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Desulfovibrio vulgaris str. Hildenborough

ABSTRACT: Global transcriptomic profiling of Desulfovibro vulgaris Hildenborough following transitions between sulfate respiration and syntrophy

PROVIDER: PRJNA296030 | ENA |

REPOSITORIES: ENA

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Combining metabolic flux analysis with proteomics to shed light on the metabolic flexibility: the case of Desulfovibrio vulgaris Hildenborough

Project description:Desulfovibrio vulgaris Hildenborough is a gram-negative anaerobic bacterium belonging to the sulfate-reducing bacteria, a group of microbes that can perform dissimilatory sulfate reduction coupled to the oxidation of various substrates as carbon and energy sources. In the absence of sulfate, they can also ferment organic acids in syntrophy with methanogens. They exhibit high metabolic diversity switching from one energy mode to another depending on nutrients availability in the environments. Hence, they play a central role in shaping ecosystems. Despite, intensive efforts to study D. vulgaris energy metabolism at the genomic, biochemical and ecological level, bioenergetics in this microorganism remains far from being fully understood. Alternatively, few metabolic models were also proposed to explain D. vulgaris bioenergetics. However, they appeared to be not easily adaptable to various environmental conditions. To lift off these limitations, here we constructed a new transparent and robust metabolic model of D. vulgaris bioenergetics by combining whole-cell proteomic analysis with modeling approaches (Flux Balance Analysis). The iDvu71 model showed over 0.95 correlation with experimental data. Further simulations allowed a detailed description of D. vulgaris metabolism in various conditions of growth. Altogether, the simulations run in this study highlighted the sulfate-to-lactate consumption ratio as a pivotal factor in D. vulgaris energy metabolism. In particular, the impact on the hydrogen/formate balance and biomass synthesis is discussed. Overall, this study provides a novel insight into D. vulgaris metabolic flexibility.

2024-02-01 | PXD046638 | Pride

Coculture of Desulfovibrio vulgaris Hildenborough and Methanococcus maripaludis

Project description:Using data from microarray experiments we investigated a coculture of D. vulgaris Hildenborough and Methanococcus maripaludis.

2011-11-01 | GSE30831 | GEO

Coculture of Desulfovibrio vulgaris Hildenborough and Methanococcus maripaludis

Project description:Using data from microarray experiments we investigated a coculture of D. vulgaris Hildenborough and Methanococcus maripaludis. Using data from microarray experiments we investigated a coculture of D. vulgaris Hildenborough and Methanococcus maripaludis.

2011-11-01 | E-GEOD-30831 | biostudies-arrayexpress

Sustainable syntrophic growth of Dehalococcoides ethenogenes strain 195 with Desulfovibrio vulgaris Hildenborough and Methanobacterium congolense: global transcriptomic and proteomic analysis

Project description:The syntrophic growth of strain 195 with Desulfovibrio vulgaris Hildenborough (DVH) and/or Methanobacterium congolense (MC) enhanced TCE dechlorination process by faster dechlorination rate and more robust growth. Transcriptomes of strain 195 grown in isolation, co- and tri-cultures were obtained by microarray experiments to find out the differential expressed genes corresponding to the syntrophic growth. Thus we can better understand the role of DVH and MC within this syntrophy.

2011-08-01 | GSE26815 | GEO

Cell wide response to air exposure in Desulfovibrio vulgaris Hildenborough

Project description:We investigated the effects of air exposure on Desulfovibrio vulgaris Hildenborough using microarrays. Keywords: stress response, time course

2007-08-09 | GSE8196 | GEO

Function of Periplasmic Hydrogenases in the Sulfate-Reducing Bacterium Desulfovibrio vulgaris Hildenborough

Project description: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. These conditions incuded lactate or hydrogen at either 5% or 50% (vol/vol) used as the sole electron donor for sulfate reduction. Keywords: Electron donor change

2007-07-02 | GSE8137 | GEO

Function of Periplasmic Hydrogenases in the Sulfate-Reducing Bacterium Desulfovibrio vulgaris Hildenborough

2007-07-02 | GSE8137 | GEO

Cell wide response to low oxygen exposure in Desulfovibrio vulgaris Hildenborough

Project description:We investigated the effects of low level oxygen on Desulfovibrio vulgaris Hildenborough using microarrays. Keywords: time course, stress response

2007-07-01 | GSE7816 | GEO

Cell wide response to low oxygen exposure in Desulfovibrio vulgaris Hildenborough

Project description:We investigated the effects of low level oxygen on Desulfovibrio vulgaris Hildenborough using microarrays. Keywords: time course, stress response

2007-07-01 | GSE7816 | GEO

Co-culture stress in Desulfovibrio vulgaris Hildenborough

Project description: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)

2010-09-16 | GSE17831 | GEO

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