Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Comparative analysis of bacterial transcriptome using DNA microarray and next generation sequencing technologies

ABSTRACT: Validation of Lactobacillus plantarum WCFS1 transcriptome profile using RNA sequencing (direct cDNA sequencing and 3'-UTR sequencing) in comparison with DNA microarray as a reference platform.

ORGANISM(S): Lactiplantibacillus plantarum

PROVIDER: GSE35754 | GEO | 2012/07/10

SECONDARY ACCESSION(S): PRJNA152097

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Comparative analysis of bacterial transcriptome using DNA microarray and next generation sequencing technologies

Project description:Validation of Lactobacillus plantarum WCFS1 transcriptome profile using RNA sequencing (direct cDNA sequencing and 3'-UTR sequencing) in comparison with DNA microarray as a reference platform. Transcriptome analysis was performed on total RNA and enriched mRNA of L. plantarum WCFS1 grown in CDM or MRS media. Samples were hybridized in a loop design, hybridizing each sample twice, once for each dye This Series represents the DNA microarray experiments only.

2012-07-09 | E-GEOD-35754 | biostudies-arrayexpress

Modulation of Lactobacillus plantarum gastrointestinal robustness by fermentation conditions enables identification of bacterial robustness markers

Project description:Transcriptome profiles of control Lactobacillus plantarum WCFS1 cells were compared with a lp_1669 deletion mutant in MRS and 2*CDM media.

2012-01-01 | GSE31254 | GEO

Modulation of Lactobacillus plantarum gastrointestinal robustness by fermentation conditions enables identification of bacterial robustness markers

Project description:Transcriptome profiles of control Lactobacillus plantarum WCFS1 cells were compared with a lp_1669 deletion mutant in MRS and 2*CDM media. A continuous culture was performed on MRS and 2*CDM media and whole genome transcriptome analysis was perfomred on the WCFS1 and NZ3417CM (harboring a chlooramphenicol resistance marker (cat) replacement mutation in lp_1669) strains.

2012-01-01 | E-GEOD-31254 | biostudies-arrayexpress

Locust bean gum derived galacto-manno-oligosaccharides utilization by Lactobacillus plantarum WCFS1

Project description:In order to understand LBG derived galacto-manno-oligosaccharides utilization by a probiotic bacterium, Lactobacillus plantarum WCFS1, we have grown Lactobacillus plantarum WCFS1 (in duplicates) till mid log phase (OD600nm ~0.5, 10 h) in carbon free MRS (de Man, Rogosa Sharpe ) media containing either galacto-manno-oligosaccharides, mannose, glucose or galactose (1% w/v) as the sole carbon source.

2019-07-30 | GSE117591 | GEO

Transcriptional profile Lactobacillus plantarum WCFS1 : Oleuropein treated cells

Project description:Whole genome transcriptional profiling was used to characterize the response of Lactobacillus plantarum WCFS1 human isolate during challenge with oleuropein. Twelve independent experiments were performed and mixed at random in groups of four for total of three RNA samples. The transcriptional profile shows that Lactobacillus plantarum WCFS1 adapts its metabolic capacity to acquire certain carbohydrates and repress the expression of genes involved in fatty acid biosyntheis. The transcriptomic datasets also revealed the downregulation of genes related to the biosynthesis of capsular polysaccharides and genes coding for ABC-type transporters. In addition, induction of oligopeptide permeases is also part of the response of Lactobacillus plantarum WCFS1 to oleuropein.

2019-10-21 | GSE90719 | GEO

Wt-ko_trxB1_Filtered bkg correc transf-norm

Project description:In this experiment we analyzed the impact of the disruption of trxB1in Lactobacillus plantarum at the transcriptome level. Furthermore we studied the effect of 3.5 mM peroxide effect on both Lactobacillus plantarum wild type (strain WCFS1) and a trxB1 mutant (strain NZ7608). Keywords: mutant analysis of trxB1, hydrogen peroxide stress

2007-08-09 | GSE8672 | GEO

Ethanol stress response in Lactobacillus plantarum WCFS1

Project description:Transcriptome profiles of control Lactobacillus plantarum WCFS1 cells were compared with 8% ethanol adapted cells and with 10 min or 30 min 8% ethanol shocked cells.

2010-01-01 | GSE17847 | GEO

The CtsR and HrcA regulon of Lactobacillus plantarum WCFS1 at normal and elevated temperature Nov 01, 2011 approved

Project description:Transcriptome profiles of control Lactobacillus plantarum WCFS1 cells were compared with ctsR, hrcA, and ctsR-hrcA deletion mutants grown in MRS media at 28 and 40 degrees Celcius.

2012-01-01 | GSE31253 | GEO

Sugar utilization in L. plantarum WCFS1

Project description:Lactobacillus plantarum was grown anaerobically on 4 different sugars (Mannose Lactose Fructose and Sucrose) to OD600 = 1.0. Samples were compared with a similar grown culture on glucose. An independnet biological duplicate of tht experimnet was performed (samples 1 and 2). L. plantarum WCFS1 grown in glucose, mannose, fructose, and sucrose

2010-09-15 | E-GEOD-24098 | biostudies-arrayexpress

Analysis of the role of CggR in Lactobacillus plantarum NC8 and WCFS1 by transcriptome analysis

Project description:The level of the Central glycolytic gene regulator (CggR) was engineered in Lactobacillus plantarum NC8 and WCFS1 by over-expression and in-frame mutation of the cggR gene in order to evaluate its regulatory role on the glycolytic gap operon and the glyco

2010-01-01 | GSE18435 | GEO

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