GEO DataSets

(Submitter supplied) Staphylococcus aureus is an important human pathogen that causes life-threatening infections, and is resistant to the majority of our antibiotic arsenal. This resistance is complicated by the observation that most antibacterial agents target actively growing cells, thus, proving ineffective against slow growing populations, such as cells within a biofilm or in stationary phase. Recently, our group generated updated genome annotation files for S. more...

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19476

2 Samples

Download data: XLSX

(Submitter supplied) In Staphylococcus aureus, hundreds of small regulatory or small RNAs (sRNAs) have been identified, yet this class of molecule remains poorly understood and severely understudied. sRNA genes are typically absent from genome annotation files, and as a consequence, their existence is often overlooked, particularly in global transcriptomic studies. To facilitate improved detection and analysis of sRNAs in S. more...

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19476

4 Samples

Download data: XLS

(Submitter supplied) Next-generation sequencing technologies have dramatically increased the rate at which new genomes are sequenced. Accordingly, automated-annotation programs have become adept at identifying and annotating protein coding regions, as well as common and conserved RNAs. Additionally, RNAseq techniques have advanced our ability to identify and annotate regulatory RNAs (sRNAs), which remain significantly understudied. more...

Organism:

Staphylococcus aureus; Staphylococcus carnosus; Staphylococcus epidermidis

Type:

Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL21408 GPL19476 GPL21407

3 Samples

Download data: XLSX

(Submitter supplied) Microarray expression profiling of S. aureus lavaged from murine lungs after residence times between 30 minutes and 6 hours compared to post-exponential phase or early log phase growth in Luria-Betani broth.

Organism:

Staphylococcus aureus

Type:

Expression profiling by array

Platform:

GPL4047

21 Samples

Download data: CEL

(Submitter supplied) Staphylococcus aureus is an opportunistic pathogen that colonizes the anterior nares of about 30-50% of the population. Colonization is most often asymptomatic, however, self-inoculation through inhalation, ingestion, or an open wound, can give rise to potentially fatal infections of the deeper tissues and blood. Like all bacteria, S. aureus is able to sense and respond to environmental cues and modify gene expression to adapt to specific environmental conditions. more...

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25144

9 Samples

Download data: XLSX

(Submitter supplied) Coordinated protein-coding sequence transcriptional responses of Staphylococcus aureus to antimicrobial exposure are well described but little is known of the role of bacterial non-coding, small RNAs (sRNAs) in these responses. Here we used RNAseq to investigate the sRNA response of the epidemic multiresistant hospital ST239 S. Aureus strain JKD6009 and its vancomycin-intermediate clinical derivative, JKD6008, after exposure to four antibiotics representing the major classes of antimicrobials used to treat methicillin-resistant S. more...

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platform:

GPL16057

40 Samples

Download data: CSV, TXT

(Submitter supplied) We report the use of Next Generation RNA Sequencing for confirming or improving initial identification of small regulatory RNA in Staphylococcus aureus to prodive a list of the most probable RNA molecules transcribed as independent units.

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19531

6 Samples

Download data: TXT

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

Organism:

Staphylococcus aureus

Type:

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

Platforms:

GPL19531 GPL25144

14 Samples

Download data: TXT

(Submitter supplied) We have studied the transcriptome of S. aureus HG003 strain and HG003 DsarA strain

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19531

12 Samples

Download data: TXT

(Submitter supplied) ChIP seq for SarA in S. aureus HG003 wild type and HG003 DsarA

Organism:

Staphylococcus aureus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL25144

2 Samples

Download data: TXT

(Submitter supplied) We report the use of Next Generation RNA Sequencing to identifiy novel sRNAs in the human pathogen Staphylococcus aureus

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL18481 GPL19531

10 Samples

Download data: TXT

(Submitter supplied) Purpose: The goal of this study was to identify Staphylococcus aureus genes which are important during establishment of metastatic infections in bloodstream infections. Methods: Pooled mariner transposon mutant libraries were generated as previously described (PMID: 27185949). The libraries were sequenced on the Illumina HiSeq 2500 platform with the transposon-specific oligonucleotide primer Himar1-Seq. more...

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19006

12 Samples

Download data: CSV

(Submitter supplied) Staphylococcus aureus (S. aureus) is an important human and animal pathogen, multiply resistant strains are increasingly widespread, new agents are needed for the treatment of S. aureus. Cryptotanshinone, a natural plant product, has potent antimicrobial activity against S. aureus. We employed Affymetrix Staphylococcus aureus GeneChipsTM arrays to investigate the global transcriptional profiling of Staphylococcus aureus ATCC25923 treated with cryptotanshinone. more...

Organism:

Staphylococcus aureus

Type:

Expression profiling by array

Platform:

GPL1339

6 Samples

Download data: CEL

(Submitter supplied) The virulon of Staphyloccocus aureus is controlled by intricate connections between transcriptional and post-transcriptional regulators including proteins and small non coding RNAs (sRNAs). Most of the sRNAs regulate gene expression through base-pairings with mRNAs. Here, we have applied and adapted the MS2-affinity purification approach coupled to RNA sequencing (MAPS) to determine the targetome of RsaA sRNA of S. more...

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19006

6 Samples

Download data: XLSX

(Submitter supplied) Global expression analysis comparing gene expression of wild-type and sigB mutant in the SH1000 background

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19476

2 Samples

Download data: XLSX

(Submitter supplied) Staphylococcus aureus is a major human pathogen that causes infection in a wide variety of sites within the human body. Its ability to adapt to the human host, and to produce a successful infection, requires precise orchestration of gene expression. While DNA-dependent RNA polymerase (RNAP) is generally well characterized, the role of several small accessory subunits within the complex has yet to be fully explored. more...

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19476

2 Samples

Download data: XLSX

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

Organism:

Staphylococcus aureus subsp. aureus NCTC 8325; Staphylococcus aureus

Type:

Expression profiling by genome tiling array; Other

Platforms:

GPL20586 GPL20589 GPL20587

176 Samples

Download data: PAIR

(Submitter supplied) This analysis is part of the study Whole-transcriptome analysis of Staphylococcus aureus under laboratory and infection-mimicking conditions (Mäder, Nicolas et al., to be submitted) where the S. aureus HG001 transcriptome was analyzed under more than 40 different bilogical conditions. Genomic DNA was prepared from four independent cultures of S. aureus HG001 cells; after sonication, DNA was labeled with Cy3 and hybridized to tiling arrays. more...

Organism:

Staphylococcus aureus subsp. aureus NCTC 8325; Staphylococcus aureus

Type:

Other

Platform:

GPL20589

4 Samples

Download data: PAIR

(Submitter supplied) This analysis is part of the study Whole-transcriptome analysis of Staphylococcus aureus under laboratory and infection-mimicking conditions (Mäder, Nicolas et al., to be submitted) where the S. aureus HG001 transcriptome was analyzed under more than 40 different biological conditions. The data revealed a relatively low abundance of antisense RNAs in S. aureus, overlapping only 6% of the coding genes. more...

Organism:

Staphylococcus aureus subsp. aureus NCTC 8325; Staphylococcus aureus

Type:

Expression profiling by genome tiling array

Platform:

GPL20587

16 Samples

Download data: PAIR

(Submitter supplied) We report the condition-dependent transcriptome of S. aureus HG001, a derivative of strain NCTC 8325, by strand-specific tiling array hybridizations. More than 40 experimental conditions were investigated ranging from optimal in vitro growth to interaction with host cells. Analyses included the systematic mapping of transcription units, annotation of non-coding RNAs, the classification of promoters according to their dependency on SigA and SigB, and the prediction of potentially new transcription factor target sites. more...

Organism:

Staphylococcus aureus; Staphylococcus aureus subsp. aureus NCTC 8325

Type:

Expression profiling by genome tiling array

Platform:

GPL20586

156 Samples

Download data: PAIR