Structural variation in the chicken genome identified by paired-end next-generation DNA sequencing of reduced representation libraries.

ABSTRACT:

Background

Variation within individual genomes ranges from single nucleotide polymorphisms (SNPs) to kilobase, and even megabase, sized structural variants (SVs), such as deletions, insertions, inversions, and more complex rearrangements. Although much is known about the extent of SVs in humans and mice, species in which they exert significant effects on phenotypes, very little is known about the extent of SVs in the 2.5-times smaller and less repetitive genome of the chicken.

Results

We identified hundreds of shared and divergent SVs in four commercial chicken lines relative to the reference chicken genome. The majority of SVs were found in intronic and intergenic regions, and we also found SVs in the coding regions. To identify the SVs, we combined high-throughput short re

SUBMITTER: Kerstens HH 

PROVIDER: S-EPMC3039614 | biostudies-literature | 2011 Feb

REPOSITORIES: biostudies-literature