Targeted capture sequencing-based 10k low-density SNP array for dairy cattle and use thereof

Abstract

Disclosed are a targeted capture sequencing-based 10K low-density SNP array for dairy cattle and a use thereof. Provided is a 10K low-density array for detecting genotypes of dairy cattle, comprising: single-stranded nucleotide probes for specifically detecting 11352 SNP sites and 6 INDEL sites on a dairy cattle genome (mainly comprising three types: sites related to important traits of dairy cattle, parentage testing and genetic defect sites, and sites selected from existing commercial dairy cattle genome arrays). Compared with existing high-density arrays, the provided 10K low-density genomic array has lower detection costs, and has detection performance such as SNP detection rate, polymorphism detection, individual genotype detection rate, and genetic evaluation accuracy consistent with that of the high-density arrays. The array can be applied to genomic selection and genetic defect identification of dairy cattle, and has important significance on early breeding of replacement heifers, establishment of cow nucleus herd, selection and matching, acceleration of genetic progress and improvement of feed management efficiency.

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