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biochemical and molecular characterization of 1-hydroxy-2-naphthoate dioxygenase from nocardioides sp. kp7.1-hydroxy-2-naphthoate dioxygenase, which cleaves the singly hydroxylated aromatic ring, was purified from phenanthrene-degrading nocardioides sp. strain kp7. the purified enzyme had a molecular mass of 45 kda by sds-polyacrylamide gel electrophoresis and 270 kda by gel filtration chromatography. the apparent km and kcat values of this enzyme for 1-hydroxy-2-naphthoate were 10 microm and 114 s-1, respectively. one mole of molecular oxygen was consumed when 1 mol of 1-hydroxy-2-naphthoate was oxi ...19989525941
sandramycin, a novel antitumor antibiotic produced by a nocardioides sp. ii. structure determination.the structure of sandramycin, a novel antitumor antibiotic, was established by spectroscopic analysis and chiral chromatography of its acid hydrolysate. it was determined to be a cyclic decadepsipeptide with a two-fold axis of symmetry and 3-hydroxyquinaldic acid as an appended chromophore.19938436549
genetic analyses of the genus nocardioides and related taxa based on 16s-23s rdna internally transcribed spacer sequences.the 16s-23s internally transcribed spacer (its) sequences were analysed to clarify inter- and intraspecific relationships among strains of the genus nocardioides and the relationship between two aeromicrobium species. the 16s-23s its regions from 33 nocardioides strains, two aeromicrobium species and terrabacter tumescens were sequenced directly after polymerase chain reaction (pcr0 amplification and gamma exonuclease treatment. the genomes of some nocardioides strains included two types of 16s- ...19989734018
inter- and intraspecific phylogenetic analysis of the genus nocardioides and related taxa based on 16s rdna sequences.the 16s rdnas from 38 strains of the genus nocardioides, two aeromicrobium species and terrabacter tumescens were directly sequenced and then analysed. the mean nucleotide similarity value between the type strains of validly described nocardioides species was 96.1 +/- 3.0%. the mean nucleotide similarity value between the type strains of validly described nocardioides species and the two aeromicrobium species was 93.7 +/- 1.4% t. tumescens was distantly related to the genera nocardioides and aer ...19989542088
nocardioides pyridinolyticus sp. nov., a pyridine-degrading bacterium isolated from the oxic zone of an oil shale column.a bacterial strain which is able to degrade pyridine was previously isolated from the oxic zone of an oil shale column and described as pimelobacter sp. strain os4t. however, pimelobacter species have been transferred to the genera nocardioides and terrabacter. strain os4t was identified as a member of the genus nocardioides on the basis of chemotaxonomic analysis and phylogenetic inference based on 16s ribosomal dna (rdna) sequence analysis. the g+c content of strain os4t is 72.5 mol%. the cell ...19979336889
description of the erythromycin-producing bacterium arthrobacter sp. strain nrrl b-3381 as aeromicrobium erythreum gen. nov., sp. nov.arthrobacter sp. strain nrrl b-3381t (t = type strain) is a nonmycelial, nonsporulating actinomycete that produces the macrolide antibiotic erythromycin. this bacterium differs in many ways from the type species of the genus arthrobacter (arthrobacter globiformis), suggesting that a taxonomic revision is appropriate. the g + c content of strain nrrl b-3381t dna is 71 to 73 mol%, and the peptidoglycan of this organism contains ll-diaminopimelic acid. evolutionary distance data obtained from 16s r ...19911883712
biochemical and genetic characterization of trans-2'-carboxybenzalpyruvate hydratase-aldolase from a phenanthrene-degrading nocardioides strain.trans-2'-carboxybenzalpyruvate hydratase-aldolase was purified from a phenanthrene-degrading bacterium, nocardioides sp. strain kp7, and characterized. the purified enzyme was found to have molecular masses of 38 kda by sodium dodecyl sulfate-polyacrylamide gel electrophoresis and 113 kda by gel filtration chromatography. thus, the homotrimer of the 38-kda subunit constituted an active enzyme. the km and kcat values of this enzyme for trans-2'-carboxybenzalpyruvate were 50 microm and 13 s(-1), r ...19989473051
degradation of 2,4,5-trichlorophenoxyacetic acid by a nocardioides simplex culture.a nocardioides simplex strain 3e was isolated which totally dechlorinated 2,4,5-trichlorophenoxyacetic acid and was capable of its utilization as the sole source of carbon. the mechanism of 2,4,5-trichlorophenoxyacetic acid degradation by this strain was investigated. chloroaromatic metabolites that occur in the lag, exponential and stationary growth phases of the strain nocardioides simplex 3e were isolated and identified bases on a combination of tlc, gc-ms and hplc data. decomposition of 2,4, ...19901368472
novel bioactive compounds from actinomycetes.actinomycetes form an enormous reservoir of secondary metabolites and enzymes. the potential for exploiting rare actinomycetes is highlighted by the discovery of novel compounds from strains of spirillospora and nocardioides. novel compounds of well known classes of antibiotics, such as polyenes, continue to be discovered. for compounds containing a chromophore, the analysis by high-performance liquid chromatography coupled with a diode-array detector enables the elimination of producers of know ...19937908142
mineralization of 2,4,6-trinitrophenol (picric acid): characterization and phylogenetic identification of microbial strains.four bacterial strains that use picric acid as their sole carbon and energy source were isolated. mineralization of 14c-ul-picric acid showed that up to 65% of the radioactivity was released as 14co2. hplc and uv/vis spectral analyses indicated complete degradation of picric acid by these organisms. hplc and lc/ms analyses showed transient formation of 2,4-dinitrophenol during picric acid degradation. degradation of picric acid was concomitant with stoichiometric release of three moles of nitrit ...19968757942
new 5'-nucleotidase inhibitors, melanocidin a and melanocidin b. i. taxonomy, fermentation, isolation and biological properties.new 5'-nucleotidase inhibitors named melanocidins a and b were produced by nocardioides sp. 1681 j. they were isolated from fermentation broth by trichloracetic acid extraction, ethanol precipitation and cm-cellulose and deae-cellulose column chromatography. they inhibited 5'-nucleotidase activity from snake venom but not from rat liver membrane at 200 micrograms/ml. they also show antitumor activity against melanoma b16.19852991179
reclassification of nocardioides simplex atcc 13260, atcc 19565, and atcc 19566 as rhodococcus erythropolis.our phylogenetic analysis based on 16s ribosomal dna (rdna) sequences and chemotaxonomic analyses showed that nocardioides simplex atcc 13260, atcc 19565, and atcc 19566 are more closely related to the genus rhodococcus, especially rhodococcus erythropolis, than to the genus nocardioides. n. simplex atcc 13260 and n. simplex atcc 19565 and atcc 19566 exhibited levels of 16s rdna similarity of 99.4 and 100%, respectively, to r. erythropolis dsm 43066t. strains atcc 13260, atcc 19565, and atcc 195 ...19979226927
purification and characterization of an extracellular adenosine deaminase from nocardioides sp. j-326tk.an extracellular adenosine deaminase was isolated from the culture supernatant of nocardioides sp. j-326tk and purified 193-fold to homogeneity. it had a specific activity of 4677 units/mg at 37 degrees c, was a monomeric protein as judged by sds/page, and was characterized with respect to m(r) (80,000 and 72,000 by gel filtration on sephadex g-200 and sds/page respectively), ph optimum (6.0), temperature optimum (50 degrees c) and pi (7.6). the adsorption spectrum of the enzyme had a maximum at ...19947986382
biochemical and genetic characterization of a gentisate 1, 2-dioxygenase from sphingomonas sp. strain rw5.a 4,103-bp long dna fragment containing the structural gene of a gentisate 1,2-dioxygenase (ec 1.13.11.4), gtda, from sphingomonas sp. strain rw5 was cloned and sequenced. the gtda gene encodes a 350-amino-acid polypeptide with a predicted size of 38.85 kda. comparison of the gtda gene product with protein sequences in databases, including those of intradiol or extradiol ring-cleaving dioxygenases, revealed no significant homology except for a low similarity (27%) to the 1-hydroxy-2-naphthoate d ...19989696766
[use of electrical impulses for selective isolation of actinomycetes f rom soil].a new method was elaborated for the selective isolation of actinomycetes from soil, which involves the pretreatment of soil samples with electric pulses. the treatment of soil with 3-ms electric pulses at a field intensity of 12 kv/cm2 resulted in a significant (threefold on average) increase in the proportion of representatives of rare actinomycetes isolated. this treatment regime was found to be most efficient for the selective isolation of representatives of the genera actinoplanes, micromono ...19989785348
lipids in the classification of nocardioides: reclassification of arthrobacter simplex (jensen) lochhead in the genus nocardioides (prauser) emend. o'donnell et al. as nocardioides simplex comb. nov.representative strains of nocardioides, arthrobacter simplex and arthrobacter tumescens were degraded by acid methanolysis and the fatty acid esters released examined by thin-layer and gas chromatography. branched-chain 14-methylpentadecanoic acid (iso-16) was the predominant component in all but one of the nocardioides strains. arthrobacter simplex also contained major amounts of this acid whereas a. tumescens had only minor amounts. all of the test strains possessed 15 and 17 carbon straight c ...19827171289
formation of hydride-meisenheimer complexes of picric acid (2,4, 6-trinitrophenol) and 2,4-dinitrophenol during mineralization of picric acid by nocardioides sp. strain cb 22-2.there are only a few examples of microbial conversion of picric acid (2,4,6-trinitrophenol). none of the organisms that have been described previously is able to use this compound as a sole source of carbon, nitrogen, and energy at high rates. in this study we isolated and characterized a strain, strain cb 22-2, that was able to use picric acid as a sole source of carbon and energy at concentrations up to 40 mm and at rates of 1.6 mmol. h(-1). g (dry weight) of cells(-1) in continuous cultures a ...199910103224
biochemical and genetic characterization of 2-carboxybenzaldehyde dehydrogenase, an enzyme involved in phenanthrene degradation by nocardioides sp. strain kp7.2-carboxybenzaldehyde dehydrogenase from the phenanthrene-degrading bacterium nocardioides sp. strain kp7 was purified and characterized. the purified enzyme had a molecular mass of 53 kda by sodium dodecyl sulfate-polyacrylamide gel electrophoresis and 205 kda by gel filtration chromatography. thus, the homotetramer of the 53-kda subunit constituted an active enzyme. the apparent km and kcat values of this enzyme for 2-carboxybenzaldehyde were 100 microm and 39 s(-1), respectively, and those fo ...19979335300
characterization of genes for enzymes involved in the phenanthrene degradation in nocardioides sp. kp7.the nucleotide sequence of the gene cluster, phdefabghcd, encoding enzymes responsible for the transformation of phenanthrene to 1-hydroxy-2-naphthoate in nocardioides sp. strain kp7 was determined. this gene cluster, which may constitute a single operon, resided at 6.1-kb downstream of the phdijk gene cluster encoding the enzymes for the transformation of 1-hydroxy-2-naphthoate to o-phthalate. in general, the phd products exhibited moderate degrees of homology with isofunctional enzymes found i ...199910070721
characterization of an intradiol dioxygenase involved in the biodegradation of the chlorophenoxy herbicides 2,4-d and 2,4,5-t.hydroxyquinol 1,2-dioxygenase, an intradiol dioxygenase, which catalyzes the cleaving of the aromatic ring of hydroxyquinol, a key intermediate of 2,4-d and 2,4,5-t degradation, was purified from nocardioides simplex 3e cells grown on 2,4-d as the sole carbon source. this enzyme exhibits a highly restricted substrate specificity and is able to cleave hydroxyquinol (k(m) for hydroxyquinol as a substrate was 1.2 microm, v(max) 55 u/mg, k(cat) 57 s-1 and k(cat)/k(m) 47.5 microm s-1), 6-chloro- and ...19979141483
numerical classification of streptomyces and related genera.four hundred and seventy-five strains, which included 394 type cultures of streptomyces and representatives of 14 other actinomycete genera, were studied. overall similarities of these strains for 139 unit characters were determined by the ssm and sj coefficients and clustering by the upgma algorithm. test error and overlap between the phena defined were within acceptable limits. cluster-groups were defined by the ssm coefficient at the 70.1% similarity (s) level and by the sj coefficient at the ...19836631406
nocardioides nitrophenolicus sp. nov., a p-nitrophenol-degrading bacterium.a p-nitrophenol-degrading bacterial strain was isolated from industrial wastewater. this strain (nsp41t) was identified as a member of the genus nocardioides from chemotaxonomic characterizations and phylogenetic inference based on 16s rdna sequence analysis. the g + c content is 71.4 mol%. the diamino acid in the cell-wall peptidoglycan is ll-diaminopimelic acid. the predominant menaquinone is mk-8(h4). the cellular fatty acid profile is similar to those of nocardioides species. 16s rdna sequen ...199910319490
structure of the ring cleavage product of 1-hydroxy-2-naphthoate, an intermediate of the phenanthrene-degradative pathway of nocardioides sp. strain kp7.1-hydroxy-2-naphthoate (compound i) is a metabolite of the phenanthrene-degradative pathway in nocardioides sp. strain kp7. this singly hydroxylated aromatic compound is cleaved by 1-hydroxy-2-naphthoate dioxygenase. in this study, the structure of the ring cleavage product generated by the action of homogeneous 1-hydroxy-2-naphthoate dioxygenase was determined upon separation by high-performance liquid chromatography at ph 2.5 by using nuclear magnetic resonance (nmr) and mass spectroscopic tec ...19999922237
transfer of propionibacterium innocuum pitcher and collins 1991 to propioniferax gen. nov. as propioniferax innocua comb. nov.16s ribosomal dna analysis indicates that propionibacterium innocuum is a phylogenetic neighbor of luteococcus japonicus and that this pair of organisms branches intermediately between the genus propionibacterium on the one side and the genera aeromicrobium and nocardioides on the other side. phenotypically, strains of p. innocuum differ from species of propionibacterium by exhibiting aerobic growth and possessing arabinose in the cell wall, they differ from species of aeromicrobium and nocardio ...19948068545
gram-positive cell wall structure of the a3 gamma type in heliobacteria.the amino acid composition and structure of the peptidoglycan from heliobacillus mobilis was determined by one- and two-dimensional thin-layer chromatography of completely and partially hydrolysed cell wall preparations. the structure was found to be of the a3 gamma type, with l,l-diaminopimelate in position 3, d-alanine in position 4 and a glycine interpeptide bridge, as found in certain groups of gram-positive bacteria including clostridium perfringens and nocardioides simplex. the presence of ...19947958780
a new chitosanase gene from a nocardioides sp. is a third member of glycosyl hydrolase family 46.strain n106, a newly isolated soil actinomycete classified in the genus nocardioides on the basis of its chemotaxonomy, produced an extracellular chitosanase and was highly active in chitosan degradation. a gene library of nocardioides sp. n106 was constructed in the shuttle vector pfd666 and recombinant plasmids carrying the chitosanase gene (csnn106) were identified using the 5'-terminal portion of the chitosanase gene from streptomyces sp. n174 as a hybridization probe. one plasmid, pcsn106-2 ...19957582023
phylogenetic analysis of a new ll-diaminopimelic acid-containing coryneform bacterium from herbage, nocardioides plantarum sp. nov.the 16s rrna gene sequence of a previously undescribed ll-diaminopimelic acid-containing coryneform bacterium isolated from herbage was determined in order to clarify the taxonomic position of this organism. a comparative sequence analysis revealed that the bacterium represents a new line of descent within the genus nocardioides. on the basis of the results of a phylogenetic analysis and the phenotypic distinctiveness of the organism, a new species, nocardioides plantarum, is proposed. the type ...19947520740
application of multiplex pcr using species-specific primers within the 16s rrna gene for rapid identification of nocardioides strains.for the rapid identification of nocardioides strains, multiplex pcr, using 16s rdna as target gene, was used and its value was evaluated. forward primers specific for nocardioides albus, nocardioides jensenii, nocardioides plantarum and nocardiodes simplex, among the five validly described nocardioides species, were designed from the alignment of 165s rdna sequences. nocardioides luteus has been shown to be a member of the same species as n. albus by recent molecular systematic studies and preli ...19989734043
site-specific enzymatic hydrolysis of taxanes at c-10 and c-13.the production of large amounts of paclitaxel for use as an anticancer treatment has been a challenging problem because of the low concentration of the compound in yew trees and its occurrence as part of a mixture of other taxanes. two novel enzymes were isolated to facilitate the production of 10-deacetylbaccatin iii, a precursor used for semisynthesis of paclitaxel and analogs. a strain of nocardioides albus (sc13911) was isolated from soil and found to produce an extracellular enzyme that spe ...19947915279
on the taxonomic position of nocardioides albus prauser by dna:dna-hybridization. 1978716476
sandramycin, a novel antitumor antibiotic produced by a nocardioides sp. production, isolation, characterization and biological properties.a new antitumor antibiotic, sandramycin, was isolated from cultured broth of a nocardioides sp. (atcc 39419) and purified by solvent partition and column chromatography. sandramycin, a new depsipeptide, was moderately active in vitro against gram-positive organisms and in vivo against leukemia p388 in mice.19892621159
structure of a teichoic acid from nocardioides luteus vkm ac-1246t cell wall.a teichoic acid from the cell walls of nocardioides luteus vkm ac-1246t, a validly described species of the nocardioides genus, is a 1,5-poly(ribitol phosphate) completely substituted at c-4 by alpha-d-galactopyranosyl residues carrying a 4,6-pyruvate ketal group in r-configuration. the structure of the repeating unit of the polymer is as follows: [figure]. the chain consists of approximately 18 repeating units and six beta-d-galactofuranosyl residues linked in the oligomer by 1,6-glycosidic bon ...200010810191
polyamine profiles within genera of the class actinobacteria with ll-diaminopimelic acid in the peptidoglycan.polyamine patterns of coryne- and nocardioform representatives of the class actinobacteria with ll-diaminopimelic acid in the peptidoglycan, comprising strains of the genera aeromicrobium, nocardioides, intrasporangium, terrabacter, terracoccus, propioniferax, friedmanniella, microlunatus, luteococcus and sporichthya, were analysed. the different polyamine patterns were in good agreement with the phylogenetic heterogeneity within this group of actinomycetes. strains of the closely related genera ...199910028260
a novel phenanthrene dioxygenase from nocardioides sp. strain kp7: expression in escherichia coli.nocardioides sp. strain kp7 grows on phenanthrene but not on naphthalene. this organism degrades phenanthrene via 1-hydroxy-2-naphthoate, o-phthalate, and protocatechuate. the genes responsible for the degradation of phenanthrene to o-phthalate (phd) were found by southern hybridization to reside on the chromosome. a 10.6-kb dna fragment containing eight phd genes was cloned and sequenced. the phda, phdb, phdc, and phdd genes, which encode the alpha and beta subunits of the oxygenase component, ...200010735855
rodaplutin, a new peptidylnucleoside from nocardioides albus. 19883170347
enzymatic acetylation of 10-deacetylbaccatin iii to baccatin iii by c-10 deacetylase from nocardioides luteus sc 13913.baccatin iii is a polycyclic diterpene which can be used for the semi-synthesis of paclitaxel and analogs. an enzymatic process was developed for the conversion of 10-deacetylbaccatin iii (10-dab) to baccatin iii without requiring protection of the 7-hydroxyl group. a c-10 deacetylase from nocardioides luteus sc 13912 was immobilized on diethylaminoethyl cellulose (deae-cellulose) and the immobilized enzyme was used in the biotransformation process. the reaction was catalyzed using vinyl acetate ...200010938416
crystallization and preliminary crystallographic analysis of the hydroxyquinol 1,2-dioxygenase from nocardioides simplex 3e: a novel dioxygenase involved in the biodegradation of polychlorinated aromatic compounds.hydroxyquinol 1,2-dioxygenase (hq1,2o) from nocardioides simplex 3e, an enzyme involved in the aerobic biodegradation of a large class of chloroaromatic compounds such as 2,4-dichlorophenoxyacetate (2,4-d) and 2,4,5-trichlorophenoxyacetate (2,4,5-t), has been crystallized. hq1,2o, which specifically catalyzes the intradiol cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), an intermediate in the degradation of a variety of aromatic pollutants, to maleylacetate, has been recently purified to ho ...199910089329
influence of phenol on biodegradation of p-nitrophenol by freely suspended and immobilized nocardioides sp. nsp41.the effect of the presence of an alternate toxic compound (phenol) on the p-nitrophenol (pnp)-degrading activity of freely suspended and calcium alginate immobilized nocardioides sp. nsp41 was investigated. in the single substrate experiments, when the concentration of phenol and pnp was increased to 1400 mg l(-1) and 400 mg l(-1), respectively, the initial cell concentrations in the freely suspended cell culture should be higher than 1.5 g dry cell weight l(-1) for complete degradation. in the ...200011194970
inter- and intrageneric relationships of the genus propionibacterium as determined by 16s rrna sequences.the intra- and intergeneric position of propionibacterium was determined by comparing reverse transcriptase sequences of 16s ribosomal ribonucleic acid. propionibacterium jensenii. p. thoenii and p. acidipropionici formed a phylogenetically tight cluster, while p. freudenreichii, p. acnes and p. propionicus were as remotely related among each other as each of them was to the first three species. the genus propionibacterium represents a well defined taxon that stands isolated among other major gr ...19892482337
application of temperature-gradient gel electrophoresis in taxonomy of coryneform bacteria.strains belonging to the gram-positive coryneform soil bacteria were screened genotypically by temperature-gradient gel electrophoresis (tgge). this method allows the sequence-specific separation of amplified fragments of 16s rrna genes. a total of 115 reference strains representing the majority of the species of the genera aeromicrobium, agromyces, arthrobacter, aureobacterium, cellulomonas, curtobacterium, nocardioides and terrabacter were characterized. depending on the genus investigated, th ...199910028252
purification and characterization of histamine dehydrogenase from nocardioides simplex ifo 12069.histamine dehydrogenase from nocardioides simplex ifo 12069 was purified to homogeneity. the enzyme had a molecular mass of 170 kda and was suggested to be a dimer of subunits that had a molecular mass of 84 kda. the enzyme showed highest activity toward histamine and produced ammonia in its oxidative deamination to imidazole acetaldehyde. the k(m) and v(max) values for histamine were 0.075 mm and 4.76 micromol min(-1) mg(-1), respectively. the enzyme was sensitive to the carbonyl reagent iproni ...200010930735
diversity of chlorophenol-degrading bacteria isolated from contaminated boreal groundwater.chlorophenol-degrading bacteria from a long-term polluted groundwater aquifer were characterized. all isolates degraded 2,4,6-trichlorophenol and 2,3,4,6-tetrachlorophenol at concentrations detected in the contaminated groundwater (< 10 mg 1(-1)). pentachlorophenol was degraded by three isolates when present alone. in two gram-positive isolates, 2,3,4,6-tetrachlorophenol was required as an inducer for the degradation of pentachlorophenol. the gram-positive isolates were sensitive to pentachlorop ...199910201097
actinomycetes in karstic caves of northern spain (altamira and tito bustillo).a variety of isolation procedures were carried out to study the involvement of bacteria in the colonisation and biodeterioration of spanish caves with paleolithic rock art (altamira and tito bustillo). the applied techniques mainly aimed to isolate heterotrophic bacteria such as streptomycetes, nocardioform and coryneform actinomycetes, and other gram-positive and gram-negative bacteria. the results demonstrated that actinomycetes were the most abundant gram-positive bacteria in the caves. actin ...199910353805
classification of 'nocardioides fulvus' ifo 14399 and nocardioides sp. atcc 39419 in kribbella gen. nov., as kribbella flavida sp. nov. and kribbella sandramycini sp. nov.by 16s rdna sequence analysis, two strains identified previously as members of the genus nocardioides, namely 'nocardioides fulvus' ifo 14399 and nocardioides sp. atcc 39419, were found to form lines of descent distinct from the genus nocardioides. therefore, the two strains were studied taxonomically in detail by phenotypic, particularly chemotaxonomic, characterization, and by phylogenetic analysis including other related taxa. the genomic dna g + c contents of 'n. fulvus' ifo 14399 and nocard ...199910319498
function of coenzyme f420 in aerobic catabolism of 2,4, 6-trinitrophenol and 2,4-dinitrophenol by nocardioides simplex fj2-1a.2,4,6-trinitrophenol (picric acid) and 2,4-dinitrophenol were readily biodegraded by the strain nocardioides simplex fj2-1a. aerobic bacterial degradation of these pi-electron-deficient aromatic compounds is initiated by hydrogenation at the aromatic ring. a two-component enzyme system was identified which catalyzes hydride transfer to picric acid and 2,4-dinitrophenol. enzymatic activity was dependent on nadph and coenzyme f420. the latter could be replaced by an authentic preparation of coenzy ...199910217752
molecular taxonomic studies on some ll-diaminopimelic acid-containing coryneforms from herbage: description of nocardioides fastidiosa sp. nov.molecular taxonomic studies were performed on two ll-diaminopimelic acid-containing coryneform isolates from herbage. the results indicate that the herbage strains represent a new species of the genus nocardioides for which the name nocardioides fastidiosa sp. nov. is proposed. the type strain is ncib 12713.19892470637
in situ polychlorophenol bioremediation potential of the indigenous bacterial community of boreal groundwater.the composition and chlorophenol-degrading potential of groundwater bacterial community in a permanently cold, oxygen-deficient chlorophenol contaminated aquifer at kärkölä, finland was studied with the aim of evaluating in situ bioremediation potential. the groundwater contained from 10(4) to 10(7) microscopically counted cells/ml and up to 10(5) cfu/ml heterotrophic bacteria cultivable at 8 and 20 degrees c. of the 102 pure cultures, of which 86% gram-negative, from the plume area (10,000 micr ...200111394785
purification and characterization of maleylacetate reductase from nocardioides simplex 3e utilizing phenoxyalcanoic herbicides 2,4-d and 2,4,5-t.maleylacetate reductase was isolated and purified from the gram-positive strain nocardioides simplex 3e which is able to utilize the phenoxyalcanoic herbicides 2,4-d and 2,4,5-t. cells were grown on 2,4-d as the sole carbon source. the enzyme was purified by 380-fold with 3.0% yield. the purified maleylacetate reductase is a homodimer with subunit molecular mass of 37 kd. the enzyme required nadh as a cofactor; the km for maleylacetate is 25 microm; vmax (with nadh as cofactor) and kcat are 185 ...199910395975
characterization of s-triazine herbicide metabolism by a nocardioides sp. isolated from agricultural soils.atrazine, a herbicide widely used in corn production, is a frequently detected groundwater contaminant. nine gram-positive bacterial strains able to use this herbicide as a sole source of nitrogen were isolated from four farms in central canada. the strains were divided into two groups based on repetitive extragenic palindromic (rep)-pcr genomic fingerprinting with eric and boxa1r primers. based on 16s ribosomal dna sequence analysis, both groups were identified as nocardioides sp. strains. none ...200010919761
characterization of jp-7 jet fuel degradation by the bacterium nocardioides luteus strain bafb.in the fall of 1996, numerous bacteria capable of degrading jp-7 jet fuel were isolated from soil collected at beale air force base in northern california. the most prevalent organism, identified as nocardioides luteus by16s rrna sequencing (midi labs, inc.), was selected for further analysis. analysis of jp-7 following inoculation with n. luteus demonstrated degradation of the c(11) alkane component of the fuel. growth rates of n. luteus were determined with alkanes of various lengths as the so ...200211981877
isolation and characterization of alkane-utilizing nocardioides sp. strain cf8.a butane-utilizing bacterial strain cf8 was isolated and identified as a member of the genus nocardioides from chemotaxonomic and 16s rdna sequence analysis. strain cf8 grew on alkanes ranging from c(2) to c(16) in addition to butane and various other substrates including primary alcohols, carboxylic acids, and phenol. butane degradation by strain cf8 was inactivated by light, a specific inactivator of copper-containing monooxygenases. the unique thermal aggregation phenomenon of acetylene-bindi ...200010779707
new ll-diaminopimelic acid-containing actinomycetes from hypersaline, heliothermal and meromictic antarctic ekho lake: nocardioides aquaticus sp. nov. and friedmanniella [correction of friedmannielly] lacustris sp. nov.two gram-positive, non-motile and aerobic bacteria were isolated from a water sample of the hypersaline ekho lake, antarctica. the cocci or short rods grew well on oligotrophic pygv agar of ph 7.5 and at 26 degrees c. strains el-17kt and el-17at both required thiamine and biotin, strain el-17at also required nicotinic acid. carbon sources utilized by both strains were acetate, pyruvate, alpha-d-glucose, glutamate and (weakly) citrate, but succinate, malate or butyrate were utilized only by el-17 ...200010930074
distribution of alkb genes within n-alkane-degrading bacteria.fifty-four bacterial strains belonging to 37 species were tested for their ability to assimilate short chain and/or medium chain liquid n-alkanes. a gene probe derived from the alkb gene of pseudomonas oleovorans atcc 29347 was utilized in hybridization experiments. results of southern hybridization of pcr-amplificates were compared with those of colony hybridization and dot blot hybridization. strongest signals were received only from gram-negative bacteria growing solely with short n-alkanes ( ...200010971768
rubrobacter-related bacteria associated with rosy discolouration of masonry and lime wall paintings.a molecular approach was chosen to analyse the correlation between bacterial colonisation and rosy discolouration of masonry and lime wall paintings of two historically important buildings in austria and germany. the applied molecular method included pcr amplification of genes encoding the small subunit rrna of bacteria (16s rdna), genetic fingerprinting by denaturing gradient gel electrophoresis (dgge), construction of 16s rdna clone libraries, and comparative phylogenetic sequence analyses. th ...200111702076
a teichoic acid of nocardioides albus vkm ac-805t cell walls.a teichoic acid of nocardioides albus vkm ac-805t cell walls, a typical species of the genus nocardioides, contains a poly(glycosylglycerol phosphate). the repeating unit of the polymer has the structure: [figure]. these units are in phosphodiester linkage at c-3 of glycerol and c-3 of beta-d-galactopyranose. beta-d-galactopyranosyl residues are substituted at c-4 by beta-d-glucopyranose carrying a 4,6-pyruvate ketal group in s-configuration. the presence of pyruvic acid in the majority of repea ...199910611537
methyl chloride utilising bacteria are ubiquitous in the natural environment.enrichment and isolation of methyl chloride utilising bacteria from a variety of pristine terrestrial, freshwater, estuarine and marine environments resulted in the detection of six new methyl chloride utilising hyphomicrobium strains, strain cmc related to aminobacter spp. and to two previously isolated methyl halide utilising bacteria cc495 and imb-1, and a gram-positive isolate sac-4 phylogenetically related to nocardioides spp. all the pristine environments sampled for enrichment resulted in ...200111470354
molecular cloning, nucleotide sequence, and expression of genes encoding a polycyclic aromatic ring dioxygenase from mycobacterium sp. strain pyr-1.mycobacterium sp. strain pyr-1 degrades high-molecular-weight polycyclic hydrocarbons (pahs) primarily through the introduction of both atoms of molecular oxygen by a dioxygenase. to clone the dioxygenase genes involved in pah degradation, two-dimensional (2d) gel electrophoresis of pah-induced proteins from cultures of mycobacterium sp. strain pyr-1 was used to detect proteins that increased after phenanthrene, dibenzothiophene, and pyrene exposure. comparison of proteins from induced and unind ...200111472934
degradation of 2,3,4,6-tetrachlorophenol at low temperature and low dioxygen concentrations by phylogenetically different groundwater and bioreactor bacteria.effects of low temperature and low oxygen partial pressure on the occurrence and activity of 2,3,4,6-tetrachlorophenol degrading bacteria in a boreal chlorophenol contaminated groundwater and a full-scale fluidized-bed bioreactor were studied using four polychlorophenol degrading bacterial isolates of different phylogenetic backgrounds. these included an alpha-proteobacterial sphingomonas sp. strain mt1 isolated from the full-scale bioreactor and three isolates from the contaminated groundwater ...200111995822
converging catabolism of 2,4,6-trinitrophenol (picric acid) and 2,4-dinitrophenol by nocardioides simplex fj2-1a.initial f420-dependent hydrogenation of 2,4,6-trinitrophenol (picric acid) generated the hydride sigma-complex of picrate and finally the dihydride complex. with 2,4-dinitrophenol the hydride sigma-complex of 2,4-dinitrophenol is generated. the hydride transferring enzyme system showed activity against several substituted 2,4-dinitrophenols but not with mononitrophenols. a km-value of 0.06 mm of the hydride transfer for picrate as substrate was found. the ph optima of the nadph-dependent f420 re ...200111995829
the triazine hydrolase gene trzn from nocardioides sp. strain c190: cloning and construction of gene-specific primers.using oligonucleotides derived from the n-terminal sequence of a triazine hydrolase from nocardioides sp. strain c190, two dna fragments containing trzn were cloned into escherichia coli and their nucleotide sequences were determined. the 456-amino acid polypeptide predicted from the 1356-bp trzn orf displayed significant similarity to triazine hydrolases from pseudomonas and rhodococcus isolates and belonged to the same amidohydrolase family. the trzn gene was flanked by two dna sequences posse ...200211786260
two distinct monooxygenases for alkane oxidation in nocardioides sp. strain cf8.alkane monooxygenases in nocardioides sp. strain cf8 were examined at the physiological and genetic levels. strain cf8 can utilize alkanes ranging in chain length from c(2) to c(16). butane degradation by butane-grown cells was strongly inhibited by allylthiourea, a copper-selective chelator, while hexane-, octane-, and decane-grown cells showed detectable butane degradation activity in the presence of allylthiourea. growth on butane and hexane was strongly inhibited by 1-hexyne, while 1-hexyne ...200111679317
nitrite elimination and hydrolytic ring cleavage in 2,4,6-trinitrophenol (picric acid) degradation.two hydrogenation reactions in the initial steps of degradation of 2,4,6-trinitrophenol produce the dihydride meisenheimer complex of 2,4,6-trinitrophenol. the npdh gene (contained in the npd gene cluster of the 2,4,6-trinitrophenol-degrading strain rhodococcus opacus hl pm-1) was shown here to encode a tautomerase, catalyzing a proton shift between the aci-nitro and the nitro forms of the dihydride meisenheimer complex of 2,4,6-trinitrophenol. an enzyme (which eliminated nitrite from the aci-ni ...200415128543
oxygenation reactions of various tricyclic fused aromatic compounds using escherichia coli and streptomyces lividans transformants carrying several arene dioxygenase genes.bioconversion (biotransformation) experiments on arenes (aromatic compounds), including various tricyclic fused aromatic compounds such as fluorene, dibenzofuran, dibenzothiophene, carbazole, acridene, and phenanthridine, were done using the cells of escherichia coli transformants expressing several arene dioxygenase genes. e. coli carrying the phenanthrene dioxygenase (phdabcd) genes derived from the marine bacterium nocardioides sp. strain kp7 converted all of these tricyclic aromatic compound ...200111791721
microbial conversion of pregna-4,9(11)-diene-17alpha,21-diol-3,20-dione acetates by nocardioides simplex vkm ac-2033d.the conversion of pregna-4,9(11)-diene-17alpha,21-diol-3,20-dione 21-acetate (i) and 17,21-diacetate (vi) by nocardioides simplex vkm ac-2033d was studied. the major metabolites formed from i were identified as pregna-1,4,9(11)-triene-17alpha,21-diol-3,20-dione 21-acetate (ii) and pregna-1,4,9(11)-triene-17alpha,21-diol-3,20-dione (iv). pregna-4,9(11)-diene-17alpha,21-diol-3,20-dione (iii) and pregna-1,4,9(11)-triene-17alpha,20beta,21-triol-3-one (v) were formed in minorities. biotransformation ...200312798492
isolation from nocardioides sp. strain ct16, purification, and characterization of a deoxycytidine deaminase extremely thermostable in the presence of d,l-dithiothreitol.a deoxycytidine deaminase that was extremely thermostable in the presence of dithiothreitol was found in a mesophilic bacterium isolated from soil. the bacterium was classified as a nocardioides sp. the enzyme was purified to a homogeneous protein by treatment at 100 degrees c, ammonium sulfate precipitation, and chromatography on deae-toyopearl, hydroxyapatite, and then sephacryl s-100. twenty micrograms of the pure enzyme was obtained from 811 mg of the starting crude protein. after treatment ...200212353623
simultaneous degradation of p-nitrophenol and phenol by a newly isolated nocardioides sp.a p-nitrophenol (pnp)- and phenol-mineralizing bacterium (strain nsp41) was isolated from an industrial wastewater and identified as a member of the genus nocardioides. pnp was degraded via a hydroquinone pathway, and phenol was degraded through a catechol pathway in strain nsp41. both enzyme systems for the degradation of pnp and phenol were induced simultaneously in the presence of both compounds. although both enzyme systems were induced at the same time, pnp and phenol were degraded by the h ...199812501409
identification of pyrene-induced proteins in mycobacterium sp. strain 6py1: evidence for two ring-hydroxylating dioxygenases.in this study, the enzymes involved in polycyclic aromatic hydrocarbon (pah) degradation were investigated in the pyrene-degrading mycobacterium sp. strain 6py1. [(14)c]pyrene mineralization experiments showed that bacteria grown with either pyrene or phenanthrene produced high levels of pyrene-catabolic activity but that acetate-grown cells had no activity. as a means of identifying specific catabolic enzymes, protein extracts from bacteria grown on pyrene or on other carbon sources were analyz ...200312813077
[a actinomycete strain c3905 producing antitumor antibiotic sandramycin from antarctica].a nocardioform actinomycete strain c3905 was isolated from a soil sample collected in king geoge island, antarctica. its aerial mycelium is white, substrate mycelium is colorless to cream or pink. the hyphae of mycelium 0.5 micron-0.8 micron in diameter and they fragment into irregular rod to coccoid elements with smooth surface. cell wall type i. the mycolic acids are lacking. mk-9(h4) is the predominant menaquinone component. phospholipid type pi. the g + c content of dna is 68.3-68.9 mol%. fa ...200012549061
biotransformation of phenanthrene and 1-methoxynaphthalene with streptomyces lividans cells expressing a marine bacterial phenanthrene dioxygenase gene cluster.the phdabcd gene cluster in a marine bacterium nocardioides sp. strain kp7 codes for the multicomponent enzyme phenanthrene dioxygenase. phda encoding an iron-sulfur protein large subunit alpha, phdb encoding its small subunit beta, phdc encoding ferredoxin, and phdd encoding ferredoxin reductase, were replaced in such a way that the termination codons of the preceding open reading frames were overlapped with the initiation codons of the following genes. this manipulated phdabcd gene cluster was ...200111577717
phylogenetic and kinetic diversity of aerobic vinyl chloride-assimilating bacteria from contaminated sites.aerobic bacteria that grow on vinyl chloride (vc) have been isolated previously, but their diversity and distribution are largely unknown. it is also unclear whether such bacteria contribute to the natural attenuation of vc at chlorinated-ethene-contaminated sites. we detected aerobic vc biodegradation in 23 of 37 microcosms and enrichments inoculated with samples from various sites. twelve different bacteria (11 mycobacterium strains and 1 nocardioides strain) capable of growth on vc as the sol ...200212450841
[preparation of fed-batch culture of nocardioides sp].a screening for carbon sources revealed ethanol to be the best substrate for condensed nocardioides sp. culture. a strategy achieving the maximum (21 g/l) yield of biomass was developed for the control over the condensed fed-batch culture production. this control based on the algorithm expodense should be predetermined in the first phase and adaptive in the second phase of two-phase process of condensed culture production.200212449797
piericidins c5 and c6: new 4-pyridinol compounds produced by streptomyces sp. and nocardioides sp.piericidins c5 (1) and c6 (2), two new members of the piericidin family, were isolated from a streptomyces sp. and a nocardioides sp., together with known piericidins c1 (3), c2 (4), c3 (5), c4 (6), d1 (7), and a3 (8). the structures were determined on the basis of their spectroscopic data. both new compounds inhibited cell division of fertilized starfish (asterina pectinifera) eggs at the minimum inhibitory concentration of 0.09 microg/ml.200314527553
involvement of linear plasmids in aerobic biodegradation of vinyl chloride.pseudomonas putida strain aj and ochrobactrum strain td were isolated from hazardous waste sites based on their ability to use vinyl chloride (vc) as the sole source of carbon and energy under aerobic conditions. strains aj and td also use ethene and ethylene oxide as growth substrates. strain aj contained a linear megaplasmid (approximately 260 kb) when grown on vc or ethene, but it contained no circular plasmids. while strain aj was growing on ethylene oxide, it was observed to contain a 100-k ...200415466555
effect of microbial inoculants on the indigenous actinobacterial endophyte population in the roots of wheat as determined by terminal restriction fragment length polymorphism.the effect of single actinobacterial endophyte seed inoculants and a mixed microbial soil inoculant on the indigenous endophytic actinobacterial population in wheat roots was investigated by using the molecular technique terminal restriction fragment length polymorphism (t-rflp). wheat was cultivated either from seeds coated with the spores of single pure actinobacterial endophytes of microbispora sp. strain en2, streptomyces sp. strain en27, and nocardioides albus en46 or from untreated seeds s ...200415528499
21-acetoxy-pregna-4(5),9(11),16(17)-triene-21-ol-3,20-dione conversion by nocardioides simplex vkm ac-2033d.the conversion of 21-acetoxy-pregna-4(5),9(11),16(17)-triene-21-ol-3,20-dione (i) by nocardioides simplex vkm ac-2033d was studied purposed selective production of its 1(2)-dehydroanalogues-value precursors in the synthesis of modern glucocorticoids starting from 9alpha-hydroxyandrostenes. 21-acetoxy-pregna-1(2),4(5),9(11),16(17)-tetraene-21-ol-3,20-dione (ii), pregna-4(5),9(11),16(17)-triene-21-ol-3,20-dione (iii) and pregna-1(2),4(5),9(11),16(17)-tetraene-21-ol-3,20-dione (iv) were revealed as ...200314698213
carbon isotopic fractionation during aerobic vinyl chloride degradation.vinyl chloride (vc) is a carcinogenic contaminant commonly found in groundwater. much research has focused on anaerobic reductive dechlorination of vc, and recently on aerobic vc degradation. in this study, the stable carbon isotope enrichment factor associated with aerobic vc assimilation was determined for mycobacterium sp. strains js60, js61, and js617 and nocardioides sp. strain js614. the enrichment factors ranged from -8.2+/-0.1 to -7.0+/-0.3 % and did not change as a function of biomass c ...200515773478
nocardioides aquiterrae sp. nov., isolated from groundwater in korea.a bacterial strain, gw-9t, which was isolated from groundwater in korea, was subjected to a polyphasic taxonomic study using phenotypic characterization and phylogenetic and genetic methods. phylogenetic analysis based on 16s rdna sequences showed that strain gw-9t forms an evolutionary lineage within the radiation enclosing nocardioides species and, in particular, a coherent cluster with nocardioides pyridinolyticus. the cell-wall peptidoglycan type of strain gw-9t was based on ll-diaminopimeli ...200414742461
chitin degrading potential of bacteria from extreme and moderate environment.five hundred chitin-degrading bacteria were isolated from 20 different locations. high percentage of potent chitin-degraders was obtained from polluted regions. potent chitin-degrading bacteria were selected by primary and secondary screening. among the selected isolates, 78% were represented by the genus streptomyces. majority of the isolates had good chitinolysis relative to the growth although isolates with better growth were also seen. such isolates are important for the production of scp fr ...200315267156
biochemical and molecular characterization of a ring fission dioxygenase with the ability to oxidize (substituted) salicylate(s) from pseudaminobacter salicylatoxidans.the gene coding for a dioxygenase with the ability to cleave salicylate by a direct ring fission mechanism to 2-oxohepta-3,5-dienedioic acid was cloned from pseudaminobacter salicylatoxidans strain bn12. the deduced amino acid sequence encoded a protein with a molecular mass of 41,176 da, which showed 28 and 31% sequence identity, respectively, to a gentisate 1,2-dioxygenase from pseudomonas alcaligenes ncimb 9867 and a 1-hydroxy-2-naphthoate 1,2-dioxygenase from nocardioides sp. kp7. the highes ...200415220336
[the application of succession analysis in combination with extremely high-frequency irradiation to the selective isolation of actinomycetes from soil].a new method employing succession analysis and extremely high-frequency (ehf) irradiation is proposed for the selective isolation of actinomycetes from soil. total actinomycetes were efficiently isolated from soil suspensions irradiated in the wavelength band 4.6-5.8 mm on the 14th and 45th days of succession initiated by soil wetting and from soil suspensions irradiated in the wavelength band 8-11.5 mm on the 7th day of succession. the rare actinomycete genera actinomadura, micromonospora, nono ...200312698804
conversion of 7-deoxy-10-deacetylbaccatin-iii into 6-alpha-hydroxy-7-deoxy-10-deacetylbaccatin-iii by nocardioides luteus.6-alpha-hydroxy-7-deoxy-10-deacetylbaccatin-iii is an intermediate that is potentially useful for synthesis of analogues of paclitaxel. screening of microbial strains identified an enzyme activity in nocardioides luteus sc 13912 (a.t.c.c. 55426) which converted 7-deoxy-10-deacetylbaccatin-iii into 6-hydroxy-7-deoxy-10-deacetylbaccatin-iii with a maximum yield of 44%.200415032741
[the 1(2)-dehydrogenation of steroid substrates by nocardioides simplex vkm ac-2033d].the bacterium formerly known as arthrobacter globiformis 193 has high 1(2)-dehydrogenase activity toward pharmaceutically important steroids, 9(11)-dehydrocortexolone in particular. the complex analysis of the morphostructural, physiological, biochemical, and phylogenetic properties of this bacterium allowed us to reclassify it into nocardioides simplex (n. simplex vkm ac-2033d).200312698789
isolation and characterisation of nocardioides sp. sp12, an atrazine-degrading bacterial strain possessing the gene trzn from bulk- and maize rhizosphere soil.we report the characterisation of nocardioides sp. sp12, an atrazine-degrading bacteria isolated from atrazine-treated bulk- and maize rhizosphere soil. based on 16s rdna alignment, strain sp12 showed close phylogenic relationships with nocardioides sp. c157 and nocardioides simplex. internal transcribed spacer (its) sequences of strain sp12 were longer than those of other nocardioides sp. and present ala- and ile-trna unlike actinomycetales. nocardioides sp. sp12 presents a novel atrazine catab ...200312694918
histamine dehydrogenase from rhizobium sp.: gene cloning, expression in escherichia coli, characterization and application to histamine determination.the gene encoding histamine dehydrogenase in rhizobium sp. 4--9 has been cloned and overexpressed in escherichia coli. the coding region of the gene was 2,079 bp and encoded a protein of 693 amino acids with a calculated molecular mass of 76,732 da. this histamine dehydrogenase was related to histamine dehydrogenase from nocardioides simplex (54.5% identical), trimethylamine dehydrogenase from methylophilus methylotrophus (39.3% identical) and dimethylamine dehydrogenase from hyphomicrobium x (3 ...200515964650
nocardioides ganghwensis sp. nov., isolated from tidal flat sediment.a strictly aerobic, non-motile, rod-shaped actinomycete strain, named jc2055t, was isolated from a sediment sample of getbol, the tidal flat of korea. 16s rdna analysis revealed that the getbol isolate belonged to the genus nocardioides with the highest sequence similarity to nocardioides aquiterrae gw-9t (95.5%). the major menaquinone was mk-8(h4) and the predominant cellular fatty acids were iso-16 : 0 and 17 : 1omega8c. tuberculostearic acid was absent. the g+c content of dna was 72 mol%. bas ...200415280305
nocardioides oleivorans sp. nov., a novel crude-oil-degrading bacterium.the crude-oil-degrading strain bas3(t) represents a novel nocardioides species, according to a taxonomic study. the 16s rrna gene sequence of strain bas3(t) was most similar to that of nocardioides ganghwensis (imsnu 14028(t); 99% similarity), but the dna-dna relatedness to this type strain was only 32%. the physiological properties of strain bas3(t) differ from those of n. ganghwensis (imsnu 14028(t)) and other species of nocardioides. the diamino acid in the cell-wall peptidoglycan of strain b ...200516014472
nocardioides kribbensis sp. nov., isolated from an alkaline soil.three gram-positive, rod- or coccoid-shaped bacterial strains, ksl-2(t), ksl-5 and ksl-6, were isolated from an alkaline soil in korea and subjected to a polyphasic taxonomical analysis. these isolates grew optimally at ph 9.0 and 30 degrees c. they were characterized chemotaxonomically as having cell wall peptidoglycan based on ll-2,6-diaminopimelic acid, mk-8(h(4)) as the predominant menaquinone and iso-c(16:0) as the major fatty acid. the dna g+c content of the isolates was 73-74 mol%. strain ...200516014490
nocardioides dubius sp. nov., isolated from an alkaline soil.a gram-positive, rod- or coccus-shaped bacterial strain, ksl-104(t), was isolated from an alkaline soil from korea and its taxonomic position was investigated by a polyphasic approach. strain ksl-104(t) grew optimally at ph 7.0-8.0 and 30 degrees c. it was characterized chemotaxonomically as having a cell-wall peptidoglycan type based on ll-2,6-diaminopimelic acid with mk-8(h(4)) as the predominant menaquinone. the major fatty acid was iso-c(16:0) and the major polar lipids were diphosphatidylgl ...200516166734
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 ...200616461648
production of completely flavinylated histamine dehydrogenase, unique covalently bound flavin, and iron-sulfur cluster-containing enzyme of nocardioides simplex in escherichia coli, and its properties.the hmd gene of histamine dehydrogenase from nocardioides simplex was overexpressed in escherichia coli, and the resulting enzyme was purified to homogeneity. the purified recombinant enzyme is almost identical with the native enzyme in view of molecular weight and specific activity, and is stoichiometrically assembled with the three cofactors 6-s-cysteinyl fmn, 4fe-4s cluster, and adp.200516377910
physiological and molecular genetic analyses of vinyl chloride and ethene biodegradation in nocardioides sp. strain js614.nocardioides sp. strain js614 utilizes vinyl chloride and ethene as carbon and energy sources. js614 could be influential in natural attenuation and biogeochemical ethene cycling, and useful for bioremediation, biocatalysis and metabolic engineering, but a fundamental understanding of the physiological and genetic basis of vinyl chloride and ethene assimilation in strain js614 is required. alkene monooxygenase (akmo) activity was demonstrated in whole-cell assays and epoxyalkane:coenzyme m trans ...200415599705
cloning and characterization of histamine dehydrogenase from nocardioides simplex.histamine dehydrogenase (nshadh) can be isolated from cultures of nocardioides simplex grown with histamine as the sole nitrogen source. a previous report suggested that nshadh might contain the quinone cofactor tryptophan tryptophyl quinone (ttq). here, the hdh gene encoding nshadh is cloned from the genomic dna of n. simplex, and the isolated enzyme is subjected to a full spectroscopic characterization. protein sequence alignment shows nshadh to be related to trimethylamine dehydrogenase (tmad ...200515752704
trichloroethylene degradation by butane-oxidizing bacteria causes a spectrum of toxic effects.the physiological consequences of trichloroethylene (tce) transformation by three butane oxidizers were examined. pseudomonas butanovora, mycobacterium vaccae, and nocardioides sp. cf8 utilize distinctly different butane monooxygenases (bmos) to initiate degradation of the recalcitrant tce molecule. although the primary toxic event resulting from tce cometabolism by these three strains was loss of bmo activity, species differences were observed. p. butanovora and nocardioides sp. cf8 maintained ...200515754184
nocardioides aestuarii sp. nov., isolated from tidal flat sediment.a strictly aerobic, non-motile, rod-shaped actinomycete, designated strain jc2056(t), was isolated from a sediment sample of getbol, the tidal flat of korea. results of 16s rrna gene sequence analysis indicated that the isolate belonged to the genus nocardioides, with the highest similarity being to nocardioides luteus kctc 9575(t) (95.7 %). the major menaquinone was mk-8(h(4)), and predominant cellular fatty acids were iso-16 : 0 and iso-16 : 1 h. the dna g+c content was 70 mol%. based on the m ...200415545450
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 ...199716535723
isolation and characterization of polycyclic aromatic hydrocarbons-degrading sphingomonas sp. strain zl5.a bacterial strain zl5, capable of growing on phenanthrene as a sole carbon and energy source but not naphthalene, was isolated by selective enrichment from crude-oil-contaminated soil of liaohe oil field in china. the isolate was identified as a sphingomonas sp. strain on the basis of 16s ribosomal dna analysis. strain zl5 grown on phenanthrene exhibited catechol 2,3-dioxygenase (c23o) activity but no catechol 1,2-dioxygenase, gentisate 1,2-dioxygenase, protocatechuate 3,4-dioxygenase and proto ...200415228078
nocardioides alkalitolerans sp. nov., isolated from an alkaline serpentinite soil in korea.four gram-positive, rod- or coccus-shaped bacterial strains, ksl-1(t), ksl-9, ksl-10 and ksl-12, were isolated from an alkaline serpentinite soil in korea, and their taxonomic positions were investigated in a polyphasic study. the four strains exhibited no difference in their 16s rrna gene sequences. phylogenetic analyses based on 16s rrna gene sequences showed that the four strains were phylogenetically affiliated to the genus nocardioides. the four strains had cell-wall peptidoglycan based on ...200515774667
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 ...200717308936
crystal structure of the hydroxyquinol 1,2-dioxygenase from nocardioides simplex 3e, a key enzyme involved in polychlorinated aromatics biodegradation.hydroxyquinol 1,2-dioxygenase (1,2-hqd) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a central intermediate in the degradation of aromatic compounds including a variety of particularly recalcitrant polychloro- and nitroaromatic pollutants. we report here the primary sequence determination and the analysis of the crystal structure of the 1,2-hqd from nocardioides simplex 3e solved at 1.75 a resolution using the multiple wavelength anomalous dispersion of the two catalyt ...200515772073
6-s-cysteinyl flavin mononucleotide-containing histamine dehydrogenase from nocardioides simplex: molecular cloning, sequencing, overexpression, and characterization of redox centers of enzyme.histamine dehydrogenase from nocardioides simplex is a homodimeric enzyme and catalyzes oxidative deamination of histamine. the gene encoding this enzyme has been sequenced and cloned by polymerase chain reactions and overexpressed in escherichia coli. the sequence of the complete open reading frame, 2073 bp coding for a protein of 690 amino acids, was determined on both strands. the amino acid sequence of histamine dehydrogenase is closely related to those of trimethylamine dehydrogenase and di ...200415311941
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