基于SNP芯片解析永胜红骨绵羊的群体遗传结构

doi:10.19543/j.cnki.1673-4556.20260602.006

Abstract

Abstract:

Objective This study aims to explore the genetic background of Yongsheng Red-bone sheep and to reveal their genetic relationship and specificality with respect to sheep resources in Yunnan and surrounding areas and provides a scientific basis for the identification and conservation of local sheep genetic resources in Yunnan. Method A total of 24 Yongsheng Red-bone sheep were genotyped using the OvineSNP50 BeadChip. Six local Yunnan sheep breeds, Tibetan sheep, and Weining sheep were used for references. The population genetic structure of Yongsheng Red-bone sheep was systematically analyzed through phylogenetic tree construction, principal component analysis, ancestry analysis, runs of homozygosity (ROH) detection, and calculation of genetic differentiation index. Result Genotyping was performed using the Illumina Ovine SNP50 chip. A total of 46,129 high-quality SNPs were retained for subsequent analysis after quality control of 216 individuals in 9 sheep populations. The phylogenetic tree showed that Yongsheng Red-bone sheep formed a distinct branch independent of other sheep populations. The results of principal component analysis showed that Yongsheng Rred-bone sheep could be distinguished from Diqing sheep, Lanping Black-bone sheep, Ninglang sheep and Weining sheep, and the degree of differentiation was relatively high. ADMIXTURE analysis revealed that K=7 was the optimal number of ancestral populations for the nine sheep populations, and Yongsheng Red-bone sheep exhibited a unique ancestral composition, with some individuals showing admixture. ROH analysis indicated that the ROH lengths in this population were mainly concentrated in the range of 2~3 Mb, with an inbreeding coefficient(F_ROH) of 0.0953. The smallest genetic differentiation index(F_st) occurred between Yongsheng Red-boned sheep and Lanping Black-bone sheep(0.0459), while those with other populations were all greater than 0.06. Conclusion In summary, Yongsheng Red-bone sheep possess a unique population genetic structure and may have experienced historical gene flow with Lanping Black-bone sheep.

Key words: Yongsheng Red-bone sheep, Genetic resource, Population genetic structure, Genetic resource identification

CLC Number:

S826

Jinnan Li, Jinming Wang, Shizhi Wang, Lan Zhu, Dongmei Yang, Caijuan Liu, Kaimei Yang, Haolin Chen, Qingyong Shao. Analysis of population genetic structure of Yongsheng Red-bone sheep based on SNP chip[J].Chinese Livestock and Poultry Breeding, 2026, 22(7): 38-44.

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References 21

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群体Population name	缩写Abbreviation	采样地点Sampling location	采样时间Sampling time	样本量Sample size/个
永胜红骨绵羊Yongsheng Red-bone sheep	YS	云南省丽江市永胜县	2023.10	24
迪庆绵羊Diqing sheep	DQ	云南省迪庆州香格里拉市	2023.10	24
兰坪乌骨绵羊Lanping Black-bone sheep	LP	云南省怒江州兰坪县	2023.08	24
宁蒗黑绵羊Ninglang Black sheep	NL	云南省丽江市宁蒗县	2023.08	24
石屏青绵羊Shiping Cyan sheep	SP	云南省红河州石屏县	2023.09	24
腾冲绵羊Tengchong sheep	TC	云南省保山市腾冲市	2023.06	15
西藏羊Tibetan sheep	TIB	西藏自治区昌都市	-	37
威宁绵羊Weining sheep	WN	贵州省毕节市威宁县	2024.8	24
昭通绵羊Zhaotong sheep	ZT	云南省昭通市昭阳区	2023.10	20

群体 Populations	石屏青绵羊 SP	腾冲绵羊 TC	永胜红骨绵羊 YS	迪庆绵羊 DQ	兰坪乌骨绵羊 LP	昭通绵羊 ZT	宁蒗黑绵羊 NL	威宁绵羊 WN	西藏绵羊 TIB
石屏青绵羊SP	—
腾冲绵羊TC	0.1578	—
永胜红骨绵羊YS	0.1203	0.1089	—
迪庆绵羊DQ	0.1102	0.1041	0.0601	—
兰坪乌骨绵羊LP	0.0940	0.0889	0.0459	0.0327	—
昭通绵羊ZT	0.1046	0.0981	0.0627	0.0475	0.0345	—
宁蒗黑绵羊NL	0.1188	0.1040	0.0642	0.0554	0.0426	0.0546	—
威宁绵羊WN	0.1132	0.0900	0.0611	0.0555	0.0431	0.0490	0.0542	—
西藏绵羊TIB	0.1399	0.1181	0.0869	0.0815	0.0689	0.0829	0.0814	0.0673	—

Analysis of population genetic structure of Yongsheng Red-bone sheep based on SNP chip

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