Whole-genome analyses converge to support the Hemirotifera hypothesis within Syndermata (Gnathifera)
Whole-genome analyses converge to support the Hemirotifera hypothesis within Syndermata (Gnathifera)
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DOI：
10.1007/s10750-023-05451-9
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发表时间：
2024-01-18
期刊：
影响因子：
2.6
通讯作者：
Van Doninck，Karine
中科院分区：
文献类型：
--
作者：
Vasilikopoulos，Alexandros;Herlyn，Holger;Van Doninck，Karine
合皮门的分支包括内寄生的头虫、外生的Seisonidea、自由生活的蛭总科和单角虫。合皮动物的生殖发生是高度争论的，阻碍了对形态特征、生殖方式和生活方式的进化的理解。在这里，我们使用公开可用的全基因组数据，重新评估syndermatan基因，并评估替代假设的可信度，使用一种新的组合的基因组学方法。我们发现，半轮虫和Pararotatoria假设恢复数据集和方法的组合下，在串联为基础的分析系统误差的可能性降低。相反，Seisonidea姐妹和Lemniscea假设恢复数据集组合的系统误差的可能性增加。全基因组微共线性分析和物种树方法进一步支持了半轮虫，这些方法在去除远缘外群后使用多拷贝正群。Pararotatoria仅部分支持基于microsyntene的基因组重建。因此，半轮虫和部分Pararotatoria支持独立的系统发育方法和数据评估方法。这两个假说有重要的意义，如从共同祖先Syndermata的Pararotatoria干谱系的运动纤毛逐渐减少的形态特征的进化。我们的研究说明了结合各种类型的证据来解决困难的系统发育问题的重要性。
The clade Syndermata includes the endoparasitic Acanthocephala, the epibiotic Seisonidea, and the free-living Bdelloidea and Monogononta. The phylogeny of Syndermata is highly debated, hindering the understanding of the evolution of morphological features, reproductive modes, and lifestyles within the group. Here, we use publicly available whole-genome data to re-evaluate syndermatan phylogeny and assess the credibility of alternative hypotheses, using a new combination of phylogenomic methods. We found that the Hemirotifera and Pararotatoria hypotheses were recovered under combinations of datasets and methods with reduced possibility of systematic error in concatenation-based analyses. In contrast, the Seisonidea-sister and Lemniscea hypotheses were recovered under dataset combinations with increased possibility of systematic error. Hemirotifera was further supported by whole-genome microsynteny analyses and species-tree methods that use multi-copy orthogroups after removing distantly related outgroups. Pararotatoria was only partially supported by microsynteny-based phylogenomic reconstructions. Hence, Hemirotifera and partially Pararotatoria were supported by independent phylogenetic methods and data-evaluation approaches. These two hypotheses have important implications for the evolution of syndermatan morphological features, such as the gradual reduction of locomotory ciliation from the common ancestor of Syndermata in the stem lineage of Pararotatoria. Our study illustrates the importance of combining various types of evidence to resolve difficult phylogenetic questions.