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Role of auxin-responsive genes in biotic stress responses.

ABSTRACT: Although the phytohormone auxin has been implicated primarily in developmental processes, some recent studies suggest its involvement in stress/defense responses as well. Recently, we identified auxin-responsive genes and reported their comprehensive transcript profiling during various stages of development and abiotic stress responses in crop plant rice. The analysis revealed tissue-specific and overlapping expression profiles of auxin-responsive genes during various stages of reproductive development. In addition, a large number of auxin-responsive genes were also found to be differentially expressed under various abiotic stress conditions. Here, we further analyze the expression profiles of auxin-responsive genes during various biotic stress conditions. Several auxin-responsive genes showed response to biotic stress as well. Our analysis provides evidence for role of auxin in plant defense responses and suggests cross-talk between auxin, abiotic stress and biotic stress signaling pathways.

SUBMITTER: Ghanashyam C

PROVIDER: S-EPMC2802801 | biostudies-literature | 2009 Sep

REPOSITORIES: biostudies-literature

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Role of auxin-responsive genes in biotic stress responses.

Ghanashyam Challa C Jain Mukesh M

Plant signaling & behavior 20090916 9

Although the phytohormone auxin has been implicated primarily in developmental processes, some recent studies suggest its involvement in stress/defense responses as well. Recently, we identified auxin-responsive genes and reported their comprehensive transcript profiling during various stages of development and abiotic stress responses in crop plant rice. The analysis revealed tissue-specific and overlapping expression profiles of auxin-responsive genes during various stages of reproductive deve ...[more]

PMID: 19847104

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Project description:Intricate signal networks and transcriptional regulators translate the recognition of pathogens into defense responses. In this study, we carried out a gene co-expression analysis of all currently publicly available microarray data, which were generated in experiments that studied the interaction of the model plant Arabidopsis thaliana with microbial pathogens. This work was conducted to identify (i) modules of functionally related co-expressed genes that are differentially expressed in response to multiple biotic stresses, and (ii) hub genes that may function as core regulators of disease responses. Using Weighted Gene Co-expression Network Analysis (WGCNA) we constructed an undirected network leveraging a rich curated expression dataset comprising 272 microarrays that involved microbial infections of Arabidopsis plants with a wide array of fungal and bacterial pathogens with biotrophic, hemibiotrophic, and necrotrophic lifestyles. WGCNA produced a network with scale-free and small-world properties composed of 205 distinct clusters of co-expressed genes. Modules of functionally related co-expressed genes that are differentially regulated in response to multiple pathogens were identified by integrating differential gene expression testing with functional enrichment analyses of gene ontology terms, known disease associated genes, transcriptional regulators, and cis-regulatory elements. The significance of functional enrichments was validated by comparisons with randomly generated networks. Network topology was then analyzed to identify intra- and inter-modular gene hubs. Based on high connectivity, and centrality in meta-modules that are clearly enriched in defense responses, we propose a list of 66 target genes for reverse genetic experiments to further dissect the Arabidopsis immune system. Our results show that statistical-based data trimming prior to network analysis allows the integration of expression datasets generated by different groups, under different experimental conditions and biological systems, into a functionally meaningful co-expression network.

Project description:Survival biomass production and crop yield are heavily constrained by a wide range of environmental stresses. Several phytohormones among which abscisic acid (ABA), ethylene and salicylic acid (SA) are known to mediate plant responses to these stresses. By contrast, the role of the plant hormone auxin in stress responses remains so far poorly studied. Auxin controls many aspects of plant growth and development, and Auxin Response Factors play a key role in the transcriptional activation or repression of auxin-responsive genes through direct binding to their promoters. As a mean to gain more insight on auxin involvement in a set of biotic and abiotic stress responses in tomato, the present study uncovers the expression pattern of SlARF genes in tomato plants subjected to biotic and abiotic stresses. In silico mining of the RNAseq data available through the public TomExpress web platform, identified several SlARFs as responsive to various pathogen infections induced by bacteria and viruses. Accordingly, sequence analysis revealed that 5' regulatory regions of these SlARFs are enriched in biotic and abiotic stress-responsive cis-elements. Moreover, quantitative qPCR expression analysis revealed that many SlARFs were differentially expressed in tomato leaves and roots under salt, drought and flooding stress conditions. Further pointing to the putative role of SlARFs in stress responses, quantitative qPCR expression studies identified some miRNA precursors as potentially involved in the regulation of their SlARF target genes in roots exposed to salt and drought stresses. These data suggest an active regulation of SlARFs at the post-transcriptional level under stress conditions. Based on the substantial change in the transcript accumulation of several SlARF genes, the data presented in this work strongly support the involvement of auxin in stress responses thus enabling to identify a set of candidate SlARFs as potential mediators of biotic and abiotic stress responses.

Dataset Information

Role of auxin-responsive genes in biotic stress responses.

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Role of auxin-responsive genes in biotic stress responses.

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