Joint Genome Institute

JGI Annual User Meeting

2006 User Meeting

All events took place in the Embassy Suites Contra Costa Ballroom unless otherwise noted.

Wednesday, March 29

Time Event
5:30-6:30 PM Registration, Welcome Reception (Embassy Suites Atrium)
6:30-8:00 PM Keynote Addresses
6:30-7:15
Prochlorococcus:  A model for systems biology
Penny Chisholm, Lee and Geraldine Martin Professor of Environmental Studies, Dept. of Biology, Massachusetts Institute of Technology 7:15-8:00
Post-Synthesis Genomics
Drew Endy, Assistant Professor, Biological Engineering Division, Massachusetts Institute of Technology

 

Thursday, March 30

Time Event
8:15-8:45 AM Arrival, Registration
8:45-9:00 AM Welcome, Introduction
Eddy Rubin, JGI Director
9:00 AM-12:00 noon Session I: Large Eukaryotic Genomics
Chair: Dan Rokhsar, JGI9:00-9:30 AM
The Xenopus tropicalis genome and its uses
Richard Harland, University of California, Berkeley9:30-10:00 AM
Plant genomics
Joe Ecker, University of California, San Diego 10:00-10:30
Poplar genome
Jerry Tuskan, Oak Ridge National Laboratory 10:30-11:00 AM
Break11:00-11:30 noon
Mimulus guttatus
John Willis, Duke University11:30-12:00
Chlamydomonas genome
Arthur Grossman, Carnegie Institution of Washington
12:00-2:00 PM Lunch,
Poster Session 1 (Embassy Suites Alameda Room)
2:00-5:00 PM Session II: Microbial Genomics
Chair: Paul Richardson, JGI2:00-2:30 PM
In-situ gene expression and genomic analysis of the Geobacteraceae
Dawn Holmes, University of Massachusetts

2:30-3:00 PM
Multiple genomes of Shewanella strains: What are we learning?
Ken Nealson, University of Southern California

3:00-3:30 PM
Postgenomic Studies in the Facultative Photosynthetic Bacterium Rhodobacter sphaeroides 2.4.1
Sam Kaplan, University of Texas Health Science Center at Houston

3:30-3:45 PM
Break

3:45-4:00 PM
The role of mismatch repair in the evolution of Oenococcus oeni
David Mills

4:00-4:30 PM
Ethanol-producing E. coli
Lonnie Ingram, University of Florida-IFAS

4:30-5:00 PM
The white rot fungus Phanerochaete chrysosporium
Dan Cullen, University of Wisconsin, Madison
5:00-5:30 PM Transportation to JGI (Buses leave from the Embassy Suites Hotel Main Entrance)
5:30-8:00 PM Reception, Poster Session 2, Tour of JGI
(JGI Conference Center)
8:00-8:30 PM Transportation from JGI to Embassy Suites

Friday, March 31

Time Event
8:30 AM-12:30 p.m. Session III: Microbial Communities
Chair: Jim Bristow, JGI8:30-9:00 AM
Phylogenetic and other approaches to binning of metagenomic sequences: Theoretical and applied issues
Jonathan Eisen

9:00-9:30 AM
A tale of two sludges
Phil Hugenholtz, JGI

9:30-10:00 AM
Microbial community genomics in the ocean: From gene ecology to systems biology
Ed DeLong, Massachusetts Institute of Technology

10:00-10:30 AM
Horizontal gene transfer in recent evolutionary history of Archaea
Rachel Whitaker, University of California, Berkeley

10:30-11:00 AM
Break

11:00-11:30 AM
Sequencing the hindgut bacterial community from a wood-feeding termite species from Costa Rica
Jared Leadbetter, California Institute of Technology

11:30 AM-12:00 PM
Bacteriophage DNA polymerases and other surprises from superheated thermal aquifers
David Mead, Lucigen

12:00-12:15 PM
Deciphering symbiosis through metagenomic analysis of the bacterial consortium
Nicole Dubilier

12:15-12:30 PM
Complete genome sequences and functional genomics of green bacteria
Don Bryant
12:30-2:00 PM Lunch, User Business Meeting
2:00-4:45 PM Session IV: Technology Development
Chair: Sue Lucas, JGI2:00-2:30 PM
Solexa technology
Gary Schroth, Solexa

2:30-3:00 PM
454 technology
Michael Egholm, 454 Life Sciences

3:00-3:30 PM
Single Molecule Sequencing of DNA and RNA
Stanley Lapidus, Helicos BioSciences

3:30-3:45 PM
Break

3:45-4:15 PM
Integrating new technologies into the JGI microbial program
Paul Richardson, JGI

4:15-4:45 PM
Informatics: Surviving the data deluge
Darren Platt, JGI

 

Saturday, April 1

Time Event
9:00 AM-1:00 PM Session V: IMG Workshop
Nikos Kyrpides
(Note: Full participation in the IMG workshop is limited to participants who registered for the workshop in advance. Others are welcome to attend and look on.)
9:00-9:30 AM
JGI microbial genome analysis pipeline
Athanasios Lykidis9:30-10:00 AM
Using IMG
Iain Anderson

10:00-10:30 AM
Using IMG/M (IMG/metagenomes)
Natalia Ivanova

10:30-10:45 AM
Break

10:45-11:00 AM
Future developments of IMG
Nikos Kyrpides

11:00 AM-11:45 PM
Hands-on IMG

11:45-12:15 PM
Discussion/feedback

12:15-1:00 PM
Hands-on IMG, continued (optional)
1:00 PM End of 2006 JGI User Meeting