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Department of Biology, Report to the President 2016-2017
Department of Biology Academic year 2016–2017 was exciting and productive for the Department of Biology. The department is considered one of the best biological science departments in the world. Our superb faculty members are leaders in biological research and education. Some of the news regarding our faculty, research, and educational programs is highlighted below. Faculty Count and Departures During AY2017, the Department of Biology had 56 faculty members: 44 full professors, eight associate professors, and four assistant professors. Research homes are distributed among Building 68, the Broad Institute, the Koch Institute for Integrative Cancer Research, the Picower Institute for Learning and Memory, and the Whitehead Institute for Biomedical Research. In addition to 56 primary faculty members, there were six faculty members with secondary appointments in Biology. These joint faculty members provide important connections to other departments, including Brain and Cognitive Sciences, Chemistry, Biological Engineering, and Civil and Environmental Engineering. We are saddened by the loss of Professor Susan Lindquist, who passed away in October 2016. Hidde Ploegh (Whitehead Institute) moved to Children’s Hospital in January 2017. Professor William (Chip) Quinn (Biology/Brain and Cognitive Sciences) retired in July 2016. Faculty Awards Department of Biology faculty members are widely recognized for their contributions to the field. Among our core faculty are three Nobel Laureates, 30 members of the National Academy of Sciences, 28 members of the American Academy of Arts and Sciences, 14 fellows of the American Association for the Advancement of Science, four recipients of the National Science Foundation National Medal of Science, and 15 Howard Hughes Medical Institute (HHMI) investigators. -
2008-Annual-Report.Pdf
whitehead institute 2008 AnnuAl RepoRt. a year in the life of a scientific community empowered to explore biology’s most fundamental questions for the betterment of human health. whitehead institute 2008 annual report a Preserving the mission, contents facing the future 1 preserving the mission, it’s customary in this space to recount and reflect facing the future on the accomplishments of the year gone by. i’ll certainly do so here—proudly—but in many 5 scientific achievement important ways, 2008 was about positioning the institute for years to come. 15 principal investigators many colleges, universities, and independent 30 whitehead fellows research institutions found themselves in dire fiscal positions at the close of 2008 and entered 34 community evolution 2009 in operational crisis reflective of the global economic environment. hiring freezes and large- 40 honor roll of donors scale workforce reductions have become the norm. although whitehead institute is certainly not 46 financial summary insulated from the impact of the downturn, i am 48 leadership pleased and somewhat humbled to report that the institute remains financially strong and no less 49 sited for science committed to scientific excellence. david page, director over the past two years, we have been engaged in a focused effort to increase efficiency and editor & direCtor reduce our administrative costs, with the explicit goal of ensuring that as much of the institute’s matt fearer revenue as possible directly supports Whitehead research. Our approach, which has resulted in assoCiate editor nicole giese a 10-percent reduction in operational expense, has been carefully considered. every decision offiCe of CommuniCation and PubliC affairs has been evaluated not just for its potential effects on our scientific mission, but also for 617.258.5183 www.whitehead.mit.edu possible consequences to the whitehead community and its unique culture. -
Volume 3 Summer 2012
Volume 3 Summer 2012 . Academic Partners . Cover image Magnetic resonance image of the human brain showing colour-coded regions activated by smell stimulus. Editors Ulisses Barres de Almeida Max-Planck-Institut fuer Physik [email protected] Juan Rojo TH Unit, PH Division, CERN [email protected] [email protected] Academic Partners Fondazione CEUR Consortium Nova Universitas Copyright ©2012 by Associazione EURESIS The user may not modify, copy, reproduce, retransmit or otherwise distribute this publication and its contents (whether text, graphics or original research content), without express permission in writing from the Editors. Where the above content is directly or indirectly reproduced in an academic context, this must be acknowledge with the appropriate bibliographical citation. The opinions stated in the papers of the Euresis Journal are those of their respective authors and do not necessarily reflect the opinions of the Editors or the members of the Euresis Association or its sponsors. Euresis Journal (ISSN 2239-2742), a publication of Associazione Euresis, an Association for the Promotion of Scientific Endevour, Via Caduti di Marcinelle 2, 20134 Milano, Italia. www.euresisjournal.org Contact information: Email. [email protected] Tel.+39-022-1085-2225 Fax. +39-022-1085-2222 Graphic design and layout Lorenzo Morabito Technical Editor Davide PJ Caironi This document was created using LATEX 2" and X LE ATEX 2 . Letter from the Editors Dear reader, with this new issue we reach the third volume of Euresis Journal, an editorial ad- venture started one year ago with the scope of opening up a novel space of debate and encounter within the scientific and academic communities. -
ANNUAL REPORT 2019 1 Contents Director’S Letter 1
Whitehead Institute ANNUAL REPORT 2019 1 Contents Director’s Letter 1 Chair’s Letter 3 Members & Fellows 4–5 Science 6 Community 44 Philanthropy 56 2 The Changing Face of Discovery For 37 years, Whitehead Institute has demonstrated an ability to drive scientific discovery and to chart paths into new frontiers of knowledge. Its continuing achievements are due, in substan- tial part, to the unique capacities and dedication of Members who joined the Institute in the 1980s and ‘90s — from Founding Members Gerald Fink, Harvey Lodish, Rudolf Jaenisch, and Robert Weinberg to those who followed, including David Bartel, David Sabatini, Hazel Sive, Terry Orr-Weaver, Richard Young, and me. Those long-serving Members continue to do pioneering science and to be committed teachers and mentors. Yet we have begun an inevitable genera- tional transition: In the last two years, Gerry and Terry have closed their labs, and Harvey will do so this coming year. The exigencies of time mean that, increasingly, Whitehead Institute’s ability to maintain its vigorous scientific leadership depends on our next generation of researchers. As I move toward the conclusion of my term as director, I am particularly proud of the seven current Members and the 14 Whitehead Institute Fellows we recruited during the last 16 years. The newest of those stellar researchers joined us in 2019: Whitehead Institute Member Pulin Li and Whitehead Fellow Kipp Weiskopf. Pulin studies how circuits of interacting genes in individu- al cells enable multicellular functions, such as self-organizing into complex tissues, and her research brilliantly combines approaches from synthetic biology, developmental and stem cell biology, biophysics, and bioengineering to study these multicellular behaviors. -
Whitehead Institute Hosts Campbio for Middle School Students
Whitehead Institute Hosts CampBio for LINKS About Whitehead Pulse Middle School Students Contact COMMUNITY NOV E MB E R 8 , 2 0 1 3 B Y DUS TIN GRINNE L L Subscribe Upcoming events Whitehead home In August, Whitehead Institute joined with Science from Scientists to host the first CampBio, a weeklong science program bringing local middle school students to CATEG O RIES Whitehead Institute to learn firsthand how researchers answer biology’s most challenging questions. Community Events Honors and Awards Twentysix 7th and 8th graders attended the program, In the news participating in handson activities, laboratory Multimedia demonstrations and discussions with scientists. “We Research were one of the first research institutions in the area to invite high school students into our labs,” says Amy Tremblay, the Public Programs Officer in charge of SEARCH education and community outreach at Whitehead Institute. “We wanted to offer outreach programs to middle school students as well.” It’s a niche that needs to be met, Tremblay says, given the nation’s increasing commitment to STEM (for Science, Technology, Engineering, and Mathematics) education. Such is the credo of Science from Scientists, the leading inclass science/STEM enrichment program in Massachusetts, and codesigner of CampBio. This spring, Tremblay and her team worked with the Bostonbased nonprofit group to bring the summer program to life. “We’re on the cutting edge of biomedical science,” says Tremblay, “so what better place to introduce kids to research?” She says the students were surprisingly unfiltered during the week’s activities, unpressured by their peers and unafraid to ask questions about complex subjects. -
Therapeutic Cloning Gives Silenced Genes a Second Voice
NEWS p1007 Tricky Fix: p1009 Bohemian p1010 Better than A vaccine for cocaine brain: Neuroscientist Prozac: What’s next in addiction poses John Hardy bucks antidepressant drug ethical dilemmas. the trends. development? Therapeutic cloning gives silenced genes a second voice As controversy continues on therapeutic experiments in Xenopus embryos, is the removal silencing may not be permanent.” cloning to create human embryos, applying the of methyl groups from specific regions of DNA. Jaenisch and his colleagues have also shown technique—also known as somatic cell nuclear This may be a necessary step in the epigenetic that nuclei from a skin cancer cell can be repro- transfer—in animals is generating important reprogramming of the nucleus, the researchers grammed to direct normal development of a insights into disease development. suggest in the October Nature Cell Biology. mouse embryo—meaning that removal of the Some scientists are using the approach to As cells differentiate, they accrue many epigenetic alterations is enough to restore cells study epigenetic alterations—chromosomal other types of epigenetic alterations, such as to normal (Genes Dev.18,1875–1885; 2004).An modifications that do not alter the DNA the addition of phosphates or removal of earlier study reported similar results with brain sequence—which can cause cancer. “A acetyl groups from histones, or chromosomal tumor cells (Cancer Res. 63, 2733–2736; 2003). principal question in cancer research is what proteins, and trigger changes in chromatin Based on such findings, pharmaceutical part of the cancer cell phenotype comes from structure. Defects in these processes have been companies are racing to develop and test ‘epige- genetic defects and what part is epigenetic,”says linked to cancer and other diseases. -
Mapeig D'innovació Massachusetts
MAPEIG D’INNOVACIÓ MASSACHUSETTS SECTOR BIO-IT / DIGITAL HEALTH 9 de febrer de 2016 CATALUNYA I MASSACHUSETTS CATALUNYA MASSACHUSETTS Sup. (km²) 32,107 27,360 Habitants 7,504,008 6,349,097 PIB (milions €) 199,786 427,365 PIB per càpita (€) 26,624 67,311 Atur 17.7% 4.7% R&D sobre PIB 1.5% 5.67% Universitats 12 122 MASSACHUSETTS INNOVADOR MASSACHUSETTS INNOVADOR KEY INDUSTRIES Financial Services Technology Medicine and Life Sciences Manufacturing Fishing Tourism Big Data Digital Health LIFE SCIENCES UNIVERSITATS El sistema d’ensenyament superior de Massachusetts és dual; és a dir, format per una xarxa de centres públics i una de centres privats. La majoria de les 122 institucions d’educació superior que acull l’estat, i també les més destacades en termes d’excel·lència acadèmica i investigadora, pertanyen a l’àmbit privat, encara que la potència del sistema públic també és remarcable. llistar principals amb algun indicador RECERCA? UNIVERSITATS HARVARD Any fundació: 1636 Faculty members : 2,400 Students: 21,000 Alumni: 323,000 living alumni, Budget: $4,500 milliom MIT Any fundació: 1861 Professors (all ranks): 1,021 Other teaching staff: 809 Students: 11,319 Applicants: 18,356 Admits: 1,447 Percentage admitted: 7.9% Patents granted: 275 Budget: $2,920 million MIT Biology/bioengineering • Bioinstrumentation Engineering Analysis and • Emergent Behaviors of Integrated Cellular Systems Microscopy (BEAM) • Harvard-MIT Division of Health Sciences and • BioInstrumentation Laboratory Technology (HST) • Biological Engineering • Human Genomics Laboratory -
Liberal Arts Science $600 Million in Support of Undergraduate Science Education
Janelia Update |||| Roger Tsien |||| Ask a Scientist SUMMER 2004 www.hhmi.org/bulletin LIBERAL ARTS SCIENCE In science and teaching— and preparing future investigators—liberal arts colleges earn an A+. C O N T E N T S Summer 2004 || Volume 17 Number 2 FEATURES 22 10 10 A Wellspring of Scientists [COVER STORY] When it comes to producing science Ph.D.s, liberal arts colleges are at the head of the class. By Christopher Connell 22 Cells Aglow Combining aesthetics with shrewd science, Roger Tsien found a bet- ter way to look at cells—and helped to revolutionize several scientif-ic disciplines. By Diana Steele 28 Night Science Like to take risks and tackle intractable problems? As construction motors on at Janelia Farm, the call is out for venturesome scientists with big research ideas. By Mary Beth Gardiner DEPARTMENTS 02 I N S T I T U T E N E W S HHMI Announces New 34 Investigator Competition | Undergraduate Science: $50 Million in New Grants 03 PRESIDENT’S LETTER The Scientific Apprenticeship U P F R O N T 04 New Discoveries Propel Stem Cell Research 06 Sleeper’s Hold on Science 08 Ask a Scientist 27 I N T E R V I E W Toward Détente on Stem Cell Research 33 G R A N T S Extending hhmi’s Global Outreach | Institute Awards Two Grants for Science Education Programs 34 INSTITUTE NEWS Bye-Bye Bio 101 NEWS & NOTES 36 Saving the Children 37 Six Antigens at a Time 38 The Emergence of Resistance 40 39 Hidden Potential 39 Remembering Santiago 40 Models and Mentors 41 Tracking the Transgenic Fly 42 Conduct Beyond Reproach 43 The 1918 Flu: Case Solved 44 HHMI LAB BOOK 46 N O T A B E N E 49 INSIDE HHMI Dollars and Sense ON THE COVER: Nancy H. -
About Whitehead Institute for Biomedical Research Selected
About Whitehead Institute for Biomedical Research Selected Achievements in FOUNDING VISION Biomedical Science Whitehead Institute is a nonprofit, independent biomedical research institute with pioneering programs in cancer research, developmental biology, genetics, and Isolated the first tumor suppressor genomics. It was founded in 1982 through the generosity of Edwin C. "Jack" Whitehead, gene, the retinoblastoma gene, and a businessman and philanthropist who sought to create a new type of research created the first genetically defined institution, one that would exist outside the boundaries of a traditional academic human cancer cells. (Weinberg) institution, and yet, through a teaching affiliation with the Massachusetts Institute of Technology (MIT), offer all the intellectual, collegial, and scientific benefits of a leading Isolated key genes involved in diabetes, research university. hypertension, leukemia, and obesity. (Lodish) WHITEHEAD INSTITUTE TODAY True to its founding vision, the Institute gives outstanding investigators broad freedom Mapped and cloned the male- to pursue new ideas, encourages novel collaborations among investigators, and determining Y chromosome, revealing a accelerates the path of scientific discovery. Research at Whitehead Institute is unique self-repair mechanism. (Page) conducted by 22 principal investigators (Members and Fellows) and approximately 300 visiting scientists, postdoctoral fellows, graduate students, and undergraduate Developed a method for genetically students from around the world. Whitehead Institute is affiliated with MIT in its engineering salt- and drought-tolerant teaching activities but wholly responsible for its own research programs, governance, plants. (Fink) and finance. Developed the first comprehensive cellular LEADERSHIP network describing how the yeast Whitehead Institute is guided by a distinguished Board of Directors, chaired by Sarah genome produces life. -
Rudolf Jaenisch
Rudolf Jaenisch CURRICULUM VITAE Date of Birth: April 22, 1942 Place of Birth: Wolfelsgrund, Germany Citizenship: United States Education: M.D. 1967, University of Munich, Germany Associations, Memberships and Honors: Member, National Academy of Sciences Fellow, American Academy of Arts and Sciences Member, International Society for Stem Cell Research Member, American Association for the Advancement of Science Member, German Academy of Natural Sciences Leopoldina Associate Member, European Molecular Biology Organization Editorial Board, Developmental Dynamics, 1992-2000 Editorial Board, Development, 1989-1998 Editorial Board, Molecular Reproduction and Development, 1988-1996 1996 Boehringer Mannheim Molecular Bioanalytics Prize 2001 First Peter Gruber Foundation Award in Genetics 2002 Robert Koch Prize for Excellence in Scientific Achievement 2003 Charles Rodolphe Brupracher Foundation Cancer Award 2006 Max Delbrück Medal for Molecular Medicine 2007 Vilcek Foundation Prize for Achievements of Prominent Immigrants 2008 Meira and Shaul G. Massry Prize Professional Experience: 9/68-1/70 Postdoctoral Fellow, Max Planck Institute for Biochemistry, Munich, Germany; research on replication and transcription of E. coli phages M13 and PhiX174. 2/70-2/72 Postdoctoral Fellow with Dr. Arnold Levine, Department of Biochemistry, Princeton University, Princeton, New Jersey. Research on replication, transcription, and transformation with SV40 virus. 2/72-10/72 Visiting Fellow with Dr. Beatrice Mintz, Institute for Cancer Research, Fox Chase, Philadelphia, Pennsylvania Research on the in vitro cultivation and reimplantation of isolated mouse embryos; micromanipulation techniques. 11/72-1/76 Assistant Research Professor, The Salk Institute, La Jolla, CA 1/76-1/77 Associate Research Professor, The Salk Institute, La Jolla, CA Research on the interaction of viruses with early mammalian embryos, generation of first transgenic mice. -
The Wonderful World of Gene Editing Using CRISPR/Cas9
Sponsored by Rheumatic Diseases Core Center (P30-AR048311) & Comprehensive Arthritis, Musculoskeletal, Bone and Autoimmunity Center (CAMBAC) Please come to the Research in Progress Seminar Series WONDERFUL WORLD OF TECHNOLOGY event featuring Thomas M. Ryan, PhD Associate Professor, Biochemistry & Molecular Genetics The Wonderful World of Gene Editing Using CRISPR/Cas9 Thursday, Feb 5, 2015 12:00 – 1:00 PM SHEL 515, 1825 University Blvd. Raw data welcome! You provide the science, and we’ll provide the food. The Wonderful World of Gene Editing Using CRISPR/Cas9 2/5/2015 Thomas M. Ryan, PhD Biochemistry and Molecular Genetics Regenerative Medicine Patient Transplant back Somatic Cell into patient Biopsy Derive Isogenic In vitro Pluripotent differentiation Stem Cells Corrected Repair DNA Stem Cells lesion Gene Correction by Homologous Recombination in Pluripotent Stem Cells Mouse: Homologous recombination (HR) methodology in murine ES cells is relatively straight forward. Gene targeting (knockouts, knockins, etc.) using targeting constructs with 5’ and 3’ homology regions flanking a selectable marker have been used to modify the mouse genome for over 25 years. Human: Gene correction by HR has proven much more difficult in human ES/iPS cells. Their slower growth and lower plating efficiencies have resulted in only a handful of genes to be targeted by standard techniques. Newer gene correction methods with higher efficiencies are needed. Humanized Hb Mouse Model: Human gA Globin Knock-In LCR ey h0 h1h2 maj min g A hyg CRE ey h0 h1 h2 g A LCR gAKI Mario Capecchi, Martin Evans, and Oliver Smithies were awarded the Noble Prize for Physiology and Medicine in 2007 for this “Gene Targeting” technique. -
High-Throughput Genotyping by Whole-Genome Resequencing
Downloaded from genome.cshlp.org on October 2, 2021 - Published by Cold Spring Harbor Laboratory Press Methods High-throughput genotyping by whole-genome resequencing Xuehui Huang,1,6 Qi Feng,1,2,6 Qian Qian,3,6 Qiang Zhao,1,2,6 Lu Wang,1,6 Ahong Wang,1,6 Jianping Guan,1 Danlin Fan,1 Qijun Weng,1 Tao Huang,1 Guojun Dong,3 Tao Sang,1,4 and Bin Han1,5,7 1National Center for Gene Research and Institute of Plant Physiology and Ecology, Shanghai Institutes of Biological Sciences, Chinese Academy of Sciences, Shanghai 200233, China; 2College of Life Science and Biotechnology, Shanghai Jiaotong University, Shanghai 200240, China; 3State Key Lab of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou 310006, China; 4Department of Plant Biology, Michigan State University, East Lansing, Michigan 48824, USA; 5Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100029, China The next-generation sequencing technology coupled with the growing number of genome sequences opens the oppor- tunity to redesign genotyping strategies for more effective genetic mapping and genome analysis. We have developed a high-throughput method for genotyping recombinant populations utilizing whole-genome resequencing data generated by the Illumina Genome Analyzer. A sliding window approach is designed to collectively examine genome-wide single nucleotide polymorphisms for genotype calling and recombination breakpoint determination. Using this method, we constructed a genetic map for 150 rice recombinant inbred lines with an expected genotype calling accuracy of 99.94% and a resolution of recombination breakpoints within an average of 40 kb. In comparison to the genetic map constructed with 287 PCR-based markers for the rice population, the sequencing-based method was ;203 faster in data collection and 353 more precise in recombination breakpoint determination.