RNAseq revealed the important gene pathways controlling adaptive mechanisms under waterlogged stress in maize

Abstract Waterlogging causes yield penalty in maize-growing countries of subtropical regions. Transcriptome analysis of the roots of a tolerant inbred HKI1105 using RNA sequencing revealed 21,364 differentially expressed genes (DEGs) under waterlogged stress condition. These 21,364 DEGs are known to...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Kanika Arora, Kusuma Kumari Panda, Shikha Mittal, Mallana Gowdra Mallikarjuna, Atmakuri Ramakrishna Rao, Prasanta Kumar Dash, Nepolean Thirunavukkarasu
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/19f67c3fe78f43558516bd6ec788be85
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:19f67c3fe78f43558516bd6ec788be85
record_format	dspace
spelling	oai:doaj.org-article:19f67c3fe78f43558516bd6ec788be852021-12-02T15:05:40ZRNAseq revealed the important gene pathways controlling adaptive mechanisms under waterlogged stress in maize10.1038/s41598-017-10561-12045-2322https://doaj.org/article/19f67c3fe78f43558516bd6ec788be852017-09-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-10561-1https://doaj.org/toc/2045-2322Abstract Waterlogging causes yield penalty in maize-growing countries of subtropical regions. Transcriptome analysis of the roots of a tolerant inbred HKI1105 using RNA sequencing revealed 21,364 differentially expressed genes (DEGs) under waterlogged stress condition. These 21,364 DEGs are known to regulate important pathways including energy-production, programmed cell death (PCD), aerenchyma formation, and ethylene responsiveness. High up-regulation of invertase (49-fold) and hexokinase (36-fold) in roots explained the ATP requirement in waterlogging condition. Also, high up-regulation of expansins (42-fold), plant aspartic protease A3 (19-fold), polygalacturonases (16-fold), respiratory burst oxidase homolog (12-fold), and hydrolases (11-fold) explained the PCD of root cortical cells followed by the formation of aerenchyma tissue during waterlogging stress. We hypothesized that the oxygen transfer in waterlogged roots is promoted by a cross-talk of fermentative, metabolic, and glycolytic pathways that generate ATPs for PCD and aerenchyma formation in root cortical cells. SNPs were mapped to the DEGs regulating aerenchyma formation (12), ethylene-responsive factors (11), and glycolysis (4) under stress. RNAseq derived SNPs can be used in selection approaches to breed tolerant hybrids. Overall, this investigation provided significant evidence of genes operating in the adaptive traits such as ethylene production and aerenchyma formation to cope-up the waterlogging stress.Kanika AroraKusuma Kumari PandaShikha MittalMallana Gowdra MallikarjunaAtmakuri Ramakrishna RaoPrasanta Kumar DashNepolean ThirunavukkarasuNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-12 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Kanika Arora Kusuma Kumari Panda Shikha Mittal Mallana Gowdra Mallikarjuna Atmakuri Ramakrishna Rao Prasanta Kumar Dash Nepolean Thirunavukkarasu RNAseq revealed the important gene pathways controlling adaptive mechanisms under waterlogged stress in maize
description	Abstract Waterlogging causes yield penalty in maize-growing countries of subtropical regions. Transcriptome analysis of the roots of a tolerant inbred HKI1105 using RNA sequencing revealed 21,364 differentially expressed genes (DEGs) under waterlogged stress condition. These 21,364 DEGs are known to regulate important pathways including energy-production, programmed cell death (PCD), aerenchyma formation, and ethylene responsiveness. High up-regulation of invertase (49-fold) and hexokinase (36-fold) in roots explained the ATP requirement in waterlogging condition. Also, high up-regulation of expansins (42-fold), plant aspartic protease A3 (19-fold), polygalacturonases (16-fold), respiratory burst oxidase homolog (12-fold), and hydrolases (11-fold) explained the PCD of root cortical cells followed by the formation of aerenchyma tissue during waterlogging stress. We hypothesized that the oxygen transfer in waterlogged roots is promoted by a cross-talk of fermentative, metabolic, and glycolytic pathways that generate ATPs for PCD and aerenchyma formation in root cortical cells. SNPs were mapped to the DEGs regulating aerenchyma formation (12), ethylene-responsive factors (11), and glycolysis (4) under stress. RNAseq derived SNPs can be used in selection approaches to breed tolerant hybrids. Overall, this investigation provided significant evidence of genes operating in the adaptive traits such as ethylene production and aerenchyma formation to cope-up the waterlogging stress.
format	article
author	Kanika Arora Kusuma Kumari Panda Shikha Mittal Mallana Gowdra Mallikarjuna Atmakuri Ramakrishna Rao Prasanta Kumar Dash Nepolean Thirunavukkarasu
author_facet	Kanika Arora Kusuma Kumari Panda Shikha Mittal Mallana Gowdra Mallikarjuna Atmakuri Ramakrishna Rao Prasanta Kumar Dash Nepolean Thirunavukkarasu
author_sort	Kanika Arora
title	RNAseq revealed the important gene pathways controlling adaptive mechanisms under waterlogged stress in maize
title_short	RNAseq revealed the important gene pathways controlling adaptive mechanisms under waterlogged stress in maize
title_full	RNAseq revealed the important gene pathways controlling adaptive mechanisms under waterlogged stress in maize
title_fullStr	RNAseq revealed the important gene pathways controlling adaptive mechanisms under waterlogged stress in maize
title_full_unstemmed	RNAseq revealed the important gene pathways controlling adaptive mechanisms under waterlogged stress in maize
title_sort	rnaseq revealed the important gene pathways controlling adaptive mechanisms under waterlogged stress in maize
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/19f67c3fe78f43558516bd6ec788be85
work_keys_str_mv	AT kanikaarora rnaseqrevealedtheimportantgenepathwayscontrollingadaptivemechanismsunderwaterloggedstressinmaize AT kusumakumaripanda rnaseqrevealedtheimportantgenepathwayscontrollingadaptivemechanismsunderwaterloggedstressinmaize AT shikhamittal rnaseqrevealedtheimportantgenepathwayscontrollingadaptivemechanismsunderwaterloggedstressinmaize AT mallanagowdramallikarjuna rnaseqrevealedtheimportantgenepathwayscontrollingadaptivemechanismsunderwaterloggedstressinmaize AT atmakuriramakrishnarao rnaseqrevealedtheimportantgenepathwayscontrollingadaptivemechanismsunderwaterloggedstressinmaize AT prasantakumardash rnaseqrevealedtheimportantgenepathwayscontrollingadaptivemechanismsunderwaterloggedstressinmaize AT nepoleanthirunavukkarasu rnaseqrevealedtheimportantgenepathwayscontrollingadaptivemechanismsunderwaterloggedstressinmaize
_version_	1718388751229517824

RNAseq revealed the important gene pathways controlling adaptive mechanisms under waterlogged stress in maize

Ejemplares similares