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Comparative chloroplast genome and phylogenetic analyses of Chinese Polyspora

Polyspora Sweet (Theaceae) are winter ornamental landscape plants native to southern and southeastern Asia, some of which have medicinal value. The chloroplast (cp) genome data of Polyspora are scarce, and the gene evolution and interspecific relationship are still unclear. In this study, we sequenc...

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Autores principales: Fan, Zhi-Feng, Ma, Chang-Le
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9512918/
https://www.ncbi.nlm.nih.gov/pubmed/36163343
http://dx.doi.org/10.1038/s41598-022-16290-4
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author Fan, Zhi-Feng
Ma, Chang-Le
author_facet Fan, Zhi-Feng
Ma, Chang-Le
author_sort Fan, Zhi-Feng
collection PubMed
description Polyspora Sweet (Theaceae) are winter ornamental landscape plants native to southern and southeastern Asia, some of which have medicinal value. The chloroplast (cp) genome data of Polyspora are scarce, and the gene evolution and interspecific relationship are still unclear. In this study, we sequenced and annotated Polyspora chrysandra cp genome and combined it with previously published genomes for other Chinese Polyspora species. The results showed that cp genomes of six Chinese Polyspora varied in length between 156,452 bp (P. chrysandra) and 157,066 bp (P. speciosa), but all contained 132 genes, with GC content of 37.3%, and highly similar genes distribution and codon usage. A total of eleven intergenic spacer regions were found having the highest levels of divergence, and eight divergence hotspots were identified as molecular markers for Phylogeography and genetic diversity studies in Polyspora. Gene selection pressure suggested that five genes were subjected to positive selection. Phylogenetic relationships among Polyspora species based on the complete cp genomes were supported strongly, indicating that the cp genomes have the potential to be used as super barcodes for further analysis of the phylogeny of the entire genus. The cp genomes of Chinese Polyspora species will provide valuable information for species identification, molecular breeding and evolutionary analysis of genus Polyspora.
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spelling pubmed-95129182022-09-28 Comparative chloroplast genome and phylogenetic analyses of Chinese Polyspora Fan, Zhi-Feng Ma, Chang-Le Sci Rep Article Polyspora Sweet (Theaceae) are winter ornamental landscape plants native to southern and southeastern Asia, some of which have medicinal value. The chloroplast (cp) genome data of Polyspora are scarce, and the gene evolution and interspecific relationship are still unclear. In this study, we sequenced and annotated Polyspora chrysandra cp genome and combined it with previously published genomes for other Chinese Polyspora species. The results showed that cp genomes of six Chinese Polyspora varied in length between 156,452 bp (P. chrysandra) and 157,066 bp (P. speciosa), but all contained 132 genes, with GC content of 37.3%, and highly similar genes distribution and codon usage. A total of eleven intergenic spacer regions were found having the highest levels of divergence, and eight divergence hotspots were identified as molecular markers for Phylogeography and genetic diversity studies in Polyspora. Gene selection pressure suggested that five genes were subjected to positive selection. Phylogenetic relationships among Polyspora species based on the complete cp genomes were supported strongly, indicating that the cp genomes have the potential to be used as super barcodes for further analysis of the phylogeny of the entire genus. The cp genomes of Chinese Polyspora species will provide valuable information for species identification, molecular breeding and evolutionary analysis of genus Polyspora. Nature Publishing Group UK 2022-09-26 /pmc/articles/PMC9512918/ /pubmed/36163343 http://dx.doi.org/10.1038/s41598-022-16290-4 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Fan, Zhi-Feng
Ma, Chang-Le
Comparative chloroplast genome and phylogenetic analyses of Chinese Polyspora
title Comparative chloroplast genome and phylogenetic analyses of Chinese Polyspora
title_full Comparative chloroplast genome and phylogenetic analyses of Chinese Polyspora
title_fullStr Comparative chloroplast genome and phylogenetic analyses of Chinese Polyspora
title_full_unstemmed Comparative chloroplast genome and phylogenetic analyses of Chinese Polyspora
title_short Comparative chloroplast genome and phylogenetic analyses of Chinese Polyspora
title_sort comparative chloroplast genome and phylogenetic analyses of chinese polyspora
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9512918/
https://www.ncbi.nlm.nih.gov/pubmed/36163343
http://dx.doi.org/10.1038/s41598-022-16290-4
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