Increasing the data size to accurately reconstruct the phylogenetic relationships between nine subgroups of the Drosophila melanogaster species group (Drosophilidae, Diptera)
Increasing the data size to accurately reconstruct the phylogenetic relationships between nine subgroups of the Drosophila melanogaster species group (Drosophilidae, Diptera)
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DOI：
10.1016/j.ympev.2011.09.018
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发表时间：
2012-01-01
影响因子：
4.1
通讯作者：
Zeng, Qing-Tao
中科院分区：
文献类型：
--
作者：
Yang, Yong;Hou, Zhuo-Cheng;Zeng, Qing-Tao
尽管人们多次尝试解决罗萨莱斯主要分支之间的进化关系，但一些节点仍然存在极大的问题并且仍未得到解决。在这项研究中，我们使用两个核基因座和 10 个质体基因座来推断 Rosales 所有 9 个家族之间的系统发育关系。罗萨莱斯被强烈支持为单系群；在罗萨莱斯内部，所有家庭关系都得到了很好的支持，蔷薇科姐妹是该目中所有其他成员的姐妹。其余的蔷薇科可分为两个分支：（1）榆科是大麻科加（荨麻科+桑科）的姐妹； (2) 鼠李科是胡颓子科的姊妹科（Barbeyaceae + Dirachmaceae）。一个值得注意的结果是，我们首次有力地支持了神秘的 Dirachmacaceae 和 Barbeyaceae 之间的姐妹关系。这两个小科具有不同的形态，潜在的共源性仍不清楚。未来的研究应该尝试鉴定将Barbeyaceae 与Dirachmacaceae 结合起来的非DNA 共性。 (C) 2011 Elsevier Inc. 保留所有权利。之前对黑腹果蝇物种组的系统发育分析导致了关于它们之间关系的相互矛盾的假设；因此，需要添加新的序列数据来发现该物种组的系统发育。在这里，我们提出了来自 17 个基因、代表 48 个物种的新数据，以重建变腹动物群体的系统发育。进行了各种统计测试以及最大似然图分析来评估数据质量，表明所有基因对解决系统发育都有高度贡献。使用最大似然（ML）分析单个基因座，并使用分区最大似然（ML）和贝叶斯分析分析串联数据集（12,988 bp）。单独的分析产生了各种系统发育关系，然而，基于串联数据集的机器学习和贝叶斯分析的系统发育拓扑在亚组水平上彼此完全相同，并且具有高水平的支持。我们的结果恢复了三个主要进化枝：ananassae亚群，其次是montium亚群，黑腹果蝇亚群和东方亚群形成第三个单系进化枝，其中黑腹果蝇（takahashii，suzukii）形成一个亚群，ficusphila [eugracilis（elegans，rhopaloa）]形成另一个亚群。然而，需要更多数据来确定果蝇的系统发育位置，但事实证明很难确定该位置。 (C) 2011 Elsevier Inc. 保留所有权利。
Despite many attempts to resolve evolutionary relationships among the major clades of Rosales, some nodes have been extremely problematic and have remained unresolved. In this study, we use two nuclear and 10 plastid loci to infer phylogenetic relationships among all nine families of Rosales. Rosales were strongly supported as monophyletic; within Rosales all family relationships are well-supported with Rosaceae sister to all other members of the order. Remaining Rosales can be divided into two subclades: (1) Ulmaceae are sister to Cannabaceae plus (Urticaceae + Moraceae); (2) Rhamnaceae are sister to Elaeagnaceae plus (Barbeyaceae + Dirachmaceae). One noteworthy result is that we recover the first strong support for a sister relationship between the enigmatic Dirachmaceae and Barbeyaceae. These two small families have distinct morphologies and potential synapomorphies remain unclear. Future studies should try to identify nonDNA synapomorphies uniting Barbeyaceae with Dirachmaceae. (C) 2011 Elsevier Inc. All rights reserved.Previous phylogenetic analyses of the melanogaster species group have led to conflicting hypotheses concerning their relationship; therefore the addition of new sequence data is necessary to discover the phylogeny of this species group. Here we present new data derived from 17 genes and representing 48 species to reconstruct the phylogeny of the metanogaster group. A variety of statistical tests, as well as maximum likelihood mapping analysis, were performed to estimate data quality, suggesting that all genes had a high degree of contribution to resolve the phylogeny.Individual locus was analyzed using maximum likelihood (ML), and the concatenated dataset (12,988 bp) were analyzed using partitioned maximum likelihood (ML) and Bayesian analyses. Separated analysis produced various phylogenetic relationships, however, phylogenetic topologies from ML and Bayesian analysis based on concatenated dataset, at the subgroup level, were completely identical to each other with high levels of support. Our results recovered three major clades: the ananassae subgroup, followed by the montium subgroup, the melanogaster subgroup and the oriental subgroups form the third monophyletic clade, in which melanogaster (takahashii, suzukii) forms one subclade and ficusphila [eugracilis (elegans, rhopaloa)] forms another. However, more data are necessary to determine the phylogenetic position of Drosophila lucipennis which proved difficult to place. (C) 2011 Elsevier Inc. All rights reserved.