| molecular oxygen regulates the enzymatic activity of a heme-containing diguanylate cyclase (hemdgc) for the synthesis of cyclic di-gmp. | we have studied the structural and enzymatic properties of a diguanylate cyclase from an obligatory anaerobic bacterium desulfotalea psychrophila, which consists of the n-terminal sensor domain and the c-terminal diguanylate cyclase domain. the sensor domain shows an amino acid sequence homology and spectroscopic properties similar to those of the sensor domains of the globin-coupled sensor proteins containing a protoheme. this heme-containing diguanylate cyclase catalyzes the formation of cycli ... | 2010 | 19818878 |
| construction of a low-temperature protein expression system using a cold-adapted bacterium, shewanella sp. strain ac10, as the host. | a recombinant protein expression system working at low temperatures is expected to be useful for the production of thermolabile proteins. we constructed a low-temperature expression system using an antarctic cold-adapted bacterium, shewanella sp. strain ac10, as the host. we evaluated the promoters for proteins abundantly produced at 4 degrees c in this bacterium to express foreign proteins. we used 27 promoters and a broad-host-range vector, pjrd215, to produce beta-lactamase in shewanella sp. ... | 2007 | 17526788 |
| structural and functional properties of isocitrate dehydrogenase from the psychrophilic bacterium desulfotalea psychrophila reveal a cold-active enzyme with an unusual high thermal stability. | isocitrate dehydrogenase (idh) has been studied extensively due to its central role in the krebs cycle, catalyzing the oxidative nad(p)(+)-dependent decarboxylation of isocitrate to alpha-ketoglutarate and co(2). here, we present the first crystal structure of idh from a psychrophilic bacterium, desulfotalea psychrophila (dpidh). the structural information is combined with a detailed biochemical characterization and a comparative study with idhs from the mesophilic bacterium desulfitobacterium h ... | 2007 | 17632124 |
| characterization of a novel bacterial arginine kinase from desulfotalea psychrophila. | phosphagen kinases are found throughout the animal kingdom and catalyze the transfer of a high-energy gamma phosphoryl-group from atp to a guanidino group on a suitable acceptor molecule such as creatine or arginine. recent genome sequencing efforts in several proteobacteria, including desulfotalea psychrophila lsv54, myxococcus xanthus, sulfurovum sp. nbc37-1, and moritella sp. pe36 have revealed what appears to be a phosphagen kinase homolog present in their genomes. based on sequence comparis ... | 2008 | 18499493 |
| succinate dehydrogenase functioning by a reverse redox loop mechanism and fumarate reductase in sulphate-reducing bacteria. | sulphate- or sulphur-reducing bacteria with known or draft genome sequences (desulfovibrio vulgaris, desulfovibrio desulfuricans g20, desulfobacterium autotrophicum [draft], desulfotalea psychrophila and geobacter sulfurreducens) all contain sdhcab or frdcab gene clusters encoding succinate : quinone oxidoreductases. frdd or sdhd genes are missing. the presence and function of succinate dehydrogenase versus fumarate reductase was studied. desulfovibrio desulfuricans (strain essex 6) grew by fuma ... | 2006 | 16849807 |
| accelerated sulfur cycle in coastal marine sediment beneath areas of intensive shellfish aquaculture. | prokaryotes in marine sediments taken from two neighboring semi-enclosed bays (the yamada and kamaishi bays) at the sanriku coast in japan were investigated by the culture-independent molecular phylogenetic approach coupled with chemical and activity analyses. these two bays were chosen in terms of their similar hydrogeological and chemical characteristics but different usage modes; the yamada bay has been used for intensive shellfish aquaculture, while the kamaishi bay has a commercial port and ... | 2005 | 15932986 |
| desulfopila aestuarii gen. nov., sp. nov., a gram-negative, rod-like, sulfate-reducing bacterium isolated from an estuarine sediment in japan. | a strictly anaerobic, mesophilic, sulfate-reducing bacterial strain (msl86(t)) isolated from an estuarine sediment in the sea of japan (around the japanese islands) was characterized phenotypically and phylogenetically. the cells were found to be gram-negative, motile, non-spore-forming rods. catalase was not detected. the optimum nacl concentration for growth was 1.0 % (w/v) and the optimum temperature was 35 degrees c. strain msl86(t) was slightly alkaliphilic, with optimum growth at ph 7.5-7. ... | 2007 | 17329777 |
| characterizing the native codon usages of a genome: an axis projection approach. | codon usage can provide insights into the nature of the genes in a genome. genes that are "native" to a genome (have not been recently acquired by horizontal transfer) range in codon usage from a low-bias "typical" usage to a more biased "high-expression" usage characteristic of genes encoding abundant proteins. genes that differ from these native codon usages are candidates for foreign genes that have been recently acquired by horizontal gene transfer. in this study, we present a method for cha ... | 2011 | 20679093 |
| analysis of the sulfate-reducing bacterial and methanogenic archaeal populations in contrasting antarctic sediments. | the distribution and activity of communities of sulfate-reducing bacteria (srb) and methanogenic archaea in two contrasting antarctic sediments were investigated. methanogenesis dominated in freshwater lake heywood, while sulfate reduction dominated in marine shallow bay. slurry experiments indicated that 90% of the methanogenesis in lake heywood was acetoclastic. this finding was supported by the limited diversity of clones detected in a lake heywood archaeal clone library, in which most clones ... | 2003 | 12788715 |
| the genome of desulfotalea psychrophila, a sulfate-reducing bacterium from permanently cold arctic sediments. | desulfotalea psychrophila is a marine sulfate-reducing delta-proteobacterium that is able to grow at in situ temperatures below 0 degrees c. as abundant members of the microbial community in permanently cold marine sediments, d. psychrophila-like bacteria contribute to the global cycles of carbon and sulfur. here, we describe the genome sequence of d. psychrophila strain lsv54, which consists of a 3 523 383 bp circular chromosome with 3118 predicted genes and two plasmids of 121 586 bp and 14 66 ... | 2004 | 15305914 |
| the tmc complex from desulfovibrio vulgaris hildenborough is involved in transmembrane electron transfer from periplasmic hydrogen oxidation. | three membrane-bound redox complexes have been reported in desulfovibrio spp., whose genes are not found in the genomes of other sulfate reducers such as desulfotalea psycrophila and archaeoglobus fulgidus. these complexes contain a periplasmic cytochrome c subunit of the cytochrome c(3) family, and their presence in these organisms probably correlates with the presence of a pool of periplasmic cytochromes c(3), also absent in the two other sulfate reducers. in this work we report the isolation ... | 2006 | 16922512 |
| polyhydroxyalkanoate (pha) accumulation in sulfate-reducing bacteria and identification of a class iii pha synthase (phaec) in desulfococcus multivorans. | seven strains of sulfate-reducing bacteria (srb) were tested for the accumulation of polyhydroxyalkanoates (phas). during growth with benzoate desulfonema magnum accumulated large amounts of poly(3-hydroxybutyrate) [poly(3hb)]. desulfosarcina variabilis (during growth with benzoate), desulfobotulus sapovorans (during growth with caproate), and desulfobacterium autotrophicum (during growth with caproate) accumulated poly(3hb) that accounted for 20 to 43% of cell dry matter. desulfobotulus sapovor ... | 2004 | 15294771 |
| psychrophilic sulfate-reducing bacteria isolated from permanently cold arctic marine sediments: description of desulfofrigus oceanense gen. nov., sp. nov., desulfofrigus fragile sp. nov., desulfofaba gelida gen. nov., sp. nov., desulfotalea psychrophila gen. nov., sp. nov. and desulfotalea arctica sp. nov. | five psychrophilic, gram-negative, sulfate-reducing bacteria were isolated from marine sediments off the coast of svalbard. all isolates grew at the in situ temperature of -1.7 degrees c. in batch cultures, strain psv29t had the highest growth rate at 7 degrees c, strains asv26t and lsv54t had the highest growth rate at 10 degrees c, and strains lsv21t and lsv514t had the highest growth rate at 18 degrees c. the new isolates used the most common fermentation products in marine sediments, such as ... | 1999 | 10555345 |
| high bacterial diversity in permanently cold marine sediments. | a 16s ribosomal dna (rdna) clone library from permanently cold marine sediments was established. screening 353 clones by dot blot hybridization with group-specific oligonucleotide probes suggested a predominance of sequences related to bacteria of the sulfur cycle (43.4% potential sulfate reducers). within this fraction, the major cluster (19.0%) was affiliated with desulfotalea sp. and other closely related psychrophilic sulfate reducers isolated from the same habitat. the cloned sequences show ... | 1999 | 10473405 |
| a comparative genomics study of genetic products potentially encoding ladderane lipid biosynthesis. | the fatty acids of anaerobic ammonium oxidizing (anammox) bacteria contain linearly concatenated cyclobutane moieties, so far unique to biology. these moieties are under high ring strain and are synthesised by a presently unknown biosynthetic pathway. | 2009 | 19220888 |