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Cell-density resolved comparative analysis of D. shibae wild-type vs. delta-luxI1 overexpressing luxI1 in trans

ABSTRACT: D. shibae delta-luxI1 overexpressing the luxI1 gene in trans was compared to the wild-type in order to identify quorum sensing controlled traits in this organism. Samples were taken at different optical densities in the exponential phase and in the stationary phase.

ORGANISM(S): Dinoroseobacter shibae DFL 12 = DSM 16493

PROVIDER: GSE42012 | GEO | 2012/11/03

SECONDARY ACCESSION(S): PRJNA178768

REPOSITORIES: GEO

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Cell-density resolved comparative analysis of D. shibae wild-type vs. delta-luxI1 overexpressing luxI1 in trans

Project description:D. shibae delta-luxI1 overexpressing the luxI1 gene in trans was compared to the wild-type in order to identify quorum sensing controlled traits in this organism. Samples were taken at different optical densities in the exponential phase and in the stationary phase. Samples from Dinoroseobacter shibae DFL 12 wild-type and delta-luxI1pDP1 are compared during exponential (OD600 0.1, 0.2, 0.4, 0.6, 0.8) and stationary phase (6h post maximum OD600), two biological replicates

2012-11-03 | E-GEOD-42012 | biostudies-arrayexpress

Cell-density resolved comparative analysis of D. shibae wild-type vs. delta-luxI1

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Cell-density resolved comparative analysis of D. shibae wild-type vs. delta-luxI1

Project description:A quorum sensing null mutant was compared with D. shibae wild-type in order to identify quorum sensing controlled traits in this organism. Samples were taken at different optical densities in the exponential phase and in the stationary phase in order to clarify if quorum sensing regulation is dependent on cell-densitiy Samples from Dinoroseobacter shibae DFL 12 wild-type and delta-luxI1 (Dshi_0312) are compared during exponential (OD600 0.1, 0.2, 0.4, 0.6, 0.8) and stationary phase (6h post maximum OD600), two biological replicates

2012-11-03 | E-GEOD-42011 | biostudies-arrayexpress

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Project description:This SuperSeries is composed of the following subset Series: GSE42010: Comparative analysis of D. shibae wild-type vs. delta-luxI1 supplemented with different acetylated homoserine-lactones GSE42011: Cell-density resolved comparative analysis of D. shibae wild-type vs. delta-luxI1 GSE42012: Cell-density resolved comparative analysis of D. shibae wild-type vs. delta-luxI1 overexpressing luxI1 in trans Refer to individual Series

2012-11-03 | E-GEOD-42013 | biostudies-arrayexpress

Comparative analysis of D. shibae wild-type vs. delta-luxI1 supplemented with different acetylated homoserine-lactones

Project description:Comparison of a quorum sensing null mutant supplemented with C18-HSL, C18en-HSL, C18dien-HSL with D. shibae wild-type in order to identify traits induced by distinct autoinducers in this organism. Loop-design, two to three biological replicates of D. shibae wild-type, delta-luxI1 and delta-luxI1 supplemented with 500 nM C18-HSL, C18en-HSL and C18dien-HSL at cultivation start. Samples were taken in mid-exponential growth phase at OD600 0.4

2012-11-03 | E-GEOD-42010 | biostudies-arrayexpress

Comparative analysis of D. shibae wild-type vs. delta-luxI1 supplemented with different acetylated homoserine-lactones

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Light dependent gene expression in D. shibae wildtype compared to the gene expression in the transposonmutants D. shibae Dshi_1135::Tn, D. shibae ppaA::Tn and D. shibae ppsR::Tn

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Adaption of Dinoroseobacter shibae to anaerobic conditions

Project description:To unravel the adaptation strategies of D. shibae to anaerobic conditions in microaerobic to anaerobic parts of the ocean and to define the underlying regulatory network an anaerobic shift experiment in Salt-Water-Medium in a chemostate was established. Transcriptome analyses were used to investigate the physiological status of D. shibae under this conditions. Dinoroseobacter shibae wild type strain DSM 16493T was grown in a chemostate in saltwater mininmal medium (SWM) mimicking the conditions in the marine habitat under anaerobic conditions. For growth under oxygen depletion the media were supplemented with 50 mM KNO3 to sustain anaerobic respiration. Therefore, D. shibae was grown aerobically in the chemostate until the culture reached the exponential phase, than countinuously cultivaion was started. The dilution rate was 0.1 h-1, establishing the approximate half-maximum growth rate of D. shibae in the exponential phase. The anaerobic shift was initialised after 20 hours by stopping the aeration. The samples were harvested before (as reference) and 30 minutes after stopping the airation. Three biological replica were analyzed. Comparison: Identification of genes induced or repressed under aerobic conditions in the Dinoroseobacter shibae wild type strain DSM 16493T. Here we compared the transcriptome profile of D. shibae wild type strain DSM 16493T grown aerobically in the chemostate in exponential phase with the transcriptome profile of the D. shibae wild type strain DSM 16493T which was grown without aeration for 5, 10, 15, 20, 30, 60 and 120 min.

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D. shibae luxI1

Project description:This SuperSeries is composed of the SubSeries listed below.

2012-11-03 | GSE42013 | GEO

Comparative analysis of D. shibae wild-type vs. ∆luxI1 supplemented with acetylated homoserine-lactones with different length of the side chain and modifications

Project description:Comparison of a quorum sensing null mutant supplemented with AHLs with different length of the side chain and modifications with D. shibae wild-type in order to identify traits induced by distinct autoinducers in this organism.

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