山东小毛驴全基因组选择信号检测

doi:10.15933/j.cnki.1004-3268.2021.02.018

河南农业科学 ›› 2021, Vol. 50 ›› Issue (2): 145-150.DOI: 10.15933/j.cnki.1004-3268.2021.02.018

山东小毛驴全基因组选择信号检测

陈建兴^1,2，童家兴¹，张孝忠²，张向阳³，王宇鑫⁴，孙玉江^2,5

（1.赤峰学院化学与生命科学学院，内蒙古赤峰 024000；2.青岛农业大学动物科技学院，山东青岛 266109；3.内蒙古东阿黑毛驴牧业有限公司，内蒙古赤峰 024328；4.东阿阿胶股份有限公司，山东聊城 252200；5.东营职业学院，山东东营 257091）

收稿日期:2020-08-11 出版日期:2021-02-15 发布日期:2021-02-15
通讯作者: 孙玉江(1963-),男，山东烟台人，教授，博士，主要从事马属动物分子遗传育种与繁殖研究。E-mail:s36s@163.com
作者简介:陈建兴(1980-)，男，山西运城人，副教授，博士，主要从事马属动物资源开发利用研究。E-mail:kuaihuilai2004@163.com
基金资助:
山东省农业良种工程重大课题(2013lz016,2017LZGC020,2017LZN022)；山东省现代农业产业技术体系驴创新团队建设专项(SDAIT-27)；山东省重点区域引进急需人才项目(2019-58)；山东省农业重大应用技术创新项目(SD2019 XM 008)；2019年乡村振兴重大专项(S190503110001-lcy)；内蒙古自治区科技厅关键技术攻关计划项目(2019GG381)

Detection of Selection Signatures of Population-Specific Whole-Genomic Regions Selected in Shandong Little Donkey

CHEN Jianxing^1,2,TONG Jiaxing¹,ZHANG Xiaozhong²,ZHANG Xiangyang³,WANG Yuxin⁴,SUN Yujiang^2,5

(1.College of Chemistry and Life Science,Chifeng University,Chifeng 024000,China; 2.College of Animal Science and Technology,Qingdao Agricultural University,Qingdao 266109,China; 3.Inner Mongolia Dong E Black Donkey Animal Husbandry Co.,Ltd.,Chifeng 024328,China; 4.Dong E E Jiao Co.,Ltd.,Liaocheng 252200,China;5.Vocational College of Dongying,Dongying 257091,China)

Received:2020-08-11 Published:2021-02-15 Online:2021-02-15

摘要/Abstract

摘要： 为研究不同驴品种间的群体分化程度，检测全基因组选择信号，以挖掘山东小毛驴(SDL)重要性状相关的候选基因,基于山东小毛驴和德州驴的三粉类群(DZS)、德州驴的乌头类群(DZW)、广灵驴(GL)以及华北驴(NC)等5个驴群体共计60个个体全基因组重测序数据，利用群体遗传分化系数(F_st)和核苷酸多样性比值(π ratio)方法检测山东小毛驴与其他驴群体间的选择信号，共找到39个落入选择信号区域的候选基因。与DZS群体相比，检测出强选择信号候选基因5个，分别是Fsip1、AHNAK2、CTAGE2、CYP3A12、LOC106830441；与DZW群体相比，检测出强选择信号候选基因5个，分别是NKG2DL1、KLK1E2、CTAGE2、FAM170A、LOC106823932；与GL群体相比，检测出强选择信号候选基因6个，分别是NKG2DL1、AHNAK2、CTAGE2、FAM170A、LOC106823932、LOC106848008；与NC群体相比，检测出强选择信号候选基因2个，分别是CTAGE2、FAM170A。这些候选基因主要在免疫、生殖、细胞作用等通路中发挥重要的作用，说明山东小毛驴在免疫力和生殖能力等性状上经历了人工选择。

关键词: 山东小毛驴, 基因组重测序, 选择信号, 候选基因, 遗传分化系数

Abstract: This experiment was conducted to study genetic differentiation among different donkey populations by genome-wide detection of selection signatures and search the candidate genes related to important traits of Shandong little donkey(SDL).This study was based on the whole genome resequencing data of 60 donkeys from 5 donkey populations including SDL,Dezhou Sanfen donkey(DZS),Dezhou Wutou donkey(DZW),Guangling donkey(GL) and North China donkey( NC).The selection signals between SDL and other donkey populations were detected by population genetic differentiation index(Fst)and ratio of nucleotide diversity (π ratio) method.As a result,39 candidate genes were detected in the positive selection signal regions. Compared with DZS,five candidate genes with strong selection signals were detected, including Fsip1, AHNAK2, CTAGE2, CYP3A12 and LOC106830441.Compared with DZW, five candidate genes with strong selection signals were detected, including NKG2DL1,KLK1E2,CTAGE2,FAM170A and LOC106823932.Compared with GL,six candidate genes within strong selection signals were detected, including NKG2DL1, AHNAK2, CTAGE2, FAM170A,LOC106823932 and LOC106848008.Compared with NC,only two candidate genes with strong selection signals were detected,including CTAGE2 and FAM170A.These candidate genes mainly played important roles in the immune,reproductive,cellular and other pathways,revealing that SDL experienced artificial selection in the traits of immunity and reproductive traits.

Key words: Shandong little donkey, Whole-genome re-sequencing, Selective signal, Candidate gene, Genetic differentiation index

中图分类号:

S822

陈建兴, 童家兴, 张孝忠, 张向阳, 王宇鑫, 孙玉江. 山东小毛驴全基因组选择信号检测[J]. 河南农业科学, 2021, 50(2): 145-150.

CHEN Jianxing, TONG Jiaxing, ZHANG Xiaozhong, ZHANG Xiangyang, WANG Yuxin, SUN Yujiang. Detection of Selection Signatures of Population-Specific Whole-Genomic Regions Selected in Shandong Little Donkey[J]. Journal of Henan Agricultural Sciences, 2021, 50(2): 145-150.

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山东小毛驴全基因组选择信号检测

Detection of Selection Signatures of Population-Specific Whole-Genomic Regions Selected in Shandong Little Donkey

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