| microbial life at high salt concentrations: phylogenetic and metabolic diversity. | halophiles are found in all three domains of life. within the bacteria we know halophiles within the phyla cyanobacteria, proteobacteria, firmicutes, actinobacteria, spirochaetes, and bacteroidetes. within the archaea the most salt-requiring microorganisms are found in the class halobacteria. halobacterium and most of its relatives require over 100-150 g/l salt for growth and structural stability. also within the order methanococci we encounter halophilic species. halophiles and non-halophilic r ... | 2008 | 18412960 |
| kinetics of 1,4-dioxane biodegradation by monooxygenase-expressing bacteria. | 1,4-dioxane is a probable human carcinogen, and an important emerging water contaminant. in this study, the biodegradation of dioxane by 20 bacterial isolates was evaluated, and 13 were found to be capable of transforming dioxane. dioxane served as a growth substrate for pseudonocardia dioxanivorans cb1190 and pseudonocardia benzenivorans b5, with yields of 0.09 g protein g dioxane(-1) and 0.03 g protein g dioxane(-1), respectively. cometabolic transformation of dioxane was observed for monooxyg ... | 2006 | 16999122 |
| pseudomonas segetis sp. nov., isolated from soil. | a gram-negative, aerobic bacterium, designated strain fr1439t, was isolated from the soil of dokdo in the republic of korea. the cells of strain fr1439t were catalase- and oxidase-positive, motile and rod-shaped. phylogenetic analysis of the 16s rrna gene sequence revealed that it represents a distinct line of descent within the genus pseudomonas. the levels of dna-dna relatedness between strain fr1439t and type strains of phylogenetically related species, namely pseudomonas flavescens, pseudomo ... | 2006 | 17082397 |
| identification of a denitrifying bacterium and verification of its anaerobic ammonium oxidation ability. | a strain d3 of denitrifying bacterium was isolated from an anammox reactor, and identified as pseudomonas mendocina based on the morphological and physiological assay, vitek test, biolog test, (g + c) mol% content, and 16s rdna phylogenetic analysis. as a typical denitrifying bacterium, strain d3 achieved the maximal nitrate reduction rate of 26.2 mg/(l x d) at the nitrate concentration of 88.5 mg n/l. the optimal ph and growth temperature were 7.84 and 34.9 degrees c, respectively. strain d3 wa ... | 2006 | 17172053 |
| identification, isolation, and analysis of a gene cluster involved in iron acquisition by pseudomonas mendocina ymp. | microbial acquisition of iron from natural sources in aerobic environments is a little-studied process that may lead to mineral instability and trace metal mobilization. pseudomonas mendocina ymp was isolated from the yucca mountain site for long-term nuclear waste storage. its ability to solubilize a variety of fe-containing minerals under aerobic conditions has been previously investigated but its molecular and genetic potential remained uncharacterized. here, we have shown that the organism p ... | 2008 | 18058194 |
| entomopathogenicity of native bacteria from anastrepha fraterculus and ceratitis capitata against the pest phyllocnistis citrella. | in piura (peru), the pest phyllocnistis citrella stainton damages the photosynthetic rate and new bud production of citrus aurantiifolia swingle (sweet lemon), decreasing the yield, productivity and commercial price of its fruit. biological control was evaluated through the crossed effect of bacteria obtained from pests (anastrepha fraterculus wied., ceratitis capitata wied. and rhynchophorus palmarum l.) that are pathogenic against their original host species. enterobacter cloacae (jordan) horm ... | 2007 | 17348070 |
| structure and function of pa4872 from pseudomonas aeruginosa, a novel class of oxaloacetate decarboxylase from the pep mutase/isocitrate lyase superfamily. | pseudomonas aeruginosa pa4872 was identified by sequence analysis as a structurally and functionally novel member of the pep mutase/isocitrate lyase superfamily and therefore targeted for investigation. substrate screens ruled out overlap with known catalytic functions of superfamily members. the crystal structure of pa4872 in complex with oxalate (a stable analogue of the shared family alpha-oxyanion carboxylate intermediate/transition state) and mg2+ was determined at 1.9 a resolution. as with ... | 2008 | 18081320 |
| characterization of chromate-resistant and -reducing bacteria by traditional means and by a high-throughput phenomic technique for bioremediation purposes. | to select strains for the bioremediation of cr(vi)-polluted environments, four highly cr(vi)-resistant bacterial isolates were identified and characterized using both traditional techniques and a novel approach called phenotype microarrays. the isolates were identified as members of pseudomonas mendocina (strains 34 and 56) and members of pseudomonas corrugata (strains 22 and 28). results showed that it was possible, by varying the carbon/energy source, to decouple bacterial growth and cr(vi) re ... | 2007 | 17385890 |
| structure and function of pa4872 from pseudomonas aeruginosa, a novel class of oxaloacetate decarboxylase from the pep mutase/isocitrate lyase superfamily. | pseudomonas aeruginosa pa4872 was identified by sequence analysis as a structurally and functionally novel member of the pep mutase/isocitrate lyase superfamily and therefore targeted for investigation. substrate screens ruled out overlap with known catalytic functions of superfamily members. the crystal structure of pa4872 in complex with oxalate (a stable analogue of the shared family alpha-oxyanion carboxylate intermediate/transition state) and mg2+ was determined at 1.9 a resolution. as with ... | 2008 | 18081320 |
| pseudomonas 2007. | | 2008 | 18165299 |
| use of pseudomonas mendocina, or recombinant escherichia coli cells expressing toluene-4-monooxygenase, and a cell-free tyrosinase for the synthesis of 4-fluorocatechol from fluorobenzene. | the transformation of fluorobenzene (fb) by whole cell expressing toluene-4-monooxygenase (t4mo) resulted in the formation of various hydroxylated products. the predominant product was either 4-fluorophenol (4fp) or 4-fluorocatechol (4fcat) depending on the ratio of biocatalyst to substrate concentration. the transformation of 1 mm fb by whole cells (1.5 mg cdw/ml) gave a 52% yield of 4fcat as a single product. the yield of 4fcat was improved 1.6-fold (80%) by adding 10 mm ascorbic acid to the b ... | 2007 | 17426925 |
| biotransformations of 2-methylisoborneol by camphor-degrading bacteria. | many camphor-degrading bacteria that are able to transform 2-methylisoborneol (2-mib) have been identified. three of these strains have been examined in detail. rhodococcus ruber t1 metabolizes camphor through 6-hydroxycamphor but converts 2-mib to 3-hydroxy-2-mib. pseudomonas putida g1, which metabolizes camphor through 5-hydroxycamphor, converts mib primarily to 6-hydroxy-2-mib. rhodococcus wratislaviensis dlc-cam converts 2-mib through 5-hydroxy-2-mib to 5-keto-2-mib. together, these three st ... | 2009 | 19060161 |
| biotransformations of 2-methylisoborneol by camphor-degrading bacteria. | many camphor-degrading bacteria that are able to transform 2-methylisoborneol (2-mib) have been identified. three of these strains have been examined in detail. rhodococcus ruber t1 metabolizes camphor through 6-hydroxycamphor but converts 2-mib to 3-hydroxy-2-mib. pseudomonas putida g1, which metabolizes camphor through 5-hydroxycamphor, converts mib primarily to 6-hydroxy-2-mib. rhodococcus wratislaviensis dlc-cam converts 2-mib through 5-hydroxy-2-mib to 5-keto-2-mib. together, these three st ... | 2009 | 19060161 |
| pseudomonas 2007. | | 2008 | 18165299 |
| protein engineering of toluene monooxygenases for synthesis of chiral sulfoxides. | enantiopure sulfoxides are valuable asymmetric starting materials and are important chiral auxiliaries in organic synthesis. toluene monooxygenases (tmos) have been shown previously to catalyze regioselective hydroxylation of substituted benzenes and phenols. here we show that tmos are also capable of performing enantioselective oxidation reactions of aromatic sulfides. mutagenesis of position v106 in the alpha-hydroxylase subunit of toluene ortho-monooxygenase (tom) of burkholderia cepacia g4 a ... | 2008 | 18192418 |
| description of a novel indole-oxidizing bacterium pseudomonas indoloxydans sp. nov., isolated from a pesticide-contaminated site. | a gram-negative, deep brown-pigmented gammaproteobacteria, strain ipl-1(t), capable of oxidizing indole was isolated from a lindane-contaminated site and subjected to a polyphasic taxonomic study. most of the physiological and biochemical properties, major fatty acids (c(18:1)omega7c, c(16:1)omega7c/iso c(15:0) 2oh and c(16:0)), estimated dna g+c content (67.2mol%) and 16s rrna gene sequence analysis showed that strain ipl-1(t) belonged to the genus pseudomonas. strain ipl-1(t) exhibited highest ... | 2008 | 18406094 |
| detection and identification of bacteria in an isolated system with near-infrared spectroscopy and multivariate analysis. | near-infrared (nir) transflectance spectra of listeria innocua fh, lactococcus lactis, pseudomonas fluorescens, pseudomonas mendocina, and pseudomonas putida suspensions were collected and investigated for their potential use in the identification and classification of bacteria. unmodified spectral data were transformed (first and second derivative) using the savitzsky-golay algorithm. principal component analysis (pca), partial least-squares discriminant analysis (pls2-da), and soft independent ... | 2008 | 18433132 |
| biotransformation of n-nitrosodimethylamine by pseudomonas mendocina kr1. | n-nitrosodimethylamine (ndma) is a potent carcinogen and an emerging contaminant in groundwater and drinking water. the metabolism of ndma in mammalian cells has been widely studied, but little information is available concerning the microbial transformation of this compound. the objective of this study was to elucidate the pathway(s) of ndma biotransformation by pseudomonas mendocina kr1, a strain that possesses toluene-4-monooxygenase (t4mo). p. mendocina kr1 was observed to initially oxidize ... | 2006 | 16950909 |
| isolation of a low-temperature adapted lipolytic enzyme from uncultivated micro-organism. | the aim of the study was to isolate a novel lipolytic enzyme from the activated sludge of uncultured micro-organisms. | 2008 | 18248379 |
| enterohemorrhagic escherichia coli biofilms are inhibited by 7-hydroxyindole and stimulated by isatin. | since indole is present at up to 500 microm in the stationary phase and is an interspecies biofilm signal (j. lee, a. jayaraman, and t. k. wood, bmc microbiol. 7:42, 2007), we investigated hydroxyindoles as biofilm signals and found them also to be nontoxic interspecies biofilm signals for enterohemorrhagic escherichia coli o157:h7 (ehec), e. coli k-12, and pseudomonas aeruginosa. the genetic basis of ehec biofilm formation was also explored, and notably, virulence genes in biofilm cells were re ... | 2007 | 17483266 |
| whole-genome analysis of the methyl tert-butyl ether-degrading beta-proteobacterium methylibium petroleiphilum pm1. | methylibium petroleiphilum pm1 is a methylotroph distinguished by its ability to completely metabolize the fuel oxygenate methyl tert-butyl ether (mtbe). strain pm1 also degrades aromatic (benzene, toluene, and xylene) and straight-chain (c(5) to c(12)) hydrocarbons present in petroleum products. whole-genome analysis of pm1 revealed an approximately 4-mb circular chromosome and an approximately 600-kb megaplasmid, containing 3,831 and 646 genes, respectively. aromatic hydrocarbon and alkane deg ... | 2007 | 17158667 |
| solution conformation of the his-47 to ala-47 mutant of pseudomonas stutzeri zobell ferrocytochrome c-551. | in the cytochrome c-551 family, the heme 17-propionate caboxylate group is always hydrogen bonded to an invariant trp-56 and conserved residues (his and arg mainly, lys occasionally) at position 47. the mutation of his-47 to ala-47 for pseudomas stutzeri zobell cytochrome c-551 removes this otherwise invariant hydrogen bond. the solution structure of ferrous h47a has been solved based on nmr-derived constraints. results indicate that the mutant has very similar main chain folding compared to wil ... | 2007 | 17496029 |
| effect of high temperature on bacterial community dynamics in anaerobic acidogenesis using mesophilic sludge inoculum. | in this study, we investigated the microbial community dynamics in thermal acidogenesis using mesophilic sludge. from the result of optimization with a response surface methodology, the acidogenic optimum conditions predicted were a hydraulic retention time of 2.0 days and 51 degrees c. denaturing gradient gel electrophoresis (dgge) profiles shows that the monitored bacterial community present consists of pseudomonas mendocina, bacillus halodurans, clostridium hastiforme, gracilibacter thermotol ... | 2010 | 19362824 |
| native valve endocarditis due to pseudomonas mendocina in a patient with mental retardation and a review of literature. | pseudomonas mendocina, a gram-negative non-fermentative rod, occurs in water and soil but is rarely recovered as a human pathogen. we report a native valve endocarditis due to pseudomonas mendocina in a patient with mental retardation. | 2007 | 17577828 |
| genomic insights into mn(ii) oxidation by the marine alphaproteobacterium aurantimonas sp. strain si85-9a1. | microbial mn(ii) oxidation has important biogeochemical consequences in marine, freshwater, and terrestrial environments, but many aspects of the physiology and biochemistry of this process remain obscure. here, we report genomic insights into mn(ii) oxidation by the marine alphaproteobacterium aurantimonas sp. strain si85-9a1, isolated from the oxic/anoxic interface of a stratified fjord. the si85-9a1 genome harbors the genetic potential for metabolic versatility, with genes for organoheterotro ... | 2008 | 18344346 |
| bacterial diversity analysis of larvae and adult midgut microflora using culture-dependent and culture-independent methods in lab-reared and field-collected anopheles stephensi-an asian malarial vector. | mosquitoes are intermediate hosts for numerous disease causing organisms. vector control is one of the most investigated strategy for the suppression of mosquito-borne diseases. anopheles stephensi is one of the vectors of malaria parasite plasmodium vivax. the parasite undergoes major developmental and maturation steps within the mosquito midgut and little is known about anopheles-associated midgut microbiota. identification and characterization of the mosquito midgut flora is likely to contrib ... | 2009 | 19450290 |
| whole-genome analysis of the methyl tert-butyl ether-degrading beta-proteobacterium methylibium petroleiphilum pm1. | methylibium petroleiphilum pm1 is a methylotroph distinguished by its ability to completely metabolize the fuel oxygenate methyl tert-butyl ether (mtbe). strain pm1 also degrades aromatic (benzene, toluene, and xylene) and straight-chain (c(5) to c(12)) hydrocarbons present in petroleum products. whole-genome analysis of pm1 revealed an approximately 4-mb circular chromosome and an approximately 600-kb megaplasmid, containing 3,831 and 646 genes, respectively. aromatic hydrocarbon and alkane deg ... | 2007 | 17158667 |
| soluble expression and purification of the oxidoreductase component of toluene 4-monooxygenase. | toluene 4-monooxygenase (t4mo) is a member of the bacterial multicomponent monooxygenases, an enzyme family that utilizes a soluble diiron hydroxylase to oxidize a variety of hydrocarbons as the initial step in their metabolism. the hydroxylases obtain reducing equivalents from nad(p)h via an electron transfer chain that is initiated by an oxidoreductase containing an n-terminal ferredoxin domain and c-terminal flavin- and nad-binding domains. t4mof, the nadh oxidoreductase of t4mo, was expresse ... | 2008 | 17964805 |
| soluble expression and purification of the oxidoreductase component of toluene 4-monooxygenase. | toluene 4-monooxygenase (t4mo) is a member of the bacterial multicomponent monooxygenases, an enzyme family that utilizes a soluble diiron hydroxylase to oxidize a variety of hydrocarbons as the initial step in their metabolism. the hydroxylases obtain reducing equivalents from nad(p)h via an electron transfer chain that is initiated by an oxidoreductase containing an n-terminal ferredoxin domain and c-terminal flavin- and nad-binding domains. t4mof, the nadh oxidoreductase of t4mo, was expresse ... | 2008 | 17964805 |
| identification, isolation, and analysis of a gene cluster involved in iron acquisition by pseudomonas mendocina ymp. | microbial acquisition of iron from natural sources in aerobic environments is a little-studied process that may lead to mineral instability and trace metal mobilization. pseudomonas mendocina ymp was isolated from the yucca mountain site for long-term nuclear waste storage. its ability to solubilize a variety of fe-containing minerals under aerobic conditions has been previously investigated but its molecular and genetic potential remained uncharacterized. here, we have shown that the organism p ... | 2008 | 18058194 |
| the plant-associated bacterium stenotrophomonas rhizophila expresses a new enzyme for the synthesis of the compatible solute glucosylglycerol. | the rhizobacterium stenotrophomonas rhizophila accumulates the compatible solutes glucosylglycerol (gg) and trehalose under salt stress conditions. the complete gene for the gg synthesis enzyme was cloned and sequenced. this enzyme from s. rhizophila represented a novel fusion protein composed of a putative c-terminal gg-phosphate synthase domain and an n-terminal putative gg-phosphate phosphatase domain, which was named ggpps. a similar gene was cloned from pseudomonas sp. strain oa146. the ggp ... | 2008 | 18586931 |
| genetics of bacterial alginate: alginate genes distribution, organization and biosynthesis in bacteria. | bacterial alginate genes are chromosomal and fairly widespread among rrna homology group i pseudomonads and azotobacter. in both genera, the genetic pathway of alginate biosynthesis is mostly similar and the identified genes are identically organized into biosynthetic, regulatory and genetic switching clusters. in spite of these similarities,still there are transcriptional and functional variations between p. aeruginosa and a. vinelandii. in p. aeruginosa all biosynthetic genes except algc trans ... | 2007 | 18645604 |
| novel methylotrophic bacteria isolated from the river thames (london, uk). | enrichment and elective culture for methylotrophs from sediment of the river thames in central london yielded a diversity of pure cultures representing several genera of gram-negative and gram-positive bacteria, which were mainly of organisms not generally regarded as typically methylotrophic. substrates leading to successful isolations included methanol, monomethylamine, dimethylamine, trimethylamine, methanesulfonate and dimethylsulfone. several isolates were studied in detail and shown by the ... | 2008 | 18681896 |
| characterization of the pseudomonas pseudoalcaligenes cect5344 cyanase, an enzyme that is not essential for cyanide assimilation. | cyanase catalyzes the decomposition of cyanate into co(2) and ammonium, with carbamate as an unstable intermediate. the cyanase of pseudomonas pseudoalcaligenes cect5344 was negatively regulated by ammonium and positively regulated by cyanate, cyanide, and some cyanometallic complexes. cyanase activity was not detected in cell extracts from cells grown with ammonium, even in the presence of cyanate. nevertheless, a low level of cyanase activity was detected in nitrogen-starved cells. the cyn gen ... | 2008 | 18708510 |
| involvement of a novel enzyme, mdpa, in methyl tert-butyl ether degradation in methylibium petroleiphilum pm1. | methylibium petroleiphilum pm1 is a well-characterized environmental strain capable of complete metabolism of the fuel oxygenate methyl tert-butyl ether (mtbe). using a molecular genetic system which we established to study mtbe metabolism by pm1, we demonstrated that the enzyme mdpa is involved in mtbe removal, based on insertional inactivation and complementation studies. mdpa is constitutively expressed at low levels but is strongly induced by mtbe. mdpa is also involved in the regulation of ... | 2008 | 18791002 |
| isolation and characterization of alicycliphilus denitrificans strain bc, which grows on benzene with chlorate as the electron acceptor. | a bacterium, strain bc, was isolated from a benzene-degrading chlorate-reducing enrichment culture. strain bc degrades benzene in conjunction with chlorate reduction. cells of strain bc are short rods that are 0.6 microm wide and 1 to 2 microm long, are motile, and stain gram negative. strain bc grows on benzene and some other aromatic compounds with oxygen or in the absence of oxygen with chlorate as the electron acceptor. strain bc is a denitrifying bacterium, but it is not able to grow on ben ... | 2008 | 18791031 |
| polysulfone ultrafiltration membranes impregnated with silver nanoparticles show improved biofouling resistance and virus removal. | biofouling and virus penetration are two significant obstacles in water treatment membrane filtration. biofouling reduces membrane permeability, increases energy costs, and decreases the lifetime of membranes. in order to effectively remove viruses, nanofiltration or reverse osmosis (both high energy filtration schemes) must be used. thus, there is an urgent demand for low pressure membranes with anti-biofouling and antiviral properties. the antibacterial properties of silver are well known, and ... | 2009 | 19046755 |
| molecular determinants of the regioselectivity of toluene/o-xylene monooxygenase from pseudomonas sp. strain ox1. | bacterial multicomponent monooxygenases (bmms) are a heterogeneous family of di-iron monooxygenases which share the very interesting ability to hydroxylate aliphatic and/or aromatic hydrocarbons. each bmm possesses defined substrate specificity and regioselectivity which match the metabolic requirements of the strain from which it has been isolated. pseudomonas sp. strain ox1, a strain able to metabolize o-, m-, and p-cresols, produces the bmm toluene/o-xylene monooxygenase (tomo), which convert ... | 2009 | 19074607 |
| molecular determinants of the regioselectivity of toluene/o-xylene monooxygenase from pseudomonas sp. strain ox1. | bacterial multicomponent monooxygenases (bmms) are a heterogeneous family of di-iron monooxygenases which share the very interesting ability to hydroxylate aliphatic and/or aromatic hydrocarbons. each bmm possesses defined substrate specificity and regioselectivity which match the metabolic requirements of the strain from which it has been isolated. pseudomonas sp. strain ox1, a strain able to metabolize o-, m-, and p-cresols, produces the bmm toluene/o-xylene monooxygenase (tomo), which convert ... | 2009 | 19074607 |
| first description of bla imp-8 in a pseudomonas mendocina isolated at the hospital infante d. pedro, aveiro, portugal. | pseudomonas mendocina carrying a novel class 1 integron containing an imp-8 gene was isolated from an inanimate surface in a female ward sanitary facility of the hospital infante d. pedro, aveiro, portugal. hybridization with the integrase gene (inti1) and 16s rdna revealed that the integron is chromosomally located. here we report for the first time the presence of an imp-8 metallo-beta-lactamase gene in the pseudomonas genus. | 2010 | 20381610 |
| carbapenem resistance among pseudomonas aeruginosa strains from india: evidence for nationwide endemicity of multiple metallo-beta-lactamase clones (vim-2, -5, -6, and -11 and the newly characterized vim-18). | among 57 metallo-beta-lactamase (mbetal)-producing pseudomonas spp. detected in india during 2006, five bla(vim) genes were found, including a newly characterized bla(vim) gene. pseudomonas aeruginosa strains were clustered in 33 ribotypes with clones found in multiple hospitals. several types of bla(vim-2)-carrying integrons were detected. the newly characterized variant vim-18 showed a 4-amino-acid deletion compared to other vim variants. in this study, we show that vim-producing pseudomonas s ... | 2009 | 19114677 |
| carbapenem resistance among pseudomonas aeruginosa strains from india: evidence for nationwide endemicity of multiple metallo-beta-lactamase clones (vim-2, -5, -6, and -11 and the newly characterized vim-18). | among 57 metallo-beta-lactamase (mbetal)-producing pseudomonas spp. detected in india during 2006, five bla(vim) genes were found, including a newly characterized bla(vim) gene. pseudomonas aeruginosa strains were clustered in 33 ribotypes with clones found in multiple hospitals. several types of bla(vim-2)-carrying integrons were detected. the newly characterized variant vim-18 showed a 4-amino-acid deletion compared to other vim variants. in this study, we show that vim-producing pseudomonas s ... | 2009 | 19114677 |
| pseudomonas tuomuerensis sp. nov., isolated from a bird's nest. | strain 78-123t was isolated from a sample of a bird's nest situated on the bank of qiongtailan river in the region of tuomuer peak of tianshan mountain in the xin-jiang uygur autonomous region in north-western china. phylogenetic analysis based on 16s rrna gene sequence similarity showed that strain 78-123t was related to members of the genus pseudomonas. 16s rrna gene sequence similarity between strain 78-123t and pseudomonas mendocina atcc 25411t, pseudomonas pseudoalcaligenes jcm 5968t and ps ... | 2009 | 19126738 |
| arginine racemization by coupled catabolic and anabolic dehydrogenases. | d-amino acids exist in living organisms as specialized components of many different machineries. biosynthesis of d-amino acids from racemization of predominant l-enantiomers is catalyzed by a single enzyme. here, we report the finding of a novel 2-component amino acid racemase for d-to-l inversion in d-arginine metabolism of pseudomonas aeruginosa. from dna microarray analysis, the putative daubar operon (for d-arginine utilization) of unknown functions was found to be highly induced by d-argini ... | 2009 | 19139398 |
| design and activity of a 'dual-targeted' antimicrobial peptide. | numerous reports have indicated the important role of human normal flora in the prevention of microbial pathogenesis and disease. evidence suggests that infections at mucosal surfaces result from the outgrowth of subpopulations or clusters within a microbial community and are not linked to one pathogenic organism alone. to preserve the protective normal flora whilst treating the majority of infective bacteria in the community, a tuneable therapeutic is necessary that can discriminate between ben ... | 2009 | 19188046 |
| chemotaxis to pyrimidines and identification of a cytosine chemoreceptor in pseudomonas putida. | we developed a high-throughput quantitative capillary assay and demonstrated that pseudomonas putida strains f1 and prs2000 were attracted to cytosine, but not thymine or uracil. in contrast, pseudomonas aeruginosa pao1 was not chemotactic to any pyrimidines. chemotaxis assays with a mutant strain of f1 in which the putative methyl-accepting chemotaxis protein-encoding gene pput_0623 was deleted revealed that this gene (designated mcpc) encodes a chemoreceptor for positive chemotaxis to cytosine ... | 2009 | 19251854 |
| [effect of the initial anode potential on electricity generation in microbial fuel cell]. | the initial anode potential of the microbial fuel cell (mfc) was changed by additional circuit in the anode chamber, and the influence of the initial anode potential on the electricigens was studied. when the initial anode potential was 350 mv (vs hg/hg2 cl2), the growth of microorganisms was much slower than that of the microorganisms which grew on the anode with an initial potential of -200 mv or 200 mv (vs hg/hg2 cl2). after stable electricity generation, the anode resistances of the three mf ... | 2008 | 18441951 |
| obstacles of multiplex real-time pcr for bacterial 16s rdna: primer specifity and dna decontamination of taq polymerase. | background: the detection of a broad range of bacteria by pcr is applied for the screening of blood and blood products with special attention to platelet concentrates. for practical use it is desirable that detection systems include gram-positive, gram-negative and non-gram-stainable bacteria. it is quite challenging to achieve high sensitivity along with a clear negative control with pcr reagents, because especially taq polymerase is contaminated with traces of bacterial dna. methods: bacterial ... | 2010 | 20737013 |
| development of an environmental functional gene microarray for soil microbial communities. | functional attributes of microbial communities are difficult to study, and most current techniques rely on dna- and rrna-based profiling of taxa and genes, including microarrays containing sequences of known microorganisms. to quantify gene expression in environmental samples in a culture-independent manner, we constructed an environmental functional gene microarray (e-fga) consisting of 13,056 mrna-enriched anonymous microbial clones from diverse microbial communities to profile microbial gene ... | 2010 | 20851978 |
| outer-membrane transport of aromatic hydrocarbons as a first step in biodegradation. | bacterial biodegradation of hydrocarbons, an important process for environmental remediation, requires the passage of hydrophobic substrates across the cell membrane. here, we report crystal structures of two outer membrane proteins, pseudomonas putida todx and ralstonia pickettii tbux, which have been implicated in hydrocarbon transport and are part of a subfamily of the fadl fatty acid transporter family. the structures of todx and tbux show significant differences with those previously determ ... | 2008 | 18559855 |
| low rates of pseudomonas aeruginosa misidentification in isolates from cystic fibrosis patients. | pseudomonas aeruginosa is an important cause of pulmonary infection in cystic fibrosis (cf). its correct identification ensures effective patient management and infection control strategies. however, little is known about how often cf sputum isolates are falsely identified as p. aeruginosa. we used p. aeruginosa-specific duplex real-time pcr assays to determine if 2,267 p. aeruginosa sputum isolates from 561 cf patients were correctly identified by 17 australian clinical microbiology laboratorie ... | 2009 | 19261796 |
| effects of an algicidal bacterium pseudomonas mendocina on the growth and antioxidant system of aphanizomenon flos-aquae. | evident effect of an algicidal bacterium pseudomonas mendocina on the growth and antioxidant system of aphanizomenon flos-aquae was detected in this experiment. seven parameters including the chlorophyll a contents, fv/fm values, reactive oxygen species (ros), malonaldehyde (mda), catalase (cat), peroxide dismutase (pod), and superoxide dismutase (sod) were tested in the cyanobacterium a. flos-aquae cells after inoculation with the algicidal bacterium pseudomonas mendocina dc10. it was shown fro ... | 2009 | 19365689 |
| genome sequence of azotobacter vinelandii, an obligate aerobe specialized to support diverse anaerobic metabolic processes. | azotobacter vinelandii is a soil bacterium related to the pseudomonas genus that fixes nitrogen under aerobic conditions while simultaneously protecting nitrogenase from oxygen damage. in response to carbon availability, this organism undergoes a simple differentiation process to form cysts that are resistant to drought and other physical and chemical agents. here we report the complete genome sequence of a. vinelandii dj, which has a single circular genome of 5,365,318 bp. in order to reconcile ... | 2009 | 19429624 |
| selection and structure of hyperactive inteins: peripheral changes relayed to the catalytic center. | inteins are phylogenetically diverse self-splicing proteins that are of great functional, evolutionary, biotechnological, and medical interest. to address the relationship between intein structure and function, particularly with respect to regulating the splicing reaction, and to groom inteins for application, we developed a phage display system to extend current in vivo selection for enhanced intein function to selection in vitro. we thereby isolated inteins that can function under excursions i ... | 2009 | 19744499 |
| two-dimensional pulsed electron spin resonance characterization of 15n-labeled archaeal rieske-type ferredoxin. | two-dimensional electron spin-echo envelope modulation (eseem) analysis of the uniformly (15)n-labeled archaeal rieske-type [2fe-2s] ferredoxin (arf) from sulfolobus solfataricus p1 has been conducted in comparison with the previously characterized high-potential protein homologs. major differences among these proteins were found in the hyperfine sublevel correlation (hyscore) lineshapes and intensities of the signals in the (++) quadrant, which are contributed from weakly coupled (non-coordinat ... | 2009 | 19804777 |
| rapid degradation of phenanthrene by using sphingomonas sp. gy2b immobilized in calcium alginate gel beads. | the strain sphingomonas sp. gy2b is a high efficient phenanthrene-degrading strain isolated from crude oil contaminated soils that displays a broad-spectrum degradation ability towards pahs and related aromatic compounds. this paper reports embedding immobilization of strain gy2b in calcium alginate gel beads and the rapid degradation of phenanthrene by the embedded strains. results showed that embedded immobilized strains had high degradation percentages both in mineral salts medium (msm) and 8 ... | 2009 | 19826557 |
| overexpression and characterization of medium-chain-length polyhydroxyalkanoate granule bound polymerases from pseudomonas putida gpo1. | polyhydroxyalkanoates (pha) are synthesized by many bacteria in the cytoplasm as storage compounds for energy and carbon. the key enzymes for pha biosynthesis are pha polymerases, which catalyze the covalent linkage of 3-hydroxyacyl coenzymea thioesters by transesterification with concomitant release of coa. pseudomonas putida gpo1 and many other pseudomonas species contain two different class ii polymerases, encoded by phac1 and phac2. although numerous studies have been carried out on pha poly ... | 2009 | 19925642 |
| [synthesis and characterization of alginate oligosaccharides produced by pseudomonas mendocina nk-01]. | in this study, we found that when pseudomonas mendocina nk-01 accumulated intracellular carbon reserve, medium chain length poly (3-hydroxyalkanoates), it also synthesized extracellular saccharides, alginate oligosaccharides. the high carbon nitrogen ratio of culture medium facilitated alginate oligosaccharides production. we analyzed the structure of alginate oligosaccharide by ultraviolet-visible spectrophotometry, fourier transform infrared spectroscopy, 1h and 13c of nuclear magnetic resonan ... | 2009 | 19938480 |
| new structural and functional defects in polyphosphate deficient bacteria: a cellular and proteomic study. | inorganic polyphosphate (polyp), a polymer of tens or hundreds of phosphate residues linked by atp-like bonds, is found in all organisms and performs a wide variety of functions. polyp is synthesized in bacterial cells by the actions of polyphosphate kinases (ppk1 and ppk2) and degraded by exopolyphosphatase (ppx). bacterial cells with polyp deficiencies due to knocking out the ppk1 gene are affected in many structural and important cellular functions such as motility, quorum sensing, biofilm fo ... | 2010 | 20067623 |
| roles of siderophores, oxalate, and ascorbate in mobilization of iron from hematite by the aerobic bacterium pseudomonas mendocina. | in aerobic, circumneutral environments, the essential element fe occurs primarily in scarcely soluble mineral forms. we examined the independent and combined effects of a siderophore, a reductant (ascorbate), and a low-molecular-weight carboxylic acid (oxalate) on acquisition of fe from the mineral hematite (alpha-fe(2)o(3)) by the obligate aerobe pseudomonas mendocina ymp. a site-directed deltapmha mutant that was not capable of producing functional siderophores (i.e., siderophore(-) phenotype) ... | 2010 | 20118367 |
| cyclic-di-gmp-mediated repression of swarming motility by pseudomonas aeruginosa: the pily1 gene and its impact on surface-associated behaviors. | the intracellular signaling molecule cyclic-di-gmp (c-di-gmp) has been shown to influence surface-associated behaviors of pseudomonas aeruginosa, including biofilm formation and swarming motility. previously, we reported a role for the bifa gene in the inverse regulation of biofilm formation and swarming motility. the bifa gene encodes a c-di-gmp-degrading phosphodiesterase (pde), and the delta bifa mutant exhibits increased cellular pools of c-di-gmp, forms hyperbiofilms, and is unable to swarm ... | 2010 | 20233936 |
| pulmonary exacerbations in cystic fibrosis with negative bacterial cultures. | pulmonary exacerbations are a major cause of morbidity in cystic fibrosis (cf) and likely contribute to lung function decline. exacerbations are often associated with characteristic airway bacteria [cf related bacteria (cfrb)]. however, some patients do not have cfrb detected by culture during exacerbations. | 2010 | 20503282 |
| osmotically induced synthesis of the dipeptide n-acetylglutaminylglutamine amide is mediated by a new pathway conserved among bacteria. | the dipeptide n-acetylglutaminylglutamine amide (naggn) was discovered in the bacterium sinorhizobium meliloti grown at high osmolarity, and subsequently shown to be synthesized and accumulated by a few osmotically challenged bacteria. however, its biosynthetic pathway remained unknown. recently, two genes, which putatively encode a glutamine amidotransferase and an acetyltransferase and are up-regulated by osmotic stress, were identified in pseudomonas aeruginosa. in this work, a locus carrying ... | 2010 | 20571117 |
| genome-driven investigation of compatible solute biosynthesis pathways of pseudomonas syringae pv. syringae and their contribution to water stress tolerance. | the foliar pathogen pseudomonas syringae pv. syringae exhibits an exceptional ability to survive on asymptomatic plants as an epiphyte. intermittent wetting events on plants lead to osmotic and matric stresses which must be tolerated for survival as an epiphyte. in this study, we have applied bioinformatic, genetic, and biochemical approaches to address water stress tolerance in p. syringae pv. syringae strain b728a, for which a complete genome sequence is available. p. syringae pv. syringae b72 ... | 2010 | 20581190 |
| characterization of an extracellular alkaline lipase from pseudomonas mendocina m-37. | a strain of pseudomonas mendocina producing extracellular lipase was isolated from soil. the bacterium accumulates lipase in culture fluid when grown aerobically at 30 °c for 24 h in a medium composed of olive oil (1%) as substrate. pseudomonas mendocina lipase was optimally active at ph 9.0, temperature of 50 °c and was found to be stable between ph 7.0-11.0. the lipase was inhibited by detergents such as sds and tween-80. the enzyme was stable in various organic solvents tested with maximum st ... | 2010 | 20586067 |
| diversity of glycosyl hydrolases from cellulose-depleting communities enriched from casts of two earthworm species. | the guts and casts of earthworms contain microbial assemblages that process large amounts of organic polymeric substrates from plant litter and soil; however, the enzymatic potential of these microbial communities remains largely unexplored. in the present work, we retrieved carbohydrate-modifying enzymes through the activity screening of metagenomic fosmid libraries from cellulose-depleting microbial communities established with the fresh casts of two earthworm species, aporrectodea caliginosa ... | 2010 | 20622123 |
| bioinformatic characterization of the trimeric intracellular cation-specific channel protein family. | trimeric intracellular cation-specific (tric) channels are integral to muscle excitation-contraction coupling. tric channels provide counter-ionic flux when calcium is rapidly transported from intracellular stores to the cell cytoplasm. until recently, knowledge of the presence of these proteins was limited to animals. we analyzed the tric family and identified a profusion of prokaryotic family members with topologies and motifs similar to those of their eukaryotic counterparts. prokaryotic memb ... | 2011 | 21519847 |
| [effect of carbon source and dissolved oxygen on denitrification by aerobic denitrifier pseudomonas mendocina ad6]. | aerobic denitrifying performances of p. mendocina ad6 at various c/n ratios, dissolved oxygen (do) concentrations and carbon sources including citrate, acetate, and glucose were evaluated through flask experiment. at an insufficient carbon concentration, namely c/n ratio of 3, total nitrogen (tn) removal efficiency was 42% by aerobic denitrification. when the c/n ratio was increased to 8, 15, and 23, the tn removal efficiency by ad6 quickly increased to 55%, 70%, and 69%, in which 7%, 20%, and 2 ... | 2010 | 20698283 |
| a bayesian approach to the evolution of metabolic networks on a phylogeny. | the availability of genomes of many closely related bacteria with diverse metabolic capabilities offers the possibility of tracing metabolic evolution on a phylogeny relating the genomes to understand the evolutionary processes and constraints that affect the evolution of metabolic networks. using simple (independent loss/gain of reactions) or complex (incorporating dependencies among reactions) stochastic models of metabolic evolution, it is possible to study how metabolic networks evolve over ... | 2010 | 20700467 |
| evidence of transfer by conjugation of type iv secretion system genes between bartonella species and rhizobium radiobacter in amoeba. | bartonella species cospeciate with mammals and live within erythrocytes. even in these specific niches, it has been recently suggested by bioinformatic analysis of full genome sequences that lateral gene transfer (lgt) may occur but this has never been demonstrated biologically. here we describe the sequence of the b. rattaustraliani (aust/nh4(t)) circular plasmid (pnh4) that encodes the tra cluster of the type iv secretion system (t4ss) and we eventually provide evidence that bartonella species ... | 2010 | 20856925 |
| the tonb energy transduction systems in vibrio species. | studying the organization and conservation of the tonb systems across the genus vibrio, we can tease out trends in gene arrangement and function that lead to clues about the evolution and necessity of the proteins in multiple tonb systems. the tonb2 systems, with additional ttpc proteins, are in general more promiscuous regarding their interactions with many different tonb-dependent transporters in the outer membrane. studies show that the ttpc protein spans the periplasmic space, suggesting tha ... | 2010 | 20860484 |
| improving low-temperature activity of sulfolobus acidocaldarius 2-keto-3-deoxygluconate aldolase. | sulfolobus acidocaldarius 2-keto-3-deoxygluconate aldolase (sackdga) displays optimal activity at 95 degrees c and is studied as a model enzyme for aldol condensation reactions. for application of sackdga at lower temperatures, a library of randomly generated mutants was screened for improved synthesis of 2-keto-3-deoxygluconate from pyruvate and glyceraldehyde at the suboptimal temperature of 50 degrees c. the single mutant sackdga-v193a displayed a threefold increase in activity compared with ... | 2009 | 19478916 |
| differential effects of pseudomonas mendocina and glomus intraradices on lettuce plants physiological response and aquaporin pip2 gene expression under elevated atmospheric co2 and drought. | arbuscular mycorrhizal (am) symbiosis and plant-growth-promoting rhizobacterium (pgpr) can alleviate the effects of water stress in plants, but it is unknown whether these benefits can be maintained at elevated co2. therefore, we carried out a study where seedlings of lactuca sativa were inoculated with the am fungus (amf) glomus intraradices n.c. schenk & g.s. sm. or the pgpr pseudomonas mendocina palleroni and subjected to two levels of watering and two levels of atmospheric co2 to ascertain t ... | 2009 | 19495853 |
| aerobic biodegradation of n-nitrosodimethylamine by the propanotroph rhodococcus ruber env425. | the propanotroph rhodococcus ruber env425 was observed to rapidly biodegrade n-nitrosodimethylamine (ndma) after growth on propane, tryptic soy broth, or glucose. the key degradation intermediates were methylamine, nitric oxide, nitrite, nitrate, and formate. small quantities of formaldehyde and dimethylamine were also detected. a denitrosation reaction, initiated by hydrogen atom abstraction from one of the two methyl groups, is hypothesized to result in the formation of n-methylformaldimine an ... | 2009 | 19542346 |
| the complete genome of teredinibacter turnerae t7901: an intracellular endosymbiont of marine wood-boring bivalves (shipworms). | here we report the complete genome sequence of teredinibacter turnerae t7901. t. turnerae is a marine gamma proteobacterium that occurs as an intracellular endosymbiont in the gills of wood-boring marine bivalves of the family teredinidae (shipworms). this species is the sole cultivated member of an endosymbiotic consortium thought to provide the host with enzymes, including cellulases and nitrogenase, critical for digestion of wood and supplementation of the host's nitrogen-deficient diet. t. t ... | 2009 | 19568419 |
| nitrite reductase genes in halobenzoate degrading denitrifying bacteria. | abstract diversity of the functional genes encoding dissimilatory nitrite reductase was investigated for the first time in denitrifying halobenzoate degrading bacteria and in two 4-chlorobenzoate degrading denitrifying consortia. nitrite reductase genes were pcr-amplified with degenerate primers (specific to the two different types of respiratory nitrite reductase, nirs and nirk), cloned and sequenced to determine which type of nitrite reductase was present in each isolate and consortium. halobe ... | 2003 | 19719666 |
| pseudomonas mendocina sepsis in a healthy man. | | 2011 | 21809738 |
| metallo-beta-lactamase production by pseudomonas otitidis: a species-related trait. | susceptibility to several β-lactams and β-lactamase production was investigated in a collection of 20 strains of pseudomonas otitidis, a new pseudomonas species that has been recently recognized in association with otic infections in humans. all strains appeared to be susceptible to piperacillin, cefotaxime, ceftazidime, and aztreonam, while resistance or decreased susceptibility to carbapenems was occasionally observed. all strains were found to express metallo-β-lactamase (mbl) activity and to ... | 2010 | 21060106 |
| within-genome evolution of repins: a new family of miniature mobile dna in bacteria. | repetitive sequences are a conserved feature of many bacterial genomes. while first reported almost thirty years ago, and frequently exploited for genotyping purposes, little is known about their origin, maintenance, or processes affecting the dynamics of within-genome evolution. here, beginning with analysis of the diversity and abundance of short oligonucleotide sequences in the genome of pseudomonas fluorescens sbw25, we show that over-represented short sequences define three distinct groups ... | 2011 | 21698139 |
| enzymes for the biofunctionalization of poly(ethylene terephthalate). | the functionalization of synthetic polymers such as poly(ethylene terephthalate) to improve their hydrophilicity can be achieved biocatalytically using hydrolytic enzymes. a number of cutinases, lipases, and esterases active on polyethylene terephthalate have been identified and characterized. enzymes from fusarium solani, thermomyces insolens, t. lanuginosus, aspergillus oryzae, pseudomonas mendocina, and thermobifida fusca have been studied in detail. thermostable biocatalysts hydrolyzing poly ... | 2010 | 21076908 |
| heat resistance mediated by a new plasmid encoded clp atpase, clpk, as a possible novel mechanism for nosocomial persistence of klebsiella pneumoniae. | klebsiella pneumoniae is an important opportunistic pathogen and a frequent cause of nosocomial infections. we have characterized a k. pneumoniae strain responsible for a series of critical infections in an intensive care unit over a two-year period. the strain was found to be remarkably thermotolerant providing a conceivable explanation of its persistence in the hospital environment. this marked phenotype is mediated by a novel type of clp atpase, designated clpk. the clpk gene is encoded by a ... | 2010 | 21085699 |
| [a case of pseudomonas mendocina endocarditis]. | | 2010 | 21094007 |
| pseudo-outbreak of pseudomonas mendocina in stem cell cultures. | pseudomonas mendocina was first isolated in the 1970s from soil and water samples collected in the province of mendoza, argentina. its recovery from human clinical specimens other than urine and leg ulcers was not documented until 1992, when a case report of an endocarditis caused by p. mendocina was published. we report the detection of p. mendocina in diagnostic stem cell cultures in the haematology unit, which initiated an outbreak investigation after identification of p. mendocina from three ... | 2010 | 21146254 |
| Identification of the Midgut Microbiota of An. stephensi and An. maculipennis for Their Application as a Paratransgenic Tool against Malaria. | The midgut microbiota associated with Anopheles stephensi and Anopheles maculipennis (Diptera: Culicidae) was investigated for development of a paratransgenesis-based approach to control malaria transmission in Eastern Mediterranean Region (EMR). Here, we present the results of a polymerase chain reaction (PCR) and biochemical-based approaches to identify the female adult and larvae mosquitoe microbiota of these two major malaria vectors, originated from South Eastern and North of Iran. Plating ... | 2011 | 22163022 |
| size-dependent bioavailability of hematite (α-fe2o3) nanoparticles to a common aerobic bacterium. | the size-dependent bioavailability of hematite (α-fe(2)o(3)) nanoparticles to obligate aerobic pseudomonas mendocina bacteria was examined using the natural siderophore-producing wild type strain and a siderophore(-) mutant strain. results showed that fe from hematite less than a few tens of nm in size appears to be considerably more bioavailable than fe associated with larger particles. this increased bioavailability is related to the total available particle surface area, and depends in part o ... | 2010 | 21174456 |
| molecular epidemiology of a pseudomonas aeruginosa hospital outbreak driven by a contaminated disinfectant-soap dispenser. | pseudomonas aeruginosa infection represents a main cause of morbidity and mortality among immunocompromised patients. this study describes a fatal epidemic of p. aeruginosa that occurred in a hematology unit in italy. | 2011 | 21359222 |
| annotation of protein domains reveals remarkable conservation in the functional make up of proteomes across superkingdoms. | the functional repertoire of a cell is largely embodied in its proteome, the collection of proteins encoded in the genome of an organism. the molecular functions of proteins are the direct consequence of their structure and structure can be inferred from sequence using hidden markov models of structural recognition. here we analyze the functional annotation of protein domain structures in almost a thousand sequenced genomes, exploring the functional and structural diversity of proteomes. we find ... | 2011 | 24710297 |
| multiple roles of component proteins in bacterial multicomponent monooxygenases: phenol hydroxylase and toluene/o-xylene monooxygenase from pseudomonas sp. ox1. | phenol hydroxylase (ph) and toluene/o-xylene monooxygenase (tomo) from pseudomonas sp. ox1 require three or four protein components to activate dioxygen for the oxidation of aromatic substrates at a carboxylate-bridged diiron center. in this study, we investigated the influence of the hydroxylases, regulatory proteins, and electron-transfer components of these systems on substrate (phenol; nadh) consumption and product (catechol; h(2)o(2)) generation. single-turnover experiments revealed that on ... | 2011 | 21366224 |
| bactquant: an enhanced broad-coverage bacterial quantitative real-time pcr assay. | bacterial load quantification is a critical component of bacterial community analysis, but a culture-independent method capable of detecting and quantifying diverse bacteria is needed. based on our analysis of a diverse collection of 16 s rrna gene sequences, we designed a broad-coverage quantitative real-time pcr (qpcr) assay--bactquant--for quantifying 16 s rrna gene copy number and estimating bacterial load. we further utilized in silico evaluation to complement laboratory-based qpcr characte ... | 2012 | 22510143 |
| nitrate and periplasmic nitrate reductases. | the nitrate anion is a simple, abundant and relatively stable species, yet plays a significant role in global cycling of nitrogen, global climate change, and human health. although it has been known for quite some time that nitrate is an important species environmentally, recent studies have identified potential medical applications. in this respect the nitrate anion remains an enigmatic species that promises to offer exciting science in years to come. many bacteria readily reduce nitrate to nit ... | 2014 | 24141308 |
| comparison of pcr/electron spray ionization-time-of-flight-mass spectrometry versus traditional clinical microbiology for active surveillance of organisms contaminating high-use surfaces in a burn intensive care unit, an orthopedic ward and healthcare workers. | understanding nosocomial pathogen transmission is restricted by culture limitations. novel platforms, such as pcr-based electron spray ionization-time-of-flight-mass spectrometry (esi-tof-ms), may be useful as investigational tools. | 2012 | 23050585 |
| presence of bacteria in failed anterior cruciate ligament reconstructions. | novel microbial detection technologies have revealed that chronic bacterial biofilms, which are recalcitrant to antibiotic treatment, are common in failed orthopedic procedures. | 2015 | 26339561 |
| regulation and characterization of the dadrax locus for d-amino acid catabolism in pseudomonas aeruginosa pao1. | d-amino acids are essential components for bacterial peptidoglycan, and these natural compounds are also involved in cell wall remodeling and biofilm disassembling. in pseudomonas aeruginosa, the dadax operon, encoding the d-amino acid dehydrogenase dada and the amino acid racemase dadx, is essential for d- and l-ala catabolism, and its expression requires a transcriptional regulator, dadr. in this study, purified recombinant dada alone was sufficient to demonstrate the proposed enzymatic activi ... | 2011 | 21378189 |
| the prokaryotic antecedents of the ubiquitin-signaling system and the early evolution of ubiquitin-like beta-grasp domains. | ubiquitin (ub)-mediated signaling is one of the hallmarks of all eukaryotes. prokaryotic homologs of ub (this and moad) and e1 ligases have been studied in relation to sulfur incorporation reactions in thiamine and molybdenum/tungsten cofactor biosynthesis. however, there is no evidence for entire protein modification systems with ub-like proteins and deconjugation by deubiquitinating enzymes in prokaryotes. hence, the evolutionary assembly of the eukaryotic ub-signaling apparatus remains unclea ... | 2006 | 16859499 |
| microbial toluene removal in hypoxic model constructed wetlands occurs predominantly via the ring monooxygenation pathway. | in the present study, microbial toluene degradation in controlled constructed wetland model systems, planted fixed-bed reactors (pfrs), was queried with dna-based methods in combination with stable isotope fractionation analysis and characterization of toluene-degrading microbial isolates. two pfr replicates were operated with toluene as the sole external carbon and electron source for 2 years. the bulk redox conditions in these systems were hypoxic to anoxic. the autochthonous bacterial communi ... | 2015 | 26150458 |
| non-identity-mediated crispr-bacteriophage interaction mediated via the csy and cas3 proteins. | studies of the escherichia, neisseria, thermotoga, and mycobacteria clustered regularly interspaced short palindromic repeat (crispr) subtypes have resulted in a model whereby crisprs function as a defense system against bacteriophage infection and conjugative plasmid transfer. in contrast, we previously showed that the yersinia-subtype crispr region of pseudomonas aeruginosa strain ucbpp-pa14 plays no detectable role in viral immunity but instead is required for bacteriophage dms3-dependent inh ... | 2011 | 21398535 |
| power plays: iron transport and energy transduction in pathogenic vibrios. | the vibrios are a unique group of bacteria inhabiting a vast array of aquatic environments. many vibrio species are capable of infecting a wide assortment of hosts. some of these species include v. parahaemolyticus, v. alginolyticus, v. vulnificus, v. anguillarum, and v. cholerae. the ability of these organisms to utilize iron is essential in establishing both an infection in their hosts as well as surviving in the environment. bacteria are able to sequester iron through the secretion of low mol ... | 2011 | 21399938 |
| insights into the different dioxygen activation pathways of methane and toluene monooxygenase hydroxylases. | the methane and toluene monooxygenase hydroxylases (mmoh and tmoh, respectively) have almost identical active sites, yet the physical and chemical properties of their oxygenated intermediates, designated p*, h(peroxo), q, and q* in mmoh and tomoh(peroxo) in a subclass of tmoh, tomoh, are substantially different. we review and compare the structural differences in the vicinity of the active sites of these enzymes and discuss which changes could give rise to the different behavior of h(peroxo) and ... | 2011 | 21517016 |
| prevalence of sos-mediated control of integron integrase expression as an adaptive trait of chromosomal and mobile integrons. | abstract: | 2011 | 21529368 |
| web-based phylogenetic assignment tool for analysis of terminal restriction fragment length polymorphism profiles of microbial communities. | culture-independent dna fingerprints are commonly used to assess the diversity of a microbial community. however, relating species composition to community profiles produced by community fingerprint methods is not straightforward. terminal restriction fragment length polymorphism (t-rflp) is a community fingerprint method in which phylogenetic assignments may be inferred from the terminal restriction fragment (t-rf) sizes through the use of web-based resources that predict t-rf sizes for known b ... | 2003 | 14602639 |