GEO DataSets

(Submitter supplied) To determine the contribution and interplay of these two regulators in modulating central metabolism, virulence, and biofilm development we constructed and characterized codY ccpA double mutant in S. aureus UAMS-1.

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28116

24 Samples

Download data: XLSX

(Submitter supplied) We performed differential RNA-seq of two Staphylococcus epidermidis clinical isolates (PS2 and PS10) to compare their transcription profiles. The isolates were originally obtained from blood cultures during a systemic infection in an immunocompromised patient (Weisser et al. 2010. J Clin Microbiol 48: 2407-2412). They are of clonal origin, but differ phenotypically with respect to extracellular biofilm matrix production. more...

Organism:

Staphylococcus epidermidis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26150

4 Samples

Download data: WIG

(Submitter supplied) CodY is a conserved broad acting transcriptional factor that regulates the expression of genes related to amino acid metabolism and virulence in Staphylococcus aureus. CodY target genes have been studied by using in vitro DNA affinity purification and deep sequencing (IDAP-Seq). In this study we performed the first in vivo determination of CodY target genes using a novel CodY monoclonal antibody in established ChIP-exo protocols. more...

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25144

4 Samples

Download data: CSV

(Submitter supplied) In Firmicutes, the nutrient-sensing regulators (p)ppGpp, the effector molecule of the stringent response, and CodY work in tandem to maintain bacterial fitness during infection. Here, we tested (p)ppGpp and codY mutant strains of Enterococcus faecalis in a catheter-associated urinary tract infections (CAUTI) mouse model and used global transcriptional analysis to investigate the (p)ppGpp and CodY relationship. more...

Organism:

Enterococcus faecalis OG1RF

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26706

6 Samples

Download data: TXT

(Submitter supplied) Background The catabolite control protein A (CcpA) is a member of the LacI/GalR family of transcriptional regulators controlling carbon-metabolism pathways in low-GC Gram positive bacteria. It functions as a catabolite repressor or activator, allowing the bacteria to utilize the preferred carbon source over secondary carbon sources. This study is the first CcpA-dependent transcriptome and proteome analysis in S. more...

Organism:

Staphylococcus aureus subsp. aureus str. Newman; Staphylococcus aureus

Type:

Expression profiling by array

Platform:

GPL3931

6 Samples

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(Submitter supplied) We sequenced a total of 16 cDNA libararies derived from fragmented total mRNA and ribosome protected mRNAs from S. aureus hpf mutant (NE838) and its parental strain JE2 grown in tryptic soy broth (TSB) or minimal medium (MM). The data represented 2 independent biological replicates.

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL17452

16 Samples

Download data: TXT

(Submitter supplied) In Staphylococcus aureus, the role of the GGDEF domain containing protein GdpS remains poorly understood. Previous studies reported that gdpS mutant strains had decreased biofilm formation due to changes in icaADBC expression that were independent of cyclic-di-GMP levels. We deleted gdpS in three unrelated S. aureus isolates, and analyzed the resultant mutants for alterations in biofilm formation, metabolism and transcription. more...

Organism:

Staphylococcus aureus

Type:

Expression profiling by array

Platform:

GPL10537

14 Samples

Download data: TXT

(Submitter supplied) Comparison of the B cereus codY deletion mutant with wild type strain (ATCC 14579)

Organism:

Bacillus cereus ATCC 14579

Type:

Expression profiling by array

Platform:

GPL13146

4 Samples

Download data: TXT

(Submitter supplied) Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of gene regulon. The goal of this study is to investigate the genes regulated by Rsp in MRSA BD02-25 Methods: mRNA profiles of wild-type (WT) and Rsp knockout (△Rsp) MRSA at mid-logarithmic growth phase (4h) were generated by deep sequencing, respectively in duplicate samples, using the Hiseq2000 (Illumina, CA) sequencer. more...

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17452

4 Samples

Download data: TXT

(Submitter supplied) CodY is a conserved regulator in gram-positive organisms described to repress metabolic genes mainly involved in nitrogen metabolism but also to control the expression of virulence genes in pathogens. We constructed codY gene-replacement mutants in three unrelated S. aureus strains (Newman, UAMS-1, RN1HG). codY mutants grew slower in a chemically defined medium compared to the wild type strains. However, only codY mutants were able to grow in medium lacking threonine. more...

Organism:

Staphylococcus aureus subsp. aureus COL; Staphylococcus aureus subsp. aureus MW2; Staphylococcus aureus subsp. aureus Mu50; Staphylococcus aureus subsp. aureus MRSA252; Staphylococcus aureus subsp. aureus MSSA476; Staphylococcus aureus subsp. aureus str. Newman; Staphylococcus aureus; Staphylococcus aureus subsp. aureus NCTC 8325; Staphylococcus aureus subsp. aureus N315; Staphylococcus aureus subsp. aureus USA300

Type:

Non-coding RNA profiling by array

Platform:

GPL7137

8 Samples

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(Submitter supplied) Cellular adaptation during biofilm formation in Gram positive bacteria

Organism:

Staphylococcus aureus; Enterococcus faecalis

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL24034 GPL29473

48 Samples

Download data: CSV

(Submitter supplied) Exploration of the the transcriptomic consequences of the complete deletion of agrA gene in Staphylococcus lugdunensis. Overall, the ΔagrA deletion significantly affected the expression of 400 genes. Among them, 149 were upregulated and 251 were downregulated.

Organism:

Staphylococcus lugdunensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29710

8 Samples

Download data: TAB

(Submitter supplied) Explore the genome-scale influence of ccpA gene knock out on Staphylococcus aureus XN108

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19006

6 Samples

Download data: TXT

(Submitter supplied) We report the mRNA expression profile of Streptococcus pneumoniae Type 2 D39 strain-derived mutant lacking the phpP gene encoding eukaryote-type ser/thr phosphatase and the stkP gene encoding Ser/Thr protein kinase.

Organism:

Streptococcus pneumoniae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18183

9 Samples

Download data: TXT, XLS

(Submitter supplied) To investigate biofilm-leukocyte crosstalk, we performed RNA-seq to evaluate how the S. aureus biofilm transcriptome was altered following exposure to G-MDSCs or macrophages in vitro. Interestingly, each immune cell type elicited a distinct transcriptional response.

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24034

10 Samples

Download data: XLSX

(Submitter supplied) To identify new genetic elements required for S.aureus pathogenesis, we performed a transposon sequencing in the context of acute murine penumonia. We screened conditionally essential genes identified by Tn-seq and confirmed 6 previously uncharacterized genes were important during infection. As further study, we performed RNA-seq to identify uncharacterized genes.

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27158

21 Samples

Download data: XLSX

(Submitter supplied) Staphylococcus lugdunensis is a coagulase negative Staphylococcus, recognized as a virulent pathogen. It is responsible for a wide variety of infections, some of which being associated with biofilm production, such as implanted medical devices infections or endocarditis. However, little is known about S. lugdunensis virulence regulation. Two-component regulatory systems (TCS) play critical roles in bacterial adaptation, survival and virulence. more...

Organism:

Staphylococcus lugdunensis

Type:

Expression profiling by array

Platform:

GPL27718

6 Samples

Download data: TXT