Pika and vole mitochondrial genomes increase support for both rodent monophyly and glires
Pika and vole mitochondrial genomes increase support for both rodent monophyly and glires
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DOI：
10.1016/s0378-1119(02)00695-9
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发表时间：
2002-07-10
期刊：
影响因子：
3.5
通讯作者：
Penny, D
中科院分区：
文献类型：
--
作者：
Lin, YH;Waddell, PJ;Penny, D
报告了一只鼠兔(Ochotona Collaris)和一只投票鼠(Volemys Kikuchii)的完整线粒体基因组，然后与其他35个哺乳动物线粒体基因组一起进行了分析。用标准的系统发育方法，鼠兔与其他鼠形动物(兔子)相连，田鼠与其他鼠类(大鼠和小鼠)相连。此外，不包括刺猬，这七个啮齿动物基因组在无根胎盘树中一致地形成一个同质组。除了树鼠的位置不确定外，一致发现的是枝状Glires(单系啮齿动物加长尾轮虫)。由ProML(蛋白质最大似然，MOLPHY中的一个程序)获得的无根树与哺乳动物的重新分类相兼容。比奥尔。48，1-5(1999)]这也得到了最近的其他研究的支持。然而，当这棵树以有袋类和鸭嘴兽为根时，外群往往会加入到导致三种啮齿动物的谱系中，因此啮齿动物不再是单系进化。除了错位根部，外群的存在也扭曲了无根树的其他部分。要么限制树以维持啮齿动物的单系进化，要么省略Murids，维持内群树，并看到外群在边缘连接到Xenarthra，Afotheria，或这两个组在一起。这就强调了既要进行无根基的分析，又要有根基的分析的重要性。从癌症研究中得知，小鼠在某些DNA修复机制中的活性降低，这改变了它们的替代模式--这可能也是线粒体DNA的情况。比较核苷酸组成可以识别在DNA修复机制方面不同的分类群。(C)2002 Elsevier Science B.V.保留所有权利。
Complete mitochondrial genomes are reported for a pika (Ochotona collaris) and a vote (Volemys kikuchii) then analysed together with 35 other mitochondrial genomes from mammals. With standard phylogenetic methods the pika joins with the other lagomorph (rabbit) and the vole with the other murid rodents (rat and mouse). In addition, with hedgehog excluded, the seven rodent genornes consistently form a homogeneous group in the unrooted placental tree. Except for uncertainty of the position of tree shrew, the clade Glires (monophyletic rodents plus lagornorphs) is consistently found. The unrooted tree obtained by ProfML (Protein Maximum Likelihood, a program in MOLPHY) is compatible with a reclassification of mammals [Syst. Biol. 48, 1-5 (1999)] which is also supported by other recent studies. However, when this tree is rooted with marsupials plus platypus, the outgroup often joins the lineage leading to the three murid rodents, so the rodents are no longer monophyletic. Apart from misplacing the root, the presence of the outgroups also distorts other parts of the unrooted tree. Either constraining the tree to maintain rodents monophyletic, or omitting murids, maintains the ingroup tree and sees the outgroup join on the edge to Xenarthra, to Afrotheria, or to these two groups together. This emphasises the importance of carrying out both an unrooted and a rooted analysis. It is known from cancer research that murid rodents have reduced activity in some DNA repair mechanisms and this alters their substitution pattern - this may be the case for mitochnodrial DNA as well. Comparing nucleotide compositions may identify taxa that differ in aspects of their DNA repair mechanisms. (C) 2002 Elsevier Science B.V. All rights reserved.