Bayesian mixed models and the phylogeny of pitvipers (Viperidae: Serpentes)
Bayesian mixed models and the phylogeny of pitvipers (Viperidae: Serpentes)
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DOI：
10.1016/j.ympev.2005.12.014
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发表时间：
2006-04-01
影响因子：
4.1
通讯作者：
Parkinson, CL
中科院分区：
文献类型：
--
作者：
Castoe, TA;Parkinson, CL
响尾蛇亚科（pitvipers）包含190多种毒蛇，分布在旧大陆和新大陆。我们纳入了广泛的采样类群（包括28的29属），和序列的4个线粒体基因片段（2.3 kb）每一个人，最大简约和贝叶斯系统发育方法的基础上估计pitvipers的hepatogeny。我们的贝叶斯分析纳入了复杂的混合模型的核苷酸进化，分配独立的模型，以各种。在组合分析中对数据集进行分区。我们比较了未分区与分区贝叶斯分析的结果，以调查有多少未分区（与分区）模型被迫妥协模型参数的估计，以及复杂的模型是否实质上改变系统发育的结论，他们似乎提取更多的系统发育信号比简单的模型。我们的研究结果表明，复杂的模型确实从数据中提取了更多的系统发育信号。我们还讨论了系统发育结果的差异（例如，从简单与复杂模型获得的二分后验概率）可以根据相对可信度来解释。我们的估计pitviper生殖表明，几乎所有最近提出的属重新分配似乎有效，虽然某些旧的和新的世界属（Ovophis，竹叶青蛇属，Bothrops）仍然多或并系，需要进一步的分类修订。虽然大多数节点被解决，我们不能自信地估计新世界属之间的基础关系，旧世界物种的血统是最密切相关的新世界组。(c)2006年爱思唯尔公司All rights reserved.
The subfamily Crotalinae (pitvipers) contains over 190 species of venomous snakes distributed in both the Old and New World. We incorporated an extensive sampling of taxa (including 28 of 29 genera), and sequences of four mitochondrial gene fragments (2.3 kb) per individual, to estimate the phylogeny of pitvipers based on maximum parsimony and Bayesian phylogenetic methods. Our Bayesian analyses incorporated complex mixed models of nucleotide evolution that allocated independent models to various. partitions of the dataset within combined analyses. We compared results of unpartitioned versus partitioned Bayesian analyses to investigate how much unpartitioned (versus partitioned) models were forced to compromise estimates of model parameters, and whether complex models substantially alter phylogenetic conclusions to the extent that they appear to extract more phylogenetic signal than simple models. Our results indicate that complex models do extract more phylogenetic signal from the data. We also address how differences in phylogenetic results (e.g., bipartition posterior probabilities) obtained from simple versus complex models may be interpreted in terms of relative credibility. Our estimates of pitviper phylogeny suggest that nearly all recently proposed generic reallocations appear valid, although certain Old and New World genera (Ovophis, Trimeresurus, and Bothrops) remain poly- or paraphyletic and require further taxonomic revision. While a majority of nodes were resolved, we could not confidently estimate the basal relationships among New World genera and which lineage of Old World species is most closely related to this New World group. (c) 2006 Elsevier Inc. All rights reserved.