GEO DataSets

(Submitter supplied) The phenotypic and gene expression traits conferred by the alternative sigma factor protein σL in the food-borne pathogen L. monocytogenes were investigated. σL was shown to be important for the efficient growth of this pathogen exposed to food preservative measures such as low storage temperatures, elevated osmolarity and acidity. Based on high throughput phenotypic analysis, σL function was also found to be protective in L. more...

Organism:

Listeria monocytogenes; Listeria monocytogenes EGD-e

Type:

Expression profiling by array

Platform:

GPL14631

36 Samples

Download data: GPR

(Submitter supplied) To characterize regulons of alternative sigma factor SigH, SigL, and SigC in Listeria monocytogenes, in-frame mutant strains were created in the 10403S background. Regulons controlled by these 3 alternative sigma factors were characterized by whole-genome microarrays. The L. monocytogenes 10403S wild type and sigma factor null mutation strains were grown at 37 °C to stationary phase (defined in this study as growth to OD600 = 1.0, followed by incubation for an additional 3 h) prior to RNA isolation. more...

Organism:

Listeria monocytogenes; Listeria innocua

Type:

Expression profiling by array

Platform:

GPL5029

5 Samples

Download data: GPR, TXT

(Submitter supplied) Listeria monocytogenes is well known to have the ability to survive and grow under a variety of stress conditions. The ability to survive and grow under osmotic stress conditions in particular appears to be important for both growth in certain foods and food associated environments as well as for host infection. To characterize the contributions of transcriptional regulators important for stress response and virulence (i.e., Sigma B - σB and PrfA), we initially analyzed three L. more...

Organism:

Listeria monocytogenes

Type:

Expression profiling by array

Platform:

GPL4281

1 Sample

Download data: GPR

(Submitter supplied) The goal of this study was to compare the transcriptome between wild type strain of Listeria monocytogenes and delete nmlR mutant strain of L. monocytogenes using NGS. Method: Duplicate samples of rRNA depleted RNA from wild type and mutants were used to study transcriptomes by ion torrent platform. Transcriptomes of wild type and nmlR mutant were compared by EDGE-pro program. Result: Differential expression by EDGE-pro showed 74 genes with differential expressions between wild type and nmlR null mutant (46 genes were negatively regluated and 28 genes were positively regulated by NmlR).

Organism:

Listeria monocytogenes 10403S

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20617

4 Samples

Download data: TXT

(Submitter supplied) The foodborne pathogen Listeria monocytogenes uses a number of transcriptional regulators, including the negative regulator CtsR, to control gene expression under different environmental conditions and in response to stress. Gene expression patterns of DctsR log phase cells were compared to both wt and ictsR-mcsA log phase cells grown with 0.5mM IPTG to identify CtsR-dependent genes.We identified 62 CtsR-dependent genes that showed significant expression ratios (adj. more...

Organism:

Listeria monocytogenes; Listeria innocua

Type:

Expression profiling by array

Platform:

GPL5029

2 Samples

Download data: GPR

(Submitter supplied) In this study, RNA-seq was used to compare the transcriptomes of Listeria monocytogenes 10403S::ΔBCHL Prha-sigH and ΔBCHL Prha. RNA-seq was performed on ΔBCHL Prha-sigH and ΔBCHL Prha RNA samples representing three independent biological replicates at log phase in Brain Heart Infusion (BHI) broth under rhamnose induction. Indexed and purified cDNA libraries (6 libraries including 3 replicates for 2 strains) were loaded together onto an independent flow cell without any other samples; sequencing was carried out by running Hiseq 2500 (single-end, 150-bp per read). more...

Organism:

Listeria monocytogenes 10403S

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20912

6 Samples

Download data: TXT, XLSX

(Submitter supplied) The extensively studied intracellular pathogen, L. monocytogenes, is an ideal model for identifying small-molecule agents for treating bacterial infections. By selecting specific biological targets in L. monocytogenes, which are common to Gram-positive pathogens, we could extrapolate drug discovery information derived from this well-studied bacterium. Attenuating the pathogen’s virulence and stress response attributes without killing it, eliminates selective pressure caused by disruption of essential gene functions (as done by current antibiotics) and reduces the likelihood of developing microbes that are impervious to the effects of antibiotics. more...

Organism:

Listeria innocua; Listeria monocytogenes 10403S; Listeria monocytogenes

Type:

Expression profiling by array

Platform:

GPL5029

1 Sample

Download data: GPR

(Submitter supplied) Listeria monocytogenes strains classify into at least three distinct phylogenetic lineages. Correlations exist between lineage classification and source of bacterial isolation, e.g., human clinical and food isolates usually classify into either lineage I or II, however, human clinical isolates are over-represented in lineage I while food isolates are over-represented in lineage II. σB, a transcriptional regulator previously demonstrated to contribute to environmental stress response and virulence in L. more...

Organism:

Listeria monocytogenes

Type:

Expression profiling by array

Platform:

GPL4281

4 Samples

Download data: GPR

(Submitter supplied) Bacteria generally possess multiple σ factors that, based on structural and functional similarity, divide into two families: σD and σN. Among the seven σ factors in Escherichia coli, six belongs to the σD family. Each σ factor recognizes a group of promoters, providing effective control of differential gene expression. Many studies have shown that σ factors of the σD family compete with each other for function. more...

Organism:

Escherichia coli; Escherichia coli K-12

Type:

Expression profiling by array

Platform:

GPL3154

9 Samples

Download data: CEL, CHP

(Submitter supplied) The foodborne pathogen Listeria monocytogenes uses a number of transcriptional regulators, including the negative regulator HrcA, to control gene expression under different environmental conditions and in response to stress. Gene expression patterns of DhrcA stationary phase cells were compared to wt to identify hrcA-dependent genes. We identified 61 HrcA-dependent genes that showed significant expression ratios (adj. more...

Organism:

Listeria monocytogenes; Listeria innocua

Type:

Expression profiling by array

Platform:

GPL5029

1 Sample

Download data: GPR

(Submitter supplied) In several gram-positive bacterial genera including Bacillus, Staphylococcus, and Listeria, sigma B (σB) has been identified as a stress-responsive alternative sigma factor responsible for initiating transcription of genes (the σB regulon) involved in response to stress-inducing environmental conditions. In L. monocytogenes, a foodborne pathogen of considerable threat to public health and the food industry, σB is involved in regulation of stress response and virulence gene expression. more...

Organism:

Listeria monocytogenes; Listeria innocua

Type:

Expression profiling by array

Platform:

GPL5029

4 Samples

Download data: GPR

(Submitter supplied) The aim of this study is to contribute to the understanding of L. monocytogenes virulence and survival capabilities using global gene expression profiling by means of DNA macroarrays. Keywords: strain comparison; correlation between expression and behaviour

Organism:

Listeria monocytogenes

Type:

Expression profiling by array

Platform:

GPL2811

24 Samples

Download data

(Submitter supplied) We report the effect of the pediocin-containing supernatant of L. plantarum WHE 92 on the temporal transcriptomic profile of L. monocytogenes EGD

Organism:

Listeria monocytogenes EGD

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17803

20 Samples

Download data: XLSX

(Submitter supplied) Comparison of transcriptome of L. monocytogenes EGDe at 24°C and 37°C L. monocytogenes EGDe cells used in this study were grown either at 24°C or 37°C to an OD600 = 0.82-0.87 and the transcriptome of these two conditions was compared

Organism:

Listeria monocytogenes EGD-e

Type:

Expression profiling by array

Platform:

GPL17774

12 Samples

Download data: GPR

(Submitter supplied) In this study, RNA-seq was used to compare the transcriptomes of Listeria monocytogenes 10403S::ΔBCHL Prha-sigB and ΔBCHL Prha. RNA-seq was performed on ΔBCHL Prha-sigB and ΔBCHL Prha RNA samples representing three independent biological replicates at log phase in Brain Heart Infusion (BHI) broth under rhamnose induction. Indexed and purified cDNA libraries (6 libraries including 3 replicates for 2 strains) were loaded together onto an independent flow cell without any other samples; sequencing was carried out by running Hiseq 2500 (single-end, 150-bp per read). more...

Organism:

Listeria monocytogenes 10403S

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20912

6 Samples

Download data: TXT, XLSX

(Submitter supplied) The Gram-positive bacterium Listeria monocytogenes is widely distributed in the environment and capable of causing food-borne infections in susceptible individuals. In this study, we investigated the cell envelope stress response in L. monocytogenes. Whole-genome transcriptional profiling was performed to investigate the response upon exposure to the cell wall antibiotic cefuroxime. Differential expression (≥ 2-fold difference) of 558 genes was observed, corresponding to 20% of the L. more...

Organism:

Listeria monocytogenes EGD-e; Listeria monocytogenes

Type:

Expression profiling by array

Platform:

GPL14687

16 Samples

Download data: TXT

(Submitter supplied) The stationary phase stress response transcriptome of the human bacterial pathogen Listeria monocytogenes was defined using RNA sequencing (RNA-Seq) with the Illumina Genome Analyzer. Specifically, bacterial transcriptomes were compared between stationary phase cells of L. monocytogenes 10403S and an otherwise isogenic DsigB mutant, which does not express the alternative sigma factor σB, a major regulator of genes contributing to stress response. more...

Organism:

Listeria monocytogenes

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9363

4 Samples

Download data: TXT

(Submitter supplied) In this study, RNA-seq was used to compare the transcriptomes of Listeria monocytogenes 10403S and H7858 and corresponding ΔsigB mutants under exposure to pH 5.5 with or without bile. RNA-seq was performed on all strains and conditions in four independent biological replicates. Indexed and purified cDNA libraries (12 libraries per strains) were loaded together onto an independent flow cell without any other samples; sequencing was carried out by running Hiseq 2500 (single-end, 100-bp per read). more...

Organism:

Listeria monocytogenes

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21330

32 Samples

Download data: XLSX

(Submitter supplied) The foodborne pathogen Listeria monocytogenes experiences osmotic stress in many habitats, including foods and the gastrointestinal tract of the host. While osmotic stress induced changes in expression have been investigated for specific genes, identifying and understanding genome-wide temporal changes in the transcriptome due to salt stress will provide insights into how this pathogen adapts to and survives this stress, leading to development of new intervention strategies. more...

Organism:

Listeria monocytogenes

Type:

Expression profiling by array

Platform:

GPL8830

60 Samples

Download data: GPR

(Submitter supplied) In this study the global transcriptional response of L. monocytogenes to blue light was elucidated using an RNAseq-based approach. A transcriptomic analysis of the response to sub-lethal levels of blue light found that the changes in transcription were almost entirely SigB-dependent. A mutant where the light sensing mechanism of RsbL was inactivated through an amino acid substitution (Cys56Ala) was found to have an attenuated response to blue light, but residual activation of SigB-dependent genes suggested that alternative routes for activation of SigB by light are likely to exist.

Organism:

Listeria monocytogenes

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26477

18 Samples

Download data: CSV, XLSX