Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

11 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Salmonella Typhimurium: control vs. Deoxynivalenol (DON) treatment

ABSTRACT: Transcriptional profiling of log and stationary phase S. Typhimurium, comparing untreated controls with Deoxynivalenol treated samples. Each array used labelled cDNA against a common genomic DNA reference. Triplicate arrays were carried out for each of the 4 conditions: untreated log phase, untreated stationary phase, DON treated log phase and DON treated stationary phase

ORGANISM(S): Salmonella enterica subsp. enterica serovar Typhimurium

SUBMITTER: Neil Shearer

PROVIDER: E-GEOD-29399 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Salmonella Typhimurium: control vs. T2 toxin treatment

Project description:Transcriptional profiling of log and stationary phases of S. Typhimurium, comparing untreated controls with T2 toxin-treated samples. Each array used labelled cDNA against a common genomic DNA reference. Trplicate arrays were carried out for each of the 4 conditions: untreated log phase, untreated stationary phase, T2 toxin treated log phase and T2 toxin treated stationary phase.

2011-07-25 | E-GEOD-30925 | biostudies-arrayexpress

Salmonella Typhimurium: control vs. cortisol treatment

Project description:Transcriptional profiling of log and stationary phases of S. Typhimurium, comparing untreated controls with cortisol-treated samples. Each array used labelled cDNA against a common genomic DNA reference. Triplicate arrays were carried out for each of the 4 conditions: untreated log phase, untreated stationary phase, cortisol treated log phase and cortisol treated stationary phase.

2011-07-25 | E-GEOD-30923 | biostudies-arrayexpress

Salmonella Typhimurium: wild type vs. ∆scsA mutant

Project description:Transcriptional profiling of log and stationary phases of S. Typhimurium, comparing wild type with the ∆scsA strain. Each array used labelled cDNA against a common genomic DNA reference. Triplicate arrays were carried out for each of the 4 conditions: wild type log phase, wild type stationary phase, ∆scsA log phase and ∆scsA stationary phase.

2011-07-25 | E-GEOD-30924 | biostudies-arrayexpress

Growth phase dependent gene expression of Salmonella Typhimurium SL1344 parental strain and isogenic M-bM-^HM-^FrelA, M-bM-^HM-^FspoT ppGpp null strain

Project description:Transcriptional profiling of Salmonella Typhimurium SL1344 parental starin and isogenic M-bM-^HM-^FrelA, M-bM-^HM-^FspoT ppGpp null strain grown in LB medium with RNA samples talken at AD600=1.0 (mid log, ML), 2.3 (early stationary phase, ESP), 3.0 (mid stationary phase MSP) and 3.6 (Late stationary phase (LSP) Each array used labelled cDNA against a common genomic DNA reference. Triplicate biologically independent RNA samples were arrayed for each of the 2 strains at each of the 4 growth phases

2013-07-03 | E-GEOD-48478 | biostudies-arrayexpress

Salmonella Typhimurium: control vs. Deoxynivalenol (DON) treatment

Project description:Transcriptional profiling of log and stationary phase S. Typhimurium, comparing untreated controls with Deoxynivalenol treated samples.

2011-05-20 | GSE29399 | GEO

Transcriptome microarray of wildtype, relA, expI and rpoS Pectobacterium atrosepticum strains in PMB media

Project description:Whole genome analysis of gene expression by Pectobacterium atrosepticum strain SCRI1043 wildtype and its relA, expI and rpoS deletion mutants when grown to exponential and stationary phase in PMB media. The data is further described in Bowden et al (2013) Virulence in Pectobacterium atrosepticum is regulated by a coincidence circuit involving quorum sensing and the stress alarmone, (p)ppGpp. Molecular Microbiology. DOI: 10.1111/mmi.12369 A 24 chip study using total RNA recovered from three separate wild-type cultures of Pectobacterium atrosepticum SCRI1043 and three separate cultures from three single mutant strains of SCRI1043 possessing deletions within relA (ECA3569), expI (ECA0105) or rpoS (ECA3530) when grown in Pel Minimal Broth (PMB) media to log-phase (6h) or early stationary phase (14h) growth. Each chip measures the expression level of 4,472 genes from Pectobacterium atrosepticum SCRI1043 with eight 60-mer probe pairs (PM/MM) per gene, with three-fold technical redundancy.

2013-08-30 | E-GEOD-50468 | biostudies-arrayexpress

Comparison of gene expression of L. reuteri ATCC 55730 at different growth phase in LDMIII medium

Project description:Comparison of gene expression between L. reuteri ATCC 55730 in LDMIII between early log phase (T8), late log phase (T12) or early stationary phase phase (T16) or late stationary phase (T24)

2011-01-15 | GSE24570 | GEO

Comparison of gene expression of L. reuteri ATCC PTA 6475 at different growth phase in a LDMIII

Project description:Comparison of gene expression between L. reuteri ATCC PTA 6475 in LDMIII between early log phase (T8), late log phase (T12) or early stationary phase phase (T16) or late stationary phase (T24)

2011-01-15 | GSE24415 | GEO

The effect of stpA deletion on S. Typhimurium gene expression during growth in rich medium

Project description:StpA is a paralogue of the nucleoid associated protein H-NS that is conserved in a range of enteric bacteria and had no known function in Salmonella enterica serovar Typhimurium. Here, we show that 5% of the Salmonella genome is regulated by StpA, which contrasts with the situation in Escherichia coli where deletion of stpA only had minor effects on gene expression. The StpA-dependent genes of S. Typhimurium are a specific subset of the H-NS regulon that are predominantly under the positive control of sigma38 (RpoS), CRP-cAMP and PhoP. The regulatory role of StpA varied at different growth phases; StpA only controlled sigma38 levels at mid-exponential phase when it prevented inappropriate activation of sigma38 during rapid bacterial growth. In contrast, StpA only activated the CRP-cAMP regulon during late exponential phase. The effect of stpA deletion on S. Typhimurium gene expression during growth in LB was analysed at 4 different time points (early-log, mid-log, late-log, and stationary phase) where the gene expression profile of the stpA-deletion strain was compared to that of the parental strain. Between two and three biological replicates were performed for each strain and time point. For this study, we used Salmonella genomic DNA as the comparator which also acted as the control for spot quality.

2009-10-27 | E-GEOD-18424 | biostudies-arrayexpress

Gene expression profiling of M tuberculosis BCG strain during extended stationary and resuscitation phase of growth

Project description:Objective of the study is to find out the differentially regulated genes of Mycobacterium BCG strain in extended stationary phase comparison to log phase growth and resuscitation phase. Mycobacterium BCG culture was grown in Sauton medium at 37o C without shaking. Cells at A600 0.6-0.8 were harvested as log phase culture. The cells harvested after 5 months incubation at 37oC without shaking became non culturable and were harvested as extended stationary phase cells. The extended stationary phase cells were treated with resuscitation promoting factor (Rpf) from Micrococcus luteus and harvested after 8 days. Cells of this stage were treated as resuscitation phase cells. Gene expression profiling was carried out using Agilent microarray platform. Keywords: Extended stationary phase, Log phase growth and Resuscitation phase.

2009-07-01 | GSE15642 | 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