Phylogenomic data reveal reticulation and incongruence among mitochondrial candidate species in Dusky Salamanders (Desmognathus)
Phylogenomic data reveal reticulation and incongruence among mitochondrial candidate species in Dusky Salamanders (Desmognathus)
复制标题
系统基因组数据揭示暗色蝾螈（Desmognathus）线粒体候选物种之间的网状和不一致
DOI：
10.1016/j.ympev.2020.106751
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发表时间：
2020
影响因子：
4.1
通讯作者：
Beamer, David A.
中科院分区：
文献类型：
--
作者：
Pyron, R. Alexander;O'Connell, Kyle A.;Lemmon, Emily Moriarty;Lemmon, Alan R.;Beamer, David A.
进化上不同的谱系之间的基因流动越来越被认为是一种常见的现象。这样的过程扭曲了我们诊断和划分物种的能力，也混淆了估计系统发育关系的尝试。一个突出的例子是暗色蝾螈（Desmognathus），一个常见的生态学，进化和行为的模型系统。仅描述了22种，其中7种是在过去的40年中。然而，线粒体数据集表明，存在多达45个“候选物种”和多个并系类群，呈现出复杂的网状历史。一些作者甚至认为，在该群体中寻找物种边界可能是徒劳的。在这里，我们分析了核和线粒体数据，其中包含161个人从至少49个不同的进化谱系，我们作为候选物种对待。串联和种树的方法不估计完全解决这些类群之间的关系。比较拓扑结构和应用方法估计系统发育网络，我们发现强有力的支持，在整个历史上的组杂交的许多实例。我们认为，这些过程可能比以前认为的更常见，在整个物种地理学-遗传学连续体，而搜索物种边界inDesmognathus可能不会是徒劳的，它会复杂的因素，如crypsis，并行性，和基因流。
Gene flow between evolutionarily distinct lineages is increasingly recognized as a common occurrence. Such processes distort our ability to diagnose and delimit species, as well as confound attempts to estimate phylogenetic relationships. A conspicuous example is Dusky Salamanders (Desmognathus), a common model-system for ecology, evolution, and behavior. Only 22 species are described, 7 in the last 40 years. However, mitochondrial datasets indicate the presence of up to 45 “candidate species” and multiple paraphyletic taxa presenting a complex history of reticulation. Some authors have even suggested that the search for species boundaries in the group may be in vain. Here, we analyze nuclear and mitochondrial data containing 161 individuals from at least 49 distinct evolutionary lineages that we treat as candidate species. Concatenated and species-tree methods do not estimate fully resolved relationships among these taxa. Comparing topologies and applying methods for estimating phylogenetic networks, we find strong support for numerous instances of hybridization throughout the history of the group. We suggest that these processes may be more common than previously thought across the phylogeography-phylogenetics continuum, and that while the search for species boundaries inDesmognathusmay not be in vain, it will be complicated by factors such as crypsis, parallelism, and gene-flow.