Unknown,Transcriptomics,Genomics,Proteomics

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Transcription profiling of Arabidopsis thaliana wild type (Columbia-0) and lht1 mutant leaves

ABSTRACT: We found that amino acid transporter LHT1 was required for negatively regulating plant defence responses in addition to its physiological role in development and growth. In order to identify which defense pathways were involved in this process, we compared the expression profiles between wild type and lht1 mutant leaves without or with infection by Pseudomonas syringae pv. tomato DC3000 (Pst). In the lht1 mutant, except the changes in nitrogen metabolism-, cellular redox-, and photorespiration-associated gene expressions, the most drastic upregulations were found in the salicylic acid pathway-associated defense genes. Experiment Overall Design: We used microarrays to detail the global profile of gene expression after knocking out the LHT1 gene and identified distinct classes of up- and down-regulated genes associated with the lht1 mutation. Experiment Overall Design: The Arabidopsis plants grown for 3 weeks in short day condition, without or with 48hr pathogen infection, were selected for RNA extraction and hybridization on Affymetrix microarrays. We sought to obtain homogeneous populations of leaves in order to better represent expression profiles. To that end, we hand-selected the leaves at the same stages (fully expanded) and mixed them together for each biological replicate.

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Yangdou Wei

PROVIDER: E-GEOD-19109 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Project description:Plants have evolved a two-layered immune system that mainly includes pattern-triggered immunity (PTI) and effector-triggered immunity (ETI) against pathogen attack. PTI and ETI signaling are functionally linked, but also distinct due to specific perceived ligands and activation modes. Unraveling how PTI and ETI coordinate the immune responses against pathogens is crucial for understanding the regulatory mechanisms in plant immunity. To better understand the protein profiling and phosphorylation events during PTI and ETI, we employed integrated whole proteome and phosphoproteome analyses in the tomato-Pst pathosystem with different Pst DC3000 mutants that allow dissection of different layers of immune responses. A total of 225 proteins and 79 phosphopeptides were differentially regulated in tomato leaves during immune responses. Our proteomics results indicate that some overlapping immune responses are triggered by both PTI and ETI-inducing treatment, and ETI response is more robust than PTI response for most proteins. The change patterns of protein abundance and phosphorylation revealed some key regulators involved in Ca2+ signaling, mitogen-activated protein kinase cascades, and reversible protein phosphorylation, ROS and redox homeostasis, direct defense, transcription machinery and protein turnover, cell wall remodeling, hormone biosynthesis, as well as immune molecule accumulation, are modulated during PTI and/or ETI, suggesting their common or specific roles in plant immune responses. However, NAC domain protein and lipid particle serine esterase, two PTI-specific genes from previous transcriptomic work, have not been detected as differentially regulated in our proteomic analysis, and they were proved to be not PTI-specific inducible and therefore cannot be used as PTI-reporters through “overlapping circle” pattern assay. These results provide insights into the fine-tuned regulatory mechanisms between PTI and ETI in-Pst pathosystem, which will springboard further investigations into the sophisticated mechanisms in plant immunity.

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Transcription profiling of Arabidopsis thaliana wild type (Columbia-0) and lht1 mutant leaves

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