Population structure and breed identification of Chinese indigenous sheep breeds using whole genome SNPs and InDels.

ABSTRACT:

Background

Accurate breed identification is essential for the conservation and sustainable use of indigenous farm animal genetic resources. In this study, we evaluated the phylogenetic relationships and genomic breed compositions of 13 sheep breeds using SNP and InDel data from whole genome sequencing. The breeds included 11 Chinese indigenous and 2 foreign commercial breeds. We compared different strategies for breed identification with respect to different marker types, i.e. SNPs, InDels, and a combination of SNPs and InDels (named SIs), different breed-informative marker detection methods, and different machine learning classification methods.

Results

Using WGS-based SNPs and InDels, we revealed the phylogenetic relationships between 11 Chinese indigenous and two foreign

SUBMITTER: Zhao CH 

PROVIDER: S-EPMC11370120 | biostudies-literature | 2024 Sep

REPOSITORIES: biostudies-literature