| proposal of the genus sphingomonas sensu stricto and three new genera, sphingobium, novosphingobium and sphingopyxis, on the basis of phylogenetic and chemotaxonomic analyses. | phylogenetic analyses of 16s rrna gene sequences by distance matrix and parsimony methods indicated that the currently known species of the genus sphingomonas can be divided into four clusters. some chemotaxonomic and phenotypic differences were noted among these clusters. three new genera, sphingobium, novosphingobium and sphingopyxis, are proposed in addition to the genus sphingomonas sensu stricto. the genus sphingobium is proposed to accommodate sphingomonas chlorophenolica, sphingomonas her ... | 2001 | 11491340 |
| isolation and characterization of novosphingobium sp. strain mt1, a dominant polychlorophenol-degrading strain in a groundwater bioremediation system. | a high-rate fluidized-bed bioreactor has been treating polychlorophenol-contaminated groundwater in southern finland at 5 to 8 degrees c for over 6 years. we examined the microbial diversity of the bioreactor using three 16s ribosomal dna (rdna)-based methods: denaturing gradient gel electrophoresis, length heterogeneity-pcr analysis, and restriction fragment length polymorphism analysis. the molecular study revealed that the process was dependent on a stable bacterial community with low species ... | 2002 | 11772624 |
| degradation of 17beta-estradiol by a gram-negative bacterium isolated from activated sludge in a sewage treatment plant in tokyo, japan. | a 17beta-estradiol (e2)-degrading bacterium was isolated from activated sludge in a sewage treatment plant in tokyo, japan. the isolate was suggested to be a new novosphingobium species. gas chromatography-mass spectrometry and (1)h nuclear magnetic resonance analyses of the metabolites of e2 degradation suggested that no toxic products accumulated in the culture medium. | 2002 | 11916733 |
| novosphingobium hassiacum sp. nov., a new species isolated from an aerated sewage pond. | the taxonomy of two strains w-51t and w-52 isolated from a wastewater treatment plant was investigated in a polyphasic approach. the yellow pigmented gram-negative organism contained a quinone system with mainly ubiquinone q-10, and the polar lipid profile contained a sphingoglycolipid suggesting that both strains belonged to the the alpha-4 subclass of the proteobacteria. the polar lipid profile consisted furthermore of phosphatidylethanolamine, diphosphatidylglycerol, and phosphatidylcholine a ... | 2002 | 12086187 |
| cysteine activation is an inherent in vitro property of prolyl-trna synthetases. | aminoacyl-trna synthetases are well known for their remarkable precision in substrate selection during aminoacyl-trna formation. some synthetases enhance the accuracy of this process by editing mechanisms that lead to hydrolysis of incorrectly activated and/or charged amino acids. prolyl-trna synthetases (prorss) can be divided into two structurally divergent groups, archaeal-type and bacterial-type enzymes. a striking difference between these groups is the presence of an insertion domain (appro ... | 2002 | 12130657 |
| emendation of the genus sphingomonas yabuuchi et al. 1990 and junior objective synonymy of the species of three genera, sphingobium, novosphingobium and sphingopyxis, in conjunction with blastomonas ursincola. | the 16s rdna sequence similarities between the type strains of sphingomonas paucimobilis and 32 other sphingomonas species range from 90.2 to 99.6%. it might be possible to divide the genus into several new genera according to a dendrogram drawn from 16s rdna sequence similarity. however, the phenotypic and biochemical information needed to define clusters of strains representing distinct genera within this group of organisms was not previously available. although the cellular lipids of type str ... | 2002 | 12361250 |
| novosphingobium tardaugens sp. nov., an oestradiol-degrading bacterium isolated from activated sludge of a sewage treatment plant in tokyo. | an oestradiol-degrading bacterium isolated at a sewage treatment plant in tokyo was studied phenotypically, genotypically and phylogenetically. analysis of its 16s rdna sequence, dna base composition, whole-cell fatty acid profile and isoprenoid quinone composition, as well as the presence of sphingoglycolipid, revealed that the isolate is a member of the genus novosphingobium. however, the sequence similarity of its 16s rdna to those of known novosphingobium species was no higher than 97%, impl ... | 2003 | 12656151 |
| the unique aromatic catabolic genes in sphingomonads degrading polycyclic aromatic hydrocarbons (pahs). | many members of the sphingomonad genus isolated from different geological areas can degrade a wide variety of polycyclic aromatic hydrocarbons (pahs) and related compounds. these sphingomonads such as sphingobium yanoikuyae strain b1, novosphingobium aromaticivorans strain f199, and sphingobium sp. strain p2 have been found to possess a unique group of genes for aromatic degradation, which are distantly related with those in pseudomonads and other genera reported so far both in sequence homology ... | 2003 | 12682862 |
| characterization and regulation of the genes for a novel anthranilate 1,2-dioxygenase from burkholderia cepacia dbo1. | anthranilate (2-aminobenzoate) is an important intermediate in tryptophan metabolism. in order to investigate the degradation of tryptophan through anthranilate by burkholderia cepacia, several plasposon mutations were constructed of strain dbo1 and one mutant with the plasposon insertion in the anthranilate dioxygenase (antdo) genes was chosen for further study. the gene sequence obtained from flanking dna of the plasposon insertion site revealed unexpected information. b. cepacia dbo1 antdo (d ... | 2003 | 13129960 |
| a prokaryotic alternative oxidase present in the bacterium novosphingobium aromaticivorans. | the alternative oxidase (aox) is a terminal oxidase present in the respiratory chain of all plants as well as some yeasts and trypanosomes, but has not previously been found in a prokaryote. we have identified an aox homologue in novosphingobium aromaticivorans, the first aox found in a prokaryote. we have cloned the gene for the n. aromaticivorans aox and showed it to have a terminal oxidase activity when heterologously expressed in escherichia coli. we have also shown that this novel aox is ex ... | 2003 | 14527685 |
| patients with primary biliary cirrhosis react against a ubiquitous xenobiotic-metabolizing bacterium. | infectious and environmental agents have been proposed as immunologic triggers for primary biliary cirrhosis (pbc). recently, a ubiquitous organism that metabolizes organic compounds and estrogens, novosphingobium aromaticivorans, has been defined. importantly, 2 bacterial proteins have homology with the e2 component of the pyruvate dehydrogenase complex (pdc-e2). sera from 97 patients with pbc, 46 first-degree relatives, 10 spouses, and 195 controls were studied for reactivity against n. aromat ... | 2003 | 14578864 |
| prokaryotic origins for the mitochondrial alternative oxidase and plastid terminal oxidase nuclear genes. | the mitochondrial alternative oxidase is a diiron carboxylate quinol oxidase (dox) found in plants and some fungi and protists, but not animals. the plastid terminal oxidase is distantly related to alternative oxidase and is most likely also a dox protein. database searches revealed that the alpha-proteobacterium novosphingobium aromaticivorans and the cyanobacteria nostoc sp. pcc7120, synechococcus sp. wh8102 and prochlorococcus marinus subsp. pastoris ccmp1378 each possess a dox homolog. each ... | 2003 | 14675750 |
| cross-species identification of proteins from proteome profiles of the marine oligotrophic ultramicrobacterium, sphingopyxis alaskensis. | sphingopyxis (formerly sphingomonas) alaskensis is a model bacterium for studying adaptation to oligotrophy (nutrient-limitation). it has a unique physiology which is fundamentally different to that of the well studied bacteria such as escherichia coli. to begin to identify the genes involved in its physiological responses to nutrient-limited growth and starvation, we developed high resolution two-dimensional electrophoresis (2-de) methods and determined the identity of 12 proteins from a total ... | 2004 | 15174144 |
| bacteria and human autoimmunity: the case of primary biliary cirrhosis. | primary biliary cirrhosis is a chronic inflammatory disease of the intrahepatic bile ducts that eventually leads to liver cirrhosis and organ failure, in which several observations suggest an autoimmune origin. similarly to other autoimmune diseases, microbial mediated molecular mimicry is the most widely studied trigger that may break immunologic tolerance in primary biliary cirrhosis. | 2004 | 15201604 |
| implicating the glutathione-gated potassium efflux system as a cause of electrophile-induced activated sludge deflocculation. | the glutathione-gated k(+) efflux (ggke) system represents a protective microbial stress response that is activated by electrophilic or thiol-reactive stressors. it was hypothesized that efflux of cytoplasmic k(+) occurs in activated sludge communities in response to shock loads of industrially relevant electrophilic chemicals and results in significant deflocculation. novosphingobium capsulatum, a bacterium consistent with others found in activated sludge treatment systems, responded to electro ... | 2004 | 15345445 |
| novosphingobium pentaromativorans sp. nov., a high-molecular-mass polycyclic aromatic hydrocarbon-degrading bacterium isolated from estuarine sediment. | a gram-negative, yellow-pigmented, halophilic bacterial strain us6-1t, which degrades high-molecular-mass polycyclic aromatic hydrocarbons of two to five rings, was isolated from muddy sediment of ulsan bay, republic of korea. the 16s rrna gene of the isolate showed high sequence similarity to novosphingobium subarcticum (96.23 %) and sphingopyxis alaskensis (96.18 %); however, the isolate formed a distinct phyletic line within the genus novosphingobium. dna-dna relatedness between us6-1t and th ... | 2004 | 15388699 |
| cloning and functional analysis by gene disruption of a novel gene involved in indigo production and fluoranthene metabolism in pseudomonas alcaligenes pa-10. | a novel indole dioxygenase (idoa) gene has been cloned from pseudomonas alcaligenes pa-10, based on its ability to convert indole to indigo. the chromosomally encoded idoa gene exhibits no similarity to previously cloned naphthalene dioxygenases or to aromatic oxygenases from other species at the nucleotide level. phylogenetic analysis indicates that the idoa gene product is most similar to an acyl-coa dehydrogenase from novosphingobium aromaticivorans. the enzyme encoded by the idoa gene is ess ... | 2004 | 15476978 |
| identification and functional analysis of two aromatic-ring-hydroxylating dioxygenases from a sphingomonas strain that degrades various polycyclic aromatic hydrocarbons. | in this study, the enzymes involved in polycyclic aromatic hydrocarbon (pah) degradation in the chrysene-degrading organism sphingomonas sp. strain chy-1 were investigated. [14c]chrysene mineralization experiments showed that pah-grown bacteria produced high levels of chrysene-catabolic activity. one pah-induced protein displayed similarity with a ring-hydroxylating dioxygenase beta subunit, and a second pah-induced protein displayed similarity with an extradiol dioxygenase. the genes encoding t ... | 2004 | 15528538 |
| novosphingobium aromaticivorans: a potential initiator of primary biliary cirrhosis. | primary biliary cirrhosis (pbc) is characterized by a t-cell-mediated destruction of bile duct epithelial cells that line the small intrahepatic bile ducts. the targets of activated t-lymphocytes are the dihydrolipoamide acetyltransferase components of the 2 oxo acid dehydrogenases, enzyme complexes that are important in oxidative energy metabolism. pyruvate dehydrogenase is the best known of these. its dihydrolipoamide acetyltransferase component is referred to as pdc-e2. a major question in un ... | 2004 | 15554995 |
| novosphingobium lentum sp. nov., a psychrotolerant bacterium from a polychlorophenol bioremediation process. | a polychlorophenol-degrading strain, designated mt1(t), and three mt1-like strains, mt101, mt103 and mt104, were isolated from a cold (4-8 degrees c) fluidized-bed process treating chlorophenol-contaminated groundwater in southern finland. the organisms were gram-negative, rod-shaped, catalase-positive, non-spore-forming and non-motile. phylogenetic analysis based on 16s rrna gene sequences indicated that the strains belonged to the alpha-4 subclass of the proteobacteria and were members of the ... | 2005 | 15774628 |
| phylogenetic and immunological definition of four lipoylated proteins from novosphingobium aromaticivorans, implications for primary biliary cirrhosis. | novosphingobium aromaticivorans, a unique ubiquitous bacterium that metabolizes xenobiotics and activates environmental estrogens, has been suggested as a pathogenic factor in the development of primary biliary cirrhosis (pbc). to define the molecular basis of pbc sera reactivity, we investigated the characteristic of the bacterial antigens involved. we cloned and sequenced four genes from n. aromaticivorans coding for immunoreactive proteins, arbitrarily named novo 1 through novo 4. we subseque ... | 2005 | 15848043 |
| novosphingobium taihuense sp. nov., a novel aromatic-compound-degrading bacterium isolated from taihu lake, china. | a novel aromatic-compound-degrading bacterium, strain t3-b9(t), was isolated from sediment of taihu lake, jiangsu province, south-east china. this bacterial isolate assimilated several aromatic compounds such as phenol, aniline, nitrobenzene, 4-chloronitrobenzene and phenanthrene. the taxonomy of strain t3-b9(t) was studied by polyphasic methods. the organism showed a range of phenotypic and chemotaxonomic properties consistent with those of the genus novosphingobium. the 16s rrna gene sequence ... | 2005 | 15879260 |
| alternative oxidase (aox) genes of african trypanosomes: phylogeny and evolution of aox and plastid terminal oxidase families. | to clarify evolution and phylogenetic relationships of trypanosome alternative oxidase (aox) molecules, aox genes (cdnas) of the african trypanosomes, trypanosoma congolense and trypanosoma evansi, were cloned by pcr. both aoxs possess conserved consensus motifs (-e-, -exxh-). the putative amino acid sequence of the aox of t. evansi was exactly the same as that of t. brucei. a protein phylogeny of trypanosome aoxs revealed that three genetically and pathogenically distinct strains of t. congolen ... | 2005 | 16014016 |
| production of two types of exopolysaccharide by novosphingobium rosa. | a bacterium, ikeda-3, that was isolated from the wastewater of a winery was found to produce floating and precipitating exopolysaccharides (epss) when grown aerobically in a medium containing sucrose as the sole carbon source. the concentrations of floating and precipitating epss were approximately 2.7 g/l and 0.6 g/l, respectively, in a mini-jar fermentor after incubations of the bacterium at 15 degrees c for 5 d in a synthetic medium containing 1% sucrose, 0.01% caco3, 0.05% mgso4, 0.05% k2hpo ... | 2003 | 16233384 |
| bacterial populations active in metabolism of c1 compounds in the sediment of lake washington, a freshwater lake. | active members of the bacterial community in the sediment of lake washington, with special emphasis on c1 utilizers, were identified by employing two complementary culture-independent approaches: reverse transcription of environmental mrna and 16s rrna combined with pcr (rt-pcr) and stable-isotope probing (sip) of dna with the 13c-labeled c1 substrates methanol, methylamine, formaldehyde, and formate. analysis of rt-pcr-amplified fragments of 16s rrna-encoding genes revealed that gammaproteobact ... | 2005 | 16269723 |
| ecophysiology and molecular phylogeny of bacteria isolated from alkaline two-phase olive mill wastes. | the use of two-phase centrifugal decanters has been widely adopted in the olive oil extraction industry in order to reduce the huge quantities of wastewaters produced during the traditional three-phase extraction process. the resulting sludge-like byproduct, widely known as "alpeorujo", has a ph of 4-6, low water activity (a(w)) and high phytotoxicity. addition of ca(oh)(2) to alpeorujo, which is commonly performed at the olive oil mill to handle disposal problems related to acidic ph and odor e ... | 2006 | 16307869 |
| identification of culturable bacteria present in haemodialysis water and fluid. | water used to prepare haemodialysis fluid is not sterile, and its microbiological control is important for the prevention of haemodialysis-associated illness. bacterial populations inhabiting a distribution system for haemodialysis water were studied over an 18-month period. 203 planktonic bacteria isolated on r2a medium were identified by restriction analysis and sequencing of 16s rrna gene. a diverse bacterial community was detected, containing predominantly gram-negative members of the alphap ... | 2004 | 16329897 |
| impacts on microbial communities and cultivable isolates from groundwater contaminated with high levels of nitric acid-uranium waste. | microbial communities were characterized at contaminated sites that had elevated levels of nitrate, nickel, aluminum, and uranium (up to 690 mm, 310 microm, 42 mm, and 30 microm, respectively). the bacterial community structure based upon clonal libraries of the ssu rrna genes (screened clones = 876) was diverse at the background site, but the three acidic samples had decreased diversity and the majority of clones were closely related to azoarcus and pseudomonas species. arthrobacter and novosph ... | 2005 | 16329960 |
| sphingosinicella microcystinivorans gen. nov., sp. nov., a microcystin-degrading bacterium. | three strains of bacteria that degrade the cyanobacterial hepatotoxin microcystin, y2t, mdb2 and mdb3, were isolated from a eutrophic lake, lake suwa, and the tenryu river, japan, and characterized. these strains were aerobic and chemo-organotrophic and their cells were gram-negative, non-spore-forming rods, motile by means of single polar flagella. yellow-pigmented colonies were formed on nutrient agar media. the strains assimilated only citrate among the organic compounds tested as carbon sour ... | 2006 | 16403871 |
| proposal to reclassify [sphingomonas] xenophaga stolz et al. 2000 and [sphingomonas] taejonensis lee et al. 2001 as sphingobium xenophagum comb. nov. and sphingopyxis taejonensis comb. nov., respectively. | the sphingomonad group contains bacterial isolates that are quite diverse in terms of their phylogenetic, ecological and physiological properties. thus, the genus sphingomonas was divided into four distinct genera, sphingomonas sensu stricto, sphingobium, novosphingobium and sphingopyxis on the basis of 16s rrna gene sequence phylogenetic analysis, signature nucleotides, fatty acid profiles and polyamine patterns and this classification is currently widely accepted. in this study, a complete ana ... | 2006 | 16514047 |
| description of sphingobium fuliginis sp. nov., a phenanthrene-degrading bacterium from a fly ash dumping site, and reclassification of sphingomonas cloacae as sphingobium cloacae comb. nov. | a phenanthrene-degrading bacterium, strain tkp(t), was isolated from a fly ash dumping site of the thermal power plant in panki, kanpur, india, by an enrichment culture method using phenanthrene as the sole source of carbon and energy. phylogenetic analysis based on 16s rrna gene sequences indicated that the strain belonged to the genus sphingobium, as it showed highest sequence similarity to sphingobium herbicidovorans dsm 11019(t) (97.3 %) and sphingomonas cloacae jcm 10874(t) (96.5 %), compar ... | 2006 | 16957112 |
| cooperative biodegradation of geosmin by a consortium comprising three gram-negative bacteria isolated from the biofilm of a sand filter column. | to isolate and identify bacteria from a sand filter column capable of degrading the taste and odour compound, geosmin. in doing so, to investigate if these organisms degrade geosmin either individually or if an alternative mechanism is utilized. | 2006 | 16965373 |
| the sphingomonas plasmid pcar3 is involved in complete mineralization of carbazole. | we determined the complete 254,797-bp nucleotide sequence of the plasmid pcar3, a carbazole-degradative plasmid from sphingomonas sp. strain ka1. a region of about 65 kb involved in replication and conjugative transfer showed similarity to a region of plasmid pnl1 isolated from the aromatic-degrading novosphingobium aromaticivorans strain f199. the presence of many insertion sequences, transposons, repeat sequences, and their remnants suggest plasticity of this plasmid in genetic structure. alth ... | 2007 | 17172338 |
| optimisation of the long-term efficacy of dental chair waterline disinfection by the identification and rectification of factors associated with waterline disinfection failure. | although many studies have highlighted the problem of biofilm growth in dental chair unit waterlines (duws), no long-term studies on the efficacy of duw disinfection using a large number of dental chair units (dcus) have been reported. | 2007 | 17303302 |
| isolation and characterization of a carbofuran-degrading strain novosphingobium sp. fnd-3. | a gram-negative novosphingobium sp. strain fnd-3 capable of degrading carbofuran was isolated and characterized. the carbofuran-degrading ability of strain fnd-3 was investigated under various culture conditions. strain fnd-3 showed a high average carbofuran-degrading rate of 28.6 mg l(-1) h(-1) in mineral salts medium with 100 mg l(-1) carbofuran. gc/ms analysis pointed out the presence of several unknown metabolites. one hydrolyzate was identified as 2-hydroxy-3-(3-methypropan-2-ol) phenol via ... | 2007 | 17425661 |
| p450 enzymes from the bacterium novosphingobium aromaticivorans. | twelve of the fifteen potential p450 enzymes from the bacterium novosphingobium aromaticivorans, which is known to degrade a wide range of aromatic hydrocarbons, have been produced via heterologous expression in escherichia coli. the enzymes were tested for their ability to bind a range of substrates including polyaromatic hydrocarbons. while two of the enzymes were found to bind aromatic compounds (cyp108d1 and cyp203a2), the others show binding with a variety of compounds including linear alka ... | 2007 | 17618912 |
| biochemical characterization and phylogenetic analysis of udp-glucose dehydrogenase from the gellan gum producer sphingomonas elodea atcc 31461. | sphingomonas elodea atcc 31461 synthesizes in high yield the exopolysaccharide gellan, which is a water-soluble gelling agent with many applications. in this study, we describe the cloning and sequence analysis of the ugdg gene, encoding a udp-glucose dehydrogenase (47.2 kda; udpg-dh; ec 1.1.1.22), required for the synthesis of the gellan gum precursor udp-glucuronic acid. ugdg protein shows homology to members of the udp-glucose/gdp-mannose dehydrogenase superfamily. the neighbor-joining method ... | 2007 | 17668199 |
| reclassification of flavobacterium resinovorum delaporte and daste 1956 as novosphingobium resinovorum comb. nov., with novosphingobium subarcticum (nohynek et al. 1996) takeuchi et al. 2001 as a later heterotypic synonym. | the taxonomic status of flavobacterium resinovorum delaporte and daste 1956 (approved lists 1980) was investigated using a polyphasic approach. the 16s rrna gene sequence of f. resinovorum ncimb 8767(t) was almost identical to that of the type strain of novosphingobium subarcticum (nohynek et al. 1996) takeuchi et al. 2001, with 99.85 % sequence similarity. the dna-dna relatedness value between the type strains of these species was 100 %. phenotypic comparison based on api 20e, api ne and api zy ... | 2007 | 17684279 |
| novosphingobium naphthalenivorans sp. nov., a naphthalene-degrading bacterium isolated from polychlorinated-dioxin-contaminated environments. | three strains of strictly aerobic, gram-negative, naphthalene-degrading bacteria isolated from polychlorinated-dioxin-contaminated soil and sediment were characterized. these isolates grew well with naphthalene as the sole carbon and energy source, degrading it completely within 24 h of incubation. the isolates also degraded dibenzofuran co-metabolically in the presence of naphthalene with the concomitant production of yellow intermediate metabolite(s). a 16s rrna gene sequence analysis revealed ... | 2007 | 17878661 |
| evolution of enzymatic activities in the enolase superfamily: d-mannonate dehydratase from novosphingobium aromaticivorans. | the d-mannonate dehydratase (mand) function was assigned to a group of orthologous proteins in the mechanistically diverse enolase superfamily by screening a library of acid sugars. structures of the wild type mand from novosphingobium aromaticivorans were determined at ph 7.5 in the presence of mg2+ and also in the presence of mg2+ and the 2-keto-3-keto-d-gluconate dehydration product; the structure of the catalytically active k271e mutant was determined at ph 5.5 in the presence of the d-manno ... | 2007 | 17944491 |
| novosphingobium nitrogenifigens sp. nov., a polyhydroxyalkanoate-accumulating diazotroph isolated from a new zealand pulp and paper wastewater. | a diazotroph capable of accumulating significant amounts of polyhydroxyalkanoate was isolated in new zealand from a bioreactor treating nitrogen-deficient pulp and paper-mill effluent. strain y88t is gram-negative, rod-shaped and positive for catalase, nitrate reductase and urease activities. the complete 16s rrna gene sequence was most similar to those of other members of the genus novosphingobium, the highest level of similarity (94.7%) being found with respect to the type strain of novosphing ... | 2007 | 17978201 |
| phylogenomics and signature proteins for the alpha proteobacteria and its main groups. | alpha proteobacteria are one of the largest and most extensively studied groups within bacteria. however, for these bacteria as a whole and for all of its major subgroups (viz. rhizobiales, rhodobacterales, rhodospirillales, rickettsiales, sphingomonadales and caulobacterales), very few or no distinctive molecular or biochemical characteristics are known. | 2007 | 18045498 |
| characterization of two compatible small plasmids from sphingobium yanoikuyae. | we isolated and characterized two small cryptic indigenous plasmids, pyan-1 (4,896 bp) and pyan-2 (4,687 bp), from sphingobium yanoikuyae, and developed a versatile system that permitted genetic manipulation of the genus sphingomonas. nucleotide sequencing of both plasmids revealed that they contained moba, mobs, and repa genes, which are predicted to encode proteins associated with mobilization and replication, in common. transformation with each plasmid harboring the antibiotic resistance gene ... | 2008 | 18391447 |
| a pyrene-degrading consortium from deep-sea sediment of the west pacific and its key member cycloclasticus sp. p1. | a pyrene-degrading bacterial consortium was obtained from deep-sea sediments of the pacific ocean. the consortium degraded many kinds of polycyclic aromatic hydrocarbons (pahs), including naphthalene, phenanthrene, pyrene, acenaphthene, fluorene, anthracene, fluoranthene, 2-methylnaphthalene and 2,6-dimethylnaphthalene, but it did not grow with chrysene and benzo[alpha]pyrene. with methods of plate cultivation and polymerase chain reaction-denaturing gradient gel electrophoresis (pcr-dgge), 72 b ... | 2008 | 18430013 |
| invariant natural killer t cells trigger adaptive lymphocytes to churn up bile. | how innate immune response causes autoimmunity has remained an enigma. in this issue of cell host & microbe, mattner et al. demonstrate that invariant natural killer t cells activated by the mucosal commensal novosphingobium aromaticivorans precipitate chronic t cell-mediated autoimmunity against small bile ducts that mirrors human primary biliary cirrhosis. these findings provide a mechanistic understanding of the role of innate immunity toward a microbe in the development of autoimmunity. | 2008 | 18474352 |
| liver autoimmunity triggered by microbial activation of natural killer t cells. | humans with primary biliary cirrhosis (pbc), a disease characterized by the destruction of small bile ducts, exhibit signature autoantibodies against mitochondrial pyruvate dehydrogenase complex e2 (pdc-e2) that crossreact onto the homologous enzyme of novosphingobium aromaticivorans, an ubiquitous alphaproteobacterium. here, we show that infection of mice with n. aromaticivorans induced signature antibodies against microbial pdc-e2 and its mitochondrial counterpart but also triggered chronic t ... | 2008 | 18474357 |
| identification of bacterial carotenoid cleavage dioxygenase homologues that cleave the interphenyl alpha,beta double bond of stilbene derivatives via a monooxygenase reaction. | carotenoid cleavage oxygenases (ccos), which are also referred to as carotenoid cleavage dioxygenases (ccds) are a new class of nonheme iron-type enzymes that oxidatively cleave double bonds in the conjugated carbon chain of carotenoids. the oxidative cleavage mechanism of these enzymes is not clear, and both monooxygenase and dioxygenase mechanisms have been proposed for different carotenoid cleavage enzymes. ccos have been described from plants, animals, fungi, and cyanobacteria, but little is ... | 2008 | 18478524 |
| bacteria and primary biliary cirrhosis. | infectious agents have been postulated to play a pathogenic role in the loss of immunological tolerance and the induction of primary biliary cirrhosis, an immune-mediated cholestatic liver disease characterized by progressive destruction of the small intrahepatic bile ducts and subsequent cirrhosis and liver failure. this review discusses emerging issues implicating infectious agents such as escherichia coli, mycobacteria, chlamydia, helicobacter species, lactobacilli, novosphingobium aromaticiv ... | 2009 | 18498061 |
| crystallization and preliminary x-ray diffraction studies of a novel ferredoxin involved in the dioxygenation of carbazole by novosphingobium sp. ka1. | novosphingobium sp. ka1 uses carbazole 1,9a-dioxygenase (cardo) as the first dioxygenase in its carbazole-degradation pathway. the cardo of ka1 contains a terminal oxygenase component and two electron-transfer components: ferredoxin and ferredoxin reductase. in contrast to the cardo systems of other species, the ferredoxin component of ka1 is a putidaredoxin-type protein. this novel ferredoxin was crystallized at 293 k by the hanging-drop vapour-diffusion method using peg mme 550 as the precipit ... | 2008 | 18607094 |
| bacterial diversity of a consortium degrading high-molecular-weight polycyclic aromatic hydrocarbons in a two-liquid phase biosystem. | high-molecular-weight (hmw) polycyclic aromatic hydrocarbons (pahs) are pollutants that persist in the environment due to their low solubility in water and their sequestration by soil and sediments. although several pah-degrading bacterial species have been isolated, it is not expected that a single isolate would exhibit the ability to degrade completely all pahs. a consortium composed of different microorganisms can better achieve this. two-liquid phase (tlp) culture systems have been developed ... | 2009 | 18615233 |
| bioremediation of trace cobalt from simulated spent decontamination solutions of nuclear power reactors using e. coli expressing nicot genes. | removal of radioactive cobalt at trace levels (approximately nm) in the presence of large excess (10(6)-fold) of corrosion product ions of complexed fe, cr, and ni in spent chemical decontamination formulations (simulated effluent) of nuclear reactors is currently done by using synthetic organic ion exchangers. a large volume of solid waste is generated due to the nonspecific nature of ion sorption. our earlier work using various fungi and bacteria, with the aim of nuclear waste volume reduction ... | 2008 | 18949474 |
| [polycyclic aromatic hydrocarbon-degrading bacterium novosphingobium sp. h25 isolated from deep sea and its degrading genes]. | the aim of this study is to isolate novel and efficient polycyclic aromatic hydrocarbon (pah) degrading bacteria from deep sea. | 2008 | 19062646 |
| cloning and characterization of an epoxide hydrolase from novosphingobium aromaticivorans. | a gene encoding a putative epoxide hydrolase (ehase) was identified by analyzing an open reading frame of the genome sequence of novosphingobium aromaticivorans, retaining the conserved catalytic residues such as the catalytic triad (asp177, glu328, and his355) and the oxyanion hole. the enantioselective ehase gene (neh) was cloned, and the recombinant ehase could be purified to apparent homogeneity by one step of metal affinity chromatography and further characterized. the purified n. aromatici ... | 2009 | 19083233 |
| novosphingobium panipatense sp. nov. and novosphingobium mathurense sp. nov., from oil-contaminated soil. | in an ongoing attempt to analyse the diversity of culturable micro-organisms from oil-contaminated soil, two yellow-pigmented, gram-negative, halophilic bacterial strains (sm16t and sm117t) were isolated. these two strains were characterized using a polyphasic approach. strains sm16t and sm117t showed a range of phenotypic and chemotaxonomic properties that were consistent with those of members of the genus novosphingobium. both strains contained sphingoglycolipids, thus confirming that they bel ... | 2009 | 19126741 |
| characterization of a ring-hydroxylating dioxygenase from phenanthrene-degrading sphingomonas sp. strain lh128 able to oxidize benz[a]anthracene. | sphingomonas sp. strain lh128 was isolated from a polycyclic aromatic hydrocarbon (pah)-contaminated soil using phenanthrene as the sole source of carbon and energy. a dioxygenase complex, phna1fa2f, encoding the alpha and beta subunit of a terminal dioxygenase responsible for the initial attack on pahs, was identified and isolated from this strain. phna1f showed 98%, 78%, and 78% identity to the alpha subunit of pah dioxygenase from novosphingobium aromaticivorans strain f199, sphingomonas sp. ... | 2009 | 19172265 |
| novosphingobium acidiphilum sp. nov., an acidophilic salt-sensitive bacterium isolated from the humic acid-rich lake grosse fuchskuhle. | a yellow- to orange-pigmented, gram-negative, rod-shaped, motile and non-spore-forming bacterium, strain fsw06-204d(t), was isolated from subsurface water of the acidic bog lake, lake grosse fuchskuhle (brandenburg, germany). optimum growth of this strain occurred over a ph range from 5.5 to 6.0 and the growth rate strongly decreased at ph values above 6.5. in addition, the strain exhibited a low tolerance towards nacl and grew only at a nacl concentration of up to 0.5 %. 16s rrna gene sequence ... | 2009 | 19196772 |
| identification of an rsh gene from a novosphingobium sp. necessary for quorum-sensing signal accumulation. | the stringent response is a mechanism by which bacteria adapt to environmental stresses and nutritional deficiencies through the synthesis and hydrolysis of (p)ppgpp by rela/spot enzymes. alphaproteobacteria and plants contain a single rsh enzyme (named for rela/spot homolog) that is bifunctional. here we report the identification of a new species of bacteria belonging to the genus novosphingobium and characterization of an rsh mutation in this plant tumor-associated isolate. isolate rr 2-17, fr ... | 2009 | 19201802 |
| indigenous bacteria may interfere with the biocontrol of plant diseases. | prodigiosin is a reddish antibiotic pigment that plays an important role in the biocontrol of plant diseases by the bacterium serratia marcescens. however, its activity is unstable under agricultural conditions; further, it can be degraded by various environmental factors. to examine the effect of epiphytic microbes on the stability of prodigiosin used for biological control processes, we collected a total of 1,280 bacterial isolates from the phylloplane of cyclamen and tomato plants. approximat ... | 2009 | 19288072 |
| purification, crystallization and preliminary x-ray analysis of cytochrome p450 219a1 from novosphingobium aromaticivorans dsm 12444. | cytochrome p450 enzymes catalyze a variety of reactions and are widely distributed in living organisms. in recent studies, the first members of five new families of cytochrome p450 enzymes have been identified, including cytochrome p450 219a1 (cyp219a1) from novosphingobium aromaticivorans dsm 12444. it has also been reported that isolongifolen-9-one (c(15)h(22)o), a sesquiterpenoid ketone derivative, is a potential substrate for cyp219a1, inducing a >or=95% shift of the haem spin state to high ... | 2009 | 19342781 |
| novosphingobium indicum sp. nov., a polycyclic aromatic hydrocarbon-degrading bacterium isolated from a deep-sea environment. | a novel polycyclic aromatic hydrocarbon (pah)-degrading bacterium, strain h25t, which was isolated from deep-sea water of the indian ocean, was studied phenotypically, genotypically and phylogenetically. strain h25t can utilize several pahs including phenanthrene and fluoranthene as sole carbon sources. the 16s rrna gene sequence of strain h25t showed the highest similarity with that of novosphingobium naphthalenivorans tut562t (96.3%), and showed lower similarities (92.1-96.0%) with other membe ... | 2009 | 19605709 |
| biodegradation of bisphenol a and bisphenol f in the rhizosphere sediment of phragmites australis. | the accelerated removal of bisphenols a and f (bpa, bpf) was observed in the rhizosphere sediment of phragmites australis, while they persisted in the absence of p. australis. a bpa-degrading bacterium, novosphingobium sp. strain tya-1, and a bpf-degrading bacterium, sphingobium yanoikuyae strain tyf-1, were isolated from the rhizosphere of p. australis. the results suggested that interactions between p. australis and these bacteria can accelerate the removal of bisphenols from sediment. | 2009 | 19619863 |
| a cytochrome p450 class i electron transfer system from novosphingobium aromaticivorans. | cytochrome p450 (cyp) enzymes of the cyp101 and cyp111 families from novosphingobium aromaticivorans are heme monooxygenases that catalyze the hydroxylation of a range of terpenoid compounds. cyp101d1 and cyp101d2 oxidized camphor to 5-exo-hydroxycamphor. cyp101b1 and cyp101c1 oxidized beta-ionone to predominantly 3-r-hydroxy-beta-ionone and 4-hydroxy-beta-ionone, respectively. cyp111a2 oxidized linalool to 8-hydroxylinalool. physiologically, these cyp enzymes could receive electrons from arx, a ... | 2010 | 19779713 |
| [predominant strains of polycyclic aromatic hydrocarbon-degrading consortia from deep sea of the middle atlantic ridge]. | in order to identify the predominant strains of polycyclic aromatic hydrocarbon (pah)-degrading consortia harboring in sea water and surface sediment collected from deep sea of the middle atlantic ridge. | 2009 | 19873754 |
| enrichment and cultivation of pelagic bacteria from a humic lake using phenol and humic matter additions. | abstract individual bacterial populations are known to respond differently toward substrate availability. to test how the availability of either pure phenol or natural humic matter (hm) selects for specific pelagic bacteria phylotypes from a humic lake (lake grosse fuchskuhle, northeastern germany), we used culture-dependent and -independent approaches. using a batch approach, the bacterial community composition (bcc) differed depending on both the quantity and the quality of added substrates. u ... | 2010 | 20100184 |
| autoimmune disease triggered by infection with alphaproteobacteria. | despite having long been postulated, compelling evidence for the theory that microbial triggers drive autoimmunity has only recently been reported. a specific association between novosphingobium aromaticivorans, an ubiquitous alphaproteobacterium, and primary biliary cirrhosis (pbc) has been uncovered in patients with pbc. notably, the association between novosphingobium infection and pbc has been confirmed in a mouse model in which infection leads to the development of liver lesions resembling ... | 2009 | 20161124 |
| changes in pelagic bacteria communities due to leaf litter addition. | in many limnetic systems, the input of allochthonous organic matter, e.g., leaf litter, is a substantial source of dissolved organic carbon (doc) for pelagic bacteria, especially in fall and winter when autochthonous doc production is low. however, relatively little is known about community changes of pelagic lake bacteria due to leaf litter input which includes both the release of leaf leachates and microorganisms from the leaf litter into the surrounding water. therefore, we have experimentall ... | 2010 | 20198369 |
| novosphingobium soli sp. nov., isolated from soil. | a yellow-pigmented, gram-negative, rod-shaped, non-spore-forming bacterium, strain cc-tpe-1(t), was isolated from oil-contaminated soil near an oil refinery located in kaohsiung county, taiwan. 16s rrna gene sequence analysis of strain cc-tpe-1(t) showed highest sequence similarity to novosphingobium naphthalenivorans tut562(t) (98.1 %), n. panipatense sm16(t) (97.9 %) and n. mathurense sm117(t) (97.6 %) and lower (<97 %) sequence similarity to all other novosphingobium species. dna-dna hybridiz ... | 2011 | 20207802 |
| enrichment and cultivation of pelagic bacteria from a humic lake using phenol and humic matter additions. | individual bacterial populations are known to respond differently toward substrate availability. to test how the availability of either pure phenol or natural humic matter (hm) selects for specific pelagic bacteria phylotypes from a humic lake (lake grosse fuchskuhle, northeastern germany), we used culture-dependent and -independent approaches. using a batch approach, the bacterial community composition (bcc) differed depending on both the quantity and the quality of added substrates. using a di ... | 2010 | 20459514 |
| crystallization and preliminary x-ray diffraction studies of a ferredoxin reductase component of carbazole 1,9a-dioxygenase from novosphingobium sp. ka1. | carbazole 1,9a-dioxygenase (cardo) is the initial enzyme of the carbazole-degradation pathway. the cardo of novosphingobium sp. ka1 consists of a terminal oxygenase, a putidaredoxin-type ferredoxin and a ferredoxin-nadh oxidoreductase (red) and is classified as a class iia rieske oxygenase. red from ka1 was crystallized at 278 k by the hanging-drop vapour-diffusion method using peg 4000. the crystal diffracted to 1.58 a resolution and belonged to space group p3(2), with unit-cell parameters a = ... | 2010 | 20516607 |
| a 17beta-estradiol-utilizing bacterium, sphingomonas strain kc8: part i - characterization and abundance in wastewater treatment plants. | a 17beta-estradiol-utilizing bacterium, sphingomonas strain kc8, was characterized in terms of its utilization kinetics toward 17beta-estradiol, estrone, and testosterone. the maximum specific substrate utilization rates (q(m)) are 0.37, 0.50, and 0.17 mg-substrate/mg-protein/day for 17beta-estradiol, estrone, and testosterone, respectively. the half-velocity constants (k(s)) are 1.9 mg/l for 17beta-estradiol, 2.7 mg/l for estrone, and 2.4 mg/l for testosterone. strain kc8 can grow on testostero ... | 2010 | 20527759 |
| enantioselective hydrolysis of racemic epichlorohydrin using an epoxide hydrolase from novosphingobium aromaticivorans. | previously we reported that an epoxide hydrolase (ehase) from novosphingobium aromaticivorans could preferentially hydrolyze (r)-styrene oxide. in this study, we demonstrate that the purified neh could be also effective in chiral resolution of racemic epichlorohydrin (ech). particularly, the purified neh showed excellent hydrolyzing activity toward ech to complete the reaction at a short period of incubation time. enantiopure (s)-ech could be obtained with a high enantiopurity of more than 99.99 ... | 2010 | 20547378 |
| molecular characterization of a class i p450 electron transfer system from novosphingobium aromaticivorans dsm12444. | cytochrome p450 (cyp) enzymes of the cyp101 and cyp111 families from the oligotrophic bacterium novosphingobium aromaticivorans dsm12444 are heme monooxygenases that receive electrons from nadh via arx, a [2fe-2s] ferredoxin, and arr, a ferredoxin reductase. these systems show fast nadh turnovers (k(cat) = 39-91 s(-1)) that are efficiently coupled to product formation. the three-dimensional structures of arr, arx, and cyp101d1, which form a physiological class i p450 electron transfer chain, hav ... | 2010 | 20576606 |
| singlet oxygen, a neglected but important environmental factor: short-term and long-term effects on bacterioplankton composition in a humic lake. | photolysis of dissolved organic matter (dom) leads to contrasting effects on bacterioplankton dynamics, i.e. stimulation and inhibition of bacterial activity. in particular, the role of short-lived reactive oxygen species (ros), e.g. singlet oxygen (¹o₂), in altering microbial activity and species composition has scarcely been investigated. therefore, we have artificially increased the natural rate of ¹o₂ formation in short-term (∼4 h) in situ and long-term (72 h) laboratory incubations of surfa ... | 2010 | 20636377 |
| the structure of cyp101d2 unveils a potential path for substrate entry into the active site. | the cytochrome p450 cyp101d2 from novosphingobium aromaticivorans dsm12444 is closely related to cyp101d1 from the same bacterium and to p450cam (cyp101a1) from pseudomonas putida. all three are capable of oxidizing camphor stereoselectively to 5-exo-hydroxycamphor. the crystal structure of cyp101d2 revealed that the likely ferredoxin-binding site on the proximal face is largely positively charged, similar to that of cyp101d1. however, both the native and camphor-soaked forms of cyp101d2 had ope ... | 2010 | 20950270 |
| crystallization and preliminary x-ray diffraction studies of a terminal oxygenase of carbazole 1,9a-dioxygenase from novosphingobium sp. ka1. | carbazole 1,9a-dioxygenase (cardo) is the initial dioxygenase in the carbazole-degradation pathway of novosphingobium sp. ka1. the cardo from ka1 consists of a terminal oxygenase (oxy), a putidaredoxin-type ferredoxin and a ferredoxin reductase. the oxy from novosphingobium sp. ka1 was crystallized at 277 k using the hanging-drop vapour-diffusion method with ammonium sulfate as the precipitant. diffraction data were collected to a resolution of 2.1 å. the crystals belonged to the monoclinic spac ... | 2010 | 21045300 |
| molecular assessment of microbiota structure and dynamics along mixed olive oil and winery wastewaters biotreatment. | the major parcel of the degradation occurring along wastewater biotreatments is performed either by the native microbiota or by added microbial inocula. the main aim of this study was to apply two fingerprinting methods, temperature gradient gel electrophoresis (tgge) and length heterogeneity-pcr (lh-pcr) analysis of 16s rrna gene fragments, in order to assess the microbiota structure and dynamics during mixed olive oil and winery wastewaters aerobic biotreatment performed in a jet-loop reactor ... | 2010 | 21069557 |
| [diversity of oil-degrading bacteria isolated form the indian ocean sea surface]. | in order to investigate the diversity of oil-degrading bacteria in the surface seawater across the india ocean, and to obtain new oil-degrading bacteria. | 2010 | 21090262 |
| novosphingobium sediminicola sp. nov. isolated from freshwater sediment. | a yellow-pigmented, gram-negative, short rod-shaped, non-motile and non-spore-forming bacterial strain, designated hu1-ah51(t), was isolated from freshwater sediment and was characterized, using polyphasic approach, in order to determine its taxonomic position. on the basis of 16s rrna gene sequence similarity, strain hu1-ah51(t) was shown to belong to the genus novosphingobium, showing the highest level of sequence similarity with respect to novosphingobium resinovorum ncimb 8767(t) (96.0 %), n ... | 2010 | 21097643 |
| [in situ enrichment and diversity analysis of polycyclic aromatic carbon degrading bacteria in the coastal seawater of xiamen island]. | the aim of this study is to assess the diversity of polycyclic aromatic carbon (pah)-degrading bacteria in the coastal seawater of xiamen island. | 2010 | 21141476 |
| structural analysis of cyp101c1 from novosphingobium aromaticivorans dsm12444. | cyp101c1 from novosphingobium aromaticivorans dsm12444 is a homologue of cyp101d1 and cyp101d2 enzymes from the same bacterium and cyp101a1 from pseudomonas putida. cyp101c1 does not bind camphor but is capable of binding and hydroxylating ionone derivatives including α- and β-ionone and β-damascone. the activity of cyp101c1 was highest with β-damascone (k(cat)=86 s(-1)) but α-ionone oxidation was the most regioselective (98 % at c3). the crystal structures of hexane-2,5-diol- and β-ionone-bound ... | 2011 | 21154803 |
| the marine isolate novosphingobium sp. pp1y shows specific adaptation to use the aromatic fraction of fuels as the sole carbon and energy source. | novosphingobium sp. pp1y, isolated from a surface seawater sample collected from a closed bay in the harbour of pozzuoli (naples, italy), uses fuels as its sole carbon and energy source. like some other sphingomonads, this strain can grow as either planktonic free cells or sessile-aggregated flocks. in addition, this strain was found to grow as biofilm on several types of solid and liquid hydrophobic surfaces including polystyrene, polypropylene and diesel oil. strain pp1y is not able to grow on ... | 2011 | 21258788 |
| genetic susceptibility to autoimmune liver disease. | autoimmune hepatitis (aih), primary sclerosing cholangitis (psc) and primary biliary cirrhosis (pbc) are considered as putative autoimmune diseases of the liver. whereas strong evidence that bacterial infection may trigger pbc exists, the etiologies for psc and aih remain unknown. although there have been significant discoveries of genetic polymorphisms that may underlie the susceptibility to these liver diseases, their associations with environmental triggers and the subsequent implications hav ... | 2011 | 21307981 |
| identification of cd101 as a susceptibility gene for novosphingobium aromaticivorans-induced liver autoimmunity. | environmental and genetic factors define the susceptibility of an individual to autoimmune disease. although common genetic pathways affect general immunological tolerance mechanisms in autoimmunity, the effects of such genes could vary under distinct immune challenges within different tissues. in this study, we demonstrate this by observing that autoimmune type 1 diabetes-protective haplotypes at the insulin-dependent diabetes susceptibility region 10 (idd10) introgressed from chromosome 3 of c ... | 2011 | 21613619 |
| de novo sequencing and assembly of the whole genome of novosphingobium sp. strain pp1y. | novosphingobium sp. strain pp1y is a marine bacterium specifically adapted to use fuels as an energy source. we sequenced and assembled its entire genome using the roche 454 genome sequencer system, which led to the identification of two plasmids and one megaplasmid, besides a 3.9-mb circular chromosome. | 2011 | 21685292 |
| crystallization and preliminary x-ray analysis of cyp153c1 from novosphingobium aromaticivorans dsm12444. | cytochrome p450 (cyp) enzymes constitute a large family of haemoproteins that catalyze the monooxygenation of a great variety of endogenous and exogenous organic compounds. in common with other members of the cyp153 family of alkane hydroxylases, cyp153c1 from the oligotrophic bacterium novosphingobium aromaticivorans dsm 12444 can bind linear alkanes such as heptane, octane and nonane. here, the production, purification and crystallization of cyp153c1 and the collection of high-resolution diffr ... | 2011 | 21821906 |
| proposal of sphingomicrobium lutaoense gen. nov. sp. nov., isolated from a coastal hot spring of green island (lutao). | a yellowish pigmented, gram-negative, rod-shaped, non-spore-forming bacterium (strain cc-tbt-3t), was isolated from coastal hot spring of green island (lutao), located off taituang, taiwan, on marine agar 2216. the 16s rrna gene sequence analysis of strain cc-tbt-3t showed a relatively low (< 95.5%) to representatives of the genera novosphingobium, sphingosinicella and sphingomonas of the sphingomonadaceae with novosphingobium soli as the most similar species. beside the relatively low 16s rrna ... | 2011 | 21828023 |
| active and silent members in the mlr gene cluster of a microcystin-degrading bacterium isolated from lake taihu, china. | the microcystin-degrading genes, mlr, are important participants in the degradation process of hepatotoxic microcystins for several bacterial species. however, their expression status during degrading microcystins is still unknown. in order to study this expression process, we isolated a novel microcystin-degrading bacterial strain, sequenced its mlr gene cluster and examined the expression of the mlra gene at different concentrations of microcystin lr. the expression of mlra increased slightly ... | 2011 | 21676013 |
| diversity and antibiotic resistance patterns of sphingomonadaceae isolates from drinking water. | sphingomonadaceae (n = 86) were isolated from a drinking water treatment plant (n = 6), tap water (n = 55), cup fillers for dental chairs (n = 21), and a water demineralization filter (n = 4). the bacterial isolates were identified based on analysis of the 16s rrna gene sequence, and intraspecies variation was assessed on the basis of atpd gene sequence analysis. the isolates were identified as members of the genera sphingomonas (n = 27), sphingobium (n = 28), novosphingobium (n = 12), sphingopy ... | 2011 | 21705522 |
| draft genome sequence of novosphingobium nitrogenifigens y88(t). | novosphingobium nitrogenifigens was originally isolated from pulp and paper mill wastewater, a low-nitrogen, high-carbon environment. n. nitrogenifigens is the first known nitrogen-fixing, polyhydroxyalkanoate-accumulating sphingomonad, and we report the annotated draft genome sequence of the type strain y88(t) here. | 2012 | 22156397 |
| parasphingopyxis lamellibrachiae gen. nov., sp. nov., isolated from a marine organism in kagoshima bay, japan. | a gram-negative, aerobic, motile, orange-pigmented, slightly halophilic, rod-shaped bacterium, designated strain jamh 0132t, was isolated from a tubeworm trophosome in kagoshima bay, japan, and subjected to polyphasic taxonomic characterization. the isolate grew optimally at 28-30 °c and in the presence of 2-3 % nacl. chemotaxonomic analysis showed that q-10 was the predominant respiratory quinone and that c18:1 ω7c, c16:0 2-oh and c16:0 were the major fatty acids. sphingoglycolipids, phosphatid ... | 2011 | 22081711 |
| bacterial communities in an ultrapure water containing storage tank of a power plant. | ultrapure waters (upws) containing low levels of organic and inorganic compounds provide extreme environment. on contrary to that microbes occur in such waters and form biofilms on surfaces, thus may induce corrosion processes in many industrial applications. in our study, refined saltless water (upw) produced for the boiler of a hungarian power plant was examined before and after storage (sampling the inlet [tke] and outlet [tku] waters of a storage tank) with cultivation and culture independen ... | 2011 | 22207294 |
| genome sequence of benzo(a)pyrene-degrading bacterium novosphingobium pentaromativorans us6-1. | novosphingobium pentaromativorans us6-1 showed a good ability to degrade high-molecular-weight polycyclic aromatic hydrocarbons. we report the draft genome sequence of strain us6-1, which contains a main chromosome (5,096,413 bp, g+c content of 63.1%) and two plasmids (188,476 and 60,085 bp). the majority of the aromatic-hydrocarbon-degrading genes are encoded in the larger plasmid. | 2012 | 22275104 |
| [phylogenetic and degrading genes analysis of a pah-degrading bacterium tvg9-vii from deep-sea hydrythermal environment]. | the aim of this study is to identify a polycyclic aromatic hydrocarbons (pahs)-degrading bacterium isolated from deep-sea hydrothermal environment, including its taxonomy, characteristics and mechanism involved in pah degradation. | 2011 | 22260053 |