Transcriptomic profiling of Arabidopsis seedlings in response to mono-rhamnolipids from Pseudomonas aeruginosa secretome
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ABSTRACT:
PROVIDER: PRJNA714110 | ENA |
REPOSITORIES: ENA
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Project description:Rhamnolipids (RLs) are known to trigger plant defense responses. In order to characterize the early and later gene expression of Arabidopsis thaliana after a mono-rhamnolipid treatment, ten-day-old Col-0 Arabidopsis seedlings were treated by root absorption with 100µM of mono-rhamnolipids (in 0.5% EtOH) or water (0.5% EtOH) and harvested after 1 or 3 hours. RNA samples were labelled, hybridized to Agilent Arabidopsis microarrays, washed, scanned and data acquired. Quality of the microarray data was checked.
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Project description:The present data profile the large scale transcriptome changes in Arabidopsis thaliana Col-0 seedlings exposed to mono-rhamnolipids (Mono-RLs) from Pseudomonas aeruginosa secretome. Bacterial rhamnolipids (RLs) are biosurfactant known to trigger plant defense mechanisms and have a great potential for crop culture protection as environmental-friendly biocontrol solution. They are thought to interact directly with membrane lipids to induce plant defense gene expression and protection towards phytopathogens. However, to date, data on the global transcriptomic modifications induced by these natural amphiphilic glycolipids in plants are missing. Ten-day-old seedlings were treated for 1 or 3 h with 100 µM Mono-RLs in liquid growth medium for root absorption. Total RNA samples were extracted, purified, labelled and hybridized to Agilent V4 Gene Expression Microarrays 4 × 44 K (design ID 021169) carrying 43803 ssDNA probes of 60-mer covering the entire genome of A. thaliana. The dataset was validated by quality assessments including RNA sample quality, microarray quality and global gene expression profiling. The raw and normalized formats of these transcriptomic data are available via GEO repository with the accession number GSE168830. The dataset can be used to provide insights into the plant's early and later mechanisms induced or repressed by RLs. It can be compared to data obtained with other plant defense elicitors, including the well described compounds perceived by membrane protein receptors.
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Project description:Pseudomonas aeruginosa is a troublesome opportunistic pathogen isolated from diverse environmental sources. An arsenal of degrading enzymes and antagonistic factors contribute to P. aeruginosa persistence and damage of a susceptible host. Largely through density-dependent regulation referred to as quorum sensing, the LasR, RhlR, and PqsR transcription factors collectively modulate hundreds of genes, including the expression of several virulence factors, in response to diffusible signals called autoinducers. LasR loss-of-function (LasR-) strains are commonly isolated from clinical samples and produce fewer toxins in monoculture, yet these strains are associated with worse clinical outcomes. We show that in co-culture with P. aeruginosa wild type where LasR loss-of-function strains are often found in vivo, ∆lasR hyperproduces RhlR/I dependent antagonistic factors. Specifically, we present a cyclic model of interaction between wild type and ∆lasR wherein the iron-scavenging siderophore pyochelin produced by the lasR mutant induces citrate release and cross-feeding from the wild type to ∆lasR to stimulate production of antagonistic factors with native functions involved in iron acquisition. Co-culture specific behaviors mediated by altered metabolite secretion and metabolism may explain complications associated with LasR loss-of-function strains. More broadly, this report illustrates how heterogenous behaviors within a mono-species community can promote antagonism associated with carbon and metal assimilation.
2020-04-28 | GSE149385 | GEO
Project description:Immune responses in plants are triggered in part by conserved microbe-associated molecular pattern (MAMP) molecules such as bacterial flagellin. Upon MAMP perception, plants rapidly turn on the induction of numerous defense-related genes. We have identified a novel type of plant innate immunity elicitor, protease IV from Pseudomonas aeruginosa. Genome-wide transcriptomic profiles obtained with Affymetrix Arabidopsis ATH1 GeneChips® of 10-day old Arabidopsis seedlings treated with 20 nM purified protease IV for 1 hour were compared to published bacterial flagellin- and oligogalacturonide-triggered responses. We used microarrays to characterize the global transcriptomic changes in Arabidopsis seedlings upon protease IV treatment.
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2019-07-01 | GSE123390 | GEO
Project description:Gene expression in response to changes in sulfur supply was studied in P. aeruginosa E601, a cystic fibrosis isolate that displays mucin sulfatase activity, and in P. aeruginosa PAO1. A large family of genes was found to be upregulated by sulfate limitation in both isolates, encoding sulfatases and sulfonatases, transport systems, oxidative stress proteins, and a sulfate-regulated TonB/ExbBD complex. These genes were localized in five distinct islands on the genome, and encoded proteins with a significantly reduced content of cysteine and methionine. Growth of P. aeruginosa E601 with mucin as sulfur source led to a sulfate starvation response, but also to induction of genes involved with type III secretion systems. Keywords: starvation response, strain comparison
2009-06-22 | GSE8408 | GEO
Project description:Early stages of host microbe adaptations involve 'system status changes' (rewiring of pre-existing cellular signaling networks and components) of the host and microbe. We posited that under certain environmental conditions these changes leads to maladaptations and favor emergence of new infectious diseases, and these adaptations will have characteristic signatures representative of the adaptation. Here using Arabidopsis seedlings in a submerged environment treated with P. aerugionsa, we show one such rewired regulation where the master two-component regulator GacA (previously shown to act upstream of quorum sensing, including the regulator LasR, that in turn controls a subset of virulence factors) is completely dispensable. The gacA mutant behaves similar to wild type P. aeruginosa (strain PA14) by a number of read-outs. Consistent with that, the gene expression data here indicates that the transcriptome pattern of the host is identical when treated with wild type PA14 or PA14-gacA mutant.
2011-01-22 | GSE26084 | GEO
Project description:Early stages of host microbe adaptations involve 'system status changes' (rewiring of pre-existing cellular signaling networks and components) of the host and microbe. We posited that under certain environmental conditions these changes leads to maladaptations and favor emergence of new infectious diseases, and these adaptations will have characteristic signatures representative of the adaptation. Here using Arabidopsis seedlings in a submerged environment treated with P. aerugionsa, we show one such rewired regulation where the master two-component regulator GacA (previously shown to act upstream of quorum sensing, including the regulator LasR, that in turn controls a subset of virulence factors) is completely dispensable. The gacA mutant behaves similar to wild type P. aeruginosa (strain PA14) by a number of read-outs. Consistent with that, the gene expression data here indicates that the transcriptome pattern of the host is identical when treated with wild type PA14 or PA14-gacA mutant. Single time point (10 day old Arabidopsis seedlings infected with wild type PA14 or mutant bacteria PA14DgacA, and analyzed 24h after infection) with two independent experimenal replicates per treatment
2011-01-22 | E-GEOD-26084 | biostudies-arrayexpress