Demos Terrence C, Webala Paul W, Goodman Steven M, Kerbis Peterhans Julian C, Lutz Holly L, Agwanda Bernard R, Cortés-Delgado Natalia, Briones Stefania, Ree Richard H, Patterson Bruce D
Negaunee Integrative Research Center, Field Museum of Natural History, Chicago, IL, USA.
Department of Forestry and Wildlife Management, Maasai Mara University, Narok, Kenya.
Mol Phylogenet Evol. 2023 Nov;188:107890. doi: 10.1016/j.ympev.2023.107890. Epub 2023 Jul 28.
African-Malagasy species of the bat genus Miniopterus are notable both for the dramatic increase in the number of newly recognized species over the last 15 years, as well as for the profusion of new taxa from Madagascar and the neighboring Comoros. Since 2007, seven new Malagasy Miniopterus species have been described compared to only two new species since 1936 from the Afrotropics. The conservative morphology of Miniopterus and limited geographic sampling in continental Africa have undoubtedly contributed to the deficit of continental species. In addition to uncertainty over species limits, phylogenetic relationships of Miniopterus remain mostly unresolved, particularly at deeper backbone nodes. Previous phylogenetic studies were based on limited taxon sampling and/or limited genetic sampling involving no more than five loci. Here, we conduct the first phylogenomic study of the Afrotropical Miniopteridae by analyzing up to 3772 genome-wide ultraconserved elements (UCEs) from historic and modern samples of 70 individuals from 25 Miniopterus species/lineages. We analyze multiple datasets of varying degrees of completeness (70, 90, and 100 percent complete) using partitioned concatenated maximum likelihood and multispecies coalescent methods. Our well-supported, species-level phylogenies resolved most (6/8 or 7/8) backbone nodes and strongly support for the first time the monophyly of the Malagasy radiation. We inferred the crown age of African Miniopteridae in the late Miocene (10.4 Ma), while the main lineages of Miniopterus appear to have contemporaneously diversified in two sister radiations in the Afrotropics and Madagascar. Species-level divergence of 23 of 25 African + Malagasy Miniopterus were estimated to have 95 % HPDs that overlap with the late Miocene (5.3-10.4 Ma). We present ancestral range estimates that unambiguously support a continental African radiation that originated in the Zambezian and Somalian/Ethiopian biogeographic regions, but we cannot rule out back colonization of Africa from Madagascar. The phylogeny indicates genetic support for up to seven new species.
蝙蝠属Miniopterus的非洲 - 马达加斯加物种在过去15年中新发现物种数量急剧增加，以及来自马达加斯加和邻近科摩罗的新分类群大量涌现，这两点都值得关注。自2007年以来，已描述了7种新的马达加斯加Miniopterus物种，而自1936年以来整个热带非洲仅描述了2种新物种。Miniopterus保守的形态以及非洲大陆有限的地理采样无疑导致了非洲大陆物种数量的不足。除了物种界限的不确定性外，Miniopterus的系统发育关系大多仍未解决，特别是在更深层次的主干节点上。以前的系统发育研究基于有限的分类群采样和/或有限的基因采样，涉及不超过五个基因座。在这里，我们通过分析来自25种Miniopterus物种/谱系的70个个体的历史和现代样本中的多达3772个全基因组超保守元件（UCE），对热带非洲Miniopteridae进行了首次系统发育基因组学研究。我们使用分区串联最大似然法和多物种合并法分析了不同完整度（70%、90%和100%完整）的多个数据集。我们得到充分支持的物种水平系统发育树解析了大部分（6/8或7/8）主干节点，并首次有力支持了马达加斯加辐射的单系性。我们推断非洲Miniopteridae的冠龄为中新世晚期（1040万年前），而Miniopterus的主要谱系似乎在热带非洲和马达加斯加的两个姐妹辐射中同时多样化。25种非洲和马达加斯加Miniopterus中的23种的物种水平分化估计有95%的最高后验密度（HPD）与中新世晚期（530 - 1040万年前）重叠。我们提出的祖先分布范围估计明确支持起源于赞比西亚和索马里/埃塞俄比亚生物地理区域的非洲大陆辐射，但我们不能排除从马达加斯加重新殖民非洲的可能性。系统发育显示了对多达7个新物种的遗传支持。
