Jin Lijie, Xia Zuyao, Liu Ning, Hou Shengyue, Lv Chuandong, Tang Lianyou, Feng Shuguang, Shi Jingsong, Bai Ming
Key Laboratory of Animal Biodiversity Conservation and Integrated Pest Management (Chinese Academy of Sciences), Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, China.
University of Chinese Academy of Sciences, Beijing 100049, China.
Genes (Basel). 2025 Feb 25;16(3):276. doi: 10.3390/genes16030276.
: The phylogenetic resolution within the Complex remains debatable due to the following reasons: loci selection in previous studies varied between authors; limited dataset (1-5 mitochondrial or nuclear gene fragments); lack of sampling density; and nodal supports at specific nodes remain weak, specifically within , , and . : To revise the taxonomic and phylogenetic relationships within the Complex, we reconstructed the molecular phylogeny and performed species delimitation based on the complete mitochondrial genomes. : In this study, twelve nomenclatural groups of species were involved in the computation of Bayesian phylogenomic inference, five of the twelve nomenclature groups were newly sequenced, while the rest were acquired from the National Center for Biotechnology Information (NCBI). The Bayesian phylogenomic inference was constructed based on 13 mitochondrial protein-coding genes. Species delimitation was performed by two distance-based methods (ABGD and ASAP) and two tree-based methods (GMYC and bPTP). : This research resolved the systematic relationship within the Complex with the support of mitogenome-based phylogenomics, while indicating cryptic diversity within the Complex: samples from South Korea show as paraphyletic to the cluster of the samples from northeastern China. Species delimitation results based on four models resemble each other, supporting , , , and , each representing full species. The species delimitation results of this research also resemble the nomenclatural species based on previous morphometrical results. This research indicates that species delimitation efforts based on the phylogenomic approach would likely resolve complex evolutionary relationships.
由于以下原因,该复合体内部的系统发育分辨率仍存在争议:以往研究中的基因座选择在不同作者之间存在差异;数据集有限(1 - 5个线粒体或核基因片段);采样密度不足;特定节点处的节点支持仍然较弱,特别是在[具体区域1]、[具体区域2]和[具体区域3]内。为了修订该复合体内部的分类学和系统发育关系,我们基于完整的线粒体基因组重建了分子系统发育并进行了物种界定。在本研究中,12个[物种名称]命名组参与了贝叶斯系统发育基因组推断的计算,其中12个命名组中有5个是新测序的,其余的是从美国国立生物技术信息中心(NCBI)获取的。贝叶斯系统发育基因组推断基于13个线粒体蛋白质编码基因构建。通过两种基于距离的方法(ABGD和ASAP)和两种基于树的方法(GMYC和bPTP)进行物种界定。这项研究在基于有丝分裂基因组的系统发育基因组学的支持下解决了该复合体内部的系统关系,同时表明该复合体内部存在隐存多样性:来自韩国的样本相对于来自中国东北的样本聚类显示为并系。基于四种模型的物种界定结果彼此相似,支持[物种1]、[物种2]、[物种3]和[物种4],每个都代表完整的物种。本研究的物种界定结果也与基于先前形态测量结果的命名物种相似。这项研究表明,基于系统发育基因组学方法的物种界定工作可能会解决复杂的进化关系。