "Population genetic structure of Eurasian forest trees". Alexander von Humboldt Foundation (Germany), Research Grants, IV-1-701-1, K. V. Krutovskii and F. Bergmann, ~2 years, April 1992 - October 1993, ~ 100,000 DM, "Population genetic structure, introgressive hybridization and phylogenetic relationships between Norway, Picea abies (L.) Karst., and Siberian, P. obovata Ledeb., spruce species". University of Kentucky College of Agriculture, Vice-President of Research and Graduate Studies, and Associate Dean for Research, D. B. Wagner, R. N. Muller and K. V. Krutovskii, 1 year, May - December 1991, $ 4,500, "Phylogenetic relationships among stone pine species (subsection Cembrae, section Strobus, subgenus Strobus)". Russian Academy of Science, Biological Science, K. V. Krutovskii, D. V. Politov and Yu. P. Altukhov, 1986-1991, "Phylogenetics, population genetic structure and mating system in conifers".
GRADUATE STUDENTS TRAINED Total: 9 as a chairperson, and 11 as a committee member. TAMU since 2005: Chhatre, Vikram – chair (graduated 2013) Islam, Habibul – chair (present) Koralewski, Tomasz – chair (graduated 2010) Lu, Mengmeng – chair (present) Choi, Jungwoo – committee member (graduated 2009) Deitz, Kevin – committee member (graduated 2011) Hawkins, Angela – committee member (present) Johnson, Jeremy – committee member (present) Palle, Sreenath – committee member (graduated 2010) Peteru, Swetha – committee member (present) Seeve, Candace – committee member (graduated 2010) Young, Carla – committee member (present) Venkatraman, Anand – committee member (graduated 2008)
University of Göttingen since 2012: Abdulai, Issaka – chair (graduated 2013) Porras, David – chair (graduated 2013) Cuervo; Laura – committee member (present) Euring, Dejuan – committee member (present) Ngoc Quynh, Nguyen – committee member (present)
PUBLICATIONS IN THE LAST 7 YEARS (Total number of publication is 215, including 60 in peer-reviewed refereed journals. Total number of citations is 1778 for 91 publications based on http://isiknowledge.com (the Thomson ISI Web of Science database), Google Scholar and «Publish or Perish» (http://www.harzing.com/pop.htm). The impact factor (the average number of citations per paper) is 20. The h-index equals 25. Due to different name spellings in early publications the
8 Krutovsky / CV 2012 search for the papers should be done using the following name spellings: “Krutovsky” or “Krutovskii” or “Крутовский”.)
Refereed
1. Krutovsky, K.V., I.N. Tretyakova, N.V. Oreshkova, M.E. Pak, O.V. Kvitko, and E.A. Vaganov, 2014 Somaclonal variation of haploid in vitro tissue culture obtained from Siberian larch (Larix sibirica Ledeb.) megagametophytes for whole genome de novo sequencing. In Vitro Cellular and Developmental Biology – Plant (in press) 2. Koralewski, T.E., Brooks, J.E. and K.V. Krutovsky, 2013 Molecular evolution of drought tolerance and wood strength related candidate genes in loblolly pine (Pinus taeda L.). Silvae Genetica (in press) 3. Chhatre, V., T. Byram, D.B. Neale, J.L. Wegrzyn, and K.V. Krutovsky, 2013 Genetic structure and association mapping of adaptive and selective traits in the East Texas loblolly pine (Pinus taeda L.) breeding populations. Tree Genetics and Genomes 9(5): 1161-1178. 4. Krutovsky, K.V., J. Burczyk, I. Chybicki, R. Finkeldey, T. Pyhäjärvi, J.J. Robledo- Arnuncio, 2012 Gene flow, spatial structure, local adaptation and assisted migration in trees, pp. 71-116, Ch. 4 in Genomics of Tree Crops, edited by R.J. Schnell and P.M. Priyadarshan. Springer Science, Inc. 5. Koralewski, T.E., and K.V. Krutovsky, 2011 Evolution of exon-intron structure and alternative splicing. PLoS One 6(3): e18055. doi:10.1371/journal.pone.0018055. 6. Echt, C.S., S. Saha, K.V. Krutovsky, K. Wimalanathan, J.E. Erpelding, C. Liang and C.D. Nelson, 2011 An annotated genetic map of loblolly pine based on microsatellite and cDNA markers. BMC Genetics 2011, 12:17doi:10.1186/1471-2156-12-17 (http://www.biomedcentral.com/1471-2156/12/17/abstract) 7. Ritland, K., K. Krutovsky, Y. Tsumura, B. Pelgas, N. Isabel and J. Bousquet, 2011 Genetic mapping in conifers, pp. 196-238, Ch. 5 in Genetics, Genomics and Breeding of Conifers, edited by C. Plomion, J. Bousquet and C. Kole. CRC Press, Science Publishers, Inc., Enfield, New Hampshire. 8. González-Martínez, S.C., S. Dillon, P.H. Garnier-Géré, K.V. Krutovsky, R. Alía, C. Burgarella, A.J. Eckert, M.R. Garcia, D. Grivet, M. Heuertz, J.P. Jaramillo-Correa, M. Lascoux, D.B. Neale, O. Savolainen, Y. Tsumura and G.G. Vendramin, 2011 Patterns of nucleotide diversity and association mapping, pp. 239-275, Ch. 6 in Genetics, Genomics and Breeding of Conifers, edited by C. Plomion, J. Bousquet and C. Kole. CRC Press, Science Publishers, Inc., Enfield, New Hampshire. 9. Tarakanov, V.V., K.V. Krutovsky, J. Turok, 2010 Problems of Forest Genetic Resources Conservation in Siberia considering global climate change and increasing antropogenic effects. Contemporary Problems of Ecology 3(6): 707-714. 10. Krutovsky, K.V., J.B. St.Clair, R. Saich, V.D. Hipkins and D.B. Neale, 2009 Estimation of population structure in coastal Douglas-fir [Pseudotsuga menziesii (Mirb.) Franco var. menziesii] using allozyme and microsatellite markers. Tree Genetics and Genomes 5(4): 641–658.
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11. Eckert, A.J., A.D. Bower, J.L. Wegrzyn, B. Pande, K.D. Jermstad, K.V. Krutovsky, J.B. St. Clair and D.B. Neale, 2009 Association genetics of coastal Douglas-fir (Pseudotsuga menziesii var. menziesii, Pinaceae). I. Cold-hardiness related traits. Genetics 182: 1289- 1302. 12. Eckert, A.J., J.L. Wegrzyn, B. Pande, K.D. Jermstad, J.M. Lee, J.D. Liechty, B.R. Tearse, K.V. Krutovsky and D.B. Neale, 2009 Multilocus patterns of nucleotide diversity and divergence reveal positive selection at candidate genes related to cold-hardiness in coastal Douglas-fir (Pseudotsuga menziesii var. menziesii). Genetics 183: 289-298. 13. Carlson, J.E., A. Traore, H.A. Agrama and K.V. Krutovsky, 2007 Douglas-fir, pp. 199-210, Ch. 7 in Genome Mapping and Molecular Breeding in Plants, Forest Trees Vol. 7, edited by C. Kole. Springer, Berlin, Heidelberg, New York, Tokyo. 14. Krutovsky, K.V., C.G. Elsik, M. Matvienko, A. Kozik and D.B. Neale, 2006 Conserved Ortholog Sets in forest trees. Tree Genetics and Genomes 3(1): 61–70. 15. Krutovsky, K.V. 2006 From Population Genetics to Population Genomics of Forest Trees: Integrated Population Genomics Approach. Russian Journal of Genetics 42(10): 1088– 1100. (Springer, http://www.springerlink.com/content/1608-3369) 16. Jermstad, K.D., L.A. Sheppard, B.B. Kinloch, A. Delfino-Mix, E.S. Ersoz, K.V. Krutovsky and D.B. Neale, 2006 Isolation of a conserved full-length CC-NBS-LRR resistance gene candidate from sugar pine. Tree Genetics and Genomes 2(2): 76–85. 17. González-Martínez, S.C., K.V. Krutovsky and D.B. Neale, 2006 Forest tree population genomics and adaptive evolution. New Phytologist 170(2): 227–238. 18. Krutovsky, K.V., and D.B. Neale, 2005 Nucleotide diversity and linkage disequilibrium in cold-hardiness and wood quality-related candidate genes in Douglas-fir. Genetics 171(4): 2029–2041. 19. Wheeler, N.C., K.D. Jermstad, K.V. Krutovsky, S.N. Aitken, G.T. Howe, J. Krakowski and D.B. Neale, 2005 Mapping of quantitative trait loci controlling adaptive traits in coastal Douglas-Fir. IV. Cold-hardiness QTL verification and candidate gene mapping. Molecular Breeding 15: 145–156. 20. Krutovsky, K.V., and D.B. Neale, 2005 Forest genomics and new molecular genetic approaches to measuring and conserving adaptive genetic diversity in forest trees, pp. 369- 390 in Conservation and Management of Forest Genetic Resources in Europe, edited by Th. Geburek and J. Turok. Arbora Publishers, Zvolen. 21. Krutovsky, K.V., M. Troggio, G.R. Brown, K.D. Jermstad and D.B. Neale, 2004 Comparative mapping in the Pinaceae. Genetics 168(1): 447–461. 22. Neale, D.B., and K.V. Krutovsky, 2004 Comparative Genetic Mapping in Trees: The Group of Conifers, pp. 267–277 in Biotechnology in Agriculture and Forestry: Molecular Marker Systems, edited by H. Lörz and G. Wenzel. Springer-Verlag, Berlin, Heidelberg. 23. Schnabel, A., and K. V. Krutovskii, 2004 Conservation genetics and evolutionary history of Gleditsia caspica: inferences from allozyme diversity in populations from Azerbaijan. Conservation Genetics 5(2): 195–204.
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24. Slavov, G.T., G.T. Howe, I. Yakovlev, K.J. Edwards, K.V. Krutovskii, G.A. Tuskan, J.E. Carlson, S.H. Strauss and W.T. Adams, 2004 Highly variable SSR markers in Douglas-fir: Mendelian inheritance and map locations. Theor. Appl. Genet. 108: 873–880. 25. Ledig, F.T., P.D. Hodgskiss, K.V. Krutovskii, D.B. Neale and T. Eguiluz-Piedra, 2004 Relationships among the spruces (Picea, Pinaceae) of Southwestern North America. Systematic Botany 29(2): 275–295.
Proceedings
26. Krutovsky, K.V., I.V. Chubugina, N.V. Oreshkova, I. N. Tretyakova, T.V. Tyazhelova, E.A. Vaganov, 2012. The Siberian larch complete de novo genome sequencing project at the Siberian Federal University Genome Research Center. In: Proceedings of the 2nd International Conference “Plant Genetics, Genomics, and Biotechnology”, July 30 - August 3, 2012, Irkutsk, Russia, p. 41 (http://conf.nsc.ru/files/conferences/plantgen2012/136010/eAbstractBook%20PlantGen2012.pdf). 27. Chubugina, I.V., K.V. Krutovsky, V.V. Vaganov, V.V. Soldatov, K.O. Deych, and R. Finkeldey, 2012. Development of method for the identification of timber origin using genome sequence data. In: Proceedings International Conference “Renewable Forest Resources: innovative development in forestry”, June 6-8, 2012. Saint-Petersburg, Russia, pp. 20-23 (http://onlinereg.ru/RR2012/). 28. Chhatre, V.E., T.D. Byram, D.B. Neale, J.L. Wegrzyn, and K.V. Krutovsky, 2011. Association mapping of adaptive and breeding traits in East Texas Loblolly Pine (Pinus taeda L.) breeding populations using high-density SNP genotyping. In: Proceedings 31st Southern Forest Tree Improvement Conference, Edited by C. Dana Nelson, Randall J. Rousseau and Cetin Yuceer, pp. 19-22, June 13-16, 2011. Biloxi, MS, USA (http://www.sftic.org/f/SFTIC%2031%20Proceedings-2011.pdf) 29. Echt, C., R. Cronn, N. Islam-Faridi, K.V. Krutovsky, C. Liang, C.A. Loopstra, C.D. Nelson, and D.G. Peterson, 2009 Sequencing and Mapping the Gene Space of the Southern Pines. In: Proceedings 30th Southern Forest Tree Improvement Conference, Edited by Amy Brunner, p. 25, May 31 – June 3, 2009. Blacksburg, VA, USA (http://www.rngr.net/publications/tree-improvement-proceedings/sftic or http://www.sftic.org/f/Proceed_30th_Sou_Tree%20Improv.%20Conf_2009.pdf) 30. Krutovsky, K.V., J.B. St. Clair, R. Saich, V. D. Hipkins, and D. B. Neale, 2007. Estimation of population structure in the coastal Douglas-fir association mapping study. Tree Improvement in North America: Past, Present, Future. In: Proceedings 29th Southern Forest Tree Improvement Conference (SFTIC) and Western Forest Genetics Association (WFGA) Joint Meeting, Edited by T. D. Byram and Marc L. Rust, p. 147, June 19-22, 2007, the Hotel Galvez, Galveston, Texas, USA (http://tfsweb.tamu.edu/uploadedFiles/TreeConference/Krutovsky-et-al- 2007-SFTIC-WFGA-abstract-talk.pdf; http://www.rngr.net/publications/tree-improvement- proceedings/sftic/2007 or http://www.sftic.org/f/29th%20Southern%20Tree%20Improvement%20Conference%20%282007%29.pdf) 31. Pande, B., B. Tearse, J. Wegrzyn and J. Lee, A. Eckert, K. Krutovsky, and D. Neale, 2007. Nucleotide diversity and neutrality testing in genes involved in adaptation in Douglas-fir. Tree Improvement in North America: Past, Present, Future. In: Proceedings 29th Southern Forest Tree Improvement Conference (SFTIC) and Western Forest Genetics Association
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(WFGA) Joint Meeting, Edited by T. D. Byram and Marc L. Rust, p. 150, June 19-22, 2007, the Hotel Galvez, Galveston, Texas, USA (http://tfsweb.tamu.edu/uploadedFiles/TreeConference/Pande_WFGA_2007(1).pdf; http://www.rngr.net/publications/tree-improvement-proceedings/sftic/2007 or http://www.sftic.org/f/29th%20Southern%20Tree%20Improvement%20Conference%20%2 82007%29.pdf) 32. Koralewski, T.E., L.A. Zhivotovsky, and K.V. Krutovsky, 2007. Metabolomics complexity in forest trees expected from inron-exon gene structure (poster). Tree Improvement in North America: Past, Present, Future. In: Proceedings 29th Southern Forest Tree Improvement Conference (SFTIC) and Western Forest Genetics Association (WFGA) Joint Meeting, Edited by T. D. Byram and Marc L. Rust, p. 125, June 19-22, 2007, the Hotel Galvez, Galveston, Texas, USA (http://tfsweb.tamu.edu/uploadedFiles/TreeConference/Koralewski- et-al-2007-SFTIC-WFGA-abstract-poster.pdf; http://www.rngr.net/publications/tree- improvement-proceedings/sftic/2007 or http://www.sftic.org/f/29th%20Southern%20Tree%20Improvement%20Conference%20%2 82007%29.pdf) 33. Politov, D.V., and K.V. Krutovsky, 2004. Phylogenetics, genogeography and hybridization of five-needle pines in Russia and neighboring countries, pp. 85-97 in Breeding and genetic resources of five-needle pines: growth, adaptability, and pest resistance, July 24–25 2001, Medford, OR, USA, IUFRO Working Party 2.02.15, edited by R. Sniezko, S. Samman, S. Schlarbaum and H. Kriebel. Proceedings RMRS-P-32. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station (http://www.fs.fed.us/rm/pubs/rmrs_p032.html)
Presentations and abstracts
34. Krutovsky, K.V. 2013. Innovative approaches for de novo sequencing of large complex genomes. Scientific Training School "Genomic Sequencing and Data Analysis". July 19-21, 2013, Novosibirsk, Russia (http://conf.nsc.ru/seq2013) 35. Krutovsky, K.V. 2013. Targeted and complete genome de novo sequencing in conifer trees with giant and complex genomes. Abstracts of the International Conference “High- Throughput Sequencing in Genomics” (HSG-2013), July 21-25, 2013, Novosibirsk, Russia, p. 32 (http://conf.nsc.ru/HSG/scientific_program; http://conf.nsc.ru/files/conferences/HSG/183699/%D1%82%D0%B5%D0%B7%D0%B8% D1%81%D1%8B%20HSG_end.pdf) 36. Krutovsky, K.V. 2013. The Pinus sibirica and Larix sibirica genome projects. The 2013 Conifer Genome Sequencing Summit in Björkliden, Lapland, Sweden, June 14-17, 2013 (http://www.upsc.se/about-upsc/other-information/events/4368-the-2013-conifer-genome- sequencing-summit.html) 37. Krutovsky, K.V. 2013. High-throughput genome-wide genotyping and targeted sequencing in loblolly pine (Pinus taeda L.). Second meeting of the Alpine Forest Genomics Network (AForGeN), Neukirchen am Großvenediger, Salzburg, Austria, June 7-9, 2013 (http://alpforests-gen.fem-environment.eu/news/8/123/Second-Annual-Meeting) 38. Lu, M., C. Loopstra, and K.V. Krutovsky, 2013. Genome Target Sequencing in Loblolly Pine (Pinus taeda L.) using Different Multiplexing Strategies. The Molecular and
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Environmental Plant Sciences (MEPS) symposium “Plant signaling systems – from cells to environment”, May 15-16, 2013, Texas A&M University, College Station, TX; 2013 MEPS Symposium Abstracts, p. 14 (https://meps.tamu.edu/symposia/2013/2013%20MEPS%20Symposium%20Abstracts.pdf) 39. Lu, M., C. Loopstra, and K.V. Krutovsky, 2013. Genome Target Sequencing in Loblolly Pine (Pinus taeda L.) using Different Multiplexing Strategies. PINEMAP Project Annual Meeting April 24-26, 2013. UGA Hotel and Conference Center, Athens, GA 40. Vornam, B., K. Krutovsky, and R. Finkeldey, 2013. WP 5: Natural variability in maritime pine. Final Report at the the SUSTAINPINE final meeting, 17-19 April 2013, INRA-FCBA Campus, Cestas-Pierroton, France 41. Chhatre, V.E., M. Resende Jr., P.R. Munoz, G.F. Peter, J.M Davis, M. Kirst, C.S. Echt, K.V. Krutovsky, C. Dana Nelson, 2013. An Integrated Linkage Map of Loblolly Pine and its Application in QTL Mapping in a Multi-Parent, Pedigree-Structured Population. In: Plant & Animal Genome XXI. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, W289, p. , January 12-16, 2013. San Diego, CA, USA (http://pag13.mapyourshow.com/5_0/sessions/sessiondetails.cfm?ScheduledSessionID=1DAF) 42. Chhatre, V.E., T.D. Byram, D.B. Neale, J.L. Wegrzyn, and K.V. Krutovsky, 2013. Landscape Genomics of East Texas Loblolly Pine (Pinus taeda L.). In: Plant & Animal Genome XXI. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, P0759, p. , January 12-16, 2013. San Diego, CA, USA (http://pag13.mapyourshow.com/5_0/sessions/sessiondetails.cfm?ScheduledSessionID=18A9CFC6) 43. Lu, M., C. Loopstra, K.V. Krutovsky, 2013. Preliminary SNP Discovery in Loblolly Pine (Pinus taeda L.) Exome. In: Plant & Animal Genome XXI. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, P0459, p. , January 12-16, 2013. San Diego, CA, USA (http://pag13.mapyourshow.com/5_0/sessions/sessiondetails.cfm?ScheduledSessionID=1EA9CD) 44. Krutovsky, K.V. 2012. Forest ecogenomics and genomic selection for mitigating climate change and breeding resilient trees. Final Conference and Workshops of Noveltree Project. Tree Breeding, Genomics and Evolutionary Biology: New synergies to tackle the impact of climate change in the 21st century, 16-17 October 2012, Helsinki, Finland. Abstracts of conference, p. 66 (http://www.metla.fi/tapahtumat/2012/Noveltree/Book%20of%20Abstracts%20- %20Final%20Conference%20Noveltree.pdf) 45. Krutovsky, K.V. 2012. Forest Genomics for Mitigating Climate Change and Breeding Resilient Trees. Keynote presentation at the AdapCAR and IUFRO (WP 2.02.00) meeting 3-5 October 2012 in Riga, Latvia: Genetic aspects of adaptation and Mitigation: forest health, wood quality and biomass production (http://www.nordicforestresearch.org/adapcar/files/2012/10/Program-AdapCAR-IUFRO- Meeting.pdf). 46. Krutovsky, K.V., V. Chhatre, and T. Byram, 2012 How genomics can help restore the Lost Pines. Western Gulf Forest Tree Improvement Program (WGFTIP) Contact Representative’s Meeting, May 22-23, 2012, Bastrop, TX, USA.
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47. Chhatre, V., T. Byram, and K.V. Krutovsky, 2012 Evolutionary & population genetics of the Lost Pines: Lessons from history. Western Gulf Forest Tree Improvement Program (WGFTIP) Contact Representative’s Meeting, May 22-23, 2012, Bastrop, TX, USA. 48. Krutovsky, K.V., E.A. Vaganov, I.V. Chubugina, N.V. Oreshkova, I. N. Tretyakova, T.V. Tyazhelova, 2012. Complex genome sequencing: preliminary data of Siberian larch complete genome de novo sequencing. Microsymposium I: Computational and experimental genomics. The 8th International Conference on the Bioinformatics of Genome Regulation and Structure\Systems Biology, June 25-29, 2012, Novosibirsk, Russia, p. 53 (http://conf.nsc.ru/files/conferences/BGRSSB2012/130321/Program_BGRS_SB_24_06_12. pdf) 49. Krutovsky, K.V., T.E. Koralewski, 2012. Evolution of exon-intron gene structure and alternative splicing: what we can learn from completely sequenced genomes and predict for non-model species. The 8th International Conference on the Bioinformatics of Genome Regulation and Structure\Systems Biology, June 25-29, 2012, Novosibirsk, Russia, p. 171 (http://conf.nsc.ru/BGRSSB2012/en/scientific_program) 50. Krutovsky, K.V., 2012. Forest Genomics for Mitigating Climate Change and Breeding Resilient Trees. In: Plant & Animal Genome XX. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, W166, p. 144, January 14-18, 2012. San Diego, CA, USA (http://pag.confex.com/pag/xx/webprogram/Paper1651.html) 51. Krutovsky, K.V., I.N. Tretyakova, I.V. Chubugina, N.V. Oreshkova, C.S. Echt, N. Islam- Faridi, and C.D. Nelson, 2012. “Shrinking” the Giants: An innovative approach for de novo sequencing of conifer genomes. In: Plant & Animal Genome XX. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, W287, p. 153, January 14-18, 2012. San Diego, CA, USA (http://pag.confex.com/pag/xx/webprogram/Paper2763.html) 52. Chhatre, V., T. Byram, D.B. Neale, J.L. Wegrzyn, and K.V. Krutovsky, 2012. Genome Wide Analysis of Genetic Associations with Environmental Variables in East Texas Loblolly Pine (Pinus taeda L.). In: Plant & Animal Genome XX. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, P0513, p. 233, January 14-18, 2012. San Diego, CA, USA (http://pag.confex.com/pag/xx/webprogram/Paper3066.html) 53. Chhatre, V.E., T.D. Byram, D.B. Neale, J.L. Wegrzyn, and K.V. Krutovsky, 2011. Association mapping of adaptive and breeding traits in East Texas Loblolly Pine (Pinus taeda L.) breeding populations using high-density SNP genotyping. In: Proceedings 31st Southern Forest Tree Improvement Conference, June 13-16, 2011. Biloxi, MS, USA (http://www.rngr.net/publications/tree-improvement-proceedings/sftic) 54. Chhatre, V.E., T.D. Byram, D.B. Neale, J.L. Wegrzyn, and K. V. Krutovsky, 2011. Linkage Disequilibrium and Association Mapping of Adaptive and Selected Traits in Breeding Populations of East Texas Loblolly Pine. International Symposium: Genomics-based breeding in forestry. June 22-24, 2011, Davis, CA, USA. 55. Chhatre, V., T. Byram, D.B. Neale, J.L. Wegrzyn and K.V. Krutovsky 2011 Genetic structure and association mapping of adaptive and selected traits in East Texas loblolly pine breeding populations. National Association of Plant Breeding Annual Meeting, 5th Annual Plant Breeding Coordinating Committee Meeting, 1st Annual National Association of Plant
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Breeders Meeting, Texas A&M University, College Station, Texas, May 23-25, 2011, Abstracts Guide, p. 11 (http://www.plantbreeding.org/napb/Meetings/2011/Abstracts11e05dsSJ.pdf) 56. Chhatre, V., T. Byram, D.B. Neale, J.L. Wegrzyn and K.V. Krutovsky 2011 Association Mapping Analysis of Economic Traits in East Texas Loblolly Pine (Pinus taeda L.). Western Gulf Forest Tree Improvement Program (WGFTIP) Contact Representative’s Meeting, May 10-11, 2011, Jasper, TX, USA. 57. Chhatre, V., T. Byram, D.B. Neale, J.L. Wegrzyn and K.V. Krutovsky 2011 Population Structure And Association Mapping Analysis Of Adaptive Traits In East Texas Loblolly Pine (Pinus taeda L.). In: Plant & Animal Genome XIX. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, P189, p. 193, January 15-19, 2011. San Diego, CA, USA (http://www.intl- pag.org/19/abstracts/P03e_PAGXIX_189.html) 58. Islam-Faridi N., C.D. Nelson, D.G. Peterson and K.V. Krutovsky 2011 Advanced Reference Karyotype For Genus Pinus. In: Plant & Animal Genome XIX. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, P494, p. 226, January 15-19, 2011. San Diego, CA, USA (http://www.intl- pag.org/19/abstracts/P05j_PAGXIX_494.html) 59. Chhatre, V., T. Byram, D.B. Neale, J.L. Wegrzyn and K.V. Krutovsky 2011 High-Density SNP Genotyping Of East Texas Loblolly Pine (Pinus taeda L.). In: Plant & Animal Genome XIX. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, W238, p. 139, January 15-19, 2011. San Diego, CA, USA (http://www.intl-pag.org/19/abstracts/W35_PAGXIX_238.html) 60. Krutovsky, K.V., 2010 What can we learn about evolutionary responses to environmental change from ecological population genomics? The keynote speaker at the conference "Forest Ecosystem Genomics and Adaptation", June 9-11, 2010, Spain, Madrid (http://www.ecosystemgenomics2010.fgua.es//invi/invi.cfm). A joint event co-organized by the research partners in the Network of Excellence EVOLTREE (www.evoltree.eu), funded by the EC 6th Framework Programme for Research. 61. Krutovsky, K.V., V. Chhatre and T. Byram, 2010 Genetic Structure in Loblolly Pine Breeding Populations. Western Gulf Forest Tree Improvement Program (WGFTIP) Contact Representative’s Meeting, May 18-19, 2010, Lake De Gray State Park Lodge, Arkadelphia, AR, USA. 62. Koralewski, T.E., and K.V. Krutovsky, 2010 Evolution of intron-exon structure and alternative splicing: what did we learn from genomes of completely sequenced species and what can we predict for insufficiently studied species? 11th Annual Ecological Integration Symposium: Understanding Patterns and Processes Across Scales at Texas A&M University, March 26-27, 2010, College Station, TX, USA (http://theeis.tamu.edu/old/EIS_Student_Symposium_Schedule.pdf) 63. Krutovsky, K.V., 2009 Population genomics and forest genetic conservation. In: Forest Genetics Workshop “Opportunities, challenges and limitations of genomics-based technologies in forest tree breeding and forest genetics”, Program and Abstracts Guide, October 7-9, 2009, Freiburg, Germany (http://www.efi.int/portal/news___events/events/extra/2009/workshop_forest_genetics/programme/)
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64. Echt, C., R. Cronn, N. Islam-Faridi, K.V. Krutovsky, C. Liang, C.A. Loopstra, C.D. Nelson, D.G. Peterson, 2009 Sequencing and Mapping the Gene Space of the Southern Pines. In: Proceedings 30th Southern Forest Tree Improvement Conference, Edited by Amy Brunner, p. 25, May 31 – June 3, 2009. Blacksburg, VA, USA (http://www.rngr.net/publications/tree- improvement-proceedings/sftic) 65. Eckert, A.J., J.L. Wegrzyn, A.D. Bower, B. Pande, K.D Jermstad, J.M. Lee, J.D. Liechty, B.R. Tearse, K.V. Krutovsky, J. Bradley St. Clair and D.B. Neale, 2009 Patterns of selection and genotype-phenotype associations across candidate genes for cold-hardiness in Douglas- fir (Pseudotsuga menziesii, Pinaceae). In: Plant & Animal Genome XVII. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, p. 69, January 10-14, 2009. San Diego, CA, USA (http://www.intl- pag.org/17/abstracts/P03e_PAGXVII_166.html) 66. Krutovsky, K.V., 2008 Roadmap to complete pine genome sequencing: Good, Bad and Ugly. Invited presentation at the Plant Genetics Colloquium, Dec 18, 2008, Georg August University of Gottingen, Germany (http://www.uni-goettingen.de/de/3218.html?cid=13986; http://www.uni- goettingen.de/de/document/download/6b45ca6bef8eedc7deddc159c85c2b6a.pdf/Terminkale nder_WS_2008_09.pdf) 67. Eckert, A.J., J.L. Wegrzyn, B. Pande, B.R. Tearse, K.D. Jermstad, J.M. Lee, J.D. Liechty, K.V. Krutovsky and D.B. Neale, 2008 Patterns of nucleotide diversity and selective neutrality across 125 candidate genes putatively associated with cold tolerance in Douglas fir (Pseudotsuga menziesii, Pinaceae). In: Adaptation, Breeding and Conservation in the Era of Forest Tree Genomics and Environmental Change. The joint conference of IUFRO Working Groups 2.04.01 (Population, ecological and conservation genetics) and 2.04.10 (Genomics), along with the Canadian Tree Improvement Association (CTIA), Final Program and Abstracts Guide, p. 122, August 24-29, 2008. Québec City, Canada (http://www.iufro-ctia2008.ca/fileadmin/Documents/IUFRO-CTIA_2008_Program.pdf) 68. Eckert, A.J., J.L. Wegrzyn, B. Pande, K.D. Jermstad, J.M. Lee, J.D. Liechty, B.R. Tearse, K.V. Krutovsky, D.B. Neale, 2008 Signatures of natural selection across cold-hardiness candidate genes in Douglas-fir (Pseudotsuga menziesii). International Workshop “Population, Quantitative and Comparative Genomics of Adaptation in Forest Trees”. Centro di Ecologia Alpina, Monte Bondone, Trento, Italy. August 3-5, 2008. 69. Koralewski, T.E., J.E. Brooks and K.V. Krutovsky, 2008 Molecular ecology and evolution of drought resistance related genes in four Southern pines from subsection Australes. In: Metacommunities: Connectivity, Dispersal and Invasion. 9th Ecological Integration Symposium, Final Program and Abstracts Guide, p. 54, March 28-29, 2008. Texas A&M University, College Station, TX, USA (http://wfscnet.tamu.edu/eis/EIS%202008.pdf) 70. Echt, C.S., R. Whetten, C.D. Nelson, D.G. Peterson, K.V. Krutovsky, C. Yuceer, J.F.D. Dean, 2008 A proposal for new pine genetic resources for mapping and sequence assembly. In: Plant & Animal Genome XVI. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, p. 244, January 12-16, 2008. San Diego, CA, USA (http://www.intl-pag.org/16/abstracts/PAG16_P05j_503.html)
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71. Nelson, C.D., D.G. Peterson, C.S. Echt, R. Whetten, K.V. Krutovsky, C. Yuceer, J.F.D. Dean, 2008 Pine physical mapping and genome sequencing. In: Plant & Animal Genome XVI. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, p. 245, January 12-16, 2008. San Diego, CA, USA (http://www.intl-pag.org/16/abstracts/PAG16_P05j_505.html) 72. Krutovsky, K.V., and J.E. Brooks, 2008 Efficiency of in silico SNP discovery in Loblolly Pine. In: Plant & Animal Genome XVI. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, p. 245, January 12-16, 2008. San Diego, CA, USA (http://www.intl-pag.org/16/abstracts/PAG16_P05j_507.html) 73. Koralewski, T.E., J.E. Brooks and K.V. Krutovsky, 2008 Comparative nucleotide sequence analysis in four Southern pines from Subsection Australes. In: Plant & Animal Genome XVI. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, p. 247, January 12-16, 2008. San Diego, CA, USA (http://www.intl-pag.org/16/abstracts/PAG16_P05j_514.html) 74. Neale, D.B., B. Pande, A.J. Eckert, B.R. Tearse, J.L. Wegrzyn, J.M. Lee, K.V. Krutovsky and J.B. St. Clair, 2008 Genomics of adaptation in Douglas-fir. In: Plant & Animal Genome XVI. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, p. 7, January 12-16, 2008. San Diego, CA, USA (http://www.intl-pag.org/16/abstracts/PAG16_W02_8.html) 75. Pande, B., A.J. Eckert, B.R. Tearse, J.L. Wegrzyn, J.M. Lee, K.V. Krutovsky, J.B. St. Clair and D.B. Neale, 2008 Association genetics of 100 candidate genes involved in adaptation- related cold tolerance in Douglas-fir. In: Plant & Animal Genome XVI. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, p. 46, January 12-16, 2008. San Diego, CA, USA (http://www.intl- pag.org/16/abstracts/PAG16_W24_193.html) 76. Koralewski, T.E., L.A. Zhivotovsky, K.V. Krutovsky, 2008 Proteomic complexity expected from intron-exon gene structure due to alternative splicing. Texas A&M AgriLife Conference, Texas A&M University, January 7-11, 2008 (http://agnews.tamu.edu/showstory.php?id=285) 77. Krutovsky, K. V., 2007 Genomic studies in forest genetics and breeding. Conservation of Forest Genetic Resources in Siberia (CFGRS-2007). The 1st International Conference, July 30 - August 4, 2007, Barnaul, Russia (http://sibwood.ssga.ru/tezisy_en/2/2.htm) 78. Krutovsky, K. V. 2007 Population genomics and tree improvement. Western Gulf Forest Tree Improvement Program (WGFTIP) Contact Representative’s Meeting, May 8–9, 2007, Beavers Bend State Park, Broken Bow, Oklahoma, USA 79. Pande, B., K. V. Krutovsky, K. D. Jermstad, G. T. Howe, J. B. St. Clair, N. C. Wheeler and D. B. Neale 2007 Candidate gene-based association genetics in Douglas-fir (Poster #502). In: Plant & Animal Genome XV. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, p. 227, January 13-17, 2007. San Diego, CA, USA (http://www.intl-pag.org/15/abstracts/PAG15_P05j_502.html) 80. Vendramin G., D. V. Politov, F. Gugerli, R. Finkeldey, R. Petit, L. Paule, S. N. Goroshkevich, S. V. Shestakov, V. V. Potenko, N. Oreshkova, V. L. Semerikov, B. R.Raevsky, Y. M. Konstantinov, S. Lukianov, M. D. Kuchma and K. V. Krutovsky 2006
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Genetic variation patterns and sustainable management of genetic resources of Eurasian conifers (poster). European Forest-Based Sector Technology Platform (FTP) 3rd Conference: Speed up innovation in the Forest Based Sector. Lahti, Finland, November 22-23, 2006 (http://www.forestplatform.org/easydata/customers/ftp/files/Lahti_posters/Genetic_variation _patterns_of_Eurasian_conifers.pdf) 81. Pande, B., K. V. Krutovsky, D. L. Howe, K. D. Jermstad, V. D. Hipkins, G. T. Howe, J. B. St. Clair, N. C. Wheeler, and D. B. Neale 2006 Association genetics for adaptive traits in Douglas-fir. IUFRO Working Groups Population, ecological and conservation genetics 2.04.01 and Genomics 2.04.10 Conference on Population Genetics and Genomics of Forest Trees: from Gene Function to Evolutionary Dynamics and Conservation. October 1-6, 2006. Madrid, Spain (http://www.genfor2006.fgua.es) 82. Krutovsky, K.V., J. B. St. Clair, R. Saich, V. D. Hipkins and D. B. Neale 2006 Estimation of population structure in the Douglas-fir association mapping study. In: Plant & Animal Genome XIV. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, p. 34, January 14-18, 2006. San Diego, CA, USA (http://www.intl-pag.org/14/abstracts/PAG14_W119.html) 83. Pande, B., K. V. Krutovsky, K. D. Jermstad, G. T. Howe, J. B. St. Clair, N. C. Wheeler and D. B. Neale 2006 Association genetics for adaptive traits in Douglas-fir. In: Plant & Animal Genome XIV. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, p. 35, January 14-18, 2006. San Diego, CA, USA (http://www.intl-pag.org/14/abstracts/PAG14_W120.html) 84. Pande, B., K. V. Krutovsky, K. D. Jermstad, G. T. Howe, J. B. St. Clair, N. C. Wheeler and D. B. Neale 2006 Association genetics for adaptive traits in Douglas-fir (Poster #510). In: Plant & Animal Genome XIV. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, p. 229, January 14-18, 2006. San Diego, CA, USA (http://www.intl-pag.org/14/abstracts/PAG14_P510.html) 85. Krutovsky, K.V., 2005 Genomic approaches to study adaptive traits in conifers. Invited presentation at the Plant Genetics Colloquium, Dec 6, 2005, Georg August University of Gottingen, Germany (http://www.uni-gottingen.de/de/84033.html?cid=8681) 86. Neale, D. B., E. Ersoz, K. V. Krutovsky, S.C. Gonzalez-Martinez, N.C. Wheeler 2005 Population and evolutionary genomics of adaptation in forest trees. Page 60. XXII IUFRO World Congress: Forests in the Balance: Linking Tradition and Technology, August 8-13, 2005, Brisbane, Australia. The International Forestry Review (Abstracts). John L. Innes, Ivor K. Edwards and David J. Wilford (editors). Published by the Commonwealth Forestry Association (http://www.cfa-international.org/IFR_vol7(5)final_75dpi.pdf) 87. Howe, D. K., A. M. Brunner, M. Cherry, K. V. Krutovsky, D. B. Neale and G. T. Howe 2005 Identifying candidate genes associated with cold hardiness in coastal Douglas-fir using DNA microarrays. Western Forest Genetics Association 50th Anniversary Meeting: Looking Back - Looking Ahead, Corvallis, Oregon, USA July 19-21, 2005 (http://www.fsl.orst.edu/wfga/index_files/2005_Program.pdf) 88. Jermstad, K., L. Sheppard, B. Kinloch, A. Delfino-Mix, E. Ersoz, K. Krutovsky and D. Neale 2005 A conserved CC-NBS-LRR resistance gene in sugar pine. Western Forest
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Genetics Association 50th Anniversary Meeting: Looking Back - Looking Ahead, Corvallis, Oregon, USA July 19-21, 2005 (http://www.fsl.orst.edu/wfga/index_files/2005_Program.pdf) 89. Pande, B., G.T. Howe, J.B. St. Clair, N. Wheeler, K.V. Krutovsky and D.B. Neale 2005 Mapping adaptive traits in Douglas-fir using association genetics. Western Forest Genetics Association 50th Anniversary Meeting: Looking Back - Looking Ahead, Corvallis, Oregon, USA July 19-21, 2005 (http://www.fsl.orst.edu/wfga/index_files/2005_Program.pdf) 90. Pande, B., K. V. Krutovsky, K. D. Jermstad, G. T. Howe, J. B. St. Clair, N. C. Wheeler and D. B. Neale 2005 Douglas-fir association genetics: Finding genes for adaptive traits in populations. Douglas-fir Genome Project Meeting, July 18, 2005, Oregon State University, Corvallis, OR, USA 91. Krutovsky, K. V. and D. B. Neale 2005 Discovery of genes controlling adaptive traits in Douglas-fir. Agenda2020 Meeting, May 4-5, 2005, Sacramento, CA, USA 92. Krutovsky, K. V., B. Pande, K. D. Jermstad, G. T. Howe, J. B. St. Clair, N. C. Wheeler and D. B. Neale, 2005 Nucleotide diversity and linkage disequilibrium in adaptive trait related candidate genes in Douglas-fir. In: Plant & Animal Genome XIII. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, p. 28, January 15-19, 2005. San Diego, CA, USA (http://www.intl- pag.org/13/abstracts/PAG13_W110.html) 93. Krutovsky, K. V., M. Matvienko, A. Kozik and D. B. Neale, 2005 Identification of candidate genes for Conserved Ortholog Set in conifers (Poster #517). In: Plant & Animal Genome XIII. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, p. 200, January 15-19, 2005. San Diego, CA, USA (http://www.intl-pag.org/13/abstracts/PAG13_P517.html) 94. Krutovsky, K. V., K. D. Jermstad, G. T. Howe, J. B. St. Clair, N. C. Wheeler and D. B. Neale, 2004 Population genomics of adaptive traits in Douglas-fir: Nucleotide diversity and linkage disequilibrium in cold-hardiness related candidate genes. The International Union of Forest Genetics Research Organizations conference Genomics, Population, Evolution and Ecological Genetics. Asilomar Conference Grounds, California, USA, September 13–17, 2004 (http://dendrome.ucdavis.edu/asilomar/Program.pdf) 95. Tani, N., T. Ujino-Ihara, T. Kado, G. Brown, K. Krutovsky, D. Neale and Y. Tsumura, 2004 Gene genealogical study throughout coniferous species using EST primers amplifying both sugi and loblolly pine. The International Union of Forest Genetics Research Organizations conference Genomics, Population, Evolution and Ecological Genetics. Asilomar Conference Grounds, California, USA, September 13–17, 2004 (http://dendrome.ucdavis.edu/asilomar/Program.pdf) 96. Wheeler, N. C., K. D. Jermstad, K. V. Krutovsky, S. N. Aitken, G. T. Howe, J. Krakowski and D. B. Neale, 2004 Mapping of quantitative trait loci controlling adaptive traits in coastal Douglas-fir: cold-hardiness QTL verification and candidate gene mapping. The International Union of Forest Genetics Research Organizations conference Genomics, Population, Evolution and Ecological Genetics. Asilomar Conference Grounds, California, USA, September 13–17, 2004 (http://dendrome.ucdavis.edu/asilomar/Program.pdf) 97. Jermstad, K., L. Sheppard, E. Ersoz, K. Krutovsky and D. Neale, 2004 Cloning-by- homology of a CC-NBS-LRR resistance-like gene in sugar pine (Pinus lambertiana). The
19 Krutovsky / CV 2012
International Union of Forest Genetics Research Organizations conference Genomics, Population, Evolution and Ecological Genetics. Asilomar Conference Grounds, California, USA, September 13–17, 2004 (http://dendrome.ucdavis.edu/asilomar/Program.pdf) 98. Krutovskii, K. V., K. D. Jermstad, N. C. Wheeler, G. T. Howe, J. B. St. Clair and D. B. Neale, 2004 Gene discovery for adaptive traits in Douglas-fir. In: Plant & Animal Genome XII. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, p. 26, January 10-14, 2004. San Diego, CA, USA (http://www.intl-pag.org/12/abstracts/W22_PAG12_83.html) 99. Krutovskii, K. V., K. D. Jermstad, N. C. Wheeler, G. T. Howe, J. B. St. Clair and D. B. Neale, 2004 Gene discovery for adaptive traits and candidate gene variation in Douglas fir (Poster #622).. In: Plant & Animal Genome XII. The International Conference on the Status of Plant and Animal Genome Research, Final Program and Abstracts Guide, p. 226, January 10-14, 2004. San Diego, CA, USA (http://www.intl- pag.org/12/abstracts/P5i_PAG12_622.html)
Others 100. Krutovsky K., Byram T., Whetten R., Wheeler N., Neale D., Lu M., Koralewski T., Loopstra C. PINEMAP + PineRefSeq = Future Forests. PINEMAP (Pine Integrated Network: Education, Mitigation, and Adaptation Project) Year 2 Annual Report | March 2012-February 2013 “Mapping the future of southern pine management in a changing world”. 2013. P. 26-27 (http://www.pinemap.org/reports/annual- reports/PINEMAP_Year_2_Annual_Report_FINAL.pdf) 101. Whetten R., Krutovsky K., Holliday J. Comparing Genotyping Technologies for Efficiency and Cost-effectiveness. PINEMAP (Pine Integrated Network: Education, Mitigation, and Adaptation Project) Year 2 Annual Report | March 2012-February 2013 “Mapping the future of southern pine management in a changing world”. 2013. P. 30-31 (http://www.pinemap.org/reports/annual- reports/PINEMAP_Year_2_Annual_Report_FINAL.pdf) 102. Whetten R., Krutovsky K., Holliday J. Comparing Genotyping Technologies for Efficiency and Cost-effectiveness. PINEMAP Press (the Pine Integrated Network: Education, Mitigation, and Adaptation Project newsletter). 2012. №1: P. 6 (http://www.pinemap.org/publications/quarterly-newsletter-pinemap- press/Issue_1_Fall_2012.pdf) 103. Tarakanov, V. V., K. V. Krutovsky and J. Turok, 2009 The 2nd International Conference on Forest Genetic Resources in Siberia (review). Bioversity Newsletter for Europe 39: 15 104. Zhivotovsky, L. A., and K. V. Krutovsky, 2008 Self-citation can inflate h-index. Scientometrics 76(2): 373-375 105. Krutovsky, K. V., and V. V. Tarakanov, 2007 The 1st International Conference on Conservation of Forest Genetic Resources in Siberia (review). Bioversity Newsletter for Europe 35: 12 106. Krutovsky, K. V. 2007, Book review: Molecular Ecology. Joanna R. Freeland. John Wiley & Sons, Ltd, November 2005, 400 pp. Ecological Engineering 30: 297–298
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107. Hipkins, V. D., and K. V. Krutovsky, 2005 Ponderosa Pine (Pinus ponderosa) Source Identification using Molecular Genetics. NFGEL Project #103. USDA Forest Service, National Forest Genetics Laboratory (NFGEL). Annual Report 2004–2005 (FY05) , Placerville, CA, pp. 4-71 (http://www.fs.fed.us/forestmanagement/documents/nfgel/annualreports/fy05.pdf) 108. Hipkins, V. D., and K. V. Krutovsky, 2005 Identification of Ten Unknown Seedlings as Pinus echinata (Shortleaf pine) or P. virginiana (Virginia pine) through Genetic Testing. NFGEL Project #168. USDA Forest Service, National Forest Genetics Laboratory (NFGEL). Annual Report 2004–2005 (FY05) , Placerville, CA, pp. 72-76 (http://www.fs.fed.us/forestmanagement/documents/nfgel/annualreports/fy05.pdf)
21 Ronald E. Lacey Department of Biological and Agricultural Engineering 302A Scoates Hall, 2117 TAMU College Station, Texas 77843-2117 Phone: 979-845-3967 Email: [email protected]
Education and Training University of Kentucky Agricultural Engineering PhD 1992 University of Kentucky Agricultural Engineering MS 1979 University of Kentucky Agricultural Engineering BS 1977 Professional Engineer, State of Texas, License Number 86580 Professional Experience 2004 – present Professor, Biological and Agricultural Engineering, Texas A&M University. Research focused on the systems engineering and design of bioenergy technologies. Teaching assignments are the two semester capstone engineering design sequence and a graduate course in experimental design. 1998 – 2004 Associate Professor; Biological and Agricultural Engineering, Texas A&M University. Research focused on production of plants under controlled, extreme environments. Teaching assignments were to teach the two semester capstone engineering design sequence and an undergraduate course in instrumentation and process controls. 1992 – 1998 Assistant Professor, Biological and Agricultural Engineering, Texas A&M University. Research focused on food and biochemical processes. Teaching assignments were to teach an undergraduate course in instrumentation and process controls, develop a new undergraduate course in bioprocessing, and a new graduate course in remote sensing. 1985 – 1990 Director of Engineering Services, Taco Bell, Inc., Irvine, CA. Responsible for specification, design, and testing for all restaurant equipment and process flow for new and existing products in all restaurants. Created system models and simulations to increase throughput by 50% at peak sales times. 1983 – 1985 R&D Engineer, Pizza Hut, Inc., Wichita, KS. Responsible for specification, design, and testing for restaurant equipment and process flow for several new and existing products in all domestic restaurants. 1981 – 1983 R&D Process Engineer, The Pillsbury Company, Minneapolis, MN. Responsible for design and specification of equipment related to new refrigerated products and new processes for Burger King (a subsidiary of Pillsbury at that time). Simulated various scenarios to improve througput, product quality, and profitability. Recent Publications Zhang1, H., Lan, Y., Lacey, R.E., Hoffmann, W.C., Huang, Y., 2009. Analysis of vegetation indices derived from aerial multispectral and ground hyperspectral data. International Journal of Agricultural and Biological Engineering. 2: 33-40.
1 PhD student under the direction of Dr. Lacey Zhang1, H., Lan, Y., Lacey, R.E., Hoffmann, C.W., Martin, D., Bora, G.C., 2009. Analysis of variograms with various sample sizes from a multispectral image. International Journal of Agricultural and Biological Engineering. 2: 62-69. Zheng, X.Z., Lan, Y.B., Zhu, J.M., Westbrook, J., Hoffmann, W.C., Lacey, R.E., 2009. Rapid Identification of Rice Samples Using an Electronic Nose. Journal of Bionic Engineering. 6: 290-297. Huang, Y., Lan, Y., Thomson, S.J., Fang, A., Hoffmann, W.C., Lacey, R.E., 2010. Development of soft computing and applications in agricultural and biological engineering. Computers and Electronics in Agriculture. 71 (2): 107-127. Nawaratna, G., S. Adhikari, R.E. Lacey and S.D. Fernando. 2010. Reforming glycerol under electro-statically charged surface conditions. Energy & Environmental Science. 3: 1593- 1599 Zhang1, H., Y. Lan, R. Lacey, W.C. Hoffmann, D.E. Martin, B. Fritz and J. Lopez Jr. 2010b. Ground-based spectral reflectance measurements for evaluating the efficacy of aerially- applied glyphosate treatments. Biosystems Engineering 107 (1): 10-15. Zhang1, H., Y. Lan, R. Lacey, W. C. Hoffmann, and J. K. Westbrook. 2011. Spatial analysis of NDVI readings with different sampling density. Transactions of the ASABE. 54 (1): 349- 354. Huang, Y., Y. Lan, W. C. Hoffmann, and R.E. Lacey. 2011. A pixel-level method for multiple imaging sensor data fusion through artificial neural networks. Advances in Natural Science 4 (1): 1-13. Nawaratna, G., R.E. Lacey, and S. D. Fernando. 2012. Effect of hydrocarbon tail-groups of transition metal alkoxide based amphiphilic catalysts on transesterification. Catalysis Science and Technology, The Royal Society of Chemistry, 2 (2): 364-372. N. Samarasinghe, S. Fernando, R. Lacey, W.B. Faulkner. 2012. Algal cell rupture using high pressure homogenization as a prelude to oil extraction. Renewable Energy 48: 300-8. Synergystic Activities Expertise in systems engineering and process control has led to significant and broad long term collaborative efforts with several divergent disciplines including horticultural scientists, hydrologists, economists, air quality researchers, and poultry and animal scientists. This has included developing techniques for sensor integration and data fusion to address land cover and land use change; fusion of sensors to assess crop health at the field scale; designing and perfecting a unique, low pressure plant growth facility to permit long term studies of photosynthesis and respiration at hypobaric pressures with elevated CO2 and variable O2 partial pressures; evaluation of livestock wastes as potential energy sources and as sources of air pollution; and application of advanced engineering methodology to food processing systems. Current research focus is on techno-economic and life cycle analysis of bioenergy systems. Practical experience in systems dynamics, continuous, and discrete simulation for agricultural and food processing applications with two different Fortune 500 companies resulting in significant improvements to profitability and system capacity. Experience in management of personnel, resources, and projects. Name: Leonardo Lombardini Address: Dept. of Horticultural Sciences, Texas A&M University Telephone: (979) 458-8079 Fax: (979) 845-0627 E-mail: [email protected]
Education/Training Ph.D, Horticulture. 1999. Michigan State University, East Lansing, MI Laurea, Forestry 1993. Università degli Studi di Firenze, Italy
Positions and Employment 2008-present Associate Professor, Dept. of Horticultural Sciences, Texas A&M University - Interdepartmental affiliation: Molecular and Environmental Plant Sciences (MEPS) 2002-2008 Assistant Professor, Dept. of Horticultural Sciences, Texas A&M University 1999-2002 Post-doctorate, Tree Fruit Res. Ext. Center, Washington State University 1995-1999 Research Assistant, Michigan State University 1994-1995 Research Associate, Università di Pisa, Italy 1993-1994 Research Associate, National Research Council, Italy 1985-1993 Graduate Assistant, Università di Firenze, Italy
Awards and Honors Recipient of the J. Creighton Miller, Jr. Distinguished Educator Award 2012. Presented at the 72nd Annual Meeting of the Southern Region American Society for Horticultural Science, held in Birmingham, AL on February 3-6, 2012
Professional Experiences (last 4 years) Courses taught: Undergraduate: Horticulture Learning Community, International Horticulture, Nut Culture, Cultivating Global Leaders in Agriculture; Graduate: Molecular and Physiological Basis for Plant Stress Responses, Applied Physiology for Hortic.l Crops. Student training: Served as advisor for 6 undergraduate students for their research project. Currently primary advisor for 4 M.S. students, 1 Ph.D. student and member of 4 M.S., 1 M.Ag. , 1 M.Ed., and 5 Ph.D. graduate student committees. Study Abroad Programs: Developed and lead study abroad programs in Italy, Guatemala and Costa Rica. International activities: Conducted research projects in collaboration with Mexican and Italian counterparts for over a decade.
Competitive Funding (Last 4 Years) Global leaders in agriculture: enhancing participation in undergraduate experiential learning opportunities for minorities. 2009. USDA Higher Education Challenge (HEC) Grant. (co-PI: G. Wingenbach). $137,840 Anti-inflammatory effects of pecan extracts and fractions of different pecan cultivars. 2010. USDA – ‘Designing food for health’. (co-PI: L. Cisneros-Zevallos). $22,000
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Systems approach at improving the long-term competitiveness of U.S. pecans based on their nutritional and health-promoting components. 2011.USDA-NIFA. Specialty Crop Research Initiative. (co-PIs: L. Cisneros-Zevallos). $167,656
Selected refereed publications (last 4 years) 1. Martinez-Trinidad T., W.T. Watson, M.A. Arnold, and L. Lombardini. 2009. Investigations of exogenous applications of carbohydrates on the growth and vitality of live oaks. Urban For. Urban Gree. 8:41-48. 2. Lombardini L., H. Restrepo-Diaz, and A. Volder. 2009. Photosynthetic light response and epidermal characteristics of sun and shade pecan leaves. J. Amer. Soc. Hort. Sci. 134:1-7. 3. Martinez-Trinidad T., W.T. Watson, M. Arnold, L. Lombardini, and D.N. Appel. 2009. Carbohydrate injections as a potential option to improve growth and vitality of live oaks. Arboric. Urban Forest. 35:142-147. 4. Martinez-Trinidad T., W.T. Watson, M. Arnold, and L. Lombardini. 2009. Temporal and spatial glucose and starch partitioning in live oak. Arboric. Urban Forest. 35:63-67. 5. Malik N.S.A., J.L. Perez, L. Lombardini, R. Cornacchia, L. Cisneros-Zevallos, J. Bradford. 2009. Phenolic compounds and fatty acid composition of organically grown pecan kernels. J. Sci. Food Agric. 89:2207-2213. 6. Villarreal Lozoya J.E., L. Lombardini, and L. Cisneros-Zevallos. 2009. Electron beam irradiation effects on phytochemical constituents and antioxidant capacity of pecan kernels [Carya illinoinensis (Wangenh.) K. Koch] during storage. J. Sci. Food Agric. 57:10732-10739. 7. Wood B.W., L. Lombardini, and R.J. Heerema. 2009. Influence of aminoethoxyvinyl-glycine on pecan fruit retention. HortScience. 44:1884-1889. 8. Moore E., G. Williams, M. Palma, and L. Lombardini. 2009. Effectiveness of state-level pecan promotion programs: The case of the Texas pecan checkoff program. HortScience. 44:1914-1920. 9. Bryan D.L., M.A. Arnold, A. Volder, W.T. Watson, L. Lombardini, J.J. Sloan, L.A. Valdez-Aguilar, and A.D. Cartmill. 2010. Planting depth during container production and landscape establishment affects growth of Ulmus parvifolia. HortScience. 45:1-7. 10. Bryan D.L., M.A. Arnold, A. Volder, W.T. Watson, L. Lombardini, J. Sloan, L.A. Valdez-Aguilar, and A.D. Cartmill. 2010. Transplant season, irrigation, and planting depth effects on landscape establishment of bald cypress and sycamore. Arboric. Urban Forest. 36: 57-65. 11. Restrepo-Díaz H., J.C. Melgar, and L. Lombardini. 2010. Ecophysiology of horticultural crops: An overview. Agron. Colomb. 28:71-79. 12. Bryan D.L., M.A. Arnold, A. Volder, W.T. Watson, L. Lombardini, J. Sloan, A. Alarcón, L.A. Valdez- Aguilar, and A.D. Cartmill. 2011. Planting depth and soil amendments affect growth of Quercus virginiana Mill. Urban For. Urban Gree. 10:127-132. 13. Sagaram, M., L. Lombardini, and L.J. Grauke. 2011. Variation in anatomical characteristics in leaves of pecan seedstocks from Mexico and the United States. J. Amer. Soc. Hort. Sci. 136:103- 108 14. Ojeda-Barrios D., J. Abadía, L. Lombardini, A. Abadía, and S. Vázquez. Zinc deficiency in field- grown pecan trees: Changes in leaf nutrient concentrations and structure. 2012. J. Sci. Food Agr. 92:1672–1678. 15. Cai, X., T. Starman, G. Niu, C. Hall, and L. Lombardini. 2012. Response of selected garden roses to drought stress. HortScience 47:1050-1055.
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16. Silberg, T.R., T.P. Murphrey, G. Wingenbach, and L. Lombardini. 2012. Exploring profitability of compost micro-enterprises in Chimaltenango, Guatemala: A strategy for international development. J. Int. Ag. Ext. Ed. 19:57-58. 17. Silberg, T.R., T.P. Murphrey, G. Wingenbach, and L. Lombardini. 2012. An examination of employee characteristics within compost micro-enterprises in Chimaltenango, Guatemala: Factors that facilitate success. J. Int. Ag. Ext. Ed. 19:180-182. 18. Honaker, J., S. Skrivanek, J. Lopez, D. Martin, L. Lombardini, L.J. Grauke, and M. Harris. 2013. Blackmargined aphid (Monellia caryella (Fitch); Hemiptera: Aphididae) honeydew production in pecan and implications for managing the pecan aphid complex in Texas. Southwest. Entomol. 38:19-32. 19. Lombardini, L., A. Volder, M.L. Nesbitt, and D.L. Cartmill. 2013. Consequences of injury caused by Cameraria caryaefoliella (Lepidoptera: Gracillariidae) on pecan gas exchange and chlorophyll fluorescence. J. Amer. Soc. Hort. Sci. 138:1-4. 20. Silberg, T.R., T.P. Murphrey, G. Wingenbach, and L. Lombardini. 2013. Exploring profitability of compost micro-enterprises in Chimaltenango, Guatemala: A case study of business sustainability for international development. J. Int. Ag. Ext. Ed. 20:58-70.
Book chapters (last 4 years) 1. Ortiz-Quezada A.G., L. Lombardini, and L. Cisneros-Zevallos. 2010. Pecan nuts: Pecan nut cultivars and antioxidant activity, p.881-889. In: V.R. Preedy, R.R. Watson, and V. Patel (eds.). Nuts and seeds in health and disease prevention. Academic Press.
Peer-reviewed journal articles (last 4 years) 1. Lombardini L., J.E. Villarreal, and L. Cisneros-Zevallos. 2009. Antioxidant properties and fatty acid composition of pecan kernels. Acta Hort. 841:91-96.
Scientific abstracts (last 4 years) 1. Ortiz-Quezada A.G., L. Lombardini, and L. Cisneros-Zevallos. Identification of tannins from pecan kernels by liquid chromatography-mass spectrometry. 69th ASHS-SR Meeting. Atlanta, GA. Jan. 31- Feb 2, 2009. 2. Lombardini L. Challenges, stratagems, and gratification of teaching a study abroad course in horticulture to non-major students. 69th ASHS-SR Meeting. Atlanta, GA. Jan. 31-Feb 2, 2009. 3. Restrepo-Diaz H., L. Lombardini, and A. Volder. Caracterización morfológica y fisiológica de hojas de luz y de sombra en nogal pecanero. Congreso Ibérico de Ciencias Hortícolas. Logroño, Spain. May 25-29, 2009. 4. Ortiz Quezada A.G., L. Lombardini, L. Cisneros-Zevallos, F.A. Tomás-Barberán. Identification of condensed and hydrolysable tannins in pecan [Carya illinoinensis (Wangenh.) K. Koch] kernels using a HPLC-ESI-MS ion trap system. Institute of Food Technologists Annual Meeting. Anaheim, CA. June 5-10, 2009. 5. Lombardini L., A. Volder., and H. Restrepo-Diaz. Water relations and net carbon assimilation rate response in two commonly used pecan rootstocks. 106th ASHS Conference. St. Louis, MO. July 25- 28, 2009.
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6. Lombardini L. And G.J. Wingenbach. Cultivating global leaders in agriculture: A successful attempt to create international learning experiences for students in agriculture. 71st ASHS-SR Meeting. Corpus Christi, TX. Feb 5-7, 2011. 7. Hannah H.M., A. Volder, and L. Lombardini. Evaluating the effects of nitrogen fertilization rates on growth and gas exchange in young pecan seedlings. 71st ASHS-SR Meeting. Corpus Christi, TX. Feb 5-7, 2011. 8. Lombardini L. and G. Wingenbach. Cultivating global leaders in agriculture: A successful effort to engage agriculture students through international learning experiences (Poster). NACTA/DOCE Conference. University of Alberta, Edmonton, Canada, June 14-18, 2011. 9. Luckett M., C. Shane, L. Lombardini, and G. Wingenbach. From classroom to reality: Global leadership engagement in Guatemala and Costa Rica (Poster). NACTA/DOCE Conference. University of Alberta, Edmonton, Canada, June 14-18, 2011. 10. Holt, P., R. Collett, S. Alvis, C. Velezmoro Sanchez, S. Vargas Winstanley, G. Wingenbach, L. Lombardini, M. Piña Jr., and G. Briers. Identifying research capacities at the Universidad Nacional Agraria-La Molina (Poster). World Conference on Sustainable Value Chain Agriculture for Food Security and Economic Development. Windhoek, Namibia. July 3-7, 2011. 11. Cai, X., T. Starman, G. Niu, C. Hall, L. Lombardini, and K. Eixmann. Response of selected Earth- Kind® rose cultivars to drought stress (Poster). 107th ASHS Conference. Waikoloa, HI, Sept. 25-28, 2011. 12. Crosby, K., A. Annon, L. Lombardini, and K. Rathore. Agrobacterium-mediated genetic transformation of carrot (Daucus carota) with a tobacco osmotin gene. 107th ASHS Conference. Waikoloa, HI, Sept. 25-28, 2011. 13. Sandlin, M., T.P. Murphrey, K. Dooley, J. Lindner, L. Lombardini, and D. Lineberger. Extending the International Experience into the Horticulture Classroom: The Creation and Use of Reusable Learning Objects (RLOs). 73rd ASHS-SR Meeting. Orlando FL, TX. Feb 2-5, 2013. 14. Bielecki, C., C. Velezmoro Sanchez, M. Navarro, L. Lombardini, G. Briers, and G. Wingenbach. Impact analysis and evaluation of a capacity building project in Peru: Increasing the teaching and research competencies of selected faculty. Annual Conference of the Association for International Agricultural and Extension Education (AIAEE). Fort Worth, TX, May 19-23, 2013.
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CURRICULUM VITAE: CAROL A. LOOPSTRA
Carol A. Loopstra Associate Professor Department of Ecosystem Science and Management Texas A&M University
CONTACT INFORMATION
324 Horticulture Forest Science Building Office Phone: 979-862-2200 e-mail: [email protected]
EDUCATION AND TRAINING Institution Major Degree, Year Oregon State University Forest Management BS, 1979 Oregon State University Forest Science MSc, 1984 North Carolina State University Genetics and Forestry PhD, 1992 Dissertation Title: Xylem Specific Gene Expression in Loblolly Pine Dissertation Advisor: Ronald R. Sederoff, PhD
ACADEMIC APPOINTMENT HISTORY 2001-present Associate Professor, Dept. of Ecosystem Science and Management, Texas A&M University, College Station, TX, USA 2002-2006 Associate Department Head for Graduate Programs, Dept. of Forest Science, Texas A&M University 1995-2001 Assistant Professor, Dept. of Forest Science, Texas A&M University 1995-present Member of the Faculty of Molecular and Plant Sciences, Texas A&M University 1995-present Member of the Faculty of Genetics, Texas A&M University 2000-present Member of the Faculty of Biotechnology, Texas A&M University 1993 - 1994 Research Officer, The University of Queensland, Brisbane, Australia* 1992 - 1993 Research Fellow, Griffith University, Brisbane, Australia* These were the same postdoctoral position. Our university affiliation changed.
TEACHING COURSES TAUGHT (RECENT) ESSM 203 Forest Trees of North America (formerly FORS 203 Dendrology) (70 to 96 students/semester – taught 15 semesters) GENE / MEPS 411 Biotechnology for Crop Improvement (15 – 20 students / semester – taught 16 semesters)
GRADUATE STUDENTS SUPERVISED PhD Students – 6 graduated, 1 current Mengmeng Lu, Ph.D., Molecular and Environmental Plant Sciences, current (co-chair) Candace Seeve, Ph.D., Molecular and Environmental Plant Sciences, 2010 - Currently Research Molecular Biologist, USDA, Columbia, Missouri Sreenath Palle, Ph.D., Molecular and Environmental Plant Sciences, 2010 - Currently Postdoctoral Research Associate, Dept. of Soil and Crop Sciences, TAMU Suk-Hwan Yang, Ph.D., Molecular and Environmental Plant Sciences, 2004 - Currently Scientist at Monsanto G. “Jack” Jagadeeswaran, PhD, Genetics, Texas A&M University, 2001 (co-chair) Hongyan Wang, Ph.D., Plant Physiology, Texas A&M University, 2000 - Currently Postdoctoral Research Associate, University of Massachusetts Eun-Gyu No, Ph.D., Plant Physiology, Texas A&M University, 1999 - Currently Assistant Research Scientist, TAMU MS Students – 2 graduated Pratheesh Sathyan, M.S., Molecular and Environmental Plant Sciences, 2004 - Currently Postdoctoral Fellow at MD Anderson Cancer Center Angie Cheng, M. Biotechnology, Professional Program in Biotechnology, 2002 - Currently Staff Scientist at Life Technologies
Served as a Committee Member for - 19 PhD Students - 3 PhD Students as GCR - 5 Masters Students
RESEARCH
My primary research interests involve understanding the role gene regulation plays in wood formation and resistance to abiotic stresses in forest trees. Most of my research, going back to my days as a PhD student, has been on loblolly pine, the most commercially important tree species in the southeastern U.S. However, I have also worked on pecan and was recently involved in a project to look at salt and drought tolerance in Pongamia, an oil seed species that has great potential for southern Texas. I consider the training of graduate students to be one of my most important roles as a faculty member at Texas A&M University so much of my research is done in collaboration with students. Most of my projects in the past 10 years have been multi-institutional with collaborators from other universities, the U.S. Forest Service, the Texas Forest Service and industry.
PUBLICATIONS Neale DB, Wegrzyn JL, Stevens KA, Zimin A, Puiu D, Crepeau M,Cardeno C, Koriabine M, Holtz‐Morris AE, Liechty JD, MartínezGarcía PJ, Vasquez-Gross HA, Lin BY, Zieve JJ, Dougherty WM, Fuentes‐ Soriano S,Wu L,Gilbert D,Marçais G, Roberts M, Holt C,Yandell M, Davis JM, Smith K, Dean JFD, Lorenz W, Whetten RW Sederoff R, Wheeler N , McGuire PE, Main D, Loopstra CA , Mockaitis K, deJong P, Yorke JA , Salzberg SL, Langley CH. The megagenome of loblolly pine (Pinus taeda L.). Submitted to Science. Wegrzyn JL, Liechty JD, Stevens KA, Wu L-S, Loopstra CA, Vasquez-Gross H, Dougherty WM, Lin BY, Zieve JJ, MartínezGarcía PJ, Holt C, Yandell M, Zimin A, Yorke JA, Grepeau M, Puiu D, Salzberg SL, de Jong, P, Mockaitis K, Main D, Langley CH, Neale DB. Expansion of introns, ancient transposable elements and gene families revealed in the annotation of the loblolly pine (Pinus taeda L.) megagenome. Submitted to Genetics. Eckert AJ, Wegrzyn JL, Liechty JD, Lee JM, Cumbie WP, Davis JM, Goldfarb B, Loopstra CA, Palle SR, Quesada T, Langley CH, Neale DB. (2013) The evolutionary genetics of the genes underlying phenotypic associations for loblolly pine (Pinus taeda, Pinaceae). Genetics (in press – available on- line (10.1534/genetics.113.157198)). Palle SR, Seeve CM, Eckert AJ, Wegrzyn JL, Neale DB, Loopstra CA. (2013) Association of loblolly pine xylem development gene expression with single nucleotide polymorphisms. Tree Physiology 33:763- 774 Palle SR, Seeve CM, Eckert AJ, Cumbie WP, Goldfarb B, and Loopstra CA. (2011) Natural variation in expression of genes involved in xylem development in loblolly pine (Pinus taeda L.). Tree Genetics and Genomes 7: 193-206 Kovach AS, Wegrzyn JL, Parra G , Holt C, Bruening GE, Loopstra CA, Hartigan J, Yandell M, Langley CH, Korf I, Neale DB (2010) The Pinus taeda genome is characterized by diverse and highly diverged repetitive sequences. BMC Genomics 11:420 doi:10.1186/1471-2164-11-420 Sathyan P, Newton RJ, and Loopstra CA (2005) Genes induced by WDS are differentially expressed in two populations of aleppo pine (Pinus halepensis). Tree Genetics and Genomes 1(4):166-173 Yang S-H and Loopstra CA (2005) Seasonal variation in gene expression for loblolly pines (Pinus taeda L.) from different geographical regions. Tree Physiology 25:1063-1073 Yang S-H, Wang H, Sathyan P, Stasolla C, and Loopstra CA (2005) Real-time RT-PCR analysis of loblolly pine (Pinus taeda L.) arabinogalatactan protein and arabinogalactan-protein-like genes. Physiologia Plantarum 124: 94-126
Yang S-H, van Zyl L, No E-G, and Loopstra CA (2004) Microarray analysis of genes preferentially expressed in differentiating xylem of loblolly pine (Pinus taeda). Plant Science 166:1185-1195 Zhang Y, Brown G, Whetten R, Loopstra CA, Neale D, and Sederoff RR. (2003) An arabinogalactan- protein associated with secondary cell wall formation in differentiating xylem of loblolly pine. Plant Molecular Biology – 52: 91-102 No E-G and Loopstra C.A. (2000) Hormonal and developmental regulation of two loblolly pine xylem arabinogalactan-proteins. Physiologia Plantarum – 110: 524-529. No E-G, Zhou Y, and Loopstra CA. (2000) Sequences upstream and downstream of two xylem-specific pine genes influence their expression. Plant Science 160: 77-86. Loopstra CA, Puryear JD, and No E-G. (2000) Purification and cloning of an arabinogalactan-protein from xylem of loblolly pine. Planta –210: 686-689 Loopstra C, Mouradov A, Vivian-Smith A, Glassick T, Gale B, Southerton S, Marshall H, and Teasdale R. (1998) Two Pinus radiata endo- -1,4-glucanases are associated with rapidly growing reproductive structures. Plant Physiology 116: 959-967. Wang H and Loopstra C (1998) Cloning and characterization of a cellulose synthase cDNA (Accession No.AF081534) from xylem of hybrid poplar (Populus tremula X Populus alba). (PGR98-179) Plant Physiol. 118: 1101 Loopstra CA and Sederoff RR. (1995) Xylem-specific gene expression in loblolly pine. Plant Molecular Biology 27: 277-291. Loopstra CA, Weissinger AK and Sederoff RR (1992) Transient gene expression in differentiating pine wood using microprojectile bombardment. Can. J For. Res. 22: 993-996. Loopstra CA, Stomp A-M and Sederoff RR (1990) Agrobacterium mediated DNA transfer in sugar pine. Plant Molecular Biology. 15: 1-9. Stomp A-M, Loopstra CA, Chilton WS, Sederoff RR and Moore L. (1990) Agrobacterium tumefaciens in Pinus. Plant Physiology. 92: 1226-1232. Loopstra CA and Adams WT (1989) Patterns of variation in first year seedling traits within and among Douglas-fir breeding zones in southwest Oregon. Silvae genetica 38(5-6): 235-243. Adams WT, Neale DB and Loopstra CA (1988) Verifying controlled crosses in conifer tree-improvement programs. Silvae Genetica 37: 147-152. Alden J and Loopstra CA (1987) Genetic diversity and population structure of Picea glauca on an altitudinal gradient in interior Alaska. Can. J For. Res. 17: 1519-1526.
CHAPTERS IN BOOKS: Hessler K, Whetten R, Loopstra C, Shriver S, Pesaresi Penner K, Ziegler R, Fletcher J, Torrie M, and Comstock G. (2002) Golden rice. In: Life Science Ethics. G Comstock (ed.) Iowa State Press . 307- 310; 358-368. Loopstra CA, No E-G, Wang H, and Puryear J. (2000) Xylem-specific expression of arabinogalactan- protein-like genes. In: Cell and Developmental Biology of Arabinogalactan-Proteins. E.A. Nothnagel, A. Bacic, and A.E. Clarke (eds). Kluwer Academic/Plenum Publishers, NY. p. 179-190. Loopstra CA. (2000) Proteins of the Conifer Extracellular Matrix. In: Molecular Biology of Woody Plants. Vol. 1 Jain and Minocha (eds). Kluwer Academic Publishers, pp. 287-297. Newton RJ, Padmanabhan V, Loopstra CA and (1999) Dias MADL. Molecular reponses to water deficit stress in woody plants. In: Handbook of Plant and Crop Stress. Ed. M Pessarakli. Marcel Dekker, Inc, NY. pp. 641-657. Stomp A-M, Loopstra CA, Sederoff RR, Chilton S, Fillatti J, Dupper B, Tedeschi P, and Kinlaw C (1988) Development of a DNA transfer system for pines In: Genetic manipulation of woody plants. EDs JW Hanover and DE Keathley. Plenum publishing, New York, NY. pp 231-241. Sederoff RA, Stomp A, Gwynn B, Ford E, Loopstra CA, Hodgkiss R and Chilton WS (1987) Application of recombinant DNA techniques to pines: A molecular approach to genetic engineering in forestry. In: Cell and Tissue Culture in Forestry, Ed. DJ Durzan & JM Bonga, 2nd ed., Marinus Nijhoff, Amsterdam, pp 314-329.
GRANT FUNDING Henderson, Loopstra, Moore. The Bastrop Fires: Understanding Sociological and Environmental Impacts. TAMU Integration of Multidisciplinary Research and Creative Activities into the Learning Experience. 2012 – 2015. $59,428. Martin et al. (~54 co-PIs) Southern Conifer Climate Change Cap. 2011 – 2016. USDA AFRI. $20,000,000 total. Neale, de Jong, Langley, Loopstra, Main, Mockaitis, Salzberg, Wegrzyn, Yorke. Loblolly Pine Genome Project. 2011 – 2016. USDA AFRI. $14,994,424. $96,324 to Loopstra. Langley, Neale, Byram, Casella, Davis, Goldfarb, Huber, Kirst, Li , Loopstra, Mullin, Peter. Association Genetics of Natural Genetic Variation and Complex Traits in Pine. 2005-2011. NSF Plant Genome. $5,902,886; $797,218 to Loopstra. Loopstra. 2002-2003. Drought resistant Pines for Texas Forests. Texas Higher Education Coordinating Board – Advanced Technology Program. $160,000. Sederoff, et al. 1999 – 2002. Wood formation in loblolly pine. NSF Plant Genome. $4.45 million; $111,888 to Loopstra. Grauke and Loopstra. 1998 – 2001. Conservation and utilization of pecan genetic resources. Fund for Rural America. $135,955 to Loopstra. Loopstra and Pepper. Defining the colinearity between the poplar and arabidopsis genomes. TAMU Interdisciplinary Research Initiatives Program. 1999-2000. $24,088. Schiller, Loopstra, Korol and Newton. 1997-2000. Influence of water deficit on gene products in Pinus halepensis. International Arid Lands Consortium. $75,000; $35,000 to Loopstra. Loopstra . 1995-1998. Arabinogalactan-proteins in xylem development of loblolly pine. USDA NRICGP – Plant Growth and Development. $100,000. Newton, van Buijtenen, Funkhouser, and Loopstra. Pinus tree improvement: Exploiting current advances in biotechnology. Temple-Inland Foundation. 1995-1996. $350,000; $160,000 to Loopstra. Sederoff and Loopstra. Xylem-specific genes from loblolly pine. USDA NRICGP 1990-1992. $100,000. CURRICULM VITAE
NAME: Clint William Magill
TITLE/ADDRESS: Professor of Genetics Department of Plant Pathology & Microbiology Texas A & M University College Station, Texas 77843 (409) 845-8250 FAX: 845-6483 E-Mail: [email protected]
EDUCATION & HONORS:
UNIVERSITY: University of Illinois,1959-1963. B.S in Agricultural Science awarded June, 1963. Advisor, Dr. D. E. Alexander, Agronomy Department. Honors and Awards: Bronze Tablet, Borden Award, Outstanding Senior in Agriculture, Phi Kappa Phi, Phi Eta Sigma, Chicago Tribune Silver Medal (twice), and an NSF Undergraduate Fellowship for summer research to attempt to cross tetraploid corn and sorghum.
GRADUATE SCHOOL: Cornell University, 1963-1968. Ph. D. in Genetics, 1968. Chairman of Advisory Committee; Dr. Adrian Srb, Members; Dr. Joe Calvo, Biochemistry, and Dr. Walter Federer, Biometry. Financial support included a NSF Cooperative Graduate Fellowship, The Andrew Dixson White Fellowship, and an NIH Traineeship. Research involved complementation and reversion of morphological mutants of Neurospora crassa.
TAMU 1986: College Level Award for Excellence for Undergraduate Teaching 2008-2009 Speaker, TAMU Faculty Senate 2009: Named a Fellow of the American Association for the Advancement of Science
PROFESSIONAL EXPERIENCE:
POSTDOCTORAL: University of Minnesota, 1967-1969. Advisor: Dr. Val Woodward, Department of Genetics and Cell Biology. Research supported by an NSF Postdoctoral Fellowship utilized kinetic analysis of transport defective mutants to define alternative modes of amino acid uptake in Neurospora crassa.
EMPLOYMENT: 1969-1975 Assistant Professor, Texas A&M University, Texas Agricultural Experiment Station (50% Teaching, 50% research). 1975-1989 Associate Professor (75% Teaching, 25% research). 1989- Professor (50% Teaching, 50% Texas Agrilife Research)
CURRENT CLASSROOM TEACHING
Genetics 310, Principles of Heredity; Genetics 603 Introductory Graduate Genetics; BESC 481 and GENE 482, Undergraduate Seminar Presentations
RESEARCH
MOST SIGNIFICANT ACHIEVEMENTS
• Identification of multiple amino acid transport systems in Neurospora crassa • Demonstration of parasexual recombination in the rice blast fungus • Development of Texmont Rice, a high yielding, early maturing doubled haploid variety via anther culture • Demonstration of high levels of DNA methylation in DNA of resting spores Phymatotrichum omnivorum • Contributions to development of an RFLP map for sorghum • Identification of host defense pathways in cotton and sorghum inoculated with spores of fungal pathogens • Development of antisense constructs of cadinene synthase to lower gossypol production in cottonseed (in collaboration with Dr. Chan Benedict) • Tagging of multiple genes for resistance to four different sorghum pathogens • Use of AFLP and SSR technology to measure genetic variability in sorghum and populations of pathogens • Development of PCR tools for identification of the oomycetes that cause downy mildew in cereal crops. • Potential nematode resistant cotton via RNAi (collaboraton with Keerti Rathore and Jim Starr)
Edited Publications (Since 2005) Magill, C.W. 2013 Bridging Classical and Molecular Genetics of Sorghum Disease Resistance, In “Genomics of the Saccharinae” ed. Patterson, A.H. , Ch. 15, pp347-367. Little, C.R., Perumal, R., Tesso, T., Prom, L.K., Odvody, G.N., and Magill, C.W. 2012. Sorghum pathology and biotechnology - A fungal disease perspective: Part I. Grain mold, head smut, and ergot. The European Journal of Plant Science and Biotechnology 6: 10-30. Tesso, T., Perumal, R., Little, C.R., Adeyanju, A., Radwan, G., Prom, L.K., and Magill, C.W. 2012. Sorghum pathology and biotechnology - A fungal disease perspective: Part II. Anthracnose, stalk rot, and downy mildew. The European Journal of Plant Science and Biotechnology 6: 31-44. L. K. Prom,, R. Perumal,, SR Erattaimuthu,, CR Little, E-G No, J. E. Erpelding, W. L. Rooney, G. N. Odvody and C. W. Magill (2012) Genetic diversity and pathotype determination of Colletotrichum sublineolum isolates causing anthracnose in sorghum. European Journal of Plant Patholgy 133:671–685 Radwan, GL, Isakeit, T, Magill, CW, Perumal, R,.Prom, LK and Little, CR (2011) Screening exotic sorghum germplasm, hybrids and elite lines for resistance to a new virulent pathotype (P6) of Peronoslcerospr sorghi causing downy mildew. Plant Health Progress (online) doi:10.1094/PHP-2011-0323-01-RS Prom. LK, Perumal, R., Erattainmuthu, SR, Erpelding, JE, Montes, N, Odvody, GN., Greenwald, C. Jin Z., Frederiksen, R, and Magill, CW (2011) Virulence and Molecular Genotyping Studies of Sporisorium reilianum Isolates in Sorghum. Plant Disease 95:523-529. Prom, L. K., Perumal, R., Erpelding, J. E., Isakeit, T., and Montes, N., and Magill, C. W. 2009. A pictorial technique for mass screening of sorghum germplasm for anthracnose resistance. The Open Agric. J. 3:20-25 Katilé, SO, Perumal, R, Rooney, WL Prom, LK, Magill, C 2009 Expression of pathogenesis-related protein PR-10 in sorghum floral tissues in response to inocluation with Fusarium thapsinum and Curvularia lunata Mol. Plant Pathol. 11:93-103. Little, C.R., and Magill, C.W. 2009. The grain mold pathogen, Fusarium thapsinum, reduces caryopsis formation in Sorghum bicolor. Journal of Phytopathology 157: 518-519. Ramasamy, P, Menz, MA, Mehta, PJ, Katile, S, Gutierrez Rojas, LA, Klein, RR, Klein, PE, Prom, LK, Schlueter, JA, Rooney WL, & Magill, CW 2009. Molecular mapping of Cg1, a gene for resistance to anthracnose (Colletotrichum sublineolum) in sorghum. Euphytica 165:597-606. Perumal, R, Nimmakayala, P, Erattaimuthu, SR, No, E-G, Reddy,UK, Prom, LK, Odvody, GN, Luster, D. and Magill, CW. (2008) Simple sequence repeat markers useful for sorghum downy mildew (Peronosclerospora sorghi) and related species. BMC Genetics 9:77 http://www.biomedcentral.com/1471-2156/9/77 Liu, J., Stipanovic, R.D., Bell, A.A., Puckhaber, L.S., and Magill, C.W. (2008) Stereospecfific coupling of hemigossypol to form (+)-gossypol in moco cotton. Phytochemistry 69:3038-3042. - Perumal,, R., Krishnaramanujan, R., Menz, M.A., Katilé, S., Dahlberg, J., Magill, C.W., and Rooney, W.R. (2007) Genetic Diversity among Sorghum Races and Working Groups Based on AFLPs and SSRs. Crop Sci 47:1375- 1383. Ramasamy, P., Frederiksen, R. A., Prom, L. K., and C. W. Magill (2007) “Head Smut” in Thakur, R. P., Reddy, B. V. S. and K Mathur (eds.) Screening Techniques for Sorghum Diseases. Information Bulletin No. 76. ICRISAT, Patancheru 502 324, Andhra Pradesh, India Sabry, A.B., Jeffers, D.,Vasal, S.K., Frederiksen, R., and Magill, C.W. (2006) A region of maize chromosome 2 affects response to downy mildew pathogens. Theor. Appl. Genet. 113:321-330. Perumal, R. Isakeit, T., Menz, M., Katilé, S., No, E-G, Magill, C.W. (2006) Characterization and genetic distance analysis of isolates of Peronosclerospora sorghi using AFLP fingerprinting. Mycological Res. 110:471-478. He, B., Magill, C. & Starr, J. (2005) Laser capture microdissection and real-time PCR for measuring mRNA in giant cells induced by Melodogyne javanica. Journal of Nematology 37: 308-312.
THOMAS D. MCKNIGHT Department of Biology Texas A&M University College Station, TX 77843 CONTACTS: telephone (409) 845-3896 e-mail [email protected]
EDUCATION: B.S. Microbiology, University of Georgia, 1975 Ph.D. Molecular and Population Genetics, University of Georgia, 1983
PROFESSIONAL EXPERIENCE: 1982-1985 Postdoctoral Associate, Atlantic Richfield Plant Cell Research Institute, Dublin CA 1985-1991 Assistant Professor, Department of Biology, Texas A&M University 1985- Member of Interdepartmental Faculties of Genetics and Plant Physiology 1991-2002 Associate Professor, Department of Biology, Texas A&M University 2002 - Professor, Department of Biology, Texas A&M University 2003 - Associate Head, Department of Biology, Texas A&M University 2003 - 2007 Director, Introductory Biology Program, Texas A&M University 8/2008 -12/08 Acting Department Head, Department of Biology, Texas A&M University 1/2013 - Interim Department Head, Department of Biology, Texas A&M University
PROFESSIONAL ACTIVITIES AND HONORS: 1980-1982 NIH Predoctoral Trainee in Genetics 1986-1991 Editor for GENE 1987 Organizing Committee for 1989 AIBS Genetics Symposium 1988- 2000 Organizing Committee for Lost Pines Molecular Biology Conference 1994 Association of Former Students Distinguished Teaching Award 1997- 2002 University Council of Master Teachers 2001 - 2005 NSF Biochemistry of Gene Expression Review Panel 2001 - 2005 Director, Texas A&M Microarray Service Facility 2009 – 2010 National Academy of Sciences Education Fellow in the Life Sciences
PUBLICATIONS SINCE 2000 (from 46 Total): Góngora-Castillo, E., Childs, K.L., Fedewa, G., Hamilton, J.P., Liscombe, D.K., Magallanes-Lundback, M., Mandadi, K.K., Nims, E., Runguphan, W., Vaillancourt, B., Varbanova-Herde, M., Dellapenna, D., McKnight, T.D., O'Connor, S., Buell, C.R. 2012. Development of transcriptomic resources for interrogating the biosynthesis of monoterpene indole alkaloids in medicinal plant species. PLoS One. 7(12):e52506. doi: 10.1371/journal.pone.0052506. Robinson, W.D., Park, J., Tran, H.T., Del Vecchio, H.A., Ying, S., Zins, J.L., Patel, K., McKnight, T.D., Plaxton, W.C. 2012. The secreted purple acid phosphatase isozymes AtPAP12 and AtPAP26 play a pivotal role in extracellular phosphate-scavenging by Arabidopsis thaliana. J. Exp. Bot. 63; 6531-6542. Mandadi,K.K., Misra, A., Ren, S., and McKnight, T.D. 2009. BT2, a BTB protein, mediates multiple responses to nutrients stresses, and hormones in Arabidopsis. Plant Physiol. 150; 1930-1939. Shakirov E.V., McKnight, T.D., and Shippen, D.E. 2009. POT1-independent single-strand telomeric DNA-binding activities in Brassicaceae. Plant J. 58; 1004-1015. Ren, S., Boedeker, A., Rathore, K., and McKnight, T.D. 2007. Regulation of telomerase in Arabidopsis by BT2, an apparent target of the TAC1 transcription factor. Plant Cell 19; 23-31. Lu, H., Gorman, E., and McKnight, T.D. 2005. Molecular Characterization of two anthranilate synthase alpha subunit genes in Camptotheca acuminata. Planta 221; 352-360. Ren, S., Johnston,J.S., Shippen, D. E., and McKnight, T.D. 2004. TELOMERASE ACTIVATOR1 induces telomerase activity and potentiates responses to auxin in Arabidopsis. Plant Cell 16; 2910-2922. McKnight, T.D. and Shippen, D.E. 2004. Historical Perspective: Plant Telomere Biology. Plant Cell 16; 794-803. McKnight, T.D., Riha, K., and Shippen, D.E. 2002. Telomeres, telomerase, and stability of the plant genome. Plant Mol. Biol. 48; 331-337. Riha, K., McKnight,T.D., Griffing, L.R., and Shippen, D.E. 2001. Living with genome instability: plant responses to telomere dysfunction. Science 291; 1797-1800. Fitzgerald, M.S., Shakirov, E.V., Hood, E.E., McKnight, T.D., and Shippen, D.E. 2001. Different modes of de novo telomere formation by plant telomerases. Plant J. 26; 77-88. Riha, K., McKnight, T.D., Fajkus, J., Vyskot, B., and Shippen, D.E. 2000. Analysis of the G-overhang structures on plant telomeres: evidence for two distinct telomere architectures. Plant J. 23; 633- 641.
RESEARCH PRESENTATIONS SINCE 2000: Scientific Meetings Telomerase Structure, Function and Regulation in Arabidopsis thaliana, International Plant Molecular Biology Conference, Quebec City, June 20, 2000. Telomerase Structure, Function and Regulation in Arabidopsis thaliana, American Society of Plant Physiologists Annual Meeting, San Deigo, July 17, 2000. Telomeres, Telomerase and Stability of the Plant Genome. Rice Genomic Conference, Tsukuba, Japan, February 7, 2002. Regulation of Telomerase in Arabidopsis thaliana. 11th Annual Plant and Animal Genome Conference, San Diego, CA. January 13, 2003. Activation of Telomerase by Synergistic Action of a Zinc-Finger Protein and Auxin. International Arabidopsis Research Conference, Madison, WI. June 21, 2003.
Invited Seminars Plant Telomeres, the Ends and the Means, Texas A&M University, Interdepartmental Program in Molecular and Environmental Plant Sciences, January 27, 2000. Structure, Function and Regulation of Telomerase in Plants, Texas A&M University, Interdepartmental Program in Genetics, September 7, 2000. Telomeres, Telomerase and Stability of the Plant Genome, University of Georgia, Departments of Botany and Genetics, September 25, 2000. Regulation of telomerase in Arabidopsis. University of Texas, Institute of Molecular, Cellular and Developmental Biology, November 6, 2000. Living with Genome Instability: Plant Responses to Telomere Dysfunction, Virginia Polytechnic Institute, Department of Plant Physiology, Plant Pathology and Weed Science, March 16, 2001. Activation of Telomerase by Synergistic Action of a Zinc-finger Protein and Auxin, Graduate Program in Plant Biology, University of Texas, October 3, 2003. TELOMERASE ACTIVATOR1 Induces Telomerase Activity and Potentiates Responses to Auxin in Arabidopsis, Virginia Polytechnic Institute, Department of Plant Physiology, Plant Pathology and Weed Science, January 26, 2005. Role of BT2 ubiquitin ligase in telomerase regulation and drought tolerance in Arabidopsis, Texas A&M University, Interdepartmental Program in Genetics, March 1, 2007. Regulation of telomerase activity and hormone responses in Arabidopsis by the BT2 ubiquitin ligase, Donald Danforth Plant Science Center, October 31, 2007. Regulation of telomerase activity and hormone responses in Arabidopsis by the BT2 ubiquitin ligase, Clemson University, Department of Genetics and Biochemistry, November 28, 2007. Regulation of telomerase activity and hormone responses in Arabidopsis by the BT2 ubiquitin ligase. Plant Sciences Department, University of Tennessee, November 14, 2008. BT2, a BTB protein, mediates multiple responses to nutrients, stresses, and hormones in Arabidopsis. Department of Biological Sciences, UT San Antonio, October 5, 2009. BT2-Ubiquitin Ligase Complex Regulates and Integrates Responses to Multiple Stresses in Arabidopsis. Department of Biology, Trinity University, March 27, 2012 Metabolomic and Transcriptomic Investigations of Medicinal Plants. Department of Biology, Southwest Texas State, October 29, 2012.
CURRENT RESEARCH SUPPORT: Title: Solanum pennellii a potential feedstock for biogasoline production Agency: U.S. Department of Agriculture (2011-38821-30891) Amount: $99,995 Period: 2/15/12 to 9/30/14 PI: T.D. McKnight (subcontract from $368,343 parent award to Virginia State University)
Title: Transcriptome profiling of Solanum pennellii, a non-crop source of biogasoline Agency: Whole Systems Genome Initiative Amount: $10,000 Period: 8/15/12 to 8/14/13 Co-PIs: T.D. McKnight and A.E. Pepper
Title: Meeting: MEPS 2013: Plant Signaling Systems – From Cells to Environment Agency: National Science Foundation (124501) Amount: $13,000 Period: 8/15/12 to 8/14/13 Co-PIs: H. Koiwa, W. Versaw, T.D. McKnight, S. Finlayson, C. Loopstra
PREVIOUS RESEARCH SUPPORT: PI or co-PI on $5,663,048 in total research support from competitive federal, state, and local funds since 1986.
TEACHING: Undergraduate Courses - MICROBIOLOGY 445 - Virology (1986-1989) MICROBIOLOGY 351 - Fundamentals of Microbiology (1992-1994; 1998; 2001-2002) BIOLOGY 213 - Molecular Cell Biology (1992-1995; 1998; 2001-2004; 2007; 2010) BIOLOGY 481 - The Biology of AIDS (1996-2001) BIOLOGY 489 - DNA Sequencing Techniques (Lecture and Lab) (2000) BIOLOGY 111 - Introductory Biology I (2002; 2005-2006; 2009-2012) BIOLOGY 112 – Introductory Biology II (2010-2013) BIOLOGY 328 – Economic Botany (2011-2012 – taught with one other professor)
Graduate Courses - BIOLOGY 671 - Transgenic Plants (1987-1990) BOTANY 636 - Plant Cell Biology (1991-1994 - taught with one other professor each year) BIOLOGY 689 - Biology of Natural Products (1997) BIOLOGY 681 - Plant Molecular Biology Journal Club (1997-1999) BOTANY 635 - Plant Molecular Biology (1989-2001- taught with one other professor in 1989 and from 1997 to 2001)
Graduated Ph.D. Students Daniel R. Bergey, Ph.D. 1993. Postdoctoral work with plant responses to pathogens with Dr. Clarence (Bud) Ryan at the Institute of Biological Chemistry, Washington State University. Currently Associate Professor in the Department of Biology, Black Hills State University. Lu Hua, Ph.D. 1999. Postdoctoral work with Dr. Jean Greenburg, University of Chicago. Currently Associate Professor at University of Maryland, Baltimore County. Keat Teoh, Ph.D. 2001. Postdoctoral work on secondary metabolism in plants with Dr. Norman Lewis at the Institute of Biological Chemistry, Washington State University. Currently Research Assistant Professor at Arkansas State University. Elizabeth Gorman, Ph.D. 2002. Postdoctoral work in Department of Entomology, Texas A&M. Currently at Texas Institute for Genomic Medicine, Houston. Shuxin Ren, Ph.D. August, 2003. Currently Associate Professor, Virginia State University. Ketan Patel, Ph.D. December, 2006. Chief of Molecular Diagnostics, Armed Forces Institute of Pathology, Washington, DC. Kranthi Mandadi, Ph.D. August 2010. Postdoctoral Associate, Department of Plant Pathology, Texas A&M University. (MEPS Student) Anjali Misra, Ph.D. December, 2011. Postdoctoral Associate, University of Florida Agricultural Experiment Station, Fort Myers, Florida. (MEPS Student)
SERVICE: National Organizing Editor for Gene, 1986 to 1991. Organizing Committee for 1989 AIBS Genetics Symposium Review panel member for the NSF program in Biochemistry of Gene Expression, 2001 - 2005
State Organizing committee for the Lost Pines Molecular Biology Conference,1988 to 2002 Chair of Scientific Review Committee for Brazos Valley Regional International Science and Engineering Fair, 1989 to 2001.
University Faculty Director, Affymetrix Microarray Facility, 2001- 2004 Institutional Biosafety Committee, 1994 - 2002 Council of Master Teachers, 1997 - 2003 Protein Chemistry Laboratory Users Committee, 1996 - 2002 Gene Technologies Laboratory Users Committee, 1998 - present Executive Committee of the Interdepartmental Faculty of Plant Physiology, 1989-1991 and 1995 -1996 Executive Committee of the Interdepartmental Faculty of Genetics, 2010 – present Organizing Committee for Annual Molecular and Environmental Plant Science Symposium 2005-2007 (Chair in 2005) and 2013
College College of Science Research Committee, 1993 - present College of Science Instructional Enhancement and Equipment Fund Committee, 1995 - 2003
Department (only major assignments for the last five years are listed) Associate Department Head, 2003 – present Interim Department Head, 1/2013 - present Chair of Annual Faculty Review Committee, 2003 - present Undergraduate Curriculum Committee (ex officio), 1999 - present Director of Introductory Biology Program, 2003 – 2007 GEORGIANNE W. MOORE Associate Professor Department of Ecosystem Science & Management, Texas A&M University 2138 TAMU, College Station, TX 77843-2138 Phone: (979) 845-3765, Email: [email protected] Citizenship: Natural-born U.S. Citizen
EDUCATION AND TRAINING Georgia Institute of Technology Biology B.S. 1995 Oregon State University Environmental Sciences Ph.D. 2003 Texas A&M AgriLife Research Ecohydrology Postdoc 2003-3004
RESEARCH AND PROFESSIONAL EXPERIENCE Associate Professor of Ecohydrology, Department of Ecosystem Science & Management, Texas A&M University, 2012-present Assistant Professor of Ecohydrology, Department of Ecosystem Science & Management, Texas A&M University, 2005 - 2012 Postdoctoral Research Associate, Texas Agricultural Experiment Station, Texas A&M University, Uvalde, TX, 2003-2004 Graduate Research Assistant, Department of Forest Science, Oregon State University, 2001-2003 Graduate Teaching Assistant, Department of Environmental Sciences, Oregon State Univ.,1999-2000
PUBLICATIONS (Most recent 3 years) **L. Kui, F. Li, G. W. Moore, and J. West (In Press) Can the riparian invader, Arundo donax, benefit from clonal integration? Weed Research. **R. J. Elkington, K. A. Rebel, and G. W. Moore. 2012. Species-specific water use by woody plants on the Edwards Plateau, Texas. Ecohydrology. DOI: 10.1002/eco.1344 **B. Alldredge and G. W. Moore. 2012. Assessment of Riparian Vegetation Sensitivity to River Hydrology Downstream of a Major Texas Dam. River Research and Applications. DOI: 10.1002/rra G. W. Moore, **D. A. Barre, and M. K. Owens. 2012. Does shrub removal increase groundwater recharge in SW Texas semi-arid rangelands? Rangeland Ecology and Management. 65(1) 1-10. Moore G.W. and M.K. Owens 2012. Transpirational water loss in invaded and restored riparian forests of the Rio Grande. Restoration Ecology. 20(3): 346–351. T. Doody, E. Glenn, K. Hultine, G. Moore, K. Morino, and P. Nagler. 2011. Potential for water salvage by removal of non-native woody vegetation from dryland river systems. Invited manuscript for special issue: The role of remote sensing observations and models in hydrology: the science of evapotranspiration. Hydrological Processes 25(1): 4177-4131. G. W. Moore, B. J. Bond, and J. A. Jones. 2011. A comparison of annual transpiration and productivity in monoculture and mixed-species Douglas-fir and red alder forests. Forest Ecology and Management. 262: 2263-2270. **Watts, D. A and G. W. Moore. 2011. Water Use Dynamics of Giant Reed (Arundo donax) from Leaf to Stand. Wetlands 31: 725-734. Moore, G. W. and J. L. Heilman. 2011. Invited Commentary: Potential principles governing how vegetation changes affect transpiration. Ecohydrology. 4: 351-358
Moore, G. W., J. A. Jones, and B. J. Bond. 2011. How soil moisture mediates the influence of transpiration on stream flow at hourly to interannual scales in a forested catchment. Hydrological Processes. 25(24): 3701–3710. Book Chapters V. Fait, F. Gelwick, P. Merton, G. Moore, M. Moyna, and Jill Zarestky. (In Press) Feedback and Fellowship: Stories from a Successful Writing Group In Working with Faculty Writers, edited by Michele Eodice and Anne Geller. Utah State University Press. Logan, UT.
GRANTS (Most recent 3 years) US Department of Energy (9/13-8/16) Improving Land-Surface Modeling of Evapotranspiration Processes in Tropical Forests. G. Miller (PI), G. Moore, T. Cahill, and R. Leung. $871,841. External competitive.
TAMU Tier-One Program. (9/13-8/16) Ecology and Evolutionary Biology. G. Rosenthal (PI), G. Moore (PI), and 10 others. $300,000. Internal competitive.
Texas A&M Forest Service. (6/12-9/12) Mapping Extent and Percent Tree Mortality due to an Extreme Record Drought in Texas in 2011. R. Washington-Allen (PI) and G. Moore. $19,975. Internal contract.
TAMU Tier-One Program. (9/12-8/15) The Bastrop Fires: Understanding Sociological and Environmental Impacts. G. Moore (PI), C. Loopstra (PI), K. Henderson (PI) $59,428. Internal competitive.
Montgomery County Board of Commissioners. (9/10-8/11) Economic Impacts of Lake-Level Reductions on Lake Conroe Area: Lake Area Property Values, Property Tax Revenues and Sales Tax Revenues G. Rogers (PI), S. Brody, G. Moore, and D. Shaw. $141,879. External contract.
USDA National Needs Graduate Fellowship. (8/10-7/12) A Graduate Training Program in Forest Resources: Developing Integrated Expertise in Forest Resource Management, Conservation, and Restoration. K. Krutovsky (PI), U. Kreuter, J. Gan, C. Loopstra, P. Merton, G. Moore, S. Propescu, W. Rogers, M. Tjoelker, R. Washington-Allen, S. Whisenant, B. Wilcox, X. Wu. $362,290. External competitive.
Texas Water Development Board. (1/10-1/11) Sabine River Riparian Vegetation Assessment Related to Flow Modifications. G. Moore (PI). $30,000 External contract.
USDA National Institute of Food and Agriculture (7/06-6/11) Efficient Irrigation for Water Conservation in the Rio Grande Basin. B. Harris (PI) and 29 co-PI’s, including G. Moore. Six separate awards totaling $6,250,009: 2005 ($1,388,981), 2006 ($1,548,069), 2008 ($1,151,931), 2009 ($1,081,453), and 2010 ($1,079,575). Congressional appropriations. Annually, submit internal competitive proposals to B. Harris.
US Department of Energy, National Institute for Climate Change Research. (7/07-6/11) Woody Plant Encroachment into Karst Terrain: Implications for Regional Cycles of Carbon, Water and Energy. J. Heilman (PI), K. McInnes, M. Litvak, and G. Moore. $282,000. External competitive.
GRADUATE STUDENT PROGRAM
Total Students by Degree Total Completed Graduate Degree Chair or Co-chair Member Chair or Co-chair Member Ph.D. 2 8 0 1 Master of Science 4 14 4 14 Masters (non-thesis option) 1 6 2 6 Total: 7 28 6 21
Chair or Co-chair Ph.D. Master of Science Masters Non-thesis Rosaleen March A 3Fan Li 2013 Blake Alldredge 2010 Caitlyn Cooper A 2Li Kui 2011 Jean Devlin 2013 1David Watts 2009 David Barre 2009
Committee Member Ph.D. Master of Science Masters Non-thesis Alyson McDonald 2010 Rebecca Pizano 2013 Kathryn Herzog 2013 Pablo Delclos A Natanya Hayden 2011 Stephanie Powers 2010 Michelle James Tracy A Ross Klein 2010 Hollingsworth 2009 Steve Potter A Leonardo Rivera 2010 Christina Bernal 2008 Josh Gunn A Lindsey Staszek 2010 Steve Bereyso 2007 Ray Kamps A Allison Parnell 2010 Richard Wilson 2006 Adam Lee A Ronald Navarrete 2009 Haly Neely A Constanza Cosimano 2009 Clint Robertson 2007
4.5.4 Committee Member – Outside TAMU
Master of Science A - Currently active/enrolled 1 aMatthias Vanduren A Enrolled in PhD program at Penn State University 2 aKelly Goodsheller 2010 Enrolled in PhD program at SUNY Syracuse aHeather Dammeyer 2010 3Enrolled in PhD program at University of Houston bIris Pit 2010 bRebecca Elkington 2009 aLeuven University, Belgium – Thesis reviewer cHloniphani Mthunzi 2009 bTexas State University cUtrecht University, Netherlands - Thesis reviewer dUniversity of Fort Hare, South Africa - Thesis reviewer
SYNERGISTIC ACTIVITIES Faculty member of interdisciplinary interdepartmental research and graduate programs in Ecology and Evolutionary Biology, Molecular and Environmental Plant Sciences, and Water Management and Hydrological Sciences Undergraduate Research: Mentoring team member for the “Cloud Forest Ecohydrology” project, a NSF Research Experience for Undergraduates in Costa Rica. Professional Service - Conferences: Convening AGU Fall Meeting 2012 session on “Ecohydrology of Tropical Forests: Processes, Feedbacks, and Global Change.” Project leader for undergraduate high impact learning activity related to “Bastrop Fire Restoration” as part of the campus-wide ‘Integration of Multidisciplinary Research and Creative Activities into the Learning Experience’ program at Texas A&M University. Currently advisor for one PhD student (USDA National Needs PhD Fellow in Forest Resources and Global Change) working on remote sensing of tree mortality and two masters students. Also hosting one visiting masters student from Leuven University in Belgium. Professional Service - Reviews: Reviewer for Journal of Applied Ecology, Ecohydrology, Forest Ecology and Management, Hydrological Processes, Journal of Arid Environments, Journal of Hydrology, Oecologia, Physiologia Plantarum, Tree Physiology, Wetlands, and 23rd Annual Tall Timbers Fire Ecology Conference Proceedings.
POTENTIAL CONFLICTS OF INTEREST Collaborators: Barbara J. Bond, Oregon State University; Sam Brody, Texas A&M University- Galveston; Tanya Doody, CSIRO Australia; John Goolsby, USDA-ARS, Weslaco; Chris Houser, Texas A&M University; Kevin Hultine; Northern Arizona University; Julia A. Jones, Oregon State University; Marcy Litvak, University of New Mexico; Rick Meinzer, US Forest Service; Kevin McInnes, Texas A&M University; Pamela Nagler, US Geological Survey; M. Keith Owens, Texas Agricultural Experiment Station; Karin Rebel, Utrecht University; George Rogers, Texas A&M University; Robert Washington-Allen, Texas A&M University; David Watts, Penn State University; Jason West, Texas A&M University Graduate and Postdoctoral Advisors: Barbara J. Bond, PhD Advisor, Oregon State University; Julia A. Jones, PhD Advisor, Oregon State University; M. Keith Owens, Postdoc Advisor, Oklahoma State University (formerly Texas A&M AgriLife Research) Students Supervised at TAMU: Rosaleen March PhD (current), David Barre, MS; David Watts, MS; Li Kui, MS; Fan Li, MS; Blake Alldredge, Masters of Water Management; Jean Devlin, MS (current); Christina Bishop, MS (current), Deseri Nally, Undergraduate Research Scholar
January 2013 CURRICULUM VITAE NAME: John Emerson Mullet Department of Biochemistry & Biophysics Texas A&M University College Station, Texas 77843 (979) 845-0722, [email protected]
EDUCATION: B.S., Biology, Colgate University, Hamilton, New York, 1972-1976. Ph.D., Cell Biology, University of Illinois, Champaign, 1976-1980.
AWARDS: Phi Beta Kappa, Summa Cum Laude Faculty Distinguished Achievement Award Christine Richardson Professor, 1991-1996 Perry Adkisson Chair in Agricultural Biology, 1996 - present
EXPERIENCE: Director, Institute for Plant Genomics and Biotechnology, 1999-2005 Director, Crop Biotechnology Center, 1993-1999 Professor, Department of Biochemistry and Biophysics, 1991- present Associate Professor, Department of Biochemistry and Biophysics, 1986 Assistant Professor, Department of Biochemistry & Biophysics, 1983 NIH Postdoctoral Fellow, Rockefeller University, 1980-1983 NATO research at the CNRS, France, 1980; Japan, 1978
PROFESSIONAL, SCIENTIFIC AND HONOR SOCIETY ACTIVITIES: NSF - Developmental Biology Panel, 1989-1992 NIH - Molecular Cytology Grant Panel, 1987, 1995, 1996 DOE - Energy Biosciences Grant Panel, 1987, 1989 USDA - CRGO Photosynthesis Panel Member, 1985, 1986 NRI Rice Genomics panel, 2003; NRI panel, 2004, 2006 American Society of Plant Physiologists; Biochemistry and Molecular Biology Member of Texas A&M Plant Physiology, Genetics, Molecular and Cell Biology Faculty Editorial Board - Journal of Plant Physiology, 1989-1992 Co-Editor - The Plant Cell, 1996-1998 American Society of Plant Physiology Board of Trustees, 1993-1996 National Agricultural Biotechnology Committee Representative, 1995-2001 Noble Foundation, Non-Resident Fellow, 1998-2003 Noble Foundation Board Advisory Trustee, 2004-2006
CURRENT GRANT SUPPORT: CERES (Co-PI): Designing Sorghum for Bioenergy, 9/07-9/15 Pioneer (PI): Sorghum Drought Tolerance Traits, 6/08-1/15 USDA-DOE (PI): Genomics of Energy Sorghum Biomass Accumulation, 9/10-9/13 DOE (Co-PI): Systems Level Regulation of Rhythmic Growth Rate and Biomass Accumulation in Grasses, 10/11-10/14 DOE (PI): Engineering Energy Sorghum Feedstocks, 12/12-12/17
PUBLICATIONS (Total 167):
Evans, J.E., McCormick, R.F., Morishige, D., Olson, S.N., Weers, B.D., Hilley, J., Klein, P., Rooney, W., Mullet, J.E. (2013) Extensive DNA Polymorphism in Diverse Sorghum Genomes. PLOS One (Submitted).
Rebecca L. Murphy, Daryl T. Morishige, Jeff A. Brady, William L. Rooney, Shanshan
Yang, Patricia E. Klein, John E. Mullet (2013) Ghd7 (Ma6) Increases Energy Sorghum Biomass by Repressing Flowering in Long Days Through Coincident Light and Clock Signaling. Plant Genome (Submitted).
Morishige, D.T., Klein, P.E., Hilley, J.L., Sahraeian, S.M.E., Sharma, A., and Mullet, J.E. (2012) Digital Genotyping of Sorghum – A Diverse Species with a Repeat-Rice Genome. BMC Genomics (Accepted)
Olson, Sara, Kimberley Ritter, Jim Medley, Ted Wilson, William Rooney, and John E. Mullet (2013) Energy Sorghum Hybrids: Functional Dynamics of High Nitrogen Use Efficiency. Biomass and Bioenergy 56: 307-316.
Kapanigowda, M.H., Payne, W.A., Rooney, W.L., and J.E. Mullet (2012) Transpirational efficiency in sorghum [Sorghum bicolor (L.) Moench) for increased water-use efficiency and drought tolerance. Journal of Arid Land Studies 22, No 1.
Olson, S.N., Ritter, K., Rooney, W., Kemanian, A., McCarl, B.A., Zhang, Y., Hall, S., Packer, D., and Mullet, J. (2012) High Biomass Yield Energy Sorghum: Developing a Genetic Model for C4 Grass Bioenergy Plants. Biofuels, Bioproducts and Biorefining 6: 640-655 (DOI: 10:1002/bbb)
Murphy, B., Klein, R., Morishige, D., Brady, J.A., Rooney, W. L., Miller, F.R., Dugas, D.D., Klein, P., Mullet, J.E. (2011) Coincident Clock and Light Regulation of Pseudo Response Regulator Protein 37 PRR37 Controls Photoperiodic Flowering in Sorghum. PNAS 108: 16469-16474
Borrell, A., Jordan, D., George-Jaeggli. B., Mace, E., Hamlet, S., Hammer, G., Mclean, G., Van Oosterom, E., Hunt, C., Klein, P., Mullet. J.E. (2010) Fine Mapping Candidate Genes for ‘Stay-Green’ in Sorghum; Simplicity Beyond Complexity? Summer Crops Research Conference.
Murray, S.C., Sharma, A., Rooney, W.L., Klein, P., Mullet, J.E., Mitchell, S.E., Kresovich, S. (2008) Genetic Improvement of Sorghum as a Biofuel Feedstock: I. QTL for Stem Sugar and Grain Nonstructural Carbohydrates. Crop Science 48: 2165-2179.
Murray, S.C., Rooney, W.L., Mitchell, S.E., Sharma, A., Klein, T., Mullet, J.E., Kresovich, S. (2008) Genetic Improvement of Sorghum as a Biofuel Feedstock: II. QTL for Stem and Leaf Structural Carbohydrates. Crop Science 48: 2180-2193
Klein, R.R., Mullet, J.E., Jordan, D.R., Miller, F.R., Rooney, W.L., Menz, M.M., Franks, C.D., Klein, P.E. (2008) The Effect of Tropical Sorghum Conversion and Inbred Development on Genome Diversity as Revealed by High-Resolution Genotyping. Plant Genome 48: S12-26.
Rooney, W.L., Blumenthal, J., Bean, B., Mullet, J.E. (2007) Designing sorghum as a dedicated bioenergy feedstock. Biofuels, Bioproducts and Biorefining 1:147-157.
Yim, Y.-S., Moak, P., Shachez-Villeda, H., Musket, T.A., Close, P., Klein, P.E., Mullet, J.E., McCullen, M.D., Fang, A., Schaeffer, M.L., Gardiner, J.M., Coe, E.H., Davis, G. L. (2007) A BAC pooling strategy combined with PCR-based screenings in a large, highly repetitive genome enables integration of the maize genetic and physical maps. BMC Genomics 8:47-56.
Harris, K., Subudhi, P.K., Borrell, A., Jordan, D., Rosenow, D., Nguyen, H., Klein, P., Klein R., Mullet, J.E. (2007) Sorghum stay-green QTL individually reduce post- flowering drought-induced leaf senescence. J. Exp. Biol. 58: 327-338.
Gualtieri, R.G., Conner, J.A., Morishige, D.T., Moore, D.L., Mullet, J.E., Ozias-Akins, P. (2006) A Segment of the Apospory-Specific Genomic Region Is Highly Microsyntenic Not Only between the Apomicts Pennisetum squamulatum and Buffelgrass, But Also with a Rice Chromosome 11 Centromeric-Proximal Genomic Region. Plant Physiology 140:963-971
Kim, J.-S., Islam-Faridi, M.N., Klein, P.E., Stelly, D.M., Price, H.J., Klein, R.R., Mullet, J.E. (2005) Comprehensive Molecular Cytogenetic Analysis of Sorghum Genome Architecture; Distribution of Euchromatin, Heterochromatin, Genes and Recombination in Comparison to Rice. Genetics 171:1963-1976.
Pratt, L.H., Liang, C., Shah, M., Sun, F., Wang, H., Reid, St. P., Gingle, A.R., Paterson, A.H., Wing, R., Dean, R., Klein, R., Nguyen, H.T., Ma, H-M., Zhao, X., Morishige, D.T., Mullet, J.E., and Cordonnier-Pratt, M.-M. (2005) Sorghum Expressed Sequence Tags Identify Signature Genes for Drought, Pathogenesis, and Skotomorphogenesis from a Milestone Set of 16,801 Unique Transcripts. Plant Physiol. 139: 869-884.
Buchanan, C. D., Lim, S., Salzman, R., Giannis, Klein, R., Cordonnier-Pratt, M.M., Pratt, L.H., Klein, P.E., Mullet, J.E. (2005) Sorghum bicolor’s transcriptome response to dehydration, ABA, and high salt. Plant Mol. Biol. 58: 699-720.
Toward Sequencing the Sorghum Genome. A U.S. National Science Foundation- Sponsored Workshop Report (2005) Plant Physiol. 138: 1898-1902.
Salzman, R.A., Brady, J., Buchanan, C., Klein, P., Klein, R., Pratt, L, Cordonnier-Pratt, M.M., Mullet, J.E. (2005) Transcriptional profiling of sorghum induced by methyl jasmonate, salicylic acid and aminocyclopropane carboxylic acid reveals cooperative regulation and novel gene responses. Plant Physiol. 138: 352-368.
Klein, R.R., Klein, P.E., Mullet, J.E., Minx, P., Rooney, W.L., Schertz, K.R. (2005) Fertility restorer locus RF1 of sorghum (Sorghum bicolor L.) encodes a pentacotripeptide repeat protein not present in the syntenic region of rice chromosome 12. Theoretical and Applied Genetics 111: 994-1012.
Kim, J.S., Klein, P.E., Klein, R.R., Price, H.J., Mullet, J.E., Stelly, D.M. (2005) Chromosome identification and nomenclature of Sorghum bicolor. Genetics 169:1169- 1173.
Kim, J-S., Klein, P.E., Klein, R.R., Price, J.H., Mullet, J.E., Stelly, D.M. (2005) Molecular cytogenetic maps of sorghum linkage groups 2 and 8. Genetics 169: 955-965.
Buchanan, C.D., Klein, P.E., Mullet, J.E. (2004) Phylogenetic analysis of 5’-non-coding regions from the ABA responsive RAB gene family of sorghum, maize and rice provides insight into the composition, organization and function of cis-regulatory modules. Genetics 10: 1639-1654.
Menz, M.A., Klein, R.R., Unruh, N.C., Rooney, W.L., Klein, P.E., Mullet, J.E. (2004) Genetic diversity of public inbreds of sorghum using mapped AFLP and SSR markers. Crop Science 44:1236-1244.
Akiyama, Y., Conner, J.A., Goel, S., Morishige, D., Mullet, J.E., Hanna, W.W., Ozias- Akins, P. (2004) High resolution physical mapping by FISH reveals extensive chromosomal heteromorphism and demarcation by repetitive sequences of the genomic region associated with apomixis in Pennisetum squamulatum. Plant Physiol. 134:1733- 1741.
Kim, J., and J.E. Mullet (2003) A Mechanism for Light-Induced Translation of the rbcL mRNA Encoding Large Subunit of Ribulose-1.5-bisphosphate Carboxylase in Barley Chloroplasts. Plant Cell Physiol. 44:491-499.
Klein, P.E., Klein, R.R., Vrebalov, J., Mullet, J.E. (2003) Sequence-based alignment of sorghum chromosome 3 and rice chromosome 1 reveals extensive conservation of gene order and one major chromosomal rearrangement. The Plant Journal 34:605-621.
Dahlberg, J.A., Zhang, X., Hart, G.E., Mullet, J.E. (2002) Comparative assessment of variation among sorghum germplasm accessions using seed morphology and RAPD measurements. Crop Science 42:291-296.
Morgan, P.W., Finlayson, S.A., Childs, K.L., Mullet, J.E., Rooney, W.L. (2002) Opportunities to improve adaptability and yield in grasses: lessons from sorghum. Crop Sci. 42: 1791-1799.
Program Director/Principal Investigator (Last, First, Middle): Patil, Bhimanagouda S.
BIOGRAPHICAL SKETCH Provide the following information for the key personnel and other significant contributors in the order listed on Form Page 2. Follow this format for each person. DO NOT EXCEED FOUR PAGES.
NAME POSITION TITLE Bhimanagouda S. Patil Professor and Texas A&M AgriLife Fellow eRA COMMONS USER NAME (credential, e.g., agency login) Director, Vegetable and Fruit Improvement Center Bpatil EDUCATION/TRAINING (Begin with baccalaureate or other initial professional education, such as nursing, and include postdoctoral training.) DEGREE INSTITUTION AND LOCATION YEAR(s) FIELD OF STUDY (if applicable) University of Agricultural Sciences, India B.S. 1984 Agriculture University of Agricultural Sciences, India M.S. 1986 Horticulture Texas A&M University, College Station, Texas Ph.D. 1994 Horticulture Washington State University, Prosser, WA Postdoctoral 1994-95 Horticulture University of California, Parlier, CA Postdoctoral 1996-97 Horticulture ______A. Personal Statement
Dr. Patil has been actively involved in both research and educational activities related to global level ‘Foods for Health’. His research, in collaboration with trans-disciplinary scientists, related to bioactive-derived assays led to isolation and characterization of certain bioactive compounds in citrus and turmeric and other vegetables. His research is also focused on pre and postharvest effects on bioactive compounds in citrus, onion and recently his work is focused on other vegetables, fruits and spices including turmeric. He works with 40 VFIC industry members such as seed companies (Monsanto, Lark Seeds), retailers and wholesalers (HEB, Kroger), processors (Campbell Soup Company, Tropicana Nutrition Institute [Pepsico Inc], Beverage Institute of Health and Wellness [Coca-Cola] and Texas Citrus Exchange), and other commodity groups. He has published extensively in scientific papers in peer-reviewed journals, editor reviewed proceedings, book chapters, edited a book. He has extensive experience in handling and implementation of multi-state and multi- disciplinary grants. For example, he was the lead PI on USDA-IFAFS grant which was focused on multi-state effort to isolate and characterize citrus limonoids and understand their biological activities.
B. Positions and Honors Positions and Employment: 2005 – Present Director, Vegetable & Fruit Improvement Center, TAMU Horticulture 2008- Present Professor, Department of Horticultural Sciences, TAMU 2005 –2008 Associate Professor, Dept. of Horticultural Sciences, TAMU 2002 - 2004 Associate Director, Vegetable & Fruit Improvement Center, TAMU 2002 – 2004 Associate Professor, Texas A&M University-Kingsville, TX 1997 – 2002 Assistant Professor, Texas A&M University-Kingsville, TX 1996 – 1997 Faculty (part time), California State University, Fresno, CA 1992 – 1994 Research Assistant/Teaching Assistant, Texas A&M University, TX 1989 – 1991 Assistant Professor, University of Agri., Sciences, Dharwad, India Other Experience and Professional Membership 2009- Co-convenor, Third Int. Symposium on Human Health Effects of FAV, Avignon, France 2008- Co-chair (goal-3)- National Vegetable Crop Initiative- Provide white paper to SCRI 2007-08 Chair, Division, Agri. Food Chemistry (Centennial celebration), ACS 2008 Chair, International Symp Pre & Post Harvest effects on Bioactive Compounds-AGFD-ACS 2006-07 Program Chair, Division, Agri Food Chemistry, American Chemical Society 2007- Chair, Second International Symposium on Human Health Effects of FAV, Houston, TX PHS 398/2590 (Rev. 11/07) Page Biographical Sketch Format Page Program Director/Principal Investigator (Last, First, Middle): Patil, Bhimanagouda S. 2005 Chair, Colloquia “Role of Hort. in Foods for Health”, ASHS 2005 Co-Chair, Int. Sym. on Human Health Effects of FAV, Quebec city, Quebec, Canada 2004 Chair, International Sym. “Potential Health Benefits of Citrus”-AGFD-ACS
Honors: 2013- Distinguished Service Award-American Chemical Society- Division of Agriculture and Food Chemistry 2013- American Society for Horticultural Sci. Outstanding Graduate Education Award 2013- Dean’s Outstanding Achievement-Research, Texas A&M University 2010 Vice Chancellor Research Excellence (on campus), Texas A&M University, Texas AgriLife 2009 Fellow, Division of Agri. and Food Chemistry, American Chemical Society 2009 Fellow, American Society for Horticultural Sciences 2009 Fellow, Texas AgriLife, Texas A&M University, College Station, TX 2005 Exceptional Research Productivity Award, Texas A&M University-Kingsville 2005 Karnataka State Rajoythsava Award-Award was given by the Governor of the State 2004 Outstanding Young Scientist Award, Div of Ag & Food Chemistry, Amer Chem Society 2003 Paul Harris Fellow (Rotary Foundation) 2003 Outstanding Young Scientist Award (Ass of Ag Sci. of Indian Origin, ASA, SSSA, & CSA) 2003 Research and Excellence Award (College of Agriculture & Human Sciences, TAMUK) 2002 Achievement Excellence Award, India Association of the Rio Grande Valley 2001 Outstanding Teacher Award, TAMU-Kingsville, Dept of Agronomy & Resource Sciences
C Selected Peer-reviewed Publications ( selected peer reviewed publications out of total 146)
1. Vikram, A.; Jayaprakasha, G.K.; Uckoo, R. M. and Patil, B.S. Inhibition of Escherichia coli O157:H7 motility and biofilm by β-Sitosterol glucoside, Biochimica et Biophysica Acta, 2013, 1830, 5219-5228, PMID:24013126 2. Patil, J. R.; Jayaprakasha, G. K.; Kim, J.; Murthy, K. N. C.; Chetti, M. B.; Nam, S.-Y., and Patil, B. S., 5- Geranyloxy-7-methoxycoumarin inhibits colon cancer (SW480) cells growth by inducing apoptosis. Planta Med 2013, 79, 219-26, PMID: 23345169. 3. Vikram, A.; Jayaprakasha, G. K.; Jesudhasan, P. R.; Pillai, S. D., and Patil, B. S., Obacunone represses Salmonella pathogenicity islands 1 and 2 in an envZ-dependent fashion. Appl. Environ. Microbiol. 2012, 78, 7012-7022, PMID: 22843534. 4. Kim, J.; Jayaprakasha, G. K*.; Vikram, A., and Patil, B. S., Methyl nomilinate from citrus can modulate cell cycle regulators to induce cytotoxicity in human colon cancer (SW480) cells in vitro. Toxicol. In Vitro 2012, 26, 1216-1223, PMID: 22728232. 5. Kim, J.; Jayaprakasha, G. K.; Uckoo, R. M., and Patil, B. S., Evaluation of chemopreventive and cytotoxic effect of lemon seed extracts on human breast cancer (MCF-7) cells. Food Chem. Toxicol. 2012, 50, 423- 430, PMID: 22056335. 6. Murthy, K.N.C.; Jayaprakasha, G. K., and Patil, B. S., D-limonene rich volatile oil from blood oranges inhibits angiogenesis, metastasis and cell death in human colon cancer cells. Life Sci. 2012, 91, 429-439, PMID: 22935404. 7. Chebrolu, K. K.; Jayaprakasha, G. K.; Jifon, J., and Patil, B. S., Production system and storage temperature influence grapefruit vitamin C, limonoids, and carotenoids. J. Agric. Food Chem. 2012, 60, 7096-7103, PMID: 22742827. 8. Bae, H.; Jayaprakasha, G. K.; Jifon, J., and Patil, B. S., Extraction efficiency and validation of an HPLC method for flavonoid analysis in peppers. Food Chem. 2012, 130, 751-758. 9. Bae, H.; Jayaprakasha, G. K.; Crosby, K.; Jifon, J. L., and Patil, B. S., Influence of extraction solvents on
PHS 398/2590 (Rev. 11/07) Page Continuation Format Page Program Director/Principal Investigator (Last, First, Middle): Patil, Bhimanagouda S. antioxidant activity and the content of bioactive compounds in non-pungent peppers. Plant Foods Hum. Nutr. 2012, 67, 120-128, PMID: 22569831. 10. Vikram, A.; Jesudhasan, P. R.; Jayaprakasha, G. K.; Pillai, S. D., and Patil, B. S., Citrus limonoids interfere with Vibrio harveyi cell-cell signaling and biofilm formation by modulating the response regulator LuxO. Microbiology 2011, 157, 99-110, PMID: 20864476. 11. Uckoo, R. M.; Jayaprakasha, G. K., and Patil, B. S., Rapid separation method of polymethoxyflavones from citrus using flash chromatography. Sep. Purif. Technol. 2011, 81, 151-158. 12. Uckoo, R. M.; Jayaprakasha, G. K.; Nelson, S. D., and Patil, B. S., Rapid simultaneous determination of amines and organic acids in citrus using high-performance liquid chromatography. Talanta 2011, 83, 948- 954, PMID: 21147342. 13. Kim, J.; Jayaprakasha, G. K.; Muthuchamy, M., and Patil, B. S., Structure-function relationships of citrus limonoids on p38 MAP kinase activity in human aortic smooth muscle cells. Eur. J. Pharmacol. 2011, 670, 44-49. 14. Chaudhary, P.; Jayaprakasha, G. K.; Porat, R., and Patil, B. S., Degreening and postharvest storage influences 'Star Ruby' grapefruit (Citrus paradisi Macf.) bioactive compounds. Food Chem. 2012, 135, 1667-1675, PMID: 22953908. 15. Vikram, A.; Jesudhasan, P. R.; Jayaprakasha, G. K.; Pillai, S. D.; Jayaraman, A., and Patil, B. S., Citrus flavonoid represses Salmonella pathogenicity island 1 and motility in S. Typhimurium LT2. Int. J. Food Microbiol. 2011, 145, 28-36, PMID: 21168230. 16. Uckoo, R. M.; Jayaprakasha, G. K., and Patil, B. S., Rapid separation method of polymethoxyflavones from citrus using flash chromatography. Sep. Purif. Technol. 2011, 81, 151-158. 17. Uckoo, R. M.; Jayaprakasha, G. K.; Nelson, S. D., and Patil, B. S., Rapid simultaneous determination of amines and organic acids in citrus using high-performance liquid chromatography. Talanta 2011, 83, 948- 954, PMID: 21147342. 18. Kim, J.; Jayaprakasha, G. K.; Muthuchamy, M., and Patil, B. S., Structure-function relationships of citrus limonoids on p38 MAP kinase activity in human aortic smooth muscle cells. Eur. J. Pharmacol. 2011, 670, 44-49. 19. Jayaprakasha, G., Jadegoud, Y., Gowda, G., and Patil, B.S. 2010. Bioactive compounds from sour orange inhibit colon cancer cell proliferation and induce cell cycle arrest. J. Agr. Food Chem. 58:180-186.PMI: 20000570 20. Jayaprakasha, G.K., Dandekar, D.V., Tichy, S.E., Patil, B.S. 2010, Simultaneous separation and identification of limonoids from citrus using Liquid chromatography-Collision induced dissociation mass spectra, Journal of Separation Science, 2010 34(1): 2-10. PMI: 21171170 21. Leonardi, T., J. Vanamala, S.S. Taddeo, L.A. Davidson, M.E. Murphy, B.S. Patil, N. Wang, R.J. Carroll, R.S. Chapkin, J.R. Lupton, N.D. Turner. 2010. Apigenin and naringenin suppress colon carcinogenesis through the aberrant crypt stage in azoxymethane-treated rats. Experimental Biology and Medicine 235:710-717. PMCID:PMC 2885760 22. Uckoo, R., Jayaprakasha,G.K. Nelson, S.D., Patil, B.S. 2011, Simultaneous quantification of amines and organic acids in citrus using a rapid high-performance liquid chromatography method, Talanta, 83:948- 954.PMI: 21147342 23. Patil, B.S. G.K. Jayaprakasha, K.N.C Murthy, A. Vikram. 2009. Bioactive compounds: Historical Perspectives, Challenges and Opportunities. J. Ag Food Chem. 57:8142-8160, PMI: 19719126 24. Perez, P.L., Jayaprakasha, G.K., Cadena, A., Martinez, E., Ahmad, H., and Patil, B.S., 2010, In vivo Induction of Phase II detoxifying enzymes, Glutathione Transferase and Quinone Reductase, by Citrus triterpenoids, BMC Journal of complementary medicine and alternative, 10:51.PMCID: PMC 29544937. 25. Vikram, A., Jayaprakasha, G., Jesudhasan, P., Pillai, S., and Patil, B.S. 2010. Suppression of bacterial cell- cell signalling, biofilm formation and type III secretion system by citrus flavonoids. J. Applied Microbiology 109:515-527.PMI: 20163489 26. Vikram, A., Jesudhasan, P., Jayaprakasha, G., Pillai, B., and Patil, B.S. 2010. Grapefruit bioactive
PHS 398/2590 (Rev. 11/07) Page Continuation Format Page Program Director/Principal Investigator (Last, First, Middle): Patil, Bhimanagouda S. limonoids modulate E. coli 0157:H7 TTSS and biofilm. Intl J. Food Microbiology 140:109-116. PMI20471125
D. Research Support
1R01CA168312-01 (Chapkin) 09/01/2011 – 08/31/2016 (3 calendar) NIH/NCI, Chemoprotective effects of natural products on colonic adult stem cells. The use of highly novel, Lgr5-LacZ and Lgr5-EGFP-IRES-cre ERT2 knockin mouse models to visualize and isolate adult intestinal stem cells, examine their response to chemotherapeutic natural botanical products, and establish their stem cell-specific gene expression profile (transcriptome) Role: PI
TB-8056-08 (Patil) 06/01/2008-06/30/2011 (0.9 calender) Texas Department of Agriculture (TDA) Optimization of postharvest storage conditions to maintain fruit quality and health maintaining properties of grapefruit. No scientific or budgetary overlap with the present proposal. Role: PI
2009-34402-19831 (Patil) 09/2009-08/2012 (1.2 calender) USDA Special Grant Designing Food for Health- The major goal of this project to optimize, characterize bioactive compounds in fruits, vegetables and nuts and understand their role human health. This is multidisciplinary project with 23 scientists. No scientific or budgetary overlap with the present proposal. Role: PD
2010-34402-20875 (Patil) 09/2010-08/2013 (1.2 calender) USDA Special Grant Designing Foods for Health- The major goal of this project to optimize, characterize bioactive compounds in fruits, vegetables and nuts and understand their role human health. This is multidisciplinary project with 23 scientists. No scientific or budgetary overlap with the present proposal. Role: PD
2006-38411-17085 (Patil) 09/2006-08/2011 (1.8 calender) USDA Higher Education Challenge Grant The Science of Foods for Health: A Multi-Institutional, Multi-State Effort for Undergraduate Education- The focus is on increasing undergraduate students’ (1) interest in careers in agriculture, food science, nutrition, biochemistry, chemistry, medicine, toxicology and related interdisciplinary fields, (2) knowledge and understanding of the relationships between research findings and practical use of bioactive compounds, and (3) abilities to analyze complex information, make science-based decisions, and effectively communicate science- based knowledge. No scientific or budgetary overlap with the present proposal. Role: PD
PHS 398/2590 (Rev. 11/07) Page Continuation Format Page Curriculum Vitae
C. O. Patterson Professor Emeritus of Biology Professor Emeritus of Biotechnology, Professor Emeritus of Molecular & Environmental Plant Sciences Department of Biology, Texas A&M University College Station, Texas 77843-3258 phone (979) 845-2187 e-mail: [email protected] FAX: (979) 845-2891
EDUCATION: Postdoctorate Indiana University at Bloomington (1972-77), Microbiology Ph.D. University of Texas at Austin (1971), Zoology B.A. University of Texas at Austin (1964), Honors
ACADEMIC EXPERIENCE: 2011 - present Professor Emeritus, Department of Biology, Texas A&M University 2006 - present Professor, Department of Biology, Texas A&M University 1984 - 2006 Associate Professor, Department of Biology, Texas A&M University. 1983 - 1984 Associate Professor, Department of Biology, Texas A&M University. Director of Freshman Biology Programs 1980 - 1983 Assistant Professor, Department of Biology, Texas A&M University. Director of Freshman Biology Programs. 1977 - 1980 Assistant Professor, Division of Biological Sciences, University of Missouri. Director of Introductory Biology 1975 - 1977 Research Associate (Post-Doctoral), Department of Microbiology, Indiana University 1972 - 1975 Visiting Assistant Professor, Division of Biological Sciences, Indiana University 1971 - 1972 Instructor, Department of Zoology, University of Texas. 1970 - 1971 Teaching Assistant, Department of Zoology, University of Texas 1967 - 1970 National Science Foundation Graduate Fellow, Dept of Zoology, Univ of Texas 1966 - 1967 Teaching Assistant, Department of Zoology, University of Texas.
AREAS OF EXPERTISE AND RESEARCH EMPHASIS: Physiology and systems biology of photosynthetic microbes, including algae and cyanobacteria, photosynthetic metabolism, nutrient uptake and utilization, techniques of mass culture and cultivation.
SOCIETY MEMBERSHIPS: Phi Beta Kappa, Sigma Xi, American Society of Plant Biologists, Phycological Society of America, American Association for the Advancement of Science, National Association of Biology Teachers, Texas Academy of Science
SELECTED RECENT PUBLICATIONS AND PRESENTATIONS: C.O.Patterson: Harmful Algal Blooms: Toxic Algae and Algal Toxins. in Encyclopedia of Aquaculture, Robert Stickney, ed., John Wiley & Sons publishers, New York, pp17-25, (2000). R.D. VanPutte and C.O. Patterson: Micro-algal Plasma Membranes Purified by Aqueous Two-Phase Partitioning. Transactions of the Illinois State Academy of Science 96, 71-86 (2003). Wm. Bond, B. Briggs, F. Brown, M. Case, N. Ganguly, H.A.E. Howell, L. Kirby, C.O.Patterson, J. Schutter: The AP Vertical Teams Guide for Science. The College Board, New York, New York, 2004, 224 pages. (Authors are listed alphabetically.) C.O.Patterson et al.: Texas College Readiness Standards (Adopted by Texas Higher Education Coordinating Board, January 24, 2008) Complete list of authors at end of document. pdf version posted at
RECENT GRANTS & FUNDING RECEIVED: “Texas Collaborative for Excellence in Teacher Preparation (TxCETP)” NSF, $5,207,500. 2000-2006. Co-PIs are Mauro Castro (TAMU-Kingsville), Pam Littleton (TAMU-Tarleton), and Kit Price (TAMU-Corpus Christi). I served on the steering committee for the project, and was team leader for the College Station campus. “Writing for Assessment and Learning in Science (WALS) -- Application of the Calibrated Peer Review System for Biology, Mathematics, and Physics.” NSF-DUE, $481,850, 2003-2007. Dr. Nancy Simpson (Math), Dr. Michael Stecher (Math), Dr. Lewis Ford (Physics), and I are Co-PIs on this project. "Development of College Readiness Standards for Texas High School Curriculum." Texas Higher Education Coordinating Board - Texas Education Agency. $25,000, 2007. "Bioreactor Design and Testing for Biofuel Production by Photosynthetic Microbes" Harizan Venture Capital Investments. $35,000, 2006 - present
AWARDS RECEIVED: Distinguished Achievement Award for Excellence in Teaching, College of Science, TAMU, 1986. Texas A&M University Honors Program Teacher/Scholar Award, 1988. College Board Special Recognition Award for contributions to excellence in education and collaboration among school and college faculty, 1997 Distinguished Achievement Award for Excellence in Teaching, College of Science, TAMU, 1999. Distinguished Achievement Award for Excellence in Teaching, University-wide award, TAMU, 2005.
RECENT SERVICE: Referee (manuscript reviewer), Journal of Phycology, Plant Physiology, Texas Journal of Science, etc. 1976-present. Referee (manuscript reviewer for various new textbooks) for MacMillan Publishers, McGraw-Hill Book Company, Addison-Wesley Publishing Company., Prentice-Hall, Inc., Scott-Foresman, Inc., Benjamin Cummings, Norton, Brooks-Cole Publishers, etc., 1975-present. Referee (reviewer) for proposals to Cooperative Grants Program of the U.S. Civilian Research and Development Foundation (CRDF), 2001-2003. Texas Junior Science Bowl, question writer, question reviewer/editor, judge, 2001- 2005. Chairman, Awards Committee of the Southwest Region of the College Board, 2000-2002. Master of Ceremonies for Awards Banquet, Albuquerque, 1 February 2001,and again at Houston, 7 February 2002. Workshops for Advanced Placement Biology Teachers, sponsored by Educational Testing Service and College Board. Trained high school teachers in techniques of chloroplast isolation, measurement of Hill Reaction activity, use of computers in biology classrooms, simulations of DNA fingerprinting, analysis of water potential in biological systems, and other teaching techniques. Austin, Texas, 23-24 July 1989; Corpus Christi, Texas, 9-10 March 1990; Austin, 25-26 July 1990; Dallas, 12-13 April 1991; Austin, 25-26 July 1991; Tulsa, Oklahoma, 5-6 February 1997; Houston, 17 February 1997; Santa Fe, New Mexico, 27 February - 2 March 1997, Dallas, 23-24 June 1998, College Station. Texas, 10 February 2001, San Antonio, 21-22 February 2003, Houston, 17 November 2004, San Antonio, 2 November 2005. Workshops for Advanced Placement Biology Teachers, sponsored by TAMU and The College Board. Trained high school teachers in all aspects of teaching college-level biology course in the high-school setting. Texas A&M University, 25-30 June 1995, 15-19 July 1996, 7-18 July 1997, 6 - 17 July 1998, 5-9 July 1999, 17-21 July 2000, 16-20 July 2001, 15-19 July 2002, 30 June- 4 July 2003, 19-23 July 2004, 18-22 July 2005, 17 - 21 July 2006, 16 - 20 July 2007, 14-18 July 2008. Workshops for PreAP Science Teachers, sponsored by TAMU and The College Board. Trained middle school and high school teachers to prepare students for entry into AP courses. Texas A&M University, 13-17 July 1998, 28-30 June 2004, 1-5 August 2005, 24 - 26 July 2006. National Advisory Board for the College-Level Examination Program (CLEP) in Natural Science. 2002-2008. National Advisory Board for the College-Level Examination Program (CLEP) in Biology, 2002-2008. Chair of this committee, 2004-2008. Texas Science Olympiad, question writer and judge, 2004-2005. Judge, Siemens-Westinghouse Science Talent Search, 2004 – present. Question writer/editor for various national/international examination programs including SAT, GRE Subject exam in Biology, Praxis Teacher Certification exams, etc, etc. 2005 - present. Search Committee for Head of the TAMU Department of Biology 2007 - 2008 Science Vertical Teams Committee, Chair, 2006 - 2008. This is a project to revise high school science curricula, jointly sponsored by Texas Education Agency and Texas Higher Education Coordinating Board. Chairman of the Science Curriculum Section Commission for a College-Ready Texas, 2007 - 2008. appointed by Governor Rick Perry, State of Texas. Science Vertical Teams Committee -- development and dissemination of College-Ready Exercises, Assignments, and Assessments. Continuing with the project to revise high school science curricula, jointly sponsored by Texas Education Agency and Texas Higher Education Coordinating Board. 2009 - present. Community College Symposium for Mathematics and Science Faculty, sponsored by Texas Higher Education Coordinating Board, Austin, 24-25 September, 2009. Second keynote address: College Readiness Activities and Assessment. College Readiness Activities and Assessment Pilot Kick-off Conference. Austin, 13 October, 2009. Texas Higher Education Coordinating Board workshop to introduce the newly-written exercises for college readiness (CRAs). Keynote address and lead presenter for hands-on try-outs and review of the materials.
Curriculum Vitae–William A. Payne
Current Positions: Director, CGIAR Research Program on Dryland Systems, International Center for Agricultural Research in the Dry Areas http://drylandsystems.cgiar.org/
Professor of Crop Physiology, Texas A&M University
As Director of the CGIAR Research Program on Dryland Systems, William (Bill) Payne is in charge of a multi-institutional, $150 million research endeavor aimed at improving food security and livelihoods in the dry areas of the world, which cover more than 40 percent of the world’s land area and are home to more than one-third of the global population. The Dryland Systems program is the first-ever global-scale research program to use an innovative, integrated agro-ecosystem approach involving multi-stakeholders to improve agricultural productivity, protect the planet, and alleviate poverty and hunger in dry areas. As Professor of Crop Physiology in the Department of Soil and Crop Sciences of Texas A&M University, he has mentored dozens of graduate students, postdoctoral scientists, and visiting scientists from many countries. He has held numerous leadership roles at the state, national and international level, and advised charitable foundations, national and international agencies, publishers, foreign governments, and universities on science and agriculture. His research has focused on optimization of water use in cropping systems through introduction of new species, improved cultivars, and appropriate soil and crop management suited to local conditions. Dr. Payne has published on such topics as alternative crops, systems agronomy, cropping system sustainability, genetic diversity, water- and nutrient-use efficiency, soil hydrology and plant stress physiology. He has worked with a variety of crops, including sorghum, wheat, barley, pearl millet, cowpea, corn, cotton, lupin, and peanuts. He has been invited to speak and write on diverse subjects including soil and water conservation, plant adaptation to low nutrient and water availability, improving plant drought tolerance and water-use efficiency, biofuels, food security, and sustainability of agricultural systems. Dr. Payne has authored or co-authored more than 120 journal articles and book chapters, and edited three books. He has been named fellow of five international scientific societies.
Contact Information: ICARDA-Ethiopia International Center for Agricultural Research in the Dry Areas P.O. Box 5689, Addis Ababa, Ethiopia Telephone +251 11 617 2285 Fax +251 11 617 2001 Email: [email protected]
Areas of Expertise: Crop physiology, systems agronomy, soil physics and hydrology, soil fertility and plant nutrition, international agriculture, sustainability, agro- climatology, modeling, alternative crops, crop diversification, and research administration and planning.
Education: B.A. Wabash College Chemistry 1981 M.S. Texas A&M, TX Soil Science 1988 Ph.D. Texas A&M, TX Soil Science 1990
Previous positions: Assistant Director for Research, N. Borlaug Institute 2008-2012 1 for International Agriculture, Texas A&M University, College Station, TX Liaison Scientist, McKnight Foundation 2008-2011 Professor, Crop Physiology, TAMU Bushland TX 2005-2008 Adjunct Professor, West Texas A&M University 2000-2008 Assoc. Professor, Crop Physiology, TAMU Bushland 2000-2005 Assist. Professor, Dryland Systems Agronomy, 1997-2000 Oregon State Univ., Pendleton Principal Scientist, Crop Physiology, ICRISAT Niger 1991-1996 Global Team Leader, Integrated Systems Project 1995-1996 for Asia and Africa Agronomy Division Coordinator (Africa) 1995-1996 Postdoctoral Scientist, Soil physics of compacted 1990-1991 clay liners of landfills. Texas A&M University
Languages: Fluent in English and French. Conversational in Hassiniya Arabic.
Honors and Awards: Fellow, Crop Science Society of America (2013) High Impact Paper Award from the Chinese Journal of Integrative Agriculture for article “Canopy temperature depression as a potential selection criterion for drought resistance in wheat” (2012; shared with 3 other authors) Fellow, Soil Science Society of America (2009) Sigma Xi Honorary Research Society (2007) Fellow, American Association for the Advancement of Science (2006) Fellow, American Society of Agronomy (2006) Marquis Who’s Who in America Marquis Who’s Who in Science and Engineering
Professional Memberships:
Crop Science Society of America American Society of Agronomy Soil Science Society of America International Union of Soil Scientists American Association for the Advancement of Science Sigma Xi, Honorary International Research Society
Training: Nineteen MSc students, sixteen PhD students, seven postdoctoral scientists, and seven visiting scientists.
Editorial Board Roles:
Nature’s Reader Panel (Nature Publishing, UK), 2008-2009.
2 Technical Editor, Agronomy Journal, “Agroclimatology and Modeling,” 2002 to 2008. Associate Editor, Agronomy Journal, “Agroclimatology and Modeling,” 1998 to 2001. Agronomy Journal Editorial Board, 1998-2008. Ad-hoc Technical Editor (1998) for ASA’s Proceedings of Symposium on Crop Water Relations of Crops with Sparse Canopies.
Major Service and Professional Roles:
Scientific Advisory Committee member of United Nations Convention to Combat Desertification (UNCCD) 3rd Scientific Conference, 2014, Montpellier, France. Organizing Committee of “Desert Technology/International Conference on Arid Land” (San Antonio, Texas, November 19-22) with Japanese Association for Arid Land Studies (JAALS), Tokyo University of Agriculture, Texas A&M University, and CGIAR Program on Dryland Systems. Board of Directors, USAID-funded International Sorghum and Millet (INSTORMIL), 2008-2012-present. Board Chairman, 2012. Board of Directors, USAID-funded Peanut CRSP, 2008-2012. Board Chairman 2012. Leader for Texas A&M participation in President Obama’s Water Center of Excellence in the Middle East (USAID’s “Further Advancing the Blue Revolution”), 2011-2012 Leader for Texas A&M participation in Middle East “Water Livelihood Initiative” in cooperation with USAID, ICARDA, and four other U.S. universities, 2008-2012 External reviewer of Georgian Academy of Agricultural Sciences (2010, 2011) National Science Foundation Review Panel for Ecosystem Science and Technology Center, 2011 External examiner to Aligarh Muslim University (India), 2003-present External examiner to Faisalbad Agricultural University, Pakistan, 2010-present Liaison Scientist as consultant to McKnight Foundation’s Collaborative Crop Research Program for West Africa programs. Managed scientific aspects of 12 crop research projects with total funding of approximately $3 million/year. 2008-2011 National Scientific and Technical committee of CERRAS (Centre d'Etude Regional pour l'Amélioration de l'Adaptation a la Sécheresse, Senegal’s Ecoregional Centre for Research on Drought Adaptation) 2006-2008 Advisory member of agricultural team in South Central Iraq for USDA, June 2008 Advisory member of agricultural team for multi-provinces in Iraq, April, 2007 ASA Task Force on International Agronomy 2007-2008 Coordinator of Cropping Systems research for Federal Sorghum Initiative with Kansas State University, 2006 Coordinator for Integrated Production Systems of USDA Federal Ogallala Aquifer Initiative, 2003-2006. Board of Directors, American Society of Agronomy, 2002-2005 Scientific committee for International conference on Tropical Sandy Soil Management, Kohn Kaen, Thailand 2005 Leader of USDA/ERS mission to four China cities (Beijing, Shijiazhang, Guanzhou, and Lanzhou) 2005 3 CAB International Crop Science Advisory Board 1999-2005 Consultant to Famine Early Warning System (FEWS) of USAID for Africa, 1999 Lead ASA organizer for joint ASA/World Bank 1998 symposium “Sustainability of agricultural systems in transition.” Chairman of International Agronomy Division of American Society of Agronomy, 1997 External evaluator of Savanna Agricultural Research Institute (SARI), Tamale, Ghana, 1995.
PUBLICATIONS (Underlined names indicate former or present graduate student, postdoctoral scientist, or visiting scientist).
Books
Payne, W.A., and J. Ryan. 2010. The international dimension of the American Society of Agronomy: Past and future. 126 pp. American Society of Agronomy, Madison, WI. G.A. Peterson, W.A. Payne and P.W. Unger (ed). 2006. Dryland Agriculture Monograph. American Society of Agronomy. W.A. Payne, D.R. Keeney, and S. Rao. (ed). 2001. Sustainability of Agricultural Systems in Transition, Proc. of Int’l Symposium, October, 1998, Baltimore, Maryland. American Society of Agronomy, Madison, Wisconsin.
Book Chapters
Payne, W.A. 2014. Increasing capacity of vulnerable smallholder dryland farmers to adapt to climate change by sustainable soil management technologies. Advances in Soil Science, Taylor and Francis. Payne, W.A., and J. Ryan. 2010. The International Dimension of the American Society of Agronomy: Historical Perspective, Issues, and Challenges. pp. 91-98 In The American Society of Agronomy: 100 years of history. American Society of Agronomy, Madison, WI. Payne, W.A. 2010. Are biofuels antithetic to long-term sustainability of soil and water resources? Advances in Agronomy 105:1-46. Payne, W.A. 2010. Farming systems and food security in Sub-Saharan Africa. pp 23-56 in Food Security and Soil Quality (R. Lal and B.A. Stewart, Eds.). Advances in Soil Science, Taylor and Francis. 430 pp. Unger, P.W., W.A. Payne, and G.A. Peterson. 2006. Water Conservation and Efficient Use. p. 39-85 In G.A. Peterson, W.A. Payne and P.W. Unger (ed). Dryland Agriculture Monograph. American Society of Agronomy, Madison, WI. Payne, W.A. 2006. Dryland Cropping Systems of West and East Africa. p. 733-768 In G.A. Peterson, W.A. Payne and P.W. Unger (ed). Dryland Agriculture Monograph. American Society of Agronomy, Madison, WI. Peterson, G.A., P.W. Unger, W.A. Payne, R. Anderson and R.L. Baumhardt. 2006. Dryland Agriculture Research Issues. p. 901-908 In G.A. Peterson, W.A. Payne and P.W. Unger (ed). Dryland Agriculture Monograph. American Society of Agronomy, Madison, WI. Payne, W.A. 2003. Dryland Cropping Systems. Encyclopedia of Water Science. Marcell-Dekker. 4
Refereed Journals
Submitted
Baoua, I.B., W.A. Payne, and C. Nansen. Quantitative analysis of augmentative biological control of the millet head miner. Bulletin of Entomological Research (submitted) Verbree, D. A., C. Rudd, Qingwu Xue, M. Balota, S.R. Evett, T.A. Howell, and W.A. Payne. Thermal imaging for high-throughput field phenotyping of drought tolerance in winter wheat. Verbree, D.A., B.B. Singh, and W.A. Payne. Genetics of Shoot Drought Tolerance in Cowpea M. Kapanigowda, W.A. Payne, W. Rooney, and J. Mullet. Quantitative trait locus (QTL) mapping of transpiration ratio related to pre-flower drought tolerance in sorghum [Sorghum bicolor (L.) Moench]. Interdrought 2013. M. Kapanigowda, W.A. Payne, W. Rooney, J. Mullet, and M. Balota. Variability and heredity of gas exchange traits among recombinant lines of sorghum under heat and water stress and aphid herbivory. Plant and Soil
In Print da Silva, J. J. Dobránszki, P. Thanh Van, N. Khan, W. A. Payne. 2012. Corresponding Authors: Rules, Responsibilities and Risks. The Asian and Australasian Journal of Plant Science and Biotechnology 6:16-20. Kapanigowda, M.H., W. A. Payne, W.L. Rooney, and J.E. Mullet. 2012.Transpiration ratio in sorghum [Sorghum bicolor (L.) Moench] for increased water-use efficiency and drought tolerance. Journal of Arid Land Studies 22:175-178 Payne, William, Hamado Tapsoba, Ibrahim B. Baoua, Ba N. Malick, Mamadou N’Diaye, Clementine Dabire-Binso. 2011. On-Farm Biological Control of the Pearl Millet Head Miner: Realization of Thirty-Five Years of Unsteady Progress in Mali, Burkina Faso and Niger. International Journal of Agricultural Sustainability 9:186-193 Lone, N.A., M.R. Mir, W.A. Payne, Abdul Viqar Khan, Dilshada Tabassum, S. Mir, S.A. Sheikh, A.H. Wani and Asma Hassan. 2010. Effect of phosphorus and potassium on yield and quality characteristics of mustard. Applied Biological Research 12: 80-82 Ashraf Bhat, M., M.R. Mir, N.A. Khan, N.A. Lone, K.A. Bhat, S.M. Razvi, H. Ashraf, Nawsheeba Wani, Rizwan Rashid, S. Hayat ,W.A. Payne, Sabina Akhtar, and S.A. Wani. 2010. Review article: The role of ethrel in plant growth and development under different environmental conditions. International Journal of Current Research (In press). Lone, N.A., M.R. Mir, Abdul Viqar Khan, S.M. Razvi, Asma Hassan, S. Banday, S. Mir and W.A. Payne . 2010. Effect of applied nitrogen on photosynthesis and yield parameters of various rice cultivars. Applied Biological Research 12: 26-30. Balota, M., W. A. Payne, S. K. Veeragoni, B. A. Stewart, and D. T. Rosenow. 2010. Respiration and its relationship to germination, emergence, and early growth under cool temperatures in sorghum. Crop Science 50:1414-1422.
5 Krishnareddy, S.A. B. A. Stewart, W. A. Payne, and C. A. Robinson. 2010. Grain sorghum tiller production in clump and uniform planting geometries. Journal of Crop Improvement, 24:1–11. Manyame, C., C.L. Morgan, J. L. Heilman, D. Fatondji, B. Gerard and W.A. Payne. On-farm management effects on profile moisture distribution and water balance of sandy soils grown to pearl millet in Niger. In review Mir, M.R., N.A. Khan, N.A. Lone, W.A. Payne, A.H. Mir, Asma Hassan and Viqar Ahmad. 2009. Effect of basal nitrogen application and foliar ethephon spray on morpho- physiology and productivity of mustard (Brassica juncea L. Czern and Coss). Applied biological research 11:60-65. Kang, S., W.A. Payne, S. R. Evett, C. A. Robinson, and B.A. Stewart. 2009. Simulation of winter wheat evapotranspiration in Texas and Henan using three models of differing complexity. Agricultural Water Management 96:167-178. Balota, M., W.A. Payne, W. Rooney, and D. Rosenow. 2008. Gas exchange and transpiration ratio in sorghum. Crop Science 48: 2361-2371. Hong Li, W.A. Payne, G.J. Michels, and C.M. Rush. 2008. Reducing plant abiotic and biotic stress: drought and attacks of greenbugs, corn leaf aphids, and virus disease in dryland sorghum. Environmental and Experimental Botany 63:305-316. Balota, M., W. A. Payne, S.R. Evett, and M.D. Lazar. 2008. Morphological and physiological traits related with canopy temperature depression in three closely-related wheat lines. Crop Science 48:1897-1910 Manyame, C., C.L. Morgan, J. L. Heilman, D. Fatondji, B. Gerard and W.A. Payne. 2007. Modeling hydraulic properties of sandy soils of Niger using pedotransfer functions. Geoderma 141: 407–415 Balota, M., W. A. Payne, S.R. Evett, and M.D. Lazar. 2007. Canopy temperature depression sampling to assess grain yield and genotypic differentiation in winter wheat. Crop Sci 47:1518-1529. Bissala, Y., and W.A. Payne. 2006. Effect of pit floor material on compost quality in semi-arid West Africa. Soil Sci. Soc. Am. J. 70:1140-1144 Fan Tinglu, M. Balota, J. Rudd and W. Payne. 2005. Canopy temperature depression as a potential selection criterion for drought resistance in wheat. Agricultural Sciences in China 4(10):793-800. Fan Tinglu, B.A. Stewart, W.A. Payne, Wang Yong, Luo Junjie, and C. A. Robinson. 2005. Supplemental irrigation and water-yield relationships for plastic-covered crops in the loess plateau of China. Agronomy Journal 97:177-188. Fan Tinglu, B.A. Stewart, W.A. Payne, Wang Yong, Luo Junjie, and Gao Yufeng. 2005. Long- term effects of fertilizer and water availability on cereal yield and soil chemical properties in Northwest China. Soil Sci Soc Am J 69:842-855 Balota, M, C.M. Rush, W. A. Payne, and M.D. Lazar. 2005. The effect of take-all disease on gas-exchange rates and biomass in two winter wheat lines with different drought response. Plant and Soil 275: 335-345 Payne, W.A., C. Chen, D. Ball, and P.D. French. 2004. Agronomic potential of narrow-leafed and white lupin as grain legumes for the inland Pacific Northwest. Agronomy Journal 96:1501-1508. Balota, M., S. Cristescu, W.A. Payne, S. te Lintel Hekkert, L.J.J. Laarhoven, and F.J. M. Harren.
6 2004. Ethylene production of two wheat cultivars exposed to desiccation, heat, and paraquat- induced oxidation. Crop Science: 44:812-818. Payne, W.A., M. Balota and D.T. Rosenow. 2003. Sorghum diversity for germination and coleoptile elongation under cool conditions. International Sorghum and Millets Newsletter 44:76-78. SICNA/ICRISAT. Chen, C., W.A. Payne, and D. Wysocki. 2003. Seedling establishment and seeding rate response of grain sorghum in Northeastern Oregon, USA. International sorghum and millets Newsletter 44:79. SICNA/ICRISAT. Brück, H., B. Piro, B. Sattelmacher, and W.A. Payne. 2003. Spatial distribution of roots of pearl millet on sandy soils of Niger. Plant and Soil 256:149-159. Brück, H,, B. Sattelmacher, and W.A. Payne. 2003. Varietal differences in shoot and rooting parameters of pearl millet in sandy soils in Niger. Plant and Soil 251: 175-185. Letey, J., R.E. Sojka, D.R. Upchurch , D.K. Cassel, Ken Olson, W.A. Payne, S. Petrie, G. Price, R.J. Reginato, H. D. Scott, P. Smethurst, and G. Triplett. 2003. Deficiencies in the soil quality concept and its application. J. of Soil and Water Conversation 58:180-187. Camara, K.M. and W.A. Payne. 2003. Long-term effects of tillage, nitrogen, rainfall and nitrogen levels on wheat yield. Agronomy Journal 95:828-835. Chen, C., W.A. Payne, R.W. Smiley and M.A. Stolz. 2003. Yield and water-use efficiency of eight wheat varieties with different planting treatments in eastern Oregon. Agron. J. 95:836-843. Winkel, T., W. Payne and J.-F. Renno. 2001. Ontogeny modifies the effects of water stress on stomatal control, leaf area duration and biomass partitioning of Pennisetum glaucum New Phytologist 149:71-82. Chen, C., and W.A. Payne. 2001. Measured and modeled unsaturated hydraulic conductivity for a Walla Walla silt loam. Soil Science Society of America Journal 65:1385-1391. Hess, D., M.C. van Lieshout, W.A. Payne, and A. Stein. 2001. A review of spatio-temporal modelling of quadrat count data with application to striga occurrence in a pearl millet field. International Journal of Applied Earth Observation and Geoinformation 3:133–138 Payne, W.A., P.E. Rasmussen, C. Chen and R.E. Ramig. 2001. Assessing simple wheat and pea models using weather and water use data from a long-term tillage experiment. Agron. J. 93:250-260. Payne, W.A., P.E. Rasmussen and R.E. Ramig. 2000. Tillage and rainfall effects upon a winter wheat-dry pea rotation. Agron. J. 92:933-937. Payne, W.A. 2000. Water relations of sparse canopied crops. Agron. J. 92:807. Payne, W.A. 2000. Optimizing crop water use in sparse stands of pearl millet. Agron. J. 92:808- 814. Brück, H., W.A. Payne, and B. Sattelmacher. 2000. Effects of phosphorus- and water supply on yield, transpirational water-use-efficiency, and carbon-isotope discrimination in two pearl millet varieties. Crop Science 40:120-125. Subbarao, G.V., C.R. Renard, W.A. Payne and A.B. Bationo. 2000. Long-term effects of tillage, P fertilisation and crop rotation on pearl millet/cowpea productivity in West Africa. Expl Agric.36: 243-264. Payne, W.A. 1999. Shallow tillage with a traditional West African hoe to conserve soil water. Soil Sci. Soc. Am. J. 63:972-976. Payne, W.A., J. H. Williams, M.M. Keitella and R. D. Stern. 1998. Crop diversification in the Sahel through use of environmental changes near Faidherbia Albida (Del.) A. Chev. Crop Science 38:1585-1591.
7 Marfo, K.O., W. Payne and F. Waliyar. 1997. Assessing the potentials of cowpea genotypes based on some yield determinants of a simple physiological model. African Crop Science Journal 5:341-350. Payne, W.A. 1997. Managing yield and soil water use of pearl millet in the Sahel. Agron. J. 89:481-490. Payne, W.A., M.C. Drew, L.R. Hossner, and R.J. Lascano. 1996. Measurement and modelling of photosynthetic response of pearl millet to soil phosphorus addition. Plant and Soil 184:67-73. Winkle, T., J.F. Renno, and W.A. Payne. 1997. Effect of the timing of water deficit on growth, phenology and yield of pearl millet grown in Sahelian Conditions. Journal of Exp. Bot. 48:1001-1009. Boukar, I., D.E. Hess and W.A. Payne. 1996. Dynamics of moisture, nitrogen and striga infestation on pearl millet transpiration and growth. Agron. J. 88:545-549. Payne, W.A., L.R. Hossner, A.B. Onken and C.W. Wendt. 1995. Nitrogen and phosphorus uptake in pearl millet and its relation to nutrient- and water-use efficiency. Agron J. 87: 425-431. Payne, W.A., M.C. Drew, L.R. Hossner, R.J. Lascano, A.B. Onken, and C.W. Wendt. 1992. Soil phosphorus availability and pearl millet water-use efficiency. Crop Sci. 32:1010-1015. Hess, D.E., and W.A. Payne. 1992. Non-destructive estimation of Striga above-ground biomass. Phytopathology 82:1169. Payne, W.A., C.W. Wendt, L.R. Hossner and C.E. Gates. 1991. Estimating pearl millet leaf area and specific leaf area. Agron. J. 83:937-941. Payne, W.A., R.J. Lascano, L.R. Hossner, C.W. Wendt, and A.B. Onken. 1991. Pearl millet growth as affected by phosphorus and water. Agron. J. 83:942-948. Payne, W.A., C.W. Wendt, and R.J. Lascano. 1990. Root zone water balances of three low-input millet fields in Niger, West Africa. Agron. J. 82:813-819. Payne, W.A., C.W. Wendt, and R.J. Lascano. 1990. Bare fallowing on sandy fields of Niger, West Africa. Soil Sci. Soc. Am. J. 54:1079-1084.
Refereed Proceedings:
Weicheng Wu, Waleed M. Al-Shafie2, Ahmad S. Mhaimeed3, Binan Dardar, Feras Ziadat and William Payne. In press. Multi-scale Salinity Mapping in Central and Southern Iraq by Remote Sensing. Proceedings of Agro-Geoinformatics 2013, 12-16 August 2013, Fairfax, VA USA Chandrashekhar M. Biradar, William A. Payne, Xiangming Xiao, and Prasanna H. Gowda. In press. Role of geoinformatics in ensuing global food security with special reference to dryland agro-ecosystems. Proceedings of Agro-Geoinformatics 2013, 12-16 August 2013, Fairfax, VA USA Payne, William, Hamado Tapsoba, Ibrahim B. Baoua, Ba N. Malick, Mamadou N’Diaye, Clementine Dabire-Binso. 2010. On-Farm Biological Control of the Pearl Millet Head Miner: Realization of Thirty-Five Years of Unsteady Progress in Mali, Burkina Faso and Niger. In Sustainability, Resilience and Increased Productivity in African Food and Agricultural Systems Summaries of Cases for Nairobi Workshop, April 2010. Edited by Jules Pretty and Rachel Hine. World Agroforestry Centre (ICRAF), Nairobi, Kenya, and Government Office for Science, UK Hong Li, C. Bielder, and W. A. Payne . 2006. Spatial variation of unsaturated hydraulic 8 conductivity in a sandy soil of Niger. Proceedings, International Conference on tropical sandy soil management, Nov 2005, Khon Kaen, Thailand. Guanglong Feng, Chengci Chen, and W. A. Payne. 2006. Effects of seeding date and water stress on yield, water-use efficiency and physiological response of two wheat cultivars on the dryland of Pacific Northwest in the United States. P. 538-547 In Human and Nature— Working together for Sustainable Development of Drylands. (A. El-Beltagy, M.C. Saxena, and Wang Tao, eds.) Proceedings of the Eighth International Conference on Development of Dry Lands, Feb 25 – 28, 2006, Beijing, China. IDDC/CAS/FAO/ICARDA/NSFC/UNESCO & UNU. Payne, W.A. 2000. Agronomic and Economic Evaluation of New Cropping Systems and Their Components. -STEEP III. Proceedings, January 6-8, 2000, Pendleton, OR. U. of Idaho, OSU, WSU, ARS and NRCS (USDA). Payne, W.A. 1999. Evaluation of Teff, Lupins, Sorghum and Other New Potential Dryland Crops in Northeastern Oregon. Solutions to environmental and economic problems-- STEEP III. Proceedings, January 6-8, 1999, Spokane, WA. U. of Idaho, OSU, WSU, ARS and NRCS (USDA). Wilkins, D.E., P.E. Rasmussen, S.A. Albrecht and W.A. Payne. 1998. Sustainable Tillage and Cropping Systems for the Columbia Plateau. ASAE Proceedings, Sustainable Tillage Conference in Auburn, Alabama. Gourley, L.M., C.E. Watson, R.E. Schaffert, and W.A. Payne. 1997. Genetic resistance to soil chemical toxicities and deficiencies. International Conference for Genetic Improvement of Sorghum and Millet, September 23 - 27, 1996. Lubbock, Texas. ASA, Madison , WI Gandah, M., and W.A. Payne. 1997. Water management under rainfed conditions in the Sahel: The case of Niger. Proceedings, International symposium on Management of Arid Ecosystems (A.S. Faroda et al., ed.) March 3-5, 1997, Jodhpur, Rajasthan, India. CAZRI (Jodhpur) and ICRISAT (Patancheru), India. ICRISAT Asia Center, India. Patancheru, A.P. 502 324 India Payne, W.A., and H. Brück. 1996. Comparison of Evapotranspiration and Other Water Balance Terms Estimated from Neutron and Capacitance Probe Measurements. p 455-462 In International Evapotranspiration and Irrigation Scheduling. Proceedings of the International Conference (C.R. Camp, E.J. Sadler, and R.E. Yoder, ed), 3-6 November 1996, San Antonio, Texas. Am. Soc. Ag. Eng., St. Joseph, Mich. Payne, W.A., H. Brück, B. Sattelmacher, S.V.R. Shetty, and C. Renard. 1996. Root growth and soil water extraction of three pearl millet varieties during different phenological stages. p. 251-259 In "Dynamics of roots and nitrogen in cropping systems of the semi-arid tropics," Proceedings of an International Workshop, 21-25 Nov. 1994. ICRISAT Asia Center, India. Patancheru, A.P. 502 324 India. Payne, W.A., B. Gérard, and M.C. Klaij. 1995. Subsurface drip irrigation to evaluate transpiration ratios of pearl millet. p. 923-931 in Microirrigation for a Changing World: Conserving Resources/Preserving the Environment (F.R. Lamm, ed). Proceedings of Fifth International Microirrigation Congress, 2-6 April 1995, Orlando, Florida. American Society of Agricultural Engineers, St. Joseph, Michigan. Payne, W.A., B. Piro, H. Brück, and B. Sattelmacher. 1994. Root growth and phosphate efficiency of pearl millet (P. glaucum). p. 94 in Fifth International Symposium on Genetics and Molecular Biology of Plant Nutrition, 17-24 July 1994, Davis, California. 9 Payne, W.A., R.J. Lascano and C.W. Wendt. 1991. Physical and hydrological characterization of three sandy millet fields in Niger. p. 199-208 In Soil water balance in the Sudano- Sahelian zone (Sivakumar et al., eds.). Proc. Int. Workshop, Niamey, Niger, February 1991. IAHS Publ. no. 199, IAHS Press, Institute of Hydrology, Wallingford, UK. Payne, W.A., R.J. Lascano and C.W. Wendt. 1991. Annual soil water balance of cropped and fallowed millet fields in Niger. p. 401-412 In Soil water balance in the Sudano-Sahelian zone (Sivakumar et al., eds.). Proc. Int. Workshop, Niamey, Niger, February 1991. IAHS Publ. no. 199, IAHS Press, Institute of Hydrology, Wallingford, UK. Payne, W.A., C.W. Wendt and R.J. Lascano. 1988. Water balance of three millet fields in Niger, West Africa. p. 195-197 In Challenges in dryland agriculture--a global perspective. Proc. Int'l Confer. on Dryland Farming, Amarillo/Bushland, Texas, Aug. 15-19, 1988.
Abstracts/non-refereed papers (>100; Detailed list available upon request)
Dissertation and Thesis: Payne, W.A. 1990. Growth and transpirational water use efficiency of pearl millet in response to water and phosphorus supply. PhD diss. Texas A&M Univ., College Station, TX (Diss Abstr. 9106975). Payne, W.A. 1987. Water balance of sandy soils of Niger, West Africa. M.S. Thesis, Texas A&M Univ., College Station, TX.
Recent Limited Distribution Publications
Norman Borlaug Institute for International Agriculture. 2011. Evaluation and design of Iraqi date processing investment in Babel and Basra. Unpublished report to Qatar National Food Security Programme. Norman Borlaug Institute for International Agriculture, 2011. Case studies and training needs assessment on the potential to access carbon market with biogas, bio slurry and compost projects in Greater Mekong Subregion. FAO RAS report. Norman Borlaug Institute for International Agriculture, 2011. Potential for soil carbon sequestration by small landholder farmers through composting in the Greater Mekong Subregion. FAO RAP report. Norman Borlaug Institute for Interntional Agriculture, 2011. Food Security and Rural Household Characteristics of Ga-West Municipality in Ghana. Unpublished report to HG Buffet Foundation. Norman Borlaug Institute for International Agriculture, 2011. Sustainable Soil Management in Ghana for Improved Food Security. Unpublished report to HGB Foundation. Norman Borlaug Institute for International Agriculture, 2011. Socioeconomic aspects of successful soil and water conservation in Africa to improve food security and mitigate climate change. Unpublished report to Mcknight foundation. Payne, W.A., and H. Tapsoba. 2010. CCRP Regional Analysis: Food Security Needs for the Collaborative Crop Research Project (CCRP) in West Africa Region. Unpublished report for McKnight Foundation. Payne, W.A. 2010. Impact of Climate and Soils on Crop Selection & Management. U.S.
10 Department of Agriculture Accomplishments Report AD-421. Kalyan Annamalai, and W.A. Payne. 2009. Evaluation of catalytic pyrolysis (thermal decomposition) process for production of bio-fuels from solid biomass fuels. Payne, W.A. 2007. Replacement of conventional wheat/sorghum/fallow farming system with a wheat/sorghum/forage cowpea system. Ogallala Aquifer Report. USDA/Texas A&M Univ.
11 Abbreviated Vitae
ELIZABETH ANN PIERSON
Title Associate Professor, Department of Horticultural Sciences, MEPS Interdisciplinary Program, Department of Plant Pathology and Microbiology (Adjunct), and Texas A&M AgriLife Research
Education
Ph.D. Major: Botany (Ecology), Washington State University, Pullman, WA, 1987 BS, Honors Major: Biology, Indiana University, Bloomington, IN, 1982
Academic and Professional Experience
Associate Professor, Plant-microbe interactions, Department of Horticultural Sciences, Texas A&M University, 2009-present Research Associate Professor, Division of Plant Pathology and Microbiology, Department of Plant Sciences, University of Arizona, Tucson, AZ, 1999-2009 Research Assistant Professor, Department of Plant Pathology, University of Arizona, 1990-1999 Research Associate, USDA-ARS Root Disease and Biological Control Research Unit, Pullman, WA, 1989-90 Statistical Consultant, Computer Information Center, Washington State University, Pullman, WA, 1987-8 Teaching/Research Assistant, Dept. of Botany, Washington State University, 1982-87
Research and Teaching
Research: Plant-microbe interactions to promote plant health/suppress plant disease, microbial ecology, bacterial signaling, secondary metabolite production, biofilm formation, gene regulation, genomics of Pseudomonas; epidemiology of emerging diseases caused by Candidatus Liberibacter Courses TAMU: HORT689/MEPS689/PLPM689 Plant-Associated Microorganisms, 3 credits; HORT301 Garden Science, 3 credits; BESC 484 Field Experience (Writing-Intensive), 3 credits; HORT491 Undergraduate Research, 3 credits. Courses taught UA: PLP550: Principles of Plant Microbiology (team taught course/ecology and epidemiology section), 4 credits; PLP551: Biology and Characterization of Plant Pathogenic Agents (team taught course/bacteriology section), 4 credits; PLP596A: Contemporary Topics in Plant Pathology, 1 credit.
Honors Elected, Incoming Vice President, Texas Plant Protection Association, 2013 Selected by students as Faculty Advisor, Horticulture Graduate Council, 2010-present. Nominated speaker, University of Arizona Faculty Fellows, 2002. USDA Certificate of Merit, 1990
Current Research Funding Texas A&M AgriLife Research Zebra Chip Management Program 2014-2015. Title: Confirmation of ‘ZC Tolerant’ selections and development of molecular markers for the TAMU Potato Breeding and Variety Development Program. PIs Julien Levy, Elizabeth Pierson. Texas A&M AgriLife Research Zebra Chip Management Program 2014-2015. Title: Development of Gene Silencing in Potato Varieties for Stable Resistance to Zebra Chip Disease". PIs: Dennis Gross, Elizabeth Pierson and Hong Lin. E. Pierson
Texas A&M AgriLife Research Bioenergy Initiatives Program 2014-2015. Title: Development of efficient biocatalytic methods for lignin degradation in Pseudomonas putida. PI: EA Pierson, Collaborators: D. Gross, J. Yuan. Texas Department of Agriculture, Specialty Crop Block Grant Program 2013. Title: The Development of Simplified Methods for Rapid and Effective Screening of Psyllids and Plant Tissues for the Citrus Greening and Potato Zebra Chip Pathogens”. PIs Elizabeth Pierson and Dennis Gross. Zebra Chip Disease: 2013 SCRI Mini Grant Program. Title: Further investigations of putative ZC-tolerant advanced selections under medium-scale field trials in Texas: a multi-year screening program. PI Julien Levy, Co-PIs Elizabeth Pierson and Creighton Miller.
Editorial Positions and Other Synergistic Activities Associate Editor, Molecular Plant Microbe Interactions 2013, Chair the USDA: NP 303 Plant Disease June 2013 Ad Hoc Review, Panel Member: NIH Host-Associated Microbial Communities Panel 2012; USDA Microbial Biology Panel 2009, NSF Ecology and Evolutionary Physiology Panel 1999, 1996.
Professional Memberships American Society for Microbiology, American Phytopathological Society, American Society for Horticultural Science
Microbiology Publications (Last 10 yrs) Nachappa P, J Levy, E Pierson and C Tamborindeguy. Correlation between ‘Candidatus Liberibacter solanacearum’ infection levels and reduction in fecundity in its psyllid vector. Published on line: 6- NOV-2013 DOI information: 10.1016/j.jip.2013.10.008 Wang, DP, C Seeve, LS Pierson III and EA Pierson. 2013. Transcriptome profiling reveals links between ParS/ParR, MexEF-OprN, and quorum sensing in the regulation of adaptation and virulence in Pseudomonas aeruginosa. BMC Genomics 14(1):618. Lévy, J, J Hancock, A Ravidnran, D Gross, C Tamborindeguy, and E Pierson. 2013. Methods for rapid and effective PCR-based detection of ‘Candidatus Liberibacter solanacearum’ from insect vectors Bactericera cockerelli: streamlining the DNA extraction/purification process. Journal of Economic Entomology, Volume 106 , Number 3, Pages 1075-1515 , pp. 1440-1445(6). Wang, DP, SH Lee, C Seeve, JM Yu, LS. Pierson III, and EA Pierson. 2013. Roles of the Gac-Rsm pathway in the regulation of phenazine biosynthesis in Pseudomonas chlororaphis 30-84. MicrobiologyOpen: 21 APR 2013 | DOI: 10.1002/mbo3.90. Ravindran A, J Levy, E Pierson, and D Gross. 2012. Development of LAMP as a sensitive and rapid method for detection of ‘Candidatus Liberibacter solanacearum,’ in potatoes and psyllids. Phytopathol. 102(9):899-907. Loper, JE, KA Hassan, D Mavrodi, EW Davis II, CK Lim, BT Shaffer, LDH Elbourne, VO Stockwell, SL Hartney, K Breakwell, MD Henkels, SG Tetu, LI Rangel, TA Kidarsa, NL Wilson, J van Mortel, C Song, R Blumhagen, D Radune, JB Hostetler, LM Brinkac, AS Durkin, DA. Kluepfel, WP Wechter, AJ Anderson, YC Kim, LS Pierson III, EA Pierson, SE Lindow, JM Raaijmakers, DM Weller, LS Thomashow, AE Allen, and IT Paulsen. 2012. Comparative genomics of plant-associated Pseudomonas spp.: Insights into diversity and inheritance of traits involved in multi-trophic interactions. PLoS Genetics. PLoS Genet 8(7): e1002784. doi:10.1371/journal.pgen.1002784 Wang D, JM YuG, LS Pierson III, and EA Pierson. 2012. Differential regulation of phenazine biosynthesis by RpeA and RpeB in Pseudomonas chlororaphis 30-84. Microbiol. 158(7): 1745-1757. Estes AM, HJ Burrack, R Polychronis, and EA Pierson. 2012. Widespread colonization of the olive fruit fly, Bactrocera oleae (Rossi), by the endosymbiotic bacterium Candidatus Erwinia dacicola suggests a specific and long-term interaction. Environ Entomol. 41(2):265-74.
2 E. Pierson
Ravindran A, J Levy, E Pierson, and D Gross. 2011. Development of Primers for Improved PCR Detection of the Potato Zebra Chip Pathogen, ‘Candidatus Liberibacter solanacearum.’ Plant Disease 95(12):1542-1546. Levy J, A Ravindran, D Gross, C Tamborindeguy and E Pierson. 2011. Translocation of ‘Candidatus Liberibacter solanacearum’, the zebra chip pathogen, in potato and tomato. Phytopathol. 101(11):1285-91. Driscoll WW, JW Pepper, LS Pierson III, and EA Pierson. 2011. Pseudomonas chlororaphis strain 30-84 Gac mutants in the biofilm context: social parasite or mutualist? Applied & Environ. Microbiol. 77(20): 7227-7235. Nachappa P, J LevyP, E Pierson and C Tamborindeguy. 2011. Diversity of endosymbionts in the potato psyllid, Bactericera cockerelli (Triozidae), vector of zebra chip disease of potato. Current Microbiol. 62(5):1510-20. YC Kim, J Leveau, BB McSpadden Gardener, EA Pierson, LS Pierson III, CM Ryu. 2011. The multifactorial basis for plant health promotion by plant-associated bacteria. Applied and Environmental Microbiology 77: 1548-1555. Pierson, III, LS and EA Pierson. 2010. Metabolism and function of phenazines in bacteria: impacts on the behavior of bacteria in the environment and biotechnological processes. Invited review. Applied Microbiology and Biotechnology, Published Online and in print 86:1659-1670. Estes, AM, DJ Hearn, J Bronstein, EA Pierson. 2009. The olive fly endosymbiont, 'Candidatus Erwinia dacicola', switches from an intracellular to an extracellular existence during host insect development. Applied & Environ. Microbiol. 75: 7097-7106. (Cover image of issue 75(24)). Wen, F, HH Woo, EA Pierson, TD Eldhuset, CG Fossdal, NE Nagy, and MC Hawes. 2009. Synchronous elicitation of development in root caps induces transient gene expression changes common to legume and gymnosperm species. Plant Molec. Biol. Reporter 27(1):58-68. Maddula, VSRK, EA Pierson, and LS Pierson III. 2008. Altering the ratio of phenazines in Pseudomonas chlororaphis (aureofaciens) 30-84: Effects on biofilm formation and pathogen inhibition. J. Bacteriol. 190(8):2759-66. Pierson III LS and EA Pierson. 2007. Roles of diffusible signals in communication among plant- associated bacteria. Phytopathol. 97:227-232). Maddula VSRK, Z Zhang, EA Pierson, and LS Pierson III. 2006. Quorum sensing and phenazines are involved biofilm formation by Pseudomonas chlororaphis (aureofaciens) Strain 30-84. Microbial Ecology 52(2): 289-301. Paulsen IT, C Press, J Ravel, DY Kobayashi, GSA Myers, DV Mavrodi, RT DeBoy, R Seshadri, Q Ren, R Madupu, RJ Dodson, AS Durkin, LM Brinkac, SC Daugherty, SA Sullivan, MJ Rosovitz, ML Gwinn, L Zhou, WC Nelson, J Weidman, K Watkins, K Tran, H Khouri, EA Pierson, LS Pierson III, LS Thomashow, and JE Loper. 2005. Complete genome sequence of the plant commensal Pseudomonas fluorescens Pf-5: insights into the biological control of plant disease. Nature Biotechnol. 23(7):873-8. Zhan J, EM Wijeratne, CJ Seliga, J Zhang, E Pierson, LS Pierson III, HD Vanetten, AA Gunatilaka. 2004. A new anthraquinone and cytotoxic curvularins of a Penicilliuim sp from the rhizosphere of Fallugia paradoxa of the Sonoran desert. J. Antibiotics, 57(5):341-344. He J, EM Wijeratne, BP Bashyal J Zhan, CJ, Seliga, MX Liu, EA Pierson, LS Pierson III, HD VanEtten, AA Gunatilaka. 2004. Cytotoxic and other metabolites of Aspergillus inhabiting the rhizosphere of Sonoran desert plants. J. Natural Products, 67:1985-91. Wijeratne EM, CA Carbonezi, JA Takahashi,CJ Seliga, TJ Turbyville, EA Pierson, LS Pierson III, HD VanEtten, L Whitesell, V Bolzani da S, AA Gunatilaka. 2004. Isolation, optimization of production and structure-activity relationship studies of monocillin I, the cytotoxic constituent of Paraphaeosphaeria quadriseptata. J Antibiotics, 57:541-6. Morello JE, EA Pierson, and LS Pierson III. 2004. Negative cross-communication among wheat rhizosphere bacteria: Effect on antibiotic production by the biological control bacterium Pseudomonas aureofaciens 30-84. Applied & Environ. Microbiol. 70(5):3103-9.
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Ecology Publications (Last 10 yrs) Rodriguez-Buritica, S., Raichle, H., Birt, T., Webb, R. H., Turner, R. M., Pierson, E. A., & Venable, D. L. 2013. Population dynamics of Sonoran Desert saguaro cactus (Carnegiea gigantea) at the Desert Laboratory (Tucson, Arizona) Ecological Archives E094-151. Ecology 94: 1660. Pierson, EA, RM Turner and JL Betancourt. Regional Demographic Trends from Long-Term Studies of Saguaro (Carnegiea gigantea) across the Northern Sonoran Desert. 2013. Journal of Arid Environments 88 (2013): 57-69. Harris LK, EA Pierson, C Funicelli, WW Shaw, S Morales, K Hutton, and J Ashbeck. 2004. Long- term study of preserved and transplanted saguaros in an urban housing and golf course Development. Desert Plants 20: 33-43.
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CURRICULUM VITAE Ping He
Department of Biochemistry and Biophysics Institute for Plant Genomics and Biotechnology Faculty of Molecular & Environmental Plant Sciences (MEPS) Texas A&M University, College Station, TX 77845 Phone: 979-458-1368; Email: [email protected]
EDUCATION 2003-2008 Harvard Medical School, Boston, MA Molecular Biology Postdoc 1998-2003 Kansas State University, Manhattan, KS Plant Pathology Ph.D. 1995-1998 Chinese Academy of Sciences, China Genetics M.S. 1989-1993 China Agriculture University, Beijing, China Plant Breeding & Genetics B.S.
PROFESSIONAL EXPERIENCE 2013-present Associate Professor, Department of Biochemistry and Biophysics Institute for Plant Genomics and Biotechnology Faculty of Molecular & Environmental Plant Sciences (MEPS) Texas A&M University, College Station, TX 2009-2013 Assistant Professor, Department of Biochemistry and Biophysics Institute for Plant Genomics and Biotechnology Faculty of Molecular & Environmental Plant Sciences (MEPS) Texas A&M University, College Station, TX 2003-2008 Postdoctoral Research Associate, Department of Genetics, Harvard Medical School and Department of Molecular Biology, Massachusetts General Hospital, Boston, MA
HONORS 2008 American Society of Plant Biologists Early Career Award 2002-2003 Don C. Warren Genetic Scholarship, Kansas State University 1998 Second Prize of Natural Science Award, Chinese Academy of Sciences 1998 Special Prize of the President Scholarship, Chinese Academy of Sciences
FEDERAL FUNDING 2010-2015 NIH R01, Differential regulation of plant innate immunity, $1,271,045.00 2012-2015 USDA, Cotton functional genomics in biotic and abiotic stress responses (Co-PI), $498,464.00 2013-2018 NSF CAREER, Orchestrating transcriptional reprogramming by combinatorial complexity of general transcriptional regulation and specific immune responses, $1,086,592.00
TEACHING BICH631: Biochemical Genetics (3 credit). Spring semester with about 50 graduate students enrolled. BICH281: Seminar in Biochemical Research (1 credit) with about 15 undergraduate students enrolled. BICH608: Critical Analysis of the Biochemical Literature (2 credit). Fall semester with about 12 graduate students enrolled.
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PUBLICATIONS Lin W., Li B., Lu D., Chen S., Zhu N., He P., and Shan L., Tyrosine phosphorylation of BAK1/BIK1 mediates Arabidopsis innate immunity. Proc Natl Acad Sci U S A. (In revision) Zhou, J., Wu, S., Chen, X., Liu, C., Sheen, J., Shan, L., and He, P. (2013). Pseudomonas syringae Effector HopF2 Suppresses Arabidopsis Immunity by Targeting BAK1. The Plant Journal. Accepted manuscript online: 15 NOV 2013 02:20AM EST | DOI: 10.1111/tpj.12381 Cheng C, Gao X, Feng B, Sheen J, Shan L, He P. (2013) Plant immune response to pathogens differs with changing temperatures. Nat Commun. 4:2530. doi: 10.1038/ncomms3530 Lin, W., Lu, D., Gao, X., Jian, S., Ma, X., Wang, Z., Mengiste, T., He, P., and Shan L. (2013) Inverse modulation of plant immunity and plant development by a receptor-like cytoplasmic kinase BIK1. Proc Natl Acad Sci U S A. 110 (29):12114-9. Cui, F., Wu, S., Sun, W., Coaker, G., Kunkel, B. N, He., P., and Shan, L. (2013) The Pseudomonas syringae type III effector AvrRpt2 promotes pathogen virulence via stimulating Arabidopsis Auxin/Indole Acetic Acid protein turnover. Plant Physiology 162:1018-1029. Gao, X., Chen, X., Lin, W., Lu, D., Niu, Y., Li, L., Cheng, C., McCormack, M., Sheen, J., Shan, L., and He, P. (2013) Bifurcation of Arabidopsis NLR Immune Signaling via Ca2+-Sensor Protein Kinases. PLoS Pathog 9, e1003127. Gao, X., and He, P. (2013) Nuclear dynamics of Arabidopsis calcium-dependent protein kinases in effector-triggered immunity. Plant Signaling & Behavior 8(4). pii: e23868. Lin, W., Ma, X., Shan, L., and He, P. (2013) Big roles of small kinases: the complex functions of receptor-like cytoplasmic kinases in plant immunity and development. Journal of Integrative Plant Biology. doi: 10.1111/jipb.12071. Gao, X., Li, F., Li, M., Kianinejad, A., Dever, J., Wheeler , T., Li, Z., He, P., and Shan, L. (2013) Cotton GhBAK1 mediates Verticillium wilt resistance and cell death. Journal of Integrative Plant Biology 55(7):586-96. doi: 10.1111/jipb.12064 Lu, D., Lin, W., Gao, X., Wu, S., Cheng, C., Avila, J., Heese, A., Devarenne, T., He, P.*, and Shan, L.* (2011) Direct ubiquitination of pattern recognition receptor FLS2 attenuates plant innate immunity. Science. 332: 1439-1442. (*Corresponding authors). Perspective: O’Neill, L., (2011) Innate immunity in plants goes to the PUB. Science 332: 1386-1387; Evaluations by Faculty of 1000, http://f1000.com/11841956. Gao, X., Britt, R.C., Shan, L. and He, P. (2011) Agrobacterium-mediated virus-induced gene silencing assay in cotton. J Vis Exp. 54 Gao, X., Wheeler, T., Li, Z., Kenerley, C., He, P., and Shan, L. (2011) Silencing GhNDR1 and GhMKK2 compromised cotton resistance to Verticillium wilt. The Plant Journal. 66(2):293-305. Wu, S., Lu, D., Kabbage, M., Wei, H., Swingle, B., Dickman, M., He, P., and Shan, L. (2011) Bacterial effector HopF2 suppresses Arabidopsis innate immunity at the plasma membrane. Mol. Plant Microbe Interact. 24(5):585-93. Lu, D., Wu, S., Gao, X., Zhang, Y., Shan, L. and He, P. (2010) A receptor-like cytoplasmic kinase BIK1 associates with flagellin receptor complex to initiate plant innate immunity. Proc Natl Acad Sci U S A. 107:496-501. Lu, D., Wu, S., He, P., and Shan, L. (2010) Phosphorylation of receptor-like cytoplasmic kinases by bacterial flagellin. Plant Signaling & Behavior. 5 (5). Lu, D., He, P., and Shan, L. (2010) Bacterial effectors target BAK1-associated receptor complexes: one stone two birds. Communicative & Integrative Biology. 3 (2): 1-4. Boudsocq, M., Willmann M. R., McCormack, M., Lee, H., Shan L., He P., Bush, J., Cheng, S., and Sheen J., (2010) Differential innate immune signalling via Ca2+ sensor protein kinases. Nature. 464: 418-422. Chinchilla, D., Shan, L., He, P., de Vries, S. and Kemmerling, B. (2009) One for all-the receptor-associated kinase BAK1. Trend in Plant Science.14 (10) 535-541.
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Shan, L., He, P., Li, J., Heese, A., Peck, S. C., Nurnberger, T., Martin, G. B., and Sheen, J. (2008). Bacterial effectors target the common signaling partner BAK1 to disrupt multiple MAMP receptor-signaling complexes and impede plant immunity. Cell Host Microbe 4, 17-27. Chen, Z., Agnew, J. L., Cohen, J. D., He, P., Shan, L., Sheen, J., and Kunkel, B. N. (2007). Pseudomonas syringae type III effector AvrRpt2 alters Arabidopsis thaliana auxin physiology. Proc Natl Acad Sci U S A 104: 20131-20136. Xiao, F., He, P., Abramovitch, R., Dawson, J., Nicholson, L., Sheen, J., and Martin, G. (2007) The N-terminal region of Pseudomonas type III effector AvrPtoB elicits Pto-dependent immunity and has two distinct virulence determinants. The Plant Journal 52: 595-614. Shan, L., He, P., and Sheen, J. (2007) Intercepting host MAPK signaling cascades by bacterial type III effectors. Cell Host Microbe 1: 167-174. He, P., Shan, L., and Sheen, J. (2007) Elicitation and suppression of MAMP-triggered immunity in plant-microbe interactions. Cell Microbiol 9: 1385-1396. Sheen, J., and He, P. (2007) Nuclear actions in innate immune signaling. Cell 128:821-823. Shang, Y., Li, X., Cui, H., He, P., Thilmony, R., Chintamanani, S., Zwiesler-Vollick, J., Gopalan, S., Tang, X., and Zhou, J.-M. (2006) RAR1, a central player in plant immunity, is targeted by Pseudomonas syringae effector AvrB. Proc. Natl. Acad. Sci. U. S. A 103:19200-19205. He, P., Shan, L. and Sheen, J. (2006) The use of protoplasts to study innate immune responses. Methods Mol Biol. 354: 1-10. He, P., Shan, L., Lin, N.-C., Martin, G., Kemmerling, B., Nurnberger, T., and Sheen, J. (2006). Specific bacterial suppressors of MAMP signaling upstream of MAPKKK in Arabidopsis innate immunity. Cell 125: 563-575. He, P., Chintamanani, S., Chen, Z., Zhu, L., Kunkel, B. N., Alfano, J. R., Tang, X., and Zhou, J.-M. (2004). Activation of a COI1-dependent pathway in Arabidopsis by Pseudomonas syringae type III effectors and coronatine. The Plant Journal 37: 589-602. He, P., Friebe, B. R., Gill, B. S., and Zhou, J.-M. (2003). Allopolyploidy alters gene expression in the highly stable hexaploid wheat. Plant Molecular Biology 52: 401-414. He, P., Warren, R. F., Zhao, T., Shan, L., Zhu, L., Tang, X., and Zhou, J.-M. (2001). Overexpression of Pti5 in tomato potentiates pathogen-induced defense gene expression and enhances disease resistance to Pseudomonas syringae pv. tomato. Molecular Plant-Microbe Interactions 14: 1453-1457. He, P., Li, J., Zheng, X., Shen, L., Lu, C., Chen, Y., and Zhu, L. (2001). Comparison of molecular linkage maps and agronomic trait loci between DH and RIL populations derived from the same rice cross. Crop Science 41: 1240-1246. Gong, J., Zheng, X., Du, B., Qian, Q., Chen, S., Zhu, L. and He, P. (2001) Comparative study of QTLs for agronomic traits of rice (Oryza sativa L.) between salt stress and nonstress environment. Science in China (Series C) 44(1): 73-82. Qian, Q., He, P., Teng, S., Zeng, D., Zhu, L. (2001) QTLs analysis of tiller angle in rice (Oryza sativa L.) Acta Genetica Sinica 28(1): 29-32. Shan, L., He, P., Zhou, J.-M., and Tang, X. (2000). A cluster of mutations disrupt the avirulence but not the virulence function of AvrPto. Molecular Plant-Microbe Interactions 13: 592-598. Bao, J., Zheng, X., Xia, Y., He, P., Shu, Q., Lu, X., Chen, Y., and Zhu L. (2000). QTL mapping for the paste viscosity characteristics in rice (Oryza sativa L.). Theor. Appl. Genet. 100: 280-284. Qian, Q., He, P., Zheng, X., Chen, Y. and Zhu, L. (2000) Genetic analysis of morphological index and its related taxonomic traits for classification of indica/japonica rice. Science in China (Series C) 43(2): 113-119. Bao, J., He, P., Li, S., Xia, Y., Chen, Y., and Zhu, L. (2000) Comparative mapping quantitative trait loci controlling the cooking and eating quality of rice (Oryza sativa L.). Scientia Agricultura Sinica 33(5): 8-13. Qian, Q., Zeng, D., He, P., Zheng, X., Chen, Y., and Zhu, L. (2000) QTL analysis of the rice seedling cold tolerance in a doubled haploid population derived from anther culture of a hybrid between indica and japonica rice. Chinese Science Bulletin 45(5): 448-453.
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Li, J., He, P., Li, S., Lu, R., and Zhu, L. (2000) Application of microsatellite markers for the seed purity examination of a hybrid rice, Gangyou-22. Chinese Journal of Biotechnology 16(2): 211-214. He, P., Li, S., Qian, Q., Ma, Y., Li, J., Wang, W., Chen, Y., and Zhu L. (1999). Genetic analysis of rice grain quality. Theor. Appl. Genet. 98: 502-508. He, P., Li, J., and Zhu, L. (1999). The interaction between quantitative trait loci for anther culturability in rice. Acta Genetica Sinica 26: 524-528. Li, J., He, P., Zheng, X., Lu, R., and Zhu, L (1999) Identification and interaction analysis of six agronomic trait loci of rice based on a recombinant inbred population. Acta Botanica Sinica 41(11): 1199-1203. Liu, G., Yan, C., Zhai, W., He, P., Yang, J., Li, X. and Zhu, L. (1999) Amplification, analysis and chromosome mapping of novel homeobox-containing and homeobox-flanking sequences in rice. Science in China (Series C) 42(2): 162-170. Bao, J., He, P., Xia, Y., Chen, Y. and Zhu, L. (1999) Starch RVA profile parameters of rice are mainly controlled by Wx gene. Chinese Science Bulletin 44(22): 2047-2051. Chen, Y., He, P., Lu, C. and Xu, Y. (1999) The inheritance of characters of doubled haploid (DH) derived from indica/japonica hybrid F1 anther culture of rice. Acta Agronomica Sinica 25 (4) 451-457. He, P., Shen, L., Lu, C., Chen Y., and Zhu L. (1998). Analysis of quantitative trait loci which contribute to anther culturability in rice (Oryza sativa L.). Molecular Breeding 4: 165-172. He, P. (1998). Abundance, polymorphism and applications of microsatellite in eukaryote. Hereditas (Beijing) 20: 42-47. He, P., Li, S., Li, J., Ma, Y., Qian, Q., Wang, W., Chen, Y., and Zhu, L. (1998). Analysis of the gene loci for some important quantitative traits relative to rice grain quality. Chinese Science Bulletin 43: 1747-1750. He, P., Sheng, L., Lu, C., Chen, Y., and Zhu, L. (1998). Genetic analysis and mapping the anther culture response genes in rice (Oryza sativa L.). Acta Genetica Sinica 25: 337-344. Liu, Y., Zhu, L., Sun, J., Shen, L., Wang, Y., He, P., Lu, C. and Chen, Y. (1998) Inheritance and mapping of embryo sac abortion in hybrid between indica and japonica rice (Oryza sativa L.). Science in China (Series C) 41(3): 272-277. Zhu, L. and He, P. (1998) Genetic molecular linkage map construction and mapping the important quality and quantitative trait loci in rice(Oryza sativa L.). Journal of Fudan University (Natural Science). 37(4): 509-512. Shen, L., He, P., Xu, Y., Tan, Z., Lu, C. and Zhu, L. (1998) Genetic molecular linkage map construction and genome analysis of rice doubled haploid population. Acta Botanica Sinica 40(12): 1115-1122. Chen, Y., Lu, C., He, P., Shen, L., Xu, J., Xu, Y. and Zhu, L. (1997) Gametic selection in a doubled haploid population derived from anther culture of indica/ japonica hybrid of Oryza sativa L. Chinese Journal of Genetics 24(3): 201-209. Liu, Y., Zhu, L., Sun, J., He, P., Wang, Y. and Shen, L. (1997) Mapping quantitative trait loci for reproductive barriers occurring in hybrid between indica and japonica rice. Acta Botanica Sinica 39(12): 1099-1104. He, P., Chen, Y., Shen, L., Lu, C., and Zhu, L. (1997). Inheritance of callus induction ability in rice anther culture. Chinese Science Bulletin 42: 1209-1211. Li, P., Zhu, L., Zhou, K., Chen, Y., Lu, C. and He, P. (1996) Genetic mapping of rice using RFLP markers and a double haploid population of a cross between indica and japonica varieties. Acta Botanica Sinica 38(11): 881-886. Li, P., Zhou, K., Chen, Y., He, P., Li, R. and Zhu, L. (1996) RFLP mapping of genes conferring fertility restoration of wild cytoplasmic-genetic male sterility in rice (Oryza sativa subsp. indica). Acta Genetica Sinica 23(5):357-362. Chen, Y., Lu, C. Xu, Y., He, P. and Zhu, L. (1996) Gametoclonal variation of microspore derived doubled haploids in indica rice: agronomic performance, isozymes and RFLP analysis. Acta Genetica Sinica 23(3): 196-204.
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Hongmin Qin Department of Biology Texas A & M University TAMU MS 3258 College Station, TX 77843-3258 Phone: (+1) 979-458-0512 Fax: (+1) 979-845-2891 Email: [email protected]
EDUCATION B.S. Microbiology, Shandong University, 1993 M.S. Microbiology, Shandong University, 1996 (Advisor, Changkai Zhang) Ph.D Genetics, The Institute of Microbiology, Chinese Academy of Sciences, China, 1999 (Advisor, Yingchuan Tian) Postdoc, MCDB Dept. Yale University, completed 2005 (Advisor, Joel Rosenbaum)
EMPLOYMENT Associate Professor, Texas A&M University, 2013- present Assistant Professor, Texas A&M University, 2006-2013
HONORS 1993-1996 “Yang-Guan” Predoctoral Fellowship, Shandong University 1999 “Di-Ao” Predoctoral Fellowship, Chinese Academy of Sciences, China 2001 Best-Paper Award, Beijing Society for Plant Pathology 2002-2004 Polycystic Kidney Disease Foundation Postdoctoral Fellowship 2002 Genetics Society of America Travel Award PUBLICATIONS 1. Richey E, Qin H. Dissecting the sequential assembly and localization of Intraflagellar Transport Particle complex B in Chlamydomonas. PLoS One. 2012;7(8):e43118. 2. Behal RH, Miller MS, Qin H, Lucker B, Jones A, Cole DG. Subunit Interactions and Organization of the Chlamydomonas reinhardtii Intraflagellar Transport Complex A. J Biol Chem. 2012;287(15):11689-703. 3. Silva DA, Huang X, Behal RH, Cole DG, Qin H. The RABL5 homolog IFT22 regulates the cellular pool size and the amount of IFT particles partitioned to the flagellar compartment in Chlamydomonas reinhardtii. Cytoskeleton (Hoboken). 2012;69(1):33-48. 4. Williamson S, Silva D, Richey E, Qin H. Probing the role of IFT particle complex A and B in flagellar entry and exit of IFT dynein in Chlamydomonas. Protoplasma, 2012;249(3): 851-856 5. Fan Z-C, Behal R H, Geimer S, Wang Z, Williamson SM, Zhang H, Cole DG, Qin H. Chlamydomonas IFT70/CrDYF-1 is a core component of IFT particle complex B and is required for flagellar assembly. Mol Biol Cell, 2010;21, 2696–2706. 6. Wang Z, Fan Z-C, Williamson S, Qin H. Intraflagellar transport (IFT) protein IFT25 is a phosphoprotein component of the IFT complex B and physically interacts with IFT27 in Chlamydomonas. PLoS ONE, 2009;4(5):e5384. 7. Mukhopadhyay S, Lu Y, Qin H, Lanjuin A, Shaham S, Sengupta P. Distinct IFT mechanisms contribute to the generation of ciliary structural diversity in C. elegans. Embo J, 2007;(12):2966-2980. 8. Qin H*, Wang Z*, Diener D, Rosenbaum J. Intraflagellar transport protein 27 is a small G protein involved in cell- cycle control. Curr Biol, 2007;(3):193-202. * equal contribution 9. Hou Y, Qin H, Follit JA, Pazour GJ, Rosenbaum JL, Witman GB. Functional analysis of an individual IFT protein: IFT46 is required for transport of outer dynein arms into flagella. J Cell Biol, 2007;76(5):653-665. 10. Bae YK, Qin H, Knobel KM, Hu J, Rosenbaum JL, Barr MM. General and cell-type specific mechanisms target TRPP2/PKD-2 to cilia. Development, 2006;33(19):3859-3870. 11. Marshall WF, Qin H, Rodrigo Brenni M, Rosenbaum JL. Flagellar length control system: testing a simple model based on intraflagellar transport and turnover. Mol Biol Cell, 2005;16(1):270-278. 12. Ou G* Qin H* Rosenbaum JL, Scholey JM. The PKD protein qilin undergoes intraflagellar transport. Curr Biol, 2005;15(11):R410-411. * equal contribution 13. Lucker BF, Behal RH, Qin H, Siron LC, Taggart WD, Rosenbaum JL, Cole DG. Characterization of the intraflagellar transport complex B core: direct interaction of the IFT81 and IFT74/72 subunits. J Biol Chem, 2005;280(30):27688- 27696. 14. Qin H*, Burnette DT*, Bae YK, Forscher P, Barr MM, Rosenbaum JL. Intraflagellar transport is required for the vectorial movement of TRPV channels in the ciliary membrane. Curr Biol, 2005;15(18):1695-1699. * equal contribution 15. Qin H, Diener DR, Geimer S, Cole DG, Rosenbaum JL. Intraflagellar transport (IFT) cargo: IFT transports flagellar precursors to the tip and turnover products to the cell body. J Cell Biol, 2004;164(2):255-266. 16. Zhu SW, Qin H, Sun JS, Tian YC. Application of GFP gene in the study of bisect-resistant transgenic plants. Acta Botanica Sinica, 2003;45 (6): 654-658 17. Guo HN, Wu JH, Chen XY, Luo XL, Lu R, Shi YJ, Qin H, Xiao JL, Tian YC. Cotton plants transformed with the activated chimeric Cry1Ac and API-B genes. Acta Botanica Sinica, 2003;45 (1): 108-113. 18. Guo HN, Qin H, Chen XY, Li CQ, Lu R, Tian YC. Construction of a new plant expression vector containing two insect resistant genes and its expression in transgenic tobacco plants. Progress in Natural Science. 2002;12(5):347-352. 19. Qin H, Rosenbaum JL, Barr MM. An autosomal recessive polycystic kidney disease gene homolog is involved in intraflagellar transport in C. elegans ciliated sensory neurons. Curr Biol, 2001;11(6):457-461. 20. Zhao CY, Yuan ZQ, Qin H, Tian YC. Studies on transgenic tobacco plants expressing two kinds of insect resistant genes. Journal of Biotechnology. 2001;17(3):273-7 (in Chinese). 21. Qin H, Guo HN, Jia YT, Li LH, Tian YC. Effect of UTRs from TMV-RNA on the expression of foreign gene in transgenic plants. Chinese Science Bulletin 1999;45(18):1681-85. Invited Review or Book Chapters 1. Qin H. Regulation of intraflagellar transport and ciliogenesis by small g proteins. Int Rev Cell Mol Biol. 2012;293:149-68. 2. Silva D, Richey E, Qin H. "Biology of Cilia and Ciliopathies", (2012). Book Chapter, Editor(s): Stevo Najman, Collection: Cell Biology, ISBN 979-953-307-505-0 by InTech Open Access Publisher. 3. Richey E, Qin H. Isolation of Intraflagellar Transport Particle Proteins from Chlamydomonas reinhardtii. In press at Methods in Enzymology (Cilia). PATENTS (IN P. R. CHINA) 1. Tian YC, Guo HN, Qin H, Lu R, Li CQ. Patent title: A new plant expression vector containing two insect resistant genes and its application in transgenic plants. Patent number: ZL 01 1 03759.8. Authorized date: September 10th, 2003. Certificate Number: 122725. 2. Tian YC, Qin H, Guo HN. Patent application title: A new chimeric insect resistant gene encoding a protein which can secrete to the cell outside. Patent application laid open to the public No.: CN1393561A. Laid open date: Jan. 29th, 2003. 3. Tian YC, Qin H, Guo HN. Patent application title: A new plant high expression vector. Patent application laid open to the public No.: CN1315582A. Laid open date: Oct. 3rd, 2001.
PRESENTATIONS (Invited) Dec 2012 College of Life Science, University of Science and Technology of China, Anhui, China Dec 2012 American Society for Cell Biology. San Francisco, CA, USA Jun 2012 15th International Conference on the Cell and Molecular Biology of Chlamydomonas, Potsdam, Germany, June 5‐10, 2012. Oct 2011 Genetics Graduate Student Association Meeting, TAMU. Feb 2011 Molecular Cell & Developmental Biology Graduate Program, The University of Texas at Austin, Austin, TX, USA. Sep 2010 Departments of Pharmacology, Baylor College of Medicine, Houston, TX, USA. Dec 2009 Dept. of Biological Sciences, Sam Houston University. Sep 2009 Biophysics Image Life workshop, Sponsored by the NSF. Texas A&M Health Science Center. Mar 2009 Dept. of Microbiology, Molecular Biology & Biochemistry, University of Idaho, USA. Jan 2008 National Institute of Biological Sciences, Beijing, China. Jan 2008 Institute of Microbiology, Chinese Academy of Sciences, Beijing, China Dec 2006 American Society for Cell Biology. San Diego, CA, USA. Aug 2006 Gordon Research Conference Plant and Fungal Cytoskeleton, Proctor Academy, Andover, NH, USA Dec 2005 American Society for Cell Biology. San Francisco, CA, USA Jun 2002 10th International Conference on the Cell and Molecular Biology of Chlamydomonas, UBC, Vancouver, Canada Jun 2001 13th International C. elegans meeting, UCLA, Los Angeles CA, USA. RESEARCH FUNDING Current Funding 1) Agency: National Science Foundation (NSF) Title: Small GTPase regulators of Intraflagellar Transport (IFT) Funding period: 02/01/2010 - 02/28/2013, no cost extension Total Direct Costs: $435,936 Role: Principle Investigator 2) Agency: National Science Foundation (NSF) REU Supplement: Small GTPase Regulators of Intraflagellar Transport (IFT) Total funds: $6,894.00 Funding period: 6/1/2012 - 2/28/2013, no cost extension Role: Principle Investigator
Grant Pending 1) Agency: NIGMS Title: Biogenesis of cilia and flagella Funding period: 07/1/14-6/31/19 Role: Principle Investigator Completed Funding 1) Agency: American Heart Association National Center - Scientist Development Award Title: Small GTPase regulators of Intraflagellar Transport (IFT) Total budgeted amount: $308,000 Funding period: 07/01/2009 - 06/30/2013 Role: Principle Investigator Status: The grant was relinquished on April 1st, 2010 before the funds for the same proposal from the NSF was released. 2) Agency: Polycystic Kidney Disease Foundation Funding period: 03/01/2008 - 02/28/2010 Total Direct Costs: $128,182 Project Title: Identification of Effectors for IFT27, an Intraflagellar Transport Particle Protein Functioning in the Cell cycle Role: Principle Investigator 3) Agency: Polycystic Kidney Disease Foundation Funding period: 07/01/2002 - 06/30/2004 Total Direct Costs: $80,000 (Postdoc Fellowship) Project Title: Intraflagellar Transport and Polycystic Kidney Diseases Role: Principle Investigator
TEACHING 2007 Spring BIOL-613-600 Cell Biology, Credit Hours 3.9 (Enrollment 14, co-taught with Dr. Ryan) 2007 Fall BIOL-213-500 Cell Biology, Credit Hours 3.0 (Enrollment 70, co-taught with Dr.Erickson) 2008 Spring BIOL-613-600 Cell Biology, Credit Hours 3.0 (Enrollment 19, co-taught with Dr. Ryan) 2008 Fall BIOL-213-502 Cell Biology, Credit Hours 3.0 (Enrollment: 46) 2009 Spring BIOL-613-600 Cell Biology, Credit Hours 3.0 (Enrollment 8, co-taught with Dr. Ryan) 2009 Fall BIOL-213-502 Cell Biology, Credit Hours 3.0 (Enrollment: 44) 2010 Spring BIOL-613-600 Cell Biology, Credit Hours 3.0 (Enrollment 20, co-taught with Dr. Ryan) 2010 Fall BIOL-213-502 Cell Biology, Credit Hours 3.0 (Enrollment: 78) 2011 Spring BIOL-613-600 Cell Biology, Credit Hours 3.0 (Enrollment 13, co-taught with Dr. Ryan) 2011 Fall BIOL-213-502 Cell Biology, Credit Hours 3.0 (Enrollment: 88) 2011 Fall BIOL-681-617 Seminar: Cilia/Flagella Credit Hours 1.0 (Enrollment: 5) 2012 Spring BIOL-613-600 Cell Biology, Credit Hours 3.0 (Enrollment 8, co-taught with Dr. Ryan) 2012 Spring BIOL-681-617 Seminar: Cilia/Flagella Credit Hours 1.0 (Enrollment: 4) 2012 Fall BIOL-213-502 Cell Biology, Credit Hours 3.0 (Enrollment: 74) ADVISING Graduate students A. Chair, Master's thesis committee Agarwal, Saroochi Department of Biology, 2006-2008 Elizabeth Richey, Genetics Program, Sept 2012-Dec 2012 David A. Silva, Department of Biology, Sept 2012-Dec 2012 B. Member, Master's thesis committee Kreipe, Tony, Department of Biology, 2007-2009 C. Chair, Ph.D. dissertation committee Jiang Xue, Department of Biology, Jan 2012-present Elizabeth Richey, Genetics Program, Jan 2011-Sept 2012 David A. Silva, Department of Biology, Sept 2010-Sept 2012 Xiaomeng Huang, Genetics Program, May 2007-May 2010 D. Member, Ph.D. dissertation committee Krock, Bryan, Department of Biology, 2006-2009 Irigoyen, Sonia, Department of Biology, 2006-2011 Liu, Gang, Department of Chemistry, 2006-2011 Jin Hee Kim, Department of Horticultural Sciences, 2007-2011 Saleem, Sehresh, Department of Biology, 2009-present Whitaker, Gregory, Department of Biology, Feb 2012-present Undergraduate students - Shana Williamson, May 2006-July 2008. Enrolled in graduate school at Baylor College of Medicine in 2008, and moved with her advisor’s lab to the University of Houston in 2009. - Andrew Travis Hynes, Fall 2006. - Ngoc Ang Le, Aug 2006- May 2007. Currently a medical student at the Texas A&M Health Science Center. - Sung Yong Gwak, Aug 2007-May 2008. - Chad Ryan Retzloff, Jan 2009-Dec 2009. - Yue Wu, Aug 2009-May 2010. Accepted as medical student at Baylor College of Medicine in Houston, Feb 2011. - Genevieve Hartman, Spring 2009, currently a laboratory technologist at Halliburton, Inc. - Abdullah Mo Al-Jeraiwy, Jan 2008-Dec 2008. Enrolled in graduate school at Harvard University in 2009. - Thomas Vaclavik, Summer 2009, currently a graduate student at University of Illinois at Urbana-Champaign. - Zhongping Xu, Summer 2009. - David A. Silva, May 2009-Sep 2010, currently a graduate student at TAMU supported by a Texas A&M University System Lous Stokes Alliance for Minority Participation (LSAMP) fellowship - Po-lin Wu, Sept 2010-May 2011. - Arun Mathew, Supported by LSAMP Undergraduate Research Program, Aug 2010-May 2011. - Ryan Wayne McMasters, Aug 2010-Sept, 2011. Currently a lab technician at the Small Animal Vet Hospital, TAMU. - Roxsan Manshouri, Aug 2010-present.Supported by LSAMP Undergraduate Research Program. - Katherine Michelle Snodgrass, Aug 2011-May 2012. Accepted by several medical schools. - Catherine Marie Hernandez, Sept 2011-present. Supported by LSAMP Undergraduate Research Program. - Garrison Mathis, Jan 2012-present.
PROFESSIONAL SERVICE - Dept. of Biology Graduate Program committee, member, 2012 - present. - Dept. of Biology Graduate Admission and Recruitment committee, member, 2007-2009. - Student Research Week judge, 2006, Texas A&M University. - Ad Hoc reviewer, Israel Science Foundation, 2009, total 1 proposal. - Ad Hoc reviewer, NSF, 2009, total 2 proposals. - Ad Hoc reviewer, NSF, Apr., 2010, total 2 proposals. - Ad Hoc reviewer, NSF, Jan., 2012, total 1 proposal. - Panel reviewer, NSF, Oct. 2010, total 13 proposals; NSF, April, 2011, total 10 proposals; Nov., 2011, total 11 proposals. - Book reviewer, reviewed 4 chapters for a Cell Biology text book (Author and educator, Dr. George Plopper) from the Jones & Bartlett Publishers, LLC, 2010. - 2010 and 2011, Student/ Post-doc Research Conference (SPRC) judge, Department of Biology, TAMU. - The Texas A&M System Louis Stokes Alliance for Minority Participation (LSAMP TAMU) 7th Annual Symposium judge, 2010, supported by NSF. - Review of scientific publications for Current Biology, Genetics, the Journal of Cell Biology, Nature of Cell Biology, Sensors, PLOS One, Trends in Cell Biology, Experiment Cell Research, Cytoskeleton. - Coordinator for a teaching in China program “The GREAT Program” offered by the Capital Normal University in China, 2008-2012. - Advisor for the exchange student program sponsored by the Dean’s exchange program from the Capital Normal University in China, Nov. 2009-Mar, 2010. Name: Keerti S. Rathore Title: Professor Address: Institute for Plant Genomics and Biotechnology and Dept. of Soil & Crop Sciences, Texas A&M University, College Station, TX 77843-2123 Telephone: (979) 862-4795 Fax: (979) 862-3414 E-mail: [email protected]
Education/Training: Ph.D. (1981) Imperial College, University of London, U.K. (Plant Physiol.) M.Sc. (1976) Gujarat University, India (Plant Sciences) B.Sc. (1973) Rajasthan University, India (Zoology, Botany, Chemistry)
Positions and Employment:
12- Professor and Director, Laboratory for Crop Transformation, Institute for Plant Genomics & Biotechnology and Dept. of Soil & Crop Sciences, Texas A&M University, College Station, TX. A member of the Faculty of Molecular & Environmental Plant Sciences. 03-12 Associate Professor and Director, Laboratory for Crop Transformation, Institute for Plant Genomics & Biotechnology and Dept. of Soil & Crop Sciences, Texas A&M University, College Station, TX. A member of the Faculty of Molecular & Environmental Plant Sciences. 97-03 Assistant Professor and Director, Laboratory for Crop Transformation, Institute for Plant Genomics & Biotechnology and Dept. of Soil & Crop Sciences, Texas A&M University, College Station, TX. A member of the Faculty of MEPS. 95-97 Asst. Research Scientist and Director, Laboratory for Crop Transformation, Crop Biotechnology Center, Texas A&M University, College Station, TX. 91-95 Research Scientist, Dept. of Botany and Plant Pathology, Purdue University, W. Lafayette, IN. 85-90 Postdoctoral Research Associate, Dept. of Biological Sciences, Purdue University, W. Lafayette, IN. 82-84 Postdoctoral Research Associate, Dept. of Pure & Applied Biology, Imperial College, London, U.K.
Professional Society Membership:
American Association for the Advancement of Science American Society of Plant Physiologists
Awards and Honors: J. J. Chinoy medal by Gujarat University (1976). 2011 Cotton Genetics Research Award
Publications:
1. JOSHI, A.K., SHARMA, N.S., RATHORE, K.S., VAISHNAV, P.P. & SINGH, Y.D. 1980 Auxin oxidizing systems and ascorbic acid turnover in relation to physiology of dwarfism in Sorghum bicolor (L.) Moench. Biochem. Physiol. Pflanzen 175: 208-215. 2. RATHORE, K.S. & GOLDSWORTHY, A. 1985 Electrical control of growth in plant tissue cultures. Bio/technology 3: 253-254. 3. RATHORE, K.S. & GOLDSWORTHY, A. 1985 Electrical control of shoot regeneration in plant tissue cultures. Bio/technology 3: 1107-1109. 4. GOLDSWORTHY, A. & RATHORE, K.S. 1985 The electrical control of growth in plant tissue cultures: the polar transport of auxin. J. Exp. Bot. 36: 1134-1141. 5. RATHORE, K.S., HODGES, T.K. & ROBINSON, K.R. 1988 Ionic basis of currents in somatic embryos of Daucus carota. Planta 175: 280-289. 6. RATHORE, K.S., HODGES, T.K. & ROBINSON, K.R. 1988 A refined technique to apply electrical currents to callus cultures. Plant Physiol. 88: 515-517. 7. RATHORE, K.S. & ROBINSON, K.R. 1989 Ionic currents around developing embryos of higher plants in culture. Biol. Bull. 176(S): 46-48. ‡ 8. WANG, C., RATHORE, K.S. & ROBINSON, K.R. 1989 The responses of pollen to applied electrical fields. Dev. Biol. 136: 405-410. 9. RATHORE, K.S., HOTARY, K.B. & ROBINSON, K.R. 1990 A two-dimensional vibrating probe study of currents around lateral roots of Raphanus sativus developing in culture. Plant Physiol. 92: 543-546. 10. **RATHORE, K.S., CORK, R.J. & ROBINSON, K.R. 1991 A cytoplasmic gradient of Ca2+ is correlated with the growth of lily pollen tubes. Dev. Biol. 148: 612-619. 11. RATHORE, K.S., CHOWDHURY, V.K. & HODGES, T.K. 1993 Use of bar as a selectable marker gene and for the production of herbicide-resistant rice plants. Plant Mol. Biol. 21: 871-884. 12. RAO, K. V., RATHORE, K. S. & HODGES, T. K. 1995 Physical, chemical and physiological parameters for electroporation-mediated gene delivery into rice protoplasts. Transgenic Research 4: 361-368. 13. **RAO, K. V., RATHORE, K. S., HODGES, T. K., FU, X., STOGER, E., SUDHAKAR, D., WILLIAMS, S., CHRISTOU, P., BHARATHI, M., BOWN, D. P., POWELL, K.S., SPENCE, J., GATEHOUSE, A.M.R. & GATEHOUSE, J. A. 1998 Expression of snowdrop lectin (GNA) in transgenic rice plants confers resistance to rice brown planthopper. Plant Journal 15: 469-477. 14. SUNILKUMAR, G. & *RATHORE, K. S. 2001 Transgenic cotton: factors influencing Agrobacterium-mediated transformation and regeneration. Molecular Breeding 8: 37 - 52. 15. EMANI, C., SUNILKUMAR, G. & *RATHORE, K. S. 2002 Transgene silencing and reactivation in sorghum. Plant Science 162:181-192. 16. SUNILKUMAR, G., CONNELL J. P., SMITH C. W., REDDY A. S. & *RATHORE K. S. 2002 Isolation and functional characterization of alpha-globulin promoter from cotton in transgenic cotton, Arabidopsis and tobacco. Transgenic Research 11: 347-359. 17. SUNILKUMAR, G., MOHR, L., LOPATA-FINCH, E., EMANI, C. & *RATHORE, K. S. 2002 Developmental and tissue-specific expression of CaMV 35S promoter in cotton as revealed by GFP. Plant Molecular Biology 50: 463-474. 18. EMANI, C., GARCIA, J. M., LOPATA-FINCH, E., POZO, M., ‡URIBE, P., KIM, D-J., SUNILKUMAR, G., COOK, D. R., KENERLEY, C. M. & *RATHORE, K. S. 2003 Enhanced fungal resistance in transgenic cotton expressing an endochitinase gene from Trichoderma virens. Plant Biotechnology Journal 1: 321-336. 19. ‡JAY, C. M., BHASKARAN, S., RATHORE, K. S. & WAGHELA, S. D. 2004 Enterotoxigenic K99+ Escherichia coli attachment to host cell receptors inhibited by recombinant pili protein. Veterinary Microbiology 101: 153-160. 20. SUNILKUMAR, G., CAMPBELL, L. M., ‡MONJUR, H., CONNELL, J. P., HERNANDEZ, E., REDDY, A. S., SMITH, C. W. & *RATHORE, K. S. 2005 A comprehensive study of the use of a homologous promoter in antisense cotton lines exhibiting a high seed oleic acid phenotype. Plant Biotechnology Journal, 3: 319-330. 21. ‡BURRELL, A. M., LINEBERGER, R. D., RATHORE K. S. & BYRNE, D. H. (2006) Genetic variation in somatic embryogenesis of rose. Hortscience 41: 1165-1168. 22. SUNILKUMAR, G., CAMPBELL, L. M., PUCKHABER, L., STIPANOVIC, R.D. & *RATHORE K. S. (2006) Engineering cottonseed for use in human nutrition by tissue-specific reduction of toxic gossypol. Proceedings of the National Academy of Sciences, USA 103: 18054-18059 (Cover Page Article). 23. REN, S, MANDADI, K. K., BOEDEKER, A. L., RATHORE K. S. & MCKNIGHT, T. D. (2007) Regulation of telomerase in Arabidopsis by BT2, an apparent target of TELOMERASE ACTIVATOR1. Plant Cell 19: 23-31. 24. PARKHI, V., KUMAR, V., SUNILKUMAR, G., CAMPBELL, L. M., SINGH, N. K. & *RATHORE K. S. (2009) Expression of apoplastically secreted tobacco osmotin in cotton confers drought tolerance. Molecular Breeding 23: 625-639. 25. SUNILKUMAR, G., WAGHELA, S. D., CAMPBELL, L. M. & *RATHORE K. S. (2009) Expression of anti-K99 scFv in transgenic rice tissues and its functional characterization. Transgenic Research 18: 347-360. 26. KUMAR, V., PARKHI, V., KENERLEY, C. & *RATHORE K. S. (2009) Defense-related gene expression and enzyme activities in transgenic cotton plants expressing an endochitinase gene from Trichoderma virens in response to interaction with Rhizoctonia solani. Planta 230: 277-291. 27. DAMAJ, M. B., KUMPATLA, S. P., EMANI, C., BEREMAND, P. D., REDDY, A. S., RATHORE, K. S., BUENROSTRO-NAVA, M. T., CURTIS, I. S., THOMAS, T. L. & MIRKOV, T. E. (2010) Sugarcane DIRIGENT and O-METHYLTRANSFERASE promoters confer stem-regulated gene expression in diverse monocots. Planta 231: 1439-1458. 28. PARKHI, V., KUMAR, V., CAMPBELL, L. M., BELL, A. A., SHAH, J. & *RATHORE K. S. (2010a) Resistance against various fungal pathogens and reniform nematode in transgenic cotton plants expressing Arabidopsis NPR1. Transgenic Research 19: 959-975. 29. PARKHI, V., KUMAR, V., CAMPBELL, L. M., BELL, A. A. & *RATHORE K. S. (2010b) Expression of Arabidopsis NPR1 in transgenic cotton confers resistance to non-defoliating isolates of Verticillium dahliae but not the defoliating isolates. Journal of Phytopathology 158: 822-825. 30. MURTHY, K.N.C., JAYAPRAKASHA, G. K., KUMAR, V., RATHORE, K. S. & PATIL, B.S. (2011) Citrus Limonin and its Glucoside Inhibit Colon Adenocarcinoma Cell Proliferation through Apoptosis. J. Agricultural & Food Chem. 59:2314-2323. 31. KUMAR, V., CAMPBELL, L. M. & *RATHORE K. S. (2011) Rapid recovery- and characterization of transformants following Agrobacterium-mediated T-DNA transfer to sorghum. Plant Cell Tiss. Organ Cult. 104: 137-146. 32. *RATHORE, K. S., SUNDARAM, S., SUNILKUMAR, G., CAMPBELL, L. M., PUCKHABER, L., MARCELL, S., PALLE, S. R., STIPANOVIC, R. D. & WEDEGAERTNER, T.C. (2012) Ultra-low gossypol cottonseed: generational stability of the seed-specific, RNAi-mediated phenotype and resumption of terpenoid profile following seed germination. Plant Biotech J. 10: 174-183. 33. KUMAR, V., PARKHI, V., JOSHI, S., CHRISTENSEN, S., KOLOMIETS, M. & *RATHORE K. S. (2012) A novel, conditional, lesion mimic phenotype in cotton cotyledons due to the expression of an endochitinase gene from Trichoderma virens. Plant Science 183: 86-95. 34. KUMAR, V., JOSHI, S. G., BELL, A. A. & *RATHORE K. S. (2013) Enhanced resistance against Thielaviopsis basicola in transgenic cotton plants expressing Arabidopsis NPR1 gene. Transgenic Res. 22: 359-368. 35. PALLE, S. R., CAMPBELL, L. M., PANDEYA, D., PUCKHABER, L., TOLLACK, L. K., MARCELL, S., SUNDARAM, S., STIPANOVIC, R. D., HINZE, L., WEDEGAERTNER, T.C. & *RATHORE, K. S. (2013) RNAi-mediated Ultra-low Gossypol Cottonseed Trait: Performance of Transgenic Lines under Field Conditions. Plant Biotech J. 11: 296-304. 36. REN, Y., BANG, H., GOULD, J., RATHORE K. S., PATIL, B. S. & CROSBY, K. M. (2013) Shoot regeneration and ploidy variation in tissue culture of honeydew melon (Cucumis melo L. inodorus). In Vitro Cell Dev. Biol. – Plant 49: 223-229. 37. REN, Y., BANG, H., LEE, E. J., GOULD, J., RATHORE K. S., PATIL, B. S. & CROSBY, K. M. (2013) Levels of phytoene and b-carotene in transgenic honeydew melon (Cucumis melo L. inodorus). Plant Cell Tiss. Organ Cult. 113: 291-301. 38. GAO, S-J., DAMAJ, M. B., PARK, J. W., BUENROSTRO-NAVA, M. T., MOLINA, J., WANG, X., CIOMPERLIK, J. J., MANABAYEVA, S. A., ALVARARADO, V. Y., RATHORE K. S., SCHOLTHOF, H. B. & MIRKOV, T. E. (2013) Enhanced Transgene Expression in Sugarcane by Co-Expression of Virus-Encoded RNA Silencing Suppressors. PLoS One. 8: 1-13. 39. Urriola, J. & Rathore K. S. (2013) Temporal and spatial activities of a rice glutelin promoter in transgenic sorghum. Plant Cell Tiss Organ Cult. DOI 10.1007/s11240-013-0398-8.
Book Chapters:
1. RATHORE, K. S., SUNILKUMAR, G. & CAMPBELL, L. M. (2006) Cotton (Gossypium hirsutum L.) in: Methods in Molecular Biology, Vol. 343: Agrobacterium Protocols, 2nd Ed., Vol 1, ed. K. Wang (Humana Press Inc. Totowa, NJ), pp. 267-279. 2. RATHORE K. S. (2007) Cotton. In: Biotechnology in Agriculture and Forestry, Vol. 61: Transgenic Crops VI, eds. E. C. Pua and M. R. Davey (Springer-Verlag, Berlin Heidelberg, Germany), pp. 107- 127. 3. RATHORE, K. S., SUNILKUMAR, G., CANTRELL, R. G. HAGUE, S. & REDING H.K. (2008) Cotton. In: Compendium of Transgenic Crop Plants, Vol. 7: Transgenic Sugar, Tuber and Fiber Crops, eds. C. Kole and T. C. Hall (Wiley-Blackwell. Chichester, West Sussex, UK), pp. 199-238. 4. RATHORE K. S. (2010) Cotton. In: Biotechnology in Agriculture and Forestry, Vol. 64: Genetic Modification of Plants, Eds. F. Kempken and C. Jung (Springer-Verlag, Berlin Heidelberg, Germany), pp. 269-285.
Technology Transfer (Patents): 1. Stem-regulated, plant defense promoter and uses thereof in tissue-specific expression in monocots (2007). M. B. Damaj, T. E. Mirkov, S. P. Kumpatla, A. S. Reddy, T. L. Thomas, K. S. Rathore and C. Emani. Patent No.: US 7,253,276. 2. Stem-regulated, plant defense promoter and uses thereof in tissue-specific expression in monocots (2008). T. E. Mirkov, M. B. Damaj, A. S. Reddy, T. L. Thomas, K. S. Rathore, C. Emani, and S. P. Kumpatla, Patent No.: US 7,323,622. 3. Cotton alpha-globulin promoter for seed-specific expression of transgenes (2009). K. S. Rathore, G. Sunilkumar, J. P. Connell, A. S. Reddy. Patent No.: US 7,626,081. 4. Stem-regulated, plant defense promoter and uses thereof in tissue-specific expression in monocots (2010). M. B. Damaj, T. E. Mirkov, A. S. Reddy, T. L. Thomas, K. S. Rathore, C. Emani, and S. P. Kumpatla, Patent No.: US 7,754,946. 5. Stem-regulated, plant defense promoter and uses thereof in tissue-specific expression in monocots (2011). T. E. Mirkov, M. B. Damaj, A. S. Reddy, T. L. Thomas, K. S. Rathore and C. Emani, S. P. Kumpatla. Patent No.: US 7,973,217. 6. Cotton plant with seed-specific reduction in gossypol (2011). K. S. Rathore, G. Sunilkumar, L. M. Campbell. Patent No.: US 7,999,148.
Curriculum Vitae Gunnar W. Schade Associate Professor Department of Atmospheric Sciences, Texas A&M University, 3150 TAMU, 1104 Eller O&M Building, College Station, TX 77843, USA ph: (1) 979 845-0633, FAX: (1) 979 862-4466, e-mail: [email protected]
Qualifications 1997 Dr. rer. nat. (DSc) in Chemistry, magna cum laude, Johannes Gutenberg Universität, Mainz, Germany. Thesis title: "CO emissions from degrading plant litter" (in German). Subfields: Inorganic & Analytical Chemistry, Physical Chemistry, Physical Geography Advisors: P.J. Crutzen (MPI-C), W. Baumann (Chemistry), M. Domrös (Physical Geography) 1993 Diplom, University (MSc) degree in Chemistry, Johannes Gutenberg Universität, Mainz, Germany. Thesis title: "Emissions of volatile aliphatic amines from animal husbandry" (in German); Department of Physical Chemistry; overall grade: 1 (eqv. to an A).
Positions and Professional Experience 2012-present Associate Professor, Texas A&M University, Department of Atmospheric Sciences 2012-2013 Researcher, Kjemisk Institutt, Universitetet i Oslo 2005-2012 Assistant Professor, Texas A&M University, Department of Atmospheric Sciences 2003-2005 Emmy Noether Research Fellow, University of Bremen, Germany 2001-2002 Assistant Specialist, University of California at Berkeley, Department of Environmental Science, Policy, and Management (ESPM) 1998-2001 Post-doctoral Research Fellow, University of California at Berkeley, ESPM 1997-1998 Post-doctoral Researcher at the Max-Planck-Institute of Chemistry, Air Chemistry Department, Mainz, Germany 1994-1997 Post-Graduate Research Assistant (Doktorstudent) at the Max-Planck-Institute of Chemistry, Air Chemistry Department 1993-1994 Graduate Research Assistant (diploma/masters student) at the Max-Planck-Institute of Chemistry, Air Chemistry Department
Main Research Interests Boundary Layer Atmospheric Chemistry and Biogeochemical Cycles, Analytical Chemistry. The development of instrumentation and methods to measure atmospheric trace gases and their fluxes between the biosphere and the atmosphere to improve our understanding of the underlying biogeochemical cycling and their impacts on and feedbacks with atmospheric chemistry and climate, including how anthropogenic disturbances have altered these.
Awards and Funding Past 1999 DAAD: Postdoctoral Research Grant (NATO Program): 1 year (salary only) 2003-2005 DFG: Emmy Noether Program Research Grant: 2 years including Research Group complete salary support for myself (PI), graduate student, and postdoctoral researcher; instruments for €250k plus consumables at approx. €200k 2005 BLE/BMVEL1: Exploratory research grant on animal husbandry VOC emissions (PI); no salary support; consumables at €9k (in Germany) 2005-2007 DFG: Laboratory and field measurements of methanol fluxes (Co-I with John P. Burrows; in Germany); salary support for graduate student; consumables at approx. €20k 2006-2008 USDA: Physical and chemical characterization of particulate matter emissions from Concentrated Animal Feeding Operations, CAFOs (Co-I with Dr. Sarah Brooks); $499k/3 yrs total including one month summer salary support; Contact at USDA: Dr. Ray Knighton, ph. 202-401-6417; award number 2006-35112-16636 2006-2009 Texas Air Research Center (TARC): Urban turbulence and trace gas fluxes from a tall lattice tower near downtown Houston, TX (PI); two independent funds (~$14k/yr + $59k/2yr) for graduate student salary, travel, and consumables; contact: George Talbert, Lamar University, ph. 409-880-2183; award numbers 066TAM0070A & 077TAM0981A 2009 DAAD2: Group Study Visit to Germany (~$5k); taking ten ATMO463 students for a study abroad trip over spring break (co-sponsored by ATMO and College of Geosciences) 2007-2010 Characterization of East Texas Air Quality (Co-I; joint project between TAMU and University of Houston researchers); $48.6k/2 yrs; award number R-07-0157 2009-2010 NSF: ARRA-EAGER: Mixing ratio and flux measurements of Volatile Organic Compounds during BEARPEX 2009 using a portable, self-sufficient REA-GC-FID system (PI); ~$85,000, award-# ATM-0934345 2010-2012 NOAA-GCC: Anthropogenic and biogenic carbon fluxes from typical urban land uses in Houston, TX (PI); ~$250,000; award #NA10OAR4310089 (no-cost extension into 2013)
Present 2010-2015 NSF-CAREER – Using an urban-to-rural gradient as a proxy for global change effects on selected biosphere-atmosphere trace gas exchanges (PI); ~$600,000, award-# 0955438 2010-2013 EPA-STAR: Improving emission inventories using direct flux measurements and modeling (PI); ~$500,000; award-# RD834556 (no-cost extension into 2014)
Publications Published or in press in the peer-reviewed literature (advised students in italic):
36. Kota, S.H., Park, C., Hale, M.C., Werner, N.D., Schade, G.W., Ying, Q., 2014. Estimation of VOC emission factors from flux measurements using a receptor model and footprint analysis. Atmospheric Environment 82, 24-35. 35. H. Zhang, D.R. Worton, M. Lewandowski, J. Ortega, C.L. Rubitschun, J.-H. Park, K. Kristensen, P. Campuzano-Jost, D.A. Day, J.L. Jimenez, M. Jaoui, J.H. Offenberg, T.E. Kleindienst, J. Gilman, W.C. Kuster, J. de Gouw, C. Park, G.W. Schade, A.A. Frossard, L. Russell, L. Kaser, W. Jud, A. Hansel, L. Cappellin, T. Karl, M. Glasius, A. Guenther, A.H. Goldstein, J.H. Seinfeld, A. Gold, R.M. Kamens, and J.D. Surratt, Organosulfates as Tracers for Secondary Organic Aerosol (SOA) Formation from 2-Methyl-3-Buten-2-ol (MBO) in the Atmosphere, Environmental Science and Technolology, 46 (17), 9437–9446, doi: 10.1021/es301648z, 2012. 34. N. C. Bouvier-Brown. G.W. Schade, L. Misson, A. Lee, M. McKay, and A.H. Goldstein, Contributions of biogenic volatile organic compounds to net ecosystem carbon flux in a ponderosa pine plantation, Atmospheric Environment 60, 527–533, 2012. 33. Mao, J., X. Ren, L. Zhang, D. M. Van Duin, R. C. Cohen, J.-H. Park, A. H. Goldstein, F. Paulot, M. R. Beaver, J. D. Crounse, P. O. Wennberg, J. P. DiGangi, S. B. Henry, F. N. Keutsch, C. Park, G. W. Schade, G. M. Wolfe, J. A. Thornton, and W. H. Brune, Insights into hydroxyl measurements and atmospheric oxidation in a California forest, Atmospheric Chemistry and Physics, 12, 8009-8020, 2012
1 The agricultural branch of the Ministry (BM) of Consumer Protection (V), Nutrition (E), and Agriculture (L) 2 Deutscher Akademischer Austauschdienst (German Academic Exchange Service)
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32. Beaver, M. R.; St Clair, J. M.; Paulot, F.; Spencer, K. M.; Crounse, J. D.; LaFranchi, B. W.; Min, K. E.; Pusede, S. E.; Wooldridge, P. J.; Schade, G. W.; Park, C.; Cohen, R. C.; Wennberg, P. O., Importance of biogenic precursors to the budget of organic nitrates: observations of multifunctional organic nitrates by CIMS and TD-LIF during BEARPEX 2009. Atmospheric Chemistry and Physics, 12 (13), 5773-5785, 2012. 31. Park, C., G.W. Schade, and I. Boedeker, Correction to “Characteristics of the flux of isoprene and its oxidation products in an urban area”, JGR-Atmospheres, 117, D01304, doi 10.1029/2011jd017254, 2012 30. Schade, G.W., S. Khan, C. Park, and I. Boedeker, Rural southeast Texas air quality measurements during the 2006 Texas Air Quality Study, Journal of the Air and Waste Management Association, 61, 1070-1081, 2011 29. Park, C., G.W. Schade, and I. Boedeker, Characteristics of the flux of isoprene and its oxidation products in an urban area, JGR-Atmospheres, 116, D21303, doi 10.1029/2011jd015856, 2011 28. G. W. Schade, S. J. Solomon, E. Dellwik, K. Pilegaard, A. Ladstätter-Weissenmayer, Methanol and other VOC fluxes from a Danish beech forest during springtime, Biogeochemistry,106(3), 337-355, 2011 27. C. Park, G.W. Schade, I. Boedeker, Flux Measurements of Volatile Organic Compounds by the Relaxed Eddy Accumulation method combined with a GC-FID system north of downtown Houston, Texas, Atmospheric Environment, 44, 2605-2614, 2010 26. G. W. Schade, and B. Rappenglück, Unique Meteorological Measurements during hurricane Ike’s passage over Houston, EOS, 90(25), 215-216, 2009. 25. Apel, E. C., Brauers, R. Koppmann, R. Tillmann, C. Holzke, R. Wegener, J. Boßmeyer, A. Brunner, T. Ruuskanen, M. Jocher, C. Spirig, R. Steinbrecher, R. Meier, D. Steigner, E. Gomez Alvarez, K. Müller, S.J. Solomon, G. Schade, D. Young, P. Simmonds, J.R. Hopkins, A.C. Lewis, G. Legreid, A. Wisthaler, A. Hansel, R. Blake, K. Wyche, A. Ellis, P.S. Monks, Intercomparison of oxygenated volatile organic compound measurements at the SAPHIR atmosphere simulation chamber, J. Geophys. Res., 113, D20307, doi:10.1029/2008JD009865, 2008 24. Solomon, S. J., Schade, G. W., Ladstätter-Weissenmayer, A., and Burrows J., VOC concentrations in an indoor workplace environment of a university building, Indoor and Built Environment, 17(4), 260-268, 2008 23. Steiner, A.L., Cohen, R.C., Harley, R.A., Tonse, S., Goldstein, A.H., Millet, D.B., and Schade, G.W., VOC reactivity in central California: Comparing an air quality model to ground based measurements, Atmos. Chem. Phys., 8, 351–368, 2008 22. Ngwabie, N.M., Schade, G.W., Custer, T.G., Linke, S., Hinz, T., Abundances and flux estimates of VOCs from a dairy cowshed in Germany, Journal of Environmental Quality, 37, 565-573, 2008 21. H. J. Hellebrand and G. W. Schade, Carbon monoxide from composting due to thermal oxidation of biomass, Journal of Environmental Quality, 37, 592-598, 2008 20. T. G. Custer and G. W. Schade, Methanol and Acetaldehyde Fluxes Over Ryegrass, Tellus B, 59, 673-684, 2007 19. Schade, G. W., and A. H. Goldstein, Seasonal measurements of acetone and methanol: Abundances and implications for atmospheric budgets, Global Biogeochem. Cycles, 20, GB1011, doi:10.1029/2005GB002566, 2006. 18. S. J. Solomon, Custer, T.G., Schade, G.W., Soares Dias, A.P., Atmospheric methanol measurement using selective catalytic methanol to formaldehyde conversion, Atmospheric Chemistry and Physics, 5, 1-27, 2005. 17. A. Lee, G. W. Schade, R. Holzinger, and A. H. Goldstein, A comparison of new measurements of total monoterpene flux with improved measurements of speciated monoterpene flux, Atmos. Chem. Phys. 5, 505-513, 2005. 16. G. W. Schade and T. G. Custer, OVOC emissions from agricultural soil in northern Germany during the 2003 European heat wave, Atmos. Environ., 38(36), 6105-6114, 2004. 15. A. H. Goldstein, M. McKay, M. R. Kurpius, G. W. Schade, A. Lee, R. Holzinger, and R. A. Rasmussen, Forest thinning experiment confirms ozone deposition to forest canopy is dominated by reaction with biogenic VOCs, Geophys. Res. Lett. 31, L22106, doi:10.1029/2004GL021259, 2004. 14. Schade, G.W., and Goldstein, A.H., Increase of monoterpene emissions from a pine plantation as a result of mechanical disturbances, Geophys. Res. Lett. 30(7), doi:10.1029/2002GL016138, 2003.
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13. Spaulding, R., Schade, G. W., Goldstein, A. H., and Charles, M. J., Characterization of Secondary Atmospheric Photooxidation Products: Evidence for Biogenic and Anthropogenic Sources, J. Geophys. Res., 108(D8), 4247, doi:10.1029/2002JD002478, 2003. 12. Dreyfus, G., Schade, G. W., and Goldstein, A. H., Observational Constraints on the Contribution of Isoprene Oxidation to Ozone Production on the Western Slope of the Sierra Nevada, CA, J. Geophys. Res., 107(D19), 4365, DOI:10.1029/2001JD001490, 2002. 11. Schade, G.W., Dreyfus, G., and Goldstein, A. H., Atmospheric methyl-tertiary-butyl-ether (MTBE) at a rural mountain site in California, J. Environ. Qual., 31(4), 1088-1094 , 2002. 10. Schade, G.W., and Goldstein, A.H., Plant physiological influences on the fluxes of oxygenated volatile organic compounds from ponderosa pine trees, J. Geophys. Res., 107(D10), DOI: 10.1029/2001JD000532, 2002. 9. Dillon, M. B., Lamanna, M. S., Schade, G. W., Goldstein, A. H., and Cohen, R. C., Chemical evolution of the Sacramento urban plume: transport and oxidation, J. Geophys. Res., 107(D5), doi:10.1029/2001JD000969, 2002. 8. Schade, G.W., and Goldstein, A.H., Fluxes of oxygenated volatile organic compounds from a ponderosa pine plantation, J. Geophys. Res., 106(D3), 3111-3124, 2001. 7. Goldstein, A.H., and Schade, G.W., Quantifying biogenic and anthropogenic contributions to acetone mixing ratios in a rural environment, Atmos. Environ., 34 (29-30), 4997-5006, 2000. 6. Schade, G.W., Goldstein, A.H., Gray, D.W., and Lerdau, M., Canopy scale and leaf level 2-methyl-3-buten-2-ol fluxes from a ponderosa pine plantation, Atmos. Environ., 34, 3535-3544, 2000. 5. Schade, G.W., Goldstein A.H., and Lamanna M. S., Are monoterpene emissions influenced by humidity?, Geophys. Res. Lett., 26(14), 2187-2190, 1999. 4. Holzinger, R., C. Warnecke, A. Hansel, A. Jordan, W. Lindinger, D.H. Scharffe, G.W. Schade, and P.J. Crutzen 1999, Biomass Burning as a Source of Formaldehyde, Acetaldehyde, Methanol, Acetone, Acetonitrile, and Hydrogen Cyanide, Geophys. Res. Lett., 26(8), 1161-1164, 1999. 3. Schade, G.W., R.M. Hofmann, and P.J. Crutzen, 1999: CO emissions from degrading plant matter, (I) Measurements, Tellus, 51(5), 889-908, 1999. 2. Schade, G.W., and P.J. Crutzen, CO emissions from degrading plant matter, (II) Estimate of a global source strength, Tellus, 51(5), 909-918, 1999. 1. Schade, G.W. and P.J. Crutzen, Emissions of Aliphatic Amines from Animal Husbandry and their Reactions: Potential Source of N2O and HCN, J. Atmos. Chem., 22, 319-346, 1995.
Submitted/Accepted: Liang Zhu, Gunnar W. Schade, and Claus J. Nielsen, Real time monitoring of emissions from monoethanolamine- based industrial scale carbon capture facilities, Environmental Science and Technology, November 11, 2013, DOI: 10.1021/es4035045 Sri Harsha Kota, Hongliang Zhang , Gang Chen, Gunnar W. Schade, and Qi Ying, Evaluation of On-road Vehicle CO and NOx Emission Inventories Using a Source-oriented Air Quality Model, Atmospheric Environment, accepted
Book Chapters
G.W. Schade, Meteorological Characteristics of Hurricane Ike During its Passage over Houston, Texas, in: Hurricane Research, edited by Kieran Hickey, ISBN 980-953-307-559-9, 2012
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Dr. Libo Shan, Nov. 2013 Curriculum Vitae
CURRICULUM VITAE Libo Shan Institute for Plant Genomics and Biotechnology Department of Plant Pathology and Microbiology Faculty of Molecular & Environmental Plant Sciences (MEPS) Texas A&M University, College Station, TX 77843 Phone: 979-845-8818; Email: [email protected] Education: 2003-2008 Harvard Medical School, Boston, MA Molecular Biology Postdoc 1998-2003 Kansas State University, Manhattan, KS Plant Pathology Ph.D. 1995-1998 Chinese Academy of Sciences, China Genetics M.S. 1991-1995 Beijing Normal University, China Biochemistry B.S.
Professional Positions and Appointment: 2013-present Associate Professor Department of Plant Pathology and Microbiology Institute for Plant Genomics and Biotechnology Faculty of Molecular & Environmental Plant Sciences (MEPS) Texas A&M University, College Station, TX 2009-2013: Assistant Professor Department of Plant Pathology and Microbiology Institute for Plant Genomics and Biotechnology Faculty of Molecular & Environmental Plant Sciences (MEPS) Texas A&M University, College Station, TX 2003-2008: Research Fellow, Massachusetts General Hospital and Harvard Medical School
Honors and Awards: • Dean’s Outstanding Achievement Award for Excellence in Early Career Research, The College of Agriculture and Life Sciences, Texas A&M University, 2013 • American Society of Plant Biology Women’s Young Investigator Travel Award, 2010 • Don C. Warren Genetic Scholarship, Kansas State University, 2002-2003 • Di-Ao Scholarship, Chinese Academy of Sciences, 1998
Research Funding Awards: • NIH R01, Phosphorylation and ubiquitination of immune sensory complexes in innate immune signaling, PI, $1,216,245.00; 04/01/2011-03/31/2016 • USDA, Cotton functional genomics in biotic and abiotic stress responses, PI, $498,464.00; 04/15/2012 to 04/14/2015 • NSF, Collaborative Research: Modulation of host auxin physiology by Pseudomonas syringae, PI, $299,581.00; 09/01/2010 to 08/31/2013 • The Welch Foundation, Biochemical and Regulatory Constraints of Immune Sensors, PI, $180,000.00; 06/01/2012 to 05/31/2015 • Texas AgriLife Research Cotton Improvement Program, Mining Genes for Texas Cotton: Identify and Deploy Genes that Confer Resistance to Pathogen Stress. Co-PI, $32,000.00; 09/01/2013 to 08/31/2014 Dr. Libo Shan, Nov. 2013 Curriculum Vitae
• Texas AgriLife Research Cotton Improvement Program, Mining Genes for Texas Cotton: Identify and Deploy Genes that Confer Resistance to Verticillium Wilt, PI, $32,000.00; 09/01/2011 to 08/31/2013 • Texas AgriLife Research Genomics Seed Grant Program, Discovery novel cotton drought-inducible genes by next generation sequencing, PI, $30,263.29; 09/01/2011 to 08/31/2012
Teaching • BESC201 “Introduction to the Bioenvironmental Sciences” 3 Credit, undergraduate course (100~150 students) • PLPA616 “Principle & Methodology in Molecular Plant-Microbe Interactions” 2 credit, Graduate course (~15 students) • PLPA681 “Seminar in Molecular Plant-Microbe Interaction Research” 1 credit, Graduate course (~15 graduate students)
Publications • Lin, W., Li, B., Lu, D., Chen, S., Zhu, N., He, P., and Shan, L., Tyrosine phosphorylation of BAK1/BIK1 mediates Arabidopsis innate immunity. Proc Natl Acad Sci U S A. (In revision) • Li, B., Lu, D., Shan, L., Ubiquitination of pattern recognition receptors in plant innate immunity. Mol. Plant Path. (In revision) • Zhou, J and Shan, L. Ubiquitination of plant immune receptors. Methods in Mol Biol. (In Press) • Zhou, J., Wu, S., Chen, X., Liu, C., Sheen, J., Shan, L., and He, P. (2013). Pseudomonas syringae Effector HopF2 Suppresses Arabidopsis Immunity by Targeting BAK1. The Plant Journal. Accepted manuscript online: 15 NOV 2013 02:20AM EST | DOI: 10.1111/tpj.12381 • Cheng C., Gao X., Feng B., Sheen J., Shan L., He P. (2013) Plant immune response to pathogens differs with changing temperatures. Nat Commun. 4:2530. doi: 10.1038/ncomms3530 • Lin, W., Lu, D., Gao, X., Jian, S., Ma, X., Wang, Z., Mengiste, T., He, P., and Shan L. (2013) Inverse modulation of plant immunity and plant development by a receptor-like cytoplasmic kinase BIK1. Proc Natl Acad Sci U S A. 110 (29):12114-9. Doi 10.1073/pnas.1302154110 • Cui, F., Wu, S., Sun, W., Coaker, G., Kunkel, B. N, Shan, L. (2013) The Pseudomonas syringae type III effector AvrRpt2 promotes pathogen virulence via stimulating Arabidopsis Auxin/Indole Acetic Acid protein turnover. Plant Physiology 162:1018-1029. • Gao, X., Chen, X., Lin, W., Lu, D., Niu, Y., Li, L., Cheng, C., McCormack, M., Sheen, J., Shan, L., and He, P. (2013) Bifurcation of Arabidopsis NLR Immune Signaling via Ca2+-Sensor Protein Kinases. PLoS Pathog 9, e1003127. • Lin, W., Ma, X., Shan, L., and He, P. (2013) Big roles of small kinases: the complex functions of receptor-like cytoplasmic kinases in plant immunity and development. Journal of Integrative Plant Biology. doi: 10.1111/jipb.12071. • Gao, X., Li, F., Li, M., Kianinejad, A., Dever, J., Wheeler , T., Li, Z., He, P., and Shan, L., 2013 Cotton GhBAK1 mediates Verticillium wilt resistance and cell death. Journal of Integrative Plant Biology. 55(7):586-96. doi: 10.1111/jipb.12064 • Gao X, Shan L (2013) Functional genomic analysis of cotton genes with agrobacterium-mediated virus-induced gene silencing. Methods in Mol Biol 975, 157-165. • Lu, D., Lin, W., Gao, X., Wu, S., Cheng, C., Avila, J., Heese, A., Devarenne, T., He, P., and Shan, L. (2011) Direct ubiquitination of pattern recognition receptor FLS2 attenuates plant innate immunity. Science. 332: 1439-1442. Perspective: O’Neill, L., (2011) Innate immunity in plants goes to the PUB. Science 332: 1386-1387; • Gao, X., Britt, R.C., Shan, L. and He, P. (2011) Agrobacterium-mediated virus-induced gene silencing assay in cotton. J Vis Exp. 54 Dr. Libo Shan, Nov. 2013 Curriculum Vitae
• Gao, X., Wheeler, T., Li, Z., Kenerley, C., He, P., and Shan, L. (2011) Silencing GhNDR1 and GhMKK2 compromised cotton resistance to Verticillium wilt. The Plant Journal. 66(2):293-305. • Wu, S., Lu, D., Kabbage, M., Wei, H., Swingle, B., Dickman, M., He, P., and Shan, L. (2011) Bacterial effector HopF2 suppresses Arabidopsis innate immunity at the plasma membrane. Mol. Plant Microbe Interact. 24(5):585-93. • Lu, D., Wu, S., He, P., and Shan, L. (2010) Phosphorylation of receptor-like cytoplasmic kinases by bacterial flagellin. Plant Signal Behav. 5 (5). • Lu, D., Wu, S., Gao, X., Zhang, Y., Shan, L. and He, P. (2010) A receptor-like cytoplasmic kinase BIK1 associates with flagellin receptor complex to initiate plant innate immunity. Proc Natl Acad Sci U S A. 107:496-501. • Lu, D., He, P., and Shan, L. (2010) Bacterial effectors target BAK1-associated receptor complexes: one stone two birds. Communicative & Integrative Biology. 3 (2):80-83. • Boudsocq, M., Willmann M. R., McCormack, M., Lee, H., Shan L., He P., Bush, J., Cheng, S., and Sheen J., (2010) Differential innate immune signalling via Ca2+ sensor protein kinases. Nature. 464: 418-422. • Chinchilla, D., Shan, L., He, P., de Vries, S. and Kemmerling, B. (2009) One for all-the receptor- associated kinase BAK1. Trend in Plant Science.14 (10) 535-541. • Shan, L. , He, P. , Li, J., Heese, A., Peck, S. C., Nurnberger, T., Martin, G. B., and Sheen, J. (2008). Bacterial effectors target the common signaling partner BAK1 to disrupt multiple MAMP receptor- signaling complexes and impede plant immunity. Cell Host & Microbe 4: 17-27. • Chen, Z., Agnew, J., Cohen, J., He, P., Shan, L., Sheen, J., and Kunkel, K. (2007). The Pseudomonas syringae type III effector AvrRpt2 alters Arabidopsis thaliana auxin physiology. Proc. Natl. Acad. Sci. U. S. A 104: 20131-20136. • Shan, L., He, P., and Sheen, J. (2007). Intercepting host MAPK signaling cascades by bacterial type III effectors. Cell Host & Microbe 1: 167-174. • He, P., Shan, L., and Sheen, J. (2007) Elicitation and suppression of MAMP-triggered immunity in plant-microbe interactions. Cell Microbiol 9: 1385-1396. • Shan, L. , He, P., and Sheen, J. (2007) Endless hide-and-seek: dynamic coevolution in plant bacterium warfare. Journal of Integrative Plant Biology 49:105-111. • He, P., Shan, L. and Sheen, J. (2006) The use of protoplasts to study innate immune responses. Methods in Mol Biol. 354: 1-10. • He, P.*, Shan, L.*, Lin, N.-C., Martin, G., Kemmerling, B., Nurnberger, T., and Sheen, J. (2006). Specific bacterial suppressors of MAMP signaling upstream of MAPKKK in Arabidopsis innate immunity. Cell 125: 563-575. (*Co-first author) • Robert-Seilaniantz, A.*, Shan, L.*, Zhou, J.-M., and Tang, X. (2006). The Pseudomonas syringae pv. tomato DC3000 type III effector HopF2 has a putative myristoylation site required for its avirulence and virulence functions. Mol. Plant Microbe Interact. 19: 130-138. (*Co-first author) • Shan, L., Oh, H., Chen, J., Guo, M., Zhou, J.-M., Alfano, J.R., Collmer, A., Jia, X., and Tang X. (2004). The HopPtoF locus of Pseudomonas syringae pv. tomato DC3000 encodes a type III chaperone and a cognate effector. Mol. Plant Microbe Interact. 17: 447-455. • Li, J., Shan, L., Zhao, T., Zhou, J.-M., and Tang, X. (2002). Salicylic acid and ethylene are not essential for spontaneous cell death and PR gene induction in tomato plants overexpressing Pto. Mol. Plant Microbe Interact. 15: 654-661. • Petnicki-Ocwieja, T., Schneider, D. J., Tam, V. C., Chancey, S. T., Shan, L., Jamir, Y., Schechter, L. M., Janes, M. D., Buell, C. R., Tang, X., et al. (2002).Genomewide identification of proteins secreted by the Hrp type III protein secretion system of Pseudomonas syringae pv. tomato DC3000. Proc. Natl. Acad. Sci. U S A 99: 7652-7657. • He, P., Warren, R. F., Zhao, T., Shan, L., Zhu, L., Tang, X., and Zhou, J.-M. (2001). Overexpression of Pti5 in tomato potentiates pathogen-induced defense gene expression and enhances disease resistance to Pseudomonas syringae pv. tomato. Mol. Plant Microbe Interact. 14: Dr. Libo Shan, Nov. 2013 Curriculum Vitae
1453-1457. • Shan, L., Thara, V.K., Martin, G.B., Zhou, J.-M., and Tang, X. (2000). The Pseudomonas AvrPto protein is differentially recognized by tomato and tobacco and is localized to the plant plasma membrane. Plant Cell 12: 2323-2338. • Shan, L., He, P., Zhou, J.-M., and Tang, X. (2000). A cluster of mutations disrupt the avirulence but not the virulence function of AvrPto. Mol. Plant Microbe Interact. 13: 592-598. • Shan, L., Li, Y.W., Zhao, T.H., Liang, H., Ouyang, J.W., Jia, S.E., and Jia, X. (2000). Estimation of biolistic transformation effect by transient expression of C1-R regulatory genes of anthocyanin biosynthesis. Acta Genetica Sinica 27: 65-69.
Professional Activities Review for scientific journals: Science Signaling, PNAS, PloS Pathogen, Plant Cell, Plant Journal, Plant Physiology, Molecular Plant Microbe Interaction, Molecular Plant, Molecular Plant Pathology, European Journal of Plant Pathology, Frontier in Cellular and Infection Microbiology, PloS One
Review for grant agencies: NSF, USDA, The Netherlands Organisation for Scientific Research (NWO, the Dutch research council); United States-Israel Binational Agricultural Research and Development Fund (BARD); Flanders (Belgium)
Panel service NSF review panel in fall of 2010
Editorial service • Editorial Board Member of The Arabidopsis Book, 2013-present • Editorial Board Member of Molecular Plant Pathology, 2012-present • Associate editor for Frontier in Plant-Microbe Interaction, 2013-present • Review editor for Frontier in Plant Physiology, 2010-present • Review editor for Frontier in Plant Traffic and Transport , 2011-present
University service • Department Undergraduate curriculum development Committee, 2010, 2011, 2012 • Research and Distinguished Speaker Seminar Committee Chair, 2013 • Chair of Texas A&M University MEPS symposia, 2010, 2011
David M. Stelly
Professor, Dept. Soil & Crop Sciences (SCSC) Contact Information: Texas A&M University and Texas A&M AgriLIFE Research 370 Olsen Blvd. Dept. Soil & Crop Sciences, TAMU College Station, TX 77843-2474 USA Professional Teaching Appointments: Tel.: (979) 845-2745, Professor (1993-present), Member of the Graduate Faculty Mobile: (979) 676-2087 Fax.: (979) 845-0456 Graduate Degree Programs Email: [email protected] Plant Breeding (PLBR) Faculty Web Pages: Molecular & Environmental Plant Sciences (MEPS) http://soilcrop.tamu.edu/staff/stelly-david-m/ http://genetics.tamu.edu/faculty/stelly_david1 Genetics (GENE) Professional Research Appointment: Professor (1993-present), Texas A&M AgriLIFE Research Professional Preparation: University of Wisconsin - Madison Genetics B. Sc., 1975 Iowa State University Plant Breeding & Cytogenetics M. Sc., 1979 University of Wisconsin - Madison Plant Breeding & Plant Genetics Ph. D., 1983
Goals: Enhance society and its sustainability by Increasing sustainability, usefulness and economic yields from cotton Creating new biofuel crops from sorghum wide-hybridization Educating scientists so that they think creatively and incisively, and are enthused by the prospect of bringing about novel crop genetic improvements Research Activities We endeavor to increase baseline genetic crop genetic potentials through integrative research involving genetics, cytogenetics, molecular cytogenetics, reproductive manipulations (genomes, chromosomes, sexuality, fertility, crossability), genomics, informatics and breeding : Development and maintenance of the Cotton Cytogenetics Collection Chromosome manipulations, including interspecific chromosome substitution Cotton germplasm utilization, wide-hybridization and germplasm introgression Integrative mapping, genomics & sequencing -- SNP development, mapping, integration Molecular cytogenetics Reproductive genetics & cytology; ploidy manipulations; apomixis and doubled haploid extraction Fiber development and improvements Teaching Activities Teaching activities are largely focused in the following areas. Graduate student advising: Plant Breeding (PLBR), Genetics (GENE), and Molecular & Environmental Sciences (MEPS) graduate programs, and two courses: SCSC 603: Plant cytological preparations, microscopy, cytometry and imaging, a three-credit lecture- laboratory methods course, and GENE 620: Cytogenetics (all eukaryotes) , a three-credit lecture course.
Synergistic Activities (five examples): 1. International Cotton Genome Initiative (ICGI) -- Co-Chair 2013-2015 (Chair-elect for 2015-17). Previously served as the first elected overall “Chair” (2002-2005), and also as various workgroup chairs, most recently as Chair for Structural Genomics 2011-2013. http://www.cottongen.org/icgi/home
2. National Association of Plant Breeders (NAPB): Past-President (2013-14), President (2012-13), Vice-President (2011-12); Secretary (2010). Co-organizer of the 2011 Annual Meetings for PBCC and NAPB at TAMU May 23-25, 2011). http://www.plantbreeding.org/napb/ 3. Plant Breeding Coordinating Committee (PBCC): Exec. Comm. (2007-2009); Chair of Excellence in Science and Technology (2007-2009). http://cuke.hort.ncsu.edu/gpb/pr/pbccmain.html 4. Educational workshops and tours for K-12, minority and international students: "Genome: The Secret of How Life Works" (2012-13): -- helped developed Bush Library plans and cotton exhibit and slideshow items Biotech research tours for middle schoolers (multiple years); NSF “Stepping into Biotechnology” 2-d workshops (2005, 2006), http://cottongenomics.biosci.utexas.edu/workshop/) outreach. 4-H lab tours and Biotech tour for UTPA (S. TX) undergraduates. Extended tour for UAAAN (http://siu.uaaan.mx/) graduate student groups Saltillo MX (2002- 5, 2006, 2007, 2009, 2011, 2013). 5. Education: Guest lecturer, Plant Breeding Academy and European Plant Breeding Academy (UC- Davis) http://pba.ucdavis.edu/, 2007-13.
REFEREED PUBLICATIONS LAST FOUR YEARS (Total: >130 refereed; >390 overall):
Wallace, T. P., D. Bowman, B. T. Campbell, P. Chee, O. A. Gutierrez, R. J. Kohel, J. McCarty, G. Myers, R. Percy, F. Robinson, W. Smith, D. M. Stelly, J. M. Stewart, P. Thaxton, M. Ulloa, D. B. Weaver. 2009. Status of the USA cotton germplasm collection and crop vulnerability. Genet Resour Crop Evol (2009) 56:507– 532. DOI 10.1007/s10722-008-9382-2 Costa, F.R.. T.N.S. Pereira, G.L. Hodnett, M.G. Pereira, D.M. Stelly. (2008/9). Fluorescent in situ hybridization of 18S and 5S rDNA in papaya (Carica papaya L.) and wild relatives.” Caryologia 61: 411-416, 2008. http://www1.unifi.it/caryologia/past_volumes/61_4/1530.pdf Dighe, N., A.F. Robinson, A.A. Bell, M. Menz, R. Cantrell and D.M. Stelly. (2009.) Linkage mapping of resistance to reniform nematode in cotton (Gossypium hirsutum L.) following introgression from G. longicalyx (Hutch. & Lee). Crop Science 49:1151-1164. http://crop.scijournals.org/cgi/reprint/49/4/1151 Gutierrez, O.A., D.M. Stelly, S. Saha, J.N. Jenkins, J.C. McCarty Jr., D.A. Raska, and B.E. Scheffler. (2009.) Integrative placement and orientation of non-redundant SSR loci in cotton linkage groups by deficiency analysis. Mol. Breeding 23:693–707. Link Jham, G. N., Moser, B. R. Shah, S. N., Holser, R. A. Dhingra, O. D. Vaughn, S. F., Berhow, M. A., Winkler-Moser, J. K., Isbell, T. A., Holloway, R. K., Walter, E. L., Natalino, R., Anderson, J. C. and Stelly, D. M. 2009. Wild Brazilian Mustard (Brassica juncea L.) Seed Oil Methyl Esters as Biodiesel Fuel. Journal of the American Oil Chemists' Society. 86:917–926. Link Kuhlman, L.C., Burson, B.L., Klein, P.E., Klein, R.R.; Stelly, D.M.; Price, H.J.; and Rooney, W.L. 2009. Genetic recombination in Sorghum bicolor x S. macrospermum interspecific hybrids. Genome 51:749-756. http://article.pubs.nrc-cnrc.gc.ca/RPAS/rpv?hm=HInit&journal=gen&volume=51&afpf=g08-061.pdf Ortiz, Rodomiro, P. Simon, S. Jansky and D. Stelly. 2009. Ploidy manipulation of the gametophyte, endosperm and sporophyte in nature and for crop improvement: a tribute to Professor Stanley J. Peloquin (1921– 2008). Annals of Botany 104:795–807. Link Van Deynze, A., K. Stoffel, M. Lee, T.A. Wilkins, A. Kozik, R.G. Cantrell, J.Z. Yu, R.J. Kohel, D.M. Stelly. Sampling nucleotide diversity in cotton. BMC Plant Biology 2009, 9:125-136. http://www.biomedcentral.com/content/pdf/1471-2229-9-125.pdf Bona, C.M. de, J.H. Gould, J.C. Miller Jr., D. Stelly and E.S. Louzada. 2009. Citrus asymmetric somatic hybrids produced via fusion of gamma-irradiated and iodoacetamide-treated protoplasts. Pesquisa
Agropecuária Brasileira 44:454-462. http://www.scielo.br/pdf/pab/v44n5/v44n5a04.pdf Bona, C.M. de, D. Stelly, J.C. Miller Jr. and E.S. Louzada. 2009. Fusion of protoplasts with irradiated microprotoplasts as a tool for radiation hybrid panel in citrus. Pesquisa Agropecuária Brasileira 44:1616-1623. http://www.scielo.br/pdf/pab/v44n5/v44n5a04.pdf" Xiao, J., K. Wu, D. D. Fang, D. M. Stelly, J. Yu, and R. G. Cantrell. 2009. New SSR Markers for Use in Cotton (Gossypium spp.) Improvement. J. Cotton Science 13:75–157. http://www.cotton.org/journal/2009- 13/2/upload/JCS13-75.pdf Hodnett, G. L., A. L. Hale, D. J. Packer, D. M. Stelly, J. da Silva and W. L. Rooney. 2010.(Accptd/2009Dec.) Elimination of a reproductive barrier facilitates intergeneric hybridization of Sorghum bicolor and Saccharum. Crop Science 50:1188-1195. doi: 10.2135/cropsci2009.09.0486. Kuhlman, L. C., B. L. Burson, D. M. Stelly, P. E. Klein, R. R. Klein, H. J. Price, and W. L. Rooney. 2010. Early- generation Germplasm Introgression from Sorghum macrospermum into Sorghum (S. bicolor). Genome 53:419-429. doi:10.1139/G10-027 Buriev, Z. T., S. Saha, I. Y. Abdurakhmonov, J. N. Jenkins, A. Abdukarimov, B. E. Scheffler, D. M. Stelly. 2010. Clustering, haplotype diversity and locations of MIC-3: a unique root-specific defense-related gene family in Upland cotton (Gossypium hirsutum L.) Theor Appl Genet. 120:587-606, DOI 10.1007/s00122-009-1178-z Wang, K., W. Guo, Z. Yang, Yan Hu, W. Zhang, B. Zhou, D. M. Stelly, Z. J. Chen, T. Zhang. 2010. Structure and size variations between 12A and 12D homoeologous chromosomes based on high-resolution cytogenetic map in allotetraploid cotton. Chromosoma 1193:255-266. DOI 10.1007/s00412-009- 0254-0 Saha, S. J. Wu, J.N. Jenkins, J.C. McCarty, R. Hayes and D.M. Stelly. 2010. Genetic dissection of chromosome substitution lines of cotton to discover novel Gossypium barbadense L. alleles for improvement of agronomic traits. Theor. Appl. Genet. 120:1193-1205. DOI 10.1007/s00122-009-1247-3 Buriev, Z. T., S. Saha, S. E. Shermatov, J. N. Jenkins, A. Abdukarimov, D. M. Stelly and I. Y. Abdurakhmonov. 2011. Molecular evolution of the clustered MIC-3 multigene family of Gossypium species. Theor Appl Genet 123:1359–1373. (doi:10.1007/s00122-011-1672-y) Saha, S., J. Wu, J. N. Jenkins, J. C. McCarty, R. Hayes and D. M. Stelly. 2011. Delineation of interspecific epistasis on fiber quality traits in Gossypium hirsutum by ADAA analysis of intermated G. barbadense chromosome substitution lines. Theor. Appl. Genet. 122:1351–1361. http://ddr.nal.usda.gov/bitstream/10113/48913/1/IND44568359.pdf Guan X, Lee JJ, Pang M, Shi X, Stelly DM and Z. Jeffrey Chen. 2011. Activation of arabidopsis seed hair development by cotton fiber-related genes. PLoS ONE 6(7): e21301. doi:10.1371/journal.pone.0021301 Bartek, M. S., G. L. Hodnett, B. L. Burson, D. M. Stelly and W. L. Rooney. 2012. Pollen tube growth after intergeneric pollinations of iap-homozygous sorghum. Crop Science 52: 4: 1553-1560. doi:10.2135/cropsci2011.09.0474 Gao, W, Saha, DP Ma, Y Guo, JN Jenkins and DM Stelly. 2012. A cotton-fiber-associated cyclin-dependent kinase a gene: characterization and chromosomal location. Intl J Plant Genomics 2012, 613812, 10 pp, doi:10.1155/2012/613812 "Jenkins, J.N., McCarty, J.C., Wu, J., Hayes, R. and Stelly, D. Genetic effects of nine Gossypium barbadense L. chromosome substitution lines in top crosses with five elite Upland cotton G. hirsutum L. cultivars. Euphytica 187(2):161-173. DOI 10.1007/s10681-011-0580-1 Paterson, A H., J. F. Wendel, H. Gundlach, H. Guo, J. Jenkins, D. Jin, D. Llewellyn, K. C. Showmaker, S. Shu, J. Udall, M. Yoo, R. Byers, W. Chen, A. Doron-Faigenboim, M. V. Duke, L. Gong, J. Grimwood, C. Grover, K. Grupp, G. Hu, T. Lee, J. Li, L. Lin, T. Liu, B. S. Marler, J. T. Page, A. W. Roberts, E. Romanel, W. S. Sanders, E. Szadkowski, X. Tan, H. Tang, C. Xu, J. Wang, Z. Wang, D. Zhang, L. Zhang, H. Ashfari, F. Bedon, J. E. Bowers, C. L. Brubaker, P. W. Chee, S. Das, A. R. Gingle, C. H. Haigler, D. Harker, L. V. Hoffmann, R. Hovav, D. C. Jones, C. Lemke, S. Mansoor, M. ur Rahman, L. N. Rainville, A. Rambani, U. K. Reddy, J. Rong, Y. Saranga, B. E. Scheffler, J. A. Scheffler, D. M. Stelly, B. A. Triplett, A. Van Deynze,
M. F.S. Vaslin, V. N. Waghmare, S-A. Walford, R. J. Wright, E. A. Zaki, T. Zhang, E. S. Dennis, K. F. X. Mayer, D. G. Peterson, D. S. Rokhsar, X. Wang, J. Schmutz. 2012. The cotton genomes, their polyploidies, and the evolution of spinnable fibers. Nature 492:423-428. Saha, S., Stelly, D.M., Raska, D.A., Wu, J., Jenkins, J.N., McCarty, Jr., J.C., Makamov, A., Gotmare, V., Abudurakhmonov, I., Campbell, B.T. 2012. Chromosome substitution lines: Concept, development and utilization in the genetic improvement of upland cotton. In: Abdurakhmoov, I.Y., editor. Plant Breeding. InTech. p. 107-128. Yu, J., Kohel, R.J., Fang, D.D., Cho, J., Van Deynze, A., Ulloa, M., Hoffman, S.M., Pepper, A.E., Stelly, D.M., Jenkins, J.N., Saha, S., Kumpatla, S.P., Shah, M.R., Hugie, W.V., Percy, R.G. 2012. A high-density simple sequence repeat and single nucleotide polymorphism genetic map of the tetraploid cotton genome. Genes, Genomes, Genetics 2:43-58. doi: 10.1534/g3.111.001552 http://www.g3journal.org/content/2/1/43.abstract Saha, S, Wu, J, Jenkins, J, McCarty, J, Stelly, D.M. 2013. Interspecific chromosomal effects on agronomic traits in Gossypium hirsutum by AD analysis using intermated G. barbadense chromosome substitution lines. Theor. Appl. Genet. 126:109–117. DOI 10.1007/s00122-012-1965-9 Lee, M-K, Y Zhang, M Zhang, M Goebel, HJ Kim, BA Triplett, DM Stelly and H-B Zhang. 2013. Construction of a plant-transformation-competent BIBAC library and genome sequence analysis of polyploid Upland cotton (Gossypium hirsutum L.). BMC Genomics 14:208 doi:10.1186/1471-2164-14-208 http://www.biomedcentral.com/1471-2164/14/208 Saha, S., D. A. Raska, D. M. Stelly, S. Manchali, O. A. Gutiérrez. Hypoaneuploid chromosome substitution F1 hybrids of Gossypium hirsutum L. x G.mustelinum Miers ex Watt. J. Cotton Sci. 17:102-114. http://www.cotton.org/journal/2013-17/2/upload/JCS17-102.pdf Wu, Q., F. Liu, S. Li, G. Song, C. Wang, X. Zhang, Y. Wang, D. Stelly and K. Wang. 2013. Uniqueness of the Gossypium mustelinum Genome Revealed by GISH and 45S rDNA FISH. J. Integrative Plant Biology 55(7): 654–662. Page, J.T., M.D. Huynh, Z.S. Liechty, K. Grupp, D. Stelly, A. Van Deynze, J. Wendel, and J.A. Udall. 2013. Insights into the evolution of cotton diploids and polyploids from whole-genome re-sequencing. G3: GENES, GENOMES, GENETICS (accepted 2013 August) Saha, S., J. Wu, J.N. Jenkins, J.C. McCarty, R.W. Hayes, D.M. Stelly, D.A. Raska and B.T. Campbell. (XXXX). Tri- species shuffling of chromosomes to study the effects on fiber traits using chromosome substitution lines. Crop Science (submitted 2013 August)
Lee Tarpley Associate Professor, Plant Physiology Texas A&M AgriLife Research Center, Beaumont, Texas 77713, U.S.A. Office: (409)752-2741 x2235; E-mail: [email protected]
Degrees Received Ph.D. Texas A&M University. 1993. Plant Physiology M.S. California State University. 1987. Plant Science: Viticulture B.A. University of Wyoming. 1980. Botany (High Honors)
Present and Past Positions Associate Professor of Plant Physiology. Texas A&M AgriLife Research, Texas A&M University. 2008 - present Assistant Professor of Plant Physiology. Texas A&M AgriLife Research, Texas A&M University. 2001 - 2008 Visiting Research Plant Physiologist, Mississippi State University Dept. Plant Sci & Rem.Sens. Technol.Ctr, 1999-2001 Postdoctoral Research Plant Biochemist, USDA ARS, 1997-1999 Postdoctoral Crop Physiologist, Texas A&M University, 1996-1997 Postdoctoral Plant Physiologist, Texas A&M University, 1993-1996 Research Plant Biochemist, Texas A&M University, 1992-1993
Synergistic Activities: Monitoring of the field environment. The impacts of plant morphological and physiological properties on yield are strongly influenced by environment.I have been an early adopter in developing the practice of wireless sensing networks to continuously monitor soil and canopy conditions within fields. Such monitoring provides necessary information for interpreting variation in physiological response, but can also be economically beneficial to farmers. Part of an international network to monitor and understand variation in the rice canopy environment in diverse climates, and work with a private company and a university in Utah to research other methods for monitoring the canopy environment. Ionomics. During the last six years, I have participated in a multi-institutional study to identify genes controlling the accumulation of numerous elements in rice grain. As both a model species for genomics research and a major cereal crop, the identification of these genes allows improved knowledge in functional genomics and enhanced ability for molecular breeding to improve rice and other crops for nutritional value for consumers and for improved plant mineral nutrition. This involves enhancing levels of desirable elements while decreasing undesirable ones. Primary responsibility for plant physiology aspects of this research, and co-guided a Ph.D. student identifying root physiological and morphological traits impacting element levels in grain. Plant water status and field water management greatly influence the plant’s ionome. Training and mentoring. In 2012, training in methodology was provided to a visiting scientist from the Rubber Research Institute of India. This indicates the increasing interest to apply modern scientific understanding of the biology of the plant, element interactions, and the prominence of the Beaumont Center in ionomics research of crop plants. Currently hosting or co-hosting 2 visiting scientists. In the last year, I have mentored the research of students ranging from high school to the postdoctoral level. Lee Tarpley 2
High night temperature effects on crop production. Crop genotypes vary in response to environment in multiple ways, including in response to oxidative stress in vegetative structures. For a number of years, I have directed or partnered in research optimizing genotype and abiotic stress physiology interactions and preventive measures. The knowledge I am gaining from the stress physiology research enables me to develop translational knowledge to help farmers. Service to Scientific Societies. Incoming Secretary for the Rice Technical Working Group (RTWG), which is the principal society in the US for rice science. The ~ 300-400 members conduct or utilize a mix of basic and applied research. I have served on the executive committee in RTWG currently and for most years since 2006, and as a chair or member for one or more committees since 2002. From 2014-2020, I will become Secretary, then Chair, then Past Chair. Chair-elect for the C-9 division of the Crop Science Society of America. Service Presentations/Posters of Research: 161 Safety Officer, Texas A&M AgriLife Research Center at Beaumont, 2010 – present Invited presenter. MARCO Symposium 2009. Challenges for Agro-Environmental Research in Monsoon Asia. Tsukuba, Japan. 2009
Teaching Major advisor for two completed MEPS Ph.D. students and one completed MEPS M.S. student
Research Summary 44 refereed journal articles and refereed peer-reviewed book chapters; 100 research outreach/extension publications; 183 abstracts/proceedings; 1 book co-edited Assisted with obtaining more than $15.3 million in research funds, with about $3.7 million allocated to my program Reviewer for Crop Sci, Agron J, Soil Sci Soc Am J, Crop Manage, SABRAO J, Rice Sci, Rice, Plant Phys Biochem, Plant Methods, Plant Cell Environ, J Plant Physiol, J Plant Nutr Soil Sci, J Plant Breed Crop Sci, J Exp Bot, J Plant Growth Regul, J Plant Res, Global Change Biol, Func Plant Biol, Food Control, Field Crops Res, Exp Agric, Crit Reviews Biotechnol, Bioenergy Res, Annals Bot, Agricult Forest Meteor, PLOS One, others 2013 USDA NIFA program proposal review panel member Reviews for federal agencies, Canadian and Jordanian institutions, commercial publishers Internal manuscript reviews, Hatch proposal reviews
Acquisition of research funds Expenditures for FY 12 exceeded $300,000. Last five years, initiated: Dou, F., L. Tarpley, and G. N. McCauley. 2013. Rice varietal evaluation and nutrient management for Texas production practices. Texas Rice Research Foundation. $20,000. Filippi A. M., B Guneralp, and L. Tarpley. 2013. Bidirectional reflectance distribution function effect on arsenic and water-stress detection in rice. Ocean Optics Blue Ocean Foundation. $10,000. Dou, F., L. Tarpley, and G. N. McCauley. 2012. Rice Varietal Evaluation, Nutrient Management and Flood Water Loss, Evaluating Performance Potential for Hybrids and Select Inbred Varieties. Texas Rice Research Foundation. $51,000. Tarpley, L. 2012. Gift in thanks of training. Indian Rubber Research Institute. $9,000. Dou, F. and L. Tarpley. 2011. Rice varietal evaluation, nutrient management improvement, and planting date study for Texas production practices. Texas Rice Research Foundation. $49,900. Pinson, S. R. M. and L. Tarpley. 2011. Texas AgriLife Research sub-contract to Purdue University: Salt, D.R., Guerinot, M.L., Pinson, S.R.M. GEPR: From Ionome to Genome: Mapping the Gene Lee Tarpley 3
Networks Controlling Nutrient Content in Rice Grain (which is a 5th year creativity extension for a NSF PRGP grant. October 1, 2011 - September 30, 2012. $1,465,461 ($246,494 to my program). Wilson, L. T., Y. Yang, L. Tarpley, and M. O. Way. 2011. Texas AgriLife Research subcontract to Mississippi State University; within B. Baldwin et al. Regional Biomass Feedstock Partnership. Herbaceous Bioenergy Crop Field Trials. SunGrant. $20,000. Dou, F. and L. Tarpley. 2010. Rice Varietal Evaluation, Nutrient Management Improvement, and Planting Date Study for Texas Production Practices. Texas Rice Research Foundation. $49,900. Tarpley, L. 2010. Plant physiology-based management practices to improve Texas rice crop profitability. Texas Rice Research Foundation. $15,000. Wilson, L. T., Y. Yang, L. Tarpley, and M. O. Way. 2010. Texas AgriLife Research subcontract to Mississippi State University; within B. Baldwin et al. Regional Biomass Feedstock Partnership. Herbaceous Bioenergy Crop Field Trials. SunGrant.. $23,000. Dou, F. and L. Tarpley. 2009. Sustainable production of cellulosic biomass with attention to natural resource conservation and wildlife stewardship. TX AgriLife Bioenergy Initatives Program. $20,000. Tarpley, L. 2009. Varietal Evaluations and characterization and nutrient management improvement for Texas production practices. Texas Rice Research Foundation. $49,500. Tarpley, L. 2009. Plant physiology research to improve Texas rice main and ratoon crop yields. Texas Rice Research Foundation. $20,000. Tarpley, L., L. T. Wilson, and Y. Yang. 2009. Request for Bioenergy Exceptional Funds to be used for equipment purchase. 2009. Texas AgriLife Research Bioenergy Initiative. $12,000. Wilson, L. T., L. Tarpley, and M. O. Way. 2009. Texas AgriLife Research subcontract to Mississippi State University; within B. Baldwin et al. Regional Biomass Feedstock Partnership – Herbaceous Bioenergy Crop Field Trials. SunGrant. $23,000. Tarpley, L. 2009-2013. Various Gifts from companies: nine totaling $205,010.
Refereed, externally peer-reviewed articles/chapters from last 5 years
Dowling, C. D., B. L. Burson, J. L. Foster, L. Tarpley, and R. W. Jessup. 2013. Confirmation of pearl millet-napiergrass hybrids using EST-derived simple sequence repeat (SSR) markers. American Journal of Plant Sciences. DOI: 10.4236/ajps.2013
Mohammed, A. R., and L. Tarpley. 2013. Effects of enhanced ultraviolet-B (UV-B) radiation and antioxidative-type plant growth regulators on rice (Oryza sativa L.) leaf photosynthetic rate, photochemistry and physiology. Journal of Agricultural Science. DOI: 10.5539/jas.v5n5p115.
Zhang, M., S. R. M. Pinson, L. Tarpley, X.-Y. Huang, B. Lahner, E. Yakubova, I. Baxter, M. L. Guerinot, D. Salt. 2013. Mapping and validation of quantitative trait loci associated with concentrations of 16 elements in unmilled rice grain. Theoretical and Applied Genetics. DOI 10.1007/s00122-013-2207- 500122-013-2207-5.
Norton, G. J., S. R. M. Pinson, J. Alexander, S. Mckay, H. Hansen, G. L. Duan, M. R. Islam, S. Islam, J. L. Stroud, F. J. Zhao, S. P. McGrath, Y. G. Zhu, B. Lahner, E. Yakubova, M. L. Guerinot, L. Tarpley, G. C. Eizenga, D. E. Salt, A. A. Meharg, and A. H. Price. 2012. Variation in grain arsenic assessed in a diverse panel of rice (Oryza sativa) grown in multiple sites. New Phytologist 193-650-664.
Yoshimoto, M., M. Fukuoka, T. Hasegawa, T. Matsui, X. Tian, C. Vijayalakshmi, M. P. Singh, T. T. Myint, W. M. W. Weerakoon, T. Lafarge, H. S. Lur, and L. Tarpley. 2012. MINCERnet: a global research alliance to support the fight against heat stress in rice. Journal of Agricultural Meteorology 68: 149-157.
Lee Tarpley 4
Mohammed, A. R. and L. Tarpley. 2011. Morphological and physiological responses of nine southern US rice cultivars differing in their tolerance to enhanced ultraviolet-B radiation. Environmental and Experimental Botany, 70: 174-184.
Mohammed, A. R. and L. Tarpley. 2011. Effects of night temperature, spikelet position and salicylic acid on yield and yield-related parameters of rice (Oryza sativa L.) plants. Journal of Agronomy and Crop Science, 197: 40-49.
Mohammed, A. R. and L. Tarpley. 2011. High night temperature and plant growth regulator effects on spikelet sterility, grain characteristics and yield of rice (Oryza sativa L.) plants. Canadian Journal of Plant Science, 91: 1-9.
Mohammed, A. R. and L. Tarpley. 2011. Characterization of rice (Oryza sativa L.) physiological responses to alpha-tocopherol, glycine betaine or salicylic acid application. Journal of Agricultural Science, 3: 3-13.
Mohammed, A. R. and L. Tarpley. 2011. Effects of High Night Temperature on Crop Physiology and Productivity: Plant Growth Regulators Provide a Management Option. Stefano Casalegno (Editor). Global Warming Impacts - Case Studies on the Economy, Human Health, and on Urban and Natural Environments, ISBN 978-953-307-785-7. (Online)
Trostle, C., L. Tarpley, F. Turner, and F. Dou. 2011. Soil ammonium diffusion constraints contribute to large differences in N supply to rice in the Southern U.S. Communications in Soil Science and Plant Analysis 42: 1898–1904.
Mohammed, A. R. and L. Tarpley. 2010. Differential response of southern US rice (Oryza sativa L.) cultivars to ultraviolet-B radiation. Journal of Agronomy and Crop Science 196 (4): 286-295.
Mohammed, A. R. and L. Tarpley. 2010. Effects of high night temperature and spikelet position on yield-related parameters of rice (Oryza sativa L.) plants. European Journal of Agronomy 33 (2): 117-123.
Mohammed, A. R. and L. Tarpley. 2009. High nighttime temperatures affect rice productivity through altered pollen germination and spikelet fertility. Agricultural and Forest Meteorology 149 (38874): 999- 1008.
Mohammed, A. R. and L. Tarpley. 2009. Effects of Elevated Ultraviolet-B Radiation on Productive Tillers, Spikelet Sterility and Grain Characteristics of Southern US Rice (Oryza sativa L.) Cultivars. Journal of Agronomy and Crop Science 195 (4): 292-300.
Mohammed, A. R. and L. Tarpley. 2009. Impact of high nighttime temperature on respiration, membrane stability, antioxidant capacity, and yield of rice plants. Crop Science. 49 (1): 313-322.
Mohammed, A. R. and L. Tarpley. 2009. Instrumentation enabling study of plant physiological response to elevated night temperature. Plant Methods 5: 7 (11 June 2009).
On-line software resource
Wilson, L. T., Y. Yang, J. Wang, J. Vawter, G. N. McCauley, F. Dou, and L. Tarpley. 2012. Rice Development Advisory Vers. 2.0. Texas A&M University System. http://beaumont.tamu.edu/RiceDevA/.
CURRICULUM VITAE
Wayne K. Versaw Texas A&M University, Department of Biology, 3258 TAMU, College Station, TX 77843-3258 (979) 847-8587 fax: (979) 845-2891 email: [email protected]
Education 1990-1995 Ph.D. Biomolecular Chemistry, University of Wisconsin-Madison 1988-1990 M.S. Biochemistry, University of Nebraska-Lincoln 1983-1987 B.S. Food Science, University of Nebraska-Lincoln
Appointments 2009-current Associate Professor Department of Biology, Texas A&M University 2003-2009 Assistant Professor Department of Biology, Texas A&M University 2000-2003 Senior Research Associate II Plant Biology Division, Samuel Roberts Noble Foundation. 1998-2000 Postdoctoral Fellow Plant Biology Division, Samuel Roberts Noble Foundation. 1997-1998 Postdoctoral Research Associate Dept. of Pharmacology, University of Wisconsin-Madison. 1996-1997 Cytogenetics Technologist Waisman Center, University of Wisconsin-Madison. 1990-1995 Graduate Research Assistant Dept. of Biomolecular Chemistry, University of Wisconsin-Madison. 1988-1990 Graduate Research Assistant Dept. of Biochemistry, University of Nebraska-Lincoln. 1986-1988 Laboratory Assistant Dept. of Food Science, University of Nebraska-Lincoln.
National Service 2006-current Editorial board member for the journal Plant Signaling & Behavior 2012-current Editorial board member for the journal Frontiers in Plant Science 2010, 2005 NSF grant review panel member (Integrative Organismal Systems) 2003-current Ad Hoc reviewer for NSF grant proposals and for journals including Plant Physiology, Plant Cell, Functional Plant Biology, Eukaryotic Cell, Journal of Bacteriology, Botanical Studies, BMC Research Notes
Academic Service 2009-current Dept. of Biology Undergraduate Program Committee, Chair 2009-2010 Dept. of Biology Faculty Search Committee, member 2009-2012 Molecular and Environmental Plant Science (MEPS) Executive Committee, member 2009-2013 MEPS Graduate Program Committee, Chair 2008-current Dept. of Biology, Lower Division Instruction Advisory Committee, member 2006-2007 Dept. of Biology, Faculty Search Committee, member 2004-2006 Dept. of Biology, Graduate Program Committee, member 2003-current MEPS, member 2008-current MEPS Symposium Committee, member 2005-2009 MEPS Graduate Admissions Committee, member 2003-current Program for the Biology of Filamentous Fungi, member 2003-current Graduate Thesis Committee, chair (1 current) 2003-current Graduate Thesis Committee, member: Biology, Chemistry, Education, Genetics, MEPS, Plant Pathology & Microbiology, Soil and Crop Sciences (13 current)
Wayne K. Versaw
Teaching BIOL 111 Introductory Biology, 4 cr – (co-taught with Dr. Paul Hardin) fall semesters, 2011-current BIOL 635 Plant Molecular Biology, 3 cr (co-taught with Dr. Alan Pepper) – spring semesters, 2005-current BIOL 681 Seminar in Cell Biology, 1 cr – fall 2006, spring 2007, fall 2007 BIOL 491 Undergraduate Research, 3-4 cr – spring/summer/fall 2006-current BIOL 213 Molecular Cell Biology, 3 cr – fall semesters 2004-2010, summer 2006, 2009, 2013
Research Support Current NSF #IOS-0956486, Plastidic phosphate transport and plant biomass allocation, 02/15/2010-01/31/2014, $429,000 NSF #IOS-127224, REU Supplement to #IOS-0956486, 05/30/11-01/31/14, $5,971 NSF #IOS-1135418, REU Supplement to #IOS-0956486, 05/30/11-01/31/14, $5,954 Past NSF #IOS-1243501, co-PI, MEPS 2013: Plant signaling systems – from cells to environment (Conference) 05/13/12-05/14/12, $13,000 NSF #IOS-0416443, Molecular physiology of phosphate transport in Arabidopsis, 08/01/04-07/31/08, $515,364. NSF #IOS-0628896, REU Supplement to #IOS-0416443, 05/31/06-07/31/08, $5,485.
Publications (Members from my laboratory are indicated in bold, undergraduate student researchers are indicated with underline) Irigoyen, S., Karlsson, P.M., Kuruvilla, J., Spetea, C., Versaw, W.K. (2011) The sink-specific plastidic phosphate transporter PHT4;2 influences starch accumulation and leaf size in Arabidopsis. Plant Physiology 157: 1765-1777. Guo, B., Irigoyen, S., Fowler, T.B. and Versaw, W.K. (2008) Differential expression and phylogenetic analysis suggest specialization of plastid-localized members of the PHT4 phosphate transporter family for photosynthetic and heterotrophic tissues. Plant Signaling and Behavior 3: 784-790. Liu, J., Versaw, W.K., Pumplin, N., Gomez, S.K., Blaylock, L.A., and Harrison, M.J. (2008) Closely related members of the Medicago truncatula PHT1 phosphate transporter gene family encode phosphate transporters with distinct biochemical activities. Journal of Biological Chemistry 283: 24673-24681. Guo, B., Jin, Y., Wussler, C., Blancaflor, E.B., Motes, C.M. and Versaw, W.K. (2008) Functional analysis of the Arabidopsis PHT4 family of intracellular phosphate transporters. New Phytologist 177: 889-898. Jin, Y., Allan, S., Baber, L., Bhattarai, E.K., Lamb, T.M. and Versaw, W.K. (2007) Rapid genetic mapping in Neurospora crassa. Fungal Genetics and Biology 44: 455-465.
Beasley, A.K., Lamb, T.M., Versaw, W.K. and Bell-Pedersen, D. (2006) A rasbd Mauriceville strain for mapping mutations in Oak Ridge rasbd strains. Fungal Genetics Newsletter 53: 30-33. Zhao, L., Versaw, W.K., Liu, J. and Harrison, M.J. (2003) A phosphate transporter from Medicago truncatula is expressed in the photosynthetic tissues of plants and located in the chloroplast envelope. New Phytologist 157: 291-302. Versaw, W.K. and Harrison, M.J. (2002) A chloroplast phosphate transporter, PHT2;1, influences allocation of phosphate within the plant and phosphate-starvation responses. Plant Cell 14: 1751-1766. Versaw, W.K., Chiou, T. and Harrison, M.J. (2002) Phosphate transporters of Medicago truncatula and arbuscular mycorrhizal fungi. Plant and Soil 244: 239-245. Maldonado-Mendoza, I.E., Dewbre, G.R., van Buuren, M.L., Versaw, W.K., and Harrison, M.J. (2002) Methods to estimate the proportion of plant and fungal RNA in an arbuscular mycorrhiza. Mycorrhiza 12: 67-74. Trieu, A.T., Burleigh, S.H., Kardailsky, I.V., Maldonado-Mendoza, I.E., Versaw, W.K., Blaylock, L.A., Shin, H., Chiou, T., Katagi, H., Dewbrew, G.R., Weigel, D., and Harrison, M.J. (2000) Transformation of Medicago truncatula via infiltration of seedlings or flowering plants with Agrobacterium. Plant Journal 22: 531-541. Wayne K. Versaw
Forsberg, E.C., Zaboikina, T.N., Versaw, W.K., Ahn, N.G., and Bresnick, E.H. (1999) Enhancement of beta- globin locus control region-mediated transactivation by mitogen-activated protein kinases through stochastic and graded mechanisms. Molecular and Cellular Biology 19: 5565-5575. Versaw, W.K., Blank, V., Andrews, .M., and Bresnick, E.H. (1998) Mitogen-activated protein kinases enhance long-range activation by the beta-globin locus control region. Proc. Natl. Acad. Sci. USA 95: 8756-8760. Versaw, W.K. and Metzenberg, R.L. (1996) Activator-independent gene expression in Neurospora crassa. Genetics 142: 417-423. Versaw, W.K. and Metzenberg, R.L. (1996) Intracellular phosphate-water oxygen exchange measured by mass spectrometry. Analytical Biochemistry 241: 14-17. Versaw, W.K. and Metzenberg, R.L. (1995) Repressible cation-phosphate symporters in Neurospora crassa. Proc. Natl. Acad. Sci. USA 92: 3884-3887.
Versaw, W.K. (1995) A phosphate-repressible, high-affinity phosphate permease is encoded by the pho-5+ gene of Neurospora crassa. Gene 153: 135-139.
Versaw, W.K. and Metzenberg, R.L. (1995) Genetic mapping of the N. crassa pho-5+ gene. Fungal Genetics Newsletter 42: 78. Versaw, W.K., Bevins, M.A., and Markwell, J.P. (1991) Purification and properties of a 4- nitrophenylphosphatase from Aspergillus niger. Archives of Biochemistry and Biophysics 257: 85-90. Versaw, W.K., Cuppett, S.L., Winters, D.D., and Williams, L.E. (1989) An improved colorimetric assay for bacterial lipase in nonfat dry milk. Journal of Food Science 54: 1557-1558.
Patents Patent No. 5,183,752 Heat-labile phosphatase isolated from Aspergillus niger. Awarded to J.P. Markwell, W.K. Versaw, J.C. Osterman and P.M. Kelley, assignors to the Board of Regents, University of Nebraska, Lincoln, NE. Patent No. 5,432,064 Process for dephosphorylating linear polynucleotide substrate with phosphatase from Aspergillus niger. Awarded to J.P. Markwell, W.K. Versaw, J.C. Osterman and P.M. Kelley, assignors to the Board of Regents, University of Nebraska, Lincoln, NE.
Curriculum vitae – Astrid Volder
October 28, 2013
Education
Ph. D. 1998 Utrecht University, The Netherlands. Dissertation: "Nitrogen Economy of Polar Desert Plants". Co-advisors: Dr. H. Lambers (Utrecht University) and Dr. L.C. Bliss (University of Washington). M.Sc. 1997 Physiological Ecology. Dept. of Botany. University of Washington, Seattle, WA. Advisor: Dr. L.C. Bliss. B.Sc. 1994 Biology. Utrecht University. The Netherlands
Experience
Current position
Assistant Professor, Department of Plant Sciences, UC Davis Nov 2013 - current Associate Professor, Department of Horticultural Sciences, Texas A&M University. Sep 2012 – Dec 2014 (on leave Jan-Dec 2014) Past positions and Experiences
Assistant Professor, Department of Horticultural Sciences, Texas A&M University. Sep 2006 - Aug 2012 Postdoctoral Research Associate, Department of Forest Science, Texas A&M University. Jan 2004 - Aug 2006 Post-Doctoral Research Fellow, CSIRO Plant Industry and Australian National University, Australia. Nov 2000- Jan 2004 Postdoctoral Research Associate, Department of Horticulture, Penn State University. May 1998- Sep 2000
Teaching Experience
Teaching awards:
2010-2011 Montague-Center for Teaching Excellence Scholar Award for early career excellence in undergraduate teaching at Texas A&M University (university level teaching award). Classes taught:
Code Title Semester Undergraduate level: HORT 489 Urban Plant Ecology Fall 2007, 2008 MEPS 313 Intro Plant Physiology Fall 2010, 2011, 2012, 2013 Graduate level: HORT 689, 611 Ecology of Urban Landscapes Spring 2007, 2009, 2011, 2013 HORT/MEPS 689, 618 Root Biology Spring 2008, 2010, 2012 HORT 681 Graduate Seminar Fall 2009, 2010, 2011, 2012, 2013 Undergraduate research projects supervised:
Course Student Name Title Semester Hort 485 special Mark Benoit, Lacy Brown, Emily Building a green roof on Fall 2013 projects Giffin, Jannel Gonzales, Andrew A&M campus Kirkpatrick, Alexandra Langhoff Hort 485 special Amy McIntyre, Ruben Cardona Building a green roof on Spring 2013 projects A&M campus Hort 485 special A. Alajon, C Bartzen, C Blakely, N Building a green roof on Fall 2012 projects Luong, T McIntyre, J Poe, H Riley, I A&M campus Sefic, G Speer, M Weintrub Hort 485 special N. Snyder, J. Storm, K. Simpson Building a green roof on Summer projects A&M campus 2012 HORT 491 J. Garcia Effect of intercropping on Fall 2011 / independent root production and soil Spring 2012 research microbial activity Graduate students:
Committee Chair: 3 Ph.D. and 4 M.S. students 1. M. S. Bhavana Viswanathan– “Effect of porous and impervious concrete on soil respiration rates and root production of American Sweetgum (Liquidambar styraciflua)”. Graduated May 2010. 2. Ph. D. Andrew D. Cartmill – “Effect of warming and rainfall distribution on mycorrhizal symbiosis and soil respiration in oak-savanna”. Graduated May 2011. 3. Ph. D. Catherine Simpson – “Physiological effects of saline water on two economically important horticultural crops in South Texas”. Cooperative PhD program with TAMU-Kingsville, co-chaired with Dr. Chad Nelson (TAMU-Kingsville). Graduation December 2013 (defended, submitted) 4. M. S. Hayley Hannah – “Linking above- and belowground growth of Pecan trees under different N- fertilizer regimes”. Expected graduation December 2012. Co-chaired with Dr. Leonardo Lombardini (TAMU Horticultural Sciences). Defended Oct. 2012. 5. M. S. Kirk Laminack. “Physiology of green roof vegetation”. Expected graduation May 2014. 6. M. S. Paige Graves. “Root characteristics of Pecan”. Expected graduation May 2014. Co-chaired with Dr. Leonardo Lombardini (TAMU Horticultural Sciences). 7. Ph. D. Jose Franco. “Physiological effects of sustainable vegetable production”. Expected graduation May 2014. Co-chaired with Dr. David Briske (TAMU Ecosystem Science and Management). Committee member: 15 Ph.D., 5 M.S., and 3 MLA.
Post-doctoral scholars supervised:
Dr. Cartmill “Linking root production and soil CO2 efflux”. June 2011 – November 2011
Research:
Refereed publications (28 total – pubs since 2007 shown):
1. Simpson CR, Nelson SD, Melgar JC, Jifon J, King SR, Schuster G and Volder A. 201x. Growth response of grafted and ungrafted citrus trees to saline irrigation. Acta Horticulturae. Accepted (in revision). 2. Volder A, Viswanathan, B and Watson WT. 201x. Pervious and impervious pavement reduce production and decrease lifespan of fine roots of mature Sweetgum trees. Urban Ecosystems. DOI 10.1007/s11252-013-0330-3 3. Volder A and Dvorak B. 201x. Event size, substrate water content and vegetation affect storm water retention efficiency of an un-irrigated extensive green roof system in Central Texas. Sustainable Cities and Society. http://dx.doi.org/10.1016/j.scs.2013.05.005 4. Lombardini L, Volder A, Cartmill DL, Nesbitt M. 2013. Consequences of injury caused by Cameraria caryaefoliella (Lepidoptera: Gracillariidae) on Pecan gas exchange and chlorophyll fluorescence. Journal of the American Society for Horticultural Science 138:263-266. 5. Dvorak B, Volder A. 2013. Plant establishment findings for extensive green roofs in a subtropical climate. Annals of Botany – Plants 5: doi: 10.1093/aobpla/pls049 6. Volder A, Tjoelker MG, Briske DD. 2013. Climate warming and precipitation redistribution modify tree-grass interactions and tree species establishment in a warm-temperate savanna. Global Change Biology 19: 843-857. 7. Cartmill AD, Valdez-Aguilar LA, Bryan DL, Volder A, Alarcon A. 2013. Arbuscular mycorrhizal colonization does not alleviate NaCl-salinity stress in Vinca [Catharanthus roseus (L.) G. Don]. Journal of Plant Nutrition 36: 164-178. 8. Dvorak B, Volder A. 2013. Rooftop temperature reductions from unirrigated modular green roofs in south-central Texas. Urban Forestry and Urban Greening 12: 28-35. 9. Cartmill DL, Alarcon A, Volder A, Valdez-Aguilar LA, Arnold MA, Cartmill AD. 2012. Arbuscular mycorrhizal fungi alleviate growth of Ulmus parvifolia Jacq. at suboptimal planting depths. Scientia Horticulturae 144: 74-80. 10. Dieleman WIJ, Vicca S, Dijkstra F, Hagedorn F, Hovenden MJ, Larsen KS, Morgan JA, Volder A, Beier C, Dukes JS, King J, Leuzinger S, Linder S, Luo Y, Oren R, De Angelis P, Tingey D, Hoosbeek MR, Janssens IA. 2012. Simple additive effects are rare: a quantitative review of plant biomass and soil process responses to combined manipulations of CO2 and temperature. Global Change Biology 18: 2681 – 2693. 11. Sung CY, Li M, Rogers GO, Volder A, Wang Z. 2011. Investigating alien plant invasion in urban riparian forests in a hot and semi-arid region. Landscape and Urban Planning 100: 278-286. 12. Bryan DL, Arnold MA, Volder A, Watson WT, Lombardini L, Sloan JJ, Alarcon A, Valdez-Aguilar LA, Cartmill AD. 2011. Planting depth and soil amendments affect growth of Quercus virginiana Mill. Urban Forestry and Urban Greening 10: 127-132. 13. Aitkenhead‐Peterson JA, Dvorak B, Volder A, Stanley N. 2011. Chemistry of growth medium and leachate during an establishment phase to determine optimal species selection for green roofs in southcentral Texas. Urban Ecosystems 14: 17-33. 14. Viswanathan B, Volder A, Aitkenhead-Peterson JA, Watson WT. 2011. Impervious and pervious pavements increase soil CO2 concentrations and reduce root production of American sweetgum (Liquidambar styraciflua). Urban Forestry and Urban Greening 10: 133-139. 15. Volder A, Tjoelker MG, Briske DD. 2010. Contrasting physiological responsiveness of establishing trees and a C4 grass to rainfall events, intensified summer drought, and warming in oak savanna. Global Change Biology 16: 3349-3362. 16. Bryan DL, Arnold MA, Volder A, Watson WT, Lombardini L, Sloan JJ, Valdez-Aguilar LA, Cartmill AD. 2010. Transplant season, irrigation, and planting depth effects on landscape establishment of bald cypress and sycamore. Arboriculture & Urban Forestry 36: 57-65. 17. Dvorak B and Volder A. 2010. Green roof vegetation findings for North American ecoregions: A literature review. Landscape and Urban Planning 96: 197-213. 18. Bryan DL, Arnold MA, Volder A, Watson WT, Lombardini L, Sloan JJ, Valdez-Aguilar LA, Cartmill AD. 2010. Planting depth during container production and landscape establishment affects growth of lacebark elm. Hortscience 45: 54-60. 19. Volder A, Anderson LJ, Smart DR, Bloom AJ, Lakso AN, Eissenstat DM. 2009. Estimating nitrogen uptake of individual roots in container- and field-grown plants using a 15N depletion approach. Functional Plant Biology 36: 1-8. 20. Volder A, Watson WT, Viswanathan B. 2009. Potential use of pervious concrete for maintaining existing mature trees during and after urban development. Urban Forestry and Urban Greening 8: 249 – 256. 21. Lombardini L, Restrepo-Diaz H, Volder A. 2009. Photosynthetic light response and epidermal characteristics of sun and shade pecan leaves. Journal of the American Society for Horticultural Science 134: 1-7. 22. Monson RK, Trahan N, Rosenstiel TN, Veres P, Moore D, Wilkinson M, Norby RJ, Volder A, Tjoelker MG, Briske DD, Karnosky DF, Fall R. 2007. Isoprene emission from terrestrial ecosystems in response to global change: minding the gap between models and observations. Philosophical Transactions of the Royal Society A 365: 1677–1695. 23. Volder A, Gifford RM, Evans JR 2007. Effects of elevated atmospheric CO2 levels, cutting regime and differential day/night atmospheric warming on Phalaris sward root growth and turnover. Global Change Biology 13: 1040–1052. * Underlined names indicate graduate students advised as chair or committee member Dissertation:
Volder A. 1998. Nitrogen Economy of Polar Desert Plants. Dissertation. Utrecht University. ISBN 90- 393-1578-7 Edited Book:
Urban Ecosystem Ecology. 2010. Editors: Jacqueline Aitkenhead-Peterson and Astrid Volder. ASA, CSSA, SSSA. Agron Monogr. 55. 478 pp. ISBN: 978-0-89118-175-0 Book chapters: 4, Proceedings: 4, Published abstracts: 45, Presentations without abstracts: 20, Invited presentations: 11
Internal Competitive Grants:
2012-2014 TAMU TOP grant (formerly activity 2). Multidisciplinary Experiential Learning with Green Roof Technology. Volder, Dvorak (College of Architecture), Conlee (College of Geosciences). $300,000 2011 Texas Water Resources Institute (TWRI) research grant ($1,500 to K. Laminack, MSc student in Dept. of Horticultural Sciences, Green roof research). 2011 Texas Water Resources Institute (TWRI) research grant ($1,500 to J. Franco, PhD student in Dept. of Ecosystem Science and Management, Sustainable agriculture research). 2009 TAMU OGS travel grant to travel to the annual meeting of the Ecological Society of America in Albuquerque ($350 to A. Cartmill, PhD student in Dept. of Horticultural Sciences) 2009 TAMU OGS travel grant to travel to the annual meeting of the American Society for Horticultural Sciences in St. Louis ($350 to B. Viswanathan, MSc student in Dept. of Horticultural Sciences) 2009 TAMU College of Architecture, College Research and Interdisciplinary Council (CRIC) grant. B. Dvorak and A. Volder. “A Green Roof Pilot Study at the Texas A&M Architecture Center Langford Building A.” $10,000 2008 Texas Water Resources Institute (TWRI) research grant ($1,500 to B. Viswanathan, MSc student in Dept. of Horticultural Sciences, Pervious pavement research). 2008 Permanent Utility Fund (PUF) grant for equipment purchase ($15,000 shared with Dr. Lombardini (PI), Dept. of Horticultural Sciences). Used to buy a Licor 6400 gas exchange system. 2007 PUF grant for equipment purchase ($17,500 shared with Dr. Lombardini (co-PI), Dept. of Horticultural Sciences). Used to buy a minirhizotron camera system + tubes and a soil moisture measurement system (TDR) + probes. External Competitive Grants Funded: 2012-2013. USDA Block grant via Texas Department of Agriculture (TDA) “Intercropping to Mitigate Salinity Stress on Watermelons”. Volder, Franco (grad. student), Simpson (grad. student), and King. Texas Department of Agriculture. $71,300. 2011. Sustainable Agriculture Research and Education (SARE) Southern Region. “Evaluating functional diversity in an organic intercropping system.” Volder (PI) on behalf of Jose Franco (PhD student). $10,000. 2008 – 2012 USDA SCRI (Specialty Crops Research Initiative). Advanced sensing and management technologies to optimize resource use in specialty crops: case studies of water and nitrogen use in deciduous crops. Total value of the grant administered by UC Davis (Dr. Patrick Brown) is $3,221,134. The TAMU sub-contract for Pecan root research to Dr. Lombardini (PI) and Dr. Volder (co-PI) is $147,798 for three years and is shared between the PI’s. 2007 – 2010 DOE – NICCR (National Institute for Climate Change Research). Warming and rainfall redistribution effects on linkages between plant functional traits and ecosystem processes in oak savanna. Tjoelker (ESSM, PI), Briske (ESSM, co-PI), Volder (Horticultural Sciences, co-PI). $373,908. Each PI receives 1/3 share. 2006 – 2007 DOE – NICCR. Altered precipitation distribution and warming effects in oak savanna: linking plant functional traits and ecosystem processes. Tjoelker (ESSM, PI), Briske (ESSM, co-PI), Volder (Horticultural Sciences, co-PI). $115,000. Each PI receives 1/3 share. 2003 Travel award - Terrestrial Ecosystem Responses to Atmospheric and Climatic Change (TERACC) travel award to attend international meeting in Lake Tahoe, CA. $2000 2003 Postdoctoral Fellowship. CRC for Greenhouse Accounting, Australia. With Dr. John R. Evans (Australian National University). AUD 31,400.
SERVICE
Professional improvement and activities:
Ecological Society of America (ESA) Member since 1998 Member of the Physiological Ecology Section Member of the Urban Ecosystem Section American Society for Horticultural Sciences (ASHS) Member since 2007 Member of the Southern Region Chapter President elect of the rhizosphere working group in 2008, 2013 President of the rhizosphere working group in 2009 Coordinator and moderator of the rhizosphere workshop, “Genetic control of root architectural traits” at the 2009 annual meeting in St. Louis Member of the endowment committee 2010 - 2015 Service as external reviewer for scientific journals:
List of journals served (14): Arctic, Antarctic and Alpine Research; Functional Ecology; Functional Plant Biology; Global Change Biology; HortScience; Int. Journal of Biodiversity Science and Management; Journal of Ecology; Journal of Plant Ecology; Journal of the Torrey Botanical Society; Landscape Architecture and Urban Planning; New Phytologist; Oecologia; Plant and Soil; Rangeland Ecology and Management; Science of the Total Environment; Tree Physiology; Urban Ecosystems Service as external reviewer for grants:
2012 Ad-hoc reviewer of 12 USDA-SARE graduate student grants, 2011 Ad-hoc reviewer for NSF, Career grant, 2010 Ad-hoc reviewer for NSF, DEB – Ecosystem Studies, 2008 Clemson University – Hatch grant Departmental service
Teaching assessment committee. Fall 2008 – present Helped develop surveys and other methods to assess departmental teaching effectiveness with particular emphasis on the teaching goals that were defined by the departmental faculty. Undergraduate curriculum committee. April 2011 – Nov 2013 Graduate curriculum committee. May 2011 – Sep 2012 Committee chair to develop a sustainable horticulture curriculum. Feb 2011 – June 2011 Search committee member for a Crop Physiologist/Agronomist at Uvalde. Spring 2012 – Spring 2013 Search committee member for Horticultural Landscape Specialist in extension. Fall 2011 Graduate seminar committee. Spring 2007 – Spring 2011, chair Fall 2010 – Spring 2011 Search committee for undergraduate academic advisor. June 2011. Ad-hoc budget committee. Summer 2010. Inter-Collegiate Faculty of Molecular and Environmental Plant Sciences (MEPS)
Member since March 2007 Executive committee July 2010 – Student admissions committee 2012 – 2013 Symposium committee 2012 -2013 (temporary chair) Co-PI on a TAMU-Pathways to the Doctorate fellowship 2011 (PI Gunnar Schade, Atmospheric Sciences) Co-PI on an NSF-IGERT proposal June 2011 (PI Dirk Hays, Soil and Crop Sciences) College of Agriculture and Life Sciences service
Selection committee for the CTE-Montague Teaching Scholar award 2011, 2012 Member of committee on Protecting our Environment grand challenge – strategic initiative to plan for the future. 2013 - Student organization advising
Primary advisor to the TAMU badminton club. July 2009 – present Other service
Served as a panel member for the Center of Teaching Excellence (CTE) discussion panel on teaching at the 2010 and 2011 new faculty orientations. Served as a CTE panel member at the ADVANCE workshop for post-docs and early career faculty in March 2012. Served as a judge for TAMU Student Research Week 2011, 2012, 2013
Jason B. West, Curriculum Vita, page 1
Curriculum Vita
1. PERSONAL INFORMATION
Name Jason B. West Rank Assistant Professor Unit Dept. of Ecosystem Science & Management Address Texas A&M University College Station, TX 77843
2. EDUCATION
Ph.D. Botany, 2002 University of Georgia, Athens, Georgia Dr. Lisa A. Donovan, advisor Thesis “The effects of dominant bunchgrass species on sandhill longleaf pine savanna ecosystem function: a comparison of wiregrass to the bluestems”
B.S., Range Science, 1996 Utah State University, Logan, Utah
3. PROFESSIONAL EXPERIENCE
Assistant Professor, September 2011 – present, tenure track Department of Ecosystem Science and Management, Texas A&M University
Interdisciplinary Faculty Membership: Ecology and Evolutionary Biology (EEB; 2008 – present), Molecular & Environmental Plant Sciences (MEPS; 2011 – present) Other faculty group membership: Interdisciplinary Faculty Group in Forensic and Investigative Sciences (IFG‐FIVS; 2011 – present), Center for Food Safety, Texas A&M University (2012 – present) Co‐Director of the Stable Isotopes for Biosphere Science (SIBS) Laboratory
Assistant Professor, July 2008 – 2011, non‐tenure track Texas AgriLife Research and Extension Center, Uvalde, TX Department of Ecosystem Science and Management, Texas A&M University
Research Assistant Professor, 2006 – 2008 Department of Biology, University of Utah
Research Associate, 2004 – 2005 Department of Biology, University of Utah
Postdoctoral Fellow, 2002 – 2004 Department of Ecology, Evolution, and Behavior, University of Minnesota
Jason B. West, Curriculum Vita, page 2
Current funding 1. Texas A&M AgriLife Research Air Quality Seed Grant Program, Texas A&M University System. 2013‐2015. West, J, T Boutton. Identifying sources of N2O production in agroecosystems, $132,960. Internal competitive. 2. Initiative for Digital Humanities, Media, and Culture, Texas A&M University. 2013. West, JB and RK Garcia. IDHMC Collaboration grant, $1,000. Internal Competitive. 3. United States Department of Agriculture, Agriculture and Food Research Initiative. 2011‐2016. Martin, TA and the PINEMAP team (55 Co‐PIs including West; 11 Universities, 8 cooperatives, United States Forest Service, and state climate offices) PINEMAP: Integrating research, education and extension for enhancing southern pine climate change mitigation and adaptation, $19,100,000. External competitive. 4. Wintergarden Groundwater Conservation District. 2013‐2014. West, JB, WE Rogers, R Lyons. Effects of brush removal on distributed recharge of the Carrizo‐Wilcox aquifer: Continuing treatment response investigation, $101,485. External contract.
Previous funding 1. Wintergarden Groundwater Conservation District. 2010‐2012. West, JB, WE Rogers, R Lyons. Effects of brush removal on distributed recharge of the Carrizo‐Wilcox aquifer, $209,407. External contract. 2. United States Geological Survey/Texas Water Resources Institute. 2011‐2012. *Mattox, A, JB West. Effects of woody vegetation removal on groundwater recharge in the Carrizo‐Wilcox aquifer, $5,000. Internal competitive. 3. National Science Foundation, Division of Biological Infrastructure. 2008‐2012. Bowen, GJ, CC Miller, JB West, T Zhang, L Zhao. Enabling end‐to‐end geospatial data modeling workflows via INPort: The Isotope Networks Portal, $831,573 (DBI: #0743543). External competitive. 4. United States Department of Agriculture, National Institute of Food and Agriculture, Federal Initiative, 2009‐2012. Harris, B and 29 co‐PIs including West. Efficient Irrigation for Water Conservation in the Rio Grande Basin, $2,161,028 (total for 2009 & 2010). Internal competitive. 5. Texas AgriLife Research Cropping Systems Program (State Initiative), Texas A&M University System. 2009‐2011. Rowland, DL, TDA Forbes, FM Rouquette Jr, GR Smith, JB West. Enhancement of water conservation and nitrogen efficiency through legume‐based cropping systems, $280,000. Internal competitive. 6. National Science Foundation, 2000‐2002. Doctoral Dissertation Improvement Grant, Donovan, LA and JB West. Redundancy of belowground ecosystem function among native C4 perennial bunchgrass species of Pinus palustris savannas. $16,860. External competitive. *Graduate student
Refereed journal articles (updated 9/2/13)
1. *Kui, L, F Li, G Moore, J West. in press. Can the riparian invader, Arundo donax, benefit from clonal integration? Weed Research 2. Kahmen, A, B Hoffmann, E Schefuss, SK Arndt, LA Cernusak, JB West, D Sachse. 2013 (available online 2012). Leaf water enrichment in deuterium shapes leaf wax n‐alkane D values of terrestrial plants II: Observational evidence and global implications. Geochimica et Cosmochimica Acta 111:50‐63. 3. Kreuzer, H, J West, J Ehleringer. 2013 (available online 2012). Forensic applications of light‐ element stable isotope ratios of Ricinus communis seeds and ricin preparations. Journal of Forensic Sciences.58: No. S1, doi: 10.1111/1556‐4029.12000 Jason B. West, Curriculum Vita, page 3
4. Webb‐Robertson, B‐J, H Kreuzer, G Hart, J Ehleringer, J West, G Gill, D Duckworth. 2012. Bayesian integration of isotope ratios for geographic sourcing of castor beans. Journal of Biomedicine and Biotechnology doi:10.1155/2012/450967. 5. ǂColón‐Rivera, RJ, RA Feagin, JB West, KM Yeager. 2012. Salt marsh connectivity and freshwater versus saltwater inflow: Multiple methods including tidal gauges, water isotopes, and LIDAR elevation models. Canadian Journal of Fisheries and Aquatic Sciences 69:1420‐1432. 6. Sachse, D, I Billault, GJ Bowen,Y Chikaraishi, T Dawson, S Feakins, KH Freeman, C Magill, FA McInerney, M van der Meer, P Polissar, R Robins, JP Sachs, H‐L Schmidt, A Sessions, J White, JB West, A Kahmen. 2012. Molecular paleohydrology: interpreting the hydrogen isotopic composition of lipid biomarkers from photosynthetic organisms. Annual Review of Earth and Planetary Sciences 40:221‐249. 7. Hurley, JM, JB West, JR Ehleringer. 2010. Stable isotope models to predict geographic origin and cultivation conditions of marijuana. Science & Justice 50(2):86‐93 8. Hultine, KR, J Belnap, C van Riper III, JR Ehleringer, PE Dennison, ME Lee, PL Nagler, KA Snyder, SM Uselman, JB West. 2010. Tamarisk biocontrol in the western United States: ecological and societal implications. Frontiers in Ecology and the Environment; doi:10.1890/090031 9. Hurley, JM, JB West, JR Ehleringer. 2010. Tracing retail marijuana in the United States: Geographic origin and cultivation patterns. International Journal of Drug Policy 21(3):222‐228. 10. Bowen, GJ, JB West, J Hoogewerff. 2009. Isoscapes: Isotope mapping and its applications. Journal of Geochemical Exploration 102(3):v‐vii 11. West, JB, JM Hurley, FÖ Dudás, JR Ehleringer. 2009. The stable isotope ratios of marijuana. II. Strontium isotopes relate to geographic origin. Journal of Forensic Sciences 54(6):1261‐1269 12. Espeleta, JF, JB West, LA Donovan. 2009. Tree species fine‐root demography parallels habitat specialization across a sandhill soil resource gradient. Ecology 90(7):1773‐1787. 13. Dijkstra, FA, JB West, SE Hobbie, PB Reich. 2009. Antagonistic effects of species on decomposition and net N mineralization in soils from mixed coniferous plantations. Forest Ecology and Management 257:1112‐1118 14. West, JB, JM Hurley, JR Ehleringer. 2009. The stable isotope ratios of marijuana. I. Carbon and nitrogen stable isotopes describe growth conditions. Journal of Forensic Sciences 54(1):1‐6 15. West JB, A Sobek, JR Ehleringer. 2008. A simplified GIS approach to modeling global leaf water isoscapes. PLoS ONE 3(6):e2447, doi:10.1371/journal.pone.0002447 16. Dijkstra, FA, JB West, SE Hobbie, PB Reich, J Trost. 2007. Plant diversity, CO2, and N influence inorganic and organic N leaching in grasslands. Ecology 88(2):490‐500 17. West, JB, JR Ehleringer, TE Cerling. 2007. Geography and vintage predicted by a novel GIS model of wine δ18O. Journal of Agricultural and Food Chemistry 55(17):7075‐7083 18. West, JB, GJ Bowen, TE Cerling, JR Ehleringer. 2006. Stable isotopes as one of nature’s ecological recorders. Trends in Ecology and Evolution 21(7):408‐414 19. West, JB, SE Hobbie, PB Reich. 2006. Effects of plant species diversity, atmospheric [CO2], and N addition on gross rates of inorganic N release from soil organic matter. Global Change Biology 12:1400‐1408 20. Reich, PB, SE Hobbie, T Lee, D Ellsworth, JB West, D Tilman, J Knops, S Naeem, J Trost. 2006. Nitrogen limitation constrains sustainability of ecosystem response to CO2. Nature 440:922‐925 21. West, JB, J HilleRisLambers, TD Lee, SE Hobbie, PB Reich. 2005. Legume species identity and soil nitrogen supply determine symbiotic nitrogen‐fixation responses to elevated atmospheric [CO2]. New Phytologist 167:523‐530 22. West, JB, and LA Donovan. 2004. Effects of individual bunchgrasses on potential C and N mineralization of longleaf pine savanna soils. Journal of the Torrey Botanical Society 131(2):120‐ 125 Jason B. West, Curriculum Vita, page 4
23. Espeleta, JF, JB West, and LA Donovan. 2004. Species‐specific patterns of hydraulic lift in co‐ occurring adult trees and grasses in a sandhill community. Oecologia 138(3):341‐349 24. West, JB, JF Espeleta, and LA Donovan. 2004. Fine root production and turnover across a complex edaphic gradient of a Pinus palustris‐Aristida stricta savanna ecosystem. Forest Ecology and Management 189:397‐406 25. West JB, JF Espeleta, and LA Donovan. 2003. Root longevity and phenology differences between two co‐occurring savanna bunchgrasses with different leaf habits. Functional Ecology 17:20‐28 26. Donovan, LA, JB West, and KW McLeod. 2000. Quercus species differ in water and nutrient characteristics in a resource‐limited fall‐line sandhill habitat. Tree Physiology 20:929‐936 27. Donovan, LA, DJ Grisé, JB West, RA Pappert, NN Alder and JH Richards. 1999. Predawn disequilibrium between plant and soil water potentials in two cold‐desert shrubs. Oecologia 120:209‐217
Book chapters
1. West, JB, HW Kreuzer‐Martin, JR Ehleringer. 2010. Approaches to plant hydrogen and oxygen isoscapes generation in West, JB, GJ Bowen, TE Dawson, KP Tu (editors). Isoscapes: Understanding movement, pattern, and process on Earth through isotope mapping, Springer, Dordrecht 2. Bowen, GJ, JB West, TE Dawson. 2010. Isoscapes in a rapidly changing and increasingly interconnected world in West, JB, GJ Bowen, TE Dawson, KP Tu (editors). Isoscapes: Understanding movement, pattern, and process on Earth through isotope mapping, Springer, Dordrecht 3. Ehleringer, JR, TE Cerling, JB West, DW Podlesak, LA Chesson & GJ Bowen. 2008. Spatial considerations of stable isotope analyses in environmental forensics, pgs. 38‐43. in Hester, RE and RM Harrison (editors) Environmental Forensics: Principles and Applications. The Royal Society of Chemistry, Cambridge, UK 4. Bowen, GJ, and JB West. 2008. Isotope landscapes for terrestrial migration research. in Hobson, KA and LI Wassenaar (editors) Tracking animal migration with stable isotopes, Elsevier, Burlington, MA 5. Kelly, JF, S Bearhop, GJ Bowen, KA Hobson, DR Norris, LI Wassenaar, JB West, MB Wunder. 2008. Future directions and challenges for using stable isotopes in advancing terrestrial animal migration research. in Hobson, KA and LI Wassenaar (editors) Tracking animal migration with stable isotopes, Elsevier, Burlington, MA 6. Ehleringer, JR, TE Cerling, and JB West. 2007. Forensic science applications of stable isotope ratio analysis, pgs. 399‐422. in Blackledge, RD (editor) Forensic analysis on the cutting edge: New methods for trace evidence analysis. John Wiley & Sons, Inc., Indianapolis, IN 7. Williams, DG, RD Evans, JB West, JR Ehleringer. 2007. Applications of stable isotope measurements for early‐warning detection of ecological change, pgs. 383‐398. in Dawson, TE and RTW Siegwolf (editors) Isotopes as Tracers of Ecological Change. Elsevier Academic Press, San Diego, CA
Books
1. West, JB, GJ Bowen, TE Dawson, KP Tu (editors). 2010. Isoscapes: Understanding movement, pattern, and process on Earth through isotope mapping, 487 pgs. Springer, Dordrecht. ISBN 978‐ 90‐481‐3353‐6.
Benjamin Wherley, PhD Assistant Professor- Turfgrass Physiology & Ecology Dept. of Soil and Crop Sciences, Texas A&M University Phone: 979-845-1591; Fax: 979-845-0456 E-mail: [email protected]
ACADEMIC APPOINTMENT 70% Research; 30% Teaching
RESEARCH Ben’s research program involves basic and applied studies in turfgrass physiology, ecology, and management of turfgrass systems. Research seeks to identify cultural management strategies for improving resource efficiency, environmental stress tolerance, and sustainability of turfgrass systems including golf courses, lawns, athletic fields, and sod production. His program collaborates with the Texas A&M AgriLife turfgrass breeding program in evaluation and development of experimental lines of turfgrass for drought, salinity, and shade tolerance.
TEACHING SCSC 428- Advanced Turfgrass Ecology and Physiology SCSC 489- Professional Turf Development
ADVISING Chair, co-chair or committee member for 7 graduate students (5 M.S., 2 PhD) 4 UGR student researchers
EDUCATION Ph.D. 2008 North Carolina State University, Crop Science M.S. 2003 The Ohio State University, Horticulture & Crop Science B.S. 1999 The Ohio State University, Agronomy
PROFESSIONAL EXPERIENCE DEPARTMENT OF SOIL AND CROP SCIENCES Oct 2011 – present Texas A&M University, College Station, TX Assistant Professor- Turfgrass Physiology & Ecology
TEXAS AGRILIFE RESEARCH July 2009 – Sept 2011 Texas AgriLife Urban Solutions Center, Dallas, TX Assistant Research Scientist- Turfgrass Management & Physiology
DEPARTMENT OF AGRONOMY Jan. 2008 – June 2009 University of Florida, Gainesville, FL Postdoctoral Research Associate
RECENT PEER REVIEW PUBLICATIONS
J. Thomas, B. Wherley, J. Peterson, R. White, C. Fontanier. 2013. Construction of an urban landscape runoff facility. Accepted J. Vis. Exp.
J. Fry, M.C. Engelke, A. Chandra, A.D. Genovesi, B. Wherley, J.A. Reinert, M.L. Binzel, S.P. Metz, Q. Zhang, and D. Okeyo. 2013. Registration of ‘Chisolm’ zoysiagrass. Accepted J. Plant Registrations.
R. Cabrera, K. Wagner, and B. Wherley. 2013. An evaluation of urban landscape water use in Texas. Texas Water Journal 4(2): 14-27.
B. Wherley, T. Pannkuk, R. Cabrera, and C. Campos. 2013. Off-Target Injury to Southern adapted ornamentals following aminocyclopyrachlor application. J. Env. Hort. 31(3):189-193.
B. Wherley, A. Chandra, A. Genovesi, M. Kearns, T. Pepper, and J. Thomas. 2013. Developmental Response of St. Augustinegrass Cultivars and Experimental Lines to Moderate and Heavy Shade. HortSci 48(8): 1047-1051
K. Steinke, J.C. Thomas, R.H. White, D.R. Chalmers, C.H. Fontanier, B. Wherley. 2013. Lateral Spread of Three Warm Season Turfgrass Species as Affected by Prior Water Stress and Root Zone Depth. HortSci 48(6): 790-795.
B. Wherley, T.R. Sinclair, M.D. Dukes, and A. Schreffler. 2011. Mowing Height and Nitrogen Fertility Impact Root Development During Warm-Season Turfgrass Sod Establishment. Agronomy Journal 103(6): 1629-1634.
B. Wherley, D. Bowman, W. Shi, T. Rufty, Jr. 2011. Effects of soil saturation on development and 15N-nitrate assimilation capacity of two warm-season grasses emerging from dormancy. Journal of Plant Nutrition 34(13):1-16.
T. Sinclair, A. Schreffler, B. Wherley, and M.D. Dukes. 2011. Irrigation Frequency and Amount Effect on Root Extension during Sod Establishment of Warm-Season Grasses. HortScience 46(8): 1202-1205. B. Wherley, P. Skulkaew, A. Chandra, A. Genovesi, and M.C. Engelke. 2011. Low-Input Performance of Zoysiagrass (Zoysia spp.) Cultivars Maintained Under Dense Tree Shade. HortScience 46(7): 1033-1037.
B. Wherley and T. Sinclair. 2009. Influence of nitrogen application rate and trinexapac-ethyl on growth and water loss from two turfgrasses. HortScience 44(7):2053-2057.
B. Wherley, T. Sinclair, M. Dukes, and G. Miller. 2009. Design, Construction, and Field Evaluation of a Lysimeter System for Determining Turfgrass Water Use. Proceedings of the Florida State Horticulture Society 122:373-377.
B. Wherley and T. Sinclair. 2009. Differential sensitivity of C3 and C4 turfgrass species to increasing atmospheric vapor pressure deficit. Journal of Environmental & Experimental Botany 67:372-376.
B. Wherley, W. Shi, D. Bowman, and T. Rufty, Jr. 2009. Fate of 15N-nitrate applied to a bermudagrass system: Assimilation profiles in different seasons. Crop Science 49:2291-2301.
T. Sinclair, E. Fiscus, B. Wherley, M. Durham, and T. Rufty. 2007. Atmospheric vapor pressure deficit is critical in predicting growth response of ‘cool-season’ grass Festuca arundinacea to temperature change. Planta 227:273-276.
D. Gardner and B. Wherley. 2005. Growth response of three turfgrass species to nitrogen and trinexepac-ethyl in shade. HortScience 40(6):1911-1915.
B. Wherley, D.S. Gardner, and J.D. Metzger. 2005. Tall fescue photomorphogenesis as influenced by changes in spectral composition and light intensity. Crop Science 45:562-568.
OTHER PUBLICATIONS AND PROFESSIONAL PRESENTATIONS
4 book chapters 26 abstracts at national or regional meetings 60 trade articles or technical reports 73 seminars, workshops, or field day presentations RESEARCH GRANTS AND GIFTS Oct. 2011- Present: Principal investigator or co-PI share of projects totaling $700,000
HONORS AND AWARDS 2014-2016 Fred V. Grau Turfgrass Science Award Committee 2013 MEPS Faculty Member 2007 Turfgrass Council of North Carolina Eagle’s Award Recipient 2007 Crop Science Society C5 Poster Competition- 1st place 2006 Crop Science Society C5 Oral Competition- 3rd place 2005 GCSAA Watson Fellowship Recipient 2005 NCSU Crop Science Poster Competition- 1st place 2002 Pi Alpha Xi, National Horticulture Honor Society 1999 Great Lakes Turfgrass Invitational- 1st place team 1998 Gamma Sigma Delta, National Agriculture Honor Society
PROFESSIONAL SOCIETY MEMBERSHIP Crop Science Society of America, 2001- present Golf Course Superintendents Association of America, 1999- present Irrigation Association, 2013- present Lonestar GCSA, 2011- present North Texas GCSAA, 2009- present Texas Turfgrass Association, 2009- present Turfgrass Producers of Texas, 2009- present SERA-IEG 025-Turf, 2006- present Turfgrass Council of North Carolina, 2003-2007 Curriculum Vita
Name: Richard H. White
Rank: Professor, Soil & Crop Sciences Department [email protected]
Date of appointment or last promotion: 1 September 2003
EDUCATION:
B. S. 1979 Auburn University, Agronomy M. S. 1982 Auburn University, Agronomy Ph. D. 1985 VPI and State University, Agronomy
EMPLOYMENT:
Professor, Soil & Crop Sciences Department, Texas A&M University, College Station, TX 77843-2474. 2004-present. Associate Professor, Soil and Crop Sciences, Texas A&M University, College Station, TX 77843-2474. 1993-2004. Assistant Professor, Crop Science, North Carolina State University, Raleigh, NC 27695. 1993- present. Assistant Research Scientist, Texas A&M University Research Center, Dallas, TX 75252 1989-1990. Assistant Research Professor, Soils and Crops Department, Rutgers University-Cook College, New Brunswick, NJ 08903 1985-1989. Research Associate, Department of Plant Physiology and Pathology, VPI and State University, Blacksburg, VA 24061 1985. Graduate Research Assistant, Department of Agronomy, VPI and State University, Blacksburg, VA 24061 1982-1984. Graduate Research Assistant, Department of Agronomy and Soils, Auburn University, Auburn, AL 36849 1979-1982.
Responsibilities:
The incumbent provides leadership for a turfgrass physiology and management research and teaching program in the Soil and Crop Sciences Department. The responsibilities include the conduct of a nationally recognized research program that focuses on the development of information to understand mechanisms of stress resistance in perennial grasses that are used for turf and conservation purposes. The primary focus of the program is to develop fundamental information for an understanding of mechanisms of drought and temperature resistance in perennial grasses. Such a focus should complement turfgrass improvement programs within Texas and nationally. The research program will also contribute to applied programs in irrigation water management and conservation. The research program will also contribute to development of information through applied research for the refinement of management strategies that reduce cultural inputs required to maintained turfgrass areas. Teaching responsibilites will include at least one undergraduate course in turfgrass science. Additional academic responsibilities include advising and directing graduate students.
Teaching:
Percentage budgeted time. 65%
Undergraduate courses.
Course Credit Hours No. Sections
AGRO 428 Turfgrass Culture 3 2 AGRO 312 Intro. To Turf Mngt. Lab 1 2 AGRO 429 Turfgrass Management Systems 4 1 AGRO 430 Turfgrass Maintenance 4 1 SCSC 484 Internship 2 to 4 NA SCSC 481 Topics in Soil & Crop Sciences 2 1
Direction of graduate students.
Major Professor Committee Member
Ph. D. 6 Ph. D. 2
M.S. 13 M.S. 6
M.Agr. 2 M.Agr.
Graduate students receiving degrees for which you were major professor.
Thomas J. Cowett M. S. Agronomy Mark H. Hall M. S. Agronomy Gene R. Taylor, II Ph. D. Agronomy John E. Jordan M. S. Agronomy Scott Abernathy M. S. Agronomy Jason L. Gray M. S. Agronomy Jason E. Gaudreau M. S. Agronomy Trent C. Hale Ph. D. Agronomy Roger Havlak M. S. Agronomy William Robinson M. S. Agronomy Brandon McDonald M. S. Agronomy Daniel Dewey Ph D. Molecular & Environmental Plant Sciences Timothy Pannkuk Ph D. Agronomy Whitney Milberger-Laird M. S. Agronomy
Research Activities:
Grant Funding:
$1,981,780 1991-2013 External $ 147,273 1991-2013 Internal
Peer reviewed, refereed journal articles.
Steinke, Kurt, David R. Chalmers, Richard H. White, Charles H. Fontanier, James C. Thomas and Benjamin G. Wherley. 2013. Lateral Spread of Three Warm Season Turfgrass Species as Affected by Prior Summer Water Stress at Two Root Zone Depths. HortScience. 48:790-795. N. E. Hansen, D. M. Vietor, C. L. Munster, R. H. White, and T. L. Provin. 2012. Runoff and Nutrient Losses from Constructed Soils Amended with Compost. Applied and Environmental Soil Science, vol. 2012, Article ID 542873, 9 pages, 2012. doi:10.1155/2012/542873 Fontanier, Charles H., Kurt Steinke, James C. Thomas, and Richard H. White. 2011. Effects of Venting Aeration on Neglected Bermudagrass Putting Greens. Applied Turfgrass Sci. http://www.plantmanagementnetwork.org/ats/element/sum2.aspx?id=10112 Pannkuk, Tim R., Jacqueline A. Aitkenhead-Peterson, Kurt Steinke, James C. Thomas, David R. Chalmers, and Richard H. White. 2011. Carbon, Nitrogen, and Orthophosphate Leaching from Soil under Single- and Mixed-species Landscapes. Hortscience 46(11):1533–1539. Su, Hongwen, Abernathy, Scott, White, Richard and Finlayson, Scott. 2011. Photosynthetic photon flux density and phytochrome B interact to regulate branching in Arabidopsis. Plant, Cell & Environment Steinke, K., D. Chalmers, J. Thomas, R. White, and G. Fipps. 2011. (In Press). Drought Response and Recovery of Bermudagrass and Buffalograss cultivars Growing Above Two Root-Zone Depths. Crop Science 2011 51: 3: 1215-1223 doi:10.2135/cropsci2010.08.0469Crop Sci. In Press. Steinke, K., D. Chalmers, J. Thomas, R. White, and G. Fipps. Drought Response and Recovery Characteristics of St. Augustinegrass Cultivars. 2010. Crop Sci. 50:2076–2083 Pannkuk, Tim R., Richard H. White, Kurt Steinke, and Jacqueline A. Aitkenhead-Peterson, David R. Chalmers, and James C. Thomas. 2010. Landscape coefficients for single- and mixed-species landscapes. Hortscience 45(10):1529–1533. White, R., K. Steinke, C. Fontanier, and J. Thomas. 2010. Developing a Device to Quantify Light Penetration in Turfgrass Canopies. Crop Sci. 50:1066–1069. Vietor, D. M, R.W. Schnell, C.L. Munster, T.L. Provin, and R.H. White. 2010. Biosolid and Alum effects on runoff losses during turfgrass establishment. Bioresour. Technol. (2010). doi:10.1016/j.biortech.2009.11.063. Steinke, K., Chalmers, D. R., Thomas, J. C., and White, R. H.. 2009. Summer drought effects on warm-season turfgrass canopy temperatures. Online. Applied Turfgrass Science doi:10.1094/ATS-2009-0303-01-RS. Provin, Tony L., Alan L. Wright, Frank M. Hons, David A. Zuberer, and Richard H. White. 2008. Seasonal dynamics of soil micronutrients in compost-amended bermudagrass turf. Bioresource Technology 99: 2672–2679 Wright, A. L., Tony L. Provin, Frank M. Hons, David A. Zuberer, Richard H. White. 2008. Compost impacts on dissolved organic carbon and available nitrogen and phosphorus in turfgrass soil. Waste Management 28: 1057–1063. Richards, C. E., C. L. Munster, D. M. Vietor, J. G. Arnold, and R. White. 2008. Assessment of a turfgrass sod best management practice on water quality in a suburban watershed. J. of Environmental Management 86: 229-245.
Books or chapters written or edited.
Hatch, S. L., and R. H. White. Additional C4 Turf and Forage Grasses. pp. 1081-1119 in L. E. Moser, B. L. Burson, and L. E. Solenberger (eds.) Warm-Season Grasses. Amer. Soc. Agron., Crop Sci. Soc. Amer., Soil Sci. Soc. Amer., Madison, Wisconsin.
Abstracts and papers.
Kearnes, M., A. Chandra, B. Wherley, M. Binzel, R. White, J. Thomas, and M. Meeks. 2012. Screening of Turfgrasses for Drought Tolerance in a Competitive Soil Moisture Extraction System. American Society of Agronomy, Crop Science Society Annual meetings. Cincinnati, Ohio. Agronomy Abstracts, Madison, WI. Fontanier, C., D. Chalmers, R. White, and J. Thomas. 2012. Viability of Deficit Irrigation Using Historical Average Reference Evapotranspiration (ETo). American Society of Agronomy, Crop Science Society Annual meetings. Cincinnati, Ohio. Agronomy Abstracts, Madison, WI. Hejl, R., B. Wherley, C. Fontanier, J. Thomas, and R. White. 2012. Bermudagrass response to traffic and deficit stress. American Society of Agronomy, Crop Science Society Annual meetings. Cincinnati, Ohio. Agronomy Abstracts, Madison, WI. Pannkuk, T, J. Peterson, R. White, K. Steinke, D. Chalmers, J. Thomas. 2009. The impact of water quality on dissolved organic carbon and chemical composition of leachate from mixed species landscapes. American Society of Agronomy, Crop Science Society Annual meetings. Schnell, R., D.M. Vietor, C.L. Munster, T.L. Provin, and R.H. White. 2009. Alum Effects on Phosphorus Runoff Loss from Turfgrass Amended with Biosolid. American Society of Agronomy, Crop Science Society Annual meetings. Vietor, D., R.W. Schnell, C.L. Munster, T.L. Provin, R.H. White, and D.R. Chalmers. 2009. Shelf Life and Tensile Strength of Turfgrass Sod Amended with Recycled Biosolid. American Society of Agronomy, Crop Science Society Annual meetings. Pannkuk, T., K. Steinke, R. H. White, D. Chalmers, J. Aitkenhead Peterson. 2008. Landscape coefficients of newly planted mixed and single species landscapes. Agron. Abstracts. Madison, WI. R.W. Schnell, D.M. Vietor, R.H. White, and C.L. Munster. 2008. Effects of Composted Municipal Biosolids and Nitrogen on Turfgrass Establishment. Agron. Abstracts. Madison, WI. Faculty Name: Title Professor of Entomology, Adjunct Professor of Soil and Crop Sciences, Jack B. Wendt Endowed Chair in Rice Research, AgriLife Research Center Director at Beaumont, Texas A&M University Current Appointment Administration, with split research, extension, and teaching appointment Education Ph.D., Entomology, University California Davis, 1977 B.S., Entomology, University California Davis, 1973 A.A., Biology, Bakersfield Junior College, Bakersfield, California, 1971 Professional Experience Adjunct Professor of Soil and Crop Sciences, Texas A&M University, 2000-present Center Director, Agricultural Research and Extension Center at Beaumont, Texas A&M University System, 1999-present Professor of Entomology, Texas A&M University, 1989-present Assistant, Associate, and Professor of Entomology, U.C. Davis, California, 1981-89 Biological Systems Analyst, U.C. Systemwide 1980-81 Research Scientist, CSIRO Division of Plant Industry, Narrabri, NSW, Australia, 1978-80 Fulbright Post-Doctoral Fellow, Queensland University, Brisbane, Australia, 1977-78 Awards and Honors Jack B. Wendt Endowed Chair, Texas A&M University, 2001-present Honorary Professorship, Universidad Nacional de san Martin, Tarapoto, Peru, 5/23/2007 ESCOP/ACOP Leadership Training Program, Indianapolis, Indiana, 1998-1999 National Excellence in Integrated Pest Management Award from the Entomological Society of America, 1997 Excellence in Integrated Pest Management Award from the Entomological Society of America Southwestern Branch, 1994 and 1998 Distinguished Service Award from the California Farm Bureau Federation in Recognition of Outstanding Service in Creative Teamwork, 1990 Fulbright Research Fellow, University of Queensland, Brisbane, Australia, 1977-78 Graduated with highest honors, University of California, Davis, 1977 National Science Foundation Pest Management Fellowship, U.C. Riverside, 1974. Area of Research Specialization Dr. Wilson’s research program is broad-based and focuses on the theory and application of quantitative principles as they pertain to agroecosystem management. His current research largely focuses on rice, energycane, high biomass sorghum, and algae cropping systems management. He has expertise in field experimental design and analysis, in the development of physiologically based food, feed, fiber, and bioenergy crop models, in biological control, and the mathematics of sampling theory and its application. For the past 5 years, an increasing amount of his research has focused on lignocellulosic cropping production analysis. He is the site coordinator for the Texas Upper Gulf Coast component of the Sun Grant energycane DOE feedstock project. He is currently working with a team of scientists evaluating several energycane cultivars and miscane cultivars, a subset of which are undergoing detailed phenotyping to characterize the effects of phenotypic traits on yield performance. He is part of a multi-state project that is evaluating the impact of expanding lignocellulosic crop production and management. Part of this research will identify the best approach for preventing economically damaging stem borer pests from causing economic loss to energycane, sugarcane, and rice. Dr. Wilson’s research outreach activities largely focus on interfacing with the Texas agricultural rice industry in delivering improved management programs. Nineteen M.S./Ph.D. students have completed their degrees under his supervision. He has served on an additional 21 committees for which students have completed M.S. or Ph.D. degrees. Publications During Dr. Wilson’s professional career, he has published almost 700 scientific papers, nearly 200 refereed journal articles and book chapters, and over 500 research outreach papers. A large number of his publications focus on cropping systems modeling, and the development of integrated systems and databases for use in simulation analysis. Selected Publications (from last 10 years) Weeks, R. D., L. T. Wilson, and S. B. Vinson. 2004. Resource Partitioning Among Colonies of Polygyne Red Imported Fire Ants (Hymenoptera: Formicidae). Environmental Entomology: Vol. 33 (6): 1602–1608. Weeks, R. D., L. T. Wilson, S. B. Vinson, and W. D. James. 2004. Flow of Carbohydrates, Lipids, and Protein Among Colonies of Polygyne Red Imported Fire Ants, Solenopsis invicta (Hymenoptera: Formicidae). Annals of the Entomological Society of America 97 (1): 105-110. Samonte, S. O. P. B., L. T. Wilson, J. C. Medley, S. R. M. Pinson, A. M. McClung, and J. S. Lales. 2006. Nitrogen utilization efficiency: Relationships with grain yield, grain protein, and yield-related traits in rice. Agronomy Journal 98 (1): 168–176. Wilson, L. T., Y. Yang, J. Wang, P. Lu, J. W. Nielsen-Gammon, N. Smith, and C. J. Fernandez. 2007. Integrated Agricultural Information and Management System (iAIMS): World Climatic Data. August 2007. http://beaumont.tamu.edu/ClimaticData. Lv, J., L. T. Wilson, and M. T. Longnecker. 2008. Tolerance and Compensatory Response of Rice to Sugarcane Borer (Lepidoptera: Crambidae) Injury. Environmental Entomology 37(3): 796-807. Reay-Jones, F. P. F., L. T. Wilson, T. E. Reagan, B. L. Legendre, and M. O. Way. 2008. Predicting Economic Losses from the Continued Spread of the Mexican Rice Borer (Lepidoptera: Crambidae). Journal Economic Entomology 101 (2): 237-250. Moon, R. D., and L. T. Wilson. 2009. Sampling for Detection, Estimation, and Decision Making in IPM, Pp. 75-89, In: E. B. Radcliffe and W. D. Hutchison (eds.), Integrated Pest Management: Concepts, Tactics, Strategies and Case Studies. Cambridge University Press, Cambridge Massachusetts. 529 pp. Wilson, L. J., T. T. Lei, V. O. Sadras, L. T. Wilson, and S. C. Heimoana. 2009. Interactions Between Damaged Plants in Cotton Crops: Implications for Pest Thresholds. Bulletin of Entomological Research 99 (1): 1-12. Wilson, L. T. 2009. IPM Evolution and Integrated Crop System Management. In: D. Pimentel (ed.), Encyclopedia of Pest Management 1: 1-4. Taylor & Francis LLC. Lv, J., L. T. Wilson, J. M. Beuzelin, and T. E. Reagan. 2010. Rice tillering and yield as affected by artificial and sugarcane borer (Lepidoptera: Crambidae) larval culm injury. Environmental Entomology 39(2): 528-534. Yang, Y., L. T. Wilson, and J. Wang. 2010. Development of an Automated Climatic Data Scraping, Filtering and Display System. Computers and Electronics in Agriculture 71: 77–87. Lv, J., L. T. Wilson, J. M. Beuzelin, W. H. White, T. E. Reagan, and M. O. Way. 2011. Impact of Cotesia flavipes (Hymenoptera: Braconidae) as an augmentative biocontrol agent for the sugarcane borer (Lepidoptera: Crambidae) on rice. Biological Control 56: 159-169. Yang, Y., L. T. Wilson, J. Wang, and X. Li. 2011. Development of Integrated Cropland and Soil Data Management Systems for Cropping System Applications. Computers and Electronics in Agriculture 76: 105-118. Beuzelin, J. M., A. Meszaros, T. E. Reagan, L. T. Wilson, M. O. Way, D. C. Blouin, and A. T. Showler. 2011. Seasonal infestations of two stem borers (Lepidoptera: Crambidae) in noncrop grasses of Gulf Coast rice agroecosystems. Environmental Entomology. 40 (5): 1036-1050. Beuzelin, J. M., T. E. Reagan, M. O. Way, A. Mészáros, W. Akbar, and L. T. Wilson. 2011. Potential impact of Mexican rice borer non-crop hosts on sugarcane IPM. International Sugar Journal 113(1153): 660-665. Yang, Y., L.T. Wilson, and J. Wang. 2012. Site-Specific and Regional On-Farm Rice Water Conservation Analyzer (RiceWCA): Development and Evaluation of the Water Balance Model. Agricultural Water Management 115: 66– 82. White, W. H. and L. T. Wilson. 2012. Feasibility of Using an Alternative Larval Host and Host Plants to Establish Cotesia flavipes (Hymenoptera: Braconidae) in the Temperate Louisiana Sugarcane Ecosystem. Environmental Entomology 41 (2): 275-281. Ziska, L. H., J. A. Bunce, H. Shimono, D. R. Gealy, J. T. Baker, P. C. D. Newton, M. P. Reynolds, K. S. V. Jagadish, C. Zhu, M. Howden, and L. T. Wilson. 2012. Food Security and Climate Change: On the Potential to Adapt Global Crop Production by Active Selection to Rising Carbon Dioxide Concentration. Proceedings of the Royal Society (B) 279 (1745): 4097-4105. Samonte, S. O. P. B., R. E. Tabien, and L. T. Wilson. 2013. Parental Selection in Rice Cultivar Improvement. Rice Science 20 (1): 45-51. Contracts and Grants Dr. Wilson has been successful at obtaining 147 grants as a PI or Co-PI, totaling over $15.1 million, representing a wide range of competitive grants Professional Service Convener and organizer for the Ecology and Population Dynamics section of the XXI International Congress of Entomology held in 2000 in Brazil, 1998-2000 Editor, Journal of Economic Entomology, Entomological Society of America, 1994-1998 Teaching Experience
Dr. Wilson has served as instructor of record for 21 courses since receiving his Ph.D. in 1977. He developed and taught for a number of years a graduate level course titled “Advanced Principles of Agroecosystem Management”. CURRICULUM VITA JOSHUA S. YUAN Phone: 979 845 3016 Email: [email protected] Professional Experience 2013 – now Associate Professor Faculty of Department of Plant Pathology and Microbiology Institute for Plant Genomics and Biotechnology Graduate Program in Biotechnology Graduate Program in Molecular Environmental Plant Sciences Graduate Program in Genetics Texas A&M University (TAMU), College Station, TX 2008 – 2013 Assistant Professor Department of Plant Pathology and Microbiology Institute for Plant Genomics and Biotechnology Texas A&M University, College Station, TX 2004 – 2008 Director, Genomics Hub University of Tennessee, Institute of Agriculture (UTIA) Genomics Scientist, Department of Plant Sciences, University of Tennessee, Knoxville, TN 2001 – 2004: Microarray Core Manager, Ernest Gallo Clinic & Research Center University of California, San Francisco, CA 2000 – 2001: Senior Research Associate, BASF Plant Sciences LLC, RTP, NC
Education Sungrant Fellow National Renewable Energy Lab 2008 Ph.D. Major: Plant Functional Genomics University of Tennessee Dec. 2007 Minor: Statistics M.S. Plant Sciences University of Arizona Aug. 2001 B.S. Major: Biology Fudan University Jul. 1997 Minor: International Economics
Teaching BESC357/PLPA657: Biotechnology for Biofuels and Bioproducts, Spring, 2009 – 2014, TAMU, Evaluation: 4.90/5.00 BESC489/PLPA689: Genome Informatics, Fall, 2009 – 2013, TAMU, Evaluation: 4.67/5.00
Honor Sigma Delta Gamma Outstanding Graduate Student, 2007 BMC Bioinformatics Most Viewed Article of the Year, in 2012: http://www.biomedcentral.com/bmcbioinformatics/mostviewed/year BMC Bioinformatics All Time Most Viewed Article 2012 – now: http://www.biomedcentral.com/bmcbioinformatics/mostviewed/alltime Insect Science Most Download of the Year of 2011: Molecular approaches to study the insect gut symbiotic microbiota at the ‘omics’ age
Research Program (>$7.5 Million extramural competitive funding as leading PI in 5 years) Project Name (for representative projects only) Agency Amount Role Develop Synthetic Crop through Photorespiration Re- DOE ARPA E $3 Million PI channeling and Terpenoid Biosynthesis Optimization, Phase 2
1 Synthetic Design of Microorganisms for Lignin Fuel DOE EERE $2.4 Million PI Develop Synthetic Crop through Photorespiration Re- DOE ARPA E $1.9 Million PI channeling and Terpenoid Biosynthesis Optimization, Phase 1 Novel Strategy to Improve Plant Biomass by Sungrant $69,985 PI Manipulating PHB Gene Function Biodesign of Lignin-Derived Terpene Biofuel State of Texas $150,000 PI Structure Dynamics- Guided Enzyme Improvement Sungrant $34,966 Co-PI Manipulating Lipid Profile of Microalgae through State of Texas $200,000 PI Synergistic Chemical Treatment. Texas Agrilife Biofuel Initiative. National Alliance for Advanced Biofuels and DOE EERE $166,592 Co-I Bioproducts Systems Biology Analysis NBUS for Biofuel State of Texas $200,000 PI
Editorial Positions & Other Activities 2011 – now Review Panel US DOE 2011 – 2013 Board of Director MidSouth Comp Biol & Bioinformatics Society 2008 – now BMC Research Notes Associate Editor 2009 US-China Bioenergy Forum Co-Chair 2010 Biofuels Guest Editor for Special Issue
Publications 1. Shangxian Xie, Xing Qin, Yanbing Cheng, Weichuan Qiao, Su Sun, Scott Sattler, Zhanguo Xin, Susie Y. Dai, Katy Gao, Bin Yang, Xiaoyu Zhang, and Joshua S. Yuan, Simultaneous conversion of all cell wall components with oleaginous fungi without chemical pretreatment, 2013, under review. 2. Ryan D. Syrenne, YongKyoung Kim, Hu Chen, Yu Wang, Feng Chen, Susie Y. Dai, and Joshua S. Yuan, Autotrophic production of terpenoid hydrocarbon in engineered microalgae, 2013, under review 3. Shangxian Xie, Ryan D. Syrenne, Su Sun, Joshua S. Yuan, Reverse design of natural biomass utilization systems for biofuels, Current Opinion in Biotechnology, 2014, In press. 4. Yixiang Zhang, Peng Gao, Zhuo Xing, Shumei Jin, Zhide Chen, Lantao Liu, Nasie Constantino, Xingwang Wang, Weibin Shi, Joshua S. Yuan, and Susie Y. Dai, Application of an improved proteomics method for abundant protein cleanup: molecular and genomic mechanisms study in plant defense, Molecular and Cellular Proteomics, 2013, 12(11): 3431- 42. 5. Wusheng Liu, Joshua S. Yuan, and C. Neal Stewart Jr., Advanced genetic tools for plant biotechnology, Nature Review Genetics, 2013, 14, 781–793 6. Weibing Shi, Shangxian Xie, Su Sun, Xueyan Chen, Xin Zhou, Lantao Liu, Peng Gao, Nikos C. Kyprides, En-Gyu No, Joshua S. Yuan, Comparative genomic analysis of the endosymbionts of herbivorous insects reveals eco-environmental adaptations: biotechnology applications. PLoS Genetics, 2013, 9(1): e1003131. 7. Shangxian Xie, Su Sun, Susie Y. Dai, and Joshua S. Yuan, Efficient coagulation of microalgae in cultures with filamentous fungi, Algal Research, 2013, 2(1): 28-33. 8. Nageswara-Rao, M., C. Kwit, S. Agarwal, M.T. Patton, J.A. Skeen, J.S. Yuan, R.M. Manshardt. C.N. Stewart Jr. Sensitivity of a real-time PCR method for the detection of transgenes in a mixture of transgenic and non-transgenic seeds of papaya (Carica papaya L.) BMC Biotechnology, 2013, 13:69. 9. Yixiang Zhang, Sanmin Liu, Susie Y. Dai, Joshua S. Yuan, Integration of shot-gun proteomics and bioinformatics analysis to explore plant hormone responses, BMC
2 Bioinformatics, 2012, S15: S8. 10. Dongxia Yao, Wenying Xu, Joshua S. Yuan, and Zhen Su, Comparative genome analysis and network modeling of NAC transcriptional factors to dissect the regulatory mechanisms for cell wall biosynthesis, BMC Bioinformatics, 2012, S15: S10. 11. Weibing Shi, Ugur Uzuner, Lingxia Huang, Palmy R Jesudhasan, Suresh D Pillai, Joshua S Yuan, Comparative analysis of insect gut symbionts for composition–function relationships and biofuel application potential, Biofuels, 2011, 2 (5): 529-544. 12. Joshua S Yuan, Yinbo Qu, Shizhong Li, C Neal Stewart, US–China collaborative biofuel research: towards a global solution for petroleum replacement, Biofuels, 2011, 2 (5): 487- 489. 13. Yuanchun Shi, Shizhong Li, Joshua S Yuan, Biomass utilization toward energy independence and sustainable economic development in China, Biofuels, 2011, 2 (5): 501- 502. 14. Sanmin Liu, Lantao Liu, Ugur Uzuner, Xin Zhou, Manxi Gu, Weibing Shi, Yixiang Zhang, Susie Y. Dai, and Joshua S. Yuan, HDX-Analyzer: A novel package for statistical analysis of protein structure dynamics, BMC Bioinformatics, 2011, 12: S1: S43. 15. Joshua S Yuan, Xinwang Wang, C. Neal Stewart, Biomass feedstock: diversity as a solution, Biofuels, 2011, 2 (5): 491-493. 16. Weibing Shi, Shi-you Ding, Joshua S. Yuan, Comparison of insect gut cellulase and xylanase activity across different insect species with distinct food sources, BioEnergy Research, 2011,4: 1-10. 17. Carl E. Sams, Dilip R. Panthee, Craig S. Charron, Dean A. Kopsell, Joshua S. Yuan， Selenium regulates gene expression for glucosinolate and carotenoid biosynthesis in Arabidopsis, Journal of the American Society for Horticultural Science, 2011, 136(1):23-34. 18. Danner H, Boeckler GA, Irmisch S, Yuan JS, Chen F, Gershenzon J, Unsicker SB, Köllner TG: Four terpene synthases produce major compounds of the gypsy moth feeding-induced volatile blend of Populus trichocarpa. Phytochemistry, 2011, 72(9):897-908. 19. Ugur Uzunner, Weibing Shi, Lantao Liu, Sanmin Liu, Susie Y. Dai, Joshua S. Yuan, Enzyme structure dynamics of xylanase I from Trichoderma longibrachiatum, 2010, BMC Bioinformatics, 11, S6: S12. 20. Chao Di, Wenying Xu, Zhen Su, Joshua S. Yuan, Comparative genome analysis of PHB gene family reveals deep evolutionary origins and diverse gene function, 2010, BMC Bioinformatics, 11, S6: S22. 21. Yanhui Peng, Laura G. Abercrombie, Joshua S. Yuan, R.D. Sammons, Patrick J. Tranel, and C.N. Stewart Jr., Characterization of de novo transcriptome for a non-model plant, Conyza canadensis (horseweed), using GS-FLX 454 pyrosequencing, 2010, Pest Management Science, 66: 1053–1062 22. Weibing Shi, Jianzhong Sun, Ryan Syrenne, Joshua S. Yuan, Molecular approaches to study the insect gut symbiotic microbiota at the ‘Omics’ age, 2010, Insect Science, 17: 199- 219. 23. Joshua S. Yuan, Laura L.G. Abercrombie, Yongwei Cao, Matthew D. Halfhill, Xin Zhou, Yanhui Peng, Jun Hu, Murali R. Rao, Gregory R. Heck, Thomas J. Larosa5 R. Douglas Sammons, Xinwang Wang, Priya Ranja, Denita H. Johnson, Phillip A. Wadl, Brian E. Scheffler, Timothy A. Rinehart, Robert N. Trigiano,C. Neal Stewart, Jr., Functional genomics analysis of glyphosate resistance in Conyza canadensis (horseweed), 2010, Weed Sciences, 58: 109-117. 24. Yixiang Zhang, Peng Gao, Joshua S. Yuan, Plant internactome and protein-protein interaction network, Current Genomics, 2010, 11: 40-46. 25. Stewart, C. N., Jr., Y. Peng, L. G. Abercrombie, M. D. Halfhill, M. R. Rao, P. Ranjan, J. Hu, R. D. Sammons, G. R. Heck, P. J. Tranel, J. S. Yuan 2010. Genomics of glyphosate resistance. Pp in V. Nandula (ed). Glyphosate Resistance in Weeds. Wiley-Blackwell.
3 26. Zhanyou Xu, Dandan Zhang, Jun Hu, Xin Zhou, Xia Ye, Kristen Reichel, Nathan R. Stewart, Ryan D. Syrenne, Xiaohan Yang, Peng Gao, Weibing Shi, Crissa Doeppke, Rob Sykes, Jason Burris, Joe Bozell, Max Z. Cheng, Douglas Hayes, Nikki Labbie, Mark Davis, C. Neal Stewart Jr., Joshua S. Yuan, Comparative genome analysis of lignin biosynthesis gene families across the plant kingdom, BMC Bioinformatics, 2009, 10, S11: S3. 27. Hu, J., P.J. Tranel, C.N. Stewart, Jr., and J.S. Yuan. 2009. Molecular and genomic mechanisms of non-target site herbicide resistance. Pp149-161 In: Stewart, C.N., Jr. (Ed.) Genomics of Weedy and Invasive Plants, Blackwell Scientific Publishing, Ames Iowa 28. Joshua S. Yuan, Sari J. Himanen, Jarmo K. Holopainen, Feng Chen, and C. Neal Stewart, Jr. Smelling global warming: changes of ecological function of plant volatile organic compounds, Trends in Ecology and Evolution, 2009, 24: 323-331. 29. Xin Zhou, Zhen Su, Doug Rammons, Yanhui Peng, Patrick R. Tranel, C. Neal Stewart Jr., and Joshua S. Yuan, Novel software package for cross-platform transcriptome analysis (CPTRA), BMC Bioinformatics, 2009, 10, S11: S16. 30. Trigiano, R.N., X.W. Wang, L.L. Good, D. Panthee, B.E. Scheffler, T.A. Rinehart, D. Johnson, P.A. Wadl, N.R. Stewart, J.S. Yuan, C.N. Stewart, Jr. Microsatellites from Conyza canadensis (horseweed). Molecular Ecology Resources, 2009, 9:1375-1379. 31. Wayra Navia-Gine, Joshua S. Yuan, Feng Chen, and Kenneth L. Korth, Regulation of an insect-induced E-(beta)-ocimene synthase and other terpene synthases of Medicago truncatula. Plant Physiology and Biochemistry, 2009, 47: 416-425. 32. Panthee, D.R., J.J. Marois, D.L. Wright, J.S. Yuan, and C.N. Stewart Jr. Differential expression of genes in soybean in response to the causal agent of Asian soybean rust, (Phakopsora pachyrhizi Sydow), is soybean growth stage-specific. 2009, Theoretical and Applied Genetics, 118: 359-370. 33. Joshua S. Yuan, Kelly H. Tiller, Hani Al-Ahmad, Nathan R. Stewart, C. Neal Stewart Jr., Plants to power: Bioenergy to fuel the future, Trends in Plant Sciences, 2008, 13:421-429. 34. Joshua S. Yuan, Tobias G. Köllner, Greg Wiggins, Jerome Grant, Nan Zhao, Xiaofeng Zhuang, Jörg Degenhardt and Feng Chen Elucidation of the genomic basis of indirect plant defense against insects, Plant Signaling & Behavior, 2008, 3: 720 - 721 35. Jason Abercrombie, Matthew Halfhill, Priya Ranjan, Murali Rao, Arnold Saxton, Joshua S. Yuan, C. Neal Stewart Jr., Transcriptional profiling of Arabidopsis thaliana grown under arsenate stress reveals antioxidant activity and repression of the phosphate starvation response, BMC Plant Biology, 2008, 8:37. 36. Joshua S. Yuan, Tobias G. Köllner, Greg Wiggins, Jerome Grant, Jörg Degenhardt, and Feng Chen, Molecular and genomic basis of volatile-mediated indirect defense against insects in rice, Plant Journal, 2008, 55: 491-503 37. Joshua S. Yuan, David W. Galbraith, Susie Y. Dai, Patrick Griffin, and C. Neal Stewart Jr., Plant systems biology comes of age, Trends in Plant Sciences, 2008, 13: 165-171. 38. Maria Cekanova, Joshua S. Yuan, Xiuoon Li, and Seung Joon Baek, Gene alterations by PPARγ agonists in human colorectal adenocarcinoma HCT-116 cells. 2008, International Journal of Oncology, 32: 809-819. 39. Joshua S. Yuan, Donglin Wang, C. Neal Stewart Jr., Statistical methods for efficiency adjusted real-time PCR quantification, 2008, Biotechnology Journal, 3: 112-123. 40. Joshua S. Yuan, Nathan R. Stewart, Jason Burris, C Neal Stewart Jr. Statistical methods for transgene detection with real-time PCR, 2007, BMC Bioinformatics, 8, S7: S6. 41. D.R. Panthee, Joshua S. Yuan, D.L. Wright, J.J. Marois, D. Mailhot and C.N. Stewart Jr., Global gene expression analysis in soybean in response to the causal agent of Asian soybean rust (Phakopsora pachyrhizi Sydow), 2007, Functional and Integrative Genomics, 7: 291. 42. Joshua S. Yuan, Pat Tranel, and C. Neal Stewart Jr., Non-target herbicide resistance: a family business, 2007, Trends in Plant Sciences, 12: 6.
4 43. Joshua S. Yuan, Xiaohan Yang, Jinru Lai, Hong Lin, Zong-ming Chen, Hiroyuki Nonogaki, and Feng Chen, Comparative genomic analysis of endo-β-mannanase gene families in Arabidopsis, rice and poplar, 2007, Functional and Integrative Genomics: 7: 1. 44. Joshua S. Yuan, Ann Reed, Feng Chen, and C. Neal Stewart Jr., Statistical analysis of real-time PCR data, 2006, BMC Bioinformatics, 7:85. 45. Feng Chen, Leland Cseke, Hong Lin, Ara Kirakosyan, Joshua S. Yuan, and Peter Kaufman, 2006, The study of plant natural product biosynthesis in the pre-genomics and genomics Eras, Book Chapter in Nature Products from Plants, pp: 203-220. 46. Yue Yang, Joshua S. Yuan, Jeannine Ross, Joseph P. Noel, Eran Pichersky and Feng Chen, An Arabidopsis thaliana methyltransferase capable of methylating farnesoic acid, 2006, Archives of Biochemistry and Biophysics, 448:123. 47. Dhar, M.S., Joshua S. Yuan, Sarah B. Elliott and Sommardahl C., A type IV P-type ATPase affects insulin-mediated glucose uptake in adipose tissue and skeletal muscle in mice, 2006, Journal of Nutritional Biochemistry, 17: 811. 48. Joshua S. Yuan and C. N. Stewart Jr., 2005, Real-time PCR statistics. PCR Encyclopedia 1: 101127-101149
Conference Abstracts and References are Available upon Request
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BIOGRAPHICAL SKETCH Provide the following information for the key personnel and other significant contributors. Follow this format for each person. DO NOT EXCEED FOUR PAGES.
NAME POSITION TITLE Zhang, Xiuren Assistant Professor of Genetics & Biochemistry eRA COMMONS USER NAME XIURENZHANG EDUCATION/TRAINING (Begin with baccalaureate or other initial professional education, such as nursing, and include postdoctoral training.) INSTITUTION AND LOCATION DEGREE YEAR(s) FIELD OF STUDY Hefei College of Economy and Technology B.S 1989 Botany
Plant Molecular Biology Cornell University Ph.D. 2003 /Biochemistry
Molecular Biology /RNA Rockefeller University Postdoc 2008 Biology
A. Positions and Honors. Positions and Employment 1994-1997 Assistant to Director, Beijing Academy of Agriculture & Forestry, China 2008-2013 Assistant Professor, Institute for Plant Genomics & Biotechnology and Department of Biochemistry & Biophysics Texas A&M University
Other Experience and Professional Memberships 2005- Member for, American Society of Plant Physiologists / New York Academy of Sciences / American Association of Pharmaceutical Scientists 2009- Ad hoc members for NSF / NIH /USDA 2008- Reviewer for the following journals: Cell/ Genes & Development / Molecular Cell / Genome Biology /Plant Cell / Plant Journal / Trends in Plant Biology / PLoS Pathogen / PLoS Genetics / Cell Research / Immunology / Vaccine / Nucleic Acid Research Honors 1985-1989 Ranked 1st places for consecutive four years for undergraduate program in HCET, P.R.China. 1996 Distinguished young fellow in Municipality of Beijing, China. 2003 Graduate student with honor in Cornell University, NY.
B. Selected peer-reviewed publications (* equal contribution; ** corresponding author; authors in red are undergraduates trained in my lab)
1. Yuyi Zhou, Hongliang Zhu, Zhaohu Li, Liusheng Duan**, and Xiuren Zhang**. 2013. Critical timing and niches for Argonaute10-miR165/166 function in maintenance of shoot apical meristem in Arabidopsis. Revision to Cell Reports 2. Hongliang Zhu, Yuyi Zhou, Claudia Castillo, Amber Lu, Yingtao Zhao, Liusheng Duan, Zhaohu Li, Xiujie Wang and Xiuren Zhang**. 2013. Molecular mechanism for bi-directional processing of primary miRNAs with branched terminal loops by Dicer-like 1 in Arabidopsis. Nature Structural and Molecular Biology. 20:1106-1115 (Cover Story) 3. Zhonghui Zhang and Xiuren Zhang**. 2012. Argonautes fight for miRNAs to regulate stem cell activity in plants. Current Opinion in Plant Biology. 15:652-658. (Cover Page)
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4. Hongliang Zhu*, Fuqu Hu*, Ronghui Wang*, Xin Zhou, Sing-Hoi Sze, Lisa Wen Liou, Ashley Barefoot, Martin Dickman, Xiuren Zhang**. 2011. The Arabidopsis Argonaute 10 specifically recruits miR166/165 to maintain shoot apical meristem. Cell. 145:242-256. Please refer to “ http://www.sciencedirect.com/science/article/pii/S0092867411003795 for perspective on this paper; PaperFlick http://www.youtube.com/watch?v=VuQvQCxHo-c from Cell (Top 5 Cell paperflick in 2011)and http://f1000.com/search/all?query=Argonaute10&selectedDomain=all for comments by Faculty of 1000.
5. Huan Wang*, Xiuren Zhang*, Jun Liu, Takatoshi Kiba, Tolulope Ojo, Markus Hafner, Thomas Tuschl, Nam-Hai Chua** and Xiu-Jie Wang**. 2011. Deep sequencing of small RNAs specifically associated with AGO1 and AGO4 uncovers new AGO functions. The Plant J. 67, 292–304. PMCID: PMC3135789
6. Rafael Catala, Jian Ouyang, Isabel A. Abreu, Yuxin Hu, Haksoo Seo, Xiuren Zhang, and Nam-Hai Chua. 2007. The Arabidopsis E3 SUMO ligase SIZ1 regulates plant development and drought responses. Plant Cell. 19:2952-2966. PMCID: PMC2048692 Please refer to http://www.f1000biology.com/article/id/1092259/evaluation for comments on this paper by Faculty of 1000.
7. Xiuren Zhang, Yu-Ren Yuan, Yi Pei, Shih-Shun Lin, Thomas Tuschl, Dinshaw J. Patel, and Nam- Hai Chua. 2006. Cucumber mosaic virus-encoded 2b suppressor inhibits Arabidopsis Argonaute1 cleavage activity to counter plant defense. Genes & Development. 20:3255-3268. PMCID: PMC1686603 Please refer to http://www3.interscience.wiley.com/cgi-bin/fulltext/114189947/PDFSTART; http://www.the- scientist.com/news/home/37060/; and http://www.f1000biology.com/article/id/1086111 for comments.
8. Xiuren Zhang, Rossana Henriques, Shih-Shun Lin, Qi-Wen Niu, and Nam-Hai Chua. 2006. Agrobacterium-mediated transformation of Arabidopsis thaliana using the floral dip method. Nature Protocols 1(2): 641-646.
9. Xiuren Zhang, Virginia Garreton and Nam-Hai Chua. 2005. The AIP2 E3 ligase acts as a novel negative regulator of ABA signaling by promoting ABI3 degradation. Genes & Development. 19: 1532-1543. PMCID: PMC1172060 Please refer to http://www.f1000biology.com/article/id/1026874/evaluation for comments on this paper by Faculty of 1000.
10. Xiuren Zhang and Hugh S. Mason. 2006. Bean Yellow Dwarf Virus Replicons for High-level Transgene Expression in Transgenic Plants and Cell Cultures. Biotechnology and Bioengineering. 93:271-279.
11. Xiuren Zhang, Norene Buehner, and Hugh S. Mason. 2006. Tomato is a highly effective vehicle for expression and oral immunization with Norwalk virus capsid protein. Plant Biotechnology Journal. 4 (4):419-432. 12. Xiuren Zhang, David G. Himelrick, Floyd M. Woods and Robert C. Ebel. 2005. Effect of Temperature, Photoperiod and Pretreatment Growing Condition on Floral Induction in Springbearing Strawberry. Small Fruits Review. 1(2): 113 – 123. 13. Xiuren Zhang, Guoguang Luo, Ronghui Wang Jin Wang and David G. Himelrick. 2003. Growth and developmental responses of seeded and seedless grape berries to shoot girdling. Journal of the American Society for Horticultural Science. 128(3): 316-323.
C. Patent
1) Nam-Hai Chua, Jose Reyes, Xiuren Zhang, Takashi Soyano. Artificial microRNAs (PCT/US2004/03379).
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2) Hamilton, W., Hellendoorn, K., Jones, T., Dwayne Kirk, Hugh S. Mason, Xiuren Zhang, and Charlies Arthzen. 2003. Vectors and methods for immunization against Norwalk Virus using transgenic plants (Patent serial No: 10/895,791)
D. Invited talks 1) Genetic Program Seminar Series, Texas A&M University, USA. Dec. 2010. 2) Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, China. July, 2011 3) College of Agriculture and Life Sciences, China Agricultural University, China. July, 2011 4) College of Life Sciences, Anhui University, China. July, 2011 5) College of Agriculture and Life Sciences, Zhejiang University, China. Aug. 2011 6) Department of Plant Pathology & Microbiology, Texas A&M University, USA. Aug. 2012 7) The Huck Institutes of the Life Sciences, Penn State University, USA. Feb. 2013 8) Boyce Thompson Institute for Plant Research, Cornell University, USA. Feb. 2013 9) Posttranscriptional Gene Regulation in Plants, Rhode Island, USA. July, 26, 2013 10) Institute of Plant Protection, Jiangshou Academy of Agricultural Sciences, China. Aug, 2, 2013 11) College of Food and Biotechnology, Hefei University of Engineering, Aug. 5, 2013 12) College of Agricultural and Life Science, Huazhong Agricultural University, Aug. 8, 2013 13) Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Aug, 12, 2013 14) Department of Plant Protection, China Academy of Agricultural Science, China. Aug. 13, 2013 15) The 7th International Geminivirus Symposium, Hangzhou, China. Scheduled for Nov. 2013
E. Research Support
Funding Source: NSF (MCB-0951120; 2.1.2010 - 1.31.2014) Project Title: “Argonuate-RNA interactome in Arabidopsis.” Total costs: $532,909 Role: PI (95%); Co-PI, Sing-Hoi Sze (5%)
Funding Source: American Heart Association Funding Program: NCRP National Scientist Development Grant (10SDG2640139;1.1.2010 - 12.31.2013) Project Title: “Stem cell development and organogenesis in Arabidopsis.” Total costs: $300,000 Role: PI
Funding Source: Welch Foundation (A-1777; 6.1.2011 - 5.31.2014) Project Title: “Biochemical features of Arabidopsis Argonaute 10.” Total costs: $170,000 Role: PI
Funding Source: Texas AgriLife; Genomic center (7.1.2011 - 6.30.2012) Project Title: “Argonaute 10 homologs in crops.” Total costs: $ 50,357 Role: PI
Funding Source: NIH NIAID (R21 AI097570; 2.1.2012 - 1.31.2014) Project Title: “Pathogenesis mechanism of Geminivirus-encoded AL2 suppressor.” Total costs: $ 384,357 Role: PI
Funding Source: National Science Foundation of China-TAMU (10.1.2012 - 9.31.2013) Project Title: “Towards to genome-wide identification of competing endogenous RNAs in Arabidopsis.” Total costs: $ 35,000 Role: PI; Co-PI, Xiu-Jie Wang Funding Source: NSFC
Funding Source: NSF (MCB-1253369; 6.15.2013-5.14.2018) Project Title: “CAREER: Arabidopsis Argonaute10-protein interactome” Total costs: $1,275,000. Role: PI 3
Funding Source: NIH, (R01) Project Title: “Mechanism of AGO10-mediated miR166 decoy and decay” Total costs: $1,377,000. Role: PI
This proposal was slotted for funding but I declined it due to partial overlap with the NSF CAREER.
Funding Source: NIH, (R01 Pending) Project Title: “miRNA biogenesis in Arabidopsis” Role: PI
F. Teaching and Mentoring The classroom teaching duties include: Gene 302 Principles of Genetics (4-credit course for Biochemistry and Genetics major undergraduates) BICH 689 RNA Biology (3-credit course for graduate students; I teach one-third of this course)
The non-classroom mentoring includes:
Former Postdoctoral researchers (2): Dr. Hongliang Zhu (now a faculty in China Agricultural University, China); Dr. Changjun Huang (Zhejiang University, China)
Current Postdoctoral researchers (3): Dr. Zhonghui Zhang; Ze-yang Ma; Zhiye Wang
Ph.D. students (3): Claudia Castillo-Gonzalez; Fuqu Hu; Chunxiao Ge
Technician (1): Ronghui Wang
Visiting scholars/ students (4): Yuyi Zhou; Xiuying Liu; Tao Hu; Tong Zhou
Committee member for Doctoral candidates (17): Alfredo J Hernandez; Catherine Cifuentes Rojas; Chen Ru; Xi Chen; Hengyi Xu; Kyle Renfrew; Vikas Kumar; Aldrin Benzon Lugena; Jiaxin Lei; Juanita Marie McLachlan; Shane Aaron Guthrie, Jeremy Wood; Dongyin Su, Akihito Fukudome; Katerine Leehy; Mahnaz Kianifariz
Rotation graduate students (15): Zhihobg Xue; Fuqu Hu; Huiyan Jin; Michael Zhou; Shanna Quinn Mayorov; Jaime Parra; Chenxi Wang; Claudia Castillo-Gonzalez; Shane Guthrie; Xiyu Ma; Jinggeng Zhou; Brati Das; Callie Kobayashi; Indranil Malik; Dongyin Su
Undergraduate students (26): Danielle Rekers; Katrina Trapp; Neeti Anjan Kothare; Ashley Barefoot; Lisa Wen Liou; Derian Lai; Amanda Vorpahl; Aninye Rashad; Amber Au; An Ho; Leah Barnett; Alan John; Tyler Martin; Nicole Elizabeth Schrock, Andre Nicolas Martinez, Kevin Wallace; Rachel Pacilio; Kevin Joseph Records; Chelsea Alexandra Hope; Shelley Vekasy; Chang Hwan Yi; Myrna Lilia Hurtado; Madelien Puig; Tess Pham; Khoi Ho Thi Mei; Umar Ahmed Tariq.
4
Keyan Zhu-Salzman Professor Department of Entomology Molecular and Environmental Plant Sciences Texas A&M University
Education
Ph.D. 1994 Entomology Purdue University, West Lafayette, Indiana M.S. 1988 Biology Fudan University, Shanghai, China B.S. 1985 Biology Fudan University, Shanghai, China
Professional Experience
2011- Professor, Department of Entomology, Texas A&M University 2005-2010 Associate Professor, Department of Entomology, Texas A&M University 1999-2004 Assistant Professor, Department of Entomology, Texas A&M University 1997-1999 Research Associate, Department of Entomology, Purdue University 1995-1996 Postdoctoral Researcher, Department of Entomology, Purdue University
Faculty member of four interdisciplinary programs: Biotechnology (2001-2005), Genetics (2001-2008), Molecular and Environmental Plant Sciences (2000-present), Vegetative and Fruit Improvement Cr (2006-present)
Selected Publications (Authored or coauthored 59 refereed papers)
59. Yuan, Y., P.H. Krogh, X. Bai, D. Roelofs, F. Chen, K. Zhu-Salzman, Y. Liang, Y. Sun and F. Ge (2014) Microarray detection and qPCR screening of potential biomarkers of Folsomia candida (Collembola: Isotomidae) exposed to Bt proteins (Cry1Ab and Cry1Ac). Environ. Pollut. 184: 170-178 58. Guo, H., Y. Sun, Y. Li, X. Liu, Q. Ren, K. Zhu-Salzman and F. Ge (2013) Elevated CO2 modifies N acquisition of Medicago truncatula by enhancing N fixation and reducing nitrate uptake from soil. PLoS ONE 8: e81373 57. He N, Zhang C, Qi X, Zhao S, Tao Y, Yang G, Lee TH, Wang X, Cai Q, Li D, Lu M, Liao S, Luo G, He R, Tan X, Xu Y, Li T, Zhao A, Jia L, Fu Q, Zeng Q, Gao C, Ma B, Liang J, Wang X, Shang J, Song P, Wu H, Fan L, Wang Q, Shuai Q, Zhu J, Wei C, Zhu-Salzman K, Jin D, Wang J, Liu T, Yu M, Tang C, Wang Z, Dai F, Chen J, Liu Y, Zhao S, Lin T, Zhang S, Wang J, Wang J, Yang H, Yang G, Wang J, Paterson AH, Xia Q, Ji D and Xiang Z. (2013) Draft genome sequence of the mulberry tree Morus notabilis. Nat Commun. (in press) 56. Ye, M., Y.Y. Song, J. Long, R.L. Wang, S.R. Baerson, Z. Pan, K. Zhu-Salzman, J.F. Xie, K.Z. Cai, S.M. Luo and R.S. Zeng (2013) Priming of jasmonate-mediated anti-herbivore defense responses in rice by silicon. Proc. Natl. Acad. Sci. USA (in press) 55. Guo, H., Y. Sun, B. Tong, M. Harris, K. Zhu-Salzman, and F. Ge (2013) Pea aphid promotes amino acid metabolism both in Medicago truncatula and bacteriocytes to favor aphid population growth under elevated CO2. Global Change Biol. 19: 3210–3223 54. Cheng, W., J. Lei, J-E. Ahn, Y. Wang, C.L. Lei and K. Zhu-Salzman (2013) CO2 enhances effects of hypoxia on mortality, development, and gene expression in cowpea bruchid, Callosobruchus maculatus. J. Insect Physiol. 59: 1160- 1168 53. Sun, Y., H. Guo, K. Zhu-Salzman and F. Ge (2013) Elevated CO2 increases the abundance of the peach aphid on Arabidopsis by reducing jasmonic acid defenses. Plant Sci. 210: 128– 140 52. Ahn, J-E., X. Zhou, S.E. Dowd, R.S. Chapkin and K. Zhu-Salzman (2013) Insight into hypoxia tolerance in cowpea bruchid: metabolic repression and heat shock protein regulation via hypoxia-inducible factor 1. PLoS ONE 8: e57267 51. Cheng, W., J. Lei, W.L. Rooney, T.-X. Liu and K. Zhu-Salzman (2013) High basal defense gene expression determines sorghum resistance to the whorl-feeding insect southwestern corn borer. Insect Sci. 20: 307-317 50. Guo, F., J. Lei, Y. Sun, Y. H. Chi, F. Ge, B. Patil, H. Koiwa, R.S. Zeng and K. Zhu-Salzman (2012) Antagonistic regulation, yet synergistic defense: Effect of bergapten and protease inhibitor on development of cowpea bruchid, Callosobruchus maculatus. PLoS ONE 7: e41877 49. Jing, X., H. Vogel, R. Grebenok, K. Zhu-Salzman and S. Behmer (2012) Dietary sterols/steroids and the generalist caterpillar Helicoverpa zea: physiology, biochemistry and midgut gene expression. Insect Biochem. Mol. Biol. 42: 835- 845 48. Wang, R.L., Y.L. Sun, X.T. Liang, Y.Y. Song, Y.J. Su, K. Zhu-Salzman and R.S. Zeng (2012) Effects of six plant secondary metabolites on activities of detoxification enzymes in Spodoptera litura. Acta Ecologica Sinica 32: 5191-5198 47. Ren, S., S. Weeda, K. Zhu-Salzman and T. Ferrell (2012) Novel Arabidopsis jasmonate-responsive mutants have variations in bacterial disease resistance. J. Biotech Res. 4: 80-91 46. Guo, H., Y. Sun, Q. Ren, K. Zhu-Salzman, L. Kang, C. Wang, C. Li and F. Ge (2012) Elevated CO2 reduces the resistance and tolerance of tomato plants to Helicoverpa armigera by suppressing the JA signaling pathway. PLoS ONE 7: e41426 45. Wu, G.Z., L. Hu, M. Ye, R.L. Wang, K. Zhu-Salzman and R.S. Zeng (2012) Effects of soybean trypsin inhibitor and defense signaling compounds on detoxification enzymes in Spodoptera litura (F.) larvae. Chinese J. Appl. Ecol. 23: 1952-1958 44. Ye, M., S.M. Luo, J.F. Xie, Y.F. Li, T. Xu, Y. Liu, Y.Y. Song, K. Zhu-Salzman and R.S. Zeng (2012) Silencing COI1 in rice increases susceptibility to chewing insects and impairs inducible defense. PLoS ONE 7: e36214 43. Cheng, W., J. Lei, J-E. Ahn, T.-X. Liu and K. Zhu-Salzman (2012) Effects of decreased O2 and elevated CO2 on survival, development, and gene expression in cowpea bruchids. J. Insect Physiol. 58: 792-800 42. Wu, G.Z., N.W. Yin, L. Hu, M. Ye, Y.Y. Song, K. Zhu-Salzman and R.S. Zeng (2012) Effects of soybean trypsin inhibitor and defense signaling compounds on the protective enzymes in Spodoptera litura larvae. Chinese J. Ecol. 31: 652-658 41. Chi, Y.H., X. Jing, J. Lei, J-E. Ahn, Y.D. Koo, D-J. Yun, S.Y. Lee, S. Behmer, H. Koiwa and K. Zhu-Salzman (2011) Stability of AtVSP in the insect digestive canal determines its defensive capability. J. Insect Physiol. 57: 391-399 40. Chi, Y.H., J-E. Ahn, D-J. Yun, S.Y. Lee, T.-X. Liu and K. Zhu-Salzman (2011) Changes in oxygen and carbon dioxide environment alter gene expression of cowpea bruchids. J. Insect Physiol. 57: 220-230 39. Ahn, J-E., L.A. Guarino and K. Zhu-Salzman (2010) Coordination of hepatocyte nuclear factor 4 and seven-up controls insect counter-defense cathepsin B expression. J. Biol. Chem. 285: 6573-6584 38. Chi, Y.H., Y.D. Koo, S.Y. Dai, J-E. Ahn, D-J. Yun, S.Y. Lee and K. Zhu-Salzman (2010) N-Glycosylation at non- canonical Asn-X-Cys sequence of recombinant cowpea bruchid cathepsin B-like counter-defense protein. Comp. Biochem. Physiol. 156B: 40-47 37. Peters, L., K. Zhu-Salzman and T. Pankiw (2010) Effect of primer pheromones and pollen diet on the food producing glands of worker honey bees (Apis mellifera L.). J. Insect Physiol. 56: 132-137 36. Ahn, J-E. and K. Zhu-Salzman (2009) CmCatD, a cathepsin D-like protease has a potential role in insect defense against a phytocystatin. J. Insect Physiol. 55: 678-685 35. Chi, Y.H., R.A. Salzman, S. Balfe, J-E. Ahn, W. Sun, J. Moon, D-J. Yun, S.Y. Lee, T.J.V. Higgins, B. Pittendrigh, L.L. Murdock and K. Zhu-Salzman (2009) Cowpea bruchid midgut transcriptome response to a soybean cystatin—costs and benefits of counter-defense. Insect Mol. Biol. 18: 97-110 34. Zhu-Salzman, K. and R.S. Zeng (2008) Molecular mechanisms of insect adaptation to plant defense – lessons learned from a bruchid beetle. Insect Sci. 15: 477-481 33. Koo, Y.D., J-E. Ahn, R.A. Salzman, J. Moon, Y.H. Chi, D-J. Yun, S.Y. Lee, H. Koiwa and K. Zhu-Salzman (2008) Functional expression of an insect cathepsin B-like counter-defense protein. Insect Mol. Biol. 17:235-245 32. Zhu-Salzman, K., D.S. Luthe and G.W. Felton (2008) Arthropod-inducible proteins: Broad spectrum defenses against multiple herbivores. Plant Physiol. 146: 852-858 31. Ahn, J-E. , L.A. Guarino and K. Zhu-Salzman (2007) Seven-up facilitates insect counter-defense by suppressing cathepsin B expression. FEBS J. 274: 2800-2814 30. Amirhusin, B., R.E. Shade, H. Koiwa, P.M. Hasegawa, R.A. Bressan, L.L. Murdock and K. Zhu-Salzman (2007) Protease inhibitors from several classes work synergistically against Callosobruchus maculatus. J. Insect Physiol. 53: 734-740 29. Ahn, J-E., M.R. Lovingshimer, R.A. Salzman, J.K. Presnail, A.L. Lu, H. Koiwa and K. Zhu-Salzman (2007) Cowpea bruchid Callosobruchus maculatus counteracts dietary protease inhibitors through modulating propeptides of major digestive enzymes. Insect Mol. Biol. 16: 295-304 28. Zhu-Salzman, K. and L.L. Murdock (2006) Cowpea: insects, ecology and control. An invited article for the Encyclopedia of Pest Management, published by Marcel Dekker. 27. Liu, Y., J-E. Ahn, S. Datta, R.A. Salzman, J. Moon, B. Huyghues-Despointes, B. Pittendrigh, L.L. Murdock, H. Koiwa and K. Zhu-Salzman (2005) Arabidopsis vegetative storage protein is an anti-insect acid phosphatase. Plant Physiol. 139: 1545-1556 26. Sagili, R.R., T. Pankiw and K. Zhu-Salzman (2005) Effects of soybean trypsin inhibitor on hypopharyngeal gland protein content, total midgut protease activity and survival of the honey bee (Apis mellifera L.). J. Insect Physiol. 51: 953- 957 25. Zhu-Salzman, K., J.L. Bi and T.X. Liu (2005) Molecular strategies of plant defense and insect counter-defense. Insect Sci. 12: 3-15 24. Liu, Y., R.A. Salzman, T. Pankiw and K. Zhu-Salzman (2004) Transcriptional regulation in southern corn rootworm larvae challenged by soyacystatin N. Insect Biochem. Mol. Biol. 34: 1069-1077 23. Pankiw, T., R. Roman, R.R. Sagili, and K. Zhu-Salzman (2004) Pheromone-modulated behavioral suites influence colony growth in the honey bee (Apis mellifera). Naturwissenschaften 91: 575-578 22. Ahn, J-E., R.A. Salzman, S.C. Braunagel, H. Koiwa and K. Zhu-Salzman (2004) Functional roles of specific bruchid protease isoforms in adaptation to a soybean protease inhibitor. Insect Mol. Biol. 13: 649-657 21. Moon, J., R.A. Salzman, J-E, Ahn, H. Koiwa and K. Zhu-Salzman (2004) Transcriptional regulation in cowpea bruchid guts during adaptation to a plant defense protease inhibitor. Insect Mol. Biol. 13: 283-291 20. Amirhusin, B., R.E. Shade, H. Koiwa, P.M. Hasegawa, R.A. Bressan, L.L. Murdock and K. Zhu-Salzman (2004) -amylase inhibitor and potentiates toxicity against cowpea bruchid, Callosobruchus maculatus. J. Econ. Entomol. 97: 2095-2100 19. Zhu-Salzman, K., R.A. Salzman, J-E. Ahn and H. Koiwa (2004) Transcriptional regulation of sorghum defense determinants against a phloem-feeding aphid. Plant Physiol. 134: 420-431 Book Chapters Zhu-Salzman, K. and T.X. Liu (2010) Insect herbivory-inducible proteins confer post-ingestive plant defenses. In Recent Advances in Entomological Research: From Molecular Biology to Pest Management T.X. Liu and L. Kang (Eds.), High Education Press, Beijing, pp21-29. Zhu-Salzman, K. (2008) Insect adaptation to plant defense: Decryption of gut protease deployment. In Recent advances in Insect Physiology, Toxicology and Molecular Biology. Nannan Liu (Ed.), Research Signpost, pp 199-208. Zhu-Salzman, K. and T.X. Liu (2005) Co-evolutionary arms race – Plant defense and insect Counter-defense. In Entomological Research: Progress and Perspectives. T.X. Liu and L. Kang (Eds.), Science Press, Beijing, pp31-44.
Contracts and Grants
Totaling more than $2M for research associated with insect-plant interactions; since 2000, continuous funding by USDA AFRI as the principal investigator
Professional Service
-Editorial board member for the journal Insect Science. 2010- currently -Associate Editor for a special ‘Insect-Plant Interactions’ section of Insect Science. 2012-2013 -Organizing committee member for The Second International Symposium on Insect Midgut Biology. South China Normal University, Guangzhou, China. 2012 -Panel services: USDA: 2001, 2007, 2009, 2010, NSF: 2011 -Panelist, Entomological Foundation Awards Judging Panels, ESA, 2008-2012 -Faculty Senate at Texas A&M University, 2010-2013 -Promotion and Tenure Committee for the Department of Entomology, TAMU, 2012-2014 - Ad hoc reviewer for peer reviewed scientific journals, 2000-present Archives of Insect Biochemistry and Physiology, Arthropod-Plant Interactions, Biochimica et Biophysica Acta- Proteins and Proteomics, Biology of the Cell, BioMed Central-Genomics, Comparative Biochemistry and Physiology, Entomologia Experimentalis et Applicata, Gene, Insect Biochemistry and Molecular Biology, Insect Molecular Biology, Insect Science, Journal of Economic Entomology, Journal of Experimental Botany, Journal of Insect Science, Journal of Medical Entomology, Molecular Ecology, Molecular Genetics and Genomics, Molecular Plant- Microbe Interactions, Molecular Plant Pathology, Pesticide Biochemistry and Physiology, Physiological Entomology, Phytochemistry, Plant Biology, Plant Journal, Plant Molecular Biology, Plant Physiology, Plant Signaling & Behavior, Planta, PLoS ONE, Proceedings of the National Academy of Sciences, Theoretical and Applied Genetics, Zoosymposia
Awards and Honors
The DuPont Young Professor Award. The Corporate Center for Collaborative Research and Education and the DuPont Fellows Forum. 2004
Collaborators
Hisashi Koiwa, Horticulture, Libo Shan, Plant Pathology, Bill Rooney, Soil and Crop Sci, Greg Sword, Entomology (co-chair Diana Castillo), Spencer Behmer, Entomology (co-chair Wei Chen), Bhimu Patil, VFIC
Current Teaching Responsibility
ENTO 428 Insect Biotechnology (3cr) ENTO 429 Insect Biotechnology Laboratory (1cr) ENTO 681 Insect, Plant and Environment Interaction (1cr) ENTO691/MEMP 691 Graduate Student Research (variable)
Graduate and Post-Graduate Training
As Major advisor: 5 postdocs (1 current), 7 PhD (4 current), 1 M.S. As Committee member: 13 PhD (9 current), 1 M.S.
APPENDIX B Symposia 1. 2013 Fall Poster Competition Flyer 2. 2013 Spring Symposium Flyer 3. 2014 Spring Symposium Flyer
Horticulture Graduate Council & Molecular & Environmental Plant Sciences (MEPS) Program announce the Graduate Student Poster Symposium November 20th 2013, 3:00 PM
Venue: Horticulture and Forest Science Building Atrium Please email a tentative title by November 5th and your abstracts by November 15th to Paige Graves at ([email protected]) or to Jiaxin Lei (MEPS student) at ([email protected])
Prizes will be given to First, Second and Third winners. Note: Limit the poster size to 42'' × 36'' You can visit TAMU-Horticulture Graduate Council at www.hgc.tamu.edu
MEPS SYMPOSIUM 2013 PRESENTS “Plant Signaling Systems – From Cells to the Environment” Wednesday, May 15, 2013, 8:00 a.m. - 5:00 p.m.; Thursday, May 16, 2013, 8:30 a.m. – 12:30 p.m. Interdisciplinary Life Sciences Building – Texas A&M University, College Station , TX For Free Registration Go To – http://meps.tamu.edu
FEATURED SPEAKERS “A Novel Fertilization and Weed Control System Based on Transgenic Plants Able to Metabolize Phosphite.” Dr. Luis Herrera Estrella, Director and Full Professor National Laboratory of Genomics for Biodiversity (Langebio) Center for Research and Advanced Studies of the National Polytechnic Institute (Cinvestav)
“The Phloem Network as a Whole-plant Integrator of Developmental Signals and Nutrient Homeostasis.” Dr. Brian Ayre, Associate Professor of Biological Sciences University of North Texas
“Waterproof Rice Gene, SUB1A – From Genes to Farmer’s Fields.” Dr. Takeshi Fukao, Assistant Professor of Crop and Soil Environmental Sciences Virginia Tech
“Active DNA Demethylation during Gametogenesis Regulates Gene Imprinting and Transposon Silencing in Arabidopsis” Dr. Tzung-Fu Hsieh, Assistant Professor of Plant Biology; Systems Biologist - Epigenetics North Carolina State University and Plants for Human Health Institute
“Iron Deficiency: Molecular Mechanisms for Sensing and Response in Plants” Dr. Terri Long, Assistant Professor of Plant Biology North Carolina State University
“Vernalization: Coordinated Epigenetic Silencing by Protein and Noncoding RNA Components” Dr. Sibum Sung, Assistant Professor of Molecular Cell and Developmental Biology The University of Texas at Austin
THANK YOU SPONSORS National Science Foundation; Nikon Instruments Inc. TAMU Office of Graduate Studies; College of Agriculture and Life Sciences – Department of Biochemistry and Biophysics, Department of Horticultural Sciences, Department of Plant Pathology and Microbiology, Department of Soil and Crop Sciences
Texas A&M University Molecular and Environmental Plant Sciences
presents
2014 MEPS Symposium “Plant Stress Response: from Genomics to Ecosystems”
Monday, May 12, 2014, 8:00 a.m. - 5:00 p.m. Tuesday, May 13, 2014, 8:30 a.m. – 12:30 p.m. Interdisciplinary Life Sciences Building – Texas A&M University, College Station, TX For Free Registration Go To – http://meps.tamu.edu
FEATURED SPEAKERS
Dr. Thomas Sharkey, Professor and Department Chair Department of Biochemistry & Molecular Biology Michigan State University
Dr. Lisa Donovan, Professor Department of Plant Biology University of Georgia
Dr. Georg Jander, Associate Professor Boyce Thompson Institute for Plant Research Cornell University
Dr. Thomas Juenger, Professor Department of Integrative Biology University of Texas at Austin
Dr. Andrew Leakey, Associate Professor of Plant Biology Institute of Genomic Biology, Department of Biology University of Illinois at Urbana-Champaign
Dr. Hideki Takahashi, Assistant Professor Department of Biochemistry & Molecular Biology Michigan State University
THANK YOU SPONSORS College of Agriculture and Life Sciences, Nikon, Decagon, VWR Institute for Plant Genomics & Biotechnology Department of Biology, Department of Ecosystem Science & Management, Department of Horticultural Sciences, Department of Plant Pathology and Microbiology, Department of Soil & Crop Sciences
APPENDIX C 18 Characteristics 1. 2012 - 18 Characteristics Report 2. 2013 – 18 Characteristics Report
Texas A&M University 18 Characteristics of Texas Public Doctoral Programs Programs included only if in existence 3 or more years. Program is defined at the 8‐digit CIP code level.
Department Interdisciplinary Faculty of Molecular & Environmental Plant Scienc Doctoral Degree Program Molecular and Environmental Plant Sciences Contact Name Dirk Hays Contact Phone Number 979‐458‐0032
Number of Degrees Per Year 2009‐2010 5 Average, 2009‐2012 2010‐2011 4 1 Three‐year average of the number of degrees awarded per academic year 2011‐2012 3 3 Year Average 4.0
Graduation Rates % Graduating 93.75% Starting Cohorts: 2000‐2002 within 10 Years 2 Three‐year average of the percent of first‐year doctoral students who graduated within ten Years with Cohort years. First‐year doctoral students: Those students who have been coded as doctoral students greater than 0 by the institution and have either completed a master’s program or at least 30 SCH towards a 2000, 2001, 2002 graduate degree.
Average Time to Degree Average Years to 5.43 Students Starting 2000‐2002 Degree 3 Three‐year average of the registered time to degree[3] of first‐year doctoral students within a ten year period. [3] Registered time to degree: The number of semesters enrolled starting when a student first appears as a doctoral student until she completes a degree, excluding any time taken off during graduate study. The number of years is obtained by dividing the number semsters by three.
Employment Profile (In field within one year of graduation). For each of the three most recent years, the number and percent of graduates by year employed, those still seeking employment, and unknown Employed Still Seeking Employment Unknown 4 Number Percent Number Percent Number Percent 2008‐2009 4 80% 0 0 1 20% 2009‐2010 2 50% 0 0 2 50% 2010‐2011 2 67% 0 0 1 33%
Admissions Criteria Description of admission factors 5 University Requirements plus letters of recommendation and personal interview
Percentage Full‐time Students Fall 2010 82.4% 6 FTS/number of students enrolled for the last three fall semesters. Fall 2011 76.5% Fall 2012 94.4%
Average Institutional Financial Support Provided $ 20,629.00 7 For those receiving financial support, the average monetary institutional financial support provided per full‐time graduate student for the prior year, from assistantships, scholarships, stipends, grants, and fellowships. Does not include tuition or benefits.
Percentage Full‐Time Students with Institutional Financial Support 77.00% 8 In the prior year, the number of full‐time studentswith at least $1,000 of annual support/the number of full‐time students
Number of Core Faculty 42 9 Number of core faculty in the prior year
Student‐Core Faculty Ratio .5 Three‐year average of full‐time student equivalent (FTSE) /three‐year average of full‐time faculty equivalent (FTFE) of core faculty. Core Faculty: 10 Full‐time tenured and tenure‐track faculty who teach 50 percent or more in the doctoral program or other individuals integral to the doctoral program who can direct dissertation research.
Core Faculty Publications 115 11 Three‐year average of the number of discipline‐related refereed papers/publications, books/book chapters, juried creative/performance accomplishments, and notices of discoveries filed/patents issued per year per core faculty member.
Core Faculty External Grants Three‐year average of the number of core faculty receiving external funds, average external funds per faculty, and total external funds per program per academic year. All external funds received from any source including research grants, training grants, gifts from foundations, etc., reported as expenditures. 12 Average of the Number of Core Faculty 40 Average External Funds per Faculty $ 609,363.00 Total External Funds $ 24,374,511.00
Faculty Teaching Load 16.4 13 Total number of semester credit hours in organized teaching courses taught per academic year by core faculty divided by the number of core faculty in the prior year
Faculty Diversity Core faculty by ethnicity (White, Black, Hispanic, Other) and gender, updated Male Female when changed White 25 6 14 Black 2 Hispanic Other 72
Student Diversity Enrollment headcount by ethnicity (White, Black, Hispanic, Other) and gender in program in Fall 2012 the prior year Male Female 15 White 31 Black 1 Hispanic 1 Other 66
Date of Last External Review 2005‐2006 16 Date of last formal external review, updated when changed
External Program Accreditation 17 Name of body and date of last program accreditation review, if applicable, updated when changed N/A
Student Publications/Presentations 23 18 For the three most recent years, the number of discipline‐related refereed papers/ publications, juried creative/performance accomplishments, book chapters, books, and external presentations per year by student FTE Home Page Page 1 of 4
Home
Contact Information Information for the person filling out the form for the department.
Department Molecular and Environmental Plant Sciences Doctoral Degree Molecular and Environmental Plant Sciences Program Program Code MEPS
Contact Name LeAnn Hague
Contact Phone 845-6148 Number
1. Number of Degrees Per Year Three-year average of the number of degrees awarded per academic year.
Year 1 2010-2011
Year 1 Degrees 4
Year 2 2011-2012
Year 2 Degrees 3
Year 3 2012-2013
Year 3 Degrees 4
Average 2010-2013 3 Year Average 3.7
2. Graduation Rates Three-year average of the percent of first-year doctoral students who graduated within ten years. First-year doctoral students: Those students who have been coded as doctoral students by the institution and have either completed a master’s program or at least 30 SCH towards a graduate degree.
Starting Cohorts 2001-2003
Percent Graduating within 10 Years 94.1 %
Years with Cohorts greater than 0 2001,2002,2003
3. Average Time to Degree Three-year average of the registered time to degree[3] of first-year doctoral students within a ten year period. [3] Registered time to degree: The number of semesters enrolled starting when a student first appears as a doctoral student until she completes a degree, excluding any time taken off during graduate study. The number of years is obtained by dividing the number semsters by three.
Students Starting 2001-2003
Average Years to Degree 5.3
4. Employment Profile (In field within one year of graduation). For each of the three most recent years, the number and percent of graduates by year employed, those still seeking employment, and unknown
Year Employed Number Employed Percent Still Seeking Employment Number
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2010-2011 3 75.00 0 %
2011-2012 3 100.00 0 %
2012-2013 4 100.00 0 %
Still Seeking Employment Percent Unknown Number Unknown Percent
0.00 1 25.00 % %
0.00 0 0.00 % %
0.00 0 0.00 % %
5. Admissions Criteria Description of admission factors.
University requirements, resume, letters of recommendation, personal interview.
6. Percentage Full-Time Students FTS/number of students enrolled for the last three fall semesters.
Fall Semester 1 Fall 2011
Fall Semester 1 Percentage 76.5 % Fall Semester 2 Fall 2012
Fall Semester 2 Percentage 94.4 % Fall Semester 3 Fall 2013
Fall Semester 3 Percentage 88.9 %
7. Average Institutional Fincancial Support Provided For those receiving financial support, the average monetary institutional financial support provided per full-time graduate student for the prior year, from
https://moses.tamu.edu/doctoralcharacteristics/Form.aspx 3/6/2014 Home Page Page 3 of 4
assistantships, scholarships, stipends, grants, and fellowships. Does not include tuition or benefits.
18950.50 $
8. Percentage Full-Time Students with Institutional Financial Support In the prior year, the number of full-time students with at least $1,000 of annual support/the number of full-time students.
80.00 %
9. Number of Core Faculty Number of core faculty in the prior year.
38
10. Student-Core Faculty Ratio Three-year average of full-time student equivalent (FTSE) /three-year average of full-time faculty equivalent (FTFE) of core faculty. Core Faculty: Full-time tenured and tenure-track faculty who teach 50 percent or more in the doctoral program or other individuals integral to the doctoral program who can direct dissertation research.
0.8
11. Core Faculty Publications Three-year average of the number of discipline-related refereed papers/publications, books/book chapters, juried creative/performance accomplishments, and notices of discoveries filed/patents issued per year per core faculty member.
2.74
12. Core Faculty External Grants Three-year average of the number of core faculty receiving external funds, average external funds per faculty, and total external funds per program per academic year. All external funds received from any source including research grants, training grants, gifts from foundations, etc., reported as expenditures.
Average of the Number of Core Faculty Receiving 24.30
Average External Funds per Faculty 986886.04 $
Total External Funds 24014227.00 $
13. Faculty Teaching Load Total number of semester credit hours in organized teaching courses taught per academic year by core faculty divided by the number of core faculty in the prior year.
12.8
14. Faculty Diversity Core faculty by ethnicity (White, Black, Hispanic, Other) and gender, updated when changed.
Male Female
White 22 5
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Black 1 0
Hispanic 0 0
Other 8 2
15. Student Diversity Enrollment headcount by ethnicity (White, Black, Hispanic, Other) and gender in program in the prior year.
Fall Semester Fall 2013 Male Female
White 3 1
Black 1 0
Hispanic 0 1
Other 8 4
16. Date of Last External Review Date of last formal external review, updated when changed.
2006
17. External Program Accreditation Name of body and date of last program accreditation review, if applicable, updated when changed.
18. Student Publications/Presentations For the three most recent years, the number of discipline-related refereed papers/ publications, juried creative/performance accomplishments, book chapters, books, and external presentations per year by student FTE.
26.00
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