基于SNP位点的吉林梅花鹿分子系谱构建及群体遗传结构分析  

Molecular Genealogy Construction and Population Genetic Structure Analysis of Jilin Sika Deer Based on SNP Loci

作　　者：范广轩 王天骄 董依萌 王洪亮[1] 丁宁[2] 王莘皓 邢秀梅[1] FAN Guangxuan;WANG Tianjiao;DONG Yimeng;WANG Hongliang;DING Ning;WANG Xinhao;XING Xiumei(Key Laboratory of Genetics,Breeding and Reproduction of Special Economic Animals of Ministry of Agriculture and Rural Affairs,Institute of Special Animal and Plant Sciences of Chinese Academy of Agricultural Sciences,Changchun 130112,China;College of Wildlife and Protected Area,Northeast Forestry University,Harbin 150006,China;Guangdong Chimelong Group,Zhuhai 519000,China)

机构地区：[1]中国农业科学院特产研究所农业农村部特种经济动物遗传育种与繁殖重点实验室,长春130112 [2]东北林业大学野生动物与自然保护地学院,哈尔滨150006 [3]广东长隆集团有限公司,珠海519000

出　　处：《畜牧兽医学报》2024年第9期3925-3935,共11页ACTA VETERINARIA ET ZOOTECHNICA SINICA

基　　金：茸用梅花鹿新品种(品系)示范推广(202300801-05);中国农业科学院科技。创新工程-特种动物遗传资源科技创新团队(CAAS-ASTIP-2021-ISAPS);50K梅花鹿育种专用基因芯片研制(2022C038-2)。

摘　　要：旨在利用全基因重测序技术获得的SNP位点为吉林梅花鹿保种群构建分子系谱,并对其遗传结构进行分析。本研究在锯茸期采集保种群的吉林梅花鹿血液10 mL(n=425),其中成年公鹿132只、成年母鹿208只、仔鹿85只,提取DNA后进行全基因重测序。通过计算血源同源系数(IBD)分析吉林梅花鹿亲缘关系;基于观测杂合度(Ho)、期望杂合度(He)、多态信息含量(PIC)、系统发育树和群体分化指数(Fst)等对吉林梅花鹿保种群遗传结构进行分析。通过全基因重测序筛选出25548601个高质量SNPs,425个样本共组成了90100对亲缘关系,平均亲缘系数为0.4351,得出195对父子关系与143对母子关系,占到采样群体原始系谱记录的92%,检出原始系谱错误率为2.2%,纠正了原始记录错误8处,具有较高的准确性和可靠性;分析群体分化指数(Fst),东丰型吉林梅花鹿与伊通型距离较远;绘制系统发育树,将吉林梅花鹿保种群划分为17个家系;采用的SNP标记平均观测杂合度为0.456,平均期望杂合度为0.277,平均多态信息含量为0.627,吉林梅花鹿保种群平均近交系数为0.078,存在较弱的近交。本研究建立了吉林梅花鹿保种群的分子系谱并对其群体遗传结构进行了分析,这对于保护吉林梅花鹿遗传多样性和规划保种群后续选育计划至关重要。The aim of this study was to construct a molecular pedigree for the Jilin sika deer conservation herd using SNP loci obtained by genome resequencing technology,and to analyse the genetic structure of the population.The 10 mL of blood from Jilin sika deer of the conservation herd(n=425)during the antler-sawing period was collected,including 132 adult bucks,208 adult does and 85 fawns,and extracted the DNA for whole genome resequencing.The kinship relationship of Jilin sika deer was analysed by calculating the blood homology coefficient(IBD),and the genetic structure of the Jilin sika deer conservation population was analysed based on the observed heterozygosity(Ho),the expected heterozygosity(He),the polymorphic information content(PIC),the phylogenetic tree and the population differentiation index(Fst).The 25548601 high-quality SNPs were screened by whole genome resequencing,and 425 samples comprised a total of 90100 pairs of kinship relationships,with an average kinship coefficient of 0.4351.A total of 195 pairs of paternity and 143 pairs of maternity were derived,which accounted for 92%of the original genealogical records of the sampled populations,and the error rate of the original genealogical records was detected to be 2.2%,and the errors of the original records were corrected to be 8,with a high accuracy and reliability.The group differentiation index(Fst)was calculated,and the Dongfeng-type Jilin sika deer was farther away from the Yitong-type;the phylogenetic tree was drawn,and the Jilin sika deer population was divided into 17 families;the average observed heterozygosity of the SNP markers was 0.456,the average expected heterozygosity was 0.277,and the average polymorphic information content was 0.627.The average inbreeding coefficient was 0.098,and the average polymorphic information content was 0.627.The average inbreeding coefficient was 0.078,and there was weak inbreeding.The present study established the molecular genealogy and analysed the population genetic structure of the Jilin sika deer conserv

关 键 词：吉林梅花鹿 SNP 分子系谱 

分 类 号：S829.9[农业科学—畜牧学]