Targeted analysis of nucleotide and copy number variation by exon capture in allotetraploid wheat genome.

ABSTRACT:

Background

The ability of grass species to adapt to various habitats is attributed to the dynamic nature of their genomes, which have been shaped by multiple rounds of ancient and recent polyploidization. To gain a better understanding of the nature and extent of variation in functionally relevant regions of a polyploid genome, we developed a sequence capture assay to compare exonic sequences of allotetraploid wheat accessions.

Results

A sequence capture assay was designed for the targeted re-sequencing of 3.5 Mb exon regions that surveyed a total of 3,497 genes from allotetraploid wheat. These data were used to describe SNPs, copy number variation and homoeologous sequence divergence in coding regions. A procedure for variant discovery in the polyploid genome was developed

SUBMITTER: Saintenac C 

PROVIDER: S-EPMC3308051 | biostudies-literature | 2011 Sep

REPOSITORIES: biostudies-literature