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Series GSE47445 Query DataSets for GSE47445
Status Public on Aug 30, 2013
Title Adaption of Dinoroseobacter shibae to anaerobic conditions
Platform organism Dinoroseobacter shibae DFL 12 = DSM 16493
Sample organism Dinoroseobacter shibae
Experiment type Expression profiling by array
Summary 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.
 
Overall design 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.
 
Contributor(s) Laass S, Klein J, Tielen P, Jahn D
Citation(s) 23974024, 24648520
Submission date May 29, 2013
Last update date Jun 02, 2014
Contact name Sebastian Walter Friedrich Laaß
E-mail(s) [email protected]
Organization name Technische Universität Braunschweig
Department Inst. f. Mikrobiologie
Street address Spielmannstraße 7
City Braunschweig
ZIP/Postal code 38106
Country Germany
 
Platforms (1)
GPL11243 Agilent-020623 Dinoroseobacter shibae DFL 12 15k Oligo Microarray (Feature Number version)
Samples (40)
GSM1149787 Biological replicate 1 of 3. Control D. shibae aerob, Sample D. shibae 5 min anaerob
GSM1149788 Biological replicate 2 of 3. Control D. shibae aerob, Sample D. shibae 5 min anaerob
GSM1149789 Biological replicate 3 of 3. Control D. shibae aerob, Sample D. shibae 5min anaerob
Relations
BioProject PRJNA205826

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE47445_RAW.tar 181.7 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table
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