Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Regulation of mannitol metabolism in Enterococcus faecalis and association with parEF0409 toxin-antitoxin locus function.

ABSTRACT: RNAseq analysis was performed for Enterococculs faecalis strain OG1RF grown in M9YEG and M9YEM to monitor transcriptional changes. RNAseq analysis was also conducted for mtlR deletion mutant grown in M9YEG to monitor transcriptional changes.

ORGANISM(S): Enterococcus faecalis

PROVIDER: GSE195652 | GEO | 2022/02/04

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Transcriptomes of Enterococcus faecalis OG1RF and OG1RF Δbph in planktonic culture

Project description:Liquid cultures of Enterococcus faecalis OG1RF and OG1RF Δbph were grown in tryptic soy broth without added dextrose (TSB-D) for 2 and 4 hr. At each time point, the transcriptomes were compared to identify differentially expressed genes in the Δbph mutant.

2022-03-12 | GSE198051 | GEO

Enterococcus faecalis OG1RF vs. Δrel mutants under control or mupirocin-treated conditions

Project description:Transcriptional profiling to define the stringent response regulon and significance of basal (p)ppGpp levels in E. faecalis OG1RF. RNA was extracted from four replicate samples of each strain of interest and labeled with Cy3. For each replicate, labeled RNA was hybridized to slides along with Cy5-labeled reference RNA, extracted from E. faecalis OG1RF cells grown to mid-log.

2011-12-20 | E-GEOD-34561 | biostudies-arrayexpress

The impact of iron depletion on the transcriptome of Enterococcus faecalis

Project description:To identify the genes and pathways utilized by E. faecalis to grow under iron starvation, we used RNA deep sequencing (RNA-seq) to compare the transscriptome of the parent strain OG1RF grown to mid-log in the chemically defined FMC medium with or without the addition of FeSO4 as an iron source.

2023-01-17 | GSE221057 | GEO

Transcriptome analysis of Enterococcus faecalis OG1 delta-EF2638 mutant

Project description:Analysis of changes in gene expression in Enterococcus faecalis OG1 delta-EF2638 mutant compared to wild-type OG1 strain. The deletion mutant has a growth defect when grown with aeration The mutant presented in this study is described and characterized in Vesic, D. and Kristich, C.J. 2012. A Rex-family transcriptional repressor influnces H2O2 accumulation by Enterococcus faecalis. (submitted for publication) Microarray analysis was done using RNA isolated from two independent cultures of wild-type Enterococcus faecalis OG1 and two independent cultres of Enterococcus faecalis OG1 delta-EF2638 mutant; each RNA sample was subjected to triplicate hybridization (technical replicates) . Microarrays were custom designed to investigate expression of ORFs in Enterococcus faecalis OG1RF genome. The arrays were designed based on the OG1RF annotation generated with the Rapid Annotation Using Subsystem Technology (RAST) server (Aziz et. al. 2008. BMC Genomics 9:75), as described in Frank et al (2012) Infect. Immun. 80:539. The aim was eighteen probe pairs per ORF, each of which is present in triplicate.

2013-04-15 | E-GEOD-43228 | biostudies-arrayexpress

Enterococcus faecalis OG1RF control vs. treatment with vancomycin

Project description:Transcriptional profiling to investigate the effect of drug treatment on the E. faecalis cells. For microarray analysis, E. faecalis OG1RF was grown in FMC medium supplemented with 10 mM glucose to an optical density at 600 nm (OD600) of 0.3 and the cultures were divided in 3 aliquots. One aliquot was collected by centrifugation and immediately frozen (untreated control cells). The other aliquots were treated for 30 or 60 min with 1.25 X the minimum inhibitory concentration (MIC) of vancomycin (10 M-NM-<g ml-1). After an exposure time of 30 or 60 minutes, each of these cultures was also centrifuged and the pellets frozen. RNA was then isolated from each pellet for microarray analysis. This process was repeated 3 additional times, for a total of four replicates of each condition. RNA was extracted from four replicate samples of each condition of interest (control cells grown to OD600 = 0.3 in FMC medium supplemented with 10mM glucose, then treated with vancomycin for 30 or 60 minutes) and labeled with Cy3. For each replicate, labeled RNA was hybridized to slides along with Cy5-labeled reference RNA, extracted from E. faecalis OG1RF cells grown in BHI medium to mid-log.

2013-03-19 | E-GEOD-45300 | biostudies-arrayexpress

Genome-wide Analysis of Enterococcus faecalis OG1RF Gene Expression During Infection

Project description:Changes in Enterococcus faecalis OG1RF gene expression during infection in a rabbit model of subdermal abscess formation were studied using microarray analysis.

2013-12-15 | GSE22391 | GEO

Enterococcus faecalis OG1RF vs. Δrel mutants under control or mupirocin-treated conditions

Project description:Transcriptional profiling to define the stringent response regulon and significance of basal (p)ppGpp levels in E. faecalis OG1RF.

2011-12-20 | GSE34561 | GEO

Enterococcus faecalis OG1RF control vs. treatment with vancomycin

2013-03-19 | GSE45300 | GEO

Genome-wide Analysis of Enterococcus faecalis OG1RF(pCF10) Gene Expression During Infection

Project description:Changes in Enterococcus faecalis OG1RF(pCF10) gene expression at 4 hours post-infection in a rabbit model of subdermal abscess formation were studied using RNA-seq analysis.

2017-02-09 | GSE58467 | GEO

Enterococcus faecalis nucleotide profiles - pilot

Project description:E. faecalis OG1RF and rel/relQ will be grown in FMC-AUG to OD600 = 0.25. 3E10 cells will be harvested by fast filtration, scraped off of membrane into ice-cold PBS, and pelleted by centrifugation. This process will be repeated with OG1RF only to harvest 3E9 and 3E8 cells. A second OG1RF sample of 3E10 cells will be scraped into formic acid; only acid-soluble extract willl be sent for this sample.

2016-09-10 | ST000469 | MetabolomicsWorkbench

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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