山鹧鸪属鸟类线粒体基因组的比较及系统发育研究

doi:10.3724/SP.J.1005.2014.0912

遗传 ›› 2014, Vol. 36 ›› Issue (9): 912-920.doi: 10.3724/SP.J.1005.2014.0912

山鹧鸪属鸟类线粒体基因组的比较及系统发育研究

李雪娟¹, 黄原¹, 雷富民²

1. 陕西师范大学生命科学学院,西安 710062; 2. 中国科学院动物研究所动物进化与系统学院重点实验室,北京 100101

收稿日期:2014-03-14 出版日期:2014-09-20 发布日期:2014-09-20
通讯作者: 黄原,教授,博士生导师,研究方向：分子进化与分子系统学。E-mail: yuanh@snnu.edu.cn E-mail:lixuejuan456@163.com
作者简介:李雪娟,博士研究生,研究方向：分子进化生物学。
基金资助:
国家杰出青年科学基金(编号：30925008)和中国科学院动物进化与系统学重点实验室开放课题(编号：O529YX5105)

Comparative and phylogenomic analyses on mitochondrial genomes of Arborophila species

Xuejuan Li¹, Yuan Huang¹, Fumin Lei²

1. School of Life Sciences, Shaanxi Normal University, Xi’an 710062, China; 2. Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, China

Received:2014-03-14 Online:2014-09-20 Published:2014-09-20

摘要/Abstract

摘要： 海南山鹧鸪(Arborophila ardens)对生境选择比较严格,种群数量稀少,属于濒危物种。为进一步研究山鹧鸪属的进化和系统发育关系,文章利用Illumina Hiseq2000高通量测序技术获得了海南山鹧鸪线粒体全基因组序列,从比较基因组学角度分析了4种山鹧鸪鸟类的线粒体基因组特征,并探讨了山鹧鸪属鸟类的系统发育地位。研究结果表明：(1) 海南山鹧鸪线粒体基因组长度为16 730 bp,编码13个蛋白质编码基因、2个核糖体RNA基因、22个转运RNA基因以及1个控制区;(2) 山鹧鸪属物种受到了纯化选择的作用,且在进化过程中积累了更多的非同义替换;(3) 山鹧鸪属位于雉科鸟类系统树的基部位置,其中白眉山鹧鸪与红喉山鹧鸪互为姐妹群,海南山鹧鸪位于山鹧鸪属的基部位置,与其他3种山鹧鸪鸟类的亲缘关系较远。

关键词: 海南山鹧鸪, 线粒体基因组, 比较基因组学, 系统发育

Abstract: Arborophila ardens, an endangered species, has a strict habitat preference and sparse population. In order to further study evolution and phylogenetic relationship of Arborophila, the mitochondrial genome (mitogenome) of A. ardens was obtained by Illumina Hiseq2000 high-throughput sequencing. The comparative genomic analyses were made among four Arborophila species, and phylogenetic relationship of Arborophila was discussed. The results revealed that: (1) the complete mitogenome of A. ardens is 16 730 bp in length, including 13 protein-coding genes (PCGs), two ribosomal RNA genes (rRNAs), 22 transfer RNA genes (tRNAs) and a control region (CR); (2) Arborophila species were affected by purifying selection, and more nonsynonymous substitutions were accumulated in the process of evolution; (3) Arborophila was at the basal position of Phasianidae within the phylogenetic tree, and A. gingica was placed as sister to A. rufogularis, while A. ardens formed the basal position of Arborophila, which indicated a distant genetic relationship with other three species.

Key words: mitochondrial genome, comparative genomics, phylogeny

李雪娟, 黄原, 雷富民. 山鹧鸪属鸟类线粒体基因组的比较及系统发育研究[J]. 遗传, 2014, 36(9): 912-920.

Xuejuan Li, Yuan Huang, Fumin Lei. Comparative and phylogenomic analyses on mitochondrial genomes of Arborophila species[J]. HEREDITAS(Beijing), 2014, 36(9): 912-920.

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48 附表1 海南山鹧鸪线粒体基因组PCR扩增引物
49 续附表1
50 附表2 海南山鹧鸪线粒体基因组组成
51 续附表2

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Comparative and phylogenomic analyses on mitochondrial genomes of Arborophila species

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