Cargando…
Complete chloroplast genome molecular structure, comparative and phylogenetic analyses of Sphaeropteris lepifera of Cyatheaceae family: a tree fern from China
Sphaeropteris lepifera is a tree fern in the Cyatheaceae, a family that has played an important role in the evolution of plant systems. This study aimed to analyze the complete chloroplast genome of S. lepifera and compared it with previously published chloroplast genomes Cyatheaceae family. The chl...
Autores principales: | , , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2023
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9873718/ https://www.ncbi.nlm.nih.gov/pubmed/36693990 http://dx.doi.org/10.1038/s41598-023-28432-3 |
_version_ | 1784877658031521792 |
---|---|
author | Hu, Qingdi Qian, Renjuan Zhang, Yanjun Ma, Xiaohua Ye, Youju Zhang, Xule Lin, Lin Liu, Hongjian Zheng, Jian |
author_facet | Hu, Qingdi Qian, Renjuan Zhang, Yanjun Ma, Xiaohua Ye, Youju Zhang, Xule Lin, Lin Liu, Hongjian Zheng, Jian |
author_sort | Hu, Qingdi |
collection | PubMed |
description | Sphaeropteris lepifera is a tree fern in the Cyatheaceae, a family that has played an important role in the evolution of plant systems. This study aimed to analyze the complete chloroplast genome of S. lepifera and compared it with previously published chloroplast genomes Cyatheaceae family. The chloroplast genome of S. lepifera comprised 162,114 bp, consisting of a large single copy (LSC) region of 86,327 bp, a small single copy (SSC) region of 27,731 bp and a pair of inverted repeats (IRa and IRb) of 24,028 bp each. The chloroplast genome encoded 129 genes, comprising 32 transfer RNAs, 8 ribosomal RNAs, and 89 protein-coding genes. Comparison of the genomes of 7 Cyatheaceae plants showed that the chloroplast genome of S. lepifera was missing the gene trnV-UAC. Expansion of the SSC region led to the difference in the chloroplast genome size of S. lepifera. Eight genes, atpI, ccsA, petA, psaB, rpl16, rpoA, rpoC1, and ycf2 have high nucleic acid diversity and can be regarded as potential molecular markers. The genes trnG-trnR and atpB were suitable for DNA barcodes between different communities of S. lepifera. The S. lepifera groups in Zhejiang Province probably diffused from Pingtan and Ningde, Fujian. The results will provide a basis for species identification, biological studies, and endangerment mechanism of S. lepifera. |
format | Online Article Text |
id | pubmed-9873718 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-98737182023-01-26 Complete chloroplast genome molecular structure, comparative and phylogenetic analyses of Sphaeropteris lepifera of Cyatheaceae family: a tree fern from China Hu, Qingdi Qian, Renjuan Zhang, Yanjun Ma, Xiaohua Ye, Youju Zhang, Xule Lin, Lin Liu, Hongjian Zheng, Jian Sci Rep Article Sphaeropteris lepifera is a tree fern in the Cyatheaceae, a family that has played an important role in the evolution of plant systems. This study aimed to analyze the complete chloroplast genome of S. lepifera and compared it with previously published chloroplast genomes Cyatheaceae family. The chloroplast genome of S. lepifera comprised 162,114 bp, consisting of a large single copy (LSC) region of 86,327 bp, a small single copy (SSC) region of 27,731 bp and a pair of inverted repeats (IRa and IRb) of 24,028 bp each. The chloroplast genome encoded 129 genes, comprising 32 transfer RNAs, 8 ribosomal RNAs, and 89 protein-coding genes. Comparison of the genomes of 7 Cyatheaceae plants showed that the chloroplast genome of S. lepifera was missing the gene trnV-UAC. Expansion of the SSC region led to the difference in the chloroplast genome size of S. lepifera. Eight genes, atpI, ccsA, petA, psaB, rpl16, rpoA, rpoC1, and ycf2 have high nucleic acid diversity and can be regarded as potential molecular markers. The genes trnG-trnR and atpB were suitable for DNA barcodes between different communities of S. lepifera. The S. lepifera groups in Zhejiang Province probably diffused from Pingtan and Ningde, Fujian. The results will provide a basis for species identification, biological studies, and endangerment mechanism of S. lepifera. Nature Publishing Group UK 2023-01-24 /pmc/articles/PMC9873718/ /pubmed/36693990 http://dx.doi.org/10.1038/s41598-023-28432-3 Text en © The Author(s) 2023 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 Hu, Qingdi Qian, Renjuan Zhang, Yanjun Ma, Xiaohua Ye, Youju Zhang, Xule Lin, Lin Liu, Hongjian Zheng, Jian Complete chloroplast genome molecular structure, comparative and phylogenetic analyses of Sphaeropteris lepifera of Cyatheaceae family: a tree fern from China |
title | Complete chloroplast genome molecular structure, comparative and phylogenetic analyses of Sphaeropteris lepifera of Cyatheaceae family: a tree fern from China |
title_full | Complete chloroplast genome molecular structure, comparative and phylogenetic analyses of Sphaeropteris lepifera of Cyatheaceae family: a tree fern from China |
title_fullStr | Complete chloroplast genome molecular structure, comparative and phylogenetic analyses of Sphaeropteris lepifera of Cyatheaceae family: a tree fern from China |
title_full_unstemmed | Complete chloroplast genome molecular structure, comparative and phylogenetic analyses of Sphaeropteris lepifera of Cyatheaceae family: a tree fern from China |
title_short | Complete chloroplast genome molecular structure, comparative and phylogenetic analyses of Sphaeropteris lepifera of Cyatheaceae family: a tree fern from China |
title_sort | complete chloroplast genome molecular structure, comparative and phylogenetic analyses of sphaeropteris lepifera of cyatheaceae family: a tree fern from china |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9873718/ https://www.ncbi.nlm.nih.gov/pubmed/36693990 http://dx.doi.org/10.1038/s41598-023-28432-3 |
work_keys_str_mv | AT huqingdi completechloroplastgenomemolecularstructurecomparativeandphylogeneticanalysesofsphaeropterislepiferaofcyatheaceaefamilyatreefernfromchina AT qianrenjuan completechloroplastgenomemolecularstructurecomparativeandphylogeneticanalysesofsphaeropterislepiferaofcyatheaceaefamilyatreefernfromchina AT zhangyanjun completechloroplastgenomemolecularstructurecomparativeandphylogeneticanalysesofsphaeropterislepiferaofcyatheaceaefamilyatreefernfromchina AT maxiaohua completechloroplastgenomemolecularstructurecomparativeandphylogeneticanalysesofsphaeropterislepiferaofcyatheaceaefamilyatreefernfromchina AT yeyouju completechloroplastgenomemolecularstructurecomparativeandphylogeneticanalysesofsphaeropterislepiferaofcyatheaceaefamilyatreefernfromchina AT zhangxule completechloroplastgenomemolecularstructurecomparativeandphylogeneticanalysesofsphaeropterislepiferaofcyatheaceaefamilyatreefernfromchina AT linlin completechloroplastgenomemolecularstructurecomparativeandphylogeneticanalysesofsphaeropterislepiferaofcyatheaceaefamilyatreefernfromchina AT liuhongjian completechloroplastgenomemolecularstructurecomparativeandphylogeneticanalysesofsphaeropterislepiferaofcyatheaceaefamilyatreefernfromchina AT zhengjian completechloroplastgenomemolecularstructurecomparativeandphylogeneticanalysesofsphaeropterislepiferaofcyatheaceaefamilyatreefernfromchina |