GEO DataSets

(Submitter supplied) Flagella-driven motility of Salmonella enterica serovar Typhimurium facilitates host colonization. However, the large extracellular flagellum is also a prime target for the immune system. As consequence, expression of flagella is bistable within a population of Salmonella, resulting in flagellated and non-flagellated subpopulations. This allows the bacteria to maximize fitness in hostile environments. more...

Organism:

Salmonella enterica subsp. enterica serovar Typhimurium str. LT2

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22503

8 Samples

Download data: TXT

(Submitter supplied) We have exploited a spontaneously isolated mutant IgaA(T191P) that is near-maximally activated for the Rcs system, to identify a vast set of genes that respond, and report new regulatory properties of this signaling system in Salmonella enterica serovar Typhimurium. Microarray data show that the Rcs system normally functions as a positive regulator of SPI-2 and other genes important for growth of Salmonella in macrophages, although when highly activated, the system completely represses the SPI-1/SPI-2 virulence, flagellar, and fimbrial biogenesis pathways. more...

Organism:

Salmonella enterica; Salmonella enterica subsp. enterica serovar Typhimurium; Salmonella

Type:

Expression profiling by array

Platforms:

GPL3788 GPL1835 GPL4804

30 Samples

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(Submitter supplied) Salmonella enterica var. Typhimurium (S. Typhimurium) is a Gram-negative, facultative intracellular pathogen that infects the intestinal tracts of humans and animals. In the host, S. Typhimurium encounters a wide range of oxygen concentrations going from oxic conditions in the stomach to near anoxic conditions in the distal sigmoid colon-rectal junction. In Escherichia coli, FNR (Fumarate Nitrate Reductase) is one of the main regulatory proteins involved in oxygen sensing and in controlling the transcription of the genes required for the aerobic/anaerobic transition.. more...

Organism:

Salmonella; Salmonella enterica subsp. enterica serovar Typhimurium

Type:

Expression profiling by array

Platform:

GPL1835

6 Samples

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(Submitter supplied) Transcriptional profiling of four growth phases S. Typhimurium comparing immobilised growth with planktonic growth.

Organism:

Salmonella enterica subsp. enterica serovar Typhimurium str. LT2; Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74; Salmonella enterica subsp. enterica serovar Typhimurium str. DT104; Salmonella enterica subsp. enterica serovar Enteritidis; Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344

Type:

Expression profiling by array

Platform:

GPL13609

37 Samples

Download data: TXT

(Submitter supplied) Genetically engineered Salmonella Typhimurium are potent vectors for prophylactic and therapeutic measures against pathogens as well as cancer. This is based on the potent adjuvanticity that supports strong immune responses. The physiology of Salmonella is well understood. It simplifies engineering of both enhanced immune-stimulatory properties as well as safety features, thus, resulting in an appropriate balance between attenuation and efficacy for clinical applications. more...

Organism:

Salmonella enterica subsp. enterica serovar Typhimurium

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21080

6 Samples

Download data: CSV

(Submitter supplied) Salmonella enterica serotype Typhimurium produces a variety of fimbrial appendages, among which the type 1 fimbriae is the most common type. In vitro static broth culture favors S. Typhimurium to produce type 1 fimbriae, while solid agar inhibits its expression. A transposon inserted in the stbC gene, which would encode an usher protein for Stb fimbriae of a non-flagellar S. Typhimurium LB5010 strain, conferred it to agglutinate yeast cells on both cultures, and was mannose-sensitive. more...

Organism:

Salmonella enterica subsp. enterica serovar Typhimurium str. LT2

Type:

Expression profiling by array

Platform:

GPL15055

1 Sample

Download data: TXT

(Submitter supplied) Using RNA seq, gene expression profiles were compared between wild-type Salmonella enterica Typhimurium 14028s and its isogenic srfM2 mutant and genes differentially expressed in the srfM2 mutant were identified.

Organism:

Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24956

6 Samples

Download data: TXT

(Submitter supplied) The impact of 2',3'-cyclic nucleotide phosphodiesterase (CNPase) on global gene expression in Salmonella was investigated by heterologous expression of mammalian CNPase in a strain containing a deletion of the 'rna' gene. 'rna' encodes an endoribonuclease capable of hydrolyzing RNA into 2',3'-cyclic nucleotide monophosphates (2',3'-cNMPs) such that deletion of 'rna' drastically reduces 2',3'-cNMPs presence to undetectable levels. more...

Organism:

Salmonella enterica subsp. enterica serovar Typhimurium

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30637

6 Samples

Download data: TSV, TXT

(Submitter supplied) The impact of Ribonuclease I (RNase I) on global gene expression in Salmonella was investigated by deletion of the 'rna' gene which encodes RNase I. RNase I is capable of hydrolyzing RNA into 2',3'-cyclic nucleotide monophosphates (2',3'-cNMPs) such that deletion of 'rna' drastically reduces 2',3'-cNMPs presence to undetectable levels. This 'rna' deletion mutant was compared to Salmonella 14028s WT strain. more...

Organism:

Salmonella enterica subsp. enterica serovar Typhimurium

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30637

6 Samples

Download data: TSV, TXT

(Submitter supplied) The impact of 2',3'-cyclic nucleotide phosphodiesterase (CNPase) on global gene expression in E. coli was investigated by heterologous expression of mammalian CNPase in a strain containing a deletion of the 'rna' gene. 'rna' encodes an endoribonuclease capable of hydrolyzing RNA into 2',3'-cyclic nucleotide monophosphates (2',3'-cNMPs) such that deletion of 'rna' drastically reduces 2',3'-cNMPs levels to undetectable levels. more...

Organism:

Escherichia coli K-12

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30519

6 Samples

Download data: TSV

(Submitter supplied) The impact of 2',3'-cyclic nucleotide monophosphates (2',3'-cNMPs) on global gene expression in S. Typhimurium was investigated by heterologous expression of a 2',3'-cyclic nucleotide phosphodiesterase (CNPase), which reduces intracellular 2',3'-cNMP levels.

Organism:

Salmonella enterica subsp. enterica serovar Typhimurium

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27471

6 Samples

Download data: XLSX

(Submitter supplied) The impact of 2',3'-cyclic nucleotide monophosphates (2',3'-cNMPs) on global gene expression in E. coli was investigated by heterologous expression of a 2',3'-cyclic nucleotide phosphodiesterase (CNPase), which reduces intracellular 2',3'-cNMP levels.

Organism:

Escherichia coli BW25113

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25025

6 Samples

Download data: TXT

(Submitter supplied) In response to osmolarity, Salmonella enterica serotype Typhi (S. Typhi) regulates genes required for Vi capsular antigen expression oppositely to those required for motility and invasion. Previous studies suggest that osmoregulation of motility, invasion and capsule expression is mediated through the RcsC/RcsD/RcsB phosphorelay system. Here we performed gene expression profiling and functional studies to determine the role of TviA, an auxiliary protein of the RcsB response regulator, in controlling virulence gene expression in S. more...

Organism:

Salmonella enterica; Salmonella enterica subsp. enterica serovar Typhi

Type:

Expression profiling by array

Platform:

GPL8446

4 Samples

Download data: GPR

(Submitter supplied) Bacterial transcription networks typically consist of hundreds of transcription factors and thousands of promoters. However, current attempts to map bacterial promoters have failed to report the true complexity of bacterial transcription. The differential RNA-seq (dRNA-seq) approaches only identified a subset of promoters because they involved few growth conditions. Here, we present a simplified approach for global promoter identification in bacteria, based upon the analysis of RNA-seq data from multiple environmental conditions. more...

Organism:

Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17562

34 Samples

Download data: GR

(Submitter supplied) Purpose:To reveal the function and relationship of the two homologous Salmonella serogroup C1-specific genes (SC0368 and SC0595 in SC). Methods: RNA was isolated from late exponential phase bacteria cultures of wild-type and mutants grown in LB medium. Three biological replicates were carried out per sample. RNA sample was sequenced with Illumina HiSeq 2500 System. DESeq2 method was used to calculate the differentially expressed genes. more...

Organism:

Salmonella enterica subsp. enterica serovar Choleraesuis str. ATCC 10708

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25004

12 Samples

Download data: TXT

(Submitter supplied) The speG gene has been reported to regulate polyamine metabolism in Escherichia coli and Shigella, but its role in Salmonella remains unknown. Our preliminary studies have revealed that speG widely affects the transcriptomes of infected in vitro M and Caco-2 cells and that it is required for the intracellular replication of Salmonella enterica serovar Typhimurium (S. Typhimurium) in HeLa cells. In this study, we demonstrated that speG plays a time-dependent and cell type-independent role in the intracellular replication of S. more...

Organism:

Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344

Type:

Expression profiling by array

Platform:

GPL23939

8 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of Salmonella Typhimurium SL1344 wild type and deleted of the response regulator encoding gene baeR grown to OD600=1 in LB alone or in LB supplemented with 20mM of Sodium Tungstate. The goal is to determine Salmonella response to tungstate and to define the BaeR regulated genes in this conditions.

Organism:

Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344; Salmonella enterica subsp. enterica serovar Enteritidis str. P125109; Salmonella enterica subsp. enterica serovar Typhimurium str. LT2; Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S

Type:

Expression profiling by array

Platform:

GPL13452

14 Samples

Download data: GPR

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

Organism:

Brucella ovis

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL33317

19 Samples

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(Submitter supplied) A multi-layered structure known as the cell envelope separates the controlled interior of Gram-negative bacteria from a fluctuating physical and chemical environment. Transcription of genes that determine cell envelope structure and function is commonly controlled by a class of environmental regulators known as two-component signal transduction systems (TCS), which are comprised of 1) sensor histidine kinases and 2) response regulators. more...

Organism:

Brucella ovis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33317

9 Samples

Download data: XLSX

(Submitter supplied) A multi-layered structure known as the cell envelope separates the controlled interior of Gram-negative bacteria from a fluctuating physical and chemical environment. Transcription of genes that determine cell envelope structure and function is commonly controlled by a class of environmental regulators known as two-component signal transduction systems (TCS), which are comprised of 1) sensor histidine kinases and 2) response regulators. more...

Organism:

Brucella ovis

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL33317

10 Samples

Download data: CSV