基于重测序数据分析太行山羊种公羊遗传多样性及群体结构

doi:10.16431/j.cnki.1671-7236.2025.10.020

Abstract

Abstract: 【Objective】 The aim of this study was to conduct a thorough analysis of the genetic diversity and population genetic structure of Taihang goat ram population through whole genome resequencing (WGS) technology,so as to provide scientific foundations for the breeding and conservation of Taihang goats.【Method】 A total of 35 healthy adult Taihang goat rams without diseases were selected,venous blood samples were collected to extract DNA for constructing a sequencing library,and the single nucleotide polymorphism (SNP) data in Taihang goat rams was subjected to quality control using Plink 1.9 software.The genetic parameters of Taihang goat ram population were calculated,including expected heterozygosity (He),observed heterozygosity (Ho),minor allele frequency (MAF),and polymorphic information content (PIC).Additionally,analysis were performed on linkage disequilibrium,nucleotide diversity,runs of homozygosity (ROH),principal component analysis (PCA),phylogenetic tree construction,and population genetic structure.【Result】 The MAF of Taihang goat ram population was 0.1889,and the average PIC was 0.2760,indicating moderate polymorphism.The He of Taihang goat ram population was 0.2764,and the Ho was 0.1929.A total of 7 499 ROH were identified in 35 rams,with the largest number of ROH ranging from 0 to 2 Mb.The average inbreeding coefficient was 0.0334.PCA and phylogenetic tree analysis revealed that 35 rams were divided into four main clades,while population genetic structure analysis showed distinct stratification when K=2.【Conclusion】 Taihang goat ram population showed relatively high genetic diversity with moderate polymorphism,demonstrating significant potential for breeding improvement.There was low-to-moderate inbreeding in the population,and inbreeding should be avoided in breeding. The population had a complex genetic structure,showing obvious stratification (most significant at K=2),and could be divided into multiple familial lineages.The results provided a theoretical basis for conservation strategies and breeding directions of Taihang goats.

Key words: Taihang goats; whole genome resequencing; genetic diversity; population genetic structure; pedigree assignment

CLC Number:

S827

YAO Shuhai, XIONG Jinke, YANG Peifu, ZHU Shuo, SUN Xintian, SHANG Mingyu, BAO Jingjing, HUANG Jupeng, SUN Jinghua, ZHANG Li. Genetic Diversity and Population Structure of Taihang Goat Rams Revealed by Whole Genome Resequencing[J]. China Animal Husbandry & Veterinary Medicine, 2025, 52(10): 4742-4753.

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Genetic Diversity and Population Structure of Taihang Goat Rams Revealed by Whole Genome Resequencing

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