Genomic diversity and admixture patterns among six Chinese indigenous cattle breeds in Yunnan.

ABSTRACT:

Objective

Yunnan is not only a frontier zone that connects China with South and Southeast Asia, but also represents an admixture zone between taurine (Bos taurus) and zebu (Bos indicus) cattle. The purpose of this study is to understand the level of genomic diversity and the extent of admixture in each Yunnan native cattle breed.

Methods

All 120 individuals were genotyped using Illumina BovineHD BeadChip (777,962 single nucleotide polymorphisms [SNPs]). Quality control and genomic diversity indexes were calculated using PLINK software. The principal component analysis (PCA) was assessed using SMARTPCA program implemented in EIGENSOFT software. The ADMIXTURE software was used to reveal admixture patterns among breeds.

Results

A total of 604,630 SNPs was obtained after

SUBMITTER: Li R 

PROVIDER: S-EPMC6599958 | biostudies-literature | 2019 Aug

REPOSITORIES: biostudies-literature