GEO DataSets

(Submitter supplied) Antibiotics have dose-dependent effects on exposed bacteria. The medicinal use of antibiotics relies on their growth-inhibitory activities at sufficient concentrations. At subinhibitory concentrations, exposure effects vary widely among different antibiotics and bacteria. Bacillus subtilis responds to bacteriostatic translation inhibitors by mobilizing a population of cells (MOB-Mobilized Bacillus) to spread across a surface. more...

Organism:

Bacillus subtilis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19910

20 Samples

Download data: CSV

(Submitter supplied) We obtained whole genome sequencing data as a measure of chromosome replication to see if HU inhibits replication compared to vehicle control.

Organism:

Bacillus subtilis

Type:

Other

Platform:

GPL21373

8 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Bacillus subtilis

Type:

Expression profiling by high throughput sequencing; Other

Platforms:

GPL21373 GPL19910 GPL29515

42 Samples

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(Submitter supplied) Hydroxyurea (HU) is thought to primarily target ribonucleotide reductase (RNR), therefore inhibiting the conversion of rNTPs into dNTPs and slowing DNA replication. To understand how Bacillus subtilis responds to HU stress, we performed RNA-seq and Tn-seq. We obtained genes with fitness defects following hydroxyurea treatment over 3 growth periods.

Organism:

Bacillus subtilis

Type:

Other

Platform:

GPL19910

22 Samples

Download data: CSV

(Submitter supplied) Hydroxyurea (HU) is thought to primarily target ribonucleotide reductase (RNR), therefore inhibiting the conversion of rNTPs into dNTPs and slowing DNA replication. To understand how Bacillus subtilis responds to HU stress, we performed RNA-seq and Tn-seq.

Organism:

Bacillus subtilis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29515

12 Samples

Download data: CSV

(Submitter supplied) The goal of this study is to obtain a genomic view of the Fur regulatory network under both iron replete and iron deficient conditions in Bacillus subtilis using ChIP-seq. Besides the known Fur target sites, 70 putative DNA binding sites were identified, and the vast majority had higher occupancy under iron sufficient conditions. In addition,we discovered a role for catechol degradation in bacillibactin metabolism, and provided evidence that catechol 2,3-dioxygenase can detoxify endogenously produced catechol substrates in addition to its more widely studied role in biodegradation of environmental aromatic compounds and pollutants.

Organism:

Bacillus subtilis

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24109

5 Samples

Download data: WIG

(Submitter supplied) With these experiments we investigate the impact of the deletion of the ydcH gene on the transcriptomes of Bacillus subtilis strains ABS2005.

Organism:

Bacillus subtilis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24109

12 Samples

Download data: TXT

(Submitter supplied) Biofilms are structured communities of tightly associated cells that constitute the predominant state of bacterial growth in natural and human-made environments. Although the core genetic circuitry that controls biofilm formation in model bacteria such as Bacillus subtilis has been well characterized, little is known about the role that metabolism plays in this complex developmental process. Here, we performed a time-resolved analysis of the metabolic changes associated with pellicle biofilm formation and development in B. more...

Organism:

Bacillus subtilis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18561

28 Samples

Download data: XLSX

(Submitter supplied) Genome-wide comparative transcriptome analysis of the Bacillus subtilis parent strain PY79 and its yvfI derivative with yvfI::T10::spc (TEK1) grown in PA medium Detailed description of sample preparation and microarray conditions can be also found in Irigul et al to be submitted

Organism:

Bacillus subtilis

Type:

Expression profiling by array

Platform:

GPL6031

3 Samples

Download data: TXT

(Submitter supplied) The SOS response to DNA damage in bacteria is a well-known component of the complex transcriptional responses to genotoxic environmental stresses such as exposure to reactive oxygen species, alkylating agents, and many of the antibiotics targeting DNA replication. However, bacteria such as Bacillus subtilis also respond to conditions that perturb DNA replication via a transcriptional response mediated by the replication initiation protein DnaA. more...

Organism:

Bacillus subtilis

Type:

Expression profiling by array

Platform:

GPL10527

36 Samples

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(Submitter supplied) In this study two genome-reduced Bacillus subtilis strains lacking about 36% of dispensable genetic information were constructed using a markerless and scarless deletion method. In order to analyze the consequences of the deletions for the bacteria, a multi-omics characterization of the reference strain Δ6 (Westers et al., 2003; PMID 12949151) and the two deletion strains was carried out. Bacteria were cultivated in complex medium supplemented with glucose, and samples of the same cultures were subjected to metabolome, proteome, and transcriptome analyses.These revealed a massive re-organization of metabolism as well as substantial changes in the transcriptome and the proteome.

Organism:

Bacillus subtilis subsp. subtilis str. 168

Type:

Expression profiling by array

Platform:

GPL21981

12 Samples

Download data: TXT

(Submitter supplied) Here we use Structure-seq2 to probe the in vivo RNA structurome of B. subtilis grown in the presence and absence of amino acids. We show that the change in global RNA structurome is inversely proportional to the change in abundance upon amino acid starvation and that this trend is pronounced in the stringent response and codY regulons. We also use this data to characterize known and novel RNA switches.

Organism:

Bacillus subtilis

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL18561

14 Samples

Download data: TXT

(Submitter supplied) In our study, we found that lack of tmRNA affects the biofilm formation in Bacillus subtilis, which has important research significance. Then, we obtained a revertant strain MB from tmRNA mutant strain. And MB strain could restore biofilm production capacity. Therefore, the transcriptomes of the three strains were sequenced. Based on the statistical analysis of gene expression (P < 0.05), there were 756 genes up regulated while 992 genes down regulated by at least two folds when comparing TM to WT. more...

Organism:

Bacillus subtilis subsp. subtilis NCIB 3610 = ATCC 6051 = DSM 10

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32075

9 Samples

Download data: TXT