Abstract
Jinnan cattle, one of the five major breeds of Chinese yellow cattle, are the traditional draft and beef breed in southern Shanxi province, China. Our study aimed to search genes that will allow the selection of important economic traits through selection signature detection, which can help in discovering the action mechanism of positive selection in the variety breeding process of Jinnan cattle.
Highlights
Both natural and artificial selection have resulted in cattle breeds that are specialized for particular uses
PLINK was employed for quality control, where only single nucleotide polymorphism (SNP) located on autosomal chromosomes in the UMD3.1 genome were selected for autozygosity determination, and marker scores with a minor allele frequency of
A genome-wide scan based on iHS statistics identified several regions that have been affected by selection in Chinese Jinnan cattle
Summary
Both natural and artificial selection have resulted in cattle breeds that are specialized for particular uses. Positive selection pressure can reduce or even eliminate the frequency of negative alleles in the offspring’s genome(Biswas and Akey, 2006). Continuous selection pressure over a few generations may result in linkage disequilibrium (LD) patterns between mutations and neighboring loci (Sabeti et al, 2002). The study found that the EHH test can detect signatures of positive selection in a population between the allele frequency and LD patterns with neighboring alleles (Barendse et al, 2009). IHS test can avoid the influence of heterogeneous recombination rates across the genome, and the iHS method performs best when a selected allele segregates at intermediate frequencies in the population
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