Water Resources Research Center Annual Technical Report FY 2016
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A Conserved Role for a GATA Transcription Factor in Regulating Epithelial Innate Immune Responses
A conserved role for a GATA transcription factor in regulating epithelial innate immune responses Michael Shapira*, Brigham J. Hamlin*, Jiming Rong*, Karen Chen*, Michal Ronen*, and Man-Wah Tan*†‡ Departments of *Genetics and †Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305 Edited by Frederick M. Ausubel, Harvard Medical School, Boston, MA, and approved July 10, 2006 (received for review April 26, 2006) Innate immunity is an ancient and conserved defense mechanism. adulthood (17). Although GATA transcription factors are ex- Although host responses toward various pathogens have been pressed during adulthood or in mature tissues, in other animals as delineated, how these responses are orchestrated in a whole well, very little is known about their postdevelopmental roles. animal is less understood. Through an unbiased genome-wide Here we show that in both C. elegans and human cells, an study performed in Caenorhabditis elegans, we identified a con- endodermal GATA transcription factor has a postdevelopmental served function for endodermal GATA transcription factors in role in local defense against the human Gram-negative bacterial regulating local epithelial innate immune responses. Gene expres- pathogen Pseudomonas aeruginosa. Using whole-genome gene ex- sion and functional RNAi-based analyses identified the tissue- pression and functional analyses in C. elegans, we identified the specific GATA transcription factor ELT-2 as a major regulator of an GATA transcription factor ELT-2 as a major regulator of an early early intestinal protective response to infection with the human protective response to P. aeruginosa. We found that the human bacterial pathogen Pseudomonas aeruginosa. In the adult worm, homolog, GATA6, protects lung epithelial cells from a similar ELT-2 is required specifically for infection responses and survival on infection, describing a conserved role for GATA transcription pathogen but makes no significant contribution to gene expression factors in mediating local epithelial responses to infection. -
Association for the Sciences of Limnology and Oceanography
FUTURE ASLO MEETINGS 2018 OCEAN SCIENCES MEETING 2020 OCEAN SCIENCES MEETING (A joint meeting with ASLO, AGU and TOS) 16-21 February 2020 11-16 February 2018 San Diego Convention Center Oregon Convention Center San Diego, California, USA Portland, Oregon, USA 2020 ASLO SUMMER MEETING 2018 ASLO SUMMER MEETING 7 -12 June 2020 10-15 June 2018 Monona Terrace Community and Convention Center Victoria Convention Center Madison, Wisconsin, USA Victoria, British Columbia, Canada 2022 OCEAN SCIENCES MEETING 2019 ASLO AQUATIC SCIENCES MEETING (A joint meeting with ASLO, AGU and TOS) 24 February – 1 March 2019 27 February – 4 March 2022 Puerto Rico Convention Center Hawaii Convention Center San Juan, Puerto Rico Honolulu, Hawaii, USA For more information on the 2017 ASLO BUSINESS OFFICE PHONE 1 — (800) 929-ASLO This program is produced for reference on site at the ASLO Aquatic Sciences Meeting, 5400 BOSQUE BOULEVARD, SUITE 680 U.S., CANADA, AND THE CARIBBEAN meeting. It contains the most up-to-date program please address all correspondence WACO, TEXAS 76710-4446 information. Changes received after the printing of the and questions regarding registration, PHONE 2 — (254) 399-9635 program will be available using the meeting mobile app. conference logistics, and hotel EMAIL — [email protected] ALL OTHER COUNTRIES Additional information also can be found on the SPONSORED BY THE ASSOCIATION FOR THE accommodations to: conference web site. SCIENCES OF LIMNOLOGY & OCEANOGRAPHY WWW.SGMEET.COM/ASLO/HONOLULU2017 FAX — (254) 776-3767 www.sgmeet.com/aslo/honolulu2017 www.aslo.org We encourage you to use the meeting website and mobile app for all current information and to navigate the meeting. -
Rosanna 'Anolani Alegado
ROSANNA ‘ANOLANI ALEGADO Department of Oceanography and Sea Grant College Program, University of Hawaiʻi, Mānoa Daniel K. Inouye Center for Microbial Oceanography: Research and Education 1950 East West Rd., Honolulu HI, 96822 Phone: (808) 956-0565 Email: [email protected] Website: http://alegadolab.org EDUCATION 2007 Ph.D., Microbiology & Immunology, Stanford University School of Medicine 2000 S. B. Biology, Massachusetts Institute of Technology Minor in Toxicology and Environmental Health PROFESSIONAL APPOINTMENTS 2019 - University of Hawaiʻi Mānoa, Associate Professor Department of Oceanography and Sea Grant Affiliate Faculty, Pacific Biosciences Research Center Cooperating Graduate Faculty, Department of Zoology Cooperating Graduate Faculty, Department of Microbiology 2013-2019 University of Hawaiʻi Mānoa, Assistant Professor Department of Oceanography and Sea Grant 2012-2013 University of California Berkeley, Associate Specialist Department of Molecular and Cellular Biology 2007-2012 University of California Berkeley, Postdoctoral Fellow Department of Molecular and Cellular Biology, Advisor: Nicole King, Ph.D. PUBLICATIONS (* authors contributed equally, trainees, ⌃corresponding author) 1. Shuler C, Amato DW, Gibson V, Baker L, Olguin AN, Dulai H, Smith CM, Alegado RA (2019) Assessment of Terrigenous Nutrient Loading to Coastal Ecosystems Along a Human Land-Use Gradient, Tutuila, American Samoa. Hydrology, 6(1):18. 2. Mohlenkamp P, Beebe CK, McManus MA, Kawelo AH, Kotubetey K, Lopez-Guzman M, Nelson CE, Alegado RA^. (2019) Kū Hou Kuapā: Cultural Restoration Improves Water Budget and Water Quality Dynamics in Heʻeia Fishpond. Journal of Sustainability, 11(1):161 doi.org/10.3390/su11010161 3. Hynson N^, Frank K, Alegado R, Amend A, Arif M, Bennett G, Jani A, Medeiros M, Mileyko Y, Nelson C, Nguyen N, Nigro O, Prisic S, Takagi D, Wilson S, Yew J, Shin S. -
ROSANNA 'ANOLANI ALEGADO Department of Oceanography and Sea Grant College Program, University of Hawaiʻi, Mānoa Daniel K. In
ROSANNA ‘ANOLANI ALEGADO Department of Oceanography and Sea Grant College Program, University of Hawaiʻi, Mānoa Daniel K. Inouye Center for Microbial Oceanography: Research and Education 1950 East West Rd., Honolulu HI, 96822 Phone: (808) 956-0565 Email: [email protected] Website: http://alegadolab.org EDUCATION 2007 Ph.D., Microbiology & Immunology, Stanford University School of Medicine 2000 S. B. Biology, Massachusetts Institute of Technology Minor in Toxicology and Environmental Health PROFESSIONAL APPOINTMENTS 2019 - University of Hawaiʻi Mānoa, Associate Professor Department of Oceanography and Sea Grant Affiliate Faculty, Pacific Biosciences Research Center Affiliate Faculty, Water Resources Research Center Cooperating Graduate Faculty, Department of Zoology Cooperating Graduate Faculty, Department of Microbiology 2013-2019 University of Hawaiʻi Mānoa, Assistant Professor Department of Oceanography and Sea Grant 2012-2013 University of California Berkeley, Associate Specialist Department of Molecular and Cellular Biology 2007-2012 University of California Berkeley, Postdoctoral Fellow Department of Molecular and Cellular Biology, Advisor: Nicole King, Ph.D. PUBLICATIONS (* authors contributed equally, trainees, ⌃corresponding author) Peer reviewed 1. Winter K⌃, Alegado RA, Bowen B, Bremer L, Coffman M, Cypher M, Deenik J, Donahue M, Falinski K, Frank K, Franklin E, Hewitt A, Hintzen KD, Kaluhiwa L, Kawelo AH, Kekuewa K, Kotubetey K, Kukea-Shultz K, Natalie Kurashima, Lee T, Leong J-A, Lincoln N, Madin E, McManus M, Neilson B, Nelson C, Okano R, Olegario A, Oleson K, Pascua P, Price M, Reppun F, Rii Y, Rivera MA, Rodgers K, Sabine C, Smith C, Thomas W, T Ticktin T, Toonen R. (2020) Resolving pathways towards sustainable futures: A research framework for the Heʻeia National Estuarine Research Reserve. -
Ap2ix-4, a Cell Cycle Regulated Nuclear Factor, Modulates
AP2IX-4, A CELL CYCLE REGULATED NUCLEAR FACTOR, MODULATES GENE EXPRESSION DURING BRADYZOITE DEVELOPMENT IN TOXOPLASMA GONDII Sherri Y. Huang Submitted to the faculty of the University Graduate School in partial fulfillment of the requirements for the degree Doctor of Philosophy in the Department of Pharmacology & Toxicology Indiana University April 2017 Accepted by the Graduate Faculty, Indiana University, in partial fulfillment of the requirements for the degree of Doctor of Philosophy. _______________________________________ Gustavo Arrizabalaga, Ph.D., Chair _______________________________________ William J. Sullivan, Jr., Ph.D. Doctoral committee _______________________________________ Tao Lu, Ph.D. _______________________________________ Yuichiro Takagi, Ph.D. January 10, 2017 _______________________________________ Jian-Ting Zhang, Ph.D. ii ACKNOWLEDGEMENTS My journey through graduate school would not have been possible without the mentorship, friendship and support of my scientific mentors, labmates, friends and family. I would first like to thank my mentor and thesis adviser, Dr. William Sullivan Jr. Through these years, the mentorship of Dr. Sullivan has been invaluable. He has encouraged me to constantly hone my scientific communication skills and to evaluate my thoughts scientifically. He always took the time to sit down with me and review my lab presentations, posters, conference talks and my thesis dissertation. His love for microbiology is infectious, pun intended. I would also like to thank members of my thesis committee: Dr. Gustavo Arrizabalaga, Dr. Tao Lu, Dr. Yuichiro Takagi, and Dr. Jian-Ting Zhang. Their help encompassed scientific experimentation and encouragement, both invaluable to a graduate student. I especially thank them for one thesis committee during which they encouraged me to take more intellectual risks. -
7Th Conference on Beneficial Microbes
7th Conference on Beneficial Microbes July 8th-11th, 2018 University of Wisconsin-Madison Madison, Wisconsin 7th Conference on Beneficial Microbes 2018 CONFERENCE ON BENEFICIAL MICROBES July 8-11, 2018 Madison, Wisconsin Conference Co-chairs Karen Guillemin, University of Oregon Mark Mandel, University of Wisconsin-Madison Meeting Organizers Rosie Alegado, University of Hawaii Robert Britton, Baylor College of Medicine Nichole Broderick, University of Connecticut Lora Hooper, UT Southwestern Medical Center Rob Knight, University of California San Diego Eric Martens, University of Michigan Spencer Nyholm, University of Connecticut Cover Art: GFP-expressing Vibrio fischeri aggregate in ciliated fields on the surface of the Euprymna scolopes light organ (Denise Tarnowski). Video recording, audio recording, and still photography of scientific content is prohibited. We encourage sharing information from talks unless the presenter has indicated otherwise. For posters, ask the presenter's permission before sharing any information publicly. Use Twitter hastag #BeneficialMicrobesMtg For emergencies, please call (608) 228-1183 or stop by the Annex Room 7th Conference on Beneficial Microbes TABLE OF CONTENTS Sponsors…………………………………………………..iii Conference Schedule……………………………………iv Oral and Poster Presentation List……………...……..ix Oral Presentations………………………...…………..….1 Poster Presentations…………………………………...45 Author Index………………………………………….…179 Notes……………………………………………………..198 Memorial Union Building Map……………………….209 7th Conference on Beneficial Microbes Thank -
Department of Oceanography and Sea Grant College Program, University of Hawaiʻi, Mānoa Daniel K
ROSANNA ‘ANOLANI ALEGADO Department of Oceanography and Sea Grant College Program, University of Hawaiʻi, Mānoa Daniel K. Inouye Center for Microbial Oceanography: Research and Education 1950 East West Rd., Honolulu HI, 96822 Phone: (808) 956-0565 Email: [email protected] Website: http://alegadolab.org EDUCATION 2007 Ph.D., Microbiology & Immunology, Stanford University School of Medicine 2000 S. B. Biology, Massachusetts Institute of Technology Minor in Toxicology and Environmental Health PROFESSIONAL APPOINTMENTS 2013- University of Hawaiʻi Mānoa, Assistant Professor Department of Oceanography and Sea Grant College Program Cooperating Graduate Faculty, Department of Zoology Affiliate Faculty, Pacific Biosciences Research Center 2012-2013 University of California Berkeley, Associate Specialist Department of Molecular and Cellular Biology 2007-2012 University of California Berkeley, Postdoctoral Fellow Department of Molecular and Cellular Biology, Advisor: Nicole King, Ph.D. PUBLICATIONS (* authors contributed equally, trainees, ⌃corresponding author) 1. McCoy D, McManus MA, Kotubetey K, Kawelo AH, Young C, DʻAndrea B, Ruttenberg KC, Alegado RA⌃. (2017) Large-scale climatic effects on a traditional Hawaiian fishpond. PLoS One, under revision. 2. Lynch JB^ and Alegado RA^. (2017) Spheres of hope, packets of doom: The good and bad of Outer Membrane Vesicles in interspecies and ecological dynamics. Journal of Bacteriology, 17 April, doi: 10.1128/JB.0012-17. 3. Xie G, Wang X, Ji J, Zhao A, Yan J, Chen W, Jiang R, Huang F, Zhang Y, Lei S, Ge K, Zheng X, Alegado RA, Liu J, Liu P, Nicholson J, Jia W, Jia W. (2017) Sex-dependent effects on gut microbiota regulate carcinogenic outcomes. Scientific Reports, Mar 27;7:45232. -
The Ancestral Animal Genetic Toolkit Revealed by Diverse Choanoflagellate Transcriptomes
bioRxiv preprint doi: https://doi.org/10.1101/211789; this version posted December 26, 2017. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. The ancestral animal genetic toolkit revealed by diverse choanoflagellate transcriptomes Authors: Daniel J. Richter1,2, Parinaz Fozouni1,3,4, Michael B. Eisen1, Nicole King1 Author Affiliations: 1 Department of Molecular and Cell Biology and Howard Hughes Medical Institute, University of California, Berkeley, CA 94720-3200, USA 2 Sorbonne Universités, UPMC Univ Paris 06, CNRS UMR 7144, Adaptation et Diversité en Milieu Marin, Équipe EPEP, Station Biologique de Roscoff, 29680 Roscoff, France 3 Medical Scientist Training Program, Biomedical Sciences Graduate Program, University of California, San Francisco, CA 94143, USA 4 Gladstone Institutes, San Francisco, CA 94158, USA Keywords: Urmetazoan, ancestral gene content reconstruction, evolution, choanoflagellates, transcriptome, Urchoanozoan, innate immunity, extracellular matrix, RNAi Data Availability: Raw sequencing reads: NCBI BioProject PRJNA419411 (19 choanoflagellate transcriptomes), PRJNA420352 (S. rosetta polyA selection test) Transcriptome assemblies, annotations, and gene families: https://dx.doi.org/10.6084/m9.figshare.5686984 Protocols: https://dx.doi.org/10.17504/protocols.io.kwscxee 1 bioRxiv preprint doi: https://doi.org/10.1101/211789; this version posted December 26, 2017. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license.