Data from: Genome-wide variation within and between wild and domestic yak

The yak is one of the few animals that can thrive in the harsh environment of the Qinghai-Tibetan Plateau and adjacent alpine regions. Yak provide essential resources allowing Tibetans to live at high altitudes. However, genetic variation within and between wild and domestic yak remain unknown. Here, we present a genome-wide study of the genetic variation within and between wild and domestic yak. Using next-generation sequencing technology, we re-sequenced three wild and three domestic yak with a mean of 5-fold coverage using our published domestic yak genome as a reference. We identified a total of 8.38 million SNPs (7.14 million novel), 383,241 InDels and 126,352 structural variants between the six yak. We observed higher linkage disequilibrium in domestic yak than in wild yak and a modest but distinct genetic divergence between these two groups. We further identified more than a thousand of Potential Selected Regions (PSRs) for the three domestic yak by scanning the whole genome. These genomic resources can be further used to study genetic diversity and select superior breeds of yak and other bovid species.variation in domestic and wild yakVariation information of wild and domestic yak: tar zxvf variation.tar.gz. The information is stored in GFF format (https://genome.ucsc.edu/FAQ/FAQformat.html#format3). There are three files: snp.gff: Single-nucleotide polymorphism information of six yak. indel.gff: Insertion and deletion information of six yak. sv.gff: structural variants of six yak.variation.tar.gzCustom perl scripts used in this articleCustomPerlScripts.tar.g