《中国畜牧兽医》 ›› 2019, Vol. 46 ›› Issue (5): 1439-1446.doi: 10.16431/j.cnki.1671-7236.2019.05.022

• 遗传繁育 • 上一篇    下一篇

基于线粒体DNA D-loop区全序列分析儋州鸡遗传多样性及其起源进化关系

李义书, 侯冠彧, 曹婷, 施力光, 周汉林, 周雄   

  1. 中国热带农业科学院热带作物品种资源研究所, 儋州 571737
  • 收稿日期:2018-08-07 出版日期:2019-05-20 发布日期:2019-05-20
  • 作者简介:李义书(1982-),男,海南万宁人,硕士,高级畜牧师,研究方向:畜禽遗传资源和健康养殖,E-mail:liyishu2819@163.com
  • 基金资助:

    海南省自然科学基金面上项目(318MS100);中国热带农业科学院基本科研业务费专项资金(1630032017061、1630032017030)

Genetic Diversity and Evolution of Danzhou Chicken Assessed with Mitochondrial Complete DNA D-loop Region Sequencing

LI Yishu, HOU Guanyu, CAO Ting, SHI Liguang, ZHOU Hanlin, ZHOU Xiong   

  1. Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences, Danzhou 571737, China
  • Received:2018-08-07 Online:2019-05-20 Published:2019-05-20

摘要:

为了研究儋州鸡的遗传多样性及其起源进化关系,本研究对36只儋州鸡样品的线粒体DNA (mtDNA) D-loop区全序列进行PCR扩增和测序,结合GenBank中公布的部分品种鸡的mtDNA D-loop区全序列,利用生物信息学方法进行数据处理,分析儋州鸡的遗传多样性及其起源进化关系。结果显示,儋州鸡mtDNA D-loop区扩增片段长度为1 210 bp,A+T含量为59.9%,C+G含量为40.1%,变异区在167~1 215 bp之间,高变区主要集中在167~367 bp之间,存在6种单倍型,共有20个变异位点,单倍型变异度(Hd)为0.571,平均核苷酸差异(k)为6.449,核苷酸多样度(Pi)为0.00537,中性检验的Tajima’s D值为1.61643,6种单倍型可分为A、B、C 3个世系,以B世系为主。研究结果表明,儋州鸡群体遗传多样性和单倍型多样性相对偏低,结合群体构建的系统进化树发现,儋州鸡的遗传组成来自3个母系祖先,缅甸红原鸡、爪哇红原鸡及红原鸡海南亚种均是其潜在的祖先,受外来鸡种影响较小,是一个较为封闭的原始鸡种。

关键词: 儋州鸡; 线粒体DNA(mtDNA); D-loop区; 遗传多样性; 起源

Abstract:

The objective of this study was to determine the genetic diversity and evolution of Danzhou chicken.The complete mitochondrial DNA (mtDNA) D-loop regions of 36 Danzhou chickens were amplified,sequenced and analyzed.The sequencing reads were compared with the complete mtDNA D-loop sequence of several relative strains of chicken annotated in GenBank,and analyzed by bioinformatics methods.The genetic diversity and its evolutionary relationship in Danzhou chicken were analyzed.The results showed that the lengths of PCR products at the D-loop region were 1 210 bp,with 59.9% being A+T and 40.1% as C+G.The variable regions were 167-1 215 bp,and the high variable regions were mainly 167-367 bp.A total of 20 variable sites that defined 6 haplotypes were identified.The average haplotype diversity (Hd) and average number of nucleotide difference (k) were 0.571 and 6.449,respectively,the nucleotide diversity (Pi) was 0.00537,and the Tajima's D value of neutrality test was 1.61643.6 haplotypes could be grouped to 3 haplogroups (A,B and C) as determined by phylogenic analysis,with B clade,as the most abundant population.It concluded that the genetic diversity and haplotype diversity of Danzhou chicken were relatively low.Phylogenetic tree showed that the genetic composition of Danzhou chicken came from 3 maternal ancestors,Gallus gallus spadiceus,Gallus gallus bankiva and Gallus gallus jabouillei were potential ancestors.There was few influence of exotic lineage detected,which indicated that Danzhou chicken was a relatively conserved breed.

Key words: Danzhou chicken; mtDNA; D-loop region; genetic diversity; origin

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