The First De Novo Transcriptome Assembly and Transcriptomic Dynamics of the Mangrove Tree <i>Rhizophora stylosa</i> Griff. (Rhizophoraceae)

Mangroves are salt-tolerant plant species that grow in coastal saline water and are adapted to harsh environmental conditions. In this study, we de novo assembled and functionally annotated the transcriptome of <i>Rhizophora stylosa</i>, the widely distributed mangrove from the largest m...

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Autores principales:	Matin Miryeganeh, Hidetoshi Saze
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	mangrove RNA-Seq gene expression epigenetics abiotic stress salt stress Biology (General) QH301-705.5 Chemistry QD1-999
Acceso en línea:	https://doaj.org/article/d2147c5e71144d09be089b207ea72dbc
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spelling	oai:doaj.org-article:d2147c5e71144d09be089b207ea72dbc2021-11-11T17:23:08ZThe First De Novo Transcriptome Assembly and Transcriptomic Dynamics of the Mangrove Tree <i>Rhizophora stylosa</i> Griff. (Rhizophoraceae)10.3390/ijms2221119641422-00671661-6596https://doaj.org/article/d2147c5e71144d09be089b207ea72dbc2021-11-01T00:00:00Zhttps://www.mdpi.com/1422-0067/22/21/11964https://doaj.org/toc/1661-6596https://doaj.org/toc/1422-0067Mangroves are salt-tolerant plant species that grow in coastal saline water and are adapted to harsh environmental conditions. In this study, we de novo assembled and functionally annotated the transcriptome of <i>Rhizophora stylosa</i>, the widely distributed mangrove from the largest mangrove family (Rhizophoraceae). The final transcriptome consists of 200,491 unigenes with an average length, and N50 of 912.7 and 1334 base pair, respectively. We then compared the genome-wide expression profiles between the two morphologically distinct natural populations of this species growing under different levels of salinity depending on their distance from the ocean. Among the 200,491 unigenes, 40,253 were identified as differentially expressed between the two populations, while 15,741 and 24,512 were up- and down-regulated, respectively. Functional annotation assigned thousands of upregulated genes in saline environment to the categories related to abiotic stresses such as response to salt-, osmotic-, and oxidative-stress. Validation of those genes may contribute to a better understanding of adaptation in mangroves species. This study reported, for the first time, the transcriptome of <i>R. stylosa</i>, and the dynamic of it in response to salt stress and provided a valuable resource for elucidation of the molecular mechanism underlying the salt stress response in mangroves and other plants that live under stress.Matin MiryeganehHidetoshi SazeMDPI AGarticlemangroveRNA-Seqgene expressionepigeneticsabiotic stresssalt stressBiology (General)QH301-705.5ChemistryQD1-999ENInternational Journal of Molecular Sciences, Vol 22, Iss 11964, p 11964 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	mangrove RNA-Seq gene expression epigenetics abiotic stress salt stress Biology (General) QH301-705.5 Chemistry QD1-999
spellingShingle	mangrove RNA-Seq gene expression epigenetics abiotic stress salt stress Biology (General) QH301-705.5 Chemistry QD1-999 Matin Miryeganeh Hidetoshi Saze The First De Novo Transcriptome Assembly and Transcriptomic Dynamics of the Mangrove Tree <i>Rhizophora stylosa</i> Griff. (Rhizophoraceae)
description	Mangroves are salt-tolerant plant species that grow in coastal saline water and are adapted to harsh environmental conditions. In this study, we de novo assembled and functionally annotated the transcriptome of <i>Rhizophora stylosa</i>, the widely distributed mangrove from the largest mangrove family (Rhizophoraceae). The final transcriptome consists of 200,491 unigenes with an average length, and N50 of 912.7 and 1334 base pair, respectively. We then compared the genome-wide expression profiles between the two morphologically distinct natural populations of this species growing under different levels of salinity depending on their distance from the ocean. Among the 200,491 unigenes, 40,253 were identified as differentially expressed between the two populations, while 15,741 and 24,512 were up- and down-regulated, respectively. Functional annotation assigned thousands of upregulated genes in saline environment to the categories related to abiotic stresses such as response to salt-, osmotic-, and oxidative-stress. Validation of those genes may contribute to a better understanding of adaptation in mangroves species. This study reported, for the first time, the transcriptome of <i>R. stylosa</i>, and the dynamic of it in response to salt stress and provided a valuable resource for elucidation of the molecular mechanism underlying the salt stress response in mangroves and other plants that live under stress.
format	article
author	Matin Miryeganeh Hidetoshi Saze
author_facet	Matin Miryeganeh Hidetoshi Saze
author_sort	Matin Miryeganeh
title	The First De Novo Transcriptome Assembly and Transcriptomic Dynamics of the Mangrove Tree <i>Rhizophora stylosa</i> Griff. (Rhizophoraceae)
title_short	The First De Novo Transcriptome Assembly and Transcriptomic Dynamics of the Mangrove Tree <i>Rhizophora stylosa</i> Griff. (Rhizophoraceae)
title_full	The First De Novo Transcriptome Assembly and Transcriptomic Dynamics of the Mangrove Tree <i>Rhizophora stylosa</i> Griff. (Rhizophoraceae)
title_fullStr	The First De Novo Transcriptome Assembly and Transcriptomic Dynamics of the Mangrove Tree <i>Rhizophora stylosa</i> Griff. (Rhizophoraceae)
title_full_unstemmed	The First De Novo Transcriptome Assembly and Transcriptomic Dynamics of the Mangrove Tree <i>Rhizophora stylosa</i> Griff. (Rhizophoraceae)
title_sort	first de novo transcriptome assembly and transcriptomic dynamics of the mangrove tree <i>rhizophora stylosa</i> griff. (rhizophoraceae)
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/d2147c5e71144d09be089b207ea72dbc
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The First De Novo Transcriptome Assembly and Transcriptomic Dynamics of the Mangrove Tree <i>Rhizophora stylosa</i> Griff. (Rhizophoraceae)

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