几个中国地方猪群体遗传结构和产仔数性状选择信号分析

doi:10.11843/j.issn.0366-6964.2022.02.004

Abstract

Abstract: The aim of this study was to analyze the population genetic structure of several Chinese indigenous pig breeds, and detect genomic selection signals and candidate genes related to litter size. The Illumina PorcineSNP60 microarray data of 102 pigs from 6 Chinese indigenous breeds was used, and constructed a low litter size group including 19 Diqing Tibetan pigs, 16 Mingguang Xiaoer pigs and 16 Wuzhishan pigs, and a high litter size group including 11 Jiangquhai pigs, 20 Lantang pigs and 20 Meishan pigs. After quality control and genotype imputation, softwares were used for genetic relationship analysis, principal component analysis, linkage disequilibrium attenuation analysis, population genetic structure analysis, phylogenetic tree construction and selection signal analysis, and gene localization and functional enrichment analysis of selected sites were carried out. A total of 33 285 SNPs was obtained after data quality control and genotype imputation. The genetic relationships among the 6 Chinese indigenous pig breeds were far, whereas the relationships of individuals within breeds were close. The LD decay rates of the 6 populations were very fast, which were Meishan pigCHD7 was related to growth retardation and genital abnormalities, FBXO43 was related to reproductive ability and affected the number of sperm in circular motion, RUNX1 affected the secretion of estrogen, androgen and prostaglandin, STRBP was related to ovary development, and TEDDM1 was specifically expressed in the epididymis. CHD7, FBXO43, RUNX1, STRBP and TEDDM1 may be the candidate genes for litter size traits in Chinese indigenous pigs.

Key words: population genetic structure, litter size, selection signal, SNP locus, candidate gene

CLC Number:

S828.2

LU Yujie, MO Jiayuan, QI Wenjing, ZHU Siran, YANG Lili, LIU Qiaoling, BU Yage, LAN Ganqiu, LIANG Jing. Population Genetic Structure and Selection Signatures Associated with Litter Size Trait in Several Chinese Indigenous Pig Breeds[J]. Acta Veterinaria et Zootechnica Sinica, 2022, 53(2): 360-369.

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Population Genetic Structure and Selection Signatures Associated with Litter Size Trait in Several Chinese Indigenous Pig Breeds

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