Mitochondrial Genomic Analysis of the Percomorph Fish Phytogenies : Resolving Polytomies Using Large Datasets

Percomorph 鱼类植物发育的线粒体基因组分析：使用大型数据集解决多部分分离问题

基本信息

批准号：
15570090
负责人：
MIYA Masaki
金额：
$ 2.37万
依托单位：
Natural History Museum and Institute, Chiba
依托单位国家：
日本
项目类别：
Grant-in-Aid for Scientific Research (C)
财政年份：
2003
资助国家：
日本
起止时间：
2003 至 2004
项目状态：
已结题

项目摘要

A series of recent molecular phylogenetic studies based on whole mitochondrial genome (mitogenome) sequences (Inoue et al.,2003a, b, 2004 ; Ishiguro, Miya & Nishida,2003 ; Miya et al., 2003 ; Saitoh et al., 2003), however, have shed a new light on our concepts of actinopterygian higher-level relationships. These six mitogenomic studies plus previous pioneering works (Chang, Huang & Lo, 1994 ; Johansen & Bakke, 1996,Miya & Nishida,1999,2000b ; Noack, Zardoya & Meyer,1996 ; Saitoh et al., 2000 ; Tzeng et al., 1992 ; Zardoya, Garrido-Pertierra & Bautista,1995) together sampled all major lineages of actinopterygians at the ordinal level, with their data sets partially overlapping each other. Also they were all based on the same sets of strictly homologous characters, with no potential for paralogous comparisons among sampled genes owing to ancient genome duplication (Martin & Burg,2002) as recently suggested for actinopterygian nuclear genomes (e.g., Taylor et al., 2003 ; Van de Peer, Tayl … More or & Meyer,2003). In addition, it should be noted that the resultant phylogenies were well resolved and many basal clades received high statistical support irrespective of analytical methods (see Simmons & Miya, 2004). Accordingly the whole mitogenome sequences have afforded a new comprehensive perspective on the higher-level relationships of actinopterygians, portions of which have been supported by recent molecular phylogenetic studies based on different markers (Chen, Bonillo & Lecointre,2003 ; Wiley, Johnson & Dimmick,2000). Exception to this is relationships of the Percomorpha, known as "bush at the top of the tree"(Nelson, 1989).In this study, I attempted at resolving relationships of the Percomorpha based on the whole mitochondrial genome sequences. First I successfully demonstrated a phylogenetic position of toadfish (order Batrachoidiformes) using whole mitochondrial genome sequences from 102 actinopterygians (Miya et al., 2005). I am further analyzing large datasets comprising 336 actinopterygians to correctly determine limits of the Percomorpha and resolve their intrarelationships. The analyses have been conducted using two parallel computing systems and will be finished within this year. Less

一系列基于整个线粒体基因组（有丝分裂组）序列的一系列分子系统发生研究（Inoue等，2003a，2003a，b，2004; Ishiguro，Miya＆Nishida，2003; Miya＆Nishida，2003; Miya et al。，2003; Saitoh等，2003，2003），但在我们的概念上，已经宣传了Actians的概念。这六个有丝分裂基因组研究加上先前的开创性工作（Chang，Huang＆Lo，1994; Johansen＆Bakke，1996; Miya＆Nishida，1999，2000b; Noack，Zardoya＆Meyer，1996; Saitoh et al。 Actinopterygians的谱系在有序级别，其数据集部分相互重叠。 Also they were all based on the same sets of strictly homologous characters, with no Potential for paralogous comparisons among sampled genes owing to ancient genome duplication (Martin & Burg, 2002) as recently suggested for actinopterygian nuclear genomes (e.g., Taylor et al., 2003; Van de Peer, Tayl … More or & Meyer, 2003).此外，应注意的是，所得的系统发育良好，并且许多基本进化枝获得了高统计支持，而与分析方法无关（参见Simmons＆Miya，2004年）。根据整个有丝分裂组的序列，对actinopterygians的高层关系提供了新的综合观点，其中一部分得到了基于不同标记的近期分子系统发育研究的支持（Chen，Bonillo＆Lecointre，2003; Wiley，Johnson＆Dimmick，2000）。除此之外，percomorpha的关系，被称为“树顶的灌木丛”（Nelson，1989）。在这项研究中，我尝试根据整个线粒体基因组序列来解决percomorpha的关系。首先，我使用来自102个actinopterygians的整个线粒体基因组序列成功地证明了蟾蜍（Batrachoideses）的系统发育位置（Miya等，2005）。我进一步分析了完成336个actinopterygians的大型数据集，以正确确定percomorpha的限制并解决其内部关系。分析已使用两个并行计算系统进行，并将在今年内完成。较少的