黔北麻羊MEF2D基因多态性及生物信息学分析

doi:10.16431/j.cnki.1671-7236.2018.10.002

《中国畜牧兽医》 ›› 2018, Vol. 45 ›› Issue (10): 2661-2669.doi: 10.16431/j.cnki.1671-7236.2018.10.002

黔北麻羊MEF2D基因多态性及生物信息学分析

罗铮^1,2, 翁吉梅^1,2, 封竣琪^1,2, 徐伟^1,2, 黄兰^1,2, 罗卫星^1,2, 蔡惠芬^1,2

1. 贵州大学, 高原山地动物遗传育种与繁殖省部共建教育部重点实验室, 贵阳 550025;
2. 贵州大学动物科学学院, 贵州省动物遗传育种与繁殖重点实验室, 贵阳 550025

收稿日期:2018-01-10 出版日期:2018-10-20 发布日期:2018-10-20
通讯作者: 蔡惠芬 E-mail:fengfeng6111@163.com
作者简介:罗铮(1993-),男,江西高安人,硕士生,研究方向:分子遗传与动物育种,E-mail:1254238418@qq.com
基金资助:
贵州省农业科技攻关项目（黔科合NY字[2015]3010-1号）；贵州省科技计划项目（ZJNLT-RH-RHKJJ-002）

Polymorphism and Bioinformatic Analysis of MEF2D Gene in Qianbei Ma Goat

LUO Zheng^1,2, WENG Jimei^1,2, FENG Junqi^1,2, XU Wei^1,2, HUANG Lan^1,2, LUO Weixing^1,2, CAI Huifen^1,2

1. Key Laboratory of Animal Genetics, Breeding and Reproduction in the Plateau Mountainous Region, Ministry of Education, Guizhou University, Guiyang 550025, China;
2. Guizhou Province Key Laboratory of Animal Genetics, Breeding and Reproduction, College of Animal Science, Guizhou University, Guiyang 550025, China

Received:2018-01-10 Online:2018-10-20 Published:2018-10-20

摘要/Abstract

摘要：

本研究旨在对黔北麻羊肌细胞增强因子2D（myocyte enhancer factor 2D，MEF2D）基因的多态位点进行筛选及生物信息学分析。根据GenBank中山羊MEF2D基因序列（登录号：NC_030810），应用Primer Premier 5.0软件设计引物，运用混合DNA池结合PCR产物直接测序分析黔北麻羊MEF2D蛋白第2~6外显子序列多态性，构建系统进化树，并利用生物信息学软件对黔北麻羊MEF2D蛋白进行理化性质、疏水性、跨膜结构、信号肽和二级结构分析。结果显示，共筛选出3个SNPs：Exon3-G17617A、Exon5-C20180A和Exon5-C20259T。系统进化树分析显示，黔北麻羊和黄牛的亲缘性最近，与野猪和人的亲缘关系较近，与褐家鼠和小家鼠的亲缘关系较远。蛋白理化性质分析显示，黔北麻羊MEF2D蛋白理论等电点为7.74，亲水值最小为-2.867，疏水值最大为1.933，为非跨膜蛋白，无信号肽。二级结构显示，Exon5-C20180A突变导致黔北麻羊MEF2D蛋白质二级结构中α-螺旋和延伸链增加，β-转角和无规则卷曲减少。本研究成功筛选出黔北麻羊MEF2D基因多态位点，为研究黔北麻羊育种的分子遗传标记辅助选择奠定基础。

关键词: 黔北麻羊; MEF2D基因; 多态性; 生物信息学

Abstract:

This study was aimed to screen the polymorphism of myocyte enhancer factor 2D(MEF2D) gene in Qiabbei Ma goat,and analyze the genetic structure by bioinformatics method.Primers were designed according to Capra hircus MEF2D gene sequence in GenBank (accession No.:NC_030810),the mixed DNA pool and PCR products combined with direct sequencing were used to obtain the polymorphisms of exons 2,3,4,5 and 6 of MEF2D gene,the phylogenetic tree of MEF2D gene,physicochemical properties,hydrophobicity,transmembrane structure,signal peptide and secondary structure of MEF2D protein in Qianbei Ma goat were analyzed using bioinformatics analysis software.The results showed that three SNPs were screened,namely Exon3-G17617A,Exon5-C20180A and Exon5-C20259T.Phylogenetic tree analysis showed that the genetic relationship were most closed between Qianbei Ma goat and Bos taurus,and were more closely related to Sus scrofa and Homo sapiens than Rattus norvegicus and Mus musculus.Protein physical and chemical properties analysis showed that the theoretical isoelectric point of MEF2D protein was about 7.74,the minimum value of hydrophilicity was -2.867,the maximum value of hydrophobicity was 1.933,which was not a transmembrane protein and no signal peptide existed.The secondary structure showed that the increase of α-helix and extended chain,the decrease of β-turn and random coil of MEF2D protein Exon5-C20180A in Qianbei Ma goat.This result indicated that the polymorphism of MEF2D gene in Qiabbei Ma goat was successfully screened,which provided a foundation for the study of molecular genetic marker-assisted selection in breeding of Qianbei Ma goat.

Key words: Qianbei Ma goat; MEF2D gene; polymorphism; bioinformatics

中图分类号:

S813.3

罗铮, 翁吉梅, 封竣琪, 徐伟, 黄兰, 罗卫星, 蔡惠芬. 黔北麻羊MEF2D基因多态性及生物信息学分析[J]. 《中国畜牧兽医》, 2018, 45(10): 2661-2669.

LUO Zheng, WENG Jimei, FENG Junqi, XU Wei, HUANG Lan, LUO Weixing, CAI Huifen. Polymorphism and Bioinformatic Analysis of MEF2D Gene in Qianbei Ma Goat[J]. , 2018, 45(10): 2661-2669.

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黔北麻羊MEF2D基因多态性及生物信息学分析

Polymorphism and Bioinformatic Analysis of MEF2D Gene in Qianbei Ma Goat

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