Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

52 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

TopA mutant of P. aeruginosa PA14

ABSTRACT: We have tested the effect of deletion of Topoisomerase I on genes transcription of the bacteria Pseudomonas. aeruginosa. Topoisomerase I is a conserved protein that modulate the topology state of the DNA from super-coiled to relaxed. To this end we have compared the transcription profile of a topA::GentR mutant to that of the wild-type strain. The topA mutant contains in topA gene a Mariner transposon with a gentamicin resistance cassette. It is part of the non-redundant mutant library of P. aeruginosa PA14 strains. WT and mutant cells were grown to OD 2.0 in LB 200rpm shaking at 37C.

ORGANISM(S): Pseudomonas aeruginosa PA14

SUBMITTER: Laurence Rahme

PROVIDER: E-GEOD-24038 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

The effect of 2-AA on P. aeruginosa PA14 and its mutants

Project description:The pqs operon of the bacteria P. aeruginosa is responsible for the production of at least 60 secreted compounds mainly hidroxy-quinolones (HAQs). Some of them, like PQS and HHQ, were found to be important signal that control the virulence of the bacteria. We have discover that one of the most abandon molecule produced by the pqs operon, 2 aminoacetophenone (2-AA), a volatile molecule serves as a unique signal. In contrast to the previous described PQS and HHQ, 2-AA is downregulating virulence and acute phase proteins and upregulating chronic phase proteins. In addition we have found that 2-AA promotes the formation of persisters cells that antibiotic tolerant. we have compared the genes profile of wild-type PA14 strain and its derivatives topA which lacks Topoisomerase I and pqsA that do not produces HAQs or 2-AA to cultures that were treated with 3mM of 2-AA. Cell were grown with and without 2-AA (3mM) to OD 2.0.

2011-12-21 | E-GEOD-24036 | biostudies-arrayexpress

topA mutant of P. aeruginosa PA14

Project description:We have tested the effect of deletion of Topoisomerase I on genes transcription of the bacteria Pseudomonas. aeruginosa. Topoisomerase I is a conserved protein that modulate the topology state of the DNA from super-coiled to relaxed. To this end we have compared the transcription profile of a topA::GentR mutant to that of the wild-type strain. The topA mutant contains in topA gene a Mariner transposon with a gentamicin resistance cassette. It is part of the non-redundant mutant library of P. aeruginosa PA14 strains.

2011-12-21 | GSE24038 | GEO

Transcription profiling of Bacillus cereus ATCC14579 and its isogenic SecDF deletion mutant

Project description:SecDF is a highly conserved accessory protein of the Sec-translocase located in the cytoplasmic membrane. The deletion mutant (delta Bc4405) of Bacillus cereus ATCC14579 shows multiple phenotypic changes, including aberrent cell division starting at transitionary phase. To understand the underlying processes genotypic profiling was carried out at 3h and 4h after inoculation. The morphology of the mutant seems to be more severe if glucose is added to the LB medium, thus all cultures contained 1% glucose.

2014-06-01 | E-MTAB-1759 | biostudies-arrayexpress

Physiologic and Transcriptomic Effects Triggered by Overexpression of Wild Type and Mutant DNA Topoisomerase I in Streptococcus pneumoniae

Project description:We obtained the topARA mutant that encodes a TopoI enzyme that shows reduced topoisomerase activity compared to the wild type gene (topAWT) and confers resistance to the antibiotic seconeolitsine. Alterations in the gene expression profile produced after overexpression of the wild type or the RA mutant of topA gene were studied. In addition, differential gene expression produced by the DNA gyrase inhibitor novobiocin (NOV) was also studied in cultures overexpressing each of the versions of TopA.

2023-11-08 | GSE243041 | GEO

Pseudomonas aeruginosa PA14

Project description:topA mutant of P. aeruginosa PA14

| PRJNA130337 | ENA

Transcriptome analysis of the Bacillus subtilis ccpA topA(S478P) strain

Project description:In this study the isogenic Bacillus subtilis mutant strains ccpA topA+ and ccpA topA(S478P) were analyzed. The S478P suppressor mutation occurred when the ccpA mutant was grown on minimal medium supplemented with glucose and ammonium as single sources of carbon and nitrogen, respectively. Under these conditions, the ccpA mutant is unable to produce enough glutamate for growth, since gltAB, encoding the glutamate synthase, is not expressed. In order to get an insight how the S478P mutation in the DNA topoisomerase I affects expression on a global level, the two strains were subjected to a microarray analysis. Bacteria were cultivated in minimal medium supplemented with glucose and glutamate. The microarray data show that the topA(S478P) mutation results in a global re-direction of the central carbon metabolism that includes glutamate biosynthesis.

2017-11-01 | GSE88793 | GEO

Biological characterization of virulent therapeutic bacteriophage PAK_P3 infecting Pseudomonas aeruginosa.

Project description:We have isolated and characterized several bacteriophages infecting Pseudomonas aeruginosa distantly related to Felix O1 virus and proposed they form a new subfamily named Felixounavirinae. The infectious cycle of bacteriophages belonging to this subfamily has not been studied yet in terms of gene expression. The present study reports the RNA-Seq analysis of bacteriophage PAK_P3 infecting PAK strain of P. aeruginosa. RNA profile of Host and Phage at 0min, 3.5min and 13 min after infection of Pseudomonas aeruginosa PAK strain with the Pseudomonas phage PAK P3. Three biological replicates for each time point.

2016-07-20 | E-GEOD-76513 | biostudies-arrayexpress

Gene expression data from Pseudomonas aeruginosa PAO1 and mutator (Î? mutS) evolved for 940 generations in LB with and without sub-inhibitory concentrations of ciprofloxacin (0.05Âµg/ml)

Project description:Gene expression of P. aerruginosa changes after short-term exposure to ciprofloxacin at sub-inhibitory concentrations but the effect of long-term exposure which select for the most fitted subpopulations is not known. We used microarrays to investigate the changes in gene expression of P.aeruginosa PAO1 and mutator (Î? mutS) after long-term evolution (94 daily passages) in LB in the presence and absence of ciprofloxacin Three different colonies from the ancestral populations of PAO1 and mutator (Î? mutS) as well as from the evolved populations (day 94) of each of the three lineages (A;B;C) in the presence or absence of ciprofloxacin at a concentration of 0.05 Âµg/ml were used for overnight cultures in LB and total RNA was extracted at OD600nm=1 and hybridized on P. aeruginosa Affymetrix chip.

2016-02-25 | E-GEOD-78255 | biostudies-arrayexpress

Aspergillus hypoxia array

Project description:3 replicates of WT and srbA knockout strains grown on GMM plates, harvested spores and inoculated 5x10^5 spores/ml in 300 ml of LGMM. Cultures incubated for 10h at 28C and then shifted for 2h to 37C (both at 200rpm) so they are just germinating at the start of the treatment. Cultures were shifted to hypoxia (37C, 200rpm) and incubated for 1hr. Samples were collected by pouring them over a filter paper in a Buechner funnel and snap froze the cells immediately in liquid nitrogen, and stored the cells at -80C and lyophilized all tissue at the same time after all samples were collected. RNA extraction was then done simultaneously with all time points.

2011-08-01 | E-MEXP-3172 | biostudies-arrayexpress

Transcription profiling by array of Pseudomonas aeruginosa wild type, BphP and BphO strains.

Project description:The transcriptome of two different Pseudomonas aeruginosa mutant strains were compared to the Pseudomonas aeruginosa wild type strain in the stationary growth phase

2010-04-24 | E-MEXP-2606 | 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