Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1095867 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| Other | ||||
| SRR28539087_1.fastq.gz | Fastqsanger.gz | |||
| SRR28539087_2.fastq.gz | Fastqsanger.gz | |||
| SRR28539088_1.fastq.gz | Fastqsanger.gz | |||
| SRR28539088_2.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 11 |
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Project description:Plant growth promoting rhizobacteria (PGPR) of the genus Bacillus are successfully used as biofertilizers and biopesticides. They potentially can reduce the use of chemicals in agriculture as an ecologically safe alternative, but to optimize the application of PGPR, more profound knowledge on specific gene regulation and molecular mechanisms of interaction with plants is needed. Advance in sequencing technologies made it affordable to compare transcriptom profiles of relative organisms to check to which extend PGPR strains or closely related species differ in their strategies of plant colonization. This work aimed at analysis of gene regulation in a biotechnological strain Bacillus atrophaeus UCMB-5137 to compare it with the gene expression profile of a generally recognized PGPR strain B. amyloliquefaciens FZB42. It was found out that despite the close taxonomic relatedness, these two organisms developed ability to colonize plants independently and use different strategies of plant colonization. Root exudate has triggered in UCMB-5137 alteration in expression in many genes controlled by stress response transcription factors (TF) SigB and SigD, while SigF, SigH, SigW, CcpA and several other TFs regulated genes associated with quorum sensing and biofilm formation, and adjusted the carbohydrate metabolism. Counting to peculiarities of gene regulation in different PGPR strains will allow optimization of their practical application.
2015-05-06 | GSE68543 | GEO
Project description:Plant growth-promoting rhizobacteria (PGPR) are soil beneficial microorganisms that colonize plant roots for nutritional purposes and accordingly benefit plants by increasing plant growth or reducing disease. But it still remains unclear which mechanisms or pathways are involved in the interactions between PGPR and plants. To understand the complex plant-PGPR interactions, the changes in the transcriptome of typical PGPR standard Bacillus subtilis in responding to rice seedlings were analyzed. We compared and anylyzed the transcriptome changes of the bacteria Bacillus subtilis OKB105 in response to rice seedings for 2 h. Total RNA was extracted and Random priming cDNA synthesis, cDNA fragmentation and terminal labeling with biotinylated GeneChip DNA labeling reagent, and hybridization to the Affymetrix GeneChip Bacillus subtilis Genome Array.
2014-10-17 | E-GEOD-62421 | biostudies-arrayexpress
Project description:Plant growth-promoting rhizobacteria (PGPR) are soil beneficial microorganisms that colonize plant roots for nutritional purposes and accordingly benefit plants by increasing plant growth or reducing disease. But it still remains unclear which mechanisms or pathways are involved in the interactions between PGPR and plants. To understand the complex plant-PGPR interactions, the changes in the transcriptome of typical PGPR standard Bacillus subtilis in responding to rice seedlings were analyzed.
2014-10-17 | GSE62421 | GEO
Project description:Pseudomonas fluorescens is an important plant growth-promoting rhizobacteria (PGPR) for its biocontrol properties, which are mostly influenced by the quorum sensing (QS) system. Plants produce multiple metabolites like flavonoids to regulate physiology of PGPR. However, it remains under-explored how flavonoids produced by plant roots influence the QS system of PGPR. In this study, we found the TetR-family regulator AefR was capable of binding to flavonoids and could inhibit production of AHLs by suppressing the expression of mexEF-oprN in P. fluorescens 2P24. We further showed that the efflux pump MexEF-OprN could attenuate the quorum sensing system PcoR/PcoI by extruding homoserine lactone (AHLs) molecules, leading to reduced biosynthesis of secondary metabolite mupirocin. Taken together, this study identified a TetR-like regulator responding to plant flavonoids and regulating the quorum sensing, providing insights into the interaction between PGPR and plant roots.
2025-02-15 | PXD052703 | Pride
Project description:Pseudomonas fluorescens is an important plant growth-promoting rhizobacteria (PGPR) for its biocontrol properties, which are mostly influenced by the quorum sensing (QS) system. Plants produce multiple metabolites like flavonoids to regulate physiology of PGPR. However, it remains under-explored how flavonoids produced by plant roots influence the QS system of PGPR. In this study, we found the TetR-family regulator AefR was capable of binding to flavonoids and could inhibit production of AHLs by suppressing the expression of mexEF-oprN in P. fluorescens 2P24. We further showed that the efflux pump MexEF-OprN could attenuate the quorum sensing system PcoR/PcoI by extruding homoserine lactone (AHLs) molecules, leading to reduced biosynthesis of secondary metabolite mupirocin. Taken together, this study identified a TetR-like regulator responding to plant flavonoids and regulating the quorum sensing, providing insights into the interaction between PGPR and plant roots.
2025-02-15 | PXD052702 | Pride
Project description:pc_arcole - arcole / pgpr - What are the genes implicated in the efficiency of nitrogenous nutrition when A.thaliana is inoculated with a PGPR (Plant Growth Promoting Rhizobacteria)? - A.thaliana seeds germinated and grew during ten days until they were transfered in 6 different media: 0,5 mM nitrate with PGPR (Plant Growth Promoting Rhizobacteria), 0,5mM nitrate without PGPR, 2mM nitrate with PGPR, 2mM nitrate without PGPR, 20 mM nitrate with PGPR, 20 mM nitrate without PGPR. Young plantlets grew 7 days in these new mediums. Shoots are collected in eppendorf.
2012-06-01 | GSE36730 | GEO
Project description:pc_arcole - arcole / pgpr - What are the genes implicated in the efficiency of nitrogenous nutrition when A.thaliana is inoculated with a PGPR (Plant Growth Promoting Rhizobacteria)? - A.thaliana seeds germinated and grew during ten days until they were transfered in 6 different media: 0,5 mM nitrate with PGPR (Plant Growth Promoting Rhizobacteria), 0,5mM nitrate without PGPR, 2mM nitrate with PGPR, 2mM nitrate without PGPR, 20 mM nitrate with PGPR, 20 mM nitrate without PGPR. Young plantlets grew 7 days in these new mediums. Shoots are collected in eppendorf. 6 dye-swap - dose response,organ comparison,treated vs untreated comparison
2012-05-31 | E-GEOD-36730 | biostudies-arrayexpress
Project description:Three different strains of PGPR pseudomonads and their respective Tn5 mutants. Metabolomic extraction in dichloromethane.
2022-07-06 | MSV000089821 | MassIVE
Project description:Plant growth promoting rhizobacteria (PGPR) induce positive effects in plants, such as increased growth or reduced stress susceptibility. The mechanisms behind PGPR/plant interaction are poorly understood, as most studies have described short- term responses on plants and only a few studies have analyzed plant molecular responses under PGPR colonization. Transcriptional profiles were determined by microarray analysis (Affymetrix ATH1 Genome Array) in Arabidopsis thaliana plants inoculated with the PGPR bacterial model Burkholderia phytofirmans PsJN
2013-05-31 | GSE47092 | GEO
Project description:Lecanicillium fungicola, the causative agent of dry bubble disease on Agaricus bisporus results in significant crop losses for mushroom growers worldwide. Dry bubble disease is treated through strict hygiene control methods and the application of chemical fungicides but an increase in fungicide resistant L. fungicola strains has resulted in a need to develop alternative biocontrol treatment methods. The aim of the work presented here was to evaluate the response of L. fungicola to a Bacillus velezensis isolate to assess its potential as a novel biocontrol agent. The bacterial species in Serenade, a commercially available biocontrol treatment was also included in this analysis. Exposure of 48 hr L. fungicola cultures to 25% v/v 96h B. velezensis culture filtrate resulted in a 45% reduction in biomass (P < 0.0002) and a disruption in hyphal structure and morphology. Characterisation of the proteomic response of L. fungicola following exposure to B. velezensis culture filtrate revealed an increase in the abundance of a variety of proteins associated with stress response (Norsolorinic acid reductase (+8 fold), isocitrate lyase (+7 fold) and MMS19 nucleotide excision repair protein (+4 fold). There was also a decrease in the abundance of proteins associated with transcription (40S ribosomal protein S30 (-33 fold), 60S ribosomal protein L5 (-45 foldThe results presented here indicate that B. velezensis culture filtrate is capable of inhibiting the growth of L. fungicola and inducing a stress response, thus indicating its potential to control this important pathogen of mushrooms.
2022-06-01 | PXD028506 | Pride