Plant Diversity ›› 2022, Vol. 44 ›› Issue (06): 542-551.DOI: 10.1016/j.pld.2021.09.006

• Research paper • Previous Articles     Next Articles

Development of genomic resources for Wenchengia alternifolia (Lamiaceae) based on genome skimming data

Qi-Yue Zhoua,b, Hui-Xia Caia, Zi-Han Liua, Lang-Xing Yuanc, Lei Yangb, Tuo Yanga,d, Bo Lie, Pan Lia   

  1. a. Laboratory of Systematic & Evolutionary Botany and Biodiversity, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China;
    b. Shanghai Key Laboratory of Plant Functional Genomics and Resources, Shanghai Chenshan Botanical Garden, Shanghai, 201602, China;
    c. Haikou Duotan Wetlands Institute, Haikou, 570100, China;
    d. Orchid Conservation & Research Center of Shenzhen, Shenzhen, 518114, China;
    e. Research Centre of Ecological Sciences, College of Agronomy, Jiangxi Agricultural University, Nanchang, 330045, China
  • Received:2021-04-08 Revised:2021-08-27 Online:2022-11-25 Published:2022-12-13
  • Contact: Bo Li,;Pan Li,
  • Supported by:
    This research was supported by the National Natural Science Foundation of China (grant number 31970225 and 31900181), the Zhejiang Provincial Natural Science Foundation (grant number LY19C030007) and the Open Fund of Shanghai Key Laboratory of Plant Functional Genomics and Resources (PFGR202104).

Abstract: Wenchengia alternifolia (Lamiaceae), the sole species of the genus Wenchengia is extremely rare and is currently listed as Critically Endangered (CR) on the IUCN Red List. The species had long been considered endemic to Hainan Island, China and was once believed to be extinct until a small remnant population was rediscovered at the type locality in 2010. Four more populations were later found on Hainan and in Vietnam. In order to develop genomic resources for further studies on population genetics and conservation biology of this rare species, we identified infraspecific molecular markers in the present study, using genome skimming data of five individuals collected from two populations on Hainan Island and three populations in Vietnam respectively. The length of plastome of the five individuals varied from 152,961 bp to 150,204 bp, and exhibited a typical angiosperm quadripartite structure. Six plastid hotspot regions with the Pi?>?0.01 (trnH-psbA, psbA-trnK, rpl22, ndhE, ndhG-ndhI and rps15-ycf1), 1621 polymorphic gSSRs, as well as 1657 candidate SNPs in 237 variant nuclear genes were identified, thereby providing important information for further genetic studies.

Key words: Wenchengia, Plastid hotspot, Simple sequence repeat (SSR), Single nucleotide polymorphism (SNP)