scholarly journals Pseudodesulfovibrio cashew sp. Nov., a Novel Deep-Sea Sulfate-Reducing Bacterium, Linking Heavy Metal Resistance and Sulfur Cycle

2021 ◽  
Vol 9 (2) ◽  
pp. 429
Author(s):  
Rikuan Zheng ◽  
Shimei Wu ◽  
Chaomin Sun
Keyword(s):  
Heavy Metal ◽  
Sulfate Reduction ◽  
Marine Sediments ◽  
Deep Sea ◽  
Sulfur Cycle ◽  
Metal Sulfides ◽  
Phenotypic Traits ◽  
Dissimilatory Sulfate Reduction ◽  
Metabolic Potential ◽  
Sulfate Reducing

Sulfur cycling is primarily driven by sulfate reduction mediated by sulfate-reducing bacteria (SRB) in marine sediments. The dissimilatory sulfate reduction drives the production of enormous quantities of reduced sulfide and thereby the formation of highly insoluble metal sulfides in marine sediments. Here, a novel sulfate-reducing bacterium designated Pseudodesulfovibrio cashew SRB007 was isolated and purified from the deep-sea cold seep and proposed to represent a novel species in the genus of Pseudodesulfovibrio. A detailed description of the phenotypic traits, phylogenetic status and central metabolisms of strain SRB007 allowed the reconstruction of the metabolic potential and lifestyle of a novel member of deep-sea SRB. Notably, P. cashew SRB007 showed a strong ability to resist and remove different heavy metal ions including Co2+, Ni2+, Cd2+ and Hg2+. The dissimilatory sulfate reduction was demonstrated to contribute to the prominent removal capability of P. cashew SRB007 against different heavy metals via the formation of insoluble metal sulfides.

scholarly journals Pseudodesulfovibrio cashew sp. nov., a novel deep-sea sulfate-reducing bacterium, linking heavy metal resistance and sulfur cycle

2020 ◽  
Author(s):  
Rikuan Zheng ◽  
Chaomin Sun
Keyword(s):  
Heavy Metal ◽  
Sulfate Reduction ◽  
Marine Sediments ◽  
Deep Sea ◽  
Sulfur Cycle ◽  
Metal Sulfides ◽  
Phenotypic Traits ◽  
Dissimilatory Sulfate Reduction ◽  
Metabolic Potential ◽  
Sulfate Reducing

Sulfur cycling is primarily driven by sulfate reduction mediated by sulfate-reducing bacteria (SRB) in marine sediments. The dissimilatory sulfate reduction drives the production of enormous quantities of reduced sulfide and thereby the formation of highly insoluble metal sulfides in marine sediments. Here, a novel sulfate-reducing bacterium designated Pseudodesulfovibrio cashew SRB007 was isolated and purified from the deep-sea cold seep and proposed to represent a novel species in the genus of Pseudodesulfovibrio. A detailed description of the phenotypic traits, phylogenetic status and central metabolisms of strain SRB007, allowing the reconstruction of the metabolic potential and lifestyle of a novel member of deep-sea SRB. Notably, P. cashew SRB007 showed a strong ability to resist and remove different heavy metal ions including Fe3+, Co2+, Ni2+, Cu2+, Cd2+ and Hg2+. And the dissimilatory sulfite reduction was demonstrated to contribute to the prominent removal capability of P. cashew SRB007 against different heavy metals via forming insoluble metal sulfides.

scholarly journals Clustered Genes Related to Sulfate Respiration in Uncultured Prokaryotes Support the Theory of Their Concomitant Horizontal Transfer

2005 ◽  
Vol 187 (20) ◽  
pp. 7126-7137 ◽  
Author(s):  
Marc Mussmann ◽  
Michael Richter ◽  
Thierry Lombardot ◽  
Anke Meyerdierks ◽  
Jan Kuever ◽  
...  
Keyword(s):  
Sulfate Reduction ◽  
Marine Sediments ◽  
Horizontal Transfer ◽  
Successful Implementation ◽  
Dissimilatory Sulfate Reduction ◽  
Prosthetic Group ◽  
Sulfate Reducing ◽  
Dissimilatory Sulfite Reductase ◽  
Sulfur Intermediates ◽  
Horizontal Transfers

ABSTRACT The dissimilatory reduction of sulfate is an ancient metabolic process central to today's biogeochemical cycling of sulfur and carbon in marine sediments. Until now its polyphyletic distribution was most parsimoniously explained by multiple horizontal transfers of single genes rather than by a not-yet-identified “metabolic island.” Here we provide evidence that the horizontal transfer of a gene cluster may indeed be responsible for the patchy distribution of sulfate-reducing prokaryotes (SRP) in the phylogenetic tree. We isolated three DNA fragments (32 to 41 kb) from uncultured, closely related SRP from DNA directly extracted from two distinct marine sediments. Fosmid ws39f7, and partially also fosmids ws7f8 and hr42c9, harbored a core set of essential genes for the dissimilatory reduction of sulfate, including enzymes for the reduction of sulfur intermediates and synthesis of the prosthetic group of the dissimilatory sulfite reductase. Genome comparisons suggest that encoded membrane proteins universally present among SRP are critical for electron transfer to cytoplasmic enzymes. In addition, novel, conserved hypothetical proteins that are likely involved in dissimilatory sulfate reduction were identified. Based on comparative genomics and previously published experimental evidence, a more comprehensive model of dissimilatory sulfate reduction is presented. The observed clustering of genes involved in dissimilatory sulfate reduction has not been previously found. These findings strongly support the hypothesis that genes responsible for dissimilatory sulfate reduction were concomitantly transferred in a single event among prokaryotes. The acquisition of an optimized gene set would enormously facilitate a successful implementation of a novel pathway.

Stimulation of Dissimilatory Sulfate Reduction in Response to Sulfate in Microcosm Incubations from Two Contrasting Temperate Peatlands near Ithaca, NY, USA

2021 ◽  
Author(s):  
Andrew R St James ◽  
Ruth E Richardson
Keyword(s):  
Sulfate Reduction ◽  
Electron Donor ◽  
Short Chain Fatty Acids ◽  
Sulfur Cycle ◽  
Carbon Flow ◽  
Dissimilatory Sulfate Reduction ◽  
Metagenomic Sequencing ◽  
Community Responses ◽  
Sulfate Reducing ◽  
Stimulation Of

Abstract Peatlands are responsible for over half of wetland methane emissions, yet major uncertainties remain regarding carbon flow, especially when increased availability of electron acceptors stimulate competing physiologies. We used microcosm incubations to study the effects of sulfate on microorganisms in two temperate peatlands, one bog and one fen. Three different electron donor treatments were used (13C-acetate, 13C-formate, and a mixture of 12C short-chain fatty acids) to elucidate the responses of sulfate-reducing bacteria (SRB) and methanogens to sulfate stimulation. Methane production was measured and metagenomic sequencing was performed, with only the heavy DNA fraction sequenced from treatments receiving 13C electron donors. Our data demonstrate stimulation of dissimilatory sulfate reduction in both sites, with contrasting community responses. In McLean Bog (MB), hydrogenotrophic Deltaproteobacteria and acetotrophic Peptococcaceae lineages of SRB were stimulated, as were lineages with unclassified dissimilatory sulfite reductases. In Michigan Hollow Fen (MHF), there was little stimulation of Peptococcaceae populations, and a small stimulation of Deltaproteobacteria SRB populations only in the presence of formate as electron donor. Sulfate stimulated an increase in relative abundance of reads for both oxidative and reductive sulfite reductases, suggesting stimulation of an internal sulfur cycle. Together, these data indicate a stimulation of SRB activity in response to sulfate in both sites, with a stronger growth response in MB than MHF. This study provides valuable insights into microbial community responses to sulfate in temperate peatlands and is an important first step to understanding how SRB and methanogens compete to regulate carbon flow in these systems.

scholarly journals A deep-sea sulfate reducing bacterium directs the formation of zero-valent sulfur via sulfide oxidation

2021 ◽  
Author(s):  
Rui Liu ◽  
Yeqi Shan ◽  
Shichuan Xi ◽  
Xin Zhang ◽  
Chaomin Sun
Keyword(s):  
Deep Sea ◽  
Sulfide Oxidation ◽  
Sulfur Cycle ◽  
Cold Seep ◽  
Cold Seeps ◽  
Protein Activity ◽  
Quinone Oxidoreductase ◽  
Sulfate Reducing ◽  
Thiosulfate Reductase ◽  
Reducing Bacteria

Zero-valent sulfur (ZVS) is a critical intermediate in the biogeochemical sulfur cycle. Up to date, sulfur oxidizing bacteria have been demonstrated to dominate the formation of ZVS. In contrast, formation of ZVS mediated by sulfate reducing bacteria (SRB) has been rarely reported. Here, we report for the first time that a typical sulfate reducing bacterium Desulfovibrio marinus CS1 directs the formation of ZVS via sulfide oxidation. In combination with proteomic analysis and protein activity assays, thiosulfate reductase (PhsA) and sulfide: quinone oxidoreductase (SQR) were demonstrated to play key roles in driving ZVS formation. In this process, PhsA catalyzed thiosulfate to form sulfide, which was then oxidized by SQR to form ZVS. Consistently, the expressions of PhsA and SQR were significantly up-regulated in strain CS1 when cultured in the deep-sea cold seep, strongly indicating strain CS1 might form ZVS in its real inhabiting niches. Notably, homologs of phsA and sqr widely distributed in the metagenomes of deep-sea SRB. Given the high abundance of SRB in cold seeps, it is reasonable to propose that SRB might greatly contribute to the formation of ZVS in the deep-sea environments. Our findings add a new aspect to the current understanding of the source of ZVS.

scholarly journals Evaluation of Physiological Parameters of Intestinal Sulfate-Reducing Bacteria Isolated from Patients Suffering from IBD and Healthy People

2020 ◽  
Vol 9 (6) ◽  
pp. 1920 ◽  
Author(s):  
Ivan Kushkevych ◽  
Jorge Castro Sangrador ◽  
Dani Dordević ◽  
Monika Rozehnalová ◽  
Martin Černý ◽  
...  
Keyword(s):  
Sulfate Reduction ◽  
Biomass Accumulation ◽  
Sulfate Reducing Bacteria ◽  
Dissimilatory Sulfate Reduction ◽  
Healthy Individuals ◽  
Fecal Samples ◽  
Sulfate Reducing ◽  
Cell Extracts ◽  
Production Of Hydrogen ◽  
Reducing Bacteria

Background: Inflammatory bowel diseases (IBDs) are multifactorial illnesses of the intestine, to which microorganisms are contributing. Among the contributing microorganisms, sulfate-reducing bacteria (SRB) are suggested to be involved in the process of bowel inflammation due to the production of hydrogen sulfide (H2S) by dissimilatory sulfate reduction. The aims of our research were to physiologically examine SRB in fecal samples of patients with IBD and a control group, their identification, the study of the process of dissimilatory sulfate reduction (sulfate consumption and H2S production) and biomass accumulation. Determination of biogenic elements of the SRB and evaluation of obtained parameters by using statistical methods were also included in the research. The material for the research consisted of 14 fecal samples, which was obtained from patients and control subjects. Methods: Microscopic techniques, microbiological, biochemical, biophysical methods and statistical analysis were included. Results: Colonies of SRB were isolated from all the fecal samples, and subsequently, 35 strains were obtained. Vibrio-shaped cells stained Gram-negative were dominant in all purified studied strains. All strains had a high percentage of similarity by the 16S rRNA gene with deposited sequences in GenBank of Desulfovibrio vulgaris. Cluster analysis of sulfate reduction parameters allowed the grouping of SRB strains. Significant (p < 0.05) differences were not observed between healthy individuals and patients with IBD with regard to sulfate reduction parameters (sulfate consumption, H2S and biomass accumulation). Moreover, we found that manganese and iron contents in the cell extracts are higher among healthy individuals in comparison to unhealthy individuals that have an intestinal bowel disease, especially ulcerative colitis. Conclusions: The observations obtained from studying SRB emphasize differences in the intestinal microbial processes of healthy and unhealthy people.

scholarly journals Butyrate Conversion by Sulfate-Reducing and Methanogenic Communities from Anoxic Sediments of Aarhus Bay, Denmark

2020 ◽  
Vol 8 (4) ◽  
pp. 606
Author(s):  
Derya Ozuolmez ◽  
Elisha K. Moore ◽  
Ellen C. Hopmans ◽  
Jaap S. Sinninghe Damsté ◽  
Alfons J. M. Stams ◽  
...  
Keyword(s):  
Sulfate Reduction ◽  
Marine Sediments ◽  
Relative Abundance ◽  
Archaeal Community ◽  
Community Analysis ◽  
Sulfate Concentration ◽  
Vertical Separation ◽  
Sulfate Reducers ◽  
Sulfate Reducing ◽  
Initial Zone

The conventional perception that the zone of sulfate reduction and methanogenesis are separated in high- and low-sulfate-containing marine sediments has recently been changed by studies demonstrating their co-occurrence in sediments. The presence of methanogens was linked to the presence of substrates that are not used by sulfate reducers. In the current study, we hypothesized that both groups can co-exist, consuming common substrates (H2 and/or acetate) in sediments. We enriched butyrate-degrading communities in sediment slurries originating from the sulfate, sulfate–methane transition, and methane zone of Aarhus Bay, Denmark. Sulfate was added at different concentrations (0, 3, 20 mM), and the slurries were incubated at 10 °C and 25 °C. During butyrate conversion, sulfate reduction and methanogenesis occurred simultaneously. The syntrophic butyrate degrader Syntrophomonas was enriched both in sulfate-amended and in sulfate-free slurries, indicating the occurrence of syntrophic conversions at both conditions. Archaeal community analysis revealed a dominance of Methanomicrobiaceae. The acetoclastic Methanosaetaceae reached high relative abundance in the absence of sulfate, while presence of acetoclastic Methanosarcinaceae was independent of the sulfate concentration, temperature, and the initial zone of the sediment. This study shows that there is no vertical separation of sulfate reducers, syntrophs, and methanogens in the sediment and that they all participate in the conversion of butyrate.

scholarly journals Diversity of Sulfur Isotope Fractionations by Sulfate-Reducing Prokaryotes

2001 ◽  
Vol 67 (2) ◽  
pp. 888-894 ◽  
Author(s):  
Jan Detmers ◽  
Volker Brüchert ◽  
Kirsten S. Habicht ◽  
Jan Kuever
Keyword(s):  
Sulfate Reduction ◽  
Isotope Fractionation ◽  
Sulfur Isotope ◽  
Reduction Rate ◽  
Sulfate Reduction Rate ◽  
Dissimilatory Sulfate Reduction ◽  
Systematic Effect ◽  
Sulfate Reducers ◽  
Sulfate Reducing ◽  
Sulfur Isotope Fractionation

ABSTRACT Batch culture experiments were performed with 32 different sulfate-reducing prokaryotes to explore the diversity in sulfur isotope fractionation during dissimilatory sulfate reduction by pure cultures. The selected strains reflect the phylogenetic and physiologic diversity of presently known sulfate reducers and cover a broad range of natural marine and freshwater habitats. Experimental conditions were designed to achieve optimum growth conditions with respect to electron donors, salinity, temperature, and pH. Under these optimized conditions, experimental fractionation factors ranged from 2.0 to 42.0‰. Salinity, incubation temperature, pH, and phylogeny had no systematic effect on the sulfur isotope fractionation. There was no correlation between isotope fractionation and sulfate reduction rate. The type of dissimilatory bisulfite reductase also had no effect on fractionation. Sulfate reducers that oxidized the carbon source completely to CO2 showed greater fractionations than sulfate reducers that released acetate as the final product of carbon oxidation. Different metabolic pathways and variable regulation of sulfate transport across the cell membrane all potentially affect isotope fractionation. Previous models that explained fractionation only in terms of sulfate reduction rates appear to be oversimplified. The species-specific physiology of each sulfate reducer thus needs to be taken into account to understand the regulation of sulfur isotope fractionation during dissimilatory sulfate reduction.

scholarly journals Sulfur Isotope Enrichment during Maintenance Metabolism in the Thermophilic Sulfate-Reducing Bacterium Desulfotomaculum putei

2009 ◽  
Vol 75 (17) ◽  
pp. 5621-5630 ◽  
Author(s):  
Mark M. Davidson ◽  
M. E. Bisher ◽  
Lisa M. Pratt ◽  
Jon Fong ◽  
Gordon Southam ◽  
...  
Keyword(s):  
Sulfate Reduction ◽  
Batch Culture ◽  
Marine Sediments ◽  
Maintenance Phase ◽  
Laboratory Culture ◽  
Specific Rate ◽  
Culture Vessel ◽  
Isotope Enrichment ◽  
Sulfate Reducing ◽  
Sulfate Reduction Rates

ABSTRACT Values of Δ34S ( \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \({=}{\delta}^{34}S_{HS}{-}{\delta}^{34}S_{SO_{4}}\) \end{document} , where δ34SHS and \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \({\delta}^{34}S_{SO_{4}}\) \end{document} indicate the differences in the isotopic compositions of the HS− and SO4 2− in the eluent, respectively) for many modern marine sediments are in the range of −55 to −75‰, much greater than the −2 to −46‰ ε34S (kinetic isotope enrichment) values commonly observed for microbial sulfate reduction in laboratory batch culture and chemostat experiments. It has been proposed that at extremely low sulfate reduction rates under hypersulfidic conditions with a nonlimited supply of sulfate, isotopic enrichment in laboratory culture experiments should increase to the levels recorded in nature. We examined the effect of extremely low sulfate reduction rates and electron donor limitation on S isotope fractionation by culturing a thermophilic, sulfate-reducing bacterium, Desulfotomaculum putei, in a biomass-recycling culture vessel, or “retentostat.” The cell-specific rate of sulfate reduction and the specific growth rate decreased progressively from the exponential phase to the maintenance phase, yielding average maintenance coefficients of 10−16 to 10−18 mol of SO4 cell−1 h−1 toward the end of the experiments. Overall S mass and isotopic balance were conserved during the experiment. The differences in the δ34S values of the sulfate and sulfide eluting from the retentostat were significantly larger, attaining a maximum Δ34S of −20.9‰, than the −9.7‰ observed during the batch culture experiment, but differences did not attain the values observed in marine sediments.

scholarly journals Metagenomic insights into sulfate-reducing bacteria in a revegetated acidic mine wasteland

2020 ◽  
Author(s):  
Jin-tian Li ◽  
Pu Jia ◽  
Xiao-juan Wang ◽  
Shi-wei Feng ◽  
Tao-tao Yang ◽  
...  
Keyword(s):  
Sulfate Reduction ◽  
Plant Cell Wall ◽  
Terrestrial Ecosystems ◽  
Dissimilatory Sulfate Reduction ◽  
Sulfate Reducing ◽  
Hypoxic Conditions ◽  
Terrestrial Environments ◽  
Chemotaxis Proteins ◽  
Glycoside Hydrolysis ◽  
Reducing Bacteria

Abstract BackgroundThe widespread occurrence of sulfate-reducing microorganisms (SRMs, which are typically considered anaerobic organisms) in temporarily oxic/hypoxic aquatic environments indicates an intriguing possibility that SRMs can prevail in continuously oxic/hypoxic terrestrial environments rich in sulfate. However, little attention has been paid to such a possibility, leading to an incomplete understanding of microorganisms driving terrestrial part of the global sulphur cycle.ResultsIn this study, genome-centric metagenomics was employed to explore SRMs in a revegetated acidic mine wasteland under continuously oxic/hypoxic conditions. We reconstructed 12 Acidobacteria and four Deltaproteobacteria genomes encoding reductive DsrAB, of which five represented three new SRM genera. Our results showed that Acidobacteria-related SRMs differed considerably from Deltaproteobacteria-related SRMs in metabolic potentials. Genomes of Acidobacteria-related SRMs harbored more glycoside hydrolase (GH) genes than those of previously known SRMs. They also tended to encode more oxygen-tolerant hydrogenases and cytochrome c oxidases, but less methyl-accepting chemotaxis proteins (MCPs) than genomes of Deltaproteobacteria-related SRMs. More importantly, we discovered that SRM-infecting viruses can contribute to glycoside hydrolysis, chemotaxis and antioxidation of their hosts. Remarkably, one GH encoded by a SRM-infecting virus is responsible for the liberation of rhamnose (a monosaccharide that is accessible directly to SRMs for dissimilatory sulfate reduction) from plant cell-wall-derived oligosaccharides.ConclusionsTaken together, our results do not only improve our understanding of microorganisms driving dissimilatory sulfate reduction in terrestrial environments under continuously oxic/hypoxic conditions but also provides the first evidence for putative roles of viruses in S biogeochemical cycle in terrestrial ecosystems.

Symbiosis and competition among sulfate reduction, filamentous sulfur, denitrification, and poly-p accumulation bacteria in the anaerobic-oxic activated sludge of a municipal plant

1996 ◽  
Vol 34 (5-6) ◽  
pp. 119-128 ◽  
Author(s):  
Ryoko Yamamoto-Ikemoto ◽  
Saburo Matsui ◽  
Tomoaki Komori ◽  
E. J. Bosque-Hamilton
Keyword(s):  
Organic Acids ◽  
Activated Sludge ◽  
Sulfate Reduction ◽  
Sulfide Oxidation ◽  
Sulfate Reducing Bacteria ◽  
Sulfur Cycle ◽  
Sulfate Reducing ◽  
P Accumulation ◽  
Relationship Of ◽  
Reducing Bacteria

Symbiosis and competition were examined among sulfate reducing bacteria (SRB), filamentous sulfur bacteria (FSB), denitrification bacteria (DNB) and poly-P accumulation bacteria (PAB) in the activated sludge of a municipal plant operated under anaerobic-oxic conditions. Batch experiments were carried out using settled sewage from the same plant as the substrate under several conditions. Under oxic conditions, both sulfate reduction and sulfide oxidation occurred simultaneously, making a symbiotic relationship of SRB and FSB for establishment of a sulfur cycle sustaining the energy requirements. Under anoxic conditions, denitrification was dominant because DNB outcompeted PAB and SRB for organic acids. Under anaerobic conditions, phosphate release and sulfate reduction occurred simultaneously. SRB produced for moles of acetate from four moles of propionate and/or unknown substances by reduction of three moles of sulfate. PAB competed with sulfate-reducing bacteria for organic acids such as propionate. However, PAB utilized acetate produced by SRB.

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