Targeted re‐sequencing of the allohexaploid wheat exome

• DOI: 10.1111/j.1467-7652.2012.00713.x
• Publication Date: 2012-06-18T05:04:01Z
• Authors: Mark O. Winfield; Paul A. Wilkinson; Alexandra M. Allen; Gary L. A. Barker; Jane A. Coghill; Amanda Burridge; Anthony Hall; Rachael C. Brenchley; Rosalinda D’Amore; Neil Hall; Michael W. Bevan; Todd Richmond; Daniel J. Gerhardt; Jeffrey A. Jeddeloh; Keith J. Edwards
• Keywords: Polyploid; Common wheat

Summary Bread wheat, Triticum aestivum , is an allohexaploid composed of the three distinct ancestral genomes, A, B and D. The polyploid nature wheat genome together with its large size has limited our ability to generate significant amount sequence data required for whole studies. Even advent next‐generation sequencing technology, it still relatively expensive sequences more than a few genomes at any one time. To overcome this problem, we have developed targeted‐capture re‐sequencing protocol based upon NimbleGen array technology capture characterize 56.5 Mb genomic DNA similarity over 100 000 transcripts from eight different UK varieties. Using procedure in conjunction carefully designed bioinformatic procedure, identified 500 putative single‐nucleotide polymorphisms (SNPs). While 80% these were variants between homoeologous D, number (20%) varietal SNPs varieties studied. A small latter experimentally validated using KASPar 94% proved be genuine. procedures described here proportion genome, various should considerable use wider community.