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The Complete Chloroplast Genome Sequences of Six Rehmannia Species
Rehmannia is a non-parasitic genus in Orobanchaceae including six species mainly distributed in central and north China. Its phylogenetic position and infrageneric relationships remain uncertain due to potential hybridization and polyploidization. In this study, we sequenced and compared the complet...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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MDPI
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5368707/ https://www.ncbi.nlm.nih.gov/pubmed/28294981 http://dx.doi.org/10.3390/genes8030103 |
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author | Zeng, Shuyun Zhou, Tao Han, Kai Yang, Yanci Zhao, Jianhua Liu, Zhan-Lin |
author_facet | Zeng, Shuyun Zhou, Tao Han, Kai Yang, Yanci Zhao, Jianhua Liu, Zhan-Lin |
author_sort | Zeng, Shuyun |
collection | PubMed |
description | Rehmannia is a non-parasitic genus in Orobanchaceae including six species mainly distributed in central and north China. Its phylogenetic position and infrageneric relationships remain uncertain due to potential hybridization and polyploidization. In this study, we sequenced and compared the complete chloroplast genomes of six Rehmannia species using Illumina sequencing technology to elucidate the interspecific variations. Rehmannia plastomes exhibited typical quadripartite and circular structures with good synteny of gene order. The complete genomes ranged from 153,622 bp to 154,055 bp in length, including 133 genes encoding 88 proteins, 37 tRNAs, and 8 rRNAs. Three genes (rpoA, rpoC2, accD) have potentially experienced positive selection. Plastome size variation of Rehmannia was mainly ascribed to the expansion and contraction of the border regions between the inverted repeat (IR) region and the single-copy (SC) regions. Despite of the conserved structure in Rehmannia plastomes, sequence variations provide useful phylogenetic information. Phylogenetic trees of 23 Lamiales species reconstructed with the complete plastomes suggested that Rehmannia was monophyletic and sister to the clade of Lindenbergia and the parasitic taxa in Orobanchaceae. The interspecific relationships within Rehmannia were completely different with the previous studies. In future, population phylogenomic works based on plastomes are urgently needed to clarify the evolutionary history of Rehmannia. |
format | Online Article Text |
id | pubmed-5368707 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-53687072017-04-05 The Complete Chloroplast Genome Sequences of Six Rehmannia Species Zeng, Shuyun Zhou, Tao Han, Kai Yang, Yanci Zhao, Jianhua Liu, Zhan-Lin Genes (Basel) Article Rehmannia is a non-parasitic genus in Orobanchaceae including six species mainly distributed in central and north China. Its phylogenetic position and infrageneric relationships remain uncertain due to potential hybridization and polyploidization. In this study, we sequenced and compared the complete chloroplast genomes of six Rehmannia species using Illumina sequencing technology to elucidate the interspecific variations. Rehmannia plastomes exhibited typical quadripartite and circular structures with good synteny of gene order. The complete genomes ranged from 153,622 bp to 154,055 bp in length, including 133 genes encoding 88 proteins, 37 tRNAs, and 8 rRNAs. Three genes (rpoA, rpoC2, accD) have potentially experienced positive selection. Plastome size variation of Rehmannia was mainly ascribed to the expansion and contraction of the border regions between the inverted repeat (IR) region and the single-copy (SC) regions. Despite of the conserved structure in Rehmannia plastomes, sequence variations provide useful phylogenetic information. Phylogenetic trees of 23 Lamiales species reconstructed with the complete plastomes suggested that Rehmannia was monophyletic and sister to the clade of Lindenbergia and the parasitic taxa in Orobanchaceae. The interspecific relationships within Rehmannia were completely different with the previous studies. In future, population phylogenomic works based on plastomes are urgently needed to clarify the evolutionary history of Rehmannia. MDPI 2017-03-15 /pmc/articles/PMC5368707/ /pubmed/28294981 http://dx.doi.org/10.3390/genes8030103 Text en © 2017 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Zeng, Shuyun Zhou, Tao Han, Kai Yang, Yanci Zhao, Jianhua Liu, Zhan-Lin The Complete Chloroplast Genome Sequences of Six Rehmannia Species |
title | The Complete Chloroplast Genome Sequences of Six Rehmannia Species |
title_full | The Complete Chloroplast Genome Sequences of Six Rehmannia Species |
title_fullStr | The Complete Chloroplast Genome Sequences of Six Rehmannia Species |
title_full_unstemmed | The Complete Chloroplast Genome Sequences of Six Rehmannia Species |
title_short | The Complete Chloroplast Genome Sequences of Six Rehmannia Species |
title_sort | complete chloroplast genome sequences of six rehmannia species |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5368707/ https://www.ncbi.nlm.nih.gov/pubmed/28294981 http://dx.doi.org/10.3390/genes8030103 |
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