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Seminars

Nov 9, 2017

portfolio 1
Mallory Embree
Gwenn Hennon

Mallory Embree - "Development of microbiome-based products to improve the health and performance of livestock"

Gwenn Hennon - "Climate change and marine microbes: a case study with two globally important bacteria"

Scripp's Institute of Oceanography
Hubb's Hall 4500

5:30pm - 6:00pm Refreshments
6:00-7:00pm Seminar
Second Thursday of every month
November 2017 through May 2018

About Our Group

The San Diego Microbiology Group (SDMG) is a graduate student-led organization that proudly represents a student and postdoctoral chapter for the American Society for Microbiology (ASM). Founded in 1996, SDMG promotes scientific and collegial interaction among microbiology researchers in San Diego and Southern California. The major focus of the group, since its inception, is to promote the communication of current microbiology research in the local scientific community through monthly evening seminars and an annual one-day symposium. SDMG affords the opportunity for microbiologists of all ages, interests, and affiliations to gather and meet others with similar interests. The meeting venue is located on the scenic campus of the Scripps Institution of Oceanography, at the University of California, San Diego.

At our well attended monthly seminars, refreshments are provided during a brief reception, followed by two 30 minute talks by prominent researchers in academia or industry. In May, a day-long research symposium is held with poster sessions and presentations scheduled throughout the day. This symposium provides a forum for young researchers to gain experience in public presentation, as well as giving opportunities for research groups to advertise their programs. Previous symposium topics have spanned a wide range of microbiological research, including topics such as: mechanisms of virulence and mutualism, HIV integration, protein export, bacterial development, DNA recombination, viral vectors for human gene therapy, genomics for novel enzyme and natural products discovery, environmental viral diversity, bioremediation and methane production and consumption.

Speakers frequently come from local institutions such as UCSD, SDSU, The Salk Institute, and The Scripps Research Institute. A number of local biotechnology companies (Diversa, Invitrogen, Dow, Anadys and Johnson & Johnson Pharmaceutical Research and Development) have previously provided speakers, and distinguished speakers have also come from across the United States and northern California, as well as from Europe.

Committee Members

Faculty Advisors

Kit Pogliano
Doug Bartlett
Elio Schaechter

Graduate Students

General Committee

Mizu Ota
Eammon Riley
Logan Peoples
Leo Baumgart
Jacy Humphries
Anupriya Tripathi
Lisa Marotz
Robert Mills
Andy Ryan
Alison Vrbanac


List of Previous Speakers (December 2005 - May 2016)
View/Hide All


December 2005
"Discovery of Novel Antibacterial Translation Inhibitors"
Dan Wall, Anadys Pharmaceuticals, Inc.

"Use of constraint-based modeling of metabolism for antimicrobial
Research"
John Trawick, Genomatica, Inc.

"Targeted antisense as a tool for antibiotic development against the
MurB loci of Bacillus anthracis"
Robert Haselback, RX3 Pharmaceuticals, Inc

January 2006
"Invertebrate-Microbe Interactions: Innovation Through Symbiosis"
Shana Goffredi, Dept. of Env. Sci. and Eng,, California Institute Of Technology

"Exploring Microscale Variations In Diversity,Physiology, And Community Dynamics Within Methane based Marine Ecosystems"
Victoria J. Orphan, Division Of Geological And Planetary Sciences, California Institute Of Technology

February 2006
"Antibiotic Resistance: A Serious Public Health Threat. Mechanisms, Dissemination, and Strategies to Deal With The Problem"
Marcelo E. Tolmasky, Ph.D., Department Of Biological Science, California State University Fullerton

"Seasonal Changes in Microbial Community Structure and Growth Kinetics:
Trade-Off between Growth Rate and Yield"
David Lipson, Ph.D., Department Of Biology, San Diego State University

March 2006
"Strep and Staph vs. Our Innate Immunity: Daily Exercises In Biological
Warfare"
Victor Nizet, M.D., Division of Pediatric Infectious Diseases, School of Medicine, UCSD

"Immunity In Trichomoniasis"
Lynette Corbeil, Ph.D., Department of Pathology, School of Medicine, UCSD

April 2006
"The Cell Biology of the Bacterial Cytoskeleton and Its Role in Segregation"
Joe Pogliano, Assistant Professor, Division of Biological Sciences, UCSD

"Intestinal Defenses Against Epithelial-Adherent Pathogens"
Lars Eckmann, Assistant Professor, Moores Cancer Center, School of Medicine, UCSD

May 2006 Symposium
9:30
Phylogenetic Prediction of Gene Function: Holes in Porin Protein Annotation. Scott Kelley, SDSU

9:45
Multiple Histidine Kinases Regulate Encystment in Rhodospirillum centenum. Terry H. Bird, Univ. of San Diego

10:00
Group A Streptococcus Escapes Neutrophil Extracellular Traps. Amelia Simpson, John T. Buchanan, Ramy K. Aziz, George Y. Liu, Sascha A. Kristian, Malak Kobt, James Feramisco, and Victor Nizet, UCSD School of Medicine

10:15
Microbial Ecology in Biosecure Shrimp Aquaculture. Feed-Shrimp-Microbe Interactions. C. Beardsley, S.M. Moss, and F. Azam. Scripps Institution of Oceanography

10:30
Streptolysin S is required for Streptococcus iniae infection in fish. Jeffrey B. Locke (SIO), Kelly M. Colvin (Kent SeaTech Corp), Mike R. Vicknair (Kent SeaTech Corp), Victor Nizet (UCSD School of Medicine), and John T. Buchanan (UCSD School of Medicine)


10:45
Coral disease prevalence across a gradient of human disturbance. Elizabeth Dinsdale, Dept. of Marine Biology and Aquaculture, James Cook University, Australia. (Currently in the Rohwer Lab, SDSU)

11:00
Experimental Infection of Anopheles darlingi Mosquitoes by Plasmodium vivax from Naturally Infected Patients in the Peruvian Amazon. Ajoy R. Bharti, Raul Chuquiyauri, Kimberly C. Brouwer, Jeffrey Stancil, Jessica Lin, Victor Lopez, Alejandro Llanos-Cuentas, and Joseph M. Vinetz, UCSD School of Medicine

11:15
Serum Opacity Factor Promotes Group A Streptococcal Epithelial Cell Invasion and Virulence. Anjuli M. Timmer, Sascha A. Kristian, Vivekanand Datta, Arthur Jeng, Christine M. Gillen, Mark J. Walker, Bernard Beall, and Victor Nizet. UCSD School of Medicine

11:30
Characterization of RALP3, a transcriptional regulator of virulence factors in Group A Streptococcus. Laura A. Kwinn, Arya Khosravi, Ramy K. Aziz, Malak Kotb, Kelly S. Doran, Victor Nizet, UCSD School of Medicine

1:00 PM
KEYNOTE Presentation
Melvin Simon, Biology Dept., Cal Tech and Pharmacology Dept, UCSD. Flagella and chemotaxis: 40 years later there is still much to learn


Afternoon Talks
2:00
Regulation of the Essential YycFG Two-Component Signal Transduction System in B. subtilis by Two Novel Proteins. Hendrik Szurmant, Michael A. Mohan & James A. Hoch, The Scripps Research Institute

2:15
The Mn(II) oxidase of Erythrobacter sp. SD21. Hope A. Johnson and Bradley M. Tebo. Scripps Institution of Oceanography

2:30
Evolution of the Mosaic Bacterial Phosphotransferase System. Milton Saier, UCSD Biology.

2:45
Holliday junction-trapping peptides are antimicrobial agents that cause double strand breaks. Carl W. Gunderson and Anca M. Segall, SDSU

3:00
In vivo targets of antimicrobial peptides that trap Holliday junctions. N. Radosevich and A. Segall, SDSU

3:15
A Novel Mechanism of Gene Activation by IS5. Zhongge Zhang, UCSD Biology (Saier lab).

3:30
Survey of the genetics of an Escherichia coli strain that carries an editing-defective isoleucyl-tRNA synthetase. Jamie M. Bacher and Paul Schimmel, The Scripps Research Institute

3:45
How does SpoIIIE assemble on one side of the septum during Bacillus subtilis sporulation? Investigations into the asymmetric assembly of SpoIIIE. Eric Becker and Kit Pogliano, UCSD Biology

September 2006
"Programmed Cell Death as a Bacterial Developmental Phenomenon"
Hanna Engelberg-Kulka, Hebrew University, Jerusalem

"Hepatitis C Virus: Endoplasmic Reticulum to Nucleus Signal
Transduction"
Aleem Siddiqui, School of Medicine, UC San Diego

October 2006
"Studying HIV-1 infection at the single cell level"
Roland Wolkowicz, Biology Department, SDSU.

"Microbial genomes fresh from the environment – certified cultivation-free!"
Eric Allen, Scripps Institute of Oceanography, UCSD.

November 2006
"A Bacterial Synapse That Governs Developmental Decisions During Sporulation"
Kit Pogliano, Ph.D., UC San Diego

"DNA Repair, A Novel Target For Antibiotics: From Basic Research To Not-Quite-Preclinical Studies"
Anca Segall, Ph.D. San Diego State University

January 2007
"Environmental virus-host interactions: From the atmosphere to the deep-sea"
Shannon Williamson, Ph.D., J. Craig Venter Institute, San Diego

"Viral Water Quality, Indicators and Risk Assessment for Bathing in Coastal Waters"
Rick Gersberg, Ph.D., San Diego State University

February 2007
"Making the World Safe for Striped Bass: Use of Bacteriophages for Control of Infection in Fish"
John Buchanan, Kent SeaTech Corp, San Diego

"Marine Microbes and Global Habitability"
Farook Azam, Scripps Institute of Oceanography, UC San Diego

March 2007
"A Genome Here, A Genome There: Sequencing all Cultured Bacteria and Archaea"
Rob Edwards, San Diego State University

"Novel Cloning and Protein Expression Technologies"
Federico Katzen, Research Scientist, Invitrogen Corporation

April 2007
"Synthesis of the Silicified Cell Wall of Diatoms: Structures, Proteins, and Genes"
Mark Hildebrand, Scripps Institute of Oceanography, UC San Diego.

"Antimicrobial Peptides"
Richard Gallo, School of Medicine, UC San Diego

May 2007 Symposium
8:30. Ribosomal antitermination and fast bacterial growth. Stefan Klumpp and Terry Hwa. Center for Theoretical Biological Physics, UCSD

8:45. A tool for reliable protein localization: Transposable GFP and the localization of MinC fusions in Bacillus subtilis. James Gregory, Eric Becker, Kit Pogliano. Division of Biological Science, UCSD

9:00. Indole Acts as a Signaling Molecule in Vibrio cholerae. Ryan Mueller1, Sinem Beyhan2, Fitnat Yildiz2, Doug Bartlett1. 1UCSD, SIO-Marine Biology Research Division, 2Univ. of California, Santa Cruz Dept. of Environmental Toxicology

9:15. Culturing non-adherent bacteria and yeast in microfluidic devices. Alex Groisman, Physics Dept., UCSD

9:30. Chromosomal Rearrangements in Host-specific Serovars of Salmonella enterica. Dave Matthews and Stanley Maloy. Center for Microbial Sciences, SDSU

9:45. A peptide that targets DNA repair intermediates in vitro inhibits Salmonella growth in murine macrophages. Leo Su and Anca M. Segall. Center for Microbial Sciences, SDSU

10:00. Bacterial actins involved in plasmid DNA segregation in Bacillus subtilis. N. Herrera and J. Pogliano. Biology Division, UCSD

10:45. Quantitative characteristics of gene regulation by small RNA. Erel Levine(1), Thomas Kuhlman1, Zhongge Zhang2, and Terence Hwa1. 1Center for Theoretical Biological Physics and 2Division of Biological Sciences, UCSD

11:00. Using GoogleRanks(tm) for Phage Phylogeny. Annalinda Arroyo, Kristen Mecadon, Rob Edwards, Forest Rowher, Peter Salamon. Mathematics & Statistics Dept, SDSU

11:15. Metabolic fingerprints of 49 microbial and 38 viral communities from eight distinctive environs. Elizabeth Dinsdale, Center for Microbial Sciences, SDSU

11:30. Phage-host relationships in temperate and extreme soil ecosystems. Kurt Williamson. Environmental Genomics Group. J. Craig Venter Institute. The Center for Advancement of Genomics

11:45. Evidence for the role of ECF sigma factors (?E, ?54) in the regulation of manganese(II) oxidation in Pseudomonas putida strain GB-1. James K. McCarthy1, Thanh V. Ngo1 and Bradley M. Tebo2. 1Scripps Institution of Oceanography, UCSD, 2Dept. of Environmental and Biomolecular Systems, Oregon Health Sciences Univ., Portland OR.

PLENARY TALK
1:00-1:45. Genetics of Innate Immunity in Valley Fever. Joshua Fierer, Division of Infectious Diseases, School of Medicine, UCSD

1:45. Interactions of group B Streptococcus with human CD33-related-Siglecs: Implications for bacterial recognition by the human innate immune system.Aaron F. Carlin, Amanda Lewis, Nancy Hurtado-Ziola, Charles King, Thomas Areschoug, Gunnar Lindahl, Nissi Varki, Ajit Varki, and Victor Nizet. UCSD School of Medicine.

2:00. Group A Streptococcal induction of macrophage apoptosis. Anjuli M. Timmer, John C. Timmer, Li-Chung Hsu, Michael Karin, Guy S. Salvesen, and Victor Nizet. UCSD School of Medicine

2:15. Helicobacter pylori interaction with a cell survival pathway. Marrygoret Obonyo, UCSD Moores Cancer Center

2:30. Discovery of a novel toxin from Vibrio cholerae. Alexandra E. Purdy*, Robert Fieldhouse^, A. Rod Merrill^, and Douglas H. Bartlett*, *Scripps Institution of Oceanography, UCSD, ^Dept. of Molecular and Cellular Biology, Univ. of Guelph, Ontario, Canada

3:30. A pipeline to automate TCDB updating. Biology Division. SanMay Das, UCSD (Saier lab)

3:45. Approaches to Functional Annotation of Thermotoga maritima proteins. Hope A. Johnson and Scott A. Lesley. Joint Center for Structural Genomics, The Scripps Research Institute

4:00- 4:30. IS5-mediated adaptive mutation in E coli. Milton Saier and Zhongge Zhang: Biology Division, UCSD
September 2007
"Coxsackieviruses, Neural Stem Cells, and CNS Disease"
Ralph Feuer. Biology Dept., SDSU

"Waking the Dead: Human Trim5alpha restriction of an extinct retrovirus"
Shari Kaiser. Molec. and Cell. Biol. Program, Univ. of Wash. Seattle

October 2007
"Hot springs genomics"
Scott Kelley, Ph.D., Dept. of Biology, San Diego State University

"Systems biology of malaria"
Elizabeth Winzeler, Ph.D., Genomics Institute of the Novartis Research Foundation, Dept. Cell Biology, The Scripps Research Institute

November 2007
"Crystal structure of the E. coli maltose transporter”
Jue Chen, PhD (Dept of Biological Science, Purdue U.

"Structural analysis of an ABC Transporter from H. influenzae."
Heather Pinkett, PhD (Broad Center for Biological Sci. Caltech)

"Crystal structure of the ABC transporter- binding protein complex BtuCD BtuF: new insights into the transport mechanism."
Rikki Nors Hvorup (Inst. of Molec. Biol. and Biophysics, Federal Technical Institute (ETH), Zurich, Switzerland)

January 2008
SOM Novel antivirals for hepatitis C: progress and pitfalls.
David Wyles (UCSD)

Biophysical Studies of Virus Particles and their Maturation: Insights into Elegantly Programmed Nanomachines
Jack Johnson (Dept. Molec. Biol. TSRI)

February 2008
Bacterial cytoskeletal proteins
Joe Pogliano UCSD.

X-ray structure of EmrE supports dual topology model
Yen-Ju Chen TSRI.

March 2008
"Engineered Genetic Clocks"
Jeff Hasty. Bioengineering UCSD.

"The fate of bacterial class-one adenylate cyclase"
Martine Crasnier-Mednansky. Mednansky Institute, Pine Valley.

April 2008
"Positional Scanning Libraries: From T-cell specificity to in vivo drug discovery"
Dr. Clemencia Pinilla Torrey Pines Institute for Molecular Studies

"Coenzyme A and Secondary Metabolism"
Dr. Mike Burkart UCSD, Dept. of Chemistry and Biochemistry

May 2008 Symposium
10:00-10:15
Nina M. van Sorge1, Celia Ebrahimi2, Mojgan Sabet3, Donald G. Guiney3, Kelly S. Doran1,2 1UCSD School of Medicine, 2San Diego State University. Anthrax Toxins Prevent the Induction of Neutrophil Signaling Pathways in Brain Microvascular Endothelial Cells

10:15-10:30
Amanda Lewis, Nolan Desa, Jessica Riccaldi, Joe Vinetz, Victor Nizet, Ajit Varki. UCSD School of Medicine. Evolution of Sialic Acid Mimicry by Horizontal Gene Transfer

10:30-10:45
Kevin Penn , Paul Jensen, Caroline Jenkins, Eric Allen, Sheila Podell, Dan Udwary, Bradley Moore. Scripps Institution of Oceanography. Comparative Genomics of Two Obligate Marine Actinobacteria

12:30-1:30
Kenneth Nealson, Wrigley Professor of Geobiology, Department of Earth Sciences, University of Southern California. Searching For Life In The Universe: Clues From Our Own Planet

1:30-1:45
Stefan Klumpp, Pohan Lee, Xin Liu, Zhongge Zhang, Terence Hwa. Physics Dept., UCSD. Growth-rate dependent effects on bacterial gene expression

1:45-2:00
Samantha S. Orchard* and Anca M. Segall. San Diego State University. Enterobactin Uptake Mutants Are Hypersensitive To An Antimicrobial Peptide

2:00--2:15
C. Stathopoulos, Y.T. Yen, M. C. Tsang, T.A. Cameron, and D.A. Ankrah
Department of Biological Sciences, California State Polytechnic University, Pomona, CA. Autotransporter Secretion: Role of Conserved Motifs in the C-terminal Translocator of the SPATE Autotransporters

2:15-2:30
Elizabeth Dinsdale, R.A. Edwards, D. Hall, F. Rohwer. San Diego State University. Functional Metagenomic Profiling of Nine Biomes: a viral focus.

September 2008
Bacillus anthracis in the brain: A bug undercover
Kelly Doran, SDSU.

Type III Secretion of the Salmonella Virulence Protein SpvB
Don Guiney, UCSD School of Medicine.

October 2008
"If dead bacteria could speak! Transcriptional reprogramming of survivors and victims of the host response."
Dr. Ramy Aziz San Diego State University, San Diego, CA and Argonne National
Laboratory, Argonne, IL


"(Un)intended consequences of envelope stress in bacteria"
Dr. Anca Segall, Department of Biology, San Diego State University

November 2008
Molecular mechanisms regulating anthrax toxin gene expression.
Jim Hoch, The Scripps Research Institute.

Giardia, why you hate it and we love it.
Frances Gillin, UCSD School of Medicine.

January 2009
Exploring bacteriophage structure and assembly, and mechanisms of genome release
Tim Baker, Ph.D. Cryoelectron Microscopy, UCSD

Mechanosensitive channels
Ian Booth, Ph.D. Institute of Medical Sciences, University of Aberdeen, United Kingdom

February 2009
Virtual, chemical and brute-force genetics of malaria.
Elizabeth Winzeler, PhD Genome Novartis Foundation.

Regeneration in the freshwater planarian Schmidtea mediterranea
Ricardo Zayas, PhD Department of Biology at SDSU.

March 2009
How bacteria tell time.
Susan Golden, Ph.D. Department of Biology, UCSD.

Host/Pathogen interactions in Caenorhabditis elegans
Emily Troemel, Ph.D. Department of Biology, UCSD.

April 2009
Cyanobacterial Heterocyst Development
Jim Golden, Dept. of Biology, UCSD.

Pushing the limits of visible optics to discern the size and shape of sub micron particles
Jules Jaffe, Scripps Institution of Oceanography.

May 2009 Symposium
9:00-9:10. The structure of ytaA from Bacillus subtilis: a spore coat protein and a kinase. Eric Scheeff and Gerard Manning, Salk Institute and Newman Center for Bioinformatics

9:15-9:25.Dynamic actin-like proteins in bacteria. Joe Pogliano, Div. Biol. Sciences, UCSD

9:30-9:40. Cell surface architecture of pelagic marine bacteria is significant in bacteria-organic-matter interactions: an atomic force microscopy study. Malfatti , F. and Azam, F., Scripps Institution of Oceanography, UCSD

9:45-9:55. A novel class of modular transporters for vitamins in prokaryotes. Dmitry Rodionov, Burnham Institute

10:00-10:10. Nitrate reduction by Desulfovibrio desulfuricans. Angeliki Marietou and Jeff Cole, Univ. of Birmingham, UK (Bartlett lab, SIO)

10-15-10:25. What does F do to HCV? Breeann Kirby, Aleksandr Stotland, and Roland Wolkowicz. Biology Dept. SDSU

1:00-1:50. PLENARY SESSION. Grant Jensen, Cal Tech. How electron cryotomography is opening a new window into bacterial ultrastructure

2:00-2:10. Viruses of the oxygen minimum zone off Iquique, Chile. Elizabeth Dinsdale, Biology Dept., SDSU

2:15-2:25. Targeting NAD biosynthesis in bacterial pathogens. Leonardo Sorci, Burnham Institute

2: 45-2:55. APIS: Tool for phylogenetic classification of genomes and metagenomes. Jonathan Badger, Lisa Zeigler, Andy Allen, and Jonathan Eisen. J. Craig Venter Institute and Univ. of California, Davis

3:00-3:10. Stability of a multiresistance plasmid: a Xer site that is regulated by the osmotic pressure of the environment. Marcelo E. Tolmasky, Dept,. Biol. Science, Cal State Fullerton

3:30- 3:40. Thermotoga maritima's TrkA Potassium Transporter - from frameshift to function. Hope A. Johnson1,2, Glen Spraggon3, Marc Deller2, Eric Hampton3, and Scott A. Lesley2,3 - 1 California State University, Fullerton, 2 Joint Center for Structural Genomics, The Scripps Research Institute, 3 Genomics Institute of the Novartis Research Foundation.

3:45-4:00. Which is the most successful gene in nature? Ramy Karam Aziz and Rob Edwards. Dept. Computer Sciences, SDSU

September 2009
"Regulation of ethanolamine utilization in Enterococcus faecalis"
Marta Perego, Department of Molecular and Experimental Medicine, The Scripps Research Institute.

"Marine Microbes in ocean and human health"
Farooq Azam, Scripps Institute of Oceanography, Marine Biology Research Division.

October 2009
"A Two-component Signaling Pathway at the Root of the Sinorhizobium-legume Symbiosis"
Esther Chen, Dept. of Biological Science, CSU Fullerton

"Development of a Novel Spore-based Vaccine for Anthrax"
Don Guiney, UCSD School of Medicine

November 2009
"The quest for understanding fungal morphogenesis"
Salomon Bartnicki-Garcia Centro de Investigaci?n Cientifica y de Educaci?n Superior de Ensenada (CICESE), Ensenada, Baja California.
"High throughput functional genomics studies in fungi"
Katherine Borkovich, UC Riverside.

January 2010
"Experimental-guided genome annotation and elucidation of the transcription unit architecture of bacterial genomes."
Karsten Zengler, Ph.D. Systems Biology Research Group, UC San Diego

"I opened the window and influenza"
Bob Liddington, Ph.D. Burnham Institute for Medical Research.

February 2010
"Bacterial DNA replication: from beginning to end."
David Sherratt, PhD, Dept Biochemistry, University of Oxford

"Integrated Genomic Reconstruction of Metabolic and Regulatory Networks in Bacteria"
Andrei Osterman, PhD, Bioinformatics & Systems Biology, Sanford-Burnham Institute for Medical Research.

March 2010
"Mechanisms of Long-Term Survival and Evolution in Bacteria"
Steve Finkel Molecular and Computational Biology, USC.

"Antibiotic resistance genes as emerging contaminants in California's coastal environment."
David Cummings Biology Dept. Point Loma Nazarene University.

April 2010
"From iron oxides to infections: roles for redox-active antibiotics in microbial survival and development"
Diane Newman, Caltech Biology Dept.

"Life in the Trenches"
Doug Bartlett, Scripps Institution of Oceanography, UCSD,

May 2010 Symposium
10:00-10:15. SpoIID-mediated peptidoglycan degradation is required throughout engulfment during Bacillus subtilis sporulation. Jennifer Gutierrez, Rachelle Smith, and Kit Pogliano Division of Biological Sciences, University of California, San Diego

10:15-10:30. Next generation DNA assembly tools. Billyana Tsvetanova, Lansha Peng, Ke Li, Xiquan Liang, Tony Ho, Wieslaw Kudlicki, Todd Peterson, and Federico Katzen
Life Technologies, 5791 Van Allen Way, Carlsbad, CA 9200.

10-30-10:45. Metagenomic analysis of skin-associate shark microbes and viruses. Doherty, M.1, Busch J. 1, N. Cassman1, Lewis, C. 1, K. Barott1, J. Caselle2, A. Frielander3, M. Hatay1, A. Prieto-Dav?1, F. Rohwer1, S. Sandin4, B. Zgliczynski4, and E. A. Dinsdale1 Biology Dept. San Diego State University. 1Marine Science Institute, University of California, Santa Barbara, Department of Zoology, University of Hawaii, , Scripps Institute of Oceanography,

10:45-11:00. Histophilus somni IbpA DR2/Fic disrupts the natural host alveolar epithelial barrier. Bereket Zekarias, Seema Mattoo1, Carolyn Worby, Jason Lehmann, Ricardo, Rosenbusch and Lynette Corbeil. UCSD, SOM, Dept. Pathology.

11:00-11:15. Exploring Mycobacteriophage diversity in Southern California. Payal Desai, Mahathee Chetlapalli, Anne Lamsa, Joe Pogliano, Kit Pogliano. University of California San Diego

12:00 Remarks on the History of Marine Microbiology at SIO. Aristides Yayanos. Scripps Institution of Oceanography

12:15 Where is Marine Microbiology Going? Farooq Azam. Scripps Institution of Oceanography

12:35 Presentation of the plaque to SIO by ASM President Roberto Kolter to Dr. Tony Haymet, Director of Scripps Institution of Oceanography

2:00-2:15. Microbial carbon mineralization in the marine system - a proteogenomic view. R. Rabus. Max Planck Institute for Marine Microbiology, Bremen, Germany.

2:15-2:30. Dynamic Interactions Among Coral-Associated Bacteria Exposed to Fish Farm Effluent. Melissa Garren, SIO; Laurie Raymundo, University of Guam; James Guest, National University of Singapore; Drew Harvell, Cornell University; Farooq Azam, SIO

2:30-2:45. Microdiversity Within the Marine Obligate Genus Salinispora. Kelle C. Freel and Paul R. Jensen. Center for Marine Biotechnology and Biomedicine, SIO

2:45-3:00. Influence of evolutionary history and host-plant chemistry on the flea-beetle gut microbiome. Scott Kelley, SDSU Biology Dept. and Susanne Dobler, University of Hamburg

3:00-3:15. Fic-mediated Adenylylation - a new post-translational modification to regulate cell signaling. Seema Mattoo, HHMI/Department of Pharmacology, SOM, UCSD

September 2010
"Drug Discovery for Amebiasis"
Sharon Reed. School of Medicine; University of California, San Diego.

"An Easy Romp Through the Protists"
Moselio Schaechter, San Diego State University and University of California, San Diego.

October 2010
"Endosymbionts of Drosophila"
Therese Markow, Ph.D. Section of Cell and Developmental Biology, UCSD -

"Staphylococcus aureus and MRSA in the Water and Sand of Three SoCal Beaches"
Kelly Goodwin. Ph.D. - AOML Environmental Microbiology Laboratory, NOAA

November 2010
"From iron oxides to infections: new roles for redox active antibiotics."
Dianne Newman, PhD.- Depts of Biology and Geological and Planetary Sciences, Cal Tech

"A Stochastic Pulse Frequency Encoding Circuit in Bacteria"
James Locke, PhD. - Division of Biology, Cal Tech

December 2010
"Industrial Biotechnology in Commercial Facilities"
Stanley Bower, PhD Synthetic Genomics

"Sustainable Chemicals through Biotechnology: 1,4-Butanediol"
John Trawick, PhD Genomatica

January 2011
"Implications of acquired bacterial immunity against oral viruses in human subjects"
David Pride, PhD, MD - Dept. of Pathology, School of Medicine-UCSD

"A Brief History of the HIV Epidemic"
J. Allen McCutchan, MD, MSc - UCSD Antiviral Research Center and HIV
Neurobehavioral Research Center, School of Medicine-UCSD

February 2011
"Propagating and engineering whole bacterial genomes in yeast"
Hamilton Smith, Scientific Director Synthetic Biology and Bioenergy, Distinguished Professor

March 2011
"Population biology of Borrelia burgdorferi in nature"
Alan Barbour, M.D. - UC Irvine, Microbiology & Molecular Genetics

"Metal withholding responses during Salmonella infection"
Manuela Rafatellu, M.D. - UC Irvine, Microbiology & Molecular Genetics

April 2011
"Alkaline phosphatase and its regulation of the gut microbiota"
Jose Luis Millon, Ph.D. Sanford Children's Health Research Center

"Evolution of bacterial aging"
Lin Chao, Ph.D. Scripps Institution of Oceanography

May 2011 Symposium
PLENARY TALK 1:00-2:00
IMMUNITY: THE CAUSE OF ITS OWN NECESSITY
Stephen M Hedrick, PhD Molecular Biology Dept., UC San Diego

September 2011
"Cancer Stem Cells: Lessons from Glioblastomas"
Inder Verma, Ph.D., The Salk Institute

October 2011
"Microbial trace fossils in volcanic rocks: can we reconcile microbiological laboratory science with geological data?"
Herbert Staudigel, Ph.D. Scripps Institution of Oceanography

"Do phage need a cytoskeleton for lytic growth?"
Joe Pogliano, Ph.D. Division of Biological Sciences, UC San Diego

November 2011
Streptococcal pili: not your average appendage?
Kelly Doran, Ph.D. San Diego State University

"Stability of multiresistance plasmids. The more we learn the less we know?"
Marcelo Tolmasky, Ph.D.California State University Fullerton

December 2011
Evolution of new infectious diseases: Reservoirs of virulence genes in the environment
Stanley Maloy, PhD (San Diego State University)

Unraveling the circuitry of the soil: microbially-mediated redox cycling of Fe and humic substances in an Arctic ecosystem
David Lipson, PhD (San Diego State University).

January 2012
Focusing in on microbial biofilms from single cells to complex multi-species communities
Jeff McLean, Ph.D. (J. Craig Venter Institute)

Tales from the crypts: Vibrio fischeri metabolism and persistence in the squid light organ
Edward (Ned) Ruby, Ph.D. (University of Wisconsin)

February 2012
Bacteria That Disrespect Phagocytes
Victor Nizet, M.D. (School of Medicine, UCSD)

Bacterial pore-forming proteins as therapeutics
Raffi Aroian, PhD (Section of Cell and Developmental Biology, UCSD),

March 2012
Genomic analysis reveals diversity among Acinetobacter baumannii isolates from a single hospital outbreak.
Mark D. Adams, PhD (Scientific Director, J. Craig Venter Institute)

Resource and consumer control of aquatic microbial communities in a warmer world
Jonathan Shurin, PhD (Div. of Biological Sciences, Ecology, Behavior, & Evolution Section, UCSD)

April 2012
Designing vaccines: How follicular helper CD4 T cells control antibody responses.
Shane Crotty, PhD (Center for Infectious Disease, La Jolla Institute for Allergy & Immunology)

Understanding Host-Pathogen Interactions using Systems Biology.
Sumit Chandra (Infectious & Inflammatory Disease Center, Sanford-Burnham Institute for Medical Research)

June 2012 Symposium
11:00-11:30 Expedition Report. Exploring Microbial Diversity Beyond the Abyss with James Cameron's DEEPSEA CHALLENGE Expedition. Doug Bartlett. SIO, UCSD.

1:00-2:00 Plenary Lecture. Chance and Necessity: Mechanisms and Evolutionary Dynamics of Burkholderia Pathogenesis. Jeff Miller, Dept. of Microbiology, Immunology, and Molecular Genetics. UCLA.

October 2012
Microbial Diversity in the Blue Amazon
Fabiano Lopes Thompson, PhD (Federal University of Rio de Janeiro, Brazil)

Bacteriophage on Mucus: Hired Killers of the Innate Immune System
Jeremy Barr, PhD (San Diego State University)

November 2012
Cell-size control of E. coli at the single-cell level
Suckjoon Jun, PhD (UCSD Department of Biophysics)

Assembly-driven metagenomics of a hypersaline microbial ecosystem
Eric Allen, PhD (UCSD SIO)

February 2013
Targeting MyD88 signaling in Helicobacter-induced gastric cancer.
Marygorret Obonyo, UCSD
LInking cystic fibrosis microbial community sequence data with breath gas metabolites reveals active Streptococcus spp. 2,3-butanedione biosynthesis
Katrine Whiteson, SDSU

March 2013
Grazing and the cyanobacterial cell surface
Bianca Brahamsha, SIO

Mutation hotspots in E. coli
Sue Lovett, Brandeis University

April 2013
Protecting cyanobacteria from amoebal predators
Ryan Simkovsky, UCSD

Quantitative transcription analysis of C. immitis Mycelia and Spherules
Theo Kirkland, UCSD

May 2013 Symposium
Keynote speaker
Drew Endy, Department of Bioengineering, Stanford University
"Aliens, Computers, and the Bioeconomy"

October 2013
Insights from single cell and colony dynamics
Gurol Suel, UCSD

Marine bacteria: a resource for natural product drug discovery
Paul Jensen, SIO

November 2013
Filaments on the move - how can a bacterial actin-like protein generate rod
cell shape?
Peter Graumann, University of Marburg, Germany

Coral reefs and interactions with microbes
Forest Rohwer, San Diego State University

January 2014
tRNA modification: new targets for antibiotics and biocatalysis
Manal Swairjo, PhD (Western University of Health Sciences, Pomona, CA)

Bacterial infections: no longer unfazed by antibiotics
Marcelo Tolmasky, PhD (CSU Fullerton)

February 2014
Did phage play a key role in the evolution of the first eukaryote?
Joe Pogliano, UCSD

Illuminating viral dark matter
Anca Segall, SDSU

November 2014
Tales of Microbes
Elio Schaecter, UCSD, SDSU

The Cell Wall Carbohydrate of Group A Streptococcus Is a Virulence Factor and Vaccine Candidate
Jason Cole, Department of Pediatrics, UCSD

December 2014
The Intestinal Microbiota Protect against Infection and Inflammation Induced Pathology
Janelle Ayres (Salk

Evolution of a Virus to Exploit a Novel Receptor
Justin Meyer (UCSD)

January 2015
Cell Size Maintenance: Universal Strategy Revealed
Suckjoon Jun (UCSD)

Programming Biological Operating Systems
Daniel Gibson (JCVI)

February 2015
"Mucosal defenses against Giardia: How to fight an enemy outside the body boundaries"
Lars Eckmann (UCSD Department of Medicine0

"Redox gradients structure microbial communities in Arctic wet tundra soils"
David Lipson (SDSU)

March 2015
"Adaptive laboratory evolution: It's practice and novel results"
Bernhard Palsson (UCSD)

"Phage lysis: still not the hole story"
Ry Young (Texas A&M University)

April 2015
"The applications of Meta-omics and an in vitro biofilm model system for understanding health and disease states of the human oral microbiome?
Anna Edlund (JCVI)

“Microbial fuel cells: A bridge between fundamental and applied microbiology"
Orianna Bretschger (JCVI)

May 2015
"Core genomes of cosmopolitan marine microbes"
Chris Dupont (SDSU)

"Phage and Sharks: Why you shouldn't mess with the top predators?
Forest Rohwer (JCVI)

March 2016
"Horizontal gene transfer in cheese"
Rachel Dutton (UCSD)

“Evolution of host immunity to pathogens"
Matt Dougherty (UCSD)

April 2016
"Longitudinal time series reveals abrupt changes in the human gut microbiome ecology"
Larry Smarr (UCSD)

May 2016
"Flow and mixing exert a dominant effect on the composition of gut microbiota"
Terry Hwa (UCSD)

"Playing Chess with a Methanotroph: Sicilian Defense of C1-Metabolism"
Marina Kalyuzhnaya (SDSU):

Contact us

Brian Tsu (Webmaster): bvtsu at ucsd.edu

John Trawick (Mailing list administrator): jtrawick at genomatica.com

Brooke Anderson (Speaker inquiries): beanders at ucsd.edu

Hannah Tsunemoto (Sponsorship): htsunemo at ucsd.edu

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