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Briefings in Functional Genomics &... Jun 2006The response of Desulfovibrio vulgaris Hildenborough (DvH), a sulphate-reducing bacterium, to nitrate stress was examined using quantitative proteomic analysis. DvH was... (Review)
Review
The response of Desulfovibrio vulgaris Hildenborough (DvH), a sulphate-reducing bacterium, to nitrate stress was examined using quantitative proteomic analysis. DvH was stressed with 105 mM sodium nitrate (NaNO(3)), a level that caused a 50% inhibition in growth. The protein profile of stressed cells was compared with that of cells grown in the absence of nitrate using the iTRAQ peptide labelling strategy and tandem liquid chromatography separation coupled with mass spectrometry (quadrupole time-of-flight) detection. A total of 737 unique proteins were identified by two or more peptides, representing 22% of the total DvH proteome and spanning every functional category. The results indicate that this was a mild stress, as proteins involved in central metabolism and the sulphate reduction pathway were unperturbed. Proteins involved in the nitrate reduction pathway increased. Increases seen in transport systems for proline, glycine-betaine and glutamate indicate that the NaNO(3) exposure led to both salt stress and nitrate stress. Up-regulation observed in oxidative stress response proteins (Rbr, RbO, etc.) and a large number of ABC transport systems as well as in iron-sulphur-cluster-containing proteins, however, appear to be specific to nitrate exposure. Finally, a number of hypothetical proteins were among the most significant changers, indicating that there may be unknown mechanisms initiated upon nitrate stress in DvH.
Topics: Desulfovibrio vulgaris; Nitrates; Oxidative Stress; Proteome; Proteomics
PubMed: 16772278
DOI: 10.1093/bfgp/ell025 -
Scientific Reports Sep 2023Sulfate-reducing bacteria (SRB) are terminal members of any anaerobic food chain. For example, they critically influence the biogeochemical cycling of carbon, nitrogen,...
Sulfate-reducing bacteria (SRB) are terminal members of any anaerobic food chain. For example, they critically influence the biogeochemical cycling of carbon, nitrogen, sulfur, and metals (natural environment) as well as the corrosion of civil infrastructure (built environment). The United States alone spends nearly $4 billion to address the biocorrosion challenges of SRB. It is important to analyze the genetic mechanisms of these organisms under environmental stresses. The current study uses complementary methodologies, viz., transcriptome-wide marker gene panel mapping and gene clustering analysis to decipher the stress mechanisms in four SRB. Here, the accessible RNA-sequencing data from the public domains were mined to identify the key transcriptional signatures. Crucial transcriptional candidate genes of Desulfovibrio spp. were accomplished and validated the gene cluster prediction. In addition, the unique transcriptional signatures of Oleidesulfovibrio alaskensis (OA-G20) at graphene and copper interfaces were discussed using in-house RNA-sequencing data. Furthermore, the comparative genomic analysis revealed 12,821 genes with translation, among which 10,178 genes were in homolog families and 2643 genes were in singleton families were observed among the 4 genomes studied. The current study paves a path for developing predictive deep learning tools for interpretable and mechanistic learning analysis of the SRB gene regulation.
Topics: Humans; Transcriptome; Gene Expression Profiling; Desulfovibrio; Food Chain; Sulfates
PubMed: 37758719
DOI: 10.1038/s41598-023-43089-8 -
Nature Apr 1953
Topics: Desulfovibrio; Sulfates
PubMed: 13054644
DOI: 10.1038/171600b0 -
World Journal of Microbiology &... Feb 2024Microbiologically-influenced corrosion (MIC) is a common operational hazard to many industrial processes. The focus of this review lies on microbial corrosion in the... (Review)
Review
Microbiologically-influenced corrosion (MIC) is a common operational hazard to many industrial processes. The focus of this review lies on microbial corrosion in the maritime industry. Microbial metal attachment and colonization are the critical steps in MIC initiation. We have outlined the crucial factors influencing corrosion caused by microorganism sulfate-reducing bacteria (SRB), where its adherence on the metal surface leads to Direct Electron Transfer (DET)-MIC. This review thus aims to summarize the recent progress and the lacunae in mitigation of MIC. We further highlight the susceptibility of stainless steel grades to SRB pitting corrosion and have included recent developments in understanding the quorum sensing mechanisms in SRB, which governs the proliferation process of the microbial community. There is a paucity of literature on the utilization of anti-quorum sensing molecules against SRB, indicating that the area of study is in its nascent stage of development. Furthermore, microbial adherence to metal is significantly impacted by surface chemistry and topography. Thus, we have reviewed the application of super wettable surfaces such as superhydrophobic, superhydrophilic, and slippery liquid-infused porous surfaces as "anti-corrosion coatings" in preventing adhesion of SRB, providing a potential avenue for the development of practical and feasible solutions in the prevention of MIC. The emerging field of super wettable surfaces holds significant potential for advancing efficient and practical MIC prevention techniques.
Topics: Corrosion; Desulfovibrio; Electron Transport; Microbiota; Porosity
PubMed: 38353843
DOI: 10.1007/s11274-024-03886-3 -
Anaerobe Aug 2021Septic arthritis can occur by hematogenous seeding, direct joint inoculation, or extension of a bone infection into the joint. We report a case of septic arthritis of... (Review)
Review
Septic arthritis can occur by hematogenous seeding, direct joint inoculation, or extension of a bone infection into the joint. We report a case of septic arthritis of the hip caused by Desulfovibrio desulfuricans, an anaerobic sulfur-reducing bacteria. The patient underwent debridement followed by targeted antibiotic therapy with infection resolution.
Topics: Aged; Aged, 80 and over; Anti-Bacterial Agents; Arthritis, Infectious; Desulfovibrio desulfuricans; Female; Humans; Male; Middle Aged
PubMed: 34153468
DOI: 10.1016/j.anaerobe.2021.102407 -
Bioelectrochemistry (Amsterdam,... Oct 2023Carbon starvation can affect the activity of microbes, thereby affecting the metabolism and the extracellular electron transfer (EET) process of biofilm. In the present...
Carbon starvation can affect the activity of microbes, thereby affecting the metabolism and the extracellular electron transfer (EET) process of biofilm. In the present work, the microbiologically influenced corrosion (MIC) behavior of nickel (Ni) was investigated under organic carbon starvation by Desulfovibrio vulgaris. Starved D. vulgaris biofilm was more aggressive. Extreme carbon starvation (0% CS level) reduced weight loss due to the severe weakening of biofilm. The corrosion rate of Ni (based on weight loss) was sequenced as 10% CS level > 50% CS level > 100 CS level > 0% CS level. Moderate carbon starvation (10% CS level) caused the deepest pit of Ni in all the carbon starvation treatments, with a maximal pit depth of 18.8 μm and a weight loss of 2.8 mg·cm (0.164 mm·y). The corrosion current density (i) of Ni for the 10% CS level was as high as 1.62 × 10 A·cm, which was approximately 2.9-fold greater than the full-strength medium (5.45 × 10 A·cm). The electrochemical data corresponded to the corrosion trend revealed by weight loss. The various experimental data rather convincingly pointed to the Ni MIC of D. vulgaris following the EET-MIC mechanism despite a theoretically low E value (+33 mV).
Topics: Humans; Desulfovibrio vulgaris; Nickel; Corrosion; Carbon; Biofilms; Weight Loss; Steel; Desulfovibrio
PubMed: 37230047
DOI: 10.1016/j.bioelechem.2023.108453 -
Journal of Environmental Management Aug 2022In treating mine-impacted waters using sulfate-reducing bacteria (SRB), metal inhibition and substrate selection are important factors affecting the efficiency of the...
In treating mine-impacted waters using sulfate-reducing bacteria (SRB), metal inhibition and substrate selection are important factors affecting the efficiency of the bioprocess. This work investigated the role of the substrate (i.e. lactate, formate, glycerol and glucose) on Ni inhibition to SRB with sulfate-reducing activity tests at initial pH 5, 7 and 9 and 100 mg/L of Ni. Results indicated that the type of substrate was a significant factor affecting Ni inhibition in SRB, which was the most negligible in the lactate system, followed by glycerol, glucose, and formate. Although less significant, Ni inhibition also varied with the pH, leading for instance, to a reduction of 77% in the sulfate reducing activity for the formate system, but only of 28% for lactate at pH 5. The added substrate also influenced the precipitation kinetics and the characteristics of the precipitates, reaching Ni precipitation extents above 95%, except for glucose (83.2%).
Topics: Desulfovibrio; Formates; Glucose; Glycerol; Lactates; Sulfates
PubMed: 35550960
DOI: 10.1016/j.jenvman.2022.115216 -
Scientific Reports Jun 2018Bacteria of the genus Desulfovibrio belong to the group of Sulphate Reducing Bacteria (SRB). SRB generate significant liabilities in the petroleum industry, mainly due...
Bacteria of the genus Desulfovibrio belong to the group of Sulphate Reducing Bacteria (SRB). SRB generate significant liabilities in the petroleum industry, mainly due to their ability to microbiologically induce corrosion, biofilm formation and HS production. Bacteriophages are an alternative control method for SRB, whose information for this group of bacteria however, is scarce. The present study developed a workflow for the identification of complete prophages in Desulfovibrio. Poly-lysogenesis was shown to be common in Desulfovibrio. In the 47 genomes analyzed 53 complete prophages were identified. These were classified within the order Caudovirales, with 69.82% belonging to the Myoviridade family. More than half the prophages identified have genes coding for lysozyme or holin. Four of the analyzed bacterial genomes present prophages with identity above 50% in the same strain, whose comparative analysis demonstrated the existence of colinearity between the sequences. Of the 17 closed bacterial genomes analyzed, 6 have the CRISPR-Cas system classified as inactive. The identification of bacterial poly-lysogeny, the proximity between the complete prophages and the possible inactivity of the CRISPR-Cas in closed bacterial genomes analyzed allowed the choice of poly-lysogenic strains with prophages belonging to the Myoviridae family for the isolation of prophages and testing of related strains for subsequent studies.
Topics: CRISPR-Cas Systems; Desulfovibrio; Genome, Bacterial; Phylogeny; Prophages
PubMed: 29915307
DOI: 10.1038/s41598-018-27423-z -
Journal of Clinical Microbiology Jun 2003One case of primary Desulfovibrio desulfuricans bacteremia in an immunocompetent man is presented, and 15 other reported cases are reviewed. While most isolates have not... (Review)
Review
One case of primary Desulfovibrio desulfuricans bacteremia in an immunocompetent man is presented, and 15 other reported cases are reviewed. While most isolates have not been identified to the species level, Desulfovibrio fairfieldensis and D. desulfuricans have been associated with incidents of bacteremia and D. vulgaris has been associated with intra-abdominal infections. In vitro studies suggest that empirical therapy with either imipenem or metronidazole should be considered.
Topics: Bacteremia; Desulfovibrio; Gram-Negative Bacterial Infections; Humans; Immunocompetence; Male; Middle Aged
PubMed: 12791922
DOI: 10.1128/JCM.41.6.2752-2754.2003 -
Nature Communications Oct 2020Six CO fixation pathways are known to operate in photoautotrophic and chemoautotrophic microorganisms. Here, we describe chemolithoautotrophic growth of the...
Six CO fixation pathways are known to operate in photoautotrophic and chemoautotrophic microorganisms. Here, we describe chemolithoautotrophic growth of the sulphate-reducing bacterium Desulfovibrio desulfuricans (strain G11) with hydrogen and sulphate as energy substrates. Genomic, transcriptomic, proteomic and metabolomic analyses reveal that D. desulfuricans assimilates CO via the reductive glycine pathway, a seventh CO fixation pathway. In this pathway, CO is first reduced to formate, which is reduced and condensed with a second CO to generate glycine. Glycine is further reduced in D. desulfuricans by glycine reductase to acetyl-P, and then to acetyl-CoA, which is condensed with another CO to form pyruvate. Ammonia is involved in the operation of the pathway, which is reflected in the dependence of the autotrophic growth rate on the ammonia concentration. Our study demonstrates microbial autotrophic growth fully supported by this highly ATP-efficient CO fixation pathway.
Topics: Adenosine Triphosphate; Ammonia; Autotrophic Processes; Bacterial Proteins; Carbon Dioxide; Desulfovibrio desulfuricans; Gene Expression Profiling; Genome, Bacterial; Glycine; Metabolomics
PubMed: 33037220
DOI: 10.1038/s41467-020-18906-7