中国地方猪种线粒体基因组遗传多样性及其系统发育分析

doi:10.16431/j.cnki.1671-7236.2017.08.021

《中国畜牧兽医》 ›› 2017, Vol. 44 ›› Issue (8): 2360-2368.doi: 10.16431/j.cnki.1671-7236.2017.08.021

中国地方猪种线粒体基因组遗传多样性及其系统发育分析

胡慧艳¹, 贾青^1,2,3, 刘津¹, 侯胜奎¹, 赵思思¹, 张伟峰⁴

1. 河北农业大学动物科技学院, 保定 071000;
2. 国家北方山区农业工程技术研究中心, 保定 071000;
3. 河北省山区农业工程技术研究中心, 保定 071000;
4. 河北工程大学生命科学与食品工程学院, 邯郸 056000

收稿日期:2017-03-20 出版日期:2017-08-20 发布日期:2017-08-18
通讯作者: 贾青 E-mail:jiaqing@hebau.edu.cn
作者简介:胡慧艳(1989-),女,河北石家庄人,博士生,研究方向:动物遗传育种与繁殖,E-mail:huhuiyan315@163.com
基金资助:
河北省现代农业产业技术体系专项（HBCT2013070202）

Genetic Diversity and Phylogenetic Relationships of the Complete Mitochondrial Genome in Chinese Indigenous Pig Breeds

HU Hui-yan¹, JIA Qing^1,2,3, LIU Jin¹, HOU Sheng-kui¹, ZHAO Si-si¹, ZHANG Wei-feng⁴

1. College of Animal Science and Technology, Agricultural University of Hebei, Baoding 071000, China;
2. National Engineering Research Center for Agriculture in Northern Mountainous Areas, Baoding 071000, China;
3. Engineering Research Center for Agriculture in Hebei Mountainous Areas, Baoding 071000, China;
4. School of Life Science and Food Engineering, Engineering University of Hebei, Handan 056000, China

Received:2017-03-20 Online:2017-08-20 Published:2017-08-18

摘要/Abstract

摘要：

为从分子水平上探究中国地方猪种遗传多样性和分类地位，本试验采用生物信息学方法比较了6个类型共22个中国地方猪种的线粒体基因组全序列，分析了其多态性，并构建了6个类型猪种线粒体D-loop区单倍型的网络中介图以及基于线粒体D-loop序列、Cytb基因、完整编码区序列的系统进化树。结果表明，6个类型22个猪种中共检测到了144个多态位点，22种单倍型，说明地方猪种具有丰富的遗传多样性；地方猪线粒体基因组序列中核苷酸变异以转换为主，且Ti/Tv大于转换/颠换比临界值（2.0），变异位点均符合中性突变。6个类型猪种间遗传距离均较小，且有共享单倍型。系统进化树结果表明，6种类型地方猪种主要聚为两个支系。表明线粒体D-loop序列及Cytb基因均可作为研究种内系统发育、起源进化的分子标记。

关键词: 中国地方猪; 线粒体DNA; 遗传多样性; 系统进化

Abstract:

In order to explore the genetic diversity and the classification status of the Chinese domestic pigs at the molecular level, the complete mitochondrial DNA (mtDNA) genomic sequences of 22 Chinese indigenous pig breeds from 6 types were downloaded from GenBank for the analysis using the bioinformatics method. The polymorphism of nucleic acid sequences was analyzed,the molecular phylogenetic tree based on D-loop sequences, Cytb gene, complete coding region mtDNA sequences and the Median-Joining network of the mtDNA D-loop haplotypes were constructed for 22 pig breeds from 6 types. The results showed that a total of 144 mutation sites among 22 pig breeds were detected, 22 haplotypes were discovered, which indicated that Chinese indigenous pig breeds had abundant genetic diversity. According to the complete mtDNA genomic sequences analysis, which suggested that the main mutations was transition, the transition/transversion ratio was greater than 2.0 and all mutations were in line with the neutral mutation. Our findings clearly demonstrated that there was a near genetic distance among 6 types, meanwhile, the shared haplotypes were found. The phylogenetic tree showed that Chinese indigenous pigs from 6 types were diverged from two ancestors.The results indicated that mtDNA D-loop and Cytb gene might serve as molecular markers for phylogenesis, origin and evolution.

Key words: Chinese indigenous pigs; mitochondrial DNA; genetic diversity; phylogenetic evolution

中图分类号:

S828

胡慧艳, 贾青, 刘津, 侯胜奎, 赵思思, 张伟峰. 中国地方猪种线粒体基因组遗传多样性及其系统发育分析[J]. 《中国畜牧兽医》, 2017, 44(8): 2360-2368.

HU Hui-yan, JIA Qing, LIU Jin, HOU Sheng-kui, ZHAO Si-si, ZHANG Wei-feng. Genetic Diversity and Phylogenetic Relationships of the Complete Mitochondrial Genome in Chinese Indigenous Pig Breeds[J]. , 2017, 44(8): 2360-2368.

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中国地方猪种线粒体基因组遗传多样性及其系统发育分析

Genetic Diversity and Phylogenetic Relationships of the Complete Mitochondrial Genome in Chinese Indigenous Pig Breeds

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