基于GBS测序的湘东黑山羊的亲缘关系及近交系数  

Genetic relationship and inbreeding coefficient among Xiangdong black goats based on GBS sequencing

作　　者：刘海林[1,2] 江为民 段洪峰 李昊帮[2] 罗璋 李安定 龚龑 LIU Hailin;JIANG Weimin;DUAN Hongfeng;LI Haobang;LUO Zhang;LI Anding;GONG Yan(Hunan Institute of Animal and Veterinary Science,Changsha,Hunan 410131,China;Hunan Guangda Animal Husbandry Technology Co.Ltd,Changsha,Hunan 410131,China;Liuyang Animal Husbandry and Fisheries Bureau,Liuyang,Hunan 410300,China;Hunan Perfly Biotechnology Co.Ltd,Changsha,Hunan 410005,China)

机构地区：[1]湖南省畜牧兽医研究所,湖南长沙410131 [2]湖南光大牧业科技有限公司,湖南长沙410131 [3]浏阳畜牧水产局,湖南浏阳410300 [4]湖南普菲克生物科技有限公司,湖南长沙410005

出　　处：《湖南农业大学学报（自然科学版）》2024年第2期78-85,共8页Journal of Hunan Agricultural University(Natural Sciences)

基　　金：湖南省科学技术厅重点研发计划项目(2020NK2049)。

摘　　要：利用基因分型测序(GBS)对60只湘东黑山羊(9只公羊、51只母羊)进行基因组测序,获得湘东黑山羊染色体上的SNP数据和连续纯合子片段(ROH)数据。通过SNP数据进行基于G矩阵的基因组亲缘关系分析和NJ聚类分析,构建湘东黑山羊的群体家系结构,并通过ROH数据得到群体平均近交系数。结果表明,60只湘东黑山羊的平均测序深度为9.15X,与参考基因组比对率平均为99.59%;在SNP检测过程中,3只母羊不符合基因型数据质控标准,将其过滤后获得其他57只黑山羊29条染色体上153046个SNPs位点和1937个ROH片段;构建的湘东黑山羊8个家系,其中9只公羊和6只母羊被分为7个家系,另42只母羊被单独分类;基于ROH片段分析的湘东黑山羊群体中每个个体的近交系数均值为0.047,说明湘东黑山羊公羊在繁育过程中有较大的利用空间。In this study,60 Xiangdong black goats,including 9 rams and 51 ewes,were sequenced through GBS sequencing,for SNPs and ROH on the chromosomes of Xiangdong black goats.Genetic relationship analysis based on G matrix and NJ cluster analysis were carried out using SNP data to construct pedigree of population structure and inbreeding coefficient was obtained based on ROH data.These results showed that average sequencing depth of 60 Xiangdong black goats was 9.15X,with a mapping rate of 99.59%compared with reference genomes.In the process of SNPs detection,the data of 3 ewes failed to meet the genotype quality control standards thus were excluded to obtain the 153046 SNPs and 1937 ROH fragments on 29 autosomes from 57 Xiangdong black goats,based on which pedigree including 8 families was constructed in which 9 rams and 6 ewes were divided into 7 families and other 42 ewes were classified separately.Based on ROH,the average inbreeding coefficient of individual in the population of Xiangdong black goat was 0.047,indicating that the rams have good potential for breeding.

关 键 词：湘东黑山羊 基因分型测序 单核苷酸多态性 连续纯合子片段 近交系数 亲缘关系 

分 类 号：S826.131[农业科学—畜牧学]