Chromatin Configuration as a Battlefield in Plant-Bacteria Interactions

Ma, Ka‐Wai; Flores, Cristina; Ma, Wenbo

doi:10.1104/pp.111.182295

Cited by 46 publications

(41 citation statements)

References 83 publications

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“…It is particularly notable that these changes coincide with increased ABA ;6 hpi (de Torres-Zabala et al, 2007;de Torres Zabala et al, 2009). Mechanistic links to chromatin remodeling and ABA (Chinnusamy et al, 2008;Ma et al, 2011) or deubiquitination (Sridhar et al, 2007) are emerging. The Arabidopsis homolog of the yeast SWI3 subunit of SWI/SNF (Switch/ Sucrose Nonfermenting) chromatin-remodeling complexes (Sarnowski et al, 2002), SWI3B, interacts with the PP2C, HAB1.…”

Section: An Emerging Role For Chromatin Remodeling Early In the Suscementioning

confidence: 99%

Transcriptional Dynamics Driving MAMP-Triggered Immunity and Pathogen Effector-Mediated Immunosuppression in Arabidopsis Leaves Following Infection with Pseudomonas syringae pv tomato DC3000

et al. 2015

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Transcriptional reprogramming is integral to effective plant defense. Pathogen effectors act transcriptionally and posttranscriptionally to suppress defense responses. A major challenge to understanding disease and defense responses is discriminating between transcriptional reprogramming associated with microbial-associated molecular pattern (MAMP)-triggered immunity (MTI) and that orchestrated by effectors. A high-resolution time course of genome-wide expression changes following challenge with Pseudomonas syringae pv tomato DC3000 and the nonpathogenic mutant strain DC3000hrpA-allowed us to establish causal links between the activities of pathogen effectors and suppression of MTI and infer with high confidence a range of processes specifically targeted by effectors. Analysis of this information-rich data set with a range of computational tools provided insights into the earliest transcriptional events triggered by effector delivery, regulatory mechanisms recruited, and biological processes targeted. We show that the majority of genes contributing to disease or defense are induced within 6 h postinfection, significantly before pathogen multiplication. Suppression of chloroplast-associated genes is a rapid MAMP-triggered defense response, and suppression of genes involved in chromatin assembly and induction of ubiquitin-related genes coincide with pathogen-induced abscisic acid accumulation. Specific combinations of promoter motifs are engaged in fine-tuning the MTI response and active transcriptional suppression at specific promoter configurations by P. syringae.

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Section: An Emerging Role For Chromatin Remodeling Early In the Suscementioning

confidence: 99%

Transcriptional Dynamics Driving MAMP-Triggered Immunity and Pathogen Effector-Mediated Immunosuppression in Arabidopsis Leaves Following Infection with Pseudomonas syringae pv tomato DC3000

et al. 2015

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“…This involves a massive transcriptional reprogramming via the activation of transcription factors and chromatin remodeling (138). The resulting protein synthesis leads to production of PR (pathogenesis-related) and other defenserelated proteins that contribute to pathogen restriction mostly via unknown mechanisms.…”

Section: How Perception Of Conserved Microbial Signatures Leads To Rementioning

confidence: 99%

Plant Innate Immunity: Perception of Conserved Microbial Signatures

Schwessinger

Ronald

2012

Annu. Rev. Plant Biol.

306

252

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Plants and animals sense conserved microbial signatures through receptors localized to the plasma membrane and cytoplasm. These receptors typically carry or associate with non-arginine-aspartate (non-RD) kinases that initiate complex signaling networks cumulating in robust defense responses. In plants, coregulatory receptor kinases have been identified that not only are critical for the innate immune response but also serve an essential function in other regulatory signaling pathways.

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“…Most of the enriched themes were related to chromatin configuration (Supplemental Fig. S10), a highly relevant process for gene expression that is an intrinsic component of plant-bacteria interactions (Ma et al, 2011). Considering the large size of M63, we further decomposed this module into four submodules (Supplemental Fig.…”

Section: Module M63 Suggests a Potential Role Of Chromatin Dynamics Imentioning

confidence: 99%

Revealing Shared and Distinct Gene Network Organization in Arabidopsis Immune Responses by Integrative Analysis

et al. 2015

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Pattern-triggered immunity (PTI) and effector-triggered immunity (ETI) are two main plant immune responses to counter pathogen invasion. Genome-wide gene network organizing principles leading to quantitative differences between PTI and ETI have remained elusive. We combined an advanced machine learning method and modular network analysis to systematically characterize the organizing principles of Arabidopsis (Arabidopsis thaliana) PTI and ETI at three network resolutions. At the single network node/ edge level, we ranked genes and gene interactions based on their ability to distinguish immune response from normal growth and successfully identified many immune-related genes associated with PTI and ETI. Topological analysis revealed that the top-ranked gene interactions tend to link network modules. At the subnetwork level, we identified a subnetwork shared by PTI and ETI encompassing 1,159 genes and 1,289 interactions. This subnetwork is enriched in interactions linking network modules and is also a hotspot of attack by pathogen effectors. The subnetwork likely represents a core component in the coordination of multiple biological processes to favor defense over development. Finally, we constructed modular network models for PTI and ETI to explain the quantitative differences in the global network architecture. Our results indicate that the defense modules in ETI are organized into relatively independent structures, explaining the robustness of ETI to genetic mutations and effector attacks. Taken together, the multiscale comparisons of PTI and ETI provide a systems biology perspective on plant immunity and emphasize coordination among network modules to establish a robust immune response.

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Chromatin Configuration as a Battlefield in Plant-Bacteria Interactions

Cited by 46 publications

References 83 publications

Transcriptional Dynamics Driving MAMP-Triggered Immunity and Pathogen Effector-Mediated Immunosuppression in Arabidopsis Leaves Following Infection with Pseudomonas syringae pv tomato DC3000

Transcriptional Dynamics Driving MAMP-Triggered Immunity and Pathogen Effector-Mediated Immunosuppression in Arabidopsis Leaves Following Infection with Pseudomonas syringae pv tomato DC3000

Plant Innate Immunity: Perception of Conserved Microbial Signatures

Revealing Shared and Distinct Gene Network Organization in Arabidopsis Immune Responses by Integrative Analysis

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