Comparison of the Equine Reference Sequence with Its Sanger Source Data and New Illumina Reads.

ABSTRACT: The reference assembly for the domestic horse, EquCab2, published in 2009, was built using approximately 30 million Sanger reads from a Thoroughbred mare named Twilight. Contiguity in the assembly was facilitated using nearly 315 thousand BAC end sequences from Twilight's half brother Bravo. Since then, it has served as the foundation for many genome-wide analyses that include not only the modern horse, but ancient horses and other equid species as well. As data mapped to this reference has accumulated, consistent variation between mapped datasets and the reference, in terms of regions with no read coverage, single nucleotide variants, and small insertions/deletions have become apparent. In many cases, it is not clear whether these differences are the result of true sequence variation betw

SUBMITTER: Rebolledo-Mendez J 

PROVIDER: S-EPMC4479572 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature