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Bacillus atrophaeus

ABSTRACT: RNA-Seq gene expression profiling in the plant growth promoting Bacillus atrophaeus UCMB-5137 revealed an alternative strategy of plant colonization compared to Bacillus amyloliquefaciens endophytes

PROVIDER: PRJNA283052 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR2007752_1.fastq.gz	Fastqsanger.gz
	SRR2007752_2.fastq.gz	Fastqsanger.gz
	SRR2007753_1.fastq.gz	Fastqsanger.gz
	SRR2007753_2.fastq.gz	Fastqsanger.gz
	SRR2007754_1.fastq.gz	Fastqsanger.gz

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RNA-Seq gene expression profiling in the plant growth promoting Bacillus atrophaeus UCMB-5137 revealed an alternative strategy of plant colonization compared to Bacillus amyloliquefaciens endophytes

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

Shotgun proteomic cartography of Bacillus atrophaeus spores

Project description:The proteome of Bacillus atrophaeus spores was established by shotgun proteomics to better characterize this biological material used as indicator to assess the effectiveness of decontamination procedures.

2023-12-21 | PXD044079 | Pride

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Project description:Bacillus atrophaeus

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Transcriptomics of Bacillus amyloliquefaciens SQR9 to maize root exudates

Project description:Root exudates play an important role in plant-microbe interaction. The transcriptional profilings of plant growth-promoting rhizobacteria Bacillus amyloliquefaciens SQR9 in response to maize root exudates under static condition, were investigated by an Illumina RNA-seq for understanding the regulatory roles of the root exudates.

2014-11-01 | GSE54987 | GEO

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Project description:Bacillus atrophaeus overview

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Project description:Bacillus atrophaeus Genome sequencing

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Transcription profiling by array of Bacillus amyloliquefaciens FZB42 wildtype and sigD- mutants grown in media supplemented with soil extract

Project description:Bacillus amyloliquefaciens FZB42 is a well-studied Gram-positive plant growth-promoting rhizobacteria. In this work we aim to study the effect of the effect of sigD deletion on the transcriptome of FZB42. The transcritomes were compared by two-color microarray of the sigD- mutant and the wildtype of B. amyloliquefaciens FZB42 grown in 1C medium supplemented with soil extract (SE). This submission includes data from two independent experiments with three biological replicates. Here a biological replicate means the bacterial culture from one flask used for RNA preparation. The samples were collected by two performers. The experiments were varied in sample performer, the date of the experiment.

2017-06-20 | E-MTAB-4876 | biostudies-arrayexpress

Transcriptome profiling of banana in response to growth-promoting rhizobacteria

Project description:We report the banana transcriptome profile in response to two distinct growth-promoting rhizobacteria, Bacillus amyloliquefaciens and Pseudomonas fluorescens. The goal of our study is to identify plant genes differentially regulated by rhizobacteria-plant interaction along time. At the same time, we show that despite these two rhizobacteria regulate distinct sets of genes, the same functional categories has been over-represented, such as transcription factor activity, response to stress and metabolic processes.

2016-04-21 | GSE80495 | GEO

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Project description:Bacillus atrophaeus Genome sequencing and assembly

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SigD vs WT in both SE and RS media

Project description:Bacillus amyloliquefaciens FZB42 is a well-studied Gram-positive plant growth-promoting rhizobacteria. In this work we aim to study the effect of the effect of sigD deletion on the transcriptome of FZB42. The transcritomes were compared by two-color microarray of the sigD- mutant and the wildtype of B. amyloliquefaciens FZB42 grown in 1C medium supplemented with soil extract (SE) and in 1C medium supplemented with both SE and maize root exudates (RE). This submission includes data from three independent experiments with three biological replicates. Here a biological replicate means the bacterial culture from one flask used for RNA preparation. The samples were collected by two performers. The experiments were varied in sample performer, the date of the experiment.

2017-07-05 | E-MTAB-4636 | biostudies-arrayexpress

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