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2025年4月5日 星期六
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鸿雁线粒体DNA全基因组序列测定及分析
穆春宇1,黄正洋1,陈阳1,王彬1,苏燕辉1,李洋1,孙志明2,徐琪3,赵文明1,陈国宏3
1. 扬州大学
2. 无锡动物园
3. 扬州大学动物科学与技术学院
Completely Sequencing and Gene Organization of the Anser cygnoides Mitochondrial Genome
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摘要 线粒体基因组(mitochondrial genome, mtDNA)具有进化速率快、多态性丰富、无重组、母系遗传等特点,是开展群体遗传学、系统发育学、分子生态学、分类学等研究的理想分子标记。本研究根据鸿雁(Anser cygnoides)同属近缘物种豆雁(Anser fabalis)线粒体全基因组序列(EU009397.1)设计引物,采用直接测序技术对鸿雁线粒体基因组全序列进行了综合分析,结果显示,鸿雁线粒体基因组序列(GenBank登录号: KJ124555)全长16 739 bp,包含22个tRNA、2个rRNA基因、13种蛋白质编码基因和一个D-loop区。碱基组成T占22.49%,C占32.24%,A占30.21%,G占15.06%,无明显的AT偏好性。22种tRNA都为典型的三叶草结构,参照原鸡(Gallus gallus)、黑尾地鸦(Podoces hendersoni)的12SrRNA,对鸿雁12SrRNA的二级结构进行了预测,含有4个结构域、37个茎环和13个突出部。对D-loop控制区序列分析发现,含有LSP/HSP、ETAS1-2、Goose hairpin、E-box、F-box、D-box、C-box、Bird similarity-box、CSB1-box、CSB-like和OH。以原鸡作为外群,采用邻接法(N-J)和最大拟然法(ML)算法以及贝叶斯法,基于线粒体基因组全序列分别构建系统进化树,结果显示,鸿雁与灰雁(Anser anser)、豆雁(Anser fabalis)、白额雁(Anser albifrons)和加拿大黑雁(Branta canadensis)处于一个分支,亲缘关系较近。该研究结果丰富了鸭科线粒体基因组全序列,为研究鸿雁的系统发生和分子进化研究以及种质资源保护和合理利用提供新的基础资料。
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作者相关文章
穆春宇
黄正洋
陈阳
王彬
苏燕辉
李洋
孙志明
徐琪
赵文明
陈国宏
关键词 线粒体全基因组鸿雁系统进化树    
Abstract:Mitochondrial genome (mtDNA) has advantages in rapid evolution, rich polymorphism and maternally inheritance without gene recombinations, which has become an ideal molecular markers of population genetics, phylogenetics, molecular ecology and taxonomy. In this study, the primers were designed based on the mitochondrial genome sequence of Bean goose (Anser fabalis) which was a closely related species of Swan goose (Anser cygnoides). Swan goose mitochondrial genome sequence was analysed by direct sequencing techniques. The results showed that whole mitochondrial genome sequence was 16 739 bp(GenBank accession No. KJ124555) in Swan goose, including 22 tRNA genes, 2 rRNA genes, 13 protein-coding genes and a D-loop region. Base composition of T, C, A and G were 22.49%, 32.24%, 30.21% and 15.06%, respectively. Besides, the base preference of AT was not determined. 22 kinds of tRNA were all typically cloverleaf structures. Compared to 12SrRNA of Red Junglefowl (Gallus gallus) and Mongolian Ground Jay (Podoces hendersoni), we found the secondary structure of 12SrRNA included 4 domains, 37 stem-loops and 13 salients in the Swan goose, and LSP/HSP, ETAS1-2, goose hairpin, E-box, F-box, D-box, C-box, Bird similarity-box, CSB1-box, CSB-like and OH in the D-loop control region. Finally, taken Red Junglefowl as an outgroup, the phylogenetic tree was constructed based on mitochondrial genome sequences using Neighbor-joining (N-J) algorithm, Maxium-likelihood (ML) algorithm and Bayesian model. The results showed that Swan goose, Greylag goose, Bean goose, white-fronted goose and Canada goose had close genetic relationship. The findings enrich the ducks mitochondrial genome sequences and provide a theoretical basis for the study of geese phylogeny.
Key wordsMitochondrial genome    Anser cygnoides    Phylogenetic tree
收稿日期: 2014-03-24     
通讯作者: 陈国宏   
引用本文:   
穆春宇1,黄正洋1,陈阳1,王彬1,苏燕辉1,李洋1,孙志明2,徐琪3,赵文明1,陈国宏3. 鸿雁线粒体DNA全基因组序列测定及分析[J]. , 2014, 22(12): 1482-1493.
链接本文:  
http://journal05.magtech.org.cn/Jwk_ny/CN/     或     http://journal05.magtech.org.cn/Jwk_ny/CN/Y2014/V22/I12/1482
 
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