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Staphylococcus aureus HG001 - A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies

ABSTRACT: Staphylococcus aureus HG001, detection of staphyococcal proteins; bacteria cultivated in TSB; samples mix of exponential, stationary (t0) and post-stationary (t4) growth

INSTRUMENT(S): Q Exactive

ORGANISM(S): Staphylococcus Aureus

SUBMITTER: Maren Depke

LAB HEAD: Frank Schmidt

PROVIDER: PXD000702 | Pride | 2015-07-31

REPOSITORIES: Pride

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			Action	DRS
	20130930_StaphMascot_noProb.html	Other
	20130930_StaphMascot_noProb.pepidx	Other
	20130930_StaphMascot_noProb.spidx	Other
	20130930_StaphMascot_noProb.splib	Other
	20130930_StaphMascot_noProb.sptxt	Other

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A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies.

Depke Maren M Michalik Stephan S Rabe Alexander A Surmann Kristin K Brinkmann Lars L Jehmlich Nico N Bernhardt Jörg J Hecker Michael M Wollscheid Bernd B Sun Zhi Z Moritz Robert L RL Völker Uwe U Schmidt Frank F

Proteomics 20150907 21

Staphylococcus aureus is an opportunistic human pathogen, which can cause life-threatening disease. Proteome analyses of the bacterium can provide new insights into its pathophysiology and important facets of metabolic adaptation and, thus, aid the recognition of targets for intervention. However, the value of such proteome studies increases with their comprehensiveness. We present an MS-driven, proteome-wide characterization of the strain S. aureus HG001. Combining 144 high precision proteomic ...[more]

PMID: 26224020

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A link between transcription termination, antibiotic action and virulence: Inhibition of Rho activity increases expression of SaeRS-dependent virulence factor genes in Staphylococcus aureus

Project description:Comparative proteome analysis of cells and supernatant from S. aureus HG001 and its isogenic rho deletion mutant in exponential and stationary growth phase in RPMI and TSB medium. Proteome analysis of supernatant from S. aureus HG001 and its isogenic rho deletion mutant in RPMI medium after treatment with Bicyclomycin (BCM).

2018-04-12 | MSV000082270 | MassIVE

Transcriptome analysis of the WalKR regulon in Staphylococcus aureus

Project description:The WalKR regulon was studied by comparing genes expression in a strain producing a constitutively active WalR regulator (WalRc) versus the wild type strain carrying the empty expression vector. Hybridizations were performed with three independent biological replicates. Our data allowed to identify 165 genes differentially expressed in the walRc expressing strain with a P-value M-bM-^IM-$ 0.05 using Z-test and a threshold value of two-fold change in transcriptional levels. Among them, 108 genes are activated, and 57 genes are repressed. About 10% of these results were confirmed by quantitative real time PCR, revealing the high reliability of this overall study. Beyond the major effect of the WalKR system on genes expressing cell wall hydrolases, we have shown that it activates a large number of genes involved in virulence, and probably through its positive impact on the SaeRS two-component system, is a major activator of S. aureus virulence. Cells were grown in TSB rich medium added with 0.25 M-BM-5M CdCl2 to allow walRc expression until OD600nm of 1. Gene expression was compared between the HG001 wild type reference strain carrying the pCN51 empty vector (HG001/pCN51) and the HG001 strain carrying a pCN51 derivative with the walRc allele under the control of the Pcad inducible promoter (HG001/pSD3-12). Each condition was done in triplicate and the data were analyzed using the Arraystat software. Genes were considered as differentially expressed if their transcriptional level differed by at least two-fold with a Z-test P-value M-bM-^IM-$ 0.05 in at least two of the replicates.

2012-09-13 | E-GEOD-29337 | biostudies-arrayexpress

Expression profiling of the Staphylococcus aureus GraSR regulon

Project description:The GraS/GraR two-component system has been shown to control cationic antimicrobial peptide (CAMP) resistance in the major human pathogen Staphylococcus aureus. We identified a highly conserved ten base pair palindromic sequence (5’ ACAAATTTGT 3’) located upstream from GraR-regulated genes (mprF and the dltA and vraFG operons), which we show to be essential for transcriptional regulation by GraR and induction in response to colistin, a bacterial CAMP, suggesting it is the likely GraR binding site. Genome-based predictions and transcriptome analysis revealed several novel GraR target genes. Global expression changes between the wild type strain HG001 (a rsbU+ variant of strain NCTC 8325) and a DgraSR mutant, grown to mid-exponential phase in TSB with 50 µg/ml colistin, were examined. Hybridizations were performed in triplicate using RNA isolated from independent cultures.

2011-08-31 | E-GEOD-26016 | biostudies-arrayexpress

Tiling array hybridizations of genomic DNA from Staphylococcus aureus HG001.

Project description:This analysis is part of the study Whole-transcriptome analysis of Staphylococcus aureus under laboratory and infection-mimicking conditions (MÃ¤der, 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. The data are used in transcriptome studies to compute expression intensities from raw intensity data using a model of shift and drift. genomic DNA from wild type

2016-03-08 | E-GEOD-70042 | biostudies-arrayexpress

Tiling array hybridizations of genomic DNA from Staphylococcus aureus HG001.

Project description: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. The data are used in transcriptome studies to compute expression intensities from raw intensity data using a model of shift and drift.

2016-03-08 | GSE70042 | GEO

Exploring modulation in Staphylococcus aureus biofilm formation and virulence during platelet storage and its impact on platelet functionality

Project description:Staphylococcus aureus CBS2016-05 and PS/BAC/317/16/W were spiked (4E+06 CFU/ml) into platelet concentrates (PCs) and Trypticase soy broth (TSB) and allowed to grow until early stationary phase (6 days) at 22-24°C. Subsequently, the cells were pelleted at 4°C and subjected to RNA extraction using the miRNeasy Mini Kit, following the manufacturer's instructions. To eliminate genomic DNA, the RNA samples from three independent biological replicates were treated with TURBO™ DNase AmbionTM (Thermo Fisher Scientific).

2023-08-28 | GSE241582 | GEO

Characterizing the transcriptional adaptation of Staphylococcus aureus to stationary phase growth

Project description: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. aureus that not only include protein-coding genes but also regulatory and small RNAs. As such, these annotation files were used to perform a transcriptomic analysis in order to understand the metabolic and physiological changes that occur during transition from active growth to stationary phase; with a focus on sRNAs. We observed â¼24% of protein-coding and 34% of sRNA genes displaying changes in expression by â¥3-fold. Collectively, this study adds to our understanding of S. aureus adaptation to nutrient-limiting conditions, and sheds new light onto the contribution of sRNAs to this process. Bacterial cells were grown in TSB medium at 37Â°C with shaking for 3h (exponential growth phase) or 16h (stationary growth phase).

2016-05-18 | E-GEOD-77242 | biostudies-arrayexpress

Staphylococcus aureus HG001

Project description:Staphylococcus aureus HG001

| PRJNA287528 | ENA

Whole-transcriptome analysis of Staphylococcus aureus under laboratory and infection-mimicking conditions

Project description: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. Antisense RNAs being of particular interest because of the small number of alternative sigma factors used by S. aureus were found to be relatively rare, overlapping only 6% of the annotated coding genes. RNA samples prepared from S. aureus HG001 grown in shake flask or cell culture infection experiments were reverse transcribed, labeled and hybridized to tiling arrays. Hybridizations were performed in triplicate using RNA isolated from independent cultures.

2016-03-08 | E-GEOD-70040 | biostudies-arrayexpress

Transcriptome analysis of a Staphylococcus aureus mutant defective in the transcription termination factor Rho.

Project description: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. Transcriptome analysis of the rho deletion mutant revealed a remarkable overall increase in antisense transcription in S. aureus.

2016-03-08 | GSE70041 | GEO

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