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E-GEOD-44310 - Transcriptomic response of the polycyclic aromatic hydrocarbon-degrading Sphingomonas sp. LH128 upon short-term starvation stress

Status
Released on 14 February 2013, last updated on 24 February 2013
Organism
Sphingomonas sp. LH128
Samples (6)
Array (1)
Protocols (8)
Description
This study examines genome-wide expression of the phenanthrene-degrading Sphingomonas sp. LH128 as a response to short-term starvation stress. For this purpose, the strain was subjected to complete nutrient starvation for 4h after growth on a rich medium. Survival was monitored by plating and transcriptomic response was determined by whole-genome microarray analysis. The data showed no major differences were obsrved in gene expression and the viability of the cells were not affected during short-term incubation time Transcriptomic response of phenanthrene degrading Sphingomonas sp. LH128 starved for 4h in isotonic solution of 0.01 mM MgS04 was studied using genome-wide gene expression analysis. For this purpose, the strain was pregrown in minimal medium to an OD600 of 0.5, washed twice with 0.01 mM MgS04 and resuspended in the same solution to an OD of 0.5. RNA was extracted both from starved cells and from the initial culture (non-starved cells) and cDNA was synthesized and labeled with Cy3. Transcriptomic response of three replicates were analyzed and compared with the initial inoculum
Experiment type
transcription profiling by array 
Contacts
Tekle Tafese Fida <fida.tafesetekle@ees.kuleuven.be>, DIRK SPRINGAEL, HERMANN J HEIPIEPER, JAN-ROELOF VAN DER MEER, SLVIA MORENO, TEKLE T FIDA
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-44310.idf.txt
Sample and data relationshipE-GEOD-44310.sdrf.txt
Raw data (1)E-GEOD-44310.raw.1.zip
Processed data (1)E-GEOD-44310.processed.1.zip
Array designA-GEOD-15623.adf.txt
Links