Plant and Animal Genome Conference January 11, 2009

Overall Status of the International Tomato Sequencing Project

 Sequencing of 23 BACs completed prior to November  Sequencing activities distributed amongst 3 different companies  Since that time, 24 BACs have been competed by 454 sequencing.  University of Oklahoma Advanced Center for Genome Technology  53 additional anchored BACs have been verified and are ready to be sequenced.  FISH  Chr BACs localized  Chr BACs localized  More details will be presented by Steve Stack this afternoon.

Results from 454 Sequencing 24 BACs

Additional ordered libraries: S. cheesmanniiHindIIIpBeloBAC11100,000 clones >100kb avg. S. pennelliiHindIIIpBeloBAC11100,000 clones>100kb avg. S. lycopersicumSau3Acosmid200,000 clones20 kb avg. S. lycopersicumSau3A cosmid>100,000 clones> 20 kb avg. S. lycopersicumshearedfosmid300,000 clones40 kb avg. -OVERGO anchored markers - apx BAC-FISH hybridization/localization

 Continued support and expansion of SGN  FISH localizations  End sequencing of remaining 200,000 fosmid clones  Phase 3 sequencing of 600 BACs  Education and outreach  Breeders Toolbox  Bioinformatics Internship  Solanaceae Family goes to School

 Breeders Toolbox  Page on SGN:  Currently have links to:  Locus and phenotype databases  Markers database  Ontology browser  Breeder tools under construction  Tutorial  Online QTL analyzer  SNP discovery tool  User group for feedback  Breeders from academia and industry  13 members to date

 Bioinformatics Summer Internship  10-week program at SGN  Undergraduates (11 since 2005)  High School Students (6 since 2005) 2008 Summer Interns

 Solanaceae Family Goes to School  After school programs (2 – 3 per year)  Visits to classrooms (2 per year)  Home-schooled students (2 groups per year)  On-site at BTI  Bring your Child to Work Day – Cornell and BTI  Expanding Your Horizons (held once a year)  Develop into a resource for schools and after schools  CD  Background information on the Solanaceae  Images, coloring book, word-find puzzle, materials list  Adapt for middle school students in 2009

 SOL Newsletter  Approximately 400 people on list  Also available on SGN  Previous issues also available

 Jim Giovannoni, BTI/USDA  Lukas Mueller, Boyce Thompson Institute  Steve Stack, Colorado State University  Steve Tanksley, Cornell University  Bruce Roe, University of Oklahoma  Univ. of Oklahoma Advanced Center for Genome Technology   Medicago  Mouse  Human  Chimp  Microbial genomes