Comparative Chloroplast Genomes of Zosteraceae Species Provide Adaptive Evolution Insights Into Seagrass

Seagrasses are marine flowering plants found in tropical and sub-tropical areas that live in coastal regions between the sea and land. All seagrass species evolved from terrestrial monocotyledons, providing the opportunity to study plant adaptation to sea environments. Here, we sequenced the chlorop...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Jun Chen, Yu Zang, Shuai Shang, Shuo Liang, Meiling Zhu, Ying Wang, Xuexi Tang
Formato:	article
Lenguaje:	EN
Publicado:	Frontiers Media S.A. 2021
Materias:	Zosteraceae seagrass chloroplast genome genome structure adaptive evolution Plant culture SB1-1110
Acceso en línea:	https://doaj.org/article/f9fba02d0acc43fc9d49432281a07c91
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:f9fba02d0acc43fc9d49432281a07c91
record_format	dspace
spelling	oai:doaj.org-article:f9fba02d0acc43fc9d49432281a07c912021-12-01T08:38:54ZComparative Chloroplast Genomes of Zosteraceae Species Provide Adaptive Evolution Insights Into Seagrass1664-462X10.3389/fpls.2021.741152https://doaj.org/article/f9fba02d0acc43fc9d49432281a07c912021-09-01T00:00:00Zhttps://www.frontiersin.org/articles/10.3389/fpls.2021.741152/fullhttps://doaj.org/toc/1664-462XSeagrasses are marine flowering plants found in tropical and sub-tropical areas that live in coastal regions between the sea and land. All seagrass species evolved from terrestrial monocotyledons, providing the opportunity to study plant adaptation to sea environments. Here, we sequenced the chloroplast genomes (cpGenomes) of three Zostera species, then analyzed and compared their cpGenome structures and sequence variations. We also performed a phylogenetic analysis using published seagrass chloroplasts and calculated the selection pressure of 17 species within seagrasses and nine terrestrial monocotyledons, as well as estimated the number of shared genes of eight seagrasses. The cpGenomes of Zosteraceae species ranged in size from 143,877 bp (Zostera marina) to 152,726 bp (Phyllospadix iwatensis), which were conserved and displayed similar structures and gene orders. Additionally, we found 17 variable hotspot regions as candidate DNA barcodes for Zosteraceae species, which will be helpful for studying the phylogenetic relationships and interspecies differences between seagrass species. Interestingly, nine genes had positive selection sites, including two ATP subunit genes (atpA and atpF), two ribosome subunit genes (rps4 and rpl20), two DNA-dependent RNA polymerase genes (rpoC1 and rpoC2), as well as accD, clpP, and ycf2. These gene regions may have played key roles in the seagrass adaptation to diverse environments. The Branch model analysis showed that seagrasses had a higher rate of evolution than terrestrial monocotyledons, suggesting that seagrasses experienced greater environmental pressure. Moreover, a branch-site model identified positively selected sites (PSSs) in ccsA, suggesting their involvement in the adaptation to sea environments. These findings are valuable for further investigations on Zosteraceae cpGenomes and will serve as an excellent resource for future studies on seagrass adaptation to sea environments.Jun ChenYu ZangShuai ShangShuai ShangShuo LiangMeiling ZhuYing WangYing WangXuexi TangXuexi TangFrontiers Media S.A.articleZosteraceaeseagrasschloroplast genomegenome structureadaptive evolutionPlant cultureSB1-1110ENFrontiers in Plant Science, Vol 12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Zosteraceae seagrass chloroplast genome genome structure adaptive evolution Plant culture SB1-1110
spellingShingle	Zosteraceae seagrass chloroplast genome genome structure adaptive evolution Plant culture SB1-1110 Jun Chen Yu Zang Shuai Shang Shuai Shang Shuo Liang Meiling Zhu Ying Wang Ying Wang Xuexi Tang Xuexi Tang Comparative Chloroplast Genomes of Zosteraceae Species Provide Adaptive Evolution Insights Into Seagrass
description	Seagrasses are marine flowering plants found in tropical and sub-tropical areas that live in coastal regions between the sea and land. All seagrass species evolved from terrestrial monocotyledons, providing the opportunity to study plant adaptation to sea environments. Here, we sequenced the chloroplast genomes (cpGenomes) of three Zostera species, then analyzed and compared their cpGenome structures and sequence variations. We also performed a phylogenetic analysis using published seagrass chloroplasts and calculated the selection pressure of 17 species within seagrasses and nine terrestrial monocotyledons, as well as estimated the number of shared genes of eight seagrasses. The cpGenomes of Zosteraceae species ranged in size from 143,877 bp (Zostera marina) to 152,726 bp (Phyllospadix iwatensis), which were conserved and displayed similar structures and gene orders. Additionally, we found 17 variable hotspot regions as candidate DNA barcodes for Zosteraceae species, which will be helpful for studying the phylogenetic relationships and interspecies differences between seagrass species. Interestingly, nine genes had positive selection sites, including two ATP subunit genes (atpA and atpF), two ribosome subunit genes (rps4 and rpl20), two DNA-dependent RNA polymerase genes (rpoC1 and rpoC2), as well as accD, clpP, and ycf2. These gene regions may have played key roles in the seagrass adaptation to diverse environments. The Branch model analysis showed that seagrasses had a higher rate of evolution than terrestrial monocotyledons, suggesting that seagrasses experienced greater environmental pressure. Moreover, a branch-site model identified positively selected sites (PSSs) in ccsA, suggesting their involvement in the adaptation to sea environments. These findings are valuable for further investigations on Zosteraceae cpGenomes and will serve as an excellent resource for future studies on seagrass adaptation to sea environments.
format	article
author	Jun Chen Yu Zang Shuai Shang Shuai Shang Shuo Liang Meiling Zhu Ying Wang Ying Wang Xuexi Tang Xuexi Tang
author_facet	Jun Chen Yu Zang Shuai Shang Shuai Shang Shuo Liang Meiling Zhu Ying Wang Ying Wang Xuexi Tang Xuexi Tang
author_sort	Jun Chen
title	Comparative Chloroplast Genomes of Zosteraceae Species Provide Adaptive Evolution Insights Into Seagrass
title_short	Comparative Chloroplast Genomes of Zosteraceae Species Provide Adaptive Evolution Insights Into Seagrass
title_full	Comparative Chloroplast Genomes of Zosteraceae Species Provide Adaptive Evolution Insights Into Seagrass
title_fullStr	Comparative Chloroplast Genomes of Zosteraceae Species Provide Adaptive Evolution Insights Into Seagrass
title_full_unstemmed	Comparative Chloroplast Genomes of Zosteraceae Species Provide Adaptive Evolution Insights Into Seagrass
title_sort	comparative chloroplast genomes of zosteraceae species provide adaptive evolution insights into seagrass
publisher	Frontiers Media S.A.
publishDate	2021
url	https://doaj.org/article/f9fba02d0acc43fc9d49432281a07c91
work_keys_str_mv	AT junchen comparativechloroplastgenomesofzosteraceaespeciesprovideadaptiveevolutioninsightsintoseagrass AT yuzang comparativechloroplastgenomesofzosteraceaespeciesprovideadaptiveevolutioninsightsintoseagrass AT shuaishang comparativechloroplastgenomesofzosteraceaespeciesprovideadaptiveevolutioninsightsintoseagrass AT shuaishang comparativechloroplastgenomesofzosteraceaespeciesprovideadaptiveevolutioninsightsintoseagrass AT shuoliang comparativechloroplastgenomesofzosteraceaespeciesprovideadaptiveevolutioninsightsintoseagrass AT meilingzhu comparativechloroplastgenomesofzosteraceaespeciesprovideadaptiveevolutioninsightsintoseagrass AT yingwang comparativechloroplastgenomesofzosteraceaespeciesprovideadaptiveevolutioninsightsintoseagrass AT yingwang comparativechloroplastgenomesofzosteraceaespeciesprovideadaptiveevolutioninsightsintoseagrass AT xuexitang comparativechloroplastgenomesofzosteraceaespeciesprovideadaptiveevolutioninsightsintoseagrass AT xuexitang comparativechloroplastgenomesofzosteraceaespeciesprovideadaptiveevolutioninsightsintoseagrass
_version_	1718405392639197184

Comparative Chloroplast Genomes of Zosteraceae Species Provide Adaptive Evolution Insights Into Seagrass

Ejemplares similares