International Tomato Genome Sequencing Project
- 1,069 full-length phase htgs3 BACs were integrated
- 11Mb of contig gaps were removed
Optical map validation:
- Chr00 contigs were integrated in Chr02 and Chr09
- 3 inversions were corrected in chr 12 and chr 3
- 19 gaps were resized using optical maps
- 30,868 genes in ITAG3.20
- 20,766 genes were updated using extensive RNAseq data
- 4,900 novel genes are reported
- User curated functional annotations assigned to 2,300 genes
The tomato genome was published in Nature on May 31, 2012, culminating years of work by the Tomato Genome Consortium, a multi-national team of scientists from 14 countries.
China | Germany | Max Planck | Helmholtz | Israel | Japan | Korea | Spain | United Kingdom | The Netherlands | USA: University of Oklahoma | Colorado State University | Boyce Thompson Institute
The Tomato Genome in the News
|Data release policy|
The International Tomato Genome Sequencing Project was begun in 2004 by an international consortium including participants from Korea, China, the United Kingdom, India, the Netherlands, France, Japan, Spain, Italy and the United States. The initial approach was to sequence only the euchromatic sequence using a BAC-by-BAC approach, and in total more than 1,200 BACs have been sequenced. In 2009, a complementary whole-genome shotgun approach was initiated, which in conjunction with other data yielded high quality assemblies. The International Tomato Annotation Group (ITAG) annotates the genome builds generated by this combined sequencing approach.
|Official annotation||browse genome contigs and official annotations|
|Tomato genome sequence builds|
|Other tomato genome pages on SGN|
- Heinz 1706 order link at TGRC (the variety used in tomato genome sequencing project)
- Tomato FPC pages at University of Arizona, USA.
- Sanger FTP site with MboI BAC library FPC build
- Software links at Sanger
- The Tomato Genome Annotation pages at the computational biology group of the University of Naples, Italy.
- Tomato mitochondrial genome (Genbank) (the site mitochondrialgenome.org seems defunct as of Dec 2013)
- Tomato chloroplast sequence (Genbank)