Plant and Animal Genome ConferenceJanuary 11, 2009

Overall Status of the International Tomato Sequencing Project

Sequencing of 23 BACs completed prior to November 2008. 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 1 - 30 BACs localizedChr 10 - 20 BACs localizedMore details will be presented by Steve Stack this

afternoon.

Results from 454 Sequencing 24 BACs

Library Name /enzyme

Total Number ofclones

Approx number ofclones seqenced

Cloning Vector

HindIII 129024 76000 pBeloBAC11

MboI 50688 25344 pEC BAC I

EcoRI 75000 25344 pIndigoBAC-5

Sheared library N.A. 4800 PUC18-SW

Additional ordered libraries:

S. cheesmannii HindIII pBeloBAC11 100,000 clones >100kb avg.S. pennellii HindIII pBeloBAC11 100,000 clones >100kb avg.

S. lycopersicum Sau3A cosmid 200,000 clones 20 kb avg.S. lycopersicum Sau3A cosmid >100,000 clones > 20 kb avg.

S. lycopersicum sheared fosmid 300,000 clones 40 kb avg.

-OVERGO anchored markers - apx. 800

-BAC-FISH hybridization/localization - 164

300000 100000

5000075000

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 ToolboxBioinformatics InternshipSolanaceae Family goes to School

Breeders Toolbox Page on SGN:

http://www.sgn.cornell.edu/breeders/ Currently have links to:

Locus and phenotype databasesMarkers databaseOntology browser

Breeder tools under constructionTutorialOnline QTL analyzerSNP discovery tool

User group for feedbackBreeders from academia and industry13 members to date

Bioinformatics Summer Internship10-week program at SGNUndergraduates (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

schoolsCD

Background information on the Solanaceae

Images, coloring book, word-find puzzle, materials list

Adapt for middle school students in 2009

SOL NewsletterApproximately 400

people on e-mail listAlso 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 AdvancedCenter for Genome Technology http://www.genome.ou.edu/ Medicago Mouse Human Chimp Microbial genomes