Arabidopsis thaliana
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA360866 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR5164962_1.fastq.gz | Fastqsanger.gz | |||
| SRR5164962_2.fastq.gz | Fastqsanger.gz | |||
| SRR5164963_1.fastq.gz | Fastqsanger.gz | |||
| SRR5164963_2.fastq.gz | Fastqsanger.gz | |||
| SRR5164964_1.fastq.gz | Fastqsanger.gz |
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Similar Datasets
Project description:Submergence induces hypoxia in plants; exposure to oxygen following submergence, termed reoxygenation, produces a burst of reactive oxygen species. The mechanisms of hypoxia sensing and signaling in plants have been well studied, but how plants respond to reoxygenation remains unclear. Here, we show that reoxygenation in Arabidopsis thaliana involves rapid accumulation of jasmonates (JAs) and increased transcript levels of JA biosynthesis genes. Application of exogenous methyl jasmonate improved tolerance to reoxygenation in wild-type Arabidopsis; also, mutants deficient in JA biosynthesis and signaling were very sensitive to reoxygenation. Moreover, overexpression of the transcription factor gene MYC2 enhanced tolerance to post-hypoxic stress and myc2 knockout mutants showed increased sensitivity to reoxygenation, indicating that MYC2 functions as a key regulator in the JA-mediated reoxygenation response. MYC2 transcriptionally activates members of the VITAMIN C DEFECTIVE (VTC) and GLUTATHIONE SYNTHETASE (GSH) gene families, which encode rate-limiting enzymes in the ascorbate and glutathione synthesis pathways. Overexpression of VTC1 and GSH1 in the myc2-2 mutant suppressed the post-hypoxic hypersensitive phenotype. The JA-inducible accumulation of antioxidants may alleviate oxidative damage caused by reoxygenation, improving plant survival after submergence. Taken together, our findings demonstrate that JA signaling interacts with the antioxidant pathway to regulate reoxygenation responses in Arabidopsis.
2017-08-25 | GSE93393 | GEO
Project description:Trichoderma-plant root colonization: escaping early plant defense responses and activation of the antioxidant machinery
| PRJNA179210 | ENA
Project description:Wounding is a trigger for both regeneration and defense in plants, but it is not clear if the two responses are linked by common activation or represent potential tradeoffs. While plant glutamate-like receptors (GLRs) are known to mediate defense responses, we implicate GLRs in regeneration through dynamic changes in chromatin and transcription in reprogramming cells near wound sites. Here, we show that genetic mutation and pharmacological inhibition of GLRs increases regeneration efficiency in multiple organ repair systems and plant species. Perturbation of GLR-mediated function, possibly by affecting Calcium fluxes, speeds cell division and re-specification of the stem cell niche while dampening a subset of defense responses. We show that the GLRs work through salicylic acid (SA) signaling in their effects on regeneration, with mutants in the SA receptor NPR1 partially resistant to GLR perturbation and hyper regenerative. These findings reveal a conserved mechanism that regulates a tradeoff between defense and regeneration and also offer new strategies to improve regeneration in agricultural and conservation.
2021-07-01 | GSE168381 | GEO
Project description:In plants, jasmonate signalling regulates a wide range of processes from growth and develop-ment to defence responses and thermotolerance. Bioactive jasmonates, such as JA, JA-Ile, OPDA and dn-OPDA, are derived from C18- and C16- fatty acids (FAs), which are found ubiquitously in the plant kingdom. Bryophytes also contain long chain C20- and C22- FAs (LCFAs), which are absent in most vascular plants but are found in organisms of other king-doms, including mammals. The existence of bioactive jasmonates derived from LCFAs is cur-rently unknown. Here, we describe the identification of an OPDA-like molecule derived from a C20-FA in Marchantia polymorpha, which we term C20-OPDA. This molecule accumulates upon wounding, and when applied exogenously can activate known COI1-dependent and -independent jasmonate responses. Furthermore, we identify a dn-OPDA-like molecule (Δ4-dn-OPDA) deriving from C20-OPDA and demonstrate it to be a ligand of the jasmonate co-receptor (MpCOI1-MpJAZ) in Marchantia. By analysing mutants involved in the production of LCFAs, we elucidate the major biosynthetic pathway of C20-OPDA and Δ4-dn-OPDA. Moreover, using a double mutant compromised in the production of both Δ4-dn-OPDA and dn-OPDA, we demonstrate the additive nature of these molecules in the activation of jasmonate responses. Taken together, our data identify LCFAs as a source of bioactive jasmonates that are essential to plant plasticity and resilience.
2022-05-17 | GSE195838 | GEO
Project description:In plants, jasmonate signalling regulates a wide range of processes from growth and develop-ment to defence responses and thermotolerance. Bioactive jasmonates, such as JA, JA-Ile, OPDA and dn-OPDA, are derived from C18- and C16- fatty acids (FAs), which are found ubiquitously in the plant kingdom. Bryophytes also contain long chain C20- and C22- FAs (LCFAs), which are absent in most vascular plants but are found in organisms of other king-doms, including mammals. The existence of bioactive jasmonates derived from LCFAs is cur-rently unknown. Here, we describe the identification of an OPDA-like molecule derived from a C20-FA in Marchantia polymorpha, which we term C20-OPDA. This molecule accumulates upon wounding, and when applied exogenously can activate known COI1-dependent and -independent jasmonate responses. Furthermore, we identify a dn-OPDA-like molecule (Δ4-dn-OPDA) deriving from C20-OPDA and demonstrate it to be a ligand of the jasmonate co-receptor (MpCOI1-MpJAZ) in Marchantia. By analysing mutants involved in the production of LCFAs, we elucidate the major biosynthetic pathway of C20-OPDA and Δ4-dn-OPDA. Moreover, using a double mutant compromised in the production of both Δ4-dn-OPDA and dn-OPDA, we demonstrate the additive nature of these molecules in the activation of jasmonate responses. Taken together, our data identify LCFAs as a source of bioactive jasmonates that are essential to plant plasticity and resilience.
2022-05-17 | GSE195837 | GEO
Project description:We have investigated the genome regulatory network that controls responses to the hormone jasmonate in seedlings. There is much interest currently in understanding the systems-level actions of transcription factors. However, such studies can provide much greater biological insight if set in the context of the signal transduction pathway that initiates gene expression changes and the downstream organismal phenotypes they control. We have generated an integrated framework of the response to jasmonate that spans from signal perception and transduction, through activity of master and secondary-regulatory transcription factors, to gene expression outputs and chromatin remodelling. We make use of genome-wide target maps for hundreds of transcription factors, dynamic histone modification analysis, global proteome and phosphoproteome analyses, massively multiplexed protein-protein interactome data and time series transcriptome analysis. This enables us to predict previously unknown components of the jasmonate regulatory mechanism and validate them through targeted mutant studies. The result is a comprehensive understanding of how a plant hormone remodels cellular function and plant behaviour.
2020-03-19 | PXD013592 | Pride
Project description:To understand how plants respond to anoxia-reoxygenation, we have employed a global microarray expression profiling as a basic platform to characterize genes with the potential to mediate the recovery responses in Arabidopsis. 7-day-old seedlings were trated with 4hr and 8hr anoxia, and then reoxygenated in air for 0, 0.5, 1, 3, 6 hrs. Genes changed in both condition were designated as reoxygenation-regulated genes. They included the genes in ROS detoxification, dehydration, metabolic process, and many other responses. Interestingly, ethylene was also involved in this recovery process. We further adopted ein2-5 and ein3eil1 microarray to investigate ethylene signaling. Our results showed ethylene partially regulate reoxygenation regulated genes and is reruired for plant survival in reoxygenation. Genes expression during anoxia-reoxygenation in Arabidopsis seedlings was measured at 0, 0.5, 1, 3, 6 hours after anoxia treatment, and normal condition before anoxia. Three independent experiments were performed at each time (Nor, 0, 0.5, 1, 3, 6) under 4hr anoxia-reoxygenation condition by using Col-0, ein2-5, and ein3eil1. Four independent experiments were performed at each time (Nor, 0, 0.5, 1, 3, 6) under 8hr anoxia-reoxygenation condition by using Col-0.
2014-02-18 | E-GEOD-51767 | biostudies-arrayexpress
Project description:We report the development of subtype selective ligands into plant hormone jasmonate co-receptor COI1-JAZ. Plant hormone jasmonoyl isoleucine and the structural mimic natural product coronatine has non-selective affinity with 13 species of COI1-JAZ co-receptors in Arabidopsis thaliana to cause bath of bacterial defense and growth inhibition. Some subtype selective ligands were developed by our chemical screening and activated the part of whole jasmonate signaling. To examine the mode-of-action of the subtype selective ligand, gene expression profiles of WT and jaz9 mutant treated with mock or with coronatine (2) and subtype selective ligands (2e and 12) was performed using the RNA-seq. The subtype selective ligand induced partial activation of jasmonate signaling to cause defense responses against bacterial pathogen without growth inhibition.
2024-09-08 | GSE184730 | GEO
Project description:To understand how plants respond to anoxia-reoxygenation, we have employed a global microarray expression profiling as a basic platform to characterize genes with the potential to mediate the recovery responses in Arabidopsis. 7-day-old seedlings were trated with 4hr and 8hr anoxia, and then reoxygenated in air for 0, 0.5, 1, 3, 6 hrs. Genes changed in both condition were designated as reoxygenation-regulated genes. They included the genes in ROS detoxification, dehydration, metabolic process, and many other responses. Interestingly, ethylene was also involved in this recovery process. We further adopted ein2-5 and ein3eil1 microarray to investigate ethylene signaling. Our results showed ethylene partially regulate reoxygenation regulated genes and is reruired for plant survival in reoxygenation.
2014-02-18 | GSE51767 | GEO
Project description:Myzus persicae (green peach aphid) feeding on Arabidopsis thaliana induces a defense response, quantified as reduced aphid progeny production, in infested leaves but not in other parts of the plant. Similarly, infiltration of aphid saliva into Arabidopsis leaves causes only a local increase in aphid resistance. Further characterization of the defense-eliciting salivary components indicates that Arabidopsis recognizes a proteinaceous elicitor with a size between 3 to 10 kD. Genetic analysis using well-characterized Arabidopsis mutant shows that saliva-induced resistance against M. persicae is independent of the known defense signaling pathways involving salicylic acid, jasmonate, and ethylene. Among 78 Arabidopsis genes that were induced by aphid saliva infiltration, 52 had been identified previously as aphid-induced, but few are responsive to the well-known plant defense signaling molecules salicylic acid and jasmonate. Quantitative PCR analysis confirms expression of saliva-induced genes. In particular, expression of a set of O-methyltransferases, which may be involved in the synthesis of aphid-repellent glucosinolates, was significantly up-regulated by both M. persicae feeding and treatment with aphid saliva. However, this did not correlate with increased production of 4-methoxyindol-3-ylmethylglucosinolate, suggesting that aphid salivary components trigger an Arabidopsis defense response that is independent of this aphid-deterrent glucosinolate.
2009-06-10 | GSE16497 | GEO