Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

143 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Expression analysis of Vibrio cholerae O395N1 delta-nqrA-F mutant

ABSTRACT: Investigation of whole genome gene expression level changes in a Vibrio cholerae O395N1 delta-nqrA-F mutant, compared to the wild-type strain. Total RNA recovered from wild-type cultures of VIbrio cholerae O395N1 and its nqrA-F mutant strain. Each chip measures the expression level of 3,835 genes from Vibrio cholerae O1 biovar eltor str. N16961 with twenty average probes/gene, with five-fold technical redundancy.

ORGANISM(S): Vibrio cholerae

SUBMITTER: Claudia Hase

PROVIDER: E-GEOD-56387 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Shared Molecules

Only show the datasets with similarity scores above: 0.5

Threshold

0.5

Similar Datasets

Plasticity of the ripening process among berry classes

Project description:Investigation of gene expression differences between three tissues of developmentally different berry classes before, at the onset of ripening, and at maturity The berry classes analyzed in these studies were at prevéraison stage, at midvéraison and 5 week postmidvéraison. A 63-array study on gene expression variability among developmentally berry classes (PV, GS, PS, RS, GSH, PSH, RSH) sampled at three developmental stages (prevéraison for PV, midvéraison for GS, PS, and RS and maturityfor GSH, PSH, and RSH ) in skin, seed, and pulp tissues. Each data point was performed in triplicate

2013-08-07 | E-GEOD-49569 | biostudies-arrayexpress

Expression analysis of Mycobacterium smegmatis delta-MSMEG_0166 mutant

Project description:Investigation of whole genome gene expression level changes in a Mycobacterium smegmatis mc2 155 delta-MSMEG_0166 mutant, compared to the wild-type strain. MSMEG_0166 is a transcriptional regulator in the gntR family. Mutations in MSMEG_0166 result in hypersensitivity to the bactericidal ubiquitin peptide Ub2, as well as oxidative stress caused by either organic or inorganic agents A three chip study using total RNA recovered from three separate wild-type cultures of Mycobacterium smegmatis mc2 155 and three separate cultures of a MSMEG_0166 mutant strain, Mycobacterium smegmatis mc2 155 delta-MSMEG_0166, in which MSMEG_0166 is interupted by the insertion of a hygromycin resistance cassette. Each chip measures the expression level of 6,588 genes from Myobacterium smegmatis with five 60-mer probes per transcript and two replicates of each probe for a total of 65,880 experimental probes.

2011-01-06 | E-GEOD-26474 | biostudies-arrayexpress

EHUA Vibrio alginolyticus EPGS Nimblegen

Project description:Vibrio alginolyticus is a Gram-negative marine bacterium. A limited population of the organisms causes acute gastroenteritis in humans. In this study, Vibrio alginolyticus wild type strain EPGS is compared with the mutants of Ser-Thr kinase PpkA and phosphatase PppA, after cultured for 7h, in Luria-Bertani containing medium 3 % NaCl at 30 C. Our goal is to determine the ppkA and pppA regulon. Three wild type and five mutant Vibrio alginolyticus samples were compared.

2011-12-31 | E-GEOD-24319 | biostudies-arrayexpress

Comparative genomic hybridization of Vibrio cholerae from California coastal water compared to reference strain N16961

Project description:Environmental isolates of Vibrio cholerae from California coastal water compared to reference strain N16961.

2007-05-23 | E-SMDB-4063 | biostudies-arrayexpress

Expression Analysis of Trimethyltin Chlorides (TMT) Impact on Embryonic Development

Project description:Investigation of whole genome expression pattern of 60 and 72 hours post fertilization Danio Rerio embryos exposed to TMT and vehicle control Embryos were exposed to 10uM TMT or control from 48hpf to 60 or 72 hpf. Three replicates were collected for each time point. 40 embryos were pooled to comprise a replicate.

2011-03-23 | E-GEOD-28131 | biostudies-arrayexpress

Gene expression profile of Vibrio cholerae N16961 grown in various conditions of culture

Project description:To investigate the effect of conditions of culture on gene expression in Vibrio cholerae N16961 We then performed gene expression profiling analysis using data obtained from RNA-seq of 4 conditions of culture in biological duplicate

2023-02-20 | GSE214813 | GEO

Surface Functionalities of Gold Nanoparticles (AuNPs) Impacts Embryonic Gene Expression Responses

Project description:Investigation of whole genome expression pattern of 24 and 48 hours post fertilization Danio Rerio embryos exposed to 1.5nm MES- and TMAT- AuNPs. TMAT is a positively charged (cationic) ligand, and MES is a negatively charged (anionic) ligand. Embryos were exposed to 10ug/mL of 1.5nm TMAT-AuNPs, 50ug/mL of 1.5nm MES-AuNPs or control from 6hpf to 24 or 48 hpf. Three replicates were collected for each time point. 40 embryos were pooled to comprise a replicate.

2012-01-31 | E-GEOD-30275 | biostudies-arrayexpress

California Vibrio cholerae CGH

Project description:Environmental isolates of Vibrio cholerae from California coastal water compared to reference strain N16961. A genotyping experiment design type classifies an individual or group of individuals on the basis of alleles, haplotypes, SNP's. Keywords: genotyping_design; array CGH

2007-07-17 | GSE8499 | GEO

Vibrio cholerae O395 toxSL33S vs toxSL33S delta rpoE

Project description:Transcriptional profiling of Vibrio Cholerae RpoE deletion mutant in toxSL33S mutation background Synchronized samples grown in virulence inducing conditions, strains independently grown and harvested

2015-08-26 | E-GEOD-72378 | biostudies-arrayexpress

Effect of cFP on gene expression in Vibiro cholerae

Project description:Vibrio cholerae is a Gram negative, motile, facultative anaerobic bacterium, and the causative agent of cholera, a severe diarrhoeal disease, which untreated can rapidly lead to dehydration, hypotensive shock, and death. Cholera is a significant human disease that is estimated to affect 3-5 million people each year. The mechanism by which V. cholerae regulates virulence gene expression in vivo is unknown, but a number of studies have suggested that low molecular weight signally molecules may be important in modulating gene expression. cFP is a low molecular weight cyclic dipeptide produced by multiple Vibrio species. Evidence previously generated in our laboratory showed that cFP inhibited the production of the virulence factors cholera toxin (CT) and the toxin coregulated pilus (TCP) in O1 El Tor V. cholerae strain N16961 during growth under virulence gene inducing conditions. cFP inhibition of CT and TCP production correlated with reduced transcription of several regulators that belong to the ToxR regulon. To identify additional cFP-responsive genes we performed microarray experiments with the O1 El Tor V. cholerae strain N16961. In these experiments N16961 was grown under virulence gene inducing conditions in the presence and absence of cFP before RNA was extracted and hybridized to microarrays. The results showed that cFP positively affected the expression of the LysR-family regulatory protein LeuO. This finding suggests the possibility that LeuO may be mediating cFP-dependent regulation of gene expression in response to environmental cFP. V. cholerae N16961 was grown under AKI growth condition in the presence or absence of 1 mM cFP for 2.5 or 3 hours when total RNA was extracted, differentially labelled and hybridized to microarrays. Four independent experiments were performed.

2013-08-13 | E-GEOD-38272 | 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