| nocardioides lentus sp. nov., isolated from an alkaline soil. | gram-positive, rod- or coccoid-shaped bacterial strains ksl-17t, ksl-18 and ksl-19 were isolated from an alkaline soil in korea. they were subjected to analysis using polyphasic taxonomy. strains ksl-17t, ksl-18 and ksl-19 grew optimally at ph 8.0 and 28 degrees c and in the presence of 0.5 % (w/v) nacl. they were characterized chemotaxonomically as having ll-2,6-diaminopimelic acid in the cell-wall peptidoglycan, mk-8(h4) as the predominant menaquinone and iso-c(16 : 0) as the major fatty acid. ... | 2006 | 16403897 |
| molecular cloning and expression of genes encoding a novel dioxygenase involved in low- and high-molecular-weight polycyclic aromatic hydrocarbon degradation in mycobacterium vanbaalenii pyr-1. | mycobacterium vanbaalenii pyr-1 is able to metabolize a wide range of low- and high-molecular-weight (hmw) polycyclic aromatic hydrocarbons (pahs). a 20-kda protein was upregulated in pah-metabolizing m. vanbaalenii pyr-1 cells compared to control cultures. the differentially expressed protein was identified as a beta subunit of the terminal dioxygenase using mass spectrometry. pcr with degenerate primers designed based on de novo sequenced peptides and a series of plaque hybridizations were don ... | 2006 | 16461648 |
| characterisation of new strains of atrazine-degrading nocardioides sp. isolated from japanese riverbed sediment using naturally derived river ecosystem. | a gram-positive bacterial strain able to degrade the herbicide atrazine was isolated using a simple model ecosystem constituted with japanese riverbed sediment and its associated water (microcosm). treatment of the water phase of the microcosm with 1 mg litre-1 [ring-14c]atrazine resulted in the rapid degradation of atrazine after a 10 day lag phase period. the [ring-14c]cyanuric acid formed was transiently accumulated as an intermediary metabolite in the water phase and was subsequently mineral ... | 2006 | 16493696 |
| a new method for the detection of alkane-monooxygenase homologous genes (alkb) in soils based on pcr-hybridization. | an improved method was developed that allowed the specific detection of the gene alkb (coding for the rubredoxin dependent alkane monooxygenase) from bacteria without any obvious strain specific discrimination using a combination of pcr and hybridization. this approach enabled a fast culture-independent monitoring of environmental samples for the occurrence of alkb, and an estimation of the gene copy number and the genetic diversity. both parameters provide useful informations for an assessment ... | 2006 | 16522338 |
| monitoring of an alkaline 2,4,6-trichlorophenol-degrading enrichment culture by dna fingerprinting methods and isolation of the responsible organism, haloalkaliphilic nocardioides sp. strain m6. | a site situated near alkali lake (oregon) and highly contaminated by chloroaromatic compounds was chosen for isolation of alkaliphilic chlorophenol-degrading bacteria. prolonged cultivation of an enrichment culture followed by successive transfers resulted in a strong increase in the 2,4,6-trichlorophenol (2,4,6-tcp) degradation rate. repetitive extragenic palindromic pcr and amplified ribosomal dna restriction analysis were applied to distinguish members of the enrichment culture and monitor th ... | 1997 | 16535723 |
| characterization of novel carbazole catabolism genes from gram-positive carbazole degrader nocardioides aromaticivorans ic177. | nocardioides aromaticivorans ic177 is a gram-positive carbazole degrader. the genes encoding carbazole degradation (car genes) were cloned into a cosmid clone and sequenced partially to reveal 19 open reading frames. the car genes were clustered into the caraacbabbacad and cardfe gene clusters, encoding the enzymes responsible for the degradation of carbazole to anthranilate and 2-hydroxypenta-2,4-dienoate and of 2-hydroxypenta-2,4-dienoate to pyruvic acid and acetyl coenzyme a, respectively. th ... | 2006 | 16672473 |
| trzn from arthrobacter aurescens tc1 is a zinc amidohydrolase. | trzn, the broad-specificity triazine hydrolase from arthrobacter and nocardioides spp., is reportedly in the amidohydrolase superfamily of metalloenzymes, but previous studies suggested that a metal was not required for activity. to help resolve that conundrum, a double chaperone expression system was used to produce multimilligram quantities of functionally folded, recombinant trzn. the trzn obtained from escherichia coli (trzn) cells cultured with increasing zinc in the growth medium showed co ... | 2006 | 16885454 |
| nocardioides kongjuensis sp. nov., an n-acylhomoserine lactone-degrading bacterium. | a gram-positive, rod- or coccoid-shaped and n-hexanoyl-l-homoserine lactone-degrading bacterial strain, a2-4(t), was isolated from a soil in korea, and its taxonomic position was investigated by using a polyphasic approach. strain a2-4(t) grew optimally at ph 7.0-8.0 and 30 degrees c without nacl. phylogenetic analyses based on 16s rrna gene sequences revealed that strain a2-4(t) is most closely related to members of the genus nocardioides. strain a2-4(t) possessed chemotaxonomic properties indi ... | 2006 | 16902008 |
| actinomycetes in rice straw decomposition. | actinomycetes are well known as lignocellulose decomposers. forty-two cellulolytic actinomycete isolates have been recovered from soil. those were identified to the genus level as: streptomyces (26 isolates), nocardiopsis (5 isolates), micromonospora (4 isolates), nocardioides (4 isolates) in addition to three isolates tentatively identified as nocardia, kibdelosporangium and saccharomonospora. these actinomycetes were examined for their cellulolytic activity using filter paper strips and rice s ... | 2007 | 16919930 |
| microbial population dynamics associated with crude-oil biodegradation in diverse soils. | soil bacterial population dynamics were examined in several crude-oil-contaminated soils to identify those organisms associated with alkane degradation and to assess patterns in microbial response across disparate soils. seven soil types obtained from six geographically distinct areas of the united states (arizona, oregon, indiana, virginia, oklahoma, and montana) were used in controlled contamination experiments containing 2% (wt/wt) crude oil spiked with [1-(14)c]hexadecane. microbial populati ... | 2006 | 16957258 |
| association between the presence of bacterial 16s rna in prostate specimens taken during transurethral resection of prostate and subsequent risk of prostate cancer (sweden). | to study bacterial 16s rna in archival prostate samples from 352 patients with benign prostate hyperplasia (bph) and evaluate whether the presence of bacterial dna was different in those who later developed prostate cancer (n = 171) and in the matched controls that did not progress to cancer (n = 181). | 2006 | 17006718 |
| crystallization and preliminary x-ray diffraction studies of the terminal oxygenase component of carbazole 1,9a-dioxygenase from nocardioides aromaticivorans ic177. | carbazole 1,9a-dioxygenase (cardo) catalyzes the dihydroxylation of carbazole by angular-position (c9a) carbon bonding to the imino nitrogen and its adjacent c1 carbon. cardo consists of a terminal oxygenase component and two electron-transfer components: ferredoxin and ferredoxin reductase. the terminal oxygenase component (43.9 kda) of carbazole 1,9a-dioxygenase from nocardioides aromaticivorans ic177 was crystallized at 293 k using the hanging-drop vapour-diffusion method with peg 8000 as the ... | 2006 | 17142899 |
| gentisate 1,2-dioxygenase from xanthobacter polyaromaticivorans 127w. | a putative gentisate 1,2-dioxygenase was encoded in the dibenzothiophene degradation gene cluster (dbd) from xanthobacter polyaromaticivorans 127w. the deduced amino acid sequence showed high sequence similarity with gentisate dioxygenases from pseudomonas alcaligenes (aad49427, 65% identical), bradyrhizobium japonicum (np_766750, 64%), and p. aeruginosa (zp_00135722, 54%), and moderate similarity with 1-hydroxy-2-naphthoate dioxygenase from nocardioides sp. kp7 (baa31235, 33%) and salicylate di ... | 2007 | 17213679 |
| nocardioides furvisabuli sp. nov., isolated from black sand. | a gram-positive, rod-shaped, yellow-pigmented actinomycete, designated strain sbs-26(t), was isolated from a sample of black sand from samyang beach on jeju island (republic of korea) and was subjected to polyphasic characterization to unravel its taxonomic status. phylogenetic analyses based on 16s rrna gene sequences revealed that the organism belongs to the genus nocardioides but forms a distinct branch at the base of a nocardioides ganghwensis-nocardioides oleivorans cluster. the 16s rrna ge ... | 2007 | 17220437 |
| nocardioides insulae sp. nov., isolated from soil. | a gram-positive, rod-shaped or coccoid bacterial strain, ds-51(t), was isolated from a soil in dokdo, korea, and its taxonomic position was investigated by using a polyphasic approach. strain ds-51(t) grew optimally at ph 8.0 and 30 degrees c without nacl. phylogenetic analyses based on 16s rrna gene sequences showed that strain ds-51(t) forms a distinct line of descent within the radiation enclosed by the genus nocardioides. the chemotaxonomic properties of strain ds-51(t) were consistent with ... | 2007 | 17220455 |
| isolation and characterization of a gene cluster involved in pah degradation in mycobacterium sp. strain snp11: expression in mycobacterium smegmatis mc(2)155. | mycobacterium sp. strain snp11 is able to grow with pyrene, fluoranthene, phenanthrene and fluorene the sole carbon and energy sources. a probe based on the previously described gene pdoa2, which encodes the alpha subunit of a pah ring-hydroxylating dioxygenase in mycobacterium sp. strain 6py1 [s. krivobok et al., identification of pyrene-induced proteins in mycobacterium sp. strain 6py1: evidence for two ring-hydroxylating dioxygenases, j. bacteriol. 185(13) (2003) 3828-3841], was used to isola ... | 2007 | 17258432 |
| mechanism controlling the extended lag period associated with vinyl chloride starvation in nocardioides sp. strain js614. | the extended lag period associated with vinyl chloride (vc) starvation in vc- and ethene-assimilating nocardioides sp. strain js614 was examined. the extended lag periods were variable (3-7 days), only associated with growth on vc or ethene, and were observed in vc- or ethene-grown cultures following 24 h carbon starvation and mid-exponential phase cultures grown on non-alkene carbon sources (e.g. acetate). alkene monooxygenase (akmo) and epoxyalkane:coenzyme m transferase (eacomt) are the initi ... | 2007 | 17308936 |
| 17beta-estradiol-degrading bacteria isolated from activated sludge. | fourteen phylogenetically diverse 17beta-estradiol-degrading bacteria (strains kc1-14) were isolated from activated sludge of a wastewater treatment plant. these isolates widely distributed among eight different genera--aminobacter (strains kc6 and kc7), brevundimonas (strain kc12), escherichia (strain kc13), flavobacterium (strain kc1), microbacterium (strain kc5), nocardioides (strain kc3), rhodococcus (strain kc4), and sphingomonas (strains kc8-kc11 and kc14)--of three phyla: proteobacteria, ... | 2007 | 17310711 |
| isolation and characterization of novel atrazine-degrading microorganisms from an agricultural soil. | six previously undescribed microorganisms capable of atrazine degradation were isolated from an agricultural soil that received repeated exposures of the commonly used herbicides atrazine and acetochlor. these isolates are all gram-positive and group with microorganisms in the genera nocardioides and arthrobacter, both of which contain previously described atrazine degraders. all six isolates were capable of utilizing atrazine as a sole nitrogen source when provided with glucose as a separate ca ... | 2007 | 17318536 |
| granulicoccus phenolivorans gen. nov., sp. nov., a gram-positive, phenol-degrading coccus isolated from phenol-degrading aerobic granules. | a gram-positive bacterium, designated strain pg-02(t), was isolated by serial dilution from aerobic granules obtained from a laboratory-scale sequencing batch reactor for bioremediation of phenolic wastewater. strain pg-02(t) grew axenically as cocci and is an oxidase-negative and catalase-positive, non-motile facultative anaerobe. it does not reduce nitrate and grows between 15 and 37 degrees c, with an optimum temperature of 30 degrees c. the ph range for growth is between 5.0 and 8.5, with an ... | 2007 | 17392196 |
| nocardioides marinus sp. nov. | a gram-positive, slightly halophilic, rod-shaped bacterium, designated cl-dd14(t), was isolated from seawater of the east sea, korea. phylogenetic analyses based on 16s rrna gene sequences indicated that strain cl-dd14(t) belongs to the genus nocardioides. levels of 16s rrna gene sequence similarity between strain cl-dd14(t) and the type strains of recognized species of the genus nocardioides were low (94.1-97.1 %). strain cl-dd14 (t) grew over the ph range 6-9 and temperature range 10-40 degree ... | 2007 | 17392205 |
| identification of polypeptides expressed in response to vinyl chloride, ethene, and epoxyethane in nocardioides sp. strain js614 by using peptide mass fingerprinting. | enzymes expressed in response to vinyl chloride, ethene, and epoxyethane by nocardioides sp. strain js614 were identified by using a peptide mass fingerprinting (pmf) approach. pmf provided insight concerning vinyl chloride biodegradation in strain js614 and extends the use of matrix-assisted laser desorption-ionization time of flight mass spectrometry as a tool to enhance characterization of biodegradation pathways. | 2007 | 17483267 |
| a fermentation product of phytosterol including campestenone reduces body fat storage and body weight gain in mice. | anti-obesity effects of a fermentation product of phytosterols including campestenone in icr mice were investigated. five-week-old male icr mice were fed by the pair-feeding method for 8 wk. experimental feed was prepared by adding to-001, a phytostenone mixture produced by fermentation of phytosterols using nocardioides simplex, at 0.25, 0.5, 1.0, or 2.0% or no additive to a high fat diet (fat 20%). mice fed a stock feed (fat 5.6%) ad libitum were used as the standard growth group. in animals f ... | 2007 | 17484382 |
| marmoricola aequoreus sp. nov., a novel actinobacterium isolated from marine sediment. | a yellow-coloured, marine actinobacterium, designated sst-45(t), was isolated from sandy sediment under the surface of a beach and taxonomically characterized by physiological, chemotaxonomic and phylogenetic methods. the cells of the isolate were gram-positive, aerobic, non-sporulating, non-motile, spherical cells that occurred singly, in pairs, in clusters or as short chains. the isolate grew at 10-37 degrees c, an initial ph 5.1-12.1 and in the presence of 5 % (w/v) nacl. the organism possess ... | 2007 | 17625163 |
| nocardioides panacihumi sp. nov., isolated from soil of a ginseng field. | a novel bacterial strain designated gsoil 616(t) was isolated from a soil sample of a ginseng field in pocheon province (south korea) and was characterized taxonomically by using a polyphasic approach. the isolate was gram-positive, strictly aerobic, non-motile, non-spore-forming and rod- or coccoid-shaped. phylogenetic analysis based on 16s rrna gene sequences indicated that the isolate belongs to the genus nocardioides in the family nocardioidaceae but was clearly separated from established sp ... | 2007 | 17766888 |
| crystallization and preliminary crystallographic analysis of the ferredoxin component of carbazole 1,9a-dioxygenase from nocardioides aromaticivorans ic177. | carbazole 1,9a-dioxygenase (cardo) catalyzes the dihydroxylation of carbazole by angular position (c9a) carbon bonding to the imino nitrogen and its adjacent c1 carbon. cardo consists of a terminal oxygenase component and two electron-transfer components: ferredoxin and ferredoxin reductase. the ferredoxin component of carbazole 1,9a-dioxygenase from nocardioides aromaticivorans ic177 was crystallized at 293 k using the hanging-drop vapour-diffusion method with ammonium sulfate as the precipitan ... | 2007 | 17909288 |
| utilization of fluoroethene as a surrogate for aerobic vinyl chloride transformation. | fluoroethene (fe) is a stable molecule in aqueous solution and its aerobic transformation potentially yields f-. this work evaluated if fe is a suitable surrogate for monitoring aerobic vinyl chloride (vc) utilization or cometabolic transformation. experiments were carried out with three isolates, mycobacterium strain ee13a, mycobacterium strain js60, and nocardioides strain js614 to evaluate if their affinities for fe and vc and their rates of transformation were comparable and whether the tran ... | 2007 | 17948782 |
| nocardioides terrigena sp. nov., isolated from soil. | a gram-positive, rod- or coccoid-shaped bacterial strain, ds-17t, was isolated from a soil in dokdo, korea, and its taxonomic position was investigated by using a polyphasic approach. strain ds-17t grew optimally at around ph 8.0 and 30 degrees c in the presence of 0.5-1.0% (w/v) nacl. phylogenetic analyses based on 16s rrna gene sequences showed that strain ds-17t belonged to the genus nocardioides. the chemotaxonomic properties of strain ds-17t were consistent with those of the genus nocardioi ... | 2007 | 17978202 |
| nocardioides marinisabuli sp. nov., a novel actinobacterium isolated from beach sand. | the taxonomic position of a novel actinobacterium (designated sbs-12(t)), which was isolated from beach sand on jeju island, republic of korea, was determined following a polyphasic taxonomic characterization. cells of the organism were gram-positive, catalase-positive, oxidase-negative and non-motile rods. the organism contained ll-diaminopimelic acid in the cell-wall peptidoglycan and mk-8(h(4)) as predominant menaquinone, and had a polar lipid profile containing phosphatidylglycerol and phosp ... | 2007 | 18048757 |
| two closely related pathways of nicotine catabolism in arthrobacter nicotinovorans and nocardioides sp. strain js614. | a virtually identical nicotine catabolic pathway including the heterotrimeric molybdenum enzyme nicotine and 6-hydroxy-pseudo-oxynicotine dehydrogenase, 6-hydroxy-l: -nicotine oxidase, 2,6-dihydroxy-pseudo-oxynicotine hydrolase, and 2,6-dihydroxypyridine hydroxylase have been identified in a. nicotinovorans and nocardioides sp. js614. enzymes catalyzing the same reactions and similar protein antigens were detected in the extracts of the two microorganisms. nicotine blue and methylamine, two end ... | 2008 | 18071673 |
| nocardioides islandiensis sp. nov., isolated from soil in bigeum island korea. | a novel actinobacterium designated as msl-26(t) was isolated from soil in bigeum island korea. a polyphasic study was undertaken to establish the taxonomic position of isolate msl-26(t). strain msl-26(t) was found to have chemical and morphological characteristics similar to nocardioides. the strain grew optimally at ph 7.5 and 28 degrees c. phylogenetic analysis based on 16s rrna gene sequences showed that strain msl-26(t) forms a distinct line of descent within the radiation enclosed by the ge ... | 2008 | 18071922 |
| nocardioides daphniae sp. nov., isolated from daphnia cucullata (crustacea: cladocera). | a gram-positive, rod-shaped or coccoid, yellow-pigmented bacterial strain, d287(t), was isolated from the water flea daphnia cucullata (crustacea: cladocera) collected from lake balaton in hungary. phylogenetic analysis on the basis of 16s rrna gene sequence comparisons revealed that the strain represented a distinct lineage within the cluster of the genera nocardioides and marmoricola. the following characteristics were consistent with the affiliation of strain d287(t) to the genus nocardioides ... | 2008 | 18175687 |
| physiological and phylogenetic characterization of a novel lithoautotrophic nitrite-oxidizing bacterium, 'candidatus nitrospira bockiana'. | a new isolate of a lithoautotrophic nitrite-oxidizing bacterium was obtained from internal corrosion deposits from a steel pipeline of the moscow heating system. the organism oxidized nitrite as the sole energy source and fixed carbon dioxide as the only carbon source. the cells were extremely pleomorphic: loosely wound spirals, slightly curved and even straight rods were detected, as well as coccoid cells. the highest rate of nitrite consumption (1.5 mm nitrite as substrate) was measured at 42 ... | 2008 | 18175716 |
| nocardioides hwasunensis sp. nov. | two novel actinomycete strains, designated hfw-18 and hfw-21(t), were isolated from a water sample around hwasun beach on the coast of jeju island, republic of korea. the cells of the organisms were aerobic, gram-positive, non-motile rods. the temperature and initial ph ranges for growth were 4-37 degrees c and ph 5.1-9.1, respectively. they had ll-diaminopimelic acid in their cell-wall peptidoglycan, mk-8(h(4)) as the major menaquinone and dna g+c contents of 71.1-72.2 mol%. the cellular fatty ... | 2008 | 18175721 |
| nocardioides halotolerans sp. nov., isolated from soil on bigeum island, korea. | a strictly aerobic, gram-positive, motile, coccoid-shaped, halotolerant actinobacterium (10% nacl, w/v), designated msl-23t, was isolated from a soil sample on bigeum island, korea. results of 16s rrna gene sequence analysis indicated that the isolate belonged to the genus nocardioides, with the highest sequence similarity (95.63%) being to nocardioides kribbensis kctc 19038t. the major menaquinone was mk-8(h4), and the predominant cellular fatty acids were i-c16:0, ai-c17:0, c18:1 omega 9c and ... | 2008 | 18191931 |
| nocardioides hankookensis sp. nov., isolated from soil. | a gram-positive, non-motile, rod-shaped bacterial strain, ds-30(t), was isolated from soil from dokdo, korea, and its taxonomic position was investigated by means of a polyphasic study. strain ds-30(t) grew optimally at ph 6.0-7.0 and 25 degrees c in the presence of 0-0.5 % (w/v) nacl. a phylogenetic analysis based on 16s rrna gene sequences showed that strain ds-30(t) fell within the genus nocardioides, forming a coherent cluster with the type strains of nocardioides aquiterrae and nocardioides ... | 2008 | 18218945 |
| kribbella hippodromi sp. nov., isolated from soil from a racecourse in south africa. | a novel actinomycete, designated strain s1.4(t), was isolated from a soil sample collected from kenilworth racecourse in the western cape, south africa. the strain was able to grow in the presence of 5 % nacl. it contained ll-diaminopimelic acid and glycine in the cell-wall peptidoglycan with glucose present in the whole-cell sugar profile. strain s1.4(t) was shown to be a member of either the genus kribbella or the genus nocardioides based on a rapid molecular identification method by using sin ... | 2008 | 18218947 |
| thermodynamic redox properties governing the half-reduction characteristics of histamine dehydrogenase from nocardioides simplex. | histamine dehydrogenase from nocardioides simplex is a homodimer and belongs to the family of iron-sulfur flavoproteins having one [4fe-4s] cluster and one 6-s-cysteinyl fmn per monomer. in the reductive titration with histamine, two-electron reduction occurred per monomer at ph<9, while single-electron reduction proceeded at ph>9. the substrate-reduced histamine dehydrogenase yielded an electron paramagnetic resonance spectral signal assigned to the flavin semiquinone. the signal intensity incr ... | 2008 | 18323648 |
| real-time pcr quantification of pah-ring hydroxylating dioxygenase (pah-rhdalpha) genes from gram positive and gram negative bacteria in soil and sediment samples. | real-time pcr based assays were developed to quantify gram positive (gp) and gram negative (gn) bacterial populations that are capable of degrading the polycyclic aromatic hydrocarbons (pah) in soil and sediment samples with contrasting contamination levels. these specific and sensitive real-time pcr assays were based on the quantification of the copy number of the gene that encodes the alpha subunit of the pah-ring hydroxylating dioxygenases (pah-rhdalpha), involved in the initial step of the a ... | 2008 | 18329116 |
| nocardioides dilutes sp. nov. isolated from soil in bigeum island, korea. | a short coccoid-rod-shaped, nonmotile actinobacteria strain msl-11t was isolated from soil in bigeum island, korea. a polyphasic study was undertaken to establish the taxonomic position of this strain. phylogenetic analysis based on the 16s rrna gene sequence revealed that strain msl-11t forms an evolutionary lineage within the radiation of the genus nocardioides. the cell wall peptidoglycan of strain msl-11t contained ll-diaminopimelic acid, indicating wall chemotype i. the predominant menaquin ... | 2008 | 18363057 |
| selection and identification of bacterial strains with methyl-tert-butyl ether, ethyl-tert-butyl ether, and tert-amyl methyl ether degrading capacities. | nine bacterial strains isolated from two hydrocarbon-contaminated soils were selected because of their capacity for growth in culture media amended with 200 mg/l of one of the following gasoline oxygenates: methyl-tert-butyl ether (mtbe), ethyl-tert-butyl ether (etbe), and tert-amyl methyl ether (tame). these strains were identified by amplification of their 16s rrna gene, using fdl and rd1 primers, and were tested for their capacity to grow and biotransform these oxygenates in both mineral and ... | 2008 | 18522454 |
| fermentation and isolation of c10-deacetylase for the production of 10-deacetylbaccatin iii from baccatin iii. | 10-deacetylabaccatin iii (10 dab), an important precursor for paclitaxel semisynthesis, is enhanced in yew extracts using c10-deacetylase and c13-deacylase enzymes.(4) c10-deacetylase is an intracellular enzyme produced by the fermentation of a soil microorganism, nocardioides luteus (sc 13912). during the fermentation of nocardioides luteus, the growth of cells reaches a maximum growth at 28 h. c10-deacetylase enzyme activity starts at 26 h and peaks at 38 h of the fermentation. the cells are r ... | 1995 | 18623520 |
| isolation of dibenzofuran-degrading bacterium, nocardioides sp. df412, and characterization of its dibenzofuran degradation genes. | a dibenzofuran (df)-degrading bacterium, nocardioides sp. df412, was isolated and its genes responsible for the degradation of df were cloned and characterized. the dfda1a2a3a4 gene cluster coding for a ring hydroxylating dioxygenase was located on a plasmid, and the dfdbc gene cluster coding for a ring-cleavage dioxygenase and a following hydrolase respectively was located on the chromosome. reverse transcription-pcr analysis revealed that the transcription of both gene clusters was induced in ... | 2008 | 18640602 |
| nocardioides tritolerans sp. nov., isolated from soil in bigeum island, korea. | a gram-positive strain designated as msl-14t isolated from a soil sample collected from bigeum island, korea, was subjected to polyphasic taxonomy. the isolate was strictly aerobic. cells were short rods and motile. optimum growth temperature and ph was 28 degrees c and 7.0, respectively. it was characterized chemotaxonomically as having a cell-wall peptidoglycan type based on ll-2,6-diaminopimelic acid and mk-8(h4) as the predominant menaquinone. the major fatty acids were iso-c16:0, c17:1 omeg ... | 2008 | 18667846 |
| different substrate specificities of two triazine hydrolases (trzns) from nocardioides species. | nocardioides sp. strain mtd22 degraded atrazine, ametryn and atraton, as did arthrobacter aurescens strain tc1 and nocardioides sp. strain c190. these strains contain trzn, a gene coding for trzn, triazine hydrolase showing a broad substrate range. however, nocardioides sp. strain an3 degraded only atrazine despite containing trzn. these differences in s-triazine degradation are presumed to be due to differences in the amino acid sequences of trzns. consequently, 1371 nucleotides of the trzn cod ... | 2008 | 18671800 |
| nocardioides fonticola sp. nov., a novel actinomycete isolated from spring water. | a gram-positive, rod-shaped, yellow-pigmented actinomycete, designated strain naa-13t, was isolated from a freshwater spring located in kaoshiung, southern taiwan. this strain was characterized using a polyphasic taxonomic approach. the organism had chemotaxonomic and morphological properties consistent with its classification in the genus nocardioides. the strain contained ll-diaminopimelic acid as the principal diamino acid of the peptidoglycan, mk-8(h4) as the major menaquinone, and iso-c16:0 ... | 2008 | 18676470 |
| expression, purification, crystallization and preliminary x-ray studies of histamine dehydrogenase from nocardioides simplex. | histamine dehydrogenase (hadh) from nocardioides simplex catalyzes the oxidative deamination of histamine to produce imidazole acetaldehyde and an ammonium ion. hadh is functionally related to trimethylamine dehydrogenase (tmadh), but hadh has strict substrate specificity towards histamine. hadh is a homodimer, with each 76 kda subunit containing two redox cofactors: a [4fe-4s] cluster and an unusual covalently bound flavin mononucleotide, 6-s-cysteinyl-fmn. in order to understand the substrate ... | 2008 | 18765904 |
| nocardioides salarius sp. nov., isolated from seawater enriched with zooplankton. | a rod-shaped marine bacterium, designated cl-z59(t), was isolated from seawater enriched with zooplankton. phylogenetic analyses based on 16s rrna gene sequences showed that strain cl-z59(t) belongs to the genus nocardioides, the highest level of sequence similarity (99.2%) being found with respect to nocardioides marinisabuli kccm 42681(t). however, dna-dna hybridization experiments between strain cl-z59(t) and n. marinisabuli kccm 42681(t) revealed a mean relatedness value of 33%. cells were g ... | 2008 | 18768604 |
| nocardioides koreensis sp. nov., nocardioides bigeumensis sp. nov. and nocardioides agariphilus sp. nov., isolated from soil from bigeum island, korea. | three gram-positive, coccoid to rod-shaped actinobacteria, designated strains msl-09(t), msl-19(t) and msl-28(t), were isolated from a soil sample collected from bigeum island in korea, and were subjected to a polyphasic taxonomic analysis. all three isolates grew optimally at ph 7.5-9.0 and 28-30 degrees c. 16s rrna gene analysis revealed that all three strains belonged to the genus nocardioides, with strains msl-09(t), msl-19(t) and msl-28(t) respectively showing the highest sequence similarit ... | 2008 | 18842843 |
| nocardioides dokdonensis sp. nov., an actinomycete isolated from sand sediment. | a strictly aerobic, non-motile, short rod-shaped actinomycete, designated strain fr1436(t), was isolated from sand sediment from a beach on dokdo island, republic of korea. the major menaquinone was mk-8(h(4)), the predominant cellular fatty acid was iso-c(16 : 0) (40.4 %) and the g+c content of the dna was 69.1 mol%. a phylogenetic tree based on 16s rrna gene sequences showed that strain fr1436(t) formed a lineage within the genus nocardioides and was closely related to nocardioides marinisabul ... | 2008 | 18984703 |
| nocardioides basaltis sp. nov., isolated from black beach sand. | a novel gram-positive, aerobic, short-rod-shaped bacterium, designated strain j112t, was isolated from black sand collected from soesoggak, jeju island, korea. the strain was found to be oxidase-negative and catalase-positive. cells grew at 10-37 degrees c, at ph 5.5-8.0 and with 1-10 % nacl. growth occurred on marine agar but not on r2a or trypticase soy agar. a phylogenetic analysis based on 16s rrna gene sequences showed that the strain belongs to the radiation of the genus nocardioides. stra ... | 2009 | 19126721 |
| nocardioides sediminis sp. nov., isolated from a sediment sample. | a strictly aerobic, motile, short-rod-shaped, gram-positive-staining actinomycete strain, designated msl-01(t), was isolated from a sediment sample from bigeum island of korea. 16s rrna gene sequence analysis revealed that the isolate msl-01(t) belonged to the genus nocardioides, with the highest sequence similarity to nocardioides terrigena ds-17(t) (98.54 %), but the dna-dna relatedness to this type strain was 34 %. the physiological properties of strain msl-01(t) differ from those of nocardio ... | 2009 | 19196766 |
| new alk genes detected in antarctic marine sediments. | alkane monooxygenases (alk) are the key enzymes for alkane degradation. in order to understand the dispersion and diversity of alk genes in antarctic marine environments, this study analysed by clone libraries the presence and diversity of alk genes (alkb and alkm) in sediments from admiralty bay, king george island, peninsula antarctica. the results show a differential distribution of alk genes between the sites, and the predominant presence of new alk genes, mainly in the pristine site. sequen ... | 2009 | 19207566 |
| molecular characterization and antifungal activity of a family 46 chitosanase from amycolatopsis sp. cso-2. | an actinomycete strain, amycolatopsis sp. cso-2, produces a 27-kda chitosanase. to reveal the molecular characteristics of the enzyme, its corresponding gene ctoa was cloned by a reverse genetic technique, based on the n-terminal amino acid sequence of the protein. the encoded ctoa protein was deduced to be composed of 286 amino acids, including a putative signal peptide (1-48), and exhibited 83% identity in the amino acid sequence with the family 46 chitosanases from streptomyces sp. n174 or no ... | 2009 | 19236484 |
| characterization of a transcriptional regulatory gene involved in dibenzofuran degradation by nocardioides sp. strain df412. | nocardioides sp. df412 degrades dibenzofuran (df) to salicylate through the sequential actions of df dioxygenase (dfda), extradiol dioxygenase (dfdb), and hydrolase (dfdc). the involvement of a tetr-type regulator gene dfds in the dfdb and dfds gene expression was investigated. a reporter assay using a luciferase gene indicated repression of dfdb and dfds promoter activities in the presence of the dfds gene product, dfds. gel shift analysis indicated specific binding of dfds to the dfdb promoter ... | 2009 | 19270370 |
| phylogenetic analysis of actinobacterial populations associated with antarctic dry valley mineral soils. | despite the apparent severity of the environmental conditions in the mcmurdo dry valleys, eastern antarctica, recent phylogenetic studies conducted on mineral soil samples have revealed the presence of a wide diversity of microorganisms, with actinobacteria representing one of the largest phylotypic groups. previous metagenomic studies have shown that the majority of antarctic actinobacterial populations are classified as 'uncultured'. in this study, we assessed the diversity of actinobacteria i ... | 2009 | 19278445 |
| the most-probable-number enumeration of dichlobenil and 2,6-dichlorobenzamide (bam) degrading microbes in finnish aquifers. | in groundwater subsurface deposits and a topsoil from five aquifers having 2,6-dichlorobenzamide (bam) in water, we determined the most-probable-number (mpn) of 2,6-dichlorobenzonitrile (dichlobenil) and metabolite bam degrading microorganisms. dichlobenil and bam were combined nitrogen sources in the mpn tubes, which were scored positive at concentrations <75% after 1 month incubation. aerobic and anaerobic microbes degrading dichlobenil and bam were common in samples in low numbers of 3.6-210 ... | 2009 | 19326247 |
| actinomycetes and earthy-musty odorous compounds in brackish fishponds in tianjin, china. | the presence of the odorous compounds, 2-methylisoborneol (mib) and geosmin, as well as causative microorganisms in brackish intensive cultivation fishponds in tianjin, china that had a severe earthy-musty odor were evaluated. the results revealed that mib was the primary odorous compound present in the tianjin fishponds, with a concentration ranging from 0.53-5302.7 ng.l(-1). furthermore, the concentration of mib was found to be closely correlated with the gross biomass of actinomycetes in the ... | 2009 | 19342815 |
| study of the effects of urban organic residues on the distribution of culturable actinomycetes in a tunisian agricultural soil. | the main objective of this investigation was to identify a collection of actinomycetes isolates and to study the influence of amendment [municipal solid waste compost (mswc) and farmyard manure (fm)] on their distribution in agricultural soil. for this purpose, a phenotypic and molecular characterization of 226 isolates collected from soil (with and without amendment) and 55 isolates from mswc and fm was developed. the phenotypic study showed that the majority of strains isolated belong to the g ... | 2009 | 19423577 |
| aerobic mineralization of hexachlorobenzene by newly isolated pentachloronitrobenzene-degrading nocardioides sp. strain pd653. | a novel aerobic pentachloronitrobenzene-degrading bacterium, nocardioides sp. strain pd653, was isolated from an enrichment culture in a soil-charcoal perfusion system. the bacterium also degraded hexachlorobenzene, a highly recalcitrant environmental pollutant, accompanying the generation of chloride ions. liberation of (14)co(2) from [u-ring-(14)c]hexachlorobenzene was detected in a culture of the bacterium and indicates that strain pd653 is able to mineralize hexachlorobenzene under aerobic c ... | 2009 | 19429557 |
| gaseous alkene biotransformation and enantioselective epoxyalkane formation by nocardioides sp. strain js614. | enantiopure epoxides are valuable intermediates in the synthesis of optically pure biologically active fine chemicals (e.g., pharmaceuticals) that are often difficult to produce by chemical approaches. an attractive alternative is biological synthesis by microorganisms expressing stereoselective enzymes. in this study, we investigated the ability of ethene-grown nocardioides sp. strain js614 to produce highly enantio-enriched epoxyalkanes via stereoselective monooxygenase-mediated alkene epoxida ... | 2009 | 19430773 |
| bioweathering and biotransformation of granitic rock minerals by actinomycetes. | actinomycetes inhabiting granitic rocks at st. katherine, egypt were investigated for their bioweathering potential. actinomycete counts ranged between 174 and 360 colony forming units per gram. counts were positively correlated to rock porosity (r = 0.65) and negatively correlated to rock salinity (r = -0.56). sixty-six actinomycete isolates originating from rocks could be assigned into eight genera, with a high frequency of nocardioides and streptomyces. organic acids were produced by 97% of t ... | 2009 | 19590809 |
| complete biodegradation of atrazine by a microbial community isolated from a naturally derived river ecosystem (microcosm). | a microbial community, designated as an4, capable of mineralizing the herbicide atrazine was isolated from a model river ecosystem (microcosm). the profile of degradation of atrazine by the an4 community seemed to well reflect what occurred in the microcosm: rapid degradation of atrazine and transient accumulation of cyanuric acid, followed by relatively slow mineralization. the community comprised multiple phylogenetically distinct microbial strains, and the microbes were suspended and probably ... | 2009 | 19596136 |
| specific interactions between the ferredoxin and terminal oxygenase components of a class iib rieske nonheme iron oxygenase, carbazole 1,9a-dioxygenase. | carbazole 1,9a-dioxygenase (cardo) consists of terminal oxygenase (oxy), ferredoxin (fd), and ferredoxin reductase (red) components and is a member of the rieske nonheme iron oxygenases. rieske nonheme iron oxygenases are divided into five subclasses (ia, ib, iia, iib, and iii) based on the number of constituents and the nature of their redox centers. each component of a class iib cardo from nocardioides aromaticivorans ic177 was purified, and the interchangeability of the electron transfer reac ... | 2009 | 19616558 |
| nocardioides terrae sp. nov., isolated from forest soil. | bacterial strain va15(t) was isolated from forest soil of the changbai mountains, heilongjiang province, china. cells of strain va15(t) were gram-positive-staining, 0.2-0.3 mum in diameter and 0.3-1.0 mum long, strictly aerobic, non-motile and rod-shaped or coccoid. growth occurred at 16-34 degrees c (optimum, 29 degrees c), at ph 5.5-8.5 (optimum, ph 6.2-6.5) and in the presence of 0-1 % (w/v) nacl (optimum, 0-0.25 %). strain va15(t) contained mk-8(h(4)) as the major respiratory quinone and ll- ... | 2009 | 19622661 |
| nocardioides humi sp. nov., a beta-glucosidase-producing bacterium isolated from soil of a ginseng field. | strain dcy24(t), a gram-reaction-positive, aerobic, rod-shaped, motile bacterium, was isolated from soil of a ginseng field in south korea. according to 16s rrna gene sequence analysis, it was closely related to nocardioides aromaticivorans dsm 15131(t) (95.1 % similarity), nocardioides simplex kctc 9106(t) (95.0 %), nocardioides nitrophenolicus dsm 15529(t) (94.8 %) and nocardioides kongjuensis dsm 19082(t) (94.7 %). chemotaxonomic data revealed that strain dcy24(t) possessed mk-8(h(4)) as the ... | 2009 | 19625430 |
| nocardioides caeni sp. nov., isolated from wastewater. | a gram-positive, non-motile, rod- or coccoid-shaped bacterial strain, designated mn8(t), was isolated from sludge of domestic wastewater in korea, and its taxonomic position was investigated by use of a polyphasic study. strain mn8(t) grew optimally at ph 6.5-7.5 and 30 degrees c and in the presence of 0-0.5 % (w/v) nacl. phylogenetic analysis based on 16s rrna gene sequences showed that strain mn8(t) fell within the cluster comprising nocardioides species, clustering with nocardioides simplex k ... | 2009 | 19628618 |
| nocardioides ginsengisoli sp. nov., isolated from soil of a ginseng field. | a gram-positive, rod-shaped, non-spore-forming bacterium (gsoil 1124(t)) was isolated from soil of a ginseng field of pocheon province in south korea, and was characterized in order to determine its taxonomic position. on the basis of 16s rrna gene sequence similarity, strain gsoil 1124(t) was shown to belong to the family nocardioidaceae and related to nocardioides simplex (98.2 % 16s rrna gene sequence similarity), nocardioides aromaticivorans (98.1 %), nocardioides nitrophenolicus (97.7 %) an ... | 2009 | 19643897 |
| nocardioides panacisoli sp. nov., isolated from the soil of a ginseng field. | a gram-positive, rod-shaped, non-spore-forming bacterium (gsoil 346(t)) was isolated from the soil of a ginseng field in south korea and was characterized in order to determine its taxonomic position. on the basis of 16s rrna gene sequences, strain gsoil 346(t) was shown to belong to the genus nocardioides in the family nocardioidaceae, with the most closely related species being nocardioides aquiterrae gw-9(t) (96.6 % 16s rrna gene sequence similarity); however, the strain clustered in a distin ... | 2010 | 19651712 |
| nocardioides daedukensis sp. nov., a halotolerant bacterium isolated from soil. | a gram-positive, non-motile and rod- or coccoid-shaped bacterial strain, mdn22(t), was isolated from a soil sample from korea. strain mdn22(t) grew optimally at ph 7.0-8.0, at 30 degrees c and in the presence of 0-0.5 % (w/v) nacl. phylogenetic analyses based on 16s rrna gene sequences showed that strain mdn22(t) was phylogenetically most closely related to the genera nocardioides and marmoricola. in the neighbour-joining phylogenetic tree, strain mdn22(t) was most closely related to nocardioide ... | 2010 | 19667373 |
| aromatic hydrocarbon degradation genes from chronically polluted subantarctic marine sediments. | the goal of this study was to identify functional targets to detect polycyclic aromatic hydrocarbon (pah)-degrading bacterial populations in cold marine ecosystems. | 2009 | 19780966 |
| site-directed mutation at residues near the catalytic site of histamine dehydrogenase from nocardioides simplex and its effects on substrate inhibition. | histamine dehydrogenase from nocardioides simplex (nhmdh) is a homodimer containing one 6-s-cysteinyl fmn (cfmn) and one [4fe-4s] cluster per monomer. nhmdh catalyses the oxidative deamination of histamine to ammonia and imidazole acetaldehyde, but histamine inhibits its catalytic activity at high concentrations. we mutated gene-encoded residues (tyr180, gly268 and asp269) near cfmn to understand the biophysical meaning of the substrate inhibition. three mutants y180f, g268d/d269c and y180f/g268 ... | 2010 | 19846434 |
| nocardioides mesophilus sp. nov., isolated from soil. | a short coccoid- to rod-shaped, motile, mesophilic actinobacterium, strain msl-22(t), was isolated from soil on bigeum island, korea. a polyphasic study was undertaken to establish the taxonomic position of this strain. phylogenetic analysis based on 16s rrna gene sequences revealed that strain msl-22(t) formed an evolutionary lineage within the radiation of the genus nocardioides. in particular, it formed a monophyletic lineage with nocardioides jensenii kctc 9134(t) with which it shared the hi ... | 2010 | 19915109 |
| mineralization of s-triazine herbicides by a newly isolated nocardioides species strain dn36. | a novel s-triazine-mineralizing bacterium-nocardioides sp. strain dn36-was isolated from paddy field soil treated with ring-u-(14)c-labeled simetryn ([(14)c]simetryn) in a model paddy ecosystem (microcosm). in a tenfold-diluted r2a medium, strain dn36 liberated (14)co(2) from not only [(14)c]simetryn but also three ring-u-(14)c-labeled s-triazines: atrazine, simazine, and propazine. we found that dn36 mineralized ring-u-(14)c-cyanuric acid added as an initial substrate, indicating that the bacte ... | 2010 | 20169342 |
| nocardioides caricicola sp. nov., an endophytic bacterium isolated from a halophyte, carex scabrifolia steud. | a gram-staining-positive, coccoid to rod-shaped bacterium, designated strain yc6903(t), was isolated from a halophytic plant (carex scabrifolia steud.) collected from sand dunes at namhae island, korea, and its taxonomic position was investigated by using a polyphasic approach. strain yc6903(t) grew optimally at 30 °c and at ph 8.0. phylogenetic analysis based on 16s rrna gene sequences indicated that strain yc6903(t) belongs to the genus nocardioides in the family nocardioidaceae. strain yc6903 ... | 2011 | 20173009 |
| cloning and biochemical characterization of a novel carbendazim (methyl-1h-benzimidazol-2-ylcarbamate)-hydrolyzing esterase from the newly isolated nocardioides sp. strain sg-4g and its potential for use in enzymatic bioremediation. | a highly efficient carbendazim (methyl-1h-benzimidazol-2-ylcarbamate, or mbc)-mineralizing bacterium was isolated from enrichment cultures originating from mbc-contaminated soil samples. this bacterium, nocardioides sp. strain sg-4g, hydrolyzed mbc to 2-aminobenzimidazole, which in turn was converted to the previously unknown metabolite 2-hydroxybenzimidazole. the initial steps of this novel metabolic pathway were confirmed by growth and enzyme assays and liquid chromatography-mass spectrometry ... | 2010 | 20228105 |
| stopped flow kinetic studies on reductive half-reaction of histamine dehydrogenase from nocardioides simplex with histamine. | histamine dehydrogenase from nocardioides simplex (hmdh) which catalyzes the oxidative deamination of histamine is an iron-sulphur-containing flavoprotein. for our further understanding on the intramolecular electron transfer process, the reductive half reaction of hmdh with histamine has been studied by stopped flow spectrophotometry at ph 7.5 and 10. the reaction at ph 7.5 is found to be analysed on a kinetic model composed of three sequential first-order reactions. the first fast phase, of wh ... | 2010 | 20305273 |
| nocardioides hungaricus sp. nov., isolated from a drinking water supply system. | three gram-positive, rod-shaped bacterial strains were isolated from the drinking water supply system of the hungarian capital, budapest. phylogenetic analysis on the basis of 16s rrna gene sequence comparison revealed that the isolates represented a distinct cluster within the clade of the genus nocardioides and were most closely related to nocardioides pyridinolyticus os4(t), nocardioides aquiterrae gw-9(t), nocardioides sediminis msl-01(t) and n. hankookensis ds-30(t). the peptidoglycan based ... | 2011 | 20382790 |
| culture-dependent and culture-independent diversity of actinobacteria associated with the marine sponge hymeniacidon perleve from the south china sea. | in this report, the diversity of actinobacteria associated with the marine sponge hymeniacidon perleve collected from a remote island of the south china sea was investigated employing classical cultivation and characterization, 16s rdna library construction, 16s rdna-restriction fragment length polymorphism (rdna-rflp) and phylogenetic analysis. a total of 184 strains were isolated using seven different media and 24 isolates were selected according to their morphological characteristics for phyl ... | 2010 | 20383659 |
| crystal structure of histamine dehydrogenase from nocardioides simplex. | histamine dehydrogenase (hadh) isolated from nocardioides simplex catalyzes the oxidative deamination of histamine to imidazole acetaldehyde. hadh is highly specific for histamine, and we are interested in understanding the recognition mode of histamine in its active site. we describe the first crystal structure of a recombinant form of hadh (hadh) to 2.7-a resolution. hadh is a homodimer, where each 76-kda subunit contains an iron-sulfur cluster ([4fe-4s](2+)) and a 6-s-cysteinyl flavin mononuc ... | 2010 | 20538584 |
| extending the alkene substrate range of vinyl chloride utilizing nocardioides sp. strain js614 with ethene oxide. | nocardioides sp. strain js614 grows on the c(2) alkenes ethene (eth), vinyl chloride, and vinyl fluoride as sole carbon sources. the presence of 400-800 microm ethene oxide (eto) extended the growth substrate range to propene (c(3)) and butene (c(4)). propene-dependent growth of js614 was co(2) dependent and was prevented by the carboxylase/reductase inhibitor 2-bromoethanesulfonic acid, sodium salt (bes), while growth on eth was not co(2) dependent or bes sensitive. although unable to promote g ... | 2010 | 20582588 |
| prevalence of the gene trzn and biogeographic patterns among atrazine-degrading bacteria isolated from 13 colombian agricultural soils. | the following study evaluated the diversity and biogeography of 83 new atrazine-degrading bacteria and the composition of their atrazine degradation genes. these strains were isolated from 13 agricultural soils and grouped according to rep-pcr genomic fingerprinting into 11 major clusters, which showed biogeographic patterns. three clusters (54 strains) belonged to the genus arthrobacter, seven clusters (28 strains) were similar to the genus nocardioides and only one strain was a gram-negative f ... | 2010 | 20597985 |
| x-ray structure and mutational analysis of the atrazine chlorohydrolase trzn. | atrazine chlorohydrolase, trzn (triazine hydrolase or atrazine chlorohydrolase 2), initiates bacterial metabolism of the herbicide atrazine by hydrolytic displacement of a chlorine substituent from the s-triazine ring. the present study describes crystal structures and reactivity of wild-type and active site mutant trzn enzymes. the homodimer native enzyme structure, solved to 1.40 å resolution, is a (βα)(8) barrel, characteristic of members of the amidohydrolase superfamily. trzn uniquely posit ... | 2010 | 20659898 |
| phaseolus vulgaris seed-borne endophytic community with novel bacterial species such as rhizobium endophyticum sp. nov. | the bacterial endophytic community present in different phaseolus vulgaris (bean) cultivars was analyzed by 16s ribosomal rna gene sequences of cultured isolates derived from surface disinfected roots and immature seeds. isolated endophytes from tissue-macerates belonged to over 50 species in 24 different genera and some isolates from acinetobacter, bacillus, enterococcus, nocardioides, paracoccus, phyllobacterium, and sphingomonas seem to correspond to new lineages. phytate solubilizing bacteri ... | 2010 | 20822874 |
| nocardioides ultiminferus sp. nov. and nocardioides maradoensis sp. nov., isolated from rhizosphere soil. | two novel gram-positive, rod-shaped actinomycete strains, designated rp-b26t and rp-b30t, were isolated from rhizosphere soil of a cliff-associated plant (peucedanum japonicum thunb.) which was collected from mara island, republic of korea. the colonies of cells were circular, smooth, convex and moderate or light yellow in colour. 16s rrna gene sequence analysis revealed that the isolates belong to the family nocardioidaceae and formed two distinct sublineages with the radiation of the genus noc ... | 2010 | 20833879 |
| degradation of cresols by phenol-acclimated aerobic granules. | high-strength cresol isomers were treated with phenol-acclimated granules in batch experiments. the aerobic granules effectively metabolized cresol isomers at concentrations up to 1,500 mg l(-1). the modified haldane kinetic model, used to assess the kinetic behavior during cresol degradation by granule cells, yielded a high maximum specific growth rate (1.13-1.45 h(-1)) and inhibition constant (617-952 mg l(-1)). the microbial community structure, which was stable under cresol stress, was princ ... | 2011 | 20852993 |
| nocardioides sp. strain wsn05-2, isolated from a wheat field, degrades deoxynivalenol, producing the novel intermediate 3-epi-deoxynivalenol. | the mycotoxin deoxynivalenol (don) causes serious problems worldwide in the production of crops such as wheat and barley because of its toxicity toward humans and livestock. a bacterial culture capable of degrading don was obtained from soil samples collected in wheat fields using an enrichment culture procedure. the isolated bacterium, designated strain wsn05-2, completely removed 1,000 μg/ml of don from the culture medium after incubation for 10 days. on the basis of phylogenetic studies, wsn0 ... | 2011 | 20857291 |
| nocardioides iriomotensis sp. nov., an actinobacterium isolated from a forest soil. | an actinomycete strain, ir27-s3(t), was isolated from a forest soil sample collected from iriomote island, okinawa, japan, and was examined by a polyphasic taxonomic approach. cells of the isolate were gram-positive, aerobic, non-sporulating, non-motile, and coccoid or short rod-shaped. the strain grew in the presence of 0-7% (w/v) nacl, between ph 6-8, and over a temperature range of 12-37°c, with optimum growth at 30°c. chemotaxonomically, it contained ll-diaminopimelic acid as the diagnostic ... | 2010 | 20935090 |
| nocardioides ginsengisegetis sp. nov., isolated from soil of a ginseng field. | a gram-positive, rod-shaped, non-spore-forming bacterium (gsoil 485(t)) was isolated from the soil of a ginseng field located in pocheon province in south korea. this bacterium was characterized in order to determine its taxonomic position by using the polyphasic approach. on the basis of 16s rrna gene sequence similarity, strain gsoil 485(t) was shown to belong to the family nocardioidaceae and related to nocardioides koreensis (96.8% 16s rrna gene sequence similarity), nocardioides basaltis (9 ... | 2010 | 21046340 |
| homologous gene clusters of nicotine catabolism, including a new ?-amidase for a-ketoglutaramate, in species of three genera of gram-positive bacteria. | gram-positive soil bacteria arthrobacter nicotinovorans, nocardioides sp. js614 and rhodococcus opacus were shown to contain similarly organized clusters of homologous genes for nicotine catabolism. an uncharacterized gene of a predicted nitrilase within these gene clusters was cloned from a. nicotinovorans and biochemical data unexpectedly showed that the protein exhibited ?-amidase activity toward a-ketoglutaramate. structural modelling of the protein suggested the presence of the catalytic tr ... | 2011 | 21288482 |
| complete genome sequence of kribbella flavida type strain (ifo 14399). | the genus kribbella consists of 15 species, with kribbella flavida (park et al. 1999) as the type species. the name kribbella was formed from the acronym of the korea research institute of bioscience and biotechnology, kribb. strains of the various kribbella species were originally isolated from soil, potato, alum slate mine, patinas of catacombs or from horse racecourses. here we describe the features of k. flavida together with the complete genome sequence and annotation. in addition to the 5. ... | 2010 | 21304701 |
| expanding the definition of class 3 inteins and their proposed phage origin. | inteins are the protein equivalent of introns. their protein splicing activity is essential for the host protein's maturation and function. inteins are grouped into three classes based on sequence signature and splicing mechanism. the sequence signature of the recently characterized class 3 inteins is a noncontiguous trp-cys-thr (wct) motif and the absence of the standard class 1 cys¹ or ser¹ n-terminal nucleophile. the intein n-terminal cys¹ or ser¹ residue is essential for splicing in class 1 ... | 2011 | 21317331 |
| nocardioides alpinus sp. nov., a psychrophilic actinomycete isolated from alpine glacier cryoconite. | a gram-positive, non-motile, rod-shaped and psychrophilic actinomycete, designated strain cr7-14t, was isolated from alpine glacier cryoconite. phylogenetic analysis based on 16s rrna gene homology showed that strain cr7-14t was related to the members of the genus nocardioides and shared highest 16s rrna gene similarity with the type strains of nocardioides furvisabuli (98.6 %), nocardioides ganghwensis (98.2 %), nocardioides oleivorans (98.1 %) and nocardioides exalbidus (97.6%). the predominan ... | 2011 | 21460134 |
| nocardioides ginsengagri sp. nov., isolated from soil of a ginseng field. | a gram-positive, rod-shaped, non-motile, non-spore-forming bacterium (strain bx5-10t) was isolated from the soil of a ginseng field of baekdu mountain in jilin district, china. this bacterium was characterized in order to determine its taxonomic position by using the polyphasic approach. on the basis of 16s rrna gene sequence similarity, strain bx5-10t was shown to belong to the family nocardioidaceae and was most closely related to nocardioides plantarum ncimb 12834t (96.1 % 16s rrna gene seque ... | 2011 | 21515700 |
| genome sequence of the ethene- and vinyl chloride-oxidizing actinomycete nocardioides sp. strain js614. | nocardioides sp. strain js614 grows on ethene and vinyl chloride (vc) as sole carbon and energy sources, and is of interest for bioremediation and biocatalysis. sequencing the complete genome of js614 provides insight into the genetic basis of alkene oxidation, supports ongoing research into the physiology and biochemistry of growth on ethene and vc, and provides biomarkers to facilitate detection of vc/ethene-oxidizers in the environment. this is the first genome sequence from the genus nocardi ... | 2011 | 21551312 |
| diversity and antagonistic activity of sea ice bacteria isolated from the sea of japan. | the aim of the study was to survey cultivable heterotrophic bacteria from sea ice samples collected from peter the great bay of the sea of japan, and to test the isolates for antagonistic activity. a total of 195 strains were isolated and investigated by a phenotypic approach. the 16s rrna gene sequence analysis of thirty eight strains revealed primarily representatives of the class gammaproteobacteria, phylum bacteroidetes, and phylum actinobacteria. members of the class alphaproteobacteria wer ... | 2008 | 21558710 |
| dynamics of indigenous bacterial communities associated with crude oil degradation in soil microcosms during nutrient-enhanced bioremediation. | bacterial population dynamics were examined during bioremediation of an african soil contaminated with arabian light crude oil and nutrient enrichment (biostimulation). polymerase chain reaction followed by denaturing gradient gel electrophoresis (dgge) were used to generate bacterial community fingerprints of the different treatments employing the 16s ribosomal ribonucleic acid (rrna) gene as molecular marker. the dgge patterns of the nutrient-amended soils indicated the presence of distinguish ... | 2011 | 21824988 |
| nocardioides daejeonensis sp. nov., a denitrifying bacterium isolated from sludge in a sewage disposal plant. | strain mj31t, a gram-positive, aerobic, rod-shaped, non-motile bacterium, was isolated from a sludge sample of the daejeon sewage disposal plant in south korea and characterized in order to determine its taxonomic position. 16s rrna gene sequence analysis revealed that strain mj31t belongs to the genus nocardioides. according to 16s rrna gene sequence analysis, it is closely related to nocardioides dubius ksl-104t (98.6%), nocardioides jensenii dsm 20641t (97.6%), nocardioides daedukensis mnd22t ... | 2011 | 21742819 |
| heterologous expression and characterization of two 1-hydroxy-2-naphthoic acid dioxygenases from arthrobacter phenanthrenivorans. | a protein fraction exhibiting 1-hydroxy-2-naphthoic acid (1-h2na) dioxygenase activity was purified via ion exchange, hydrophobic interactions, and gel filtration chromatography from arthrobacter phenanthrenivorans sp. nov. strain sphe3 isolated from a greek creosote-oil-polluted site. matrix-assisted laser desorption ionization-time of flight mass spectrometry (maldi-tof ms) and tandem ms (ms-ms) analysis revealed that the amino acid sequences of oligopeptides of the major 45-kda protein specie ... | 2011 | 22101055 |
| thirteen novel deoxynivalenol-degrading bacteria are classified within two genera with distinct degradation mechanisms. | the mycotoxin deoxynivalenol (don), a secondary metabolite produced by species of the plant pathogen fusarium, causes serious problems in cereal crop production because of its toxicity towards humans and livestock. a biological approach for the degradation of don using a don-degrading bacterium (ddb) appears to be promising, although information about ddbs is limited. we isolated 13 aerobic ddbs from a variety of environmental samples, including field soils and wheat leaves. of these 13 strains, ... | 2011 | 22098388 |