Global temporal dynamic landscape of pathogen-mediated subversion of Arabidopsis innate immunity

Abstract The universal nature of networks’ structural and physical properties across diverse systems offers a better prospect to elucidate the interplay between a system and its environment. In the last decade, several large-scale transcriptome and interactome studies were conducted to understand th...

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Autores principales:	Bharat Mishra, Yali Sun, Hadia Ahmed, Xiaoyu Liu, M. Shahid Mukhtar
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/aabc08f1a5ae490dba23c6848058492b
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spelling	oai:doaj.org-article:aabc08f1a5ae490dba23c6848058492b2021-12-02T16:08:11ZGlobal temporal dynamic landscape of pathogen-mediated subversion of Arabidopsis innate immunity10.1038/s41598-017-08073-z2045-2322https://doaj.org/article/aabc08f1a5ae490dba23c6848058492b2017-08-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-08073-zhttps://doaj.org/toc/2045-2322Abstract The universal nature of networks’ structural and physical properties across diverse systems offers a better prospect to elucidate the interplay between a system and its environment. In the last decade, several large-scale transcriptome and interactome studies were conducted to understand the complex and dynamic nature of interactions between Arabidopsis and its bacterial pathogen, Pseudomonas syringae pv. tomato DC3000. We took advantage of these publicly available datasets and performed “-omics”-based integrative, and network topology analyses to decipher the transcriptional and protein-protein interaction activities of effector targets. We demonstrated that effector targets exhibit shorter distance to differentially expressed genes (DEGs) and possess increased information centrality. Intriguingly, effector targets are differentially expressed in a sequential manner and make for 1% of the total DEGs at any time point of infection with virulent or defense-inducing DC3000 strains. We revealed that DC3000 significantly alters the expression levels of 71% effector targets and their downstream physical interacting proteins in Arabidopsis interactome. Our integrative “-omics”-–based analyses identified dynamic complexes associated with MTI and disease susceptibility. Finally, we discovered five novel plant defense players using a systems biology-fueled top-to-bottom approach and demonstrated immune-related functions for them, further validating the power and resolution of our network analyses.Bharat MishraYali SunHadia AhmedXiaoyu LiuM. Shahid MukhtarNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-13 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Bharat Mishra Yali Sun Hadia Ahmed Xiaoyu Liu M. Shahid Mukhtar Global temporal dynamic landscape of pathogen-mediated subversion of Arabidopsis innate immunity
description	Abstract The universal nature of networks’ structural and physical properties across diverse systems offers a better prospect to elucidate the interplay between a system and its environment. In the last decade, several large-scale transcriptome and interactome studies were conducted to understand the complex and dynamic nature of interactions between Arabidopsis and its bacterial pathogen, Pseudomonas syringae pv. tomato DC3000. We took advantage of these publicly available datasets and performed “-omics”-based integrative, and network topology analyses to decipher the transcriptional and protein-protein interaction activities of effector targets. We demonstrated that effector targets exhibit shorter distance to differentially expressed genes (DEGs) and possess increased information centrality. Intriguingly, effector targets are differentially expressed in a sequential manner and make for 1% of the total DEGs at any time point of infection with virulent or defense-inducing DC3000 strains. We revealed that DC3000 significantly alters the expression levels of 71% effector targets and their downstream physical interacting proteins in Arabidopsis interactome. Our integrative “-omics”-–based analyses identified dynamic complexes associated with MTI and disease susceptibility. Finally, we discovered five novel plant defense players using a systems biology-fueled top-to-bottom approach and demonstrated immune-related functions for them, further validating the power and resolution of our network analyses.
format	article
author	Bharat Mishra Yali Sun Hadia Ahmed Xiaoyu Liu M. Shahid Mukhtar
author_facet	Bharat Mishra Yali Sun Hadia Ahmed Xiaoyu Liu M. Shahid Mukhtar
author_sort	Bharat Mishra
title	Global temporal dynamic landscape of pathogen-mediated subversion of Arabidopsis innate immunity
title_short	Global temporal dynamic landscape of pathogen-mediated subversion of Arabidopsis innate immunity
title_full	Global temporal dynamic landscape of pathogen-mediated subversion of Arabidopsis innate immunity
title_fullStr	Global temporal dynamic landscape of pathogen-mediated subversion of Arabidopsis innate immunity
title_full_unstemmed	Global temporal dynamic landscape of pathogen-mediated subversion of Arabidopsis innate immunity
title_sort	global temporal dynamic landscape of pathogen-mediated subversion of arabidopsis innate immunity
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/aabc08f1a5ae490dba23c6848058492b
work_keys_str_mv	AT bharatmishra globaltemporaldynamiclandscapeofpathogenmediatedsubversionofarabidopsisinnateimmunity AT yalisun globaltemporaldynamiclandscapeofpathogenmediatedsubversionofarabidopsisinnateimmunity AT hadiaahmed globaltemporaldynamiclandscapeofpathogenmediatedsubversionofarabidopsisinnateimmunity AT xiaoyuliu globaltemporaldynamiclandscapeofpathogenmediatedsubversionofarabidopsisinnateimmunity AT mshahidmukhtar globaltemporaldynamiclandscapeofpathogenmediatedsubversionofarabidopsisinnateimmunity
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Global temporal dynamic landscape of pathogen-mediated subversion of Arabidopsis innate immunity

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