Phylogenetic congruence, conflict and consilience between molecular and morphological data.
Phylogenetic congruence, conflict and consilience between molecular and morphological data.
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DOI：
10.1186/s12862-023-02131-z
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发表时间：
2023-07-05
影响因子：
2.2
通讯作者：
中科院分区：
文献类型：
--
作者：
形态学和分子是估计进化关系的重要数据来源。现代研究经常在组合分析中利用形态学和分子分区。然而，结合表型和基因组分区的效果尚不清楚。这是加剧了他们的大小不平衡，并在使用形态特征时，不同的推理方法的效力冲突。为了系统地解决拓扑不一致，大小不平衡和树推断方法的影响，我们进行了荟萃分析的32个组合（分子+形态学）数据集跨后生动物。我们的研究结果表明，形态分子拓扑不一致是普遍的：这些数据分区产生非常不同的树，无论哪种方法用于形态推断。对组合数据的分析通常产生独特的树，这些树不是由任一分区单独采样的，即使包含相对少量的形态特征。形态学推理方法在分辨率和一致性方面的差异主要与共识方法有关。此外，垫脚石贝叶斯因子分析表明，形态和分子分区是不一致的组合，即数据分区并不总是最好的解释下一个单一的进化过程。鉴于这些结果，我们建议，形态和分子数据分区之间的一致性需要考虑在联合分析。尽管如此，我们的研究结果表明，对于大多数数据集，形态学和分子可以而且应该结合起来，以最好地估计进化历史，并揭示隐藏的支持新的关系。仅分析孤立的表型或基因组数据的研究不太可能提供完整的进化图景。在线版本包含补充材料，可通过10.1186/s12862-023-02131-z获得。
Morphology and molecules are important data sources for estimating evolutionary relationships. Modern studies often utilise morphological and molecular partitions alongside each other in combined analyses. However, the effect of combining phenomic and genomic partitions is unclear. This is exacerbated by their size imbalance, and conflict over the efficacy of different inference methods when using morphological characters. To systematically address the effect of topological incongruence, size imbalance, and tree inference methods, we conduct a meta-analysis of 32 combined (molecular + morphology) datasets across metazoa. Our results reveal that morphological-molecular topological incongruence is pervasive: these data partitions yield very different trees, irrespective of which method is used for morphology inference. Analysis of the combined data often yields unique trees that are not sampled by either partition individually, even with the inclusion of relatively small quantities of morphological characters. Differences between morphology inference methods in terms of resolution and congruence largely relate to consensus methods. Furthermore, stepping stone Bayes factor analyses reveal that morphological and molecular partitions are not consistently combinable, i.e. data partitions are not always best explained under a single evolutionary process. In light of these results, we advise that the congruence between morphological and molecular data partitions needs to be considered in combined analyses. Nonetheless, our results reveal that, for most datasets, morphology and molecules can, and should, be combined in order to best estimate evolutionary history and reveal hidden support for novel relationships. Studies that analyse only phenomic or genomic data in isolation are unlikely to provide the full evolutionary picture. The online version contains supplementary material available at 10.1186/s12862-023-02131-z.
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影响因子：
2.8
作者：
Dohrmann M;Kelley C;Kelly M;Pisera A;Hooper JNA;Reiswig HM
通讯作者：
Reiswig HM
影响因子：
4.8
作者：
Forthman, Michael;Weirauch, Christiane
通讯作者：
Weirauch, Christiane
DOI：
10.2307/2413326
发表时间：
1985-01-01
期刊：
SYSTEMATIC ZOOLOGY
影响因子：
--
作者：
ESTABROOK, GF;MCMORRIS, FR;MEACHAM, CA
通讯作者：
MEACHAM, CA
影响因子：
2.2
作者：
Cruz-Lopez, Jesus A.;Francke, Oscar F.
通讯作者：
Francke, Oscar F.
影响因子：
3.7
作者：
Arenas M
通讯作者：
Arenas M