关岭牛TBC1D7基因单核苷酸多态性筛查及生物信息学分析  

Single nucleotide polymorphism screening and bioinformatics analysis of TBC1D7 gene in Guanling cattle

作　　者：刘鹏程 张继 邱淦远 龚俞 李雪松 李维 张依裕 刘若余 LIU Pengcheng;ZHANG Ji;QIU Ganyuan;GONG Yu;LI Xuesong;LI Wei;ZHANG Yiyu;LIU Ruoyu(Key Laboratory of Plateau and Mountain Animal Genetics and Breeding,Ministry of Education,College of Animal Science,Guizhou University,Guiyang 550025,China;Guizhou Province Livestock and Poultry Genetic Resources Management Station,Guiyang 550001,China)

机构地区：[1]贵州大学动物科学学院,高原山地动物遗传育种与繁殖教育部重点实验室,贵州贵阳550025 [2]贵州省畜禽遗传资源管理站,贵州贵阳550001

出　　处：《浙江农业学报》2022年第7期1402-1411,共10页Acta Agriculturae Zhejiangensis

基　　金：贵州省农业动植物育种项目(黔农育专字〔2018〕016号);贵州省农业科技攻关项目(黔科合NY〔2015〕3004-3);贵州省科技厅农业科技攻关项目(黔科合支撑〔2019〕2360号)。

摘　　要：为探究关岭牛TBC1D 7(TBC1 domain family,member 7)基因单核苷酸多态性(single nucleotide polymorphism sites,SNPs)对其生长性状的影响。以贵州关岭牛为试验对象,构建DNA混合池,采用PCR扩增后直接测序法对关岭牛TBC1D 7基因进行SNPs检测,并对其进行生物信息学分析。结果显示:关岭牛TBC1D 7基因蛋白质编码区(CDS)全长882 bp,编码氨基酸293个,形成了一种不稳定的可溶性蛋白。该蛋白中不存在跨膜区域且不存在信号肽,为非分泌蛋白。蛋白中存在6个潜在的N-糖基化位点,二级结构主要由α-螺旋和无规则卷曲构成;在关岭牛TBC1D 7基因CDS区共发现了4个同义突变位点,分别为c.402T>C、c.414A>G、c.609C>T和c.648T>C。4个突变位点均导致关岭牛TBC1D 7基因mRNA二级结构、自由能和基因频率发生变化。本实验筛查到关岭牛TBC1D 7基因4个SNPs位点,表明关岭牛TBC1D 7基因多态性丰富,为进一步研究TBC1D 7基因变异和关岭牛生长发育性状的相关性提供理论基础。In order to explore effects of single nucleotide polymorphism(SNPs)of TBC1 domain family,member 7(TBC1D7)gene on cattle growth traits,the Guizhou Guanling cattle was selected as experimental objects to construct DNA pools.After PCR amplification,direct sequencing method was used to detect SNPs of TBC1D 7 gene in Guanling cattle.The results showed that the coding region of TBC1D7 gene of Guanling cattle was 882 bp in length,encoding 293 amino acids.An unstable soluble protein was formed.There was no transmembrane region and no signal peptide in the protein encoded by TBC1D 7 gene,which is a non-secretory protein.There were six potential N-glycosylation sites in the protein,and the secondary structure was mainly composed ofα-helix and random coil.Four synonymous mutation sites were found in the coding sequence(CDS)region of TBC1D 7 gene in Guanling cattle,namely,c.402T>C,c.414A>G,c.609C>T and c.648T>C.All the four SNPs resulted in changes in mRNA secondary structure,free energy and gene frequency of TBC1D 7 gene in Guanling cattle.In this study,four SNPs loci of TBC1D 7 gene in Guanling cattle were screened.The results showed that the polymorphism of TBC1D 7 gene in Guanling cattle was abundant,which provided a theoretical basis for further research on the correlation between the variation of TBC1D 7 gene and the growth and development traits of Guanling cattle.

关 键 词：关岭牛 TBC1D 7基因 单核苷酸多态性 生物信息学 

分 类 号：S834.89[农业科学—畜牧学]