基于SNP芯片的云上黑山羊遗传结构分析

doi:10.16431/j.cnki.1671-7236.2019.02.018

摘要/Abstract

摘要：

为从分子水平对云上黑山羊遗传结构做出评价，本研究以云上黑山羊核心群母羊108只（来自7个育种核心场、10个群体）、育种素材云岭黑山羊和努比山羊各11和14只、对照组波尔山羊10只为试验动物，用Illumina公司Iselect Goat60k芯片技术在全基因组范围内进行单核苷酸多态性（SNP）分析，并运用GenAlEx 6.5、Cervus 3.0、SNPRelate、Plink 1.07、Mega 4.0进行遗传多样性参数统计计算、主成分分析和系统进化树构建。试验获得143个样本在48 116个SNPs位点上的分型结果，其中波尔山羊10个样本单独聚集，与云上黑山羊、努比山羊、云岭黑山羊存在较大的遗传距离，较小的遗传一致度和较小的基因流，在聚类进化树中显示为一个独立分支，这些结果与波尔山羊实际遗传背景完全一致，显示出它在本研究中的对照组作用，同时证明本研究方法可行、结果可靠；云上黑山羊108个样本具有高度一致性，在聚类系统树中这些样本聚为一个大簇，而努比山羊（14个）和云岭黑山羊（11个）的样本各自聚为一簇；UPGMA进化树显示，云上黑山羊与努比山羊关系较近，与云岭黑山羊关系稍远，这与云上黑山羊育种导血方案结果相一致。云上黑山羊新品种在基因组水平上可与其育种素材明显区分，在基因组层面已具备独立品种特点。

关键词: 云上黑山羊; SNP芯片; 遗传结构; 系统进化树

Abstract:

In order to evaluate the genetic structure in Yunshang Black goat at the molecular level,108 Yunshang Black goats from 10 families,11 Yunling Black goats,14 Nubian goats and 10 Boer goats (control group) were genotyped by Illumina Iselect Goat60k array (SNP chip).Genetic diversity parameters statistics,principal component analysis and phylogenetic tree construction were performed by GenAlEx 6.5,Cervus 3.0,SNPRelate,Plink 1.07 and Mega 4.0.The typing results at 48 116 SNPs loci in 143 samples had been gotten.There was a great genetic distance between Boer goat and Yunshang Black goat,and a large genetic distance also existed between Boer goat and Nubian goat.Bore goat was displayed as an independent branch on the cluster tree.The results proofed the method of this study was practical and reliable.108 samples of Yunshang Black goats were high consistency,and these samples were clustered into a large cluster in the phylogenetic tree.The samples of Nubian goats (14) and Yunling Black goats (11) were clustered into a cluster.UPGMA evolution tree displayed that Yunshang Black goats were closely related to Nubian goats,and had a little relationship with Yunling Black goats,which was consistent with the results of the breeding blood guide in Yunshang Black goat.Yunshang Black goat could be distinguished from the breeding material at the genomic level,which had genomic characteristics of an independent variety.

Key words: Yunshang Black goat; SNP chip; genetic structure; phylogenetic tree

中图分类号:

S813.3

兰蓉, 朱兰, 杨红远, 王鹏, 邵庆勇, 江炎庭, 洪琼花. 基于SNP芯片的云上黑山羊遗传结构分析[J]. 《中国畜牧兽医》, 2019, 46(2): 480-488.

LAN Rong, ZHU Lan, YANG Hongyuan, WANG Peng, SHAO Qingyong, JIANG Yanting, HONG Qionghua. Analysis of Genetic Structure of Yunshang Black Goat Based on SNP Chip[J]. , 2019, 46(2): 480-488.

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