Department of Botany, National Museum of Natural History, MRC166, Smithsonian Institution, Washington, DC 20013-7012, USA; Departamento de Botánica y Fisiología Vegetal, Universidad de Málaga, 29071, Málaga, Spain.
Key Laboratory of Plant Resources Conservation and Utilization, College of Biology and Environmental Sciences, Jishou University, Jishou 416000, China.
Mol Phylogenet Evol. 2023 Sep;186:107866. doi: 10.1016/j.ympev.2023.107866. Epub 2023 Jun 22.
A set of newly designed Vitaceae baits targeting 1013 genes was employed to explore phylogenetic relationships among North American Vitis. Eurasian Vitis taxa including Vitis vinifera were found to be nested within North American Vitis subgenus Vitis. North American Vitis subgenus Vitis can be placed into nine main groups: the Monticola group, the Occidentales group, the Californica group, the Vinifera group (introduced from Eurasia), the Mustangensis group, the Palmata group, the Aestivalis group, the Labrusca group, and the Cinerea group. Strong cytonuclear discordances were detected in North American Vitis, with many species non-monophyletic in the plastid phylogeny, while monophyletic in the nuclear phylogeny. The phylogenomic analyses support recognizing four distinct species in the Vitis cinerea complex in North America: V. cinerea, V. baileyana, V. berlandieri, and V. simpsonii. Such treatment will better serve the conservation of wild Vitis diversity in North America. Yet the evolutionary history of Vitis is highly complex, with the concordance analyses indicating conflicting signals across the phylogeny. Cytonuclear discordances and Analyses using the Species Networks applying Quartets (SNaQ) method support extensive hybridizations in North American Vitis. The results further indicate that plastid genomes alone are insufficient for resolving the evolutionary history of plant groups that have undergone rampant hybridization, like the case in North American Vitis. Nuclear gene data are essential for species delimitation, identification and reconstructing evolutionary relationships; therefore, they are imperative for plant phylogenomic studies.
一组新设计的葡萄科诱饵针对 1013 个基因，用于探索北美葡萄属的系统发育关系。欧亚葡萄属包括酿酒葡萄被发现嵌套在北美葡萄属的葡萄属中。北美葡萄属可以分为九个主要组：山桐子组、西部组、加利福尼亚组、葡萄属（来自欧亚大陆）、野马组、手掌组、夏眠组、美洲葡萄组和灰葡萄组。在北美葡萄属中检测到强烈的核质不和谐，许多种在质体系统发育中不是单系的，而在核系统发育中是单系的。基因组分析支持在北美的灰葡萄复合群中识别出四个不同的种：灰葡萄、贝氏葡萄、贝拉迪葡萄和辛普森葡萄。这种处理方式将更好地服务于北美野生葡萄多样性的保护。然而，葡萄属的进化历史非常复杂，一致性分析表明整个系统发育中存在冲突的信号。核质不和谐以及使用四分体的种网络分析（SNaQ）方法支持北美葡萄属的广泛杂交。结果进一步表明，对于经历了猖獗杂交的植物类群，如北美的葡萄属，单独的质体基因组不足以解决其进化历史。核基因数据对于物种的划分、鉴定和重建进化关系至关重要；因此，它们对于植物基因组研究至关重要。
