Publications
| Title | Abstract | Year Filter | PMID(sorted descending) Filter |
|---|
| a novel antarctic microbial endolithic community within gypsum crusts. | a novel endolithic microbial habitat is described from a climatically extreme site at two step cliffs, alexander island, antarctic peninsula (71 degrees 54's, 68 degrees 13'w). small endolithic colonies (<3 mm in diameter) are found within the translucent gypsum crust that forms on the surface of sandstone boulders. gypsum crusts are found on ice-free rocks throughout the antarctic and therefore offer potential colonization sites at more inhospitable locations, including sites at higher latitude ... | 2003 | 12823188 |
| microbial contamination of dialysate and its prevention in haemodialysis units. | at the haemodialysis centres of nine hospitals in japan, microbial contamination of treated water (reverse osmosis method), acid and bicarbonate concentrates, and dialysate was investigated. among these fluids used in haemodialysis, the dialysate was most frequently contaminated and had the highest concentration of bacteria. of 40 dialysate samples analysed, 42.5% showed a bacterial count of more than 2000cfu/ml, which was above the association for the advancement of medical instrumentation (aam ... | 2003 | 12818584 |
| xylene monooxygenase, a membrane-spanning non-heme diiron enzyme that hydroxylates hydrocarbons via a substrate radical intermediate. | the non-heme diiron enzyme xylene monooxygenase (xylm) has been shown to hydroxylate hydrocarbons via a hydrogen abstraction-carbon radical recombination mechanism (oxygen rebound). using the radical clock bicyclo[4.1.0]heptane (norcarane) in a whole-cell assay, and observing the ratio of rearranged 3-(hydroxymethyl)cyclohexene and unrearranged 2-norcaranol products, the lifetime of the substrate radical was determined to be approximately 0.2 ns. the wild-type organism pseudomonas putida mt-2 an ... | 2003 | 12811621 |
| microbial consortia that degrade 2,4-dnt by interspecies metabolism: isolation and characterisation. | two consortia, isolated by selective enrichment from a soil sample of a nitroaromatic-contaminated site, degraded 2,4-dnt as their sole nitrogen source without accumulating one or more detectable intermediates. though originating from the same sample, the optimised consortia had no common members, indicating that selective enrichment resulted in different end points. consortium 1 and consortium 2 contained four and six bacterial species respectively, but both had two members that were able to co ... | 2003 | 12801097 |
| microbial diversity of biofilms in dental unit water systems. | we investigated the microbial diversity of biofilms found in dental unit water systems (duws) by three methods. the first was microscopic examination by scanning electron microscopy (sem), acridine orange staining, and fluorescent in situ hybridization (fish). most bacteria present in the biofilm were viable. fish detected the beta and gamma, but not the alpha, subclasses of proteobacteria: in the second method, 55 cultivated biofilm isolates were identified with the biolog system, fatty acid an ... | 2003 | 12788744 |
| site-directed mutagenesis of an extradiol dioxygenase involved in tetralin biodegradation identifies residues important for activity or substrate specificity. | the sequence of the extradiol dioxygenase thnc, involved in tetralin biodegradation, was aligned with other extradiol dioxygenases involved in biodegradation of polycyclic compounds, and a three-dimensional model of thnc, based on the structure of the previously crystallized 2,3-dihydroxybiphenyl dioxygenase from burkholderia fungorum lb400, was built. in order to assess the functional importance of some non-active-site residues whose relevance could not be established by structural information, ... | 2003 | 12777496 |
| a genetic system for the rapid isolation of aromatic-ring-hydroxylating dioxygenase activities. | aromatic-ring-hydroxylating dioxygenases (arhdos) are key enzymes in the aerobic bacterial metabolism of aromatic compounds. they are of biotechnological importance as they function as biocatalysts in the stereospecific synthesis of chiral synthons and the degradation of aromatic pollutants. this report describes the development and validation of a system for the rapid isolation and characterization of specific arhdo activities. the system is based on the identification of arhdo gene segments th ... | 2003 | 12777487 |
| cloning and sequence analysis of the ces10 gene encoding a sphingomonas paucimobilis esterase. | the ces10 gene of the gellan gum-producing strain sphingomonas paucimobilis atcc 31461 was cloned and sequenced. multi-sequence alignment of the deduced protein indicated that ces10 belongs to the serine hydrolase family with a potential catalytic triad comprising ser(153) (within the g-x-s-x-g consensus sequence), his(75) and asp(125). the mixed block results obtained following pattern search and the low identities detected in a blast analysis indicate that ces10 is significantly different from ... | 2003 | 12764567 |
| highly enantioselective hydrolysis of alicyclic meso-epoxides with a bacterial epoxide hydrolase from sphingomonas sp. hxn-200: simple syntheses of alicyclic vicinal trans-diols. | hydrolysis of n-benzyloxycarbonyl-3,4-epoxy-pyrrolidine and cyclohexene oxide with the epoxide hydrolase of sphingomonas sp. hxn-200, respectively, gave the corresponding vicinal trans-diols in high ee and yield, representing the first example of enantioselective hydrolysis of a meso-epoxide with a bacterial epoxide hydrolase. | 2003 | 12744319 |
| sediment microbes of deep-sea bioherms on the northwest shelf of australia. | the northwest shelf of australia is a region with known petroleum reserves. recent geological investigations have revealed carbonate knolls postulated to be of biological origin. sediment microbial populations at three sites on the northwest shelf, pee shoal, mermaid reef, and scott reef, were investigated for the presence of hydrocarbon-degrading bacteria. from two sampling trips, 246 bacterial strains were purified, and 182 of these strains displayed preferential growth on hydrocarbon-selectiv ... | 2003 | 12739077 |
| an exotype alginate lyase in sphingomonas sp. a1: overexpression in escherichia coli, purification, and characterization of alginate lyase iv (a1-iv). | sphingomonas sp. a1 (strain a1) cells contain three kinds of endotype alginate lyases [a1-i, a1-ii, and a1-iii], all of which are formed from a common precursor through posttranslational processing. in addition to these lyases, another type of lyase (a1-iv) that acts on oligoalginates exists in the bacterium. a1-iv was overexpressed in escherichia coli cells through control of its gene under the t7 promoter. the expression level of the enzyme in e. coli cells was 8.6u/l-culture, which was about ... | 2003 | 12729723 |
| isolation and taxonomic and catabolic characterization of a 3,6-dimethylphenanthrene-utilizing strain of sphingomonas sp. | a bacterial strain capable of utilizing 3,6-dimethylphenanthrene (3,6-dmp) as its sole source of carbon and energy was isolated from a creosote-contaminated soil. the isolate was identified as a strain of sphingomonas sp. and was designated strain js1. utilization of 3,6-dmp was demonstrated by an increase in bacterial biomass concomitant with a decrease in 3,6-dmp in a liquid mineral medium with this compound as its sole source of carbon and energy. strain js1 showed a high specificity in the u ... | 2003 | 12718400 |
| action mechanism of a selective anti-cyanobacterial compound, argimicin a. | argimicin a is a potent anti-cyanobacterial compound produced by one of algae-lysing bacteria, sphingomonas sp. m-17. since the compound seemed to exhibit selective activities against cyanobacteria and such selectivity were considered to be quite rare, the mode of action of argimicin a was investigated. argimicin a showed a unique delayed action, i.e., the cyanobacterial cell division continued until at least 36 hours treatment even though the decrement of oxygen evolution has been observed at 2 ... | 2003 | 12715875 |
| sphingopyxis chilensis sp. nov., a chlorophenol-degrading bacterium that accumulates polyhydroxyalkanoate, and transfer of sphingomonas alaskensis to sphingopyxis alaskensis comb. nov. | the taxonomic position of a chlorophenol-degrading bacterium, strain s37t, was investigated. the 16s rdna sequence indicated that this strain belongs to the genus sphingopyxis, exhibiting high sequence similarity to the 16s rdna sequences of sphingomonas alaskensis lmg 18877t (98.8%), sphingopyxis macrogoltabida lmg 17324t (98.2%), sphingopyxis terrae ifo 15098t (95%) and sphingomonas adhaesiva gifu 11458t (92%). these strains (except sphingopyxis terrae ifo 15098t, which was not investigated) a ... | 2003 | 12710615 |
| elucidation of the metabolic pathway of fluorene and cometabolic pathways of phenanthrene, fluoranthene, anthracene and dibenzothiophene by sphingomonas sp. lb126. | the metabolic pathway of the pah fluorene and the cometabolic pathway of the pahs phenanthrene, fluoranthene, anthracene and dibenzothiophene in sphingomonas sp. lb126 were examined. to our knowledge this is the first study on the cometabolic degradation of the three-ring pahs phenanthrene, anthracene and the four-ring pah fluoranthene by a fluorene-utilizing species. metabolism of fluorene was shown to proceed via the 9-fluorenone pathway to form o-phthalic acid and protocatechuic acid. the com ... | 2003 | 12706509 |
| synergistic relationships in algal-bacterial microcosms for the treatment of aromatic pollutants. | the potential of algal-bacterial microcosms was studied for the biodegradation of salicylate, phenol and phenanthrene. the isolation and characterization of aerobic bacterial strains capable of mineralizing each pollutant were first conducted. ralstonia basilensis was isolated for salicylate degradation, acinetobacter haemolyticus for phenol and pseudomonas migulae and sphingomonas yanoikuyae for phenanthrene. the green alga chlorella sorokiniana was then cultivated in the presence of the pollut ... | 2003 | 12688473 |
| bacterial serine palmitoyltransferase: a water-soluble homodimeric prototype of the eukaryotic enzyme. | serine palmitoyltransferase (spt, ec 2.3.1.50) is a key enzyme in sphingolipid biosynthesis and catalyzes the decarboxylative condensation of l-serine and palmitoyl coenzyme a (coa) to 3-ketodihydrosphingosine (kds). we found that the gram-negative obligatory aerobic bacteria sphingomonas paucimobilis ey2395(t) have significant spt activity, and purified spt to homogeneity. unlike eukaryotic enzymes, this enzyme was a water-soluble homodimeric protein. we isolated the spt gene encoding 420 amino ... | 2003 | 12686119 |
| the unique aromatic catabolic genes in sphingomonads degrading polycyclic aromatic hydrocarbons (pahs). | many members of the sphingomonad genus isolated from different geological areas can degrade a wide variety of polycyclic aromatic hydrocarbons (pahs) and related compounds. these sphingomonads such as sphingobium yanoikuyae strain b1, novosphingobium aromaticivorans strain f199, and sphingobium sp. strain p2 have been found to possess a unique group of genes for aromatic degradation, which are distantly related with those in pseudomonads and other genera reported so far both in sequence homology ... | 2003 | 12682862 |
| wide geographic distribution of bacteriophages that lyse the same indigenous freshwater isolate (sphingomonas sp. strain b18). | an indigenous freshwater bacterium (sphingomonas sp. strain b18) from lake plubetasee (schleswig-holstein, germany) was used to isolate 44 phages from 13 very different freshwater and brackish habitats in distant geographic areas. this bacterial strain was very sensitive to a broad spectrum of phages from different aquatic environments. phages isolated from geographically distant aquatic habitats, but also those from the same sample, were diverse with respect to morphology and restriction patter ... | 2003 | 12676728 |
| reconstruction of mycobacterial dehalogenase rv2579 by cumulative mutagenesis of haloalkane dehalogenase linb. | the homology model of protein rv2579 from mycobacterium tuberculosis h37rv was compared with the crystal structure of haloalkane dehalogenase linb from sphingomonas paucimobilis ut26, and this analysis revealed that 6 of 19 amino acid residues which form an active site and entrance tunnel are different in linb and rv2579. to characterize the effect of replacement of these six amino acid residues, mutations were introduced cumulatively into the six amino acid residues of linb. the sixfold mutant, ... | 2003 | 12676719 |
| spatial and temporal analysis of the microbial community in slow sand filters used for treating horticultural irrigation water. | an experimental slow sand filter (ssf) was constructed to study the spatial and temporal structure of a bacterial community suppressive to an oomycete plant pathogen, phytophthora cryptogea. passage of water through the mature sand column resulted in complete removal of zoospores of the plant pathogen. to monitor global changes in the microbial community, bacterial and fungal numbers were estimated on selective media, direct viable counts of fungal spores were made, and the atp content was measu ... | 2003 | 12676691 |
| dimethylphthalate hydrolysis by specific microbial esterase. | two bacterial strains: arthrobacter sp. and sphingomonas paucimobilis were isolated from soil by enrichment cultures using dimethylphthalate (dmp) or monomethylphthalate (mmp) as sole carbon source, respectively. dmp was rapidly transformed by an arthrobacter sp. culture with formation of mmp and phthalic acid (pa) which is further degraded. this strain was unable to hydrolyse mmp. a mechanism of degradation of dmp was proposed with two ways: dmp-->pa and dmp-->mmp. the s. paucimobilis strain hy ... | 2003 | 12668024 |
| shifts in diversity and microscale distribution of the adapted bacterial phenotypes due to hg(ii) spiking in soil. | in a previous experiment [ranjard et al. (2000) fems microbiol ecol 31:107-115], the spatial heterogeneity of a mercury impact on soil bacterial community was revealed by an increase of mercury-resistant (hgr) bacterial numbers in the outer fraction and the sand fractions when compared to those in the silt fractions. the objectives of the present study were (i) to investigate whether mercury exposure affects the diversity and the distribution within the various fractions of the hgr populations a ... | 2003 | 12658524 |
| characterization of the ugpg gene encoding a udp-glucose pyrophosphorylase from the gellan gum producer sphingomonas paucimobilis atcc 31461. | the ugpggene, which codes for a udp-glucose pyrophosphorylase (ugp) (or glucose-1-phosphate uridylyltransferase; ec 2.7.7.9) in sphingomonas paucimobilis atcc 31461, was cloned and sequenced. this industrial strain produces the exopolysaccharide gellan, a new commercial gelling agent, and the ugpg gene may convert glucose-1-phosphate into udp-glucose in the gellan biosynthetic pathway. the ugpg gene is capable of restoring the capacity of an escherichia coli galu mutant to grow on galactose by f ... | 2003 | 12655408 |
| fluctuation of bacteria isolated from elm tissues during different seasons and from different plant organs. | in this work we isolated a culturable endophytic aerobic heterotrophic bacterial community from the stem and root tissues of elm trees (ulmus spp.) and analyzed its fluctuations. a total of 724 bacterial isolates were collected at different times (april, june, september and december) from two elm trees, one infected with elm yellows phytoplasmas, and one which was healthy-looking. the isolates were grouped into 82 haplotypes, identified by means of amplified ribosomal dna restriction analysis (a ... | 2003 | 12648725 |
| life under nutrient limitation in oligotrophic marine environments: an eco/physiological perspective of sphingopyxis alaskensis (formerly sphingomonas alaskensis). | the oceans of the world are nutrient-limited environments that support a dynamic diversity of microbial life. heterotrophic prokaryotes proliferate in oligotrophic regions and affect nutrient transformation and remineralization thereby impacting directly on the all marine biota. an important challenge in studying the microbial ecology of oligotrophic environments has been the isolation of ecologically important species. this goal has been recognized not only for its relevance in defining the dyn ... | 2003 | 12632213 |
| identification and functional characterization of sphingomonas macrogolitabida strain tfa genes involved in the first two steps of the tetralin catabolic pathway. | five genes involved in the two initial steps of the tetralin biodegradation pathway of sphingomonas macrogolitabida strain tfa have been characterized. thna1a2 and thna3a4, components of the ring-hydroxylating dioxygenase, were encoded in divergently transcribed operons. thna1, thna2, and thna3 were essential for tetralin ring-hydroxylating dioxygenase activity. thnb was identified as a dehydrogenase required for tetralin biodegradation. | 2003 | 12618469 |
| roles of the enantioselective glutathione s-transferases in cleavage of beta-aryl ether. | cleavage of the beta-aryl ether linkage is the most important process in lignin degradation. here we characterize the three tandemly located glutathione s-transferase (gst) genes, ligf, lige, and ligg, from low-molecular-weight lignin-degrading sphingomonas paucimobilis syk-6, and we describe the actual roles of these genes in the beta-aryl ether cleavage. based on the identification of the reaction product by electrospray ionization-mass spectrometry, a model compound of beta-aryl ether, alpha- ... | 2003 | 12618439 |
| saccharin as a sole source of carbon and energy for sphingomonas xenophaga skn. | a bacterium, strain skn, that was able to utilize saccharin as the sole source of carbon and energy for aerobic growth, was enriched and isolated from communal sewage. the isolate was identified as a strain of sphingomonas xenophaga. saccharin was quantitatively converted to cell material, sulfate, ammonium and, presumably, co(2). the specific rate of saccharin-dependent oxygen uptake during growth reached a maximum before the culture entered the stationary phase and then fell to undetectable le ... | 2003 | 12610724 |
| diversity of 746 heterotrophic bacteria isolated from microbial mats from ten antarctic lakes. | microbial mats, growing in antarctic lakes constitute unique and very diverse habitats. in these mats microorganisms are confronted with extreme life conditions. we isolated 746 bacterial strains from mats collected from ten lakes in the dry valleys (lakes hoare and fryxell), the vestfold hills (lakes ace, druzhby, grace, highway, pendant, organic and watts) and the larsemann hills (lake reid), using heterotrophic growth conditions. these strains were investigated by fatty acid analysis, and by ... | 2002 | 12583721 |
| in-field spatial variability in the degradation of the phenyl-urea herbicide isoproturon is the result of interactions between degradative sphingomonas spp. and soil ph. | substantial spatial variability in the degradation rate of the phenyl-urea herbicide isoproturon (ipu) [3-(4-isopropylphenyl)-1,1-dimethylurea] has been shown to occur within agricultural fields, with implications for the longevity of the compound in the soil, and its movement to ground- and surface water. the microbial mechanisms underlying such spatial variability in degradation rate were investigated at deep slade field in warwickshire, united kingdom. most-probable-number analysis showed tha ... | 2003 | 12571001 |
| degradation of polyvinyl alcohol by sphingomonas sp. sa3 and its symbiote. | a total of 800 samples was taken from taegu province, korea, where many textile factories provide a source of polyvinyl alcohol (pva) waste. these samples were screened for pva-degrading bacteria. a new strain, sa3, was discovered which formed yellow colonies and used pva as the sole carbon and energy source. strain sa3 was identified as a sphingomonas sp., based on the partial nucleotide sequence analysis of 16s ribosomal rna, the presence of 2-hydroxymyristic acid (14:o 2-oh) and sphingolipids ... | 2003 | 12545389 |
| genetic analysis and characterization of poly(aspartic acid) hydrolase-1 from sphingomonas sp. kt-1. | sphingomonas sp. kt-1 hydrolyzes poly(aspartic acid) (paa) containing alpha- and beta-amide units and has at least two different types of paa hydrolases. the paa hydrolase-1 hydrolyzes selectively beta-beta amide units in paa. molecular cloning of paa hydrolase-1 from sphingomonas sp. kt-1 has been carried out to characterize its gene products. genetic analysis shows that the deduced amino acid sequence of paa hydrolase-1 has a similarity with those of the catalytic domain of poly(3-hydroxybutyr ... | 2003 | 12523851 |
| a super-channel in bacteria: macromolecule uptake and depolymerization systems of sphingomonas sp. a1 with a special cell surface structure. | 2002 | 12520874 | |
| intersubunit interaction and catalytic activity of catechol 2,3-dioxygenases. | catechol 2,3-dioxygenases (c23os; ec 1.3.11.2) form a large protein family that is divided into several subgroups. amino acid sequences of c23os belonging to subgroup i.2.a and those belonging to i.2.b are found to be approx. 50% identical. when the central parts of the c23o sequences belonging to i.2.b were fused with the n-terminal and c-terminal sequences of i.2.a c23o, the hybrid enzymes were not active. to understand why these hybrid c23os were inactive, hybrids between xyle(p) (c23o found ... | 2003 | 12519074 |
| formyltetrahydrofolate synthetase sequences from salt marsh plant roots reveal a diversity of acetogenic bacteria and other bacterial functional groups. | sixty-two partial formyltetrahydrofolate synthetase (fthfs) structural gene sequences were recovered from roots of salt marsh plants, including spartina alterniflora, salicornia virginica, and juncus roemerianus. only s. alterniflora roots yielded sequences grouping with fthfs sequences from known acetogens. most other fthfs or fthfs-like sequences grouped with those from sulfate-reducing bacteria. several sequences that grouped with sphingomonas paucimobilis ligh were also recovered. | 2003 | 12514064 |
| degradation of polycyclic aromatic hydrocarbons at low temperature under aerobic and nitrate-reducing conditions in enrichment cultures from northern soils. | the potential for biodegradation of polycyclic aromatic hydrocarbons (pahs)at low temperature and under anaerobic conditions is not well understood, but such biodegradation would be very useful for remediation of polluted sites. biodegradation of a mixture of 11 different pahs with two to five aromatic rings, each at a concentration of 10 micro g/ml, was studied in enrichment cultures inoculated with samples of four northern soils. under aerobic conditions, low temperature severely limited pah b ... | 2003 | 12514005 |
| differential growth response of colony-forming alpha- and gamma-proteobacteria in dilution culture and nutrient addition experiments from lake kinneret (israel), the eastern mediterranean sea, and the gulf of eilat. | even though it is widely accepted that bacterioplankton growth in lakes and marine ecosystems is determined by the trophic status of the systems, knowledge of the relationship between nutrient concentrations and growth of particular bacterial species is almost nonexistent. to address this question, we performed a series of culture experiments with water from lake kinneret (israel), the eastern mediterranean sea, and the gulf of eilat (northern red sea). in the initial water samples, the proporti ... | 2003 | 12513996 |
| sphingomonas melonis sp. nov., a novel pathogen that causes brown spots on yellow spanish melon fruits. | a polyphasic taxonomic study was performed on the phytopathogenic bacterial strains dapp-pg 224(t) and dapp-pg 228, which cause brown spot on yellow spanish melon (cucumis melo var. inodorus) fruits. based on the presence of glucuronosyl ceramide (sgl-1) in cellular lipids, the results of fatty acid analysis and 16s rdna sequence comparison, the strains had been identified as belonging to the genus sphingomonas and as phylogenetically related to sphingomonas mali, sphingomonas pruni and sphingom ... | 2002 | 12508872 |
| sphingopyxis witflariensis sp. nov., isolated from activated sludge. | classification of strain w-50(t), which was isolated from a wastewater treatment plant, was investigated by a polyphasic approach. cells of strain w-50(t) were gram-negative, strictly aerobic, oxidase-positive and yellow-pigmented. ubiquinone q-10 was the main respiratory lipoquinone system and polar lipid fingerprints were characterized by the presence of a sphingoglycolipid, suggesting that strain w-50(t) belongs to the alpha-4 subclass of the proteobacteria. sequencing and comparative analyse ... | 2002 | 12508864 |
| crystal structure of algq2, a macromolecule (alginate)-binding protein of sphingomonas sp. a1, complexed with an alginate tetrasaccharide at 1.6-a resolution. | sphingomonas sp. a1 possesses a high molecular weight (hmw) alginate uptake system composed of a novel pit formed on the cell surface and a pit-dependent atp-binding cassette (abc) transporter in the inner membrane. the transportation of hmw alginate from the pit to the abc transporter is mediated by the periplasmic hmw alginate-binding proteins algq1 and algq2. we determined the crystal structure of algq2 complexed with an alginate tetrasaccharide using an alginate-free (apo) form as a search m ... | 2003 | 12486124 |
| characterization of the 4-carboxy-4-hydroxy-2-oxoadipate aldolase gene and operon structure of the protocatechuate 4,5-cleavage pathway genes in sphingomonas paucimobilis syk-6. | the protocatechuate (pca) 4,5-cleavage pathway is the essential metabolic route for degradation of low-molecular-weight products derived from lignin by sphingomonas paucimobilis syk-6. in the 10.5-kb ecori fragment carrying the genes for pca 4,5-dioxygenase (ligab), 2-pyrone-4,6-dicarboxylate hydrolase (ligi), 4-oxalomesaconate hydratase (ligj), and a part of 4-carboxy-2-hydroxymuconate-6-semialdehyde dehydrogenase (ligc), we found the ligk gene, which encodes 4-carboxy-4-hydroxy-2-oxoadipate (c ... | 2003 | 12486039 |
| bacterial degradation of aromatic compounds via angular dioxygenation. | dioxygenation is one of the important initial reactions of the bacterial degradation of various aromatic compounds. aromatic compounds, such as biphenyl, toluene, and naphthalene, are dioxygenated at lateral positions of the aromatic ring resulting in the formation of cis-dihydrodiol. this "normal" type of dioxygenation is termed lateral dioxygenation. on the other hand, the analysis of the bacterial degradation of fluorene (fn) analogues, such as 9-fluorenone, dibenzofuran (df), carbazole (car) ... | 2001 | 12483604 |
| chemotaxonomic and phylogenetic analyses of sphingomonas strains isolated from ears of plants in the family gramineae and a proposal of sphingomonas roseoflava sp. nov. | chemotaxonomic and phylogenetic characteristics of sphingomonas strains isolated from plants of the family gramineae were investigated. all strains contained the monosaccharide (glucuronic acid) type of glycosphingolipid (gsl-1). most were found also to contain the oligosaccharide-type glycosphingolipids. fatty acid and sphingosine profiles of the isolates were identical, although the ratio of the contents varies among the isolates. they all contained ubiquinone q-10, and the g1c contents were f ... | 2000 | 12483599 |
| characterization of tetrachlorohydroquinone reductive dehalogenase from sphingomonas sp. ug30. | tetrachlorohydroquinone reductive dehalogenase (pcpc) is the second of three enzymes that catalyze the initial degradation of pentachlorophenol in sphingomonas sp. ug30 and several other bacterial strains. the ug30 pcpc shares a high degree (94%) of primary sequence identity with the well-studied pcpc from sphingobium chlorophenolicum atcc 39723. significant differences, however, were observed between the two pcpc enzymes in some of their functional and kinetic properties. the temperature optimu ... | 2002 | 12459186 |
| linking of microorganisms to phenanthrene metabolism in soil by analysis of (13)c-labeled cell lipids. | phenanthrene-metabolizing soil microbial communities were characterized by examining mineralization of [(14)c]phenanthrene, by most-probable-number (mpn) counting, by 16s-23s spacer dna analysis of the numerically dominant, culturable phenanthrene-degrading isolates, and by examining incorporation of [(13)c]phenanthrene-derived carbon into sterols and polar lipid fatty acids (plfas). an unpolluted agricultural soil, a roadside soil diffusely polluted with polycyclic aromatic hydrocarbons (pahs), ... | 2002 | 12450834 |
| cloning and characterization of lin genes responsible for the degradation of hexachlorocyclohexane isomers by sphingomonas paucimobilis strain b90. | hexachlorocyclohexane (hch) has been used extensively against agricultural pests and in public health programs for the control of mosquitoes. commercial formulations of hch consist of a mixture of four isomers, alpha, beta, gamma, and delta. while all these isomers pose serious environmental problems, beta-hch is more problematic due to its longer persistence in the environment. we have studied the degradation of hch isomers by sphingomonas paucimobilis strain b90 and characterized the lin genes ... | 2002 | 12450824 |
| sphingomonas paucimobilis beta-glucosidase bgl1: a member of a new bacterial subfamily in glycoside hydrolase family 1. | the sphingomonas paucimobilis beta-glucosidase bgl1 is encoded by the bgl1 gene, associated with an 1308 bp open reading frame. the deduced protein has a potential signal peptide of 24 amino acids in the n-terminal region, and experimental evidence is consistent with the processing and export of the bgl1 protein through the inner membrane to the periplasmic space. a his(6)-tagged 44.3 kda protein was over-produced in the cytosol of escherichia coli from a recombinant plasmid, which contained the ... | 2003 | 12444924 |
| a two-species test of the hypothesis that spatial isolation influences microbial diversity in soil. | the hypothesis that spatial isolation is a key determinant of microbial community structure in soils was evaluated by examining the competitive dynamics of two species growing on a single resource in a uniform sand matrix under varied moisture content. one species dominated the community under highly connected, saturated treatments, suggesting that these conditions allow competitive interactions to structure the community. as moisture content decreased, however, the less competitive species beca ... | 2003 | 12415419 |
| emendation of the genus sphingomonas yabuuchi et al. 1990 and junior objective synonymy of the species of three genera, sphingobium, novosphingobium and sphingopyxis, in conjunction with blastomonas ursincola. | the 16s rdna sequence similarities between the type strains of sphingomonas paucimobilis and 32 other sphingomonas species range from 90.2 to 99.6%. it might be possible to divide the genus into several new genera according to a dendrogram drawn from 16s rdna sequence similarity. however, the phenotypic and biochemical information needed to define clusters of strains representing distinct genera within this group of organisms was not previously available. although the cellular lipids of type str ... | 2002 | 12361250 |
| gellan gum biosynthesis in sphingomonas paucimobilis atcc 31461: genes, enzymes and exopolysaccharide production engineering. | the commercial gelling agent, gellan, is an extracellular polysaccharide (eps) produced by sphingomonas paucimobilis atcc 31461. in recent years, significant progress in understanding the relationship between gellan structure and properties and elucidation of the biosynthesis and engineering of this recent product of biotechnology has been made. this review focuses on recent advances in this field. emphasis is given to identification and characterization of genes and enzymes involved, or predict ... | 2002 | 12355314 |
| occurrence of an alpha-galacturonosyl-ceramide in the dioxin-degrading bacterium sphingomonas wittichii. | the chemical structure of two glycosphingolipids (gsls) found in the dioxin-degrading bacterium sphingomonas wittichii strain rw1 was investigated by means of mass spectrometry and (1)h-nuclear magnetic resonance spectroscopy. one of the gsls was alpha-d-glucuronosyl-ceramide, commonly present in sphingomonas spp., and the other was proved to be alpha-d-galacturonosyl-ceramide, whose sugar configuration has not been reported before. in both gsls the ceramide portion was composed of myristic acid ... | 2002 | 12351245 |
| direct electrochemistry of pentachlorophenol hydroxylase. | the direct electrochemistry of the flavin-containing monooxygenase, pentachlorophenol hydroxylase (pcph), at an edge plane graphite electrode was observed and a catalytic response, linear with concentration, was found with the substrate pentachlorophenol (pcp). | 2001 | 12240080 |
| isolation and characterization of sphingomonas sp. gtin11 capable of carbazole metabolism in petroleum. | a bacterial culture was isolated from a manufactured gas plant (mgp) soil based on its ability to metabolize the nitrogen-containing heterocycle carbazole. the culture was identified as a sphingomonas sp. and was given the designation gtin11. a cloned 4.2kb dna fragment was confirmed to contain genes responsible for carbazole degradation. dna sequence analysis revealed that the fragment contained five open reading frames (orfs) with the deduced amino acid sequence showing homology to; carbazole ... | 2002 | 12237109 |
| biotransformation of p-xylene and 2,6-dimethylnaphthalene by xylene monooxygenase cloned from a sphingomonas isolate. | sphingomonas strain asu1 was isolated from an industrial wastewater bioreactor and grew on 2,6-dimethylnaphthalene (2,6-dmn) as the sole carbon/energy source. the genes for a xylene monooxygenase were cloned from strain asu1. expression of the asu1 xylene monooxygenase was compared to expression of the pwwo xylene monooxygenase in escherichia coli. both monooxygenases transformed p-xylene and 2,6-dmn by initially hydroxylating one methyl group. in addition, the asu1 monooxygenase also hydroxylat ... | 2002 | 12226724 |
| evidence for natural horizontal transfer of the pcpb gene in the evolution of polychlorophenol-degrading sphingomonads. | the chlorophenol degradation pathway in sphingobium chlorophenolicum is initiated by the pcpb gene product, pentachlorophenol-4-monooxygenase. the distribution of the gene was studied in a phylogenetically diverse group of polychlorophenol-degrading bacteria isolated from contaminated groundwater in kärkölä, finland. all the sphingomonads isolated were shown to share pcpb gene homologs with 98.9 to 100% sequence identity. the gene product was expressed when the strains were induced by 2,3,4,6-te ... | 2002 | 12200305 |
| cloning and characterization of the ferulic acid catabolic genes of sphingomonas paucimobilis syk-6. | sphingomonas paucimobilis syk-6 degrades ferulic acid to vanillin, and it is further metabolized through the protocatechuate 4,5-cleavage pathway. we obtained a tn5 mutant of syk-6, fa2, which was able to grow on vanillic acid but not on ferulic acid. a cosmid which complemented the growth deficiency of fa2 on ferulic acid was isolated. the 5.2-kb bamhi-ecori fragment in this cosmid conferred the transformation activity of ferulic acid to vanillin on escherichia coli host cells. a sequencing ana ... | 2002 | 12200295 |
| characterization of the 5-carboxyvanillate decarboxylase gene and its role in lignin-related biphenyl catabolism in sphingomonas paucimobilis syk-6. | sphingomonas paucimobilis syk-6 degrades a lignin-related biphenyl compound, 5,5'-dehydrodivanillate (ddva), to 5-carboxyvanillate (5cva) by the enzyme reactions catalyzed by the ddva o-demethylase (ligx), the ring cleavage oxygenase (ligz), and the meta-cleavage compound hydrolase (ligy). in this study we examined the degradation step of 5cva. 5cva was transformed to vanillate, o-demethylated, and further degraded via the protocatechuate 4,5-cleavage pathway by this strain. a cosmid clone which ... | 2002 | 12200294 |
| identification of quinoide redox mediators that are formed during the degradation of naphthalene-2-sulfonate by sphingomonas xenophaga bn6. | during aerobic degradation of naphthalene-2-sulfonate (2ns), sphingomonas xenophaga strain bn6 produces redox mediators which significantly increase the ability of the strain to reduce azo dyes under anaerobic conditions. it was previously suggested that 1,2-dihydroxynaphthalene (1,2-dhn), which is an intermediate in the degradative pathway of 2ns, is the precursor of these redox mediators. in order to analyze the importance of the formation of 1,2-dhn, the dihydroxynaphthalene dioxygenase gene ... | 2002 | 12200285 |
| characterization of four olive-mill-wastewater indigenous bacterial strains capable of aerobically degrading hydroxylated and methoxylated monocyclic aromatic compounds. | seven aerobic bacterial strains capable of degrading several of the monocyclic aromatic compounds occurring in the phenolic fraction of olive-mill wastewaters (omws) were isolated from an italian omw. the results of the 16s rdna restriction analysis evidenced that these strains are distributed among four different groups. one strain of each group was taxonomically characterized by sequencing the amplified 16s rdna, and the four strains were assigned to the genera comamonas (strain av1a), ralston ... | 2002 | 12189422 |
| organization and regulation of pentachlorophenol-degrading genes in sphingobium chlorophenolicum atcc 39723. | the first three enzymes of the pentachlorophenol (pcp) degradation pathway in sphingobium chlorophenolicum (formerly sphingomonas chlorophenolica) atcc 39723 have been characterized, and the corresponding genes, pcpa, pcpb, and pcpc, have been individually cloned and sequenced. to search for new genes involved in pcp degradation and map the physical locations of the pcp genes, a 24-kb fragment containing pcpa and pcpc was completely sequenced. a putative lysr-type transcriptional regulator gene, ... | 2002 | 12169590 |
| cadmium biosorption by sphingomonas paucimobilis biomass. | among microorganisms isolated in bangkok, the gram-negative bacterium sphingomonas paucimobilis exhibited the greatest cadmium tolerance. it was able to survive in the medium containing cadmium as high as 200 mg/l. however, concentrations of cadmium at 25-200 mg/l inhibited its growth. the biosorption properties for cadmium of this bacterial biomass and the effects of environmental factors (i.e., biosorbent type, initial ph and biosorbent concentration) on the cadmium biosorption were explored. ... | 2002 | 12146636 |
| use of a two-phase partitioning bioreactor for degrading polycyclic aromatic hydrocarbons by a sphingomonas sp. | a two-phase partitioning bioreactor (tppb) utilizing the bacterium sphingomonas aromaticivorans b0695 was used to degrade four low molecular weight (lmw) polycyclic aromatic hydrocarbons (pahs). the tppb concept is based on the use of a biocompatible, immiscible organic solvent in which high concentrations of recalcitrant substrates are dissolved. these substances partition into the cell-containing aqueous phase at rates determined by the metabolic activity of the cells. experiments showed that ... | 2002 | 12111172 |
| growth in coculture stimulates metabolism of the phenylurea herbicide isoproturon by sphingomonas sp. strain srs2. | metabolism of the phenylurea herbicide isoproturon by sphingomonas sp. strain srs2 was significantly enhanced when the strain was grown in coculture with a soil bacterium (designated strain srs1). both members of this consortium were isolated from a highly enriched isoproturon-degrading culture derived from an agricultural soil previously treated regularly with the herbicide. based on analysis of the 16s rrna gene, strain srs1 was assigned to the beta-subdivision of the proteobacteria and probab ... | 2002 | 12089031 |
| aerobic degradation of 2,4,6-trichlorophenol by a microbial consortium - selection and characterization of microbial consortium. | a microbial consortium that efficiently degrades 2,4,6-tcp (2,4,6-trichlorophenol), as the sole source of carbon and energy under aerobic conditions was selected from municipal activated sludge. six bacterial strains, designated s(1), s(2), s(3), s(4), s(5) and s(6), were isolated from the selected consortium and five were identified as sphingomonas paucimobilis (s(2), s(3)), burkholderia cepacia(s(4)), chryseomonas luteola (s(5)) and vibrio metschnikovii (s(6)). after prolonged cultivation foll ... | 2002 | 12073141 |
| degradation of phenanthrene, methylphenanthrenes and dibenzothiophene by a sphingomonas strain 2mpii. | strain sphingomonassp. (2mpii), isolated from marine sediment, was able to utilize phenanthrene (p) or 2-methylphenanthrene (2mp) as the sole carbon source. however, 9-methylphenanthrene (9mp) and dibenzothiophene (dbt) were weakly degraded. the degradation rates of 9mp and dbt increased in the presence of 2mp, whilst the degradation rate of 2mp increased in the presence of 9mp. however, the presence of dbt inhibited the degradation of 2mp. dbt sulfone, a dbt metabolite, was not assimilated by t ... | 2002 | 12073136 |
| microbial diseases of corals and global warming. | coral bleaching and other diseases of corals have increased dramatically during the last few decades. as outbreaks of these diseases are highly correlated with increased sea-water temperature, one of the consequences of global warming will probably be mass destruction of coral reefs. the causative agent(s) of a few of these diseases have been reported: bleaching of oculina patagonica by vibrio shiloi; black band disease by a microbial consortium; sea-fan disease (aspergillosis) by aspergillus sy ... | 2002 | 12071977 |
| correction of the connecting vowel and gender of the specific epithet in the name sphingomonas macrogoltabidus takeuchi et al. 1993 to sphingomonas macrogolitabida. | in accordance with the bacteriological code (1990 revision), the connecting vowel and gender of the specific epithet macrogoltabidus in combination with the generic name sphingomonas must be -i- and the ending must be changed to -a to agree with the gender of the generic name, respectively. thus sphingomonas macroboltabidus takeuchi et al. 1993 should be sphingomonas macrogolitabida corrig. takeuchi et al. 1993. | 2002 | 12054221 |
| sphingomonas sp. strain ka1, carrying a carbazole dioxygenase gene homologue, degrades chlorinated dibenzo-p-dioxins in soil. | hybridization analysis showed that a newly isolated carbazole (car)-degrading bacterium sphingomonas sp. strain ka1 did not possess the gene encoding the terminal oxygenase component (caraa) of car 1,9a-dioxygenase at high homology (more than 90% identity) to that of another car-degrader, pseudomonas resinovorans strain ca10. however, pcr experiments using the primers for amplifying the internal fragment of the caraa gene (810 bp for strain ca10) showed that a pcr product of unexpected size (110 ... | 2002 | 12052549 |
| microbiota of periapical lesions refractory to endodontic therapy. | the periapical microbiota of 36 teeth with refractory apical periodontitis was investigated. none of the teeth had responded to conventional endodontic or long-term (> 6 months), calcium-hydroxide treatment. eight patients had received antibiotics systemically. after anaerobic culture, a total of 148 microbial strains were detected among 67 microbial species. one of the 36 lesions was culture-negative. approximately half (51.0%) of the bacterial strains were anaerobic. gram-positive species cons ... | 2002 | 12043869 |
| prevalent bacterial species and novel phylotypes in advanced noma lesions. | the purpose of this study was to determine the bacterial diversity in advanced noma lesions using culture-independent molecular methods. 16s ribosomal dna bacterial genes from dna isolated from advanced noma lesions of four nigerian children were pcr amplified with universally conserved primers and spirochetal selective primers and cloned into escherichia coli. partial 16s rrna sequences of approximately 500 bases from 212 cloned inserts were used initially to determine species identity or close ... | 2002 | 12037085 |
| catabolic and genetic diversity of degradative bacteria from fuel-hydrocarbon contaminated aquifers. | a bstractsubsurface sediments were recovered from two aquifers contaminated with petroleum hydrocarbons in order to isolate and characterize indigenous microorganisms capable of biodegrading fuel-related compounds. these sediments had been previously studied using catabolic gene probes providing putative demonstration of significant biodegradation potential. based on 16s rdna sequence analysis, the isolates were phylogenetically similar to common soil microorganisms, including members of the gen ... | 2000 | 12035098 |
| evolution of bacterial diversity during enrichment of pcp-degrading activated soils. | the microbiota of completely mixed soil slurry was acclimated with pentachlorophenol (pcp) or with a wood preservative mixture (wpm) containing several pollutants such as pcp and petroleum hydrocarbons. the impact of these compounds on the bacterial diversity was studied by using molecular tools. pcr amplifications of the 16s ribosomal rna gene sequences (rdna) were carried out with total dna extracted from soil slurry samples taken at different time points during the enrichment process of the p ... | 2000 | 12035093 |
| analysis of endophytic bacterial communities of potato by plating and denaturing gradient gel electrophoresis (dgge) of 16s rdna based pcr fragments. | the diversity of endophytic bacterial populations of potato (solanum tuberosum cv desirée) was assessed using a combination of dilution plating of plant macerates followed by isolation and characterization of isolates, and direct pcr-dgge on the basis of dna extracted from plants. the culturable endophytic bacterial communities detected in potato stem bases as well as in roots were in most cases on the order 103 to 105 cfu g?1 of fresh plant tissue. dilution plating revealed that a range of bact ... | 2001 | 12032611 |
| practical syntheses of n-substituted 3-hydroxyazetidines and 4-hydroxypiperidines by hydroxylation with sphingomonas sp. hxn-200. | [reaction: see text] hydroxylation of n-substituted azetidines 11 and 12 and piperidines 15-19 with sphingomonas sp. hxn-200 gave 91-98% of the corresponding 3-hydroxyazetidines 13 and 14 and 4-hydroxypiperidines 20-24, respectively, with high activity and excellent regioselectivity. high yields and high product concentrations (2 g/l) were achieved with frozen/thawed cells as biocatalyst. for the first time, rehydrated lyophilized cells were successfully used for the biohydroxylation. | 2002 | 12027632 |
| binol-catalyzed highly enantioselective terminal alkyne additions to aromatic aldehydes. | [reaction: see text] the readily available binol ligand in combination with ti(o(i)pr)(4) was found to catalyze the highly enantioselective reaction (92-98% ee) of terminal alkynes with aromatic aldehydes that contain a variety of substituents and substitution patterns. after the preparation of the zinc acetylide reagent, the catalytic asymmetric addition to aldehydes proceeded at room temperature with excellent stereocontrol. this simple catalyst system is practical for the asymmetric synthesis ... | 2002 | 12027631 |
| effects of different quinoid redox mediators on the anaerobic reduction of azo dyes by bacteria. | the addition of quinoid redox mediators to anaerobically incubated cultures of various taxonomically different bacterial species resulted in significantly increased reduction rates for the azo dye amaranth. from different quinones tested, generally anthraquinone-2-sulfonate (aqs) and lawsone (2-hydroxy-1,4-naphthoquinone) caused the highest increase in the azoreductase activities. the effects of aqs and lawsone were studied in greater detail with sphingomonas xenophaga bn6 and escherichia coli k ... | 2002 | 11999057 |
| 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 ... | 2001 | 11995822 |
| a kinetic model for surfactant inhibition of pentachlorophenol biodegradation. | a kinetic model is used to describe the effect of the nonionic surfactant tergitol np-10 (tnp10) on pentachlorophenol (pcp) biodegradation by sphingomonas chlorophenolica sp. strain ra2. different initial biomass to initial substrate ratios ranging from 13 to 418 were tested with 23 tnp10 concentrations ranging from 0 to 1500 mg/l. tests were also conducted at 10 degrees c and 20 degrees c. no pcp biodegradation inhibition was observed at concentrations below the critical micelle concentration ( ... | 2002 | 11992526 |
| characterization of sphingomonas sp. ant 17, an aromatic hydrocarbon-degrading bacterium isolated from antarctic soil. | sphingomonas sp. strain ant 17 was isolated from fuel-contaminated soil collected at scott base, ross island, antarctica. we anticipated that ant 17 would be a good model organism for studying cold climate bioremediation, and therefore determined its biodegradation capabilities and tolerance of potentially growth-limiting environmental conditions. sphingomonas sp. ant 17 degrades the aromatic fraction of several different crude oils, jet fuel, and diesel fuel at low temperatures and without nutr ... | 2002 | 11984628 |
| biotransformation of 2,7-dichloro- and 1,2,3,4-tetrachlorodibenzo-p-dioxin by sphingomonas wittichii rw1. | aerobic biotransformation of the diaryl ethers 2,7-dichlorodibenzo-p-dioxin and 1,2,3,4-tetrachlorodibenzo-p-dioxin by the dibenzo-p-dioxin-utilizing strain sphingomonas wittichii rw1, producing corresponding metabolites, was demonstrated for the first time. our strain transformed 2,7-dichlorodibenzo-p-dioxin, yielding 4-chlorocatechol, and 1,2,3,4-tetrachlorodibenzo-p-dioxin, producing 3,4,5,6-tetrachlorocatechol and 2-methoxy-3,4,5,6-tetrachlorophenol; all of these compounds were unequivocally ... | 2002 | 11976140 |
| extracellular polysaccharides of rhodococcus rhodochrous s-2 stimulate the degradation of aromatic components in crude oil by indigenous marine bacteria. | rhodococcus rhodochrous s-2 produces extracellular polysaccharides (s-2 eps) containing d-glucose, d-galactose, d-mannose, d-glucuronic acid, and lipids, which is important to the tolerance of this strain to an aromatic fraction of (af) arabian light crude oil (n. iwabuchi, n. sunairi, h. anzai, m. nakajima, and s. harayama, appl. environ. microbiol. 66:5073-5077, 2000). in the present study, we examined the effects of s-2 eps on the growth of indigenous marine bacteria on af. indigenous bacteri ... | 2002 | 11976106 |
| isolation and characterization of dibenzofuran-degrading bacteria. | two bacterial strains capable of utilizing dibenzofuran (df) as a sole carbon source were isolated from soil samples of reclaimed land. the strains designated hl1 and hl7 were identified as klebsiella sp. and sphingomonas sp., respectively, on the basis of biochemical characteristics and the sequences of the 16s ribosomal dna. sphingomonas sp. strain hl7 degraded non-, mono- and also dichlorinated df and dibenzo-p-dioxin (dd). klebsiella sp. strain hl1 was able to degrade non- and monochlorinate ... | 2002 | 11959434 |
| degradation of polycyclic aromatic hydrocarbons dissolved in tween 80 surfactant solutions by sphingomonas paucimobilis epa 505. | the degradation rates of mixtures of pyrene (pyr), fluoranthene (fla), and phenanthrene (phe) by sphingomonas paucimobilis epa 505 were measured in the presence of the nonionic surfactant tween 80. for strain epa 505, fla and phe are growth substrates, while pyr is not. linear degradation rates ranging from 0.05 to 2.2 mg x l(-1) x h(-1) were observed for fla, pyr, and phe at approximately 10(7) colony-forming units (cfu)/ml. at lower biomass, pyr degradation exhibited lognormal degradation. the ... | 2002 | 11958568 |
| exploring the structure and activity of haloalkane dehalogenase from sphingomonas paucimobilis ut26: evidence for product- and water-mediated inhibition. | the hydrolysis of haloalkanes to their corresponding alcohols and inorganic halides is catalyzed by alpha/beta-hydrolases called haloalkane dehalogenases. the study of haloalkane dehalogenases is vital for the development of these enzymes if they are to be utilized for bioremediation of organohalide-contaminated industrial waste. we report the kinetic and structural analysis of the haloalkane dehalogenase from sphingomonas paucimobilis ut26 (linb) in complex with each of 1,2-dichloroethane and 1 ... | 2002 | 11939779 |
| identification of mouse submaxillary gland protein in mouse saliva and its binding to mouse oral bacteria. | the mouse submaxillary gland protein (msmgp) is highly expressed in the submandibular gland of the adult mouse and rat. it shares 51% identity at the amino-acid level with a human protein, the prolactin-inducible protein (pip)/gross cystic disease fluid protein 15 (gcdfp-15), which has been found in saliva, tears, sweat, seminal plasma, submucosal glands of the lung and amniotic fluid. more recently, the human pip has been reported to bind to bacterial strains normally found in the mouth, ear ca ... | 2002 | 11922875 |
| cloning and characterization of linr, involved in regulation of the downstream pathway for gamma-hexachlorocyclohexane degradation in sphingomonas paucimobilis ut26. | in sphingomonas paucimobilis ut26, lind and line activities, which are responsible for the degradation of gamma-hexachlorocyclohexane, are inducibly expressed in the presence of their substrates, 2,5-dichlorohydroquinone (2,5-dchq) and chlorohydroquinone (chq). the nucleotide sequence of the 1-kb upstream region of the line gene was determined, and an open reading frame (orf) was found in divergent orientation from line. because the putative protein product of the orf showed similarity to the ly ... | 2002 | 11916699 |
| [the application of genetic engineering to the petroleum biodesulfurization]. | the developed course and reaction mechanisms of petroleum biodesulfurization were introduced. the recent development of genetic engineering technology, which used in desulfuration strain's construction, reconstruction and other fields, was summarized emphatically. its current research situation internal and overseas and the developing prospect were simply analyzed, and our research designs were submitted. | 2001 | 11910751 |
| recycle use of sphingomonas sp. cdh-7 cells for continuous degradation of carbazole in the presence of mgcl2. | carbazole (ca) is a heterocyclic nitrogen compound contained in the crude petroleum oil and recalcitrant to removal through the refinery processes. for development of the efficient ca-degradation bioprocess, conditions for the recycle use of sphingomonas sp. cdh-7 resting cells were examined. when the resting cells (o.d.(660) 3.3) were shaken in 50 m m k2hpo4-kh2po4 buffer (ph 7.0) containing ca 1000 mg/l, ca 880 mg/l was degraded within 3 h, but thereafter the activity decreased markedly. howev ... | 2002 | 11910494 |
| nonionic surfactant effects on pentachlorophenol biodegradation. | several potential mechanisms of surfactant-induced inhibition of pentachlorophenol (pcp) biodegradation were tested using a pure bacterial culture of sphingomonas chlorophenolicum sp. strain ra2. pcp degradation, glucose degradation, and oxygen uptake during endogenous conditions and during glucose degradation were measured for batch systems in the presence of the nonionic surfactant tergitol np-10 (tnp10). tnp10 did not exert toxicity on ra2 as measured by dissolved oxygen uptake rates under en ... | 2002 | 11902780 |
| recurrent sphingomonas paucimobilis -bacteraemia associated with a multi-bacterial water-borne epidemic among neutropenic patients. | a cluster of septicaemias due to several water-related species occurred in a haematological unit of a university hospital. in recurrent septicaemias of a leukaemic patient caused by sphingomonas paucimobilis, genotyping of the blood isolates by use of random amplified polymorphic dna-analysis verified the presence of two distinct s. paucimobilis strains during two of the separate episodes. a strain of s. paucimobilis identical to one of the patient's was isolated from tap water collected in the ... | 2002 | 11886195 |
| crystal structure of algq2, a macromolecule (alginate)-binding protein of sphingomonas sp. a1 at 2.0a resolution. | sphingomonas sp. a1 possesses a high molecular mass (average 25,700 da) alginate uptake system mediated by a novel pit-dependent abc transporter. the x-ray crystallographic structure of algq2 (57,200 da), an alginate-binding protein in the system, was determined by the multiple isomorphous replacement method and refined at 2.0 a resolution with a final r-factor of 18.3% for 15 to 2.0 a resolution data. the refined structure of algq2 was comprised of 492 amino acid residues, 172 water molecules, ... | 2002 | 11884143 |
| molecular detection and diversity of polycyclic aromatic hydrocarbon-degrading bacteria isolated from geographically diverse sites. | nineteen polycyclic aromatic hydrocarbon (pah)-degrading bacteria were isolated from environmental samples in kuwait, indonesia, thailand, and japan by enrichment with either naphthalene or phenanthrene as a sole carbon source. sequence analyses of the 16-s rrna gene indicated that at least seven genera (ralstonia, sphingomonas, burkholderia, pseudomonas, comamonas, flavobacterium, and bacillus) were present in this collection. determination of the ability of the isolates to use pah and its pres ... | 2002 | 11876413 |
| employment of the human estrogen receptor beta ligand-binding domain and co-activator src1 nuclear receptor-binding domain for the construction of a yeast two-hybrid detection system for endocrine disrupters. | to screen a wide variety of chemicals for endocrine disrupters, and to develop an effective microbial degradation system for them, a good system is needed for the rapid and accurate evaluation of the endocrine-disrupting activities of suspected chemicals and their degradation products. we constructed two-hybrid systems that co-express the gal4p dna binding domain/ligand-binding domain of human estrogen receptor (her) alpha or beta and the gal4p transactivation domain/nuclear receptor-binding dom ... | 2002 | 11872169 |
| aerobic and facultatively anaerobic cellulolytic bacteria from the gut of the termite zootermopsis angusticollis. | to demonstrate the occurrence of cellulolytic bacteria in the termite zootermopsis angusticollis. | 2002 | 11849325 |
| enzymatic reaction of hydrogen peroxide-dependent peroxygenase cytochrome p450s: kinetic deuterium isotope effects and analyses by resonance raman spectroscopy. | cytochromes p450sp(alpha) (cyp152b1) and p450bs(beta) (cyp152a1), which are isolated from sphingomonas paucimobilis and bacillus subtilis, respectively, belong to the p450 superfamily, but catalyze hydroxylation reactions, in which an oxygen atom from h2o2 is efficiently introduced into fatty acids (e.g., myristic acid). p450sp(alpha) produces the alpha-hydroxylated (alpha-oh) products at 100%, while p450bs(beta) produces alpha- and beta-hydroxylated (beta-oh) products at 33 and 67%, respectivel ... | 2002 | 11827534 |
| dna-based and culture-based characterization of a hydrocarbon-degrading consortium enriched from arctic soil. | a hydrocarbon-degrading consortium was enriched from fuel-contaminated soil from the northeastern tip of ellesmere island (82 degrees 30'n, 62 degrees 19'w). the enrichment culture was grown on jet a-1 fuel at 7 degrees c. bacterial 16s rna gene (rdna) fragments were amplified by polymerase chain reaction (pcr) from members of the above consortium and cloned into a plasmid vector. partial sequences (approximately 500 bp) were determined for 29 randomly selected rdna clones. the majority of seque ... | 2001 | 11822837 |
| 16s rdna sequence analysis of bacterial isolates from biodeteriorated mural paintings in the servilia tomb (necropolis of carmona, seville, spain). | bacteria were isolated from damaged mural paintings of the servilia tomb (necropolis of carmona, seville, spain). selected strains, representative for different clusters of isolates with similar fatty acid profiles, were analysed by 16s rdna sequence analysis. bacillus is the dominant genus among the isolates: members of the rrna species complexes of b. megaterium, b. pumilus and b. firmus were found as well as several other bacillus species. one group of halotolerant isolates falls in the bacil ... | 2001 | 11822679 |
| microflora investigation experiment. | many microorganisms were isolated from condensed water, wiping and scratching of cabin wall and air sampler in russian space station mir by russian astronauts lazutkin et al. in february 1997 as part of nasda "first mir utilization space experiment (jmir)". for example, there were about 2 x 10(6) cells/ml in condensed water sample no. 1 isolated from the transfer-docking compartment of crystal module. we tried the colony isolation, pure culturing and identification from these sampled microorgani ... | 2001 | 11799257 |
| temperature- and growth-phase-regulated changes in lipid fatty acid structures of psychrotolerant groundwater proteobacteria. | cellular fatty acid compositions of five psychrotolerant groundwater isolates representing alpha- and beta-proteobacteria were studied at temperatures ranging from 8 to 25 degrees c. unsaturation of straight-chain fatty acids was the most common response to decreasing temperature and was detected in four of the isolates. on solid media, decrease of temperature resulted in a decrease of cyclopropane fatty acids in beta-proteobacterial isolates. the formation of cyclopropane fatty acids depended, ... | 2001 | 11797043 |