Phylogenetic approaches for the analysis of mitochondrial genome sequence data in the Hymenoptera - A lineage with both rapidly and slowly evolving mitochondrial genomes
Phylogenetic approaches for the analysis of mitochondrial genome sequence data in the Hymenoptera - A lineage with both rapidly and slowly evolving mitochondrial genomes
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DOI：
10.1016/j.ympev.2009.04.001
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发表时间：
2009-08-01
影响因子：
4.1
通讯作者：
Whiting, Michael F.
中科院分区：
文献类型：
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作者：
Dowton, Mark;Cameron, Stephen L.;Whiting, Michael F.
我们完全测序了两个新的膜翅目线粒体基因组（Cephus cinctus和Orussus occidentalis），以及另外三个膜翅目（Schlettererius cincipes， Venturia canescens和Enicospilus）的大部分基因组。我们将它们与文献中报道的其他九例一起分析。我们发现，某些膜翅目昆虫的遗传分化率是其他昆虫的两到三倍，使其成为一个既长又短的系统发育分支的群体。然后，我们评估了一系列系统发育方法的能力，以恢复七种无争议的关系，当谱系显示明显不同的分子进化速率。该范围包括最大简约性和贝叶斯分析(i)氨基酸数据，（ii）核苷酸数据，（iii）不包括第三个密码子位置的核苷酸数据。将未分区分析与分区分析进行比较，数据按密码子位置进行分区（核糖体基因放置在单独分区中）。这些分析表明，对核苷酸数据（不包括第3密码子位置）进行分割的贝叶斯分析，比任何其他方法都能恢复更多的无争议关系。这些结果表明，全线粒体基因组序列的分析有希望解决膜翅目超家族关系。(C) 2009爱思唯尔公司版权所有。
We entirely sequenced two new hymencipteran mitochondrial genomes (Cephus cinctus and Orussus occidentalis), and a substantial portion of another three hymenopterans (Schlettererius cinctipes, Venturia canescens, and Enicospilus). We analyze them together with nine others reported in the literature. We establish that the rate of genetic divergence is two to three times higher among some Hymenoptera when compared with others, making this a group with both long and short phylogenetic branches. We then assessed the ability of a range of phylogenetic approaches to recover seven uncontroversial relationships, when lineages show markedly different rates of molecular evolution. This range encompassed maximum parsimony and Bayesian analysis of (i) amino acid data, (ii) nucleotide data, and (iii) nucleotide data excluding third codon positions. Unpartitioned analyses were compared with partitioned analyses, with the data partitioned by codon position (ribosomal genes were placed in a separate partition). These analyses indicated that partitioned, Bayesian analysis of nucleotide data, excluding 3rd codon positions, recovered more of the uncontroversial relationships than any other approach. These results suggest that the analysis of complete mitochondrial genome sequences holds promise for the resolution of hymenopteran superfamily relationships. (C) 2009 Elsevier Inc. All rights reserved.