Publications

ftir study on the light sensitivity of the [nife] hydrogenase from desulfovibrio vulgaris miyazaki f: ni-c to ni-l photoconversion, kinetics of proton rebinding and h/d isotope effect.	the light-induced ni-c to ni-l transition results in the dissociation of a hydrogenic species, originating from the dihydrogen splitting at the active site. back conversion in the dark to form ni-c was investigated by studying the rebinding kinetics of this ligand in protonated (h(2)/h(2)o) and deuterated (d(2)/d(2)o) samples using time resolved ftir spectroscopy.	2009	20449009
inorganic-organic hybrid coatings on stainless steel by layer-by-layer deposition and surface-initiated atom-transfer-radical polymerization for combating biocorrosion.	to improve the biocorrosion resistance of stainless steel (ss) and to confer the bactericidal function on its surface for inhibiting bacterial adhesion and biofilm formation, well-defined inorganic-organic hybrid coatings, consisting of the inner compact titanium oxide multilayers and outer dense poly(vinyl-n-hexylpyridinium) brushes, were successfully developed. nanostructured titanium oxide multilayer coatings were first built up on the ss substrates via the layer-by-layer sol-gel deposition p ...	2009	20355986
structural biology: molecular coin slots for urea.		2009	20010678
[development of mono- and associative cultures of sulphate-reducing bacteria and formation of exopolymeric complex].	differences were found in development of the monoculture of sulphate-reducing bacteria desulfovibrio sp. kyiv-10 and artificial associations of cultures of sulphate reducing bacteria with heterotrophic satellites under development in a form of biofilm or plankton. correlation between exopolymers synthesis in the biofilm and steel corrosion velocity has been found. glucose, galactose, mannose, xylose, rhibose and nonidentified carbohydrates were found in the composition of exopolymers synthesized ...	2009	19938590
changes in iron, sulfur, and arsenic speciation associated with bacterial sulfate reduction in ferrihydrite-rich systems.	biologically mediated redox processes have been shown to affect the mobility of iron oxide-bound arsenic in reducing aquifers. this work investigates how dissimilatory sulfate reduction and secondary iron reduction affect sulfur, iron, and arsenic speciation. incubation experiments were conducted with as(iii/v)-bearing ferrihydrite in carbonate-buffered artificial groundwater enriched with lactate (10 mm) and sulfate (0.08-10 mm) and inoculated with desulfovibrio vulgaris (atcc 7757, formerly d. ...	2009	19943647
structural similarities between biogenic uraninites produced by phylogenetically and metabolically diverse bacteria.	while the product of microbial uranium reduction is often reported to be "uo(2)", a comprehensive characterization including stoichiometry and unit cell determination is available for only one shewanella species. here, we compare the products of batch uranyl reduction by a collection of dissimilatory metal- and sulfate-reducing bacteria of the genera shewanella, geobacter, anaeromyxobacter, and desulfovibrio under similar laboratory conditions. our results demonstrate that u(vi) bioreduction by ...	2009	19924959
electrochemical kinetic investigations of the reactions of [fefe]-hydrogenases with carbon monoxide and oxygen: comparing the importance of gas tunnels and active-site electronic/redox effects.	a major obstacle for future biohydrogen production is the oxygen sensitivity of [fefe]-hydrogenases, the highly active catalysts produced by bacteria and green algae. the reactions of three representative [fefe]-hydrogenases with o(2) have been studied by protein film electrochemistry under conditions of both h(2) oxidation and h(2) production, using co as a complementary probe. the hydrogenases are ddhydab and cahyda from the bacteria desulfovibrio desulfuricans and clostridium acetobutylicum , ...	2009	19824734
development of a markerless genetic exchange system for desulfovibrio vulgaris hildenborough and its use in generating a strain with increased transformation efficiency.	in recent years, the genetic manipulation of the sulfate-reducing bacterium desulfovibrio vulgaris hildenborough has seen enormous progress. in spite of this progress, the current marker exchange deletion method does not allow for easy selection of multiple sequential gene deletions in a single strain because of the limited number of selectable markers available in d. vulgaris. to broaden the repertoire of genetic tools for manipulation, an in-frame, markerless deletion system has been developed ...	2009	19837844
a marine sulfate-reducing bacterium producing multiple antibiotics: biological and chemical investigation.	a marine sulfate-reducing bacterium srb-22 was isolated by means of the agar shake dilution method and identified as desulfovibrio desulfuricans by morphological, physiological and biochemical characteristics and 16s rdna analysis. in the bioassay, its extract showed broad-spectrum antimicrobial activity using the paper disc agar diffusion method. this isolate showed a different antimicrobial profile than either ampicillin or nystatin and was found to produce at least eight antimicrobial compone ...	2009	19841718
spectroelectrochemical study of the [nife] hydrogenase from desulfovibrio vulgaris miyazaki f in solution and immobilized on biocompatible gold surfaces.	the catalytic cycle of the anaerobic [nife] hydrogenase from desulfovibrio vulgaris miyazaki f (dvmf) both in solution and immobilized on an au electrode was studied by ir spectroscopic and electrochemical methods. ir spectroelectrochemistry in solution at different ph values allows the identification of the various redox-states of the active site and the determination of the midpoint potentials, as well as their acid-base equilibria. the spectroscopic characterization was based on the unique ma ...	2009	19845323
purification, crystallization and preliminary crystallographic analysis of the [nifese] hydrogenase from desulfovibrio vulgaris hildenborough.	the [nifese] hydrogenases belong to a subgroup of the [nife] proteins in which a selenocysteine is a ligand of the ni. these enzymes demonstrate interesting catalytic properties, showing a very high h(2)-producing activity that is sustained in the presence of low o(2) concentrations. the purification, crystallization and preliminary x-ray diffraction analysis of the [nifese] hydrogenase isolated from desulfovibrio vulgaris hildenborough are reported. crystals of the soluble form of this hydrogen ...	2009	19724133
cobalt-, zinc- and iron-bound forms of adenylate kinase (ak) from the sulfate-reducing bacterium desulfovibrio gigas: purification, crystallization and preliminary x-ray diffraction analysis.	adenylate kinase (ak; atp:amp phosphotransferase; ec 2.7.4.3) is involved in the reversible transfer of the terminal phosphate group from atp to amp. aks contribute to the maintenance of a constant level of cellular adenine nucleotides, which is necessary for the energetic metabolism of the cell. three metal ions, cobalt, zinc and iron(ii), have been reported to be present in aks from some gram-negative bacteria. native zinc-containing ak from desulfovibrio gigas was purified to homogeneity and ...	2009	19724135
lactate has the potential to promote hydrogen sulphide formation in the human colon.	high concentrations of sulphide are toxic for the gut epithelium and may contribute to bowel disease. lactate is a favoured cosubstrate for the sulphate-reducing colonic bacterium desulfovibrio piger, as shown here by the stimulation of sulphide formation by d. piger dsm749 by lactate in the presence of sulphate. sulphide formation by d. piger was also stimulated in cocultures with the lactate-producing bacterium bifidobacterium adolescentis l2-32. other lactate-utilizing bacteria such as the bu ...	2009	19732152
effect of sulfate absence and nitrate addition on bacterial community in a sulfidogenic bioreactor.	the characteristics and behavior of sulfate-reducing bacteria (srb), methane-producing bacteria (mpb) and denitrifying bacteria (db) were investigated by polymerase chain reaction (pcr) based methods under the transitory sulfate absence or nitrate addition conditions in a sulfidogenic continuously stirred tank reactor. the bioreactor started-up feeding with 4000 mg l(-1) cod (lactate) and 2000 mg l(-1) sulfate (so(4)(2-)). the sulfate removal efficiency reached 3.84 g l(-1)d(-1) when the activat ...	2009	19735978
contribution of mobile genetic elements to desulfovibrio vulgaris genome plasticity.	the genome of desulfovibrio vulgaris strain depue, a sulfate-reducing deltaproteobacterium isolated from heavy metal-impacted lake sediment, was completely sequenced and compared with the type strain d. vulgaris hildenborough. the two genomes share a high degree of relatedness and synteny, but harbour distinct prophage and signatures of past phage encounters. in addition to a highly variable phage contribution, the genome of strain depue contains a cluster of open-reading frames not found in str ...	2009	19737303
[nife] hydrogenases: structural and spectroscopic studies of the reaction mechanism.	[nife] hydrogenases catalyze the reversible oxidation of dihydrogen. for this simple reaction the molecule has developed a complex catalytic mechanism, during which the enzyme passes through various redox states. the [nife] hydrogenase contains several metal centres, including the bimetallic ni-fe active site, iron-sulfur clusters and a mg(2+) ion. the ni-fe active site is located in the inner part of the protein molecule, therefore a number of pathways are involved in the catalytic reaction rou ...	2009	19759926
monitoring microbial populations of sulfate-reducing bacteria using an impedimetric immunosensor based on agglutination assay.	an impedimetric immunosensor was fabricated for rapid and non-labeled detection of sulfate-reducing bacteria, desulforibrio caledoiensis (srb) by immobilizing lectin-concanavalin a using an agglutination assay. the immobilization of lectin was conducted using amine coupling on the surface of a gold (au) electrode assembled with 11-mercaptoundecanoic acid. electrochemical impedance spectroscopy (eis) was used to verify the stepwise assembly of the sensor system. the work conditions of the impedim ...	2009	19782217
do quantum mechanical energies calculated for small models of protein-active sites converge?	a common approach for the computational modeling of enzyme reactions is to study a rather small model of the active site (20-200 atoms) with quantum mechanical (qm) methods, modeling the rest of the surroundings by a featureless continuum with a dielectric constant of approximately 4. in this paper, we discuss how the residues included in the qm model should be selected and how many residues need to be included before reaction energies converge. as a test case, we use a proton-transfer reaction ...	2009	19785474
zinc-, cobalt- and iron-chelated forms of adenylate kinase from the gram-negative bacterium desulfovibrio gigas.	adenylate kinase (ak) from the sulphate-reducing bacterium desulfovibrio gigas (ak) has been characterized earlier as a co(2+)/zn(2+)-containing enzyme, which is an unusual characteristic for adenylate kinases from gram-negative bacteria, in which these enzymes are normally devoid of metal ions. ak was overexpressed in e. coli and homogeneous co(2+)-, zn(2+)- and fe(2+)-forms of the enzyme were obtained under in vivo conditions. their structural stability and spectroscopic and kinetic properties ...	2009	19786047
susceptibilities of 23 desulfovibrio isolates from humans.	antimicrobial susceptibilities of 23 strains of desulfovibrio spp. were tested by etest. generally, desulfovibrio spp. were highly susceptible to sulbactam-ampicillin, meropenem, clindamycin, metronidazole, and chloramphenicol: mic(90)s of 6, 4, 0.19, 0.25, and 8 microg/ml, respectively. in addition, these strains generally showed high mics to piperacillin and piperacillin-tazobactam. desulfovibrio fairfieldensis (eight strains) was the species least susceptible to most agents, especially beta-l ...	2009	19786606
survey of large protein complexes in d. vulgaris reveals great structural diversity.	an unbiased survey has been made of the stable, most abundant multi-protein complexes in desulfovibrio vulgaris hildenborough (dvh) that are larger than mr approximately 400 k. the quaternary structures for 8 of the 16 complexes purified during this work were determined by single-particle reconstruction of negatively stained specimens, a success rate approximately 10 times greater than that of previous "proteomic" screens. in addition, the subunit compositions and stoichiometries of the remainin ...	2009	19805340
resilience of coral-associated bacterial communities exposed to fish farm effluent.	background: the coral holobiont includes the coral animal, algal symbionts, and associated microbial community. these microbes help maintain the holobiont homeostasis; thus, sustaining robust mutualistic microbial communities is a fundamental part of long-term coral reef survival. coastal pollution is one major threat to reefs, and intensive fish farming is a rapidly growing source of this pollution. methodology & principal findings: we investigated the susceptibility and resilience of the bacte ...	2009	19806190
natural attenuation potential of phenylarsenicals in anoxic groundwaters.	the extensive production of chemical warfare agents in the 20th century has led to serious contamination of soil and groundwater with phenyl arsenicals at former ammunition depots or warfare agent production sites worldwide. most phenyl arsenicals are highly toxic for humans. the microbial degradation of phenylarsonic acid (paa) and diphenylarsinic acid (dpaa) was investigated in microcosms made of anoxic groundwater/sediment mixtures taken from different depths of an anoxic, phenyl arsenical co ...	2009	19806732
crystal structure of adenylylsulfate reductase from desulfovibrio gigas suggests a potential self-regulation mechanism involving the c terminus of the beta-subunit.	adenylylsulfate reductase (adenosine 5'-phosphosulfate [aps] reductase [apsr]) plays a key role in catalyzing aps to sulfite in dissimilatory sulfate reduction. here, we report the crystal structure of apsr from desulfovibrio gigas at 3.1-a resolution. different from the alpha(2)beta(2)-heterotetramer of the archaeoglobus fulgidus, the overall structure of apsr from d. gigas comprises six alphabeta-heterodimers that form a hexameric structure. the flavin adenine dinucleotide is noncovalently att ...	2009	19820092
uranium reduction and resistance to reoxidation under iron-reducing and sulfate-reducing conditions.	oxidation and mobilization of microbially-generated u(iv) is of great concern for in situ uranium bioremediation. this study investigated the reoxidation of uranium by oxygen and nitrate in a sulfate-reducing enrichment and an iron-reducing enrichment derived from sediment and groundwater from the field research center in oak ridge, tennessee. both enrichments were capable of reducing u(vi) rapidly. 16s rrna gene clone libraries of the two enrichments revealed that desulfovibrio spp. are dominan ...	2009	19651424
rubredoxin as a paramagnetic relaxation-inducing probe.	the paramagnetic effect due to the presence of a metal center with unpaired electrons is no longer considered a hindrance in protein nmr spectroscopy. in the present work, the paramagnetic effect due to the presence of a metal center with unpaired electrons was used to map the interface of an electron transfer complex. desulfovibrio gigas cytochrome c(3) was chosen as target to study the effect of the paramagnetic probe, fe-rubredoxin, which produced specific line broadening in the heme iv methy ...	2009	19651443
(14)n hyscore investigation of the h-cluster of [fefe] hydrogenase: evidence for a nitrogen in the dithiol bridge.	hydrogenases are enzymes catalyzing the reversible heterolytic splitting of molecular hydrogen. despite extensive investigations of this class of enzymes its catalytic mechanism is not yet well understood. in this paper spectroscopic investigations of the active site of [fefe] hydrogenase are presented. the so-called h-cluster consists of a bi-nuclear catalytically active subcluster connected to a [4fe4s] ferredoxin-like unit via a cys-thiol bridge. an important feature of the h-cluster is that ...	2009	19639134
desulfocurvus vexinensis gen. nov., sp. nov., a sulfate-reducing bacterium isolated from a deep subsurface aquifer.	a novel anaerobic, chemo-organotrophic bacterium, designated vns36(t), was isolated from a well that collected water from a deep saline aquifer used for underground gas storage at a depth of 830 m in the paris basin, france. cells were curved motile rods or vibrios (3.0-5.0x0.5 microm). strain vns36(t) grew at temperatures between 20 and 50 degrees c (optimum 37 degrees c) and at ph values between 5.0 and 9.0 (optimum 6.9). it did not require salt for growth, but tolerated up to 20 g nacl l(-1) ...	2009	19643880
hydrogenase cluster biosynthesis: organometallic chemistry nature's way.	it has been over a decade now since it was revealed that the metal containing active sites of hydrogenases possess carbonyl and cyanide ligands bound to iron. the presence of these ligands in hydrogenases came as a surprise and to-date these ligands have not been observed to be associated with any other enzymatic metallocenter. the elucidation of the structures of these unique metalloenzymes and their associated metal clusters created opportunity for a number of different lines of research. for ...	2009	19662302
critical aspects of [nife]hydrogenase ligand composition.	structural analysis of the resting state of [nife]hydrogenase ([nife]h(2)ase) shows that the active site has a characteristic bis(mu-thiolato)nife unit, where the ni atom and the fe atom are bridged by an undetermined oxygen-bearing ligand. this ligand probably derives from the aqueous solvent and is therefore most likely to be h(2)o, oh(-) or o(2-). here, we compare the reactivities of a nife and a niru complex when bearing either acetonitrile or aqueous ligands and demonstrate the critical rol ...	2009	19662307
[effect of nickel ions on physiological and corrosion activity of bacteria of sulfur cycle].	the paper deals with the effect of nickel ions concentration in nutrient medium on sulfate-reducing bacteria desulfovibrio desulfuricans 10-v (srb) and their artificial corrosion-active associations which included thionic bacteria and their satellite stenotrophomonas maltophilia. it is shown that the concentration of nickel in the nutrient medium being increased, the duration of lag-phase of srb growth became 2-2.5 times less, and that of artificial associations--3-3.5 times less. the specific g ...	2009	19663327
conformational selection or induced fit: a flux description of reaction mechanism.	the mechanism of ligand binding coupled to conformational changes in macromolecules has recently attracted considerable interest. the 2 limiting cases are the "induced fit" mechanism (binding first) or "conformational selection" (conformational change first). described here are the criteria by which the sequence of events can be determined quantitatively. the relative importance of the 2 pathways is determined not by comparing rate constants (a common misconception) but instead by comparing the ...	2009	19666553
whole genome sequence of desulfovibrio magneticus strain rs-1 revealed common gene clusters in magnetotactic bacteria.	magnetotactic bacteria are ubiquitous microorganisms that synthesize intracellular magnetite particles (magnetosomes) by accumulating fe ions from aquatic environments. recent molecular studies, including comprehensive proteomic, transcriptomic, and genomic analyses, have considerably improved our hypotheses of the magnetosome-formation mechanism. however, most of these studies have been conducted using pure-cultured bacterial strains of alpha-proteobacteria. here, we report the whole-genome seq ...	2009	19675025
molecular dynamics at constant ph and reduction potential: application to cytochrome c(3).	here we present a new implementation and extension of the stochastic titration method which makes it possible to perform md simulations at constant ph and reduction potential. the method was applied to the redox titration of cytochrome c(3) from desulfovibrio vulgaris hildenborough, and a major finding of this study was that the method showed a better performance when the protein region is assigned a high dielectric constant. this dependence on the value of the protein dielectric constant was no ...	2009	19685871
isolation and characterization of a new cu-fe protein from desulfovibrio aminophilus dsm12254.	the isolation and characterization of a new metalloprotein containing cu and fe atoms is reported. the as-isolated cu-fe protein shows an uv-visible spectrum with absorption bands at 320 nm, 409 nm and 615 nm. molecular mass of the native protein along with denaturating electrophoresis and mass spectrometry data show that this protein is a multimer consisting of 14+/-1 subunits of 15254.3+/-7.6 da. mössbauer spectroscopy data of the as-isolated cu-fe protein is consistent with the presence of [2 ...	2009	19699535
versatility of a new bioinorganic catalyst: palladized cells of desulfovibrio desulfuricans and application to dehalogenation of flame retardant materials.	the versatility and reaction specificity of a novel bioinorganic catalyst is demonstrated in various reactions. palladized cells (biopd) of the sulphate-reducing bacterium desulfovibrio desulfuricans showed an increased product selectivity and a catalytic activity comparable to a commercial pd catalyst in several industrially relevant hydrogenations and hydrogenolyses (reductive dehalogenations). the ability of palladized cells to promote the reductive debromination of a polybrominated diphenyl ...	2009	19705605
structure analysis of the flavoredoxin from desulfovibrio vulgaris miyazaki f reveals key residues that discriminate the functions and properties of the flavin reductase family.	the crystal structure of flavoredoxin from desulfovibrio vulgaris miyazaki f was determined at 1.05 a resolution and its ferric reductase activity was examined. the aim was to elucidate whether flavoredoxin has structural similarity to ferric reductase and ferric reductase activity, based on the sequence similarity to ferric reductase from archaeoglobus fulgidus. as expected, flavoredoxin shared a common overall structure with a. fulgidus ferric reductase and displayed weak ferric reductase and ...	2009	19708087
desulfovibrio idahonensis sp. nov., sulfate-reducing bacteria isolated from a metal(loid)-contaminated freshwater sediment.	two novel sulfate-reducing bacteria, strains cy1t and cy2, were isolated from heavy-metal-contaminated sediments of lake coeur d'alene, idaho, usa. strains cy1t and cy2 were found to contain c-type cytochromes and to reduce sulfate, sulfite, thiosulfate, elemental sulfur, dmso, anthraquinone disulfonate and fumarate using lactate as an electron donor. in a comparison of 16s rrna gene sequences, cy1t and cy2 were found to be 100% identical, but only 97 and 92.4% similar, respectively, to the type ...	2009	19605721
probing intermediates in the activation cycle of [nife] hydrogenase by infrared spectroscopy: the ni-sir state and its light sensitivity.	the [nife] hydrogenase from the sulphate-reducing bacterium desulfovibrio vulgaris miyazaki f is reversibly inhibited in the presence of molecular oxygen. a key intermediate in the reactivation process, ni-si(r), provides the link between fully oxidized (ni-a, ni-b) and active (ni-si(a), ni-c and ni-r) forms of hydrogenase. in this work ni-si(r) was found to be light-sensitive (t <or= 110 k), similar to the active ni-c and the co-inhibited states. transition to the final photoproduct state (ni-s ...	2009	19626348
epr studies of the mo-enzyme aldehyde oxidoreductase from desulfovibrio gigas: an application of the bloch-wangsness-redfield theory to a system containing weakly-coupled paramagnetic redox centers with different relaxation rates.	electron transfer proteins and redox enzymes containing paramagnetic redox centers with different relaxation rates are widespread in nature. despite both the long distances and chemical paths connecting these centers, they can present weak magnetic couplings produced by spin-spin interactions such as dipolar and isotropic exchange. we present here a theoretical model based on the bloch-wangsness-redfield theory to analyze the dependence with temperature of epr spectra of interacting pairs of spi ...	2009	19628281
immobilization of the hyperthermophilic hydrogenase from aquifex aeolicus bacterium onto gold and carbon nanotube electrodes for efficient h2 oxidation.	the electrochemistry of membrane-bound [nife] hydrogenase i ([nife]-hase i) from the hyperthermophilic bacterium aquifex aeolicus was investigated at gold and graphite electrodes. direct and mediated h(2) oxidation were proved to be efficient in a temperature range of 25-70 degrees c, describing a potential window for h(2) oxidation similar to that of o(2)-tolerant hydrogenases. search for enhancement of current densities and enzyme stability was achieved by the use of carbon nanotube coatings. ...	2009	19629542
characterization of pnc1, a small and mobilizable plasmid for use in genetic manipulation of desulfovibrio africanus.	to develop a vector system that facilitates genetic manipulation in desulfovibrio species, we screened native sulfate-reducing bacteria for small plasmids. a self-replicating plasmid was discovered in desulfovibrio africanus sr-1. sequence analysis of this 8568-bp plasmid (pnc1) revealed a g+c content of 47.2% and nine open reading frames. this plasmid has a copy number of six. compatible hosts include d. africanus and pseudomonas aeruginosa pa14. genetic characterization of pnc1 revealed that 5 ...	2009	19631701
characterization by culture and molecular analysis of the microbial diversity of a deep subsurface gas storage aquifer.	the bacterial diversity of a subsurface water sample collected from a gas storage aquifer in an upper jurassic calcareous formation was investigated by culture of microorganisms and construction of a 16s rrna gene library. both culture and molecular techniques showed that members of the phyla firmicutes and class delta-proteobacteria dominated the bacterial community. the presence of hydrogen-utilizing autotrophic bacteria including sulfate reducers (e.g. desulfovibrio aespoeensis) and homoaceto ...	2009	19056488
a genomic island of the sulfate-reducing bacterium desulfovibrio vulgaris hildenborough promotes survival under stress conditions while decreasing the efficiency of anaerobic growth.	a 47 kb genomic island (gei) bracketed by 50 bp direct repeats, containing 52 annotated genes, was found to delete spontaneously from the genome of desulfovibrio vulgaris hildenborough. the island contains genes for site-specific recombinases and transposases, rubredoxin:oxygen oxidoreductase-1 (roo1) and hybrid cluster protein-1 (hcp1), which promote survival in air and nitrite stress. the numbering distinguishes these from the roo2 and hcp2 homologues for which the genes are located elsewhere ...	2009	19077010
small molecule mimics of hydrogenases: hydrides and redox.	this tutorial review is aimed at chemical scientists interested in understanding and exploiting the remarkable catalytic behavior of the hydrogenases. the key structural features are analyzed for the active sites of the two most important hydrogenases. reactivity is emphasized, focusing on mechanism and catalysis. through this analysis, gaps are identified in the synthesis of functional replicas of these fascinating and potentially useful enzymes.	2009	19088969
redox properties and crystal structures of a desulfovibrio vulgaris flavodoxin mutant in the monomeric and homodimeric forms.	the mutant s64c of the short-chain flavodoxin from desulfovibrio vulgaris has been designed to introduce an accessible and reactive group on the protein surface. crystals have been obtained of both the monomeric and homodimeric forms of the protein, with the cofactor fmn in either the oxidized or the one electron-reduced (semiquinone) state, and the structures have been determined to high resolution. the redox properties of the different species have been investigated and the variations observed ...	2009	19118653
desulfovibrio portus sp. nov., a novel sulfate-reducing bacterium in the class deltaproteobacteria isolated from an estuarine sediment.	a strictly anaerobic, mesophilic, sulfate-reducing bacterial strain (msl79t) isolated from an estuarine sediment in the sea of japan of the japanese islands was characterized phenotypically and phylogenetically. cells were gram-negative, motile with a polar flagellum, non-spore-forming, curved rods. cells had desulfoviridin and c-type cytochrome. catalase and oxidase activities were not detected. the optimum nacl concentration for growth was 2.0% (wt/vol). the optimum temperature was 35 degrees ...	2009	19436129
integrative analysis of transcriptomic and proteomic data of desulfovibrio vulgaris: a non-linear model to predict abundance of undetected proteins.	gene expression profiling technologies can generally produce mrna abundance data for all genes in a genome. a dearth of proteomic data persists because identification range and sensitivity of proteomic measurements lag behind those of transcriptomic measurements. using partial proteomic data, it is likely that integrative transcriptomic and proteomic analysis may introduce significant bias. developing methodologies to accurately estimate missing proteomic data will allow better integration of tr ...	2009	19447782
[nitrate reductase activity of desulfovibrio vulgaris bkm 1388].		2009	19449731
kinetic, structural, and epr studies reveal that aldehyde oxidoreductase from desulfovibrio gigas does not need a sulfido ligand for catalysis and give evidence for a direct mo-c interaction in a biological system.	aldehyde oxidoreductase from desulfovibrio gigas (dgaor) is a member of the xanthine oxidase (xo) family of mononuclear mo-enzymes that catalyzes the oxidation of aldehydes to carboxylic acids. the molybdenum site in the enzymes of the xo family shows a distorted square pyramidal geometry in which two ligands, a hydroxyl/water molecule (the catalytic labile site) and a sulfido ligand, have been shown to be essential for catalysis. we report here steady-state kinetic studies of dgaor with the inh ...	2009	19459677
pseudosymmetry, high copy number and twinning complicate the structure determination of desulfovibrio desulfuricans (atcc 29577) flavodoxin.	the crystal structure of oxidized flavodoxin from desulfovibrio desulfuricans (atcc 29577) was determined by molecular replacement in two crystal forms, p3(1)21 and p4(3), at 2.5 and 2.0 a resolution, respectively. structure determination in space group p3(1)21 was challenging owing to the presence of pseudo-translational symmetry and a high copy number in the asymmetric unit (8). initial phasing attempts in space group p3(1)21 by molecular replacement using a poor search model (46% identity) an ...	2009	19465766
interstrain diversity of 2-keto-3-deoxyoctonate content in lipopolysaccharides of desulfovibrio desulfuricans.	bacteria of desulfovibrio desulfuricans species are gram-negative, anaerobic rods selectively reducing sulphates and colonizing oxygen-free ecosystems. they are ubiquitous in the natural environment and have been also found to reside in the human digestive tract. they are suggested to be involved in the pathogenesis ofulcerative colitis and crohn's disease. the d. desulfuricans wild strains were isolated from feces and bioptate of patients suffering from various digestive tract disorders. lpss w ...	2009	19469282
thioredoxin is involved in u(vi) and cr(vi) reduction in desulfovibrio desulfuricans g20.	a transposon insertion mutant has been identified in a desulfovibrio desulfuricans g20 mutant library that does not grow in the presence of 2 mm u(vi) in lactate-sulfate medium. this mutant has also been shown to be deficient in the ability to grow with 100 microm cr(vi) and 20 mm as(v). experiments with washed cells showed that this mutant had lost the ability to reduce u(vi) or cr(vi), providing an explanation for the lower tolerance. a gene encoding a cyclic amp (camp) receptor protein (crp) ...	2009	19482922
density functional theory study of model complexes for the revised nitrate reductase active site in desulfovibrio desulfuricans napa.	[mo(ssch3)(s2c2(ch3)2)2](x) complexes with charges x between -3 and +3 were investigated by density functional theory computations as minimal nitrate reductase active-site models. the strongly reduced species (x = -2, -3) exist preferentially as pentacoordinate sulfo complexes separated from a thiolate anion. the oxidized extremes (x > 0) clearly prefer hexacoordinate complexes with an eta(2)-mess ligand. among the neutral and especially for the singly negatively charged species structures with ...	2009	19484273
effect of 2,4-dinitrotoluene on the anaerobic bacterial community in marine sediment.	to study the impact of added 2,4-dinitrotoluene (dnt) on the anaerobic bacterial community in marine sediment collected from an unexploded ordnance dumping site in halifax harbour.	2009	19486208
culture-independent analysis of desulfovibrios in the human distal colon of healthy, colorectal cancer and polypectomized individuals.	the production of hydrogen sulphide, an end product of metabolism by the sulphate-reducing bacteria (srb) has been cited as a potential aetiological agent in gastrointestinal disease. quantitative pcr (q-pcr) assays to enumerate desulfovibrios from two gastrointestinal disease groups: colorectal cancer (crc) n=27 and polypectomized individuals (pp) n=27, and two healthy control groups, elderly (h1) n=8 and young adults (h2) n=30 was performed. analysis of desulfovibrio sp. diversity using the di ...	2009	19496818
bacteriophage lytic to desulfovibrio aespoeensis isolated from deep groundwater.	viruses were earlier found to be 10-fold more abundant than prokaryotes in deep granitic groundwater at the aspö hard rock laboratory (hrl). using a most probable number (mpn) method, 8-30 000 cells of sulphate-reducing bacteria per ml were found in groundwater from seven boreholes at the aspö hrl. the content of lytic phages infecting the indigenous bacterium desulfovibrio aespoeensis in aspö groundwater was analysed using the mpn technique for phages. in four of 10 boreholes, 0.2-80 phages per ...	2009	19516280
identification and phylogenetic analysis of new sulfate-reducing bacteria isolated from oilfield samples.	microbiologically influenced corrosion (mic) caused by sulfate-reducing bacteria (srb) has been investigated in an oilfield injection water system. strain cw-01 was isolated from an oilfield and strain cw-04 was isolated from biofilm dirt of pipeline walls. the strains were facultative anaerobes, non-motile, gram-positive, pole flagellum, and spore-forming curved rods. the growth was observed over the temperature range 20-70 degrees c. strain cw-01 grew optimally at 37 degrees c. the ph range fo ...	2009	19526722
stable isotope fractionation of gamma-hexachlorocyclohexane (lindane) during reductive dechlorination by two strains of sulfate-reducing bacteria.	carbon isotope fractionation factors were determined with the dichloro elimination of gamma-hexachlorocyclohexane (gamma-hch) by the sulfate-reducing bacteria desulfococcus multivorans dsm 2059 and desulfovibrio gigas dsm 1382. both strains are known for cometabolic hch dechlorination. degradation experiments with gamma-hch in concentrations of 22-25 gammam were carried out using benzoate (for d. multivorans) and lactate (for d. gigas) as electron donors, respectively. gamma-hch was dechlorinate ...	2009	19534128
real-time molecular monitoring of chemical environment in obligate anaerobes during oxygen adaptive response.	determining the transient chemical properties of the intracellular environment can elucidate the paths through which a biological system adapts to changes in its environment, for example, the mechanisms that enable some obligate anaerobic bacteria to survive a sudden exposure to oxygen. here we used high-resolution fourier transform infrared (ftir) spectromicroscopy to continuously follow cellular chemistry within living obligate anaerobes by monitoring hydrogen bond structures in their cellular ...	2009	19541631
crystallization and crystallographic analysis of the apo form of the orange protein (orp) from desulfovibrio gigas.	the orange-coloured protein (orp) from desulfovibrio gigas is a 12 kda protein that contains a novel mixed-metal sulfide cluster of the type [s(2)mos(2)cus(2)mos(2)]. diffracting crystals of the apo form of orp have been obtained. data have been collected for the apo form of orp to 2.25 a resolution in-house and to beyond 2.0 a resolution at esrf, grenoble. the crystals belonged to a trigonal space group, with unit-cell parameters a = 43, b = 43, c = 106 a.	2009	19574652
proteomic analysis of irregular, bullet-shaped magnetosomes in the sulphate-reducing magnetotactic bacterium desulfovibrio magneticus rs-1.	recent molecular studies on magnetotactic bacteria have identified a number of proteins associated with bacterial magnetites (magnetosomes) and elucidated their importance in magnetite biomineralisation. however, these analyses were limited to magnetotactic bacterial strains belonging to the alpha-subclass of proteobacteria. we performed a proteomic analysis of magnetosome membrane proteins in desulfovibrio magneticus strain rs-1, which is phylogenetically classified as a member of the delta-pro ...	2009	19579222
the electron transfer system of syntrophically grown desulfovibrio vulgaris.	interspecies hydrogen transfer between organisms producing and consuming hydrogen promotes the decomposition of organic matter in most anoxic environments. although syntrophic coupling between hydrogen producers and consumers is a major feature of the carbon cycle, mechanisms for energy recovery at the extremely low free energies of reactions typical of these anaerobic communities have not been established. in this study, comparative transcriptional analysis of a model sulfate-reducing microbe, ...	2009	19581361
reduction of molybdate by sulfate-reducing bacteria.	molybdate is an essential trace element required by biological systems including the anaerobic sulfate-reducing bacteria (srb); however, detrimental consequences may occur if molybdate is present in high concentrations in the environment. while molybdate is a structural analog of sulfate and inhibits sulfate respiration of srb, little information is available concerning the effect of molybdate on pure cultures. we followed the growth of desulfovibrio gigas atcc 19364, desulfovibrio vulgaris hild ...	2009	19130259
characterization and activity studies of highly heavy metal resistant sulphate-reducing bacteria to be used in acid mine drainage decontamination.	biological treatment with sulphate-reducing bacteria (srb) has been considered as the most promising alternative for acid mine drainage (amd) decontamination. normally, these wastewaters contain high concentrations of sulphate and heavy metals, so the search for srb highly resistant to metals is extremely important for the development of a bioremediation technology. a srb consortium resistant to high concentrations of heavy metals (fe, cu and zn), similar to those typically present in amd, was o ...	2009	19135795
biological sulphate reduction using food industry wastes as carbon sources.	biological treatment with dissimilatory sulphate-reducing bacteria has been considered the most promising alternative for decontamination of sulphate rich effluents. these wastewaters are usually deficient in electron donors and require their external addition to achieve complete sulphate reduction. the aim of the present study was to investigate the possibility of using food industry wastes (a waste from the wine industry and cheese whey) as carbon sources for dissimilatory sulphate-reducing ba ...	2009	19137404
an autocatalytic mechanism for nife-hydrogenase: reduction to ni(i) followed by oxidative addition.	the mechanism for h(2) cleavage in nife-hydrogenase has been reinvestigated with large models using both hybrid dft by itself, or in a qm/mm scheme following the oniom approach. heterolytic cleavage, with one hydrogen ending up as a bridging hydride and one as a proton on a cysteine ligand, was found to have a barrier slightly too high to be compatible with measured catalytic turnover rates. alternative mechanisms were therefore investigated. in the finally suggested mechanism, heterolytic cleav ...	2009	19138102
molybdenum induces the expression of a protein containing a new heterometallic mo-fe cluster in desulfovibrio alaskensis.	the characterization of a novel mo-fe protein (morp) associated with a system that responds to mo in desulfovibrio alaskensis is reported. biochemical characterization shows that morp is a periplasmic homomultimer of high molecular weight (260 +/- 13 kda) consisting of 16-18 monomers of 15321.1 +/- 0.5 da. the uv/visible absorption spectrum of the as-isolated protein shows absorption peaks around 280, 320, and 570 nm with extinction coefficients of 18700, 12800, and 5000 m(-1) cm(-1), respective ...	2009	19138103
cloning and expression of the mutm gene from obligate anaerobic bacterium desulfovibrio vulgaris (miyazaki f).	the gene encoding a mutm from desulfovibrio vulgaris (miyazaki f) was cloned and expressed in escherichia coli. a 5.9-kb dna fragment, isolated from d. vulgaris (miyazaki f) by xhoi and pvuii, contained a mutm gene and other open reading frames. the nucleotide sequence of the mutm gene indicated that the protein was composed of 336 amino acids. the amino-acid sequence deduced from the mutm gene was highly homologous with the mutm of other bacteria; however an additional insert consisted of 64 am ...	2009	19151100
improvements of reliability for methylmercury determination in environmental samples.	the determination of methylmercury (mehg) in environmental samples by ethylation derivation-gas chromatography-atomic fluorescence spectrometry (ed-gc-afs) is associated with an intimate problem of water moisture accumulation introduced in the ethylation step, which enters the detection system and cause a spectroscopic interference. with a simple modification on the gc-afs system, this problem was eliminated and the analytical quality of the measurements was significantly improved. the presence ...	2009	19166718
macromolecular crowding modulates folding mechanism of alpha/beta protein apoflavodoxin.	protein dynamics in cells may be different from those in dilute solutions in vitro, because the environment in cells is highly concentrated with other macromolecules. this volume exclusion because of macromolecular crowding is predicted to affect both equilibrium and kinetic processes involving protein conformational changes. to quantify macromolecular crowding effects on protein folding mechanisms, we investigated the folding energy landscape of an alpha/beta protein, apoflavodoxin, in the pres ...	2009	19167312
grafting of antibacterial polymers on stainless steel via surface-initiated atom transfer radical polymerization for inhibiting biocorrosion by desulfovibrio desulfuricans.	to enhance the biocorrosion resistance of stainless steel (ss) and to impart its surface with bactericidal function for inhibiting bacterial adhesion and biofilm formation, well-defined functional polymer brushes were grafted via surface-initiated atom transfer radical polymerization (atrp) from ss substrates. the trichlorosilane coupling agent, containing the alkyl halide atrp initiator, was first immobilized on the hydroxylated ss (ss-oh) substrates for surface-initiated atrp of (2-dimethylami ...	2009	19170239
candidatus desulfovibrio trichonymphae, a novel intracellular symbiont of the flagellate trichonympha agilis in termite gut.	rs-n31, a 16s rrna phylotype affiliated with the genus desulfovibrio, has frequently been detected from the gut of the wood-feeding termite reticulitermes speratus. in this study, we designed a probe specifically targeting phylotype rs-n31 and performed fluorescence in situ hybridization to identify the corresponding cells. the signals were detected exclusively inside the cells of the flagellate trichonympha agilis, which simultaneously harbours another intracellular bacterium belonging to the c ...	2009	19170725
genome sequence of desulfobacterium autotrophicum hrm2, a marine sulfate reducer oxidizing organic carbon completely to carbon dioxide.	sulfate-reducing bacteria (srb) belonging to the metabolically versatile desulfobacteriaceae are abundant in marine sediments and contribute to the global carbon cycle by complete oxidation of organic compounds. desulfobacterium autotrophicum hrm2 is the first member of this ecophysiologically important group with a now available genome sequence. with 5.6 megabasepairs (mbp) the genome of db. autotrophicum hrm2 is about 2 mbp larger than the sequenced genomes of other sulfate reducers (srb). a h ...	2009	19187283
desulfovibrio paquesii sp. nov., a hydrogenotrophic sulfate-reducing bacterium isolated from a synthesis-gas-fed bioreactor treating zinc- and sulfate-rich wastewater.	a hydrogenotrophic, sulfate-reducing bacterium, designated strain sb1(t), was isolated from sulfidogenic sludge of a full-scale synthesis-gas-fed bioreactor used to remediate wastewater from a zinc smelter. strain sb1(t) was found to be an abundant micro-organism in the sludge at the time of isolation. hydrogen, formate, pyruvate, lactate, malate, fumarate, succinate, ethanol and glycerol served as electron donors for sulfate reduction. organic substrates were incompletely oxidized to acetate. 1 ...	2009	19196759
effect of no2(-) on stable isotope fractionation during bacterial sulfate reduction.	the effects of low no2(-) concentrations on stable isotope fractionation during dissimilatory sulfate reduction by strain desulfovibrio desulfuricans were investigated. nitrite, formed as an intermediate during nitrification and denitrification processes in marine and freshwater habitats, inhibits the reduction of the sulfuroxy intermediate so3(2-) to h2s even at low concentrations. to gain an understanding of the inhibition effect of the reduction of the sulfuroxy intermediate on stable isotope ...	2009	19209588
hopanoid production by desulfovibrio bastinii isolated from oilfield formation water.	hopanoids are important lipid components of many bacterial groups and are therefore ubiquitous in soils, sediments, and rocks. until recently, it was believed that the synthesis of hopanoids is restricted to at least microaerophilic bacteria and consequently geological findings of hopanoids were used as an indication for oxygenated settings. recent studies, however, demonstrated the biosynthesis of hopanoids under strictly anoxic conditions by a few bacterial groups, although their relevance is ...	2009	19222571
infection after elective colorectal surgery: bacteriological analysis of failures in a randomized trial of cefotetan vs. ertapenem prophylaxis.	a randomized study comparing single-dose cefotetan and ertapenem prophylaxis for elective colorectal surgery in 1,002 patients found ertapenem to be significantly more effective (p < 0.001). failures of prophylaxis were thought to involve organisms resistant to both antimicrobial agents, isolated most often from deep or superficial incision sites.	2009	19226203
a molybdopterin oxidoreductase is involved in h2 oxidation in desulfovibrio desulfuricans g20.	three mutants deficient in hydrogen/formate uptake were obtained through screening of a transposon mutant library containing 5,760 mutants of desulfovibrio desulfuricans g20. mutations were in the genes encoding the type i tetraheme cytochrome c(3) (cyca), fe hydrogenase (hydb), and molybdopterin oxidoreductase (mopb). mutations did not decrease the ability of cells to produce h(2) or formate during growth. complementation of the cyca and mopb mutants with a plasmid carrying the intact cyca and/ ...	2009	19233927
a thermostable hybrid cluster protein from pyrococcus furiosus: effects of the loss of a three helix bundle subdomain.	pyrococcus furiosus hybrid cluster protein (hcp) was expressed in escherichia coli, purified, and characterized. this is the first archaeal and thermostable hcp to be isolated. compared with the protein sequences of previously characterized hcps from mesophiles, the protein sequence of p. furiosus hcp exhibits a deletion of approximately 13 kda as a single amino acid stretch just after the n-terminal cysteine motif, characteristic for class-iii hcps from (hyper)thermophilic archaea and bacteria. ...	2009	19241093
functional characterization of the early steps of tetrapyrrole biosynthesis and modification in desulfovibrio vulgaris hildenborough.	the biosynthesis of the tetrapyrrole framework has been investigated in the sulfate-reducing bacterium desulfovibrio vulgaris hildenborough by characterization of the enzymes required for the transformation of aminolaevulinic acid into sirohydrochlorin. pbg (porphobilinogen) synthase (hemb) was found to be a zinc-dependent enzyme that exists in its native state as a homohexamer. pbg deaminase (hemc) was shown to contain the dipyrromethane cofactor. uroporphyrinogen iii synthase is found fused wi ...	2009	19267692
anaerobic degradation of landfill leachate using an upflow anaerobic fixed-bed reactor with microbial sulfate reduction.	this study evaluated the anaerobic degradation of landfill leachate and sulfate reduction as a function of cod/(so(4)(2-)) ratio in an upflow anaerobic fixed-bed reactor. the reactor, which was inoculated with a mixed consortium, was operated under a constant hydraulic retention time (hrt) of 5 days. we investigated the effect of cod/(so(4)(2-)) ratio variation on the sulfate reduction efficiency, hydrogen sulfide production, chemical oxygen demand (cod) removal, conductivity, and ph variation. ...	2009	19272702
expression profiling of hypothetical genes in desulfovibrio vulgaris leads to improved functional annotation.	hypothetical (hyp) and conserved hyp genes account for >30% of sequenced bacterial genomes. for the sulfate-reducing bacterium desulfovibrio vulgaris hildenborough, 347 of the 3634 genes were annotated as conserved hyp (9.5%) along with 887 hyp genes (24.4%). given the large fraction of the genome, it is plausible that some of these genes serve critical cellular roles. the study goals were to determine which genes were expressed and provide a more functionally based annotation. to accomplish thi ...	2009	19293273
population dynamics of a single-stage sulfidogenic bioreactor treating synthetic zinc-containing waste streams.	waste streams from industrial processes such as metal smelting or mining contain high concentrations of sulfate and metals with low ph. dissimilatory sulfate reduction carried out by sulfate-reducing bacteria (srb) at low ph can combine sulfate reduction with metal-sulfide precipitation and thus open possibilities for selective metal recovery. this study investigates the microbial diversity and population changes of a single-stage sulfidogenic gas-lift bioreactor treating synthetic zinc-rich was ...	2009	19322604
dioxygen and nitric oxide pathways and affinity to the catalytic site of rubredoxin:oxygen oxidoreductase from desulfovibrio gigas.	rubredoxin:oxygen oxidoreductase (roo) is the terminal oxidase of a soluble electron transfer chain found in desulfovibrio gigas. this protein belongs to the flavodiiron family and was initially described as an oxygen reductase, converting this substrate to water and acting as an oxygen-detoxifying system. however, more recent studies evidenced also the ability for this protein to act as a nitric oxide reductase, suggesting an alternative physiological role. to clarify the apparent bifunctional ...	2009	19337761
characterisation of the electron transfer and complex formation between flavodoxin from d. vulgaris and the haem domain of cytochrome p450 bm3 from b. megaterium.	investigation of the complex formation and electron transfer kinetics between p450 bmp and flavodoxin was carried out following the suggested involvement of flavodoxin in modulating the electron transfer to bmp in artificial redox chains bound to an electrode surface. while electron transfer measurements show the formation of a tightly bound complex, the nmr data indicate the formation of shortly lived complexes. the measured k(obs) ranged from 24.2 s(-1) to 44.1 s(-1) with k(on) ranging from 0. ...	2009	19366612
a professional and personal odyssey.		2009	19398561
desulfovibrio marrakechensis sp. nov., a 1,4-tyrosol-oxidizing, sulfate-reducing bacterium isolated from olive mill wastewater.	a novel mesophilic sulfate-reducing bacterium, emssdq(4)(t), was isolated from olive mill wastewater in the semi-arid region of morocco (marrakech). cells were gram-negative, catalase-positive, straight rods that were non-motile and non-spore-forming and contained cytochrome c(3) and desulfoviridin. the dna g+c content was 65.1 mol%. phylogenetic analysis based on 16s rrna gene sequences revealed that the isolate was a member of the genus desulfovibrio with desulfovibrio carbinoliphilus d41(t), ...	2009	19406771
desulfovibrio tunisiensis sp. nov., a novel weakly halotolerant, sulfate-reducing bacterium isolated from exhaust water of a tunisian oil refinery.	a novel weakly halotolerant, sulfate-reducing bacterium, designated strain rb22(t), was isolated from exhaust water of a tunisian oil refinery. cells of strain rb22(t) were gram-negative, motile, vibrio-shaped or sigmoid and non-spore-forming, and occurred singly or in chains. strain rb22(t) grew between 15 and 45 degrees c (optimum, 37 degrees c) and at ph 4.5 to 9 (optimum, ph 7). nacl was not required for growth, but the strain tolerated high nacl concentrations (up to 70 g l(-1)) with an opt ...	2009	19406793
effect of oxidized leachate on degradation of lignin by sulfate-reducing bacteria.	municipal solid waste materials (msws) in landfills need a long period of stabilization because lignin compounds in msws and leachate are not readily biodegraded, but inhibit methanogenic metabolism. recirculation of leachate into the landfill offers the potential advantage of increasing the rate of decomposition of organic matter. however, the degradation of lignin by leachate recirculation alone is quite difficult. several recent studies have demonstrated that sulfate-reducing bacteria (srb) w ...	2009	19423591
biochemistry, physiology and biotechnology of sulfate-reducing bacteria.	chemolithotrophic bacteria that use sulfate as terminal electron acceptor (sulfate-reducing bacteria) constitute a unique physiological group of microorganisms that couple anaerobic electron transport to atp synthesis. these bacteria (220 species of 60 genera) can use a large variety of compounds as electron donors and to mediate electron flow they have a vast array of proteins with redox active metal groups. this chapter deals with the distribution in the environment and the major physiological ...	2009	19426853
cosubstrate independent mineralization of hexahydro-1,3,5-trinitro-1,3,5-triazine (rdx) by a desulfovibrio species under anaerobic conditions.	past handling practices associated with the manufacturing and processing of the high explosive hexahydro-1,3,5-trinitro-1,3,5-triazine (rdx) has resulted in extensive environmental contamination. in-situ biodegradation is a promising technology for remediating rdx contaminated sites but often relies on the addition of a cosubstrate. a sulfate-reducing bacterium isolated from an rdx-degrading enrichment culture was studied for its ability to grow on rdx as a sole source of carbon and nitrogen and ...	2009	18459059
performance of an anaerobic bioreactor with biomass recycling, continuously removing cod and sulphate from industrial wastes.	a 30-l anaerobic bioreactor with biomass recycling was used to provide a continuous reduction in sulphate and a continuous cod removal from wastewater, which consisted of the effluent from an industrial pig fattening farm, enriched with technical feso(4) x 7h(2)o, a waste product from ferrous metallurgy. the concentrations of sulphate and cod in the wastewater amounted to 2.73 g l(-1) and 3.15 g l(-1), respectively. the hrt (hydraulic retention time) of 10-1.7d produced an extent of sulphate and ...	2009	18650086
comparative fe and zn k-edge x-ray absorption spectroscopic study of the ferroxidase centres of human h-chain ferritin and bacterioferritin from desulfovibrio desulfuricans.	iron uptake by the ubiquitous iron-storage protein ferritin involves the oxidation of two fe(ii) ions located at the highly conserved dinuclear "ferroxidase centre" in individual subunits. we have measured x-ray absorption spectra of four mutants (k86q, k86q/e27d, k86q/e107d, and k86q/e27d/e107d, involving variations of glu to asp on either or both sides of the dinuclear ferroxidase site) of recombinant human h-chain ferritin (rhuhf) in their complexes with reactive fe(ii) and redox-inactive zn( ...	2009	18766385
a novel nitrite biosensor based on conductometric electrode modified with cytochrome c nitrite reductase composite membrane.	a conductometric biosensor for nitrite detection was developed using cytochrome c nitrite reductase (ccnir) extracted from desulfovibrio desulfuricans atcc 27774 cells immobilized on a planar interdigitated electrode by cross-linking with saturated glutaraldehyde (ga) vapour in the presence of bovine serum albumin, methyl viologen (mv), nafion, and glycerol. the configuration parameters for this biosensor, including the enzyme concentration, ccnir/bsa ratio, mv concentration, and nafion concentr ...	2009	18804367
biotransformation of 2,4,6-trinitrotoluene by pure culture ruminal bacteria.	twenty-one ruminal bacteria species were tested for their ability to degrade 2,4,6-trinitrotoluene (tnt) within 24 h. butyrivibrio fibrisolvens, fibrobacter succinogenes, lactobacillus vitulinus, selenomonas ruminantium, streptococcus caprinus, and succinivibrio dextrinosolvens were able to completely degrade 100 mg/l tnt, with <5% of the original tnt recovered as diaminonitrotoluene metabolites. eubacterium ruminantium, lactobacillus ruminis, ruminobacter amylophilus, streptococcus bovis, and w ...	2009	18839246
characterization of sulfate-reducing bacteria dominated surface communities during start-up of a down-flow fluidized bed reactor.	an anaerobic down-flow fluidized bed reactor was inoculated with granular sludge and started-up with sulfate containing synthetic wastewater to promote the formation of a biofilm enriched in sulfate-reducing bacteria (srb), to produce biogenic sulfide. the start-up was done in two stages operating the reactor in batch for 45 days followed by 85 days of continuous operation. low-density polyethylene was used as support. the biofilm formation was followed up by biochemical and electron microscopy ...	2009	18853208
spin distribution of the h-cluster in the h(ox)-co state of the [fefe] hydrogenase from desulfovibrio desulfuricans: hyscore and endor study of (14)n and (13)c nuclear interactions.	hydrogenases are enzymes which catalyze the reversible cleavage of molecular hydrogen into protons and electrons. in [fefe] hydrogenases the active center is a 6fe6s cluster, referred to as the "h-cluster." it consists of the redox-active binuclear subcluster ([2fe](h)) coordinated by cn(-) and co ligands and the cubane-like [4fe-4s](h) subcluster which is connected to the protein via cys ligands. one of these cys ligands bridges to the [2fe](h) subcluster. the co-inhibited form of [fefe] hydrog ...	2009	19011912
surface functionalization of cu-ni alloys via grafting of a bactericidal polymer for inhibiting biocorrosion by desulfovibrio desulfuricans in anaerobic seawater.	a novel surface modification technique was developed to provide a copper nickel alloy (m) surface with bactericidal and anticorrosion properties for inhibiting biocorrosion. 4-(chloromethyl)-phenyl tricholorosilane (cts) was first coupled to the hydroxylated alloy surface to form a compact silane layer, as well as to confer the surface with chloromethyl functional groups. the latter allowed the coupling of 4-vinylpyridine (4vp) to generate the m-cts-4vp surface with biocidal functionality. subse ...	2009	19021016
factors affecting the performance of microbial fuel cells for sulfur pollutants removal.	a microbial fuel cell (mfc) has been developed for removal of sulfur-based pollutants and can be used for simultaneous wastewater treatment and electricity generation. this fuel cell uses an activated carbon cloth+carbon fibre veil composite anode, air-breathing dual cathodes and the sulfate-reducing species desulfovibrio desulfuricans. 1.16gdm(-3) sulfite and 0.97gdm(-3) thiosulfate were removed from the wastewater at 22 degrees c, representing sulfite and thiosulfate removal conversions of 91% ...	2009	19022647