Unioverse: A phylogenomic resource for reconstructing the evolution of freshwater mussels (Bivalvia, Unionoida)
Unioverse: A phylogenomic resource for reconstructing the evolution of freshwater mussels (Bivalvia, Unionoida)
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DOI：
10.1016/j.ympev.2019.02.016
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发表时间：
2019-08-01
影响因子：
4.1
通讯作者：
Page, Larry M.
中科院分区：
文献类型：
--
作者：
Pfeiffer, John M.;Breinholt, Jesse W.;Page, Larry M.
淡水贻贝（Unionoida目）是一种寄生双壳类的多样化辐射，需要将幼虫暂时包囊在脊椎动物宿主上以完成变态为自由生活的幼体。淡水贻贝-鱼共生代表了理解淡水生态系统中的生态进化动力学的有用关系，但由于缺乏稳定的淡水贻贝系统发育，这种有前景的模型系统的实用性受到损害。不充分的特征采样是混淆淡水贻贝连贯系统发育的主要分析障碍，特别是缺乏适合重建超种关系和测试宏观进化假设的核分子标记。本研究的目的是开发一种系统发育资源，特别是一种锚定的混合富集探针组，能够从分布在整个淡水贻贝生物多样性中的类群中捕获数百个分子标记。我们的淡水贻贝特异性锚定混合富集探针组称为 Unioverse，成功捕获了来自 Unionoida 所有主要谱系的数百个核蛋白编码位点，并将促进淡水贻贝进化的数据更丰富且具有分类学包容性的重建。我们通过估计双壳纲的骨干系统发育（重点是Unionoida）、重建Unionidae的亚科关系以及恢复系统发育不稳定的Plectomerus属的系统位置，展示了该资源在三个不同进化尺度上的效用。
Freshwater mussels (order Unionoida) are a diverse radiation of parasitic bivalves that require temporary larval encystment on vertebrate hosts to complete metamorphosis to free-living juveniles. The freshwater mussel-fish symbiosis represents a useful relationship for understanding eco-evolutionary dynamics in freshwater ecosystems but the practicality of this promising model system is undermined by the absence of a stable freshwater mussel phylogeny. Inadequate character sampling is the primary analytical impediment obfuscating a coherent phylogeny of freshwater mussels, specifically the lack of nuclear molecular markers appropriate for reconstructing supraspecific relationships and testing macroevolutionary hypotheses. The objective of this study is to develop a phylogenomic resource, specifically an anchored hybrid enrichment probe set, capable of capturing hundreds of molecular markers from taxa distributed across the entirety of freshwater mussel biodiversity. Our freshwater mussel specific anchored hybrid enrichment probe set, called Unioverse, successfully captures hundreds of nuclear protein-coding loci from all major lineages of the Unionoida and will facilitate more data-rich and taxonomically inclusive reconstructions of freshwater mussel evolution. We demonstrate the utility of this resource at three disparate evolutionary scales by estimating a backbone phylogeny of the Bivalvia with a focus on the Unionoida, reconstructing the subfamily-level relationships of the Unionidae, and recovering the systematic position of the phylogenetically unstable genus Plectomerus.