Phylogenetic relationships of the Chinese torrent frogs (Ranidae: Amolops) revealed by phylogenomic analyses of AFLP-Capture data
Phylogenetic relationships of the Chinese torrent frogs (Ranidae: Amolops) revealed by phylogenomic analyses of AFLP-Capture data
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AFLP-Capture 数据的系统发育分析揭示了中国洪蛙（Ranidae：Amolops）的系统发育关系
DOI：
10.1016/j.ympev.2020.106753
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发表时间：
2020-05-01
影响因子：
4.1
通讯作者：
Zhang, Peng
中科院分区：
文献类型：
--
作者：
Zeng, Zhaochi;Liang, Dan;Zhang, Peng
湍蛙属有近60种，分布在东南亚的湍急山涧中。由于形态特征不稳定，该属的分类较为复杂。湍蛙属物种和种群的亲缘关系不容易用少量的分子标记来解决。本研究采用AFLP-Capture方法，从70个中国湍蛙样本中获取了242个匿名核基因序列和线粒体基因组数据，并对它们的亲缘关系进行了研究。从核数据和线粒体数据推断的系统发育都是强大的，并揭示了中国东部和西部的湍蛙属物种之间的主要系统发育分裂。阐明了6个种组之间的亲缘关系。中国东部的3个种组（A. ricketti，A. daiyunensis和A.海南种组（A. mantzorum，A. monticola和A. marmoratus组）不是单系的，这表明需要进一步的调查和修订。这种强的亲缘关系也为物种关系提供了新的见解，特别是对A。mantzorum群，由于大约700 - 800万年前发生的多个物种形成事件而难以解决。利用核数据估算的中国湍蛙的分化时间表明，中国湍蛙的祖先出现在始新世晚期或渐新世早期，中国湍蛙的物种形成事件往往与地质事件（如山脉的抬升和岛屿的形成）有关。利用GenBank中的线粒体序列构建了一个更全面的中国湍蛙的起源系统。根据这些结果，提出了溪蛙扩散的假设。我们的研究是第一个使用AFLP-Capture获得大量数据用于浅尺度系统发育和分类学研究的例子，这对其他非模式生物群体应该是有用的。
The torrent frog genus Amolops contains nearly sixty species distributed in swift mountain streams throughout southeast Asia. The taxonomy of this genus has proven complicated due to unstable morphological diagnostic characters. The relationships of Amolops species and species groups were not readily resolved with a small number of molecular markers. Here, we applied the novel AFLP-Capture approach and acquired two large datasets (242 anonymous nuclear sequences and the mitochondrial genome) from 70 Chinese Amolops samples to study their relationships. The phylogenies inferred from the nuclear data and the mitochondrial data were both robust and revealed a primary phylogenetic split between eastern and western Chinese Amolops species. The relationships of the six species groups were clarified. While the three species groups in east China (the A. ricketti, A. daiyunensis and A. hainanensis groups) were monophyletic, the three species groups in the west (the A. mantzorum, A. monticola and A. marmoratus groups) were not monophyletic, suggesting a need for further investigation and revision. The robust phylogenies also provided new insights into species relationships, especially for the A. mantzorum group, which has been difficult to resolve due to multiple speciation events occurring approximately 7-8 million years ago. The divergence times estimated with the nuclear data indicated that the ancestor of the Chinese Amolops appeared in the late Eocene or early Oligocene, and that speciation events in the Chinese Amolops were often related to geological events (e.g. the uprising of mountains and the formation of islands). By including the mitochondrial sequences from GenBank, a more comprehensive Amolops phylogeny was constructed that reflected the origin of the Chinese Amolops. Based on all these results, a dispersal scenario of the torrent frogs was hypothesized. Our research serves as the first example of using AFLP-Capture to obtain a large amount of data for shallow-scale phylogenetic and taxonomic studies, which should be useful for other nonmodel organism groups.