Transcriptomics

Dataset Information

3

Transcription profiling of G sulfurreducens GGS Fe(III) vs fumarate


ABSTRACT: G. sulfurreducens (ATCC #51573) was obtained from the laboratory culture collection of Dr. Derek Lovley. Cells were grown under strict anaerobic conditions at 30 °C in chemostats, (see Esteve-Núñez, A., M. M. Rothermich, M. Sharma, and D. R. Lovley. 2004. Growth of Geobacter sulfurreducens under nutrient-limiting conditions in continuous culture. Environ. Microbiol.:in press. for more information), with acetate (5 mM) as the electron donor and Fe(III) citrate (55 mM) or fumarate (27.5 mM) as the electron acceptor. Under these conditions acetate is the substrate limiting growth. Cultures were maintained at a dilution rate of 0.05 h-1 for 5 culture vessel volumes to ensure that cells were at steady-state prior to harvesting. Cells were harvested by centrifugation at 4 °C and the cell pellet was flash-frozen in liquid nitrogen and then stored at 80 °C prior to RNA extraction. Three cultures of acetate limited growth with fumarate as the electron acceptor and three cultures of acetate limited growth with Fe(III) as the electron acceptor were grown. Each culture vessel was harvested and extracted for total RNA separately to produce three biological replicates for this experiment.

ORGANISM(S): Geobacter sulfurreducens  

SUBMITTER: John Quackenbush  

PROVIDER: E-TIGR-81 | ArrayExpress | 2005-01-01

REPOSITORIES: ArrayExpress

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Publications

DNA microarray analysis of nitrogen fixation and Fe(III) reduction in Geobacter sulfurreducens.

Methé Barbara A BA   Webster Jennifer J   Nevin Kelly K   Butler Jessica J   Lovley Derek R DR  

Applied and Environmental Microbiology 20050501 5


A DNA microarray representing the genome of Geobacter sulfurreducens was constructed for use in global gene expression profiling of cells under steady-state conditions with acetate as the electron donor and Fe(III) or fumarate as the electron acceptor. Reproducible differences in transcript levels were also observed in comparisons between cells grown with ammonia and those fixing atmospheric nitrogen. There was a high correlation between changes in transcript levels determined with microarray an  ...[more]

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