Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

S. aureus transcriptome with RNA-Seq

ABSTRACT: RNA-Seq experiment performed to determine the transcriptional response to overexpression of sigH (SA0492), comK1 (SA0882), and comK2 (SA1596) in Staphylococcus aureus ATCC 51811.

INSTRUMENT(S): Illumina HiSeq 2000

ORGANISM(S): Staphylococcus aureus subsp. aureus

SUBMITTER: Annette Fagerlund

PROVIDER: E-MTAB-2345 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Staphylococcus aureus competence genes: mapping of the SigH, ComK1 and ComK2 regulons by transcriptome sequencing.

Fagerlund Annette A Granum Per Einar PE Håvarstein Leiv Sigve LS

Molecular microbiology 20140922 3

Staphylococcus aureus is a major human pathogen. Hospital infections caused by methicillin-resistant strains (MRSA), which have acquired resistance to a broad spectrum of antibiotics through horizontal gene transfer (HGT), are of particular concern. In S. aureus, virulence and antibiotic resistance genes are often encoded on mobile genetic elements that are disseminated by HGT. Conjugation and phage transduction have long been known to mediate HGT in this species, but it is unclear whether natur ...[more]

PMID: 25155269

Similar Datasets

Transcriptome analysis in flavonoid overaccumulating and lacking Arabidopsis.

Project description:TranscriptoTranscriptome profiling using DNA microarrays of the aerial parts of the wild-type and other plants was conducted to examine if either MYB overexpression or flavonoid overaccumulation is responsible for the expression of stress-related genes involved in both the biotic and abiotic stress response. Comparative transcriptome analysis using DNA microarray in flavonoid overaccumulating and lacking Arabidopsis.

2013-09-27 | E-GEOD-51215 | biostudies-arrayexpress

Enterococcus faecium E1162 transcriptome 25 C vs 37 C

Project description:The transcriptome of Enterococcus faecium E1162 growing in Brain heart Infusion Broth was compared in the mid-exponential growth phase (A660 = 0.3) at 25 C and 37 C.

2013-09-01 | E-MEXP-3941 | biostudies-arrayexpress

Zn depletion - izh2 deletion vs. wild-type yeast

Project description:Comparison of gene expression in izh2delta cells and wild-type cells, under conditions of normal and limiting zinc concentration.

2013-10-05 | E-MEXP-3995 | biostudies-arrayexpress

BCAM0258 overexpression mutant

Project description:Burkholderia cenocepacia J2315 belongs to the ET12 lineage which has caused outbreaks among cystic fibrosis patients worldwide. Strains belonging to the ET12 lineage are characterized by the presence of the “Burkholderia cepacia epidemic strain marker” (BCESM). This marker is located on a genomic island involved in virulence, but the exact function of many genes in the BCESM region remains unknown. In the present study we investigated the function of three of these genes (BCAM0257, BCAM0258 and BCAM0259). We created overexpression mutants and performed a transcriptome analysis of the toxin (BCAM0258) overexpression mutant.

2014-05-30 | E-MTAB-2079 | biostudies-arrayexpress

Mycobacterium tuberculosis ESX-3 conditional mutant expression

Project description:Transcriptional profile of esx-3 conditional mutant strain (TB79) vs its parental strain (TB38) grown in 7H9 in presence of 100ng/ml Atc for 48h One experimental condition. 2 independent biological replicates. One replicate per array.

2013-06-12 | E-GEOD-47834 | biostudies-arrayexpress

Large scale gene expression of Vero cell correlated to infection of infectious bursal disease virus

Project description:Infectious bursal disease virus (IBDV) is the pathogenic agent of infectious bursal disease (IBD). Scine it was observed in 1957, IBD spread worldwidely in the chicken flocks, is a important immunosuppressive disease and an threat to poultry industry. Although many studies have be done about IBDV, interaction of IBDV infection and IBDV-encoding genes to host cell gene expression are little known. In this study, the LongSAGE library of Vero-cell, IBDV- infected vero cell, Vero-cell transfected with IBDV-VP5 gene, Vero-cell transfected with IBDV A frament and Vero-cell transfected with IBDV VP243 frament were obtained. We got 96,213 gene tags (17 nucleotides), which represented 24,475 transcripts. Keywords: Transcripts of different state vero-cell 1.Cloning of the full-length genomic A-segment, VP5 ORF cDNA, VP243 ORF cDNA of IBDV 2.Establishing cloned Vero cell lines expressing VP5, VP243 and A fragment of IBDV 3.Construction of Long-SAGE libraries 4. Sequencing

2007-11-04 | E-GEOD-6243 | biostudies-arrayexpress

A transcriptomic landscape for total lymphocyte count in the poly I:C-induced porcine periphery

Project description:Lymphocyte count is one of the lymphocyte phenotypes that are related or potentially related to the individual anti-virus capacity in pigs and other mammals. The aim of this work is to compare the transcriptome of the poly I:C-induced peripheral blood cells between pigs with extreme values of total lymphocyte count.The pigs with the two-tailed critical value of lymphopenia post 4h with poly I:C stimulation from a Duroc-Erhualian F2 population.

2014-05-01 | E-MTAB-2451 | biostudies-arrayexpress

RNA-seq of Escherichia coli MG1655 WT strain against strain deleted of the ettA gene and complemented strain

Project description:Comparison of transcripts of the WT strain versus the strain deleted of the ettA gene in condition where the deleted strain show a difference in growth rate compared to the WT strain. We also include a complemented strain where the gene ettA was inserted at the P21 locus in the etta deleted strain. Strains were cultivated in MJ9 medium with amino acids as carbon sources and with 0.4 M of NaCl.

2023-10-31 | E-MTAB-13458 | biostudies-arrayexpress

Comprehensive Transcriptional Analysis of Early Stage Urothelial Carcinoma using whole transcriptome sequencing

Project description:The expression profile and sequence variants of 476 early stage urothelial carcinoma were studied using whole transcriptome sequencing. RNA-Seq libraries were prepared by Ribo-Zero treatment of total-RNA (to reduce the rRNA content) followed by library preparation using ScriptSeq. RNA-Seq libraries were paired-end sequenced (2x 101 bp) on Illumina HiSeq 2000 and the resulting fastq files were processed using tools from the Genome Analysis Toolkit (GATK and from the Tuxedo suite. Access to the sequence data (bam and vcf files), containing person identifying information, needs signature on a controlled access form, and can be accessed at The European Genome-phenome Archive (EGA) using the study ID EGAS00001001236 following request. An expression matrix of FPKM values are available without restriction at ArrayExpress.

2016-06-17 | E-MTAB-4321 | biostudies-arrayexpress

In-vitro evaluation of Pseudomonas fluorescens antibacterial activity against Listeria spp. isolated from New Zealand horticultural environments

Project description:Beneficial bacteria with antibacterial properties are an attractive alternative to chemical-based antibacterial or bactericidal agents. The aim of our study was to source such bacteria from horticultural produce and environments and to explore the mechanisms of their antimicrobial properties. Four strains of Pseudomonas fluorescens were isolated that possessed antibacterial activity against the pathogen Listeria monocytogenes.

2023-03-10 | PXD019965 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data