Cargando…

Comparative analysis of organellar genomes between diploid and tetraploid Chrysanthemum indicum with its relatives

Chrysanthemum indicum, a species native to Eastern Asia is well known as one of the progenitor species of the cultivated Chrysanthemum which is grown for its ornamental and medicinal value. Previous genomic studies on Chrysanthemum have largely ignored the dynamics of plastid genome (plastome) and m...

Descripción completa

Detalles Bibliográficos
Autores principales: Liu, Huihui, Hou, Zhuangwei, Xu, Lei, Ma, Qing, Wei, Min, Tembrock, Luke R., Zhang, Shuo, Wu, Zhiqiang
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10471889/
https://www.ncbi.nlm.nih.gov/pubmed/37662149
http://dx.doi.org/10.3389/fpls.2023.1228551
_version_ 1785099951287566336
author Liu, Huihui
Hou, Zhuangwei
Xu, Lei
Ma, Qing
Wei, Min
Tembrock, Luke R.
Zhang, Shuo
Wu, Zhiqiang
author_facet Liu, Huihui
Hou, Zhuangwei
Xu, Lei
Ma, Qing
Wei, Min
Tembrock, Luke R.
Zhang, Shuo
Wu, Zhiqiang
author_sort Liu, Huihui
collection PubMed
description Chrysanthemum indicum, a species native to Eastern Asia is well known as one of the progenitor species of the cultivated Chrysanthemum which is grown for its ornamental and medicinal value. Previous genomic studies on Chrysanthemum have largely ignored the dynamics of plastid genome (plastome) and mitochondria genome (mitogenome) evolution when analyzing this plant lineage. In this study, we sequenced and assembled the plastomes and mitogenomes of diploid and tetraploid C. indicum as well as the morphologically divergent variety C. indicum var. aromaticum. We used published data from 27 species with both plastome and mitogenome complete sequences to explore differences in sequence evolution between the organellar genomes. The size and structure of organellar genome between diploid and tetraploid C. indicum were generally similar but the tetraploid C. indicum and C. indicum var. aromaticum were found to contain unique sequences in the mitogenomes which also contained previously undescribed open reading frames (ORFs). Across Chrysanthemum mitogenome structure varied greatly but sequences transferred from plastomes in to the mitogenomes were conserved. Finally, differences observed between mitogenome and plastome gene trees may be the result of the difference in the rate of sequence evolution between genes in these two genomes. In total the findings presented here greatly expand the resources for studying Chrysanthemum organellar genome evolution with possible applications to conservation, breeding, and gene banking in the future.
format Online
Article
Text
id pubmed-10471889
institution National Center for Biotechnology Information
language English
publishDate 2023
publisher Frontiers Media S.A.
record_format MEDLINE/PubMed
spelling pubmed-104718892023-09-02 Comparative analysis of organellar genomes between diploid and tetraploid Chrysanthemum indicum with its relatives Liu, Huihui Hou, Zhuangwei Xu, Lei Ma, Qing Wei, Min Tembrock, Luke R. Zhang, Shuo Wu, Zhiqiang Front Plant Sci Plant Science Chrysanthemum indicum, a species native to Eastern Asia is well known as one of the progenitor species of the cultivated Chrysanthemum which is grown for its ornamental and medicinal value. Previous genomic studies on Chrysanthemum have largely ignored the dynamics of plastid genome (plastome) and mitochondria genome (mitogenome) evolution when analyzing this plant lineage. In this study, we sequenced and assembled the plastomes and mitogenomes of diploid and tetraploid C. indicum as well as the morphologically divergent variety C. indicum var. aromaticum. We used published data from 27 species with both plastome and mitogenome complete sequences to explore differences in sequence evolution between the organellar genomes. The size and structure of organellar genome between diploid and tetraploid C. indicum were generally similar but the tetraploid C. indicum and C. indicum var. aromaticum were found to contain unique sequences in the mitogenomes which also contained previously undescribed open reading frames (ORFs). Across Chrysanthemum mitogenome structure varied greatly but sequences transferred from plastomes in to the mitogenomes were conserved. Finally, differences observed between mitogenome and plastome gene trees may be the result of the difference in the rate of sequence evolution between genes in these two genomes. In total the findings presented here greatly expand the resources for studying Chrysanthemum organellar genome evolution with possible applications to conservation, breeding, and gene banking in the future. Frontiers Media S.A. 2023-08-18 /pmc/articles/PMC10471889/ /pubmed/37662149 http://dx.doi.org/10.3389/fpls.2023.1228551 Text en Copyright © 2023 Liu, Hou, Xu, Ma, Wei, Tembrock, Zhang and Wu https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Plant Science
Liu, Huihui
Hou, Zhuangwei
Xu, Lei
Ma, Qing
Wei, Min
Tembrock, Luke R.
Zhang, Shuo
Wu, Zhiqiang
Comparative analysis of organellar genomes between diploid and tetraploid Chrysanthemum indicum with its relatives
title Comparative analysis of organellar genomes between diploid and tetraploid Chrysanthemum indicum with its relatives
title_full Comparative analysis of organellar genomes between diploid and tetraploid Chrysanthemum indicum with its relatives
title_fullStr Comparative analysis of organellar genomes between diploid and tetraploid Chrysanthemum indicum with its relatives
title_full_unstemmed Comparative analysis of organellar genomes between diploid and tetraploid Chrysanthemum indicum with its relatives
title_short Comparative analysis of organellar genomes between diploid and tetraploid Chrysanthemum indicum with its relatives
title_sort comparative analysis of organellar genomes between diploid and tetraploid chrysanthemum indicum with its relatives
topic Plant Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10471889/
https://www.ncbi.nlm.nih.gov/pubmed/37662149
http://dx.doi.org/10.3389/fpls.2023.1228551
work_keys_str_mv AT liuhuihui comparativeanalysisoforganellargenomesbetweendiploidandtetraploidchrysanthemumindicumwithitsrelatives
AT houzhuangwei comparativeanalysisoforganellargenomesbetweendiploidandtetraploidchrysanthemumindicumwithitsrelatives
AT xulei comparativeanalysisoforganellargenomesbetweendiploidandtetraploidchrysanthemumindicumwithitsrelatives
AT maqing comparativeanalysisoforganellargenomesbetweendiploidandtetraploidchrysanthemumindicumwithitsrelatives
AT weimin comparativeanalysisoforganellargenomesbetweendiploidandtetraploidchrysanthemumindicumwithitsrelatives
AT tembrockluker comparativeanalysisoforganellargenomesbetweendiploidandtetraploidchrysanthemumindicumwithitsrelatives
AT zhangshuo comparativeanalysisoforganellargenomesbetweendiploidandtetraploidchrysanthemumindicumwithitsrelatives
AT wuzhiqiang comparativeanalysisoforganellargenomesbetweendiploidandtetraploidchrysanthemumindicumwithitsrelatives