Combining genomic, phenotypic and Sanger sequencing data to elucidate the phylogeny of the two-clawed spiders (Dionycha)
Combining genomic, phenotypic and Sanger sequencing data to elucidate the phylogeny of the two-clawed spiders (Dionycha)
复制标题
结合基因组、表型和桑格测序数据来阐明双爪蜘蛛 (Dionycha) 的系统发育
DOI：
10.1016/j.ympev.2021.107327
复制
发表时间：
2022
影响因子：
4.1
通讯作者：
Ramírez MJ
中科院分区：
文献类型：
--
作者：
Azevedo, GHF;Bougie T;Carboni C;Hedin M;Ramírez MJ
形态学的重要性在基因组学时代最近得到了关注，但相对较少的研究结合两种类型的信息时，推断系统发育关系。桑格测序遗留数据对于理解进化关系也很重要。在一次分析中结合基因组、形态学和桑格数据的可能性似乎是令人信服的，它允许更完整的采样，并对一个群体的进化产生全面的看法。在这里，我们使用这三种数据类型来阐明的狄俄尼查，一个高度多样化的蜘蛛相对代表性较低的系统发育研究的系统学和进化。这些数据集分别进行了分析，并根据不同的推理方法进行了组合，包括一种新的方法，用于分析常用的进化模型的形态矩阵。我们测试了关系的替代假设，并进行了模拟，以调查我们的研究结果的准确性。我们提供了一个全面和彻底的系统发育假说狄俄尼查，可以作为一个强大的框架来测试假设的关键字符的演变。我们还表明，形态学数据可能有一个系统发育的影响，即使大量超过分子数据。我们的方法来分析形态学数据可以作为一种替代建议的做法，任意分区，加权，并选择简约和随机模型。由于我们的研究结果，我们建议Trachycosmidae新的排名为一组澳大利亚属以前包括在Trochanteriidae和Gallieniellidae，并考虑Ammoxenidae作为一个初级的同义词平腹蛛科。我们恢复了Prodidomidae的科级，但将Molycriinae的亚科转移到平腹蛛科，Drassinellae转移到Liocranidae，DonueaCorinnidae，Mauralytenus转移到Viridasiidae。
The importance of morphology in the phylogenomic era has recently gained attention, but relatively few studies have combined both types of information when inferring phylogenetic relationships. Sanger sequencing legacy data can also be important for understanding evolutionary relationships. The possibility of combining genomic, morphological and Sanger data in one analysis seems compelling, permitting a more complete sampling and yielding a comprehensive view of the evolution of a group. Here we used these three data types to elucidate the systematics and evolution of the Dionycha, a highly diverse group of spiders relatively underrepresented in phylogenetic studies. The datasets were analyzed separately and combined under different inference methods, including a novel approach for analyzing morphological matrices with commonly used evolutionary models. We tested alternative hypotheses of relationships and performed simulations to investigate the accuracy of our findings. We provide a comprehensive and thorough phylogenetic hypothesis for Dionycha that can serve as a robust framework to test hypotheses about the evolution of key characters. We also show that morphological data might have a phylogenetic impact, even when massively outweighed by molecular data. Our approach to analyze morphological data may serve as an alternative to the proposed practice of arbitrarily partitioning, weighting, and choosing between parsimony and stochastic models. As a result of our findings, we propose Trachycosmidae new rank for a group of Australian genera formerly included in Trochanteriidae and Gallieniellidae, and consider Ammoxenidae as a junior synonym of Gnaphosidae. We restore the family rank for Prodidomidae, but transfer the subfamily Molycriinae to Gnaphosidae.Drassinellais transferred to Liocranidae,Donueato Corinnidae, andMahafalytenusto Viridasiidae.