基于GBS简化基因组测序数据重建麦洼牦牛保种群系谱

doi:10.11843/j.issn.0366-6964.2023.09.012

Abstract

Abstract: The study aimed to construct the pedigree of three preserved populations of the Maiwa yaks (Black hair, Pink lips and Fulo) in Longri breeding farm, Sichuan Province using genotyping-by-sequencing(GBS) technique,and to lay a solid foundation for the breeding and selection of the Maiwa Yak. A total of 406 Maiwa yaks (211 from the Black hair group, 140 from the Pink lips group and 55 from the Fulo group) were selected from the conserved populations, blood was collected and sequenced by GBS, and the high-quality SNPs obtained were used to study the coefficient of kinship for the entire population and construct its pedigree. The results are as follows:126 122 high-quality SNPs were obtained after GBS sequencing and quality control. Principal component analysis(PCA) showed that both the Pink lips group and the Black hair group showed a clear trend of genetic differentiation, and some individuals from Fulo group clustered closely with the Black hair group and the Pink lips group. A total of 164 836 genetic relationship pairs were calculated in this study. Based on the coefficients of kinship between individuals, 134 full siblings, 912 half-siblings, 136 suspected parent-child relationships or full siblings, 520 suspected half-siblings or uncle-nephew relationships, 205 supposed half-siblings or uncle-nephew relationships or grandchild relationships were identified. Combining population evolutionary tree and kinship analysis, the entire population could be divided into 12 lineages (G1-G12). The genetic diversity analysis of them showed that the observed heterozygosity (Ho) was 0.288 9-0.305 5 and the expected heterozygosity (He) was 0.307 4-0.307 6, with the average Ho lower than the average He, indicating a certain degree of inbreeding within families, with G8 having the smallest Ho at 0.288 9 and its F_IS the largest at 0.060 7. In this study, SNPs obtained by GBS technology were used to determine the kinship of the preserved population, and the entire population was divided into 12 families, which initially improved the pedigree of the preserved population and laid a solid foundation for implementation of the subsequent breeding selection program.

Key words: Maiwa yak, GBS technology, kinship, molecular pedigree

CLC Number:

S823.85

LI Zaiwen, LI Xiang, LI Xiaowei, LI Biao, JIANG Mingfeng. The Pedigree Reconstruction of the Maiwa Yak Preserved Population Based on GBS Technology[J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(9): 3710-3721.

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The Pedigree Reconstruction of the Maiwa Yak Preserved Population Based on GBS Technology

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