GEO DataSets

(Submitter supplied) Managing tradeoffs through gene regulation is believed to be critical for the success of a generalist in a fluctuating resource environment. To investigate this hypothesis in depth, we imposed a fluctuating environment that required a representative community of the sulfate-reducing generalist Desulfovibrio vulgaris to manage tradeoffs associated with repeated ecologically-relevant shifts between retaining metabolic independence (active capacity for sulfate respiration) and becoming metabolically specialized to a mutualistic association with the hydrogen consuming Methanococcus maripaludis. more...

Organism:

Nitratidesulfovibrio vulgaris str. Hildenborough

Type:

Expression profiling by array

Platform:

GPL20930

24 Samples

Download data: TXT

(Submitter supplied) Managing tradeoffs through gene regulation is believed to maintain resilience of a microbial community in a fluctuating resource environment. To investigate this hypothesis we imposed a fluctuating environment that required the sulfate-reducing generalist Desulfovibrio vulgaris to manage tradeoffs associated with repeated ecologically-relevant shifts between retaining metabolic independence (active capacity for sulfate respiration) and becoming metabolically specialized to a mutualistic association with the hydrogen consuming Methanococcus maripaludis. more...

Organism:

Nitratidesulfovibrio vulgaris str. Hildenborough

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21574

29 Samples

Download data: TXT

(Submitter supplied) Using data from microarray experiments we investigated a coculture of D. vulgaris Hildenborough and Methanococcus maripaludis.

Organism:

Methanococcus maripaludis S2

Type:

Expression profiling by array

Platform:

GPL13958

2 Samples

Download data: TXT

(Submitter supplied) This set of microarray data was used to compare the effects of D. vulgaris grown syntrophically with a hydrogenotrophic methanogen versus D. vulgaris grown in sulfate-limited monoculture. Keywords: physiological response, one time point (stable continuous culture for both control and treated cells)

Organism:

Nitratidesulfovibrio vulgaris str. Hildenborough

Type:

Expression profiling by array

Platform:

GPL9107

1 Sample

Download data: TXT

(Submitter supplied) The sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough possesses four periplasmic hydrogenases to facilitate the oxidation of molecular hydrogen. These include an [Fe], a [NiFeSe] and two [NiFe] hydrogenases encoded by the hyd, hys, hyn1 and hyn2 genes, respectively. In order to understand their cellular functions the expression levels of these hydrogenases, along with the growth rate analysis of mutant strains, was determined during growth on defined media under 3 different conditions. more...

Organism:

Nitratidesulfovibrio vulgaris str. Hildenborough

Type:

Expression profiling by array

Platform:

GPL5395

3 Samples

Download data: TXT

(Submitter supplied) This DNA microarray covers 3,482 of the 3,531 protein-coding sequences of the D. vulgaris genome with 3,439 specific, and 43 non-specific 70-mer oligonucleotide probes. Protocol: All 70mer oligonucleotides were commercially synthesized without modification by MWG Biotech Inc. (High Point, NC). The concentration of oligonucleotides was adjusted to 100 pmol/µl. Oligonucleotide probes were prepared in 50% vol/vol DMSO (Sigma-Aldrich, St. more...

Organism:

Nitratidesulfovibrio vulgaris str. Hildenborough

7 Series

54 Samples

Download data

(Submitter supplied) Investigation of gene expression changes in a DvH genotype ES10-5, a strain isolated from population ES10 which has been evolved under salt stress for 5000 generations. The gene expression was compared to a gentype ES9-11 isolated from ES9 evolved under the same condition for 1200 generations and the ancestral strain. The genotype ES10-5 was characterized in this study. ES9-11 was isolated and characterized in Zhou A et al., 2013. more...

Organism:

Nitratidesulfovibrio vulgaris str. Hildenborough

Type:

Expression profiling by array

Platform:

GPL24011

18 Samples

Download data: FTR, TXT

(Submitter supplied) Using data from microarray experiments, we investigated the effects of excess sodium nitrate on Desulfovibrio vulgaris. Keywords: stress response, time course

Organism:

Nitratidesulfovibrio vulgaris str. Hildenborough

Type:

Expression profiling by array

Platform:

GPL5214

9 Samples

Download data: TXT

(Submitter supplied) In order to obtain a global view of energy metabolism pathways of the sulfate-reducer Desulfovibrio vulgaris Hildenborough and the proteins involved therein whole-genome microarrays were used to compare the transcriptional response of cells grown with hydrogen/sulfate, pyruvate/sulfate, lactate/thiosulfate, and pyruvate with limiting sulfate, relative to growth in standard lactate/sulfate condition. more...

Organism:

Nitratidesulfovibrio vulgaris str. Hildenborough

Type:

Expression profiling by array

Platform:

GPL4071

7 Samples

Download data: TXT

(Submitter supplied) In order to obtain a global view of energy metabolism pathways of the sulfate-reducer Desulfovibrio vulgaris Hildenborough and the proteins involved therein whole-genome microarrays were used to compare the transcriptional response of cells grown with hydrogen/sulfate, pyruvate/sulfate, lactate/thiosulfate, and pyruvate with limiting sulfate, relative to growth in standard lactate/sulfate condition. more...

Organism:

Nitratidesulfovibrio vulgaris str. Hildenborough

Type:

Expression profiling by array

Platform:

GPL4071

7 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Nitratidesulfovibrio vulgaris str. Hildenborough

Type:

Expression profiling by array

Platform:

GPL4071

26 Samples

Download data: TXT

(Submitter supplied) In order to obtain a global view of energy metabolism pathways of the sulfate-reducer Desulfovibrio vulgaris Hildenborough and the proteins involved therein whole-genome microarrays were used to compare the transcriptional response of cells grown with hydrogen/sulfate, pyruvate/sulfate, lactate/thiosulfate, and pyruvate with limiting sulfate, relative to growth in standard lactate/sulfate condition. more...

Organism:

Nitratidesulfovibrio vulgaris str. Hildenborough

Type:

Expression profiling by array

Platform:

GPL4071

8 Samples

Download data: TXT

(Submitter supplied) In order to obtain a global view of energy metabolism pathways of the sulfate-reducer Desulfovibrio vulgaris Hildenborough and the proteins involved therein whole-genome microarrays were used to compare the transcriptional response of cells grown with hydrogen/sulfate, pyruvate/sulfate, lactate/thiosulfate, and pyruvate with limiting sulfate, relative to growth in standard lactate/sulfate condition. more...

Organism:

Nitratidesulfovibrio vulgaris str. Hildenborough

Type:

Expression profiling by array

Platform:

GPL4071

4 Samples

Download data: TXT

(Submitter supplied) Increased salinity constitutes an important and frequent fluctuation faced by D. vulgaris in its natural habitat. Using data from microarray experiments, we investigated the effects of excess KCl on D. vulgaris. Keywords: stress response, time course

Organism:

Nitratidesulfovibrio vulgaris str. Hildenborough

Type:

Expression profiling by array

Platform:

GPL3529

30 Samples

Download data: IMAGENE

(Submitter supplied) Increased salinity constitutes an important and frequent fluctuation faced by D. vulgaris in its natural habitat. Using data from microarray experiments, we investigated the effects of excess NaCl on D. vulgaris. Keywords: stress response, time course

Organism:

Nitratidesulfovibrio vulgaris str. Hildenborough

Type:

Expression profiling by array

Platform:

GPL3529

11 Samples

Download data: IMAGENE

(Submitter supplied) Increased salinity constitutes an important and frequent fluctuation faced by D. vulgaris in its natural habitat. Using data from microarray experiments, we investigated the effects of excess NaCl on D. vulgaris. Keywords: stress response, time course

Organism:

Nitratidesulfovibrio vulgaris str. Hildenborough

Type:

Expression profiling by array

Platform:

GPL3529

30 Samples

Download data: IMAGENE

(Submitter supplied) Recent interest in the ability of Desulfovibrio vulgaris Hildenborough to reduce, and therefore contain, toxic and radioactive metal waste, has made all factors that affect its physiology of great interest. Increased salinity constitutes an important and frequent fluctuation faced by D. vulgaris in its natural habitat. Using data from microarray experiments, as well as other laboratory analyses, we used a systems approach to explore the effects of excess NaCl on D. more...

Organism:

Nitratidesulfovibrio vulgaris str. Hildenborough

Type:

Expression profiling by array

Platform:

GPL3529

71 Samples

Download data: IMAGENE