Award details

Sequencing the tomato genome: a reference genome for the Solanaceae

Reference	BB/C509731/1
Principal Investigator / Supervisor	Professor Gerard Bishop
Co-Investigators / Co-Supervisors	Dr Glenn Bryan, Dr Sarah Butcher, Professor Jane Rogers, Professor Graham Seymour
Institution	Imperial College London
Department	Life Sciences
Funding type	Research
Value (£)	226,713
Status	Completed
Type	Research Grant
Start date	01/09/2005
End date	31/10/2009
Duration	50 months

Abstract

We propose to sequence and annotate the estimated 19 Mb of euchromatin on tomato chromosome 4. The starting point for sequencing chromosome 4 will be 100 seed BACs provided from our US collaborators and individually anchored to the tomato high density genetic map (F2.2000; www.sgn.cornell.edu/). Sequencing for the UK will proceed on a BAC by BAC basis at the Sanger Institute. Each sequenced anchor BAC will serve as a seed from which to radiate out in a minimum tiling path in either direction. Identification of the correct next BACs in the euchromatin minimum tiling path (e-MTP) will be based on the use of a BAC-end sequence database created in the US and a fingerprint contig physical map that is currently being jointly constructed by US and Dutch scientists. The bioinformatics portion of the UK project will be embedded in a well-established infrastructure in collaboration with Solanaceae Genome Network (SGN) Bioinformatics group and the Munch Information Centre for Protein Sequences (MIPS). Automated annotation will be carried out at MIPS, who will provide a chromosome database for remote access. Manual curation of the sequence will be carried out by the bioinformatician in association with the bioinformatics unit at Imperial. All the annotated sequences will be integrated into worldwide resource at SGN. To disseminate up-to-date information to UK researchers and the public will establish a Solanceae Research Community (SRC-UK) web based interface.

Summary

unavailable

Committee	Closed Committee - Plant & Microbial Sciences (PMS)
Research Topics	Crop Science, Plant Science
Research Priority	X – Research Priority information not available
Research Initiative	X - not in an Initiative
Funding Scheme	X – not Funded via a specific Funding Scheme

Associated awards:

BB/C519370/1 Sequencing the tomato genome: a reference genome for the Solanaceae

BB/C519370/3 Sequencing the tomato genome: a reference genome for the Solanaceae

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