Complete chloroplast genome of the threatened Rhoiptelea chiliantha (Juglandaceae s.l.)
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TECHNICAL NOTE
Complete chloroplast genome of the threatened Rhoiptelea chiliantha (Juglandaceae s.l.) Yan‑Fei Geng1,2,3 · Guo‑Xiong Hu4 · Shuo Wang5 · Jian‑Chu Xu1,6 Received: 4 February 2018 / Accepted: 2 March 2018 © Springer Science+Business Media B.V., part of Springer Nature 2018
Abstract Rhoiptelea chiliantha is the only species of traditionally defined family Rhoipteleaceae which is confined to S Guizhou, SE Yunnan, N and W Guangxi of China as well as N Vietnam, and is evaluated as vulnerable (VU) in “The IUCN Red List Threatened Species” and “Chinese Species Red List”. Here, we de novo assembled the complete chloroplast (cp) genome of R. chiliantha using Illumina sequencing data for the first time. The whole cp genome was 161,692 bp in length consisting of a pair of inverted repeat (IRa and IRb) regions of respectively 25,335 bp, a small single-copy region of 23,659 bp and a large single-copy region of 89,039 bp. The genome encoded 116 unique genes including 85 protein-coding genes, 27 tRNA genes and four rRNA genes. Phylogenetic analysis based on 21 complete cp genome sequences indicates that R. chiliantha is sister to the traditionally defined walnut family (Juglandaceae s.s.) and supports to merge Rhoipteleaceae into Juglandaceae s.l. Keywords Rhoiptelea chiliantha · Rhoipteleaceae · Juglandaceae · Chloroplast genome The traditionally defined Rhoipteleaceae is a monotypic one-species family of which only Rhoiptelea chiliantha Diels & Hand.-Mazz. is included (Kuang 1960; Fu et al. 2003). Rhoiptelea chiliantha is a deciduous tree, its high quality wood has been widely used to make furnitures and utensils. Currently, the species is sporadically distributed in S Guizhou, SE Yunnan, N and W Guangxi of China, with * Shuo Wang [email protected] * Jian‑Chu Xu [email protected] 1
Key Laboratory of Economic Plants and Biotechnology, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China
2
University of Chinese Academy of Sciences, Beijing 100049, China
3
Institute of Ecology and Geobotany, Yunnan University, Kunming 650091, China
4
College of Life Sciences, Guizhou University, Guiyang 550025, China
5
College of Marine Science and Biological Engineering, Qingdao University of Science and Technology, Qingdao 266042, China
6
World Agroforestry Centre East and Central Asia, Kunming 650201, China
restricted populations extending to N Vietnam. It is evaluated as vulnerable (VU) in “The IUCN Red List Threatened Species” (World Conservation Monitoring Centre 1998) and “Chinese Species Red List” (Wang and Xie 2004). However, the wild resources of R. chiliantha remain not effectively protected under overexploitation and habitat destruction. In this study, we sequenced the chloroplast genome of R. chiliantha and reported its features for the first time. Leaf samples of R. chiliantha were collected from S Guizhou, China and maintained in Guizhou University. Total genomic DNA was extracted with a modified high salt extraction protocol (Shi et al. 2012). Approximate 5 µg
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