Comparative genomic study on the complete plastomes of four officinal Ardisia species in China

Abstract Ardisia Sw. (Primulaceae) is naturally distributed in tropical and subtropical areas. Most of them possess edible and medicinal values and are popular in clinical and daily use in China. However, ambiguous species delineation and genetic information limit the development and utilization of...

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Autores principales:	Chunzhu Xie, Wenli An, Shanshan Liu, Yuying Huang, Zerui Yang, Ji Lin, Xiasheng Zheng
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/dc9dee7df48c4a64bdcf8a35230a2280
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spelling	oai:doaj.org-article:dc9dee7df48c4a64bdcf8a35230a22802021-11-21T12:20:16ZComparative genomic study on the complete plastomes of four officinal Ardisia species in China10.1038/s41598-021-01561-32045-2322https://doaj.org/article/dc9dee7df48c4a64bdcf8a35230a22802021-11-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-01561-3https://doaj.org/toc/2045-2322Abstract Ardisia Sw. (Primulaceae) is naturally distributed in tropical and subtropical areas. Most of them possess edible and medicinal values and are popular in clinical and daily use in China. However, ambiguous species delineation and genetic information limit the development and utilization of this genus. In this study, the chloroplast genomes of four Ardisia species, namely A. gigantifolia Stapf, A. crenata Sims, A. villosa Roxb. and A. mamillata Hance, were sequenced, annotated, and analyzed comparatively. All the four chloroplast genomes possess a typical quadripartite structure, and each of the genomes is about 156 Kb in size. The structure and gene content of the Ardisia plastomes were conservative and showed low sequence divergence. Furthermore, we identified five mutation hotspots as candidate DNA barcodes for Ardisia, namely, trnT-psbD, ndhF-rpl32, rpl32-ccsA, ccsA-ndhD and ycf1. Phylogenetic analysis based on the whole-chloroplast genomes data showed that Ardisia was sister to Tapeinosperma Hook. f. In addition, the results revealed a great topological profile of Ardisia’s with strong support values, which matches their geographical distribution patterns. Summarily, our results provide useful information for investigations on taxonomic differences, molecular identification, and phylogenetic relationships of Ardisia plants.Chunzhu XieWenli AnShanshan LiuYuying HuangZerui YangJi LinXiasheng ZhengNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Chunzhu Xie Wenli An Shanshan Liu Yuying Huang Zerui Yang Ji Lin Xiasheng Zheng Comparative genomic study on the complete plastomes of four officinal Ardisia species in China
description	Abstract Ardisia Sw. (Primulaceae) is naturally distributed in tropical and subtropical areas. Most of them possess edible and medicinal values and are popular in clinical and daily use in China. However, ambiguous species delineation and genetic information limit the development and utilization of this genus. In this study, the chloroplast genomes of four Ardisia species, namely A. gigantifolia Stapf, A. crenata Sims, A. villosa Roxb. and A. mamillata Hance, were sequenced, annotated, and analyzed comparatively. All the four chloroplast genomes possess a typical quadripartite structure, and each of the genomes is about 156 Kb in size. The structure and gene content of the Ardisia plastomes were conservative and showed low sequence divergence. Furthermore, we identified five mutation hotspots as candidate DNA barcodes for Ardisia, namely, trnT-psbD, ndhF-rpl32, rpl32-ccsA, ccsA-ndhD and ycf1. Phylogenetic analysis based on the whole-chloroplast genomes data showed that Ardisia was sister to Tapeinosperma Hook. f. In addition, the results revealed a great topological profile of Ardisia’s with strong support values, which matches their geographical distribution patterns. Summarily, our results provide useful information for investigations on taxonomic differences, molecular identification, and phylogenetic relationships of Ardisia plants.
format	article
author	Chunzhu Xie Wenli An Shanshan Liu Yuying Huang Zerui Yang Ji Lin Xiasheng Zheng
author_facet	Chunzhu Xie Wenli An Shanshan Liu Yuying Huang Zerui Yang Ji Lin Xiasheng Zheng
author_sort	Chunzhu Xie
title	Comparative genomic study on the complete plastomes of four officinal Ardisia species in China
title_short	Comparative genomic study on the complete plastomes of four officinal Ardisia species in China
title_full	Comparative genomic study on the complete plastomes of four officinal Ardisia species in China
title_fullStr	Comparative genomic study on the complete plastomes of four officinal Ardisia species in China
title_full_unstemmed	Comparative genomic study on the complete plastomes of four officinal Ardisia species in China
title_sort	comparative genomic study on the complete plastomes of four officinal ardisia species in china
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/dc9dee7df48c4a64bdcf8a35230a2280
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Comparative genomic study on the complete plastomes of four officinal Ardisia species in China

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