Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

30 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling of Pseudomonas putida strains with wild type and inactivated cyoB alleles

ABSTRACT: Transcriptome comparison of two isogenic strains, one with a wild type cyoB allele and another with an inactivated cyoB allele

INSTRUMENT(S): ScanArray Lite [PerkinElmer]

ORGANISM(S): Pseudomonas putida

SUBMITTER: Fernando Rojo

PROVIDER: E-MEXP-639 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Inactivation of the Pseudomonas putida cytochrome o ubiquinol oxidase leads to a significant change in the transcriptome and to increased expression of the CIO and cbb3-1 terminal oxidases.

Morales Gracia G Ugidos Ana A Rojo Fernando F

Environmental microbiology 20061001 10

Pseudomonas putida KT2440 contains a branched aerobic respiratory chain with several terminal oxidases. Inactivation of the cyo terminal ubiquinol oxidase has little effect on growth rate but is known to relieve the inhibition by global control that modulates induction of genes required to assimilate alkanes in cells growing in the presence of preferred carbon sources. We show that inactivation of other terminal oxidases has no effect on regulation of the alkane degradation pathway, which points ...[more]

PMID: 16958757

Similar Datasets

Transcription profiling by array of Pseudomonas putida grown at low temperature

Project description:Analysis of the changes in the transcriptomic profile of Pseudomonas putida growing at 10M-:C compared to that of growing at 30M-:C.

2011-06-30 | E-MEXP-2837 | biostudies-arrayexpress

Transcription profiling of wild type and crc mutant Pseudomonas putida growing exponentially in LB medium

Project description:Effect of inactivating the crc gene (PP_5292) on the transcriptome of cells growing exponentially in LB medium

2009-11-03 | E-MEXP-1886 | biostudies-arrayexpress

Transcription profiling of Pseudomonas putida PP3546 mutant

Project description:Transcription profiling of Pseudomonas putida PP3546 mutant

2013-04-02 | E-MEXP-3655 | biostudies-arrayexpress

Transcription profiling of Pseudomonas putida wild type cells and lexA1 and lexA2 mutants after treatment with mitomcin C

Project description:The experiment try to elucidate the analysis of the genetic composition of P. putida lexA1 and lexA2 regulons in order to determine the possible relationships and overlaps between both networks. Gene expression patterns in DNA-damaged wild-type cells of P. putida, as well as in its lexA1 and lexA2 mutant derivatives, have been determined

2007-10-20 | E-MEXP-1187 | biostudies-arrayexpress

Transcription profiling of Pseudomonas putida strains with wild type and inactivated vacB alleles

Project description:Transcriptome comparison of two isogenic strains, one with a wild type vacB allele and another with an inactivated vacB allele

2008-09-01 | E-MEXP-1440 | biostudies-arrayexpress

Transcription profiling by array of Pseudomonas putida KT2442 and KT42C1

Project description:Effect of inactivating the phaC1 gene (PP_5003) on the transcriptome of cells growing exponentially in PHA production medium

2011-12-01 | E-MEXP-3183 | biostudies-arrayexpress

Transcription profiling of Pseudomonas putida KT2442 and KT42F

Project description:Effect of inactivating the phaF gene (PP_5007) on the transcriptome of cells growing exponentially in PHA production medium

2010-12-01 | E-MEXP-2970 | biostudies-arrayexpress

Transcription profiling of genes related to ovary activation in worker honey bee brains

Project description:This experiment examines differences in gene expression between wildtype and an experimental strain (anarchistic) of worker honey bees (Apis mellifera). Mature wildtype and anarchistic workers tend to have non-active and active ovaries, respectively. Thus young workers from these strains are expected to show differential expression at loci involved in the regulation of worker reproduction, which occurs via arrhenotokous parthenogenesis.

2008-07-11 | E-MEXP-1552 | biostudies-arrayexpress

Transcript-level responses of Plasmodium falciparum to thiostrepton

Project description:Abstract: The antimalarial activity of the antibiotic thiostrepton has long been attributed to inhibition of apicoplast protein synthesis through binding of apicoplast ribosomal RNA. However, the kinetics of parasite death upon thiostrepton treatment differ from those seen for other inhibitors of apicoplast housekeeping functions. We have analysed global changes in gene expression of the malaria parasite, Plasmodium falciparum, in an attempt to shed light on the responses of the parasite to this drug. Our results indicate a delay in gene expression profiles of thiostrepton-treated parasites. A small number of genes appear to be regulated outside of this trend; our data suggest a response from genes encoding components of the mitochondrial translational machinery, while little response is seen from genes encoding apicoplast-targeted proteins. Our findings are consistent with an effect of thiostrepton on mitochondrial protein synthesis, and thus warrant a re-evaluation of the target of thiostrepton in Plasmodium. They also provide some suggestion of mitochondrion – nucleus signalling in the parasite. 3 biological replicates each for treated and untreated: control (1/2000 DMSO) and LD70 thiostrepton, respectively

2011-06-30 | E-GEOD-28701 | biostudies-arrayexpress

Transcript level responses of Plasmodium falciparum to antimycin A

Project description:Abstract: The mitochondrial electron transport chain is essential to Plasmodium and is the target of the antimalarial drug atovaquone. The mitochondrial genomes of Plasmodium sp. are the most reduced known, and the majority of mitochondrial proteins are encoded in the nucleus and imported into the mitochondrion post-translationally. Many organisms have signalling pathways between the mitochondria and the nucleus to regulate the expression of nuclear-encoded mitochondrially-targeted proteins, for example in response to mitochondrial dysfunction. We have studied the gene expression profiles of synchronous Plasmodium falciparum treated with an LD50 concentration of the complex III inhibitor antimycin A, to investigate whether such pathways exist in the parasite. There was a broad perturbation of gene expression. Some effects were attributable to a delay in the gene expression phase of drug-treated parasites. However, our data also indicated regulation of mitochondrial stress response genes and genes involved in pyrimidine biosynthesis. 3 biological replicates each for treated and untreated: control (1/2000 DMSO) and LD50 antimycin A, respectively. Normalised microarray data for antimycin A-treated parasites were contrasted against untreated (DMSO) controls.

2012-04-19 | E-GEOD-28625 | 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