Publications

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simultaneous analyses of photoinduced electron transfer in the wild type and four single substitution isomers of the fmn binding protein from desulfovibrio vulgaris, miyazaki f.the mechanism of photoinduced electron transfer (pet) from the aromatic amino acids (trp32, tyr35 and trp106) to the excited flavin mononucleotide (fmn) in the wild type (wt) and four single amino acid substitution isomers (e13t, e13q, w32a and w32y) of fmn binding protein (fbp) from the desulfovibrio vulgaris (miyazaki f) were simultaneously analyzed (method a) with the marcus-hush (mh) theory and kakitani-mataga (km) theory using ultrafast fluorescence dynamics of these proteins. in addition, ...201121347481
enzyme-based amperometric platform to determine the polymorphic response in drug metabolism by cytochromes p450."personalized medicine" is a new concept in health care, one aspect of which defines the specificity and dosage of drugs according to effectiveness and safety for each patient. dosage strongly depends from the rate of metabolism which is primarily regulated by the activity of cytochrome p450. in addition to the need for a genetic characterization of the patients, there is also the necessity to determine the drug-clearance properties of the polymorphic p450 enzyme. to address this issue, human p4 ...201121348440
genome sequence of the mercury-methylating strain desulfovibrio desulfuricans nd132.desulfovibrio desulfuricans strain nd132 is an anaerobic sulfate-reducing bacterium (srb) capable of producing methylmercury (mehg), a potent human neurotoxin. the mechanism of methylation by this and other organisms is unknown. we present the 3.8-mb genome sequence to provide further insight into microbial mercury methylation.201121357488
strategy for microbiome analysis using 16s rrna gene sequence analysis on the illumina sequencing platform.understanding the identity and changes of organisms in the urogenital and other microbiomes of the human body may be key to discovering causes and new treatments of many ailments, such as vaginosis. high-throughput sequencing technologies have recently enabled discovery of the great diversity of the human microbiome. the cost per base of many of these sequencing platforms remains high (thousands of dollars per sample); however, the illumina genome analyzer (iga) is estimated to have a cost per b ...201121361774
oxygen uptake rates in the hyperthermophilic anaerobe thermotoga maritima grown in a bioreactor under controlled oxygen exposure: clues to its defence strategy against oxidative stress.a 2.3-l bioreactor was specially adapted to grow hyperthermophilic microorganisms under controlled conditions of temperature, ph, redox potential and dissolved o(2). using this bioreactor regulated at 80-¦c and ph 7.0, we demonstrated that thermotoga maritima recovered its growth despite being exposed to oxygen for a short time (30-ámin with a maximum concentration of 23-á++m of dissolved oxygen). under these conditions, we demonstrated that o(2) uptake rate, estimated at 73.6-á++moles o(2)-ámin ...201121400100
crystal structure of the zinc-, cobalt-, and iron-containing adenylate kinase from desulfovibrio gigas: a novel metal-containing adenylate kinase from gram-negative bacteria.adenylate kinases (ak) from gram-negative bacteria are generally devoid of metal ions in their lid domain. however, three metal ions, zinc, cobalt, and iron, have been found in ak from gram-negative bacteria. crystal structures of substrate-free ak from desulfovibrio gigas with three different metal ions (zn(2+), zn-ak; co(2+), co-ak; and fe(2+), fe-ak) bound in its lid domain have been determined by x-ray crystallography to resolutions 1.8, 2.0, and 3.0 å, respectively. the zinc and iron forms ...201120821240
formaldehyde--a rapid and reversible inhibitor of hydrogen production by [fefe]-hydrogenases.dihydrogen (h(2)) production by [fefe]-hydrogenases is strongly inhibited by formaldehyde (methanal) in a reaction that is rapid, reversible, and specific to this type of hydrogenase. this discovery, using three [fefe]-hydrogenases that are homologous about the active site but otherwise structurally distinct, was made by protein film electrochemistry, which measures the activity (as electrical current) of enzymes immobilized on an electrode; importantly, the inhibitor can be removed after additi ...201121204519
[desulfovibrio fairfieldensis bacteremia associated with acute sigmoiditis]. 201121208758
a role for microbial palladium nanoparticles in extracellular electron transfer. 201121132820
using gas chromatography/isotope ratio mass spectrometry to determine the fractionation factor for h(2) production by hydrogenases.hydrogenases catalyze the reversible formation of h(2), and they are key enzymes in the biological cycling of h(2). h isotopes have the potential to be a very useful tool in quantifying hydrogen ion trafficking in biological h(2) production processes, but there are several obstacles that have thus far limited the application of this tool. here, we describe a new method that overcomes some of these barriers and is specifically designed to measure isotopic fractionation during enzyme-catalyzed h(2 ...201222215579
microbial community succession during lactate amendment and electron-acceptor limitation reveals a predominance of metal-reducing pelosinus spp.determining the success of in-situ bioremediation strategies is complex. by using controlled laboratory conditions, the influence of individual variables such as u(vi), cr(vi) and electron donor and acceptors on community structure, dynamics, and the metal-reducing potential can be studied. triplicate anaerobic, continuous-flow reactors were inoculated with cr(vi) contaminated groundwater from the hanford, washington 100-h area, amended with lactate and incubated for 95 days to obtain stable, en ...201222267668
Desulfovibrio desulfuricans Bacteremia in an Immunocompromised Host with a Liver Graft and Ulcerative Colitis.Desulfovibrio spp. are anaerobic, sulfate-reducing, nonfermenting, Gram-negative bacteria found in the digestive tract of humans. Identification of these species with conventional methods is difficult. The reported case of a Desulfovibrio desulfuricans bacteremia occurring in an immunocompromised host with ulcerative colitis confirms that this organism may be a possible opportunistic human pathogen.201222075582
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