Award details

A draft sequence of the barley genome

Reference	BBS/E/T/000GP007
Principal Investigator / Supervisor	Professor Mario Caccamo
Co-Investigators / Co-Supervisors	Dr Sarah Dyer
Institution	Earlham Institute
Department	Earlham Institute Department
Funding type	Research
Value (£)	75,852
Status	Completed
Type	Institute Project
Start date	12/12/2011
End date	11/06/2015
Duration	42 months

Abstract

This project will make a major contribution towards improving the barley reference sequence and generating information about diverse cultivars that will facilitate genomics-assisted breeding of improved varieties. A new assembly and annotation will be generated by incorporating additional sequence resources and providing tools to access and visualise these integrated data sets via an Ensembl web browser. The estimated barley genome size is 5.3Gb, yet the first whole genome shotgun assembly from the IBSC contains only 1.8Gb of sequence assembled from Illumina whole genome shotgun reads and a small set of sequenced BACs and BAC-ends. This project will improve the barley genome by sequencing BAC clones (each approx. 100,000bp in size) using a strategy that combines cost effective short sequence reads of highly-multiplexed BAC clones on Illumina second generation technology with long reads (up to 10,000bp) from third generation sequencing technologies (e.g. Pacific Biosciences) to resolve larger problematic regions. In addition RNAseq data generated from a variety of tissues, at different developmental stages and under stress conditions, will contribute to our understanding of gene expression and alternative splicing, particularly in response to stress, whilst contributing to accurate gene model predictions and barley genome annotation. Exome capture using Nimblegen capture probes will be employed to detect variation within genic regions of up to 1000 barley cultivars from the James Hutton Institute's UK spring barley association mapping panel. This will allow cost-effective targeted resequencing of the transcribed regions of these widely-used lines. These resources will not only benefit barley researchers and breeders, but the knowledge gained from improved annotation of this diploid cereal will contribute to research in other triticeae species with more complex genetics such as hexaploid bread wheat.

Summary

unavailable

Committee	Not funded via Committee
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

I accept the terms and conditions of use (opens in new window)

export PDF file

back to list new search