Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Staphylococcus epidermidis strain:1457

ABSTRACT: Staphylococcus epidermidis strain:1457 Raw sequence reads

PROVIDER: PRJNA907831 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR22509255_1.fastq.gz	Fastqsanger.gz
	SRR22509255_2.fastq.gz	Fastqsanger.gz
	SRR22509256_1.fastq.gz	Fastqsanger.gz
	SRR22509256_2.fastq.gz	Fastqsanger.gz
	SRR22509257_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 12

Similar Datasets

Staphylococcus epidermidis strain:1457

Project description:Staphylococcus epidermidis 1457 Genome sequencing and assembly

| PRJNA377759 | ENA

Transcriptomic analyses of Staphylococcus epidermidis in mixed-species biofilms with Candida albicans

Project description:To explain enhanced biofilm formation and increased dissemination of S. epidermidis in mixed-species biofilms, microarrays were used to explore differential gene expression of S. epidermidis in mixed-species biofilms. One sample from single species biofilm (S1) and mixed-species biofilm (SC2) were excluded from analyses for outliers. We observed upregulation (2.7%) and down regulation (6%) of S. epidermidis genes in mixed-species biofilms. Autolysis repressors lrgA and lrgB were down regulated 36-fold and 27-fold respectively and was associated with increased eDNA possibly due to enhanced autolysis in mixed-species biofilms. These data suggest that bacterial autolysis and release of eDNA in the biofilm matrix may be responsible for enhancement and dissemination of mixed-species biofilms of S. epidermidis and C. albicans. Staphylococcal gene expression in mixed-species biofilms with Candida and in single species biofilms of S. epidermidis were analyzed. The experiment was repeated thrice on 3 different days (3 biological replicates each for single species biofilms of S. epidermidis and mixed-species biofilms). Only 2 biological replicates were analyzed and one biological replicate was not analyzed (S1 and SC1 - raw data files are provided on the Series record). Single species biofilms of S. epidermidis (strain 1457) and C. albicans (strain 32354) and mixed-species biofilms were formed on 6-well tissue culture plates. Five ml of organism suspensions (O.D. 0.3, S. epidermidis 107 CFU/ml or C. albicans 105 CFU/ml) or 2.5 ml each for mixed-species biofilms for 24 hr. RNA was harvested from single species and mixed-species biofilms.

2012-02-28 | E-GEOD-35438 | biostudies-arrayexpress

Staphylococcus epidermidis

Project description:Staphylococcus epidermidis Raw sequence reads

| PRJNA380983 | ENA

Staphylococcus epidermidis

Project description:Staphylococcus epidermidis Raw sequence reads

| PRJNA714433 | ENA

Staphylococcus epidermidis

Project description:Staphylococcus epidermidis Raw sequence reads

| PRJNA608162 | ENA

Staphylococcus epidermidis

Project description:Staphylococcus epidermidis Raw sequence reads

| PRJNA434275 | ENA

Staphylococcus epidermidis strain:AH6072

Project description:Staphylococcus epidermidis strain:AH6072 Raw sequence reads

| PRJNA883761 | ENA

Staphylococcus epidermidis strain:35984M

Project description:Staphylococcus epidermidis strain:35984M Raw sequence reads

| PRJNA712963 | ENA

iSep23 – Genome-scale metabolic model of Staphylococcus epidermidis ATCC 12228

Project description:Staphylococcus epidermidis is a Gram-positive, coagulase-negative (CoNS) bacterium that is carried asymptomatically on the skin and mucous membranes of virtually all human beings. It is a major cause of nosocomial infections and associated with invasive procedures (Méric et al., 2018). Virulent S. epidermidis strains contaminate indwelling medical devices, such as catheters or implants (Sabaté Brescó et al., 2017), showing pathogenicity traits, e.g., biofilm formation, cell toxicity, or methicillin resistance (Méric et al., 2018). Apart from that, even the low-virulent, low-biofilm forming strain of S. epidermidis ATCC 12228 was shown to form a biofilm under decreased oxygen conditions (Uribe-Alvarez et al., 2015). As a member of the skin and mucosal microbiome, S. epidermidis prevents the colonization of Staphylococcus aureus (Otto, 2011). Its well-studied metabolism and the ability to grow on known media make S. epidermidis a possible reconstruction candidate. A reconstruction of a genome-scale metabolic model (GEM) of S. epidermidis was created using CarveMe (Machado et al., 2018) and carefully refined in subsequent manual curation efforts, using the S. epidermidis ATCC 12228 strain sequence. The model was experimentally validated on multiple media under varying growth conditions, such as different carbon sources.

2025-05-19 | MODEL2012220002 | BioModels

Dormancy within Staphylococcus epidermidis biofilms: a transcriptomic analysis by RNA-seq

Project description:We sequenced mRNA from three independent biological replicates of Staphylococcus epidermidis biofilms with different proportion of dormant cells. Whole trancriptome analysis of Staphylococcus epidermidis biofilms with prevented and induced dormancy.

2014-08-28 | E-GEOD-60834 | biostudies-arrayexpress

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