J Syst Evol ›› 2023, Vol. 61 ›› Issue (2): 273-283.DOI: 10.1111/jse.12918

• Research Articles • Previous Articles     Next Articles

Phylogenetic relationships, hybridization events, and drivers of diversification of East Asian wild grapes as revealed by phylogenomic analyses

Zhi‐Yao Ma1,2, Ze‐Long Nie3, Xiu‐Qun Liu4, Jing‐Pu Tian5, Yong‐Feng Zhou2, Elizabeth Zimmer1, and Jun Wen1*   

  1. 1 Department of Botany, Smithsonian Institution, National Museum of Natural History, Washington, DC 20013-7012, USA
    2 Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, Guangdong 518000, China
    3 College of Biology and Environmental Sciences, Jishou University, Jishou, Hunan 416000, China
    4 Key Laboratory of Horticultural Plant Biology(Ministry of Education), College of Horticulture and Forestry Science, Huazhong Agricultural University, Wuhan 430070, China
    5 School of Architecture and Art Design, Hunan University of Science and Technology, Xiangtan, Hunan 411201, China
    *Author for correspondence. E‐mail: WENJ@si.edu
  • Received:2022-05-12 Accepted:2022-09-22 Online:2022-10-08 Published:2023-03-01

Abstract: East Asian wild grapes show a high level of species diversity and have been widely recognized as important germplasm resources of wine, table grapes, and resistance to biotic and abiotic stresses for the grape industry. However, the deeper phylogenetic relationships and drivers of diversification of East Asian Vitis remain poorly understood. Hybridization and introgression events of East Asian Vitis are not well investigated, particularly at the genome-wide scale. The phylogenetic relationships of East Asian Vitis are herein explored using nuclear and plastid genome data based on target enrichment (Hyb-Seq). Seven major clades are recognized for East Asian Vitis based on the nuclear phylogenetic trees, but there is topological incongruence between concatenated and coalescent analyses. Furthermore, significant cytonuclear discordance is observed within East Asian Vitis. Species network analyses identified several hybridization events within East Asian Vitis. These interspecific hybridization events may have caused the topological discordances and relatively low support detected in our analyses. Ecological niche modeling shows that most of the diversification of East Asian Vitis species is driven by temperature and precipitation environmental variables. Sympatric parallel diversifications of major clades also may have facilitated the rich diversity in East Asian Vitis.

Key words: East Asia, geographic isolation, hybridization, phylogenomics, sympatric parallel diversifications, Vitis, wild grapes