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engineering the soil bacterium pseudomonas putida for arsenic methylation.accumulation of arsenic has potential health risks through consumption of food. here, we inserted the arsenite [as(iii)] s-adenosylmethionine methyltransferase (arsm) gene into the chromosome of pseudomonas putida kt2440. recombinant bacteria methylate inorganic arsenic into less toxic organoarsenicals. this has the potential for bioremediation of environmental arsenic and reducing arsenic contamination in food.201323645194
comparative genome analysis of burkholderia phytofirmans psjn reveals a wide spectrum of endophytic lifestyles based on interaction strategies with host plants.burkholderia phytofirmans psjn is a naturally occurring plant-associated bacterial endophyte that effectively colonizes a wide range of plants and stimulates their growth and vitality. here we analyze whole genomes, of psjn and of eight other endophytic bacteria. this study illustrates that a wide spectrum of endophytic life styles exists. although we postulate the existence of typical endophytic traits, no unique gene cluster could be exclusively linked to the endophytic lifestyle. furthermore, ...201323641251
identification of genes and pathways related to phenol degradation in metagenomic libraries from petroleum refinery wastewater.two fosmid libraries, totaling 13,200 clones, were obtained from bioreactor sludge of petroleum refinery wastewater treatment system. the library screening based on pcr and biological activity assays revealed more than 400 positive clones for phenol degradation. from these, 100 clones were randomly selected for pyrosequencing in order to evaluate the genetic potential of the microorganisms present in wastewater treatment plant for biodegradation, focusing mainly on novel genes and pathways of ph ...201323637911
description of pseudomonas jessenii subsp. pseudoputida subsp. nov., amended description of pseudomonas jessenii and description of pseudomonas jessenii subsp. jessenii subsp. nov.fluorescent pseudomonas putida ccm 3656 (atcc 11250) was analysed according to the methods of polyphasic approach which were based on sequence analyses involving the rpob and rrs genes, manual ribotyping using endonuclease hindiii, dna base composition determination and dna-dna hybridization. the results obtained by these genotyping methods showed that the strain ccm 3656 is distant from p. putida taxon, which was supported with phenotype characterization represented by whole-cell protein profil ...201323636777
hydroxylated polychlorinated biphenyls in the environment: sources, fate, and toxicities.hydroxylated polychlorinated biphenyls (oh-pcbs) are produced in the environment by the oxidation of pcbs through a variety of mechanisms, including metabolic transformation in living organisms and abiotic reactions with hydroxyl radicals. as a consequence, oh-pcbs have been detected in a wide range of environmental samples, including animal tissues, water, and sediments. oh-pcbs have recently raised serious environmental concerns because they exert a variety of toxic effects at lower doses than ...201323636595
hydroxylated polychlorinated biphenyls in the environment: sources, fate, and toxicities.hydroxylated polychlorinated biphenyls (oh-pcbs) are produced in the environment by the oxidation of pcbs through a variety of mechanisms, including metabolic transformation in living organisms and abiotic reactions with hydroxyl radicals. as a consequence, oh-pcbs have been detected in a wide range of environmental samples, including animal tissues, water, and sediments. oh-pcbs have recently raised serious environmental concerns because they exert a variety of toxic effects at lower doses than ...201323636595
water oxidation by a cytochrome p450: mechanism and function of the reaction.p450(cam) (cyp101a1) is a bacterial monooxygenase that is known to catalyze the oxidation of camphor, the first committed step in camphor degradation, with simultaneous reduction of oxygen (o2). we report that p450(cam) catalysis is controlled by oxygen levels: at high o2 concentration, p450(cam) catalyzes the known oxidation reaction, whereas at low o2 concentration the enzyme catalyzes the reduction of camphor to borneol. we confirmed, using (17)o and (2)h nmr, that the hydrogen atom added to ...201323634216
non-invasive in situ monitoring and quantification of tol plasmid segregational loss within pseudomonas putida biofilms.methods for the detection of plasmid loss in natural environments have typically relied on replica plating, selective markers and pcr. however, these traditional methods have the limitations of low sensitivity, underestimation of specific cell populations, and lack of insightful data for non-homogeneous environments. we have developed a non-invasive microscopic analytical method to quantify local plasmid segregational loss from a bacterial population within a developing biofilm. the probability ...201323633286
exercise attenuates pcb-induced changes in the mouse gut microbiome.the gut microbiome, a dynamic bacterial community that interacts with the host, is integral to human health because it regulates energy metabolism and immune functions. the gut microbiome may also play a role in risks from environmental toxicants.201323632211
description and nomenclature of neisseria meningitidis capsule locus.pathogenic neisseria meningitidis isolates contain a polysaccharide capsule that is the main virulence determinant for this bacterium. thirteen capsular polysaccharides have been described, and nuclear magnetic resonance spectroscopy has enabled determination of the structure of capsular polysaccharides responsible for serogroup specificity. molecular mechanisms involved in n. meningitidis capsule biosynthesis have also been identified, and genes involved in this process and in cell surface tran ...201323628376
pyocyanine biosynthetic genes in clinical and environmental isolates of pseudomonas aeruginosa and detection of pyocyanine's antimicrobial effects with or without colloidal silver nanoparticles.pyocyanine plays an important role in the pathogenesis of pseudomonas aeruginosa, (p. aeruginosa) and is known to have inhibitory and bactericidal effects. this study has aimed to detect the phenazine biosynthetic operon (phz abcdefg) and two phenazine modifying genes (phzm and phzs) by polymerase chain reaction (pcr) and detection of its possible protein bands by sodium dodecyl sulfate - polyacrylamide gel electrophoresis (sds-page). the antimicrobial effects of pyocyanine alone and mixed with ...201223626932
microscale strategies for generating cell-encapsulating hydrogels.hydrogels in which cells are encapsulated are of great potential interest for tissue engineering applications. these gels provide a structure inside which cells can spread and proliferate. such structures benefit from controlled microarchitectures that can affect the behavior of the enclosed cells. microfabrication-based techniques are emerging as powerful approaches to generate such cell-encapsulating hydrogel structures. in this paper we introduce common hydrogels and their crosslinking method ...201223626908
a novel two-component response regulator links rpf with biofilm formation and virulence of xanthomonas axonopodis pv. citri.citrus bacterial canker caused by xanthomonas axonopodis pv. citri is a serious disease that impacts citrus production worldwide, and x. axonopodis pv. citri is listed as a quarantine pest in certain countries. biofilm formation is important for the successful development of a pathogenic relationship between various bacteria and their host(s). to understand the mechanisms of biofilm formation by x. axonopodis pv. citri strain xw19, the strain was subjected to transposon mutagenesis. one mutant w ...201323626857
biofilms 2012: new discoveries and significant wrinkles in a dynamic field.the asm 6th conference on biofilms was held in miami, florida, 29 september to 4 october, 2012. the conference provided an opportunity for the exchange of new findings and ideas with regard to biofilm research. a wide range of findings, spanning applied biology, evolution, ecology, physiology, and molecular biology, were presented at the conference. this review summarizes the presentations with regard to emerging biofilm-related themes.201323625847
the contribution of proteomics to the unveiling of the survival strategies used by pseudomonas putida in changing and hostile environments.pseudomonas putida is a ubiquitous, metabolically very versatile, gram-negative bacterium adapted to habitats as diverse as soil, water and the rhizosphere. most strains are nonpathogenic, many are used as experimental models, and many others have biotechnological applications in the areas of agriculture, bioremediation, biocatalysis, and the production of bioplastics. this review summarizes the contribution of proteomic technologies to our understanding of how p. putida responds to different ca ...201323625785
[investigation of the presence of new delhi metallo-beta-lactamase-1 (ndm-1) by pcr in carbapenem-resistant gram-negative isolates].bacteria producing new delhi metallo-beta-lactamase-1 (ndm-1) exhibit high level resistance to beta-lactams including carbapenems. this broad-spectrum resistance limits treatment options for infections caused by ndm-1 producers. ndm-1 was first isolated from an indian patient in sweden; since then, ndm-1 producing isolates have been identified in many countries including turkey. in this study, we investigated the presence of ndm-1 by pcr method in various gram-negative isolates recovered from cl ...201323621739
pseudomonas putida f1 has multiple chemoreceptors with overlapping specificity for organic acids.previous studies have demonstrated that pseudomonas putida strains are not only capable of growth on a wide range of organic substrates, but also chemotactic towards many of these compounds. however, in most cases the specific chemoreceptors that are involved have not been identified. the complete genome sequences of p. putida strains f1 and kt2440 revealed that each strain is predicted to encode 27 methyl-accepting chemotaxis proteins (mcps) or mcp-like proteins, 25 of which are shared by both ...201323618999
role of central metabolism in the osmoadaptation of the halophilic bacterium chromohalobacter salexigens.bacterial osmoadaptation involves the cytoplasmic accumulation of compatible solutes to counteract extracellular osmolarity. the halophilic and highly halotolerant bacterium chromohalobacter salexigens is able to grow up to 3 m nacl in a minimal medium due to the de novo synthesis of ectoines. this is an osmoregulated pathway that burdens central metabolic routes by quantitatively drawing off tca cycle intermediaries. consequently, metabolism in c. salexigens has adapted to support this biosynth ...201323615905
bioactive molecules in soil ecosystems: masters of the underground.complex biological and ecological processes occur in the rhizosphere through ecosystem-level interactions between roots, microorganisms and soil fauna. over the past decade, studies of the rhizosphere have revealed that when roots, microorganisms and soil fauna physically contact one another, bioactive molecular exchanges often mediate these interactions as intercellular signal, which prepare the partners for successful interactions. despite the importance of bioactive molecules in sustainable a ...201323615474
functional advantages conferred by extracellular prokaryotic membrane vesicles.the absence of subcellular organelles is a characteristic typically used to distinguish prokaryotic from eukaryotic cells. but recent discoveries do not support this dogma. over the past 50 years, researchers have begun to appreciate and characterize gram-negative bacterial outer membrane-derived vesicles and gram-positive and archaeal membrane vesicles. these extracellular, membrane-bound organelles can perform a variety of functions, including binding and delivery of dna, transport of virulenc ...201323615201
staphylococcus epidermidis isolated in 1965 are more susceptible to triclosan than current isolates.since its introduction to the market in the 1970s, the synthetic biocide triclosan has had widespread use in household and medical products. although decreased triclosan susceptibility has been observed for several bacterial species, when exposed under laboratory settings, no in vivo studies have associated triclosan use with decreased triclosan susceptibility or cross-resistance to antibiotics. one major challenge of such studies is the lack of strains that with certainty have not been exposed ...201323614034
"rational" management of dichlorophenols biodegradation by the microalga scenedesmus obliquus.the microalga scenedesmus obliquus exhibited the ability to biodegrade dichlorophenols (dcps) under specific autotrophic and mixotrophic conditions. according to their biodegradability, the dichlorophenols used can be separated into three distinct groups. group i (2,4-dcp and 2,6 dcp - no meta-substitution) consisted of quite easily degraded dichlorophenols, since both chloride substituents are in less energetically demanding positions. group ii (2,3-dcp, 2,5-dcp and 3,4-dcp - one meta-chloride) ...201323613903
molecular characterization of blandm-1 in a sequence type 235 pseudomonas aeruginosa isolate from france.an ndm-1 carbapenemase-producing pseudomonas aeruginosa isolate was recovered from a patient hospitalized in france after a previous hospitalization in serbia. genetic studies revealed that the blandm-1 gene was surrounded by insertion sequence isaba125 and a truncated bleomycin resistance gene. this blandm-1 region was a part of the variable region of a new complex class 1 integron bearing is common region 1 (iscr1). the presence of ispa7 upstream of this integron suggests insertion in a chromo ...201323612200
chemoecological screening reveals high bioactivity in diverse culturable portuguese marine cyanobacteria.marine cyanobacteria, notably those from tropical regions, are a rich source of bioactive secondary metabolites. tropical marine cyanobacteria often grow to high densities in the environment, allowing direct isolation of many secondary metabolites from field-collected material. however, in temperate environments culturing is usually required to produce enough biomass for investigations of their chemical constituents. in this work, we cultured a selection of novel and diverse cyanobacteria isolat ...201323609580
comparative genomic analysis of four representative plant growth-promoting rhizobacteria in pseudomonas.some pseudomonas strains function as predominant plant growth-promoting rhizobacteria (pgpr). within this group, pseudomonas chlororaphis and pseudomonas fluorescens are non-pathogenic biocontrol agents, and some pseudomonas aeruginosa and pseudomonas stutzeri strains are pgpr. p. chlororaphis gp72 is a plant growth-promoting rhizobacterium with a fully sequenced genome. we conducted a genomic analysis comparing gp72 with three other pseudomonad pgpr: p. fluorescens pf-5, p. aeruginosa m18, and ...201323607266
the structure of glycerol trinitrate reductase nera from agrobacterium radiobacter reveals the molecular reason for nitro- and ene-reductase activity in oye homologues.in recent years, old yellow enzymes (oyes) and their homologues have found broad application in the efficient asymmetric hydrogenation of activated c=c bonds with high selectivities and yields. members of this class of enzymes have been found in many different organisms and are rather diverse on the sequence level, with pairwise identities as low as 20 %, but they exhibit significant structural similarities with the adoption of a conserved (αβ)(8)-barrel fold. some oyes have been shown not only ...201323606302
bacterial monitoring with adhesive sheet in the international space station-"kibo", the japanese experiment module.microbiological monitoring is important to assure microbiological safety, especially in long-duration space habitation. we have been continuously monitoring the abundance and diversity of bacteria in the international space station (iss)-"kibo" module to accumulate knowledge on microbes in the iss. in this study, we used a new sampling device, a microbe-collecting adhesive sheet developed in our laboratory. this adhesive sheet has high operability, needs no water for sampling, and is easy to tra ...201323603802
dechlorination of chloral hydrate is influenced by the biofilm adhesin protein lapa in pseudomonas putida lf54.lapa is the largest surface adhesion protein of pseudomonas putida that initiates biofilm formation. here, by using transposon insertion mutagenesis and a conditional lapa mutant, we demonstrate for the first time that lapa influences chloral hydrate (ch) dechlorination in p. putida lf54.201323603683
a novel muconic acid biosynthesis approach by shunting tryptophan biosynthesis via anthranilate.muconic acid is the synthetic precursor of adipic acid, and the latter is an important platform chemical that can be used for the production of nylon-6,6 and polyurethane. currently, the production of adipic acid relies mainly on chemical processes utilizing petrochemicals, such as benzene, which are generally considered environmentally unfriendly and nonrenewable, as starting materials. microbial synthesis from renewable carbon sources provides a promising alternative under the circumstance of ...201323603682
biofilm formation by psychrobacter arcticus and the role of a large adhesin in attachment to surfaces.psychrobacter arcticus strain 273-4, an isolate from a siberian permafrost core, is capable of forming biofilms when grown in minimal medium under laboratory conditions. biofilms form at 4 to 22°c when acetate is supplied as the lone carbon source and with 1 to 7% sea salt. p. arcticus is also capable of colonizing quartz sand. transposon mutagenesis identified a gene important for biofilm formation by p. arcticus. four transposon mutants were mapped to a 20.1-kbp gene, which is predicted to enc ...201323603675
effects of shear on initial bacterial attachment in slow flowing systems.initial bacterial attachment, likely affected by local shear, could influence biofilm formation. however, there are contradictory reports for the shear effects on attachment of different bacteria onto different surfaces. in this study, four bacteria, staphylococcus epidermidis, pseudomonas aeruginosa, pseudomonas putida, and escherichia coli, were examined for their attachment to glass and octadecyltrichlorosilane (ots) modified glass under different shears. polystyrene particles were used to ve ...201323603040
spatial and numerical regulation of flagellar biosynthesis in polarly flagellated bacteria.control of surface organelle number and placement is a crucial aspect of the cell biology of many gram-positive and gram-negative bacteria, yet mechanistic insights into how bacteria spatially and numerically organize organelles are lacking. many surface structures and internal complexes are spatially restricted in the bacterial cell (e.g. type iv pili, holdfasts, chemoreceptors), but perhaps none show so many distinct patterns in terms of number and localization as the flagellum. in this review ...201323600726
draft genome sequence of medium-chain-length polyhydroxyalkanoate-producing pseudomonas putida strain ls46.we describe the draft genome sequence of pseudomonas putida strain ls46, a novel isolate that synthesizes medium-chain-length polyhydroxyalkanoates. the draft genome of p. putida ls46 consists of approximately 5.86 million bp, with a g+c content of 61.69%. a total of 5,316 annotated genes and 5,219 coding sequences (cds) were identified.201323599293
antibacterial activity of the alkaloid-enriched extract from prosopis juliflora pods and its influence on in vitro ruminal digestion.the purpose of this study was to assess the in vitro antimicrobial activity of alkaloid-enriched extracts from prosopis juliflora (fabaceae) pods in order to evaluate them as feed additives for ruminants. as only the basic chloroformic extract (bce), whose main constituents were juliprosopine (juliflorine), prosoflorine and juliprosine, showed gram-positive antibacterial activity against micrococcus luteus (mic = 25 μg/ml), staphylococcus aureus (mic = 50 μg/ml) and streptococcus mutans (mic = 5 ...201323595000
a new simple method for introducing an unmarked mutation into a large gene of non-competent gram-negative bacteria by flp/frt recombination.for the disruption of a target gene in molecular microbiology, unmarked mutagenesis is preferable to marked mutagenesis because the former method raises no concern about the polar effect and leaves no selection marker. in contrast to naturally competent bacteria, there is no useful method for introducing an unmarked mutation into a large gene of non-competent bacteria. nevertheless, large genes encoding huge proteins exist in diverse bacteria and are interesting and important for physiology and ...201323594401
transformation of hydroxylated derivatives of 2,5-dichlorobiphenyl and 2,4,6-trichlorobiphenyl by burkholderia xenovorans lb400.the polychlorinated biphenyl (pcb)-degrading bacterium, burkholderia xenovorans lb400, was capable of transforming three hydroxylated derivatives of 2,5-dichlorobiphenyl (2,5-dcb) (2'-hydroxy- (2'-oh-), 3'-oh-, and 4'-oh-2,5-dcb) when biphenyl was used as the carbon source (i.e., biphenyl pathway-inducing condition), although only 2'-oh-2,5-dcb was transformed when the bacterium was growing on succinate (i.e., condition non-inductive of the biphenyl pathway). on the contrary, hydroyxlated deriva ...201323589238
transformation of hydroxylated derivatives of 2,5-dichlorobiphenyl and 2,4,6-trichlorobiphenyl by burkholderia xenovorans lb400.the polychlorinated biphenyl (pcb)-degrading bacterium, burkholderia xenovorans lb400, was capable of transforming three hydroxylated derivatives of 2,5-dichlorobiphenyl (2,5-dcb) (2'-hydroxy- (2'-oh-), 3'-oh-, and 4'-oh-2,5-dcb) when biphenyl was used as the carbon source (i.e., biphenyl pathway-inducing condition), although only 2'-oh-2,5-dcb was transformed when the bacterium was growing on succinate (i.e., condition non-inductive of the biphenyl pathway). on the contrary, hydroyxlated deriva ...201323589238
biodegradation of 1-allyloxy-4-propoxybenzene by selected strains of pseudomonas putida.dialkoxybenzenes constitute a class of organic compounds with anti feeding and oviposition effects on the cabbage looper, trichoplusia ni. among them, 1-allyloxy-4-propoxybenzene has the highest feeding deterrence activity and potential for development as commercial insect control agent. to develop this compound, its fate in the environment needs to be studied. the fate of organic compounds in the environment depends on their biodegradability in the soil. we present results of laboratory biodegr ...201423588837
key role for efflux in the preservative susceptibility and adaptive resistance of burkholderia cepacia complex bacteria.bacteria from the burkholderia cepacia complex (bcc) are encountered as industrial contaminants, and little is known about the species involved or their mechanisms of preservative resistance. multilocus sequence typing (mlst) revealed that multiple bcc species may cause contamination, with b. lata (n = 17) and b. cenocepacia (n = 11) dominant within the collection examined. at the strain level, 11 of the 31 industrial sequence types identified had also been recovered from either natural environm ...201323587949
a phthalate family oxygenase reductase supports terpene alcohol oxidation by cyp238a1 from pseudomonas putida kt2440.cyp238a1, one of the two p450 enzymes in the genome of pseudomonas putida kt2440, has been produced heterologously in escherichia coli, purified, and found to bind acyclic and cyclic terpene alcohols such as farnesol, nerolidol, linalool, and terpineol. the other p450 enzyme in this organism (gene locus: pp1950) was also produced in e. coli but no substrate has been identified from a limited screen. a phthalate family oxygenase reductase (pfor) encoded by the pp1957 gene, just downstream of the ...201323586988
the pseudomonas putida hska hybrid sensor kinase controls the composition of the electron transport chain.sensor kinases play a key role in sensing and responding to environmental and physiological signals in bacteria. in this study we characterized a previously unknown orphan hybrid sensor kinase from pseudomonas putida, which is conserved in several pseudomonads. inactivation of the gene coding for this sensor kinase, which we have named hska, modified the expression of at least 85 genes in cells growing in a complete medium. hska showed a strong influence on the composition of the electron transp ...201223584971
solubilization of phenanthrene above cloud point of brij 30: a new application in biodegradation.in the present study a new application of solubilization of phenanthrene above cloud point of brij 30 in biodegradation was developed. it was shown that a temporal solubilization of phenanthrene above cloud point of brij 30 (5wt%) permitted to obtain a stable increase of the solubility of phenanthrene even when the temperature was decreased to culture conditions of used microorganism pseudomonas putida (28°c). a higher initial concentration of soluble phenanthrene was obtained after the cloud po ...201323582404
protein complexes are under evolutionary selection to assemble via ordered pathways.is the order in which proteins assemble into complexes important for biological function? here, we seek to address this by searching for evidence of evolutionary selection for ordered protein complex assembly. first, we experimentally characterize the assembly pathways of several heteromeric complexes and show that they can be simply predicted from their three-dimensional structures. then, by mapping gene fusion events identified from fully sequenced genomes onto protein complex assembly pathway ...201323582331
insight to the interaction of the dihydrolipoamide acetyltransferase (e2) core with the peripheral components in the escherichia coli pyruvate dehydrogenase complex via multifaceted structural approaches.multifaceted structural approaches were undertaken to investigate interaction of the e2 component with e3 and e1 components from the escherichia coli pyruvate dehydrogenase multienzyme complex (pdhc), as a representative of the pdhc from gram-negative bacteria. the crystal structure of e3 at 2.5 å resolution reveals similarity to other e3 structures and was an important starting point for understanding interaction surfaces between e3 and e2. biochemical studies revealed that r129e-e2 and r150e-e ...201323580650
two rnd proteins involved in heavy metal efflux in caulobacter crescentus belong to separate clusters within proteobacteria.heavy metal resistance-nodulation-division (hme-rnd) efflux systems help gram-negative bacteria to keep the intracellular homeostasis under high metal concentrations. these proteins constitute the cytoplasmic membrane channel of the tripartite rnd transport systems. caulobacter crescentus na1000 possess two hme-rnd proteins, and the aim of this work was to determine their involvement in the response to cadmium, zinc, cobalt and nickel, and to analyze the phylogenetic distribution and characteris ...201323578014
cota, a multicopper oxidase from bacillus pumilus wh4, exhibits manganese-oxidase activity.multicopper oxidases (mcos) are a family of enzymes that use copper ions as cofactors to oxidize various substrates. previous research has demonstrated that several mcos such as mnxg, mofa and moxa can act as putative mn(ii) oxidases. meanwhile, the endospore coat protein cota from bacillus species has been confirmed as a typical mco. to study the relationship between cota and the mn(ii) oxidation, the cota gene from a highly active mn(ii)-oxidizing strain bacillus pumilus wh4 was cloned and ove ...201323577125
microbial diversity and dynamics of microbial communities during back-slop soaking of soybeans as determined by pcr-dgge and molecular cloning.tempe is a traditional fermented food in indonesia. the manufacture process is quite complex, which comprises two stages, preparatory soaking of soybeans and fungal solid state fermentation. daily addition of previous soak water (back-slopping) during the soybean soaking step is considered to be crucial in the manufacture of high quality tempe. the microbial diversity and dynamics of the microbial communities evolving during back-slop soaking of soybeans for tempe making was investigated by cult ...201323576016
microbial phytases in phosphorus acquisition and plant growth promotion.phosphorus (p) is one of the major constituents in energy metabolism and biosynthesis of nucleic acids and cell membranes with an important role in regulation of a number of enzymes. soil phosphorous is an important macronutrient for plant growth. phosphorus deficiency in soil is a major problem for agricultural production. total soil p occurs in either organic or in organic form. phytic acid as phytate (salts of phytic acid) is the major form of organic phosphorus in soil and it is not readily ...201123572999
production of indole acetic acid by pseudomonas sp.: effect of coinoculation with mesorhizobium sp. cicer on nodulation and plant growth of chickpea (cicer arietinum).pseudomonas isolates obtained from the rhizosphere of chickpea (cicer arietinum l.) and green gram (vigna radiata) were found to produce significant amount of indole acetic acid (iaa) when grown in a lb medium broth supplemented with l-tryptophan. seed bacterization of chickpea cultivar c235 with different pseudomonas isolates showed stunting effect on the development of root and shoot at 5 and 10 days of seedling growth except the strains mps79 and mps90 that showed stimulation of root growth, ...201123572992
crop genotype and a novel symbiotic fungus influences the root endophytic colonization potential of plant growth promoting rhizobacteria.effect of plant genotype on the root endophytic colonization ability of a plant growth promoting rhizobacteria (pgpr), pseudomonas striata was undertaken in this study. use of a lac-z tagged p. striata strain showed that, it can exist as an endophyte and the plant genotype determines the performance of the inoculated pgpr. the cultivars of zea mays l. (maize) and vigna radiata l. (mung bean) tested showed differential affinity to the pgpr (p. striata) as reflected by a significant variation in t ...200923572916
metabolite profiling to characterize disease-related bacteria: gluconate excretion by pseudomonas aeruginosa mutants and clinical isolates from cystic fibrosis patients.metabolic footprinting of supernatants has been proposed as a tool for assigning gene function. we used nmr spectroscopy to measure the exometabolome of 86 single-gene transposon insertion mutant strains (mutants from central carbon metabolism and regulatory mutants) of the opportunistic pathogen pseudomonas aeruginosa, grown on a medium designed to represent the nutritional content of cystic fibrosis sputum. functionally related genes had similar metabolic profiles. e.g. for two-component syste ...201323572517
antibiotic sensitivity pattern of bacterial pathogens in the intensive care unit of fatmawati hospital, indonesia.to evaluate the sensitivity pattern of bacterial pathogens in the intensive care unit (icu) of a tertiary care of fatmawati hospital jakarta indonesia.201123569722
bacillus subtilis biofilm induction by plant polysaccharides.bacillus subtilis is a plant-beneficial gram-positive bacterium widely used as a biofertilizer. however, relatively little is known regarding the molecular processes underlying this bacterium's ability to colonize roots. in contrast, much is known about how this bacterium forms matrix-enclosed multicellular communities (biofilms) in vitro. here, we show that, when b. subtilis colonizes arabidopsis thaliana roots it forms biofilms that depend on the same matrix genes required in vitro. b. subtili ...201323569226
identification of plant growth-promoting bacteria-responsive proteins in cucumber roots under hypoxic stress using a proteomic approach.plant growth-promoting bacteria (pgpb) can both facilitate plant growth and improve plant resistance to a variety of environmental stresses. in order to investigate the mechanisms that pgpb use to protect plants under hypoxic conditions, the protein profiles of stressed and non-stressed cucumber roots, either treated or not treated with pgpb, were examined. two dimensional difference in-gel electrophoresis (dige) was used to detect significantly up- or down-regulated proteins (p<0.05, |ratio|>1. ...201323568019
microbial utilization of aqueous co-products from hydrothermal liquefaction of microalgae nannochloropsis oculata.hydrothermal liquefaction of algae biomass is a promising technology for the production of sustainable biofuels, but the non-oil, aqueous co-product of the process has only been examined to a limited extent. the aqueous phase from liquefaction of the alga nannochloropsis oculata (aqal) was used to make growth media for model heterotrophic microorganisms escherichia coli, pseudomonas putida, and saccharomyces cerevisiae. growth rates, yields, and carbon/nitrogen/phosphorus uptake were measured. e ...201323567726
protein tyrosine nitration and thiol oxidation by peroxynitrite-strategies to prevent these oxidative modifications.the reaction product of nitric oxide and superoxide, peroxynitrite, is a potent biological oxidant. the most important oxidative protein modifications described for peroxynitrite are cysteine-thiol oxidation and tyrosine nitration. we have previously demonstrated that intrinsic heme-thiolate (p450)-dependent enzymatic catalysis increases the nitration of tyrosine 430 in prostacyclin synthase and results in loss of activity which contributes to endothelial dysfunction. we here report the sensitiv ...201323567270
epidemiology of bacteremia caused by uncommon non-fermentative gram-negative bacteria.prevalence of bacteremia caused by non-fermentative gram-negative bacteria (nfgnb) has been increasing over the past decade. although many studies have already investigated epidemiology of nfgnb bacteremia, most focused only on common nfgnb including pseudomonas aeruginosa (pa) and acinetobacter baumannii (ab). knowledge of uncommon nfgnb bacteremia is very limited. our study aimed to investigate epidemiology and identify factors associated with uncommon nfgnb bacteremia.201323566113
the bartonella quintana extracytoplasmic function sigma factor rpoe has a role in bacterial adaptation to the arthropod vector environment.bartonella quintana is a vector-borne bacterial pathogen that causes fatal disease in humans. during the infectious cycle, b. quintana transitions from the hemin-restricted human bloodstream to the hemin-rich body louse vector. because extracytoplasmic function (ecf) sigma factors often regulate adaptation to environmental changes, we hypothesized that a previously unstudied b. quintana ecf sigma factor, rpoe, is involved in the transition from the human host to the body louse vector. the genomi ...201323564167
physicochemical surface properties of cupriavidus metallidurans ch34 and pseudomonas putida mt2 under cadmium stress.cupriavidus metallidurans ch34 and pseudomonas putida mt2 were used as cadmium (cd) resistant and sensitive bacteria, respectively to study the effect of cd on physicochemical surface properties which include the study of surface charge and hydrophobicity which are subjected to vary under stress conditions. in this research work, effective concentration 50 (ec50 ) was calculated to exclude the doubt that dead cells were also responding and used as reference point to study the changes in cell sur ...201423564035
complex pathways for regulation of pyrimidine metabolism by carbon catabolite repression and quorum sensing in pseudomonas putida ru-km3s.pseudomonads are metabolically versatile microbes that employ complex regulatory networks to control gene expression, particularly with respect to carbon and nitrogen metabolism. the aim of this study was to characterise the regulatory networks that control pyrimidine metabolism (hydantoin-hydrolysing activity) in pseudomonas putida strain ru-km3s, focussing on transcriptional activation of dihydropyrimidinase (dhp) and β-ureidopropionase (bup), encoding dhp and bup, respectively. the two genes ...201323563885
interplay between extracellular matrix components of pseudomonas putida biofilms.the extracellular matrix of bacterial biofilms has at least two key functions: to serve as a structural scaffold for the multicellular community, and to play a protective role against external stress. in this work, we report a compensatory effect whereby pseudomonas putida reacts to the lack of either of the two main surface proteins involved in biofilm formation, lapa and lapf, by increasing expression and production of a species-specific eps. elevated levels of the second messenger molecule cy ...201323562948
the effect of soil bioaugmentation with strains of pseudomonas on cd, zn and cu uptake by sinapis alba l.the aim of this study was to assess the ability of selected metal resistant strains of the pseudomonas genus to increase zn, cd and cu uptake by the metalophyte sinapis alba l. under laboratory conditions. moreover, the mechanisms of the plant growth promotion in the tested strains and their impact on the shoots and roots of white mustard biomass were examined. soil inoculation with the tested strains resulted in higher concentrations of zn, cd and cu in the shoots and roots of the plants in com ...201323561856
distinct structural and redox properties of the heme active site in bacterial dye decolorizing peroxidase-type peroxidases from two subfamilies: resonance raman and electrochemical study.spectroscopic data of dye decolorizing peroxidases (dyps) from bacillus subtilis (bsdyp), an a subfamily member, and pseudomonas putida (ppdyp), a b subfamily enzyme, reveal distinct heme coordination patterns of the respective active sites. in solution, both enzymes show a heterogeneous spin population, with the six-coordinated low-spin state being the most populated in the former and the five-coordinated quantum mechanically mixed-spin state in the latter. we ascribe the poor catalytic activit ...201323560556
diagnosis by real-time polymerase chain reaction of pathogens and antimicrobial resistance genes in bone marrow transplant patients with bloodstream infections.early identification of pathogens and antimicrobial resistance in bloodstream infections (bsis) decreases morbidity and mortality, particularly in immunocompromised patients. the aim of the present study was to compare real-time polymerase chain reaction (pcr) with commercial kits for detection of 17 pathogens from blood culture (bc) and 10 antimicrobial resistance genes.201323560388
the structure of microbial community and degradation of diatoms in the deep near-bottom layer of lake baikal.insight into the role of bacteria in degradation of diatoms is important for understanding the factors and components of silica turnover in aquatic ecosystems. using microscopic methods, it has been shown that the degree of diatom preservation and the numbers of diatom-associated bacteria in the surface layer of bottom sediments decrease with depth; in the near-bottom water layer, the majority of bacteria are associated with diatom cells, being located either on the cell surface or within the ce ...201323560063
characterisation of atp-dependent mur ligases involved in the biogenesis of cell wall peptidoglycan in mycobacterium tuberculosis.atp-dependent mur ligases (mur synthetases) play essential roles in the biosynthesis of cell wall peptidoglycan (pg) as they catalyze the ligation of key amino acid residues to the stem peptide at the expense of atp hydrolysis, thus representing potential targets for antibacterial drug discovery. in this study we characterized the division/cell wall (dcw) operon and identified a promoter driving the co-transcription of mur synthetases along with key cell division genes such as ftsq and ftsw. fur ...201323555903
pseudomonas syringae pv. actinidiae from recent outbreaks of kiwifruit bacterial canker belong to different clones that originated in china.a recently emerged plant disease, bacterial canker of kiwifruit (actinidia deliciosa and a. chinensis), is caused by pseudomonas syringae pv. actinidiae (psa). the disease was first reported in china and japan in the 1980s. a severe outbreak of psa began in italy in 2008 and has spread to other european countries. psa was found in both new zealand and chile in 2010. to study the evolution of the pathogen and analyse the transmission of psa between countries, genomes of strains from china and jap ...201323555547
genome-scale analyses of butanol tolerance in saccharomyces cerevisiae reveal an essential role of protein degradation.n-butanol and isobutanol produced from biomass-derived sugars are promising renewable transport fuels and solvents. saccharomyces cerevisiae has been engineered for butanol production, but its high butanol sensitivity poses an upper limit to product titers that can be reached by further pathway engineering. a better understanding of the molecular basis of butanol stress and tolerance of s. cerevisiae is important for achieving improved tolerance.201323552365
interfacial interaction between methyl parathion-degrading bacteria and minerals is important in biodegradation.in the present study, the influence of kaolinite and goethite on microbial degradation of methyl parathion was investigated. we observed that the biodegradation process was improved by kaolinite and depressed by goethite. calorimetric data further showed that the metabolic activities of degrading cells (pseudomonas putida) were enhanced by the presence of kaolinite and depressed by the presence of goethite. a semipermeable membrane experiment was performed and results supported the above observa ...201423549926
pseudomonas aeruginosa small protease (pasp), a keratitis virulence factor.the virulence contribution of pseudomonas aeruginosa small protease (pasp) during experimental keratitis was studied by comparing a pasp-deficient mutant with its parent and rescue strains.201323548618
impact of carbon source and variable nitrogen conditions on bacterial biosynthesis of polyhydroxyalkanoates: evidence of an atypical metabolism in bacillus megaterium dsm 509.twenty bacterial strains were examined on their ability to produce polyhydroxyalkanoates (pha) from different carbon sources under rich and depleted nitrogen conditions. preliminary experiments with glucose as sole carbon source allowed to select pha producing bacteria using ftir spectroscopy. they were further tested with eight additional carbon substrates including organic, fatty acids or sugars. pha content and monomer composition of four chosen strains (pseudomonas putida mt-2, bacillus mega ...201323548274
from waste to plastic: synthesis of poly(3-hydroxypropionate) in shimwellia blattae.in recent years, glycerol has become an attractive carbon source for microbial processes, as it accumulates massively as a by-product of biodiesel production, also resulting in a decline of its price. a potential use of glycerol in biotechnology is the synthesis of poly(3-hydroxypropionate) [poly(3hp)], a biopolymer with promising properties which is not synthesized by any known wild-type organism. in this study, the genes for 1,3-propanediol dehydrogenase (dhat) and aldehyde dehydrogenase (aldd ...201323542629
physiological and transcriptional responses of saccharomyces cerevisiae to d-limonene show changes to the cell wall but not to the plasma membrane.monoterpenes can, upon hydrogenation, be used as light-fraction components of sustainable aviation fuels. fermentative production of monoterpenes in engineered microorganisms, such as saccharomyces cerevisiae, has gained attention as a potential route to deliver these next-generation fuels from renewable biomass. however, end product toxicity presents a formidable problem for microbial synthesis. due to their hydrophobicity, monoterpene inhibition has long been attributed to membrane interferenc ...201323542628
unraveling root developmental programs initiated by beneficial pseudomonas spp. bacteria.plant roots are colonized by an immense number of microbes, referred to as the root microbiome. selected strains of beneficial soil-borne bacteria can protect against abiotic stress and prime the plant immune system against a broad range of pathogens. pseudomonas spp. rhizobacteria represent one of the most abundant genera of the root microbiome. here, by employing a germ-free experimental system, we demonstrate the ability of selected pseudomonas spp. strains to promote plant growth and drive d ...201323542149
relationship of femtosecond-picosecond dynamics to enzyme-catalyzed h-transfer.at physiological temperatures, enzymes exhibit a broad spectrum of conformations, which interchange via thermally activated dynamics. these conformations are sampled differently in different complexes of the protein and its ligands, and the dynamics of exchange between these conformers depends on the mass of the group that is moving and the length scale of the motion, as well as restrictions imposed by the globular fold of the enzymatic complex. many of these motions have been examined and their ...201323539379
new insights on the reorganization of gene transcription in pseudomonas putida kt2440 at elevated pressure.elevated pressure, elevated oxygen tension (dot) and elevated carbon dioxide tension (dct) are readily encountered at the bottom of large industrial bioreactors and during bioprocesses where pressure is applied for enhancing the oxygen transfer. yet information about their effect on bacteria and on the gene expression thereof is scarce. to shed light on the cellular functions affected by these specific environmental conditions, the transcriptome of pseudomonas putida kt2440, a bacterium of great ...201323537069
assessing the consequences of denoising marker-based metagenomic data.early marker-based metagenomic studies were performed without properly accounting for the effects of noise (sequencing errors, pcr single-base errors, and pcr chimeras). denoising algorithms have been developed, but they were validated using data derived from mock communities, in which the true sequences were known. since the algorithms were designed to be used in real community studies, it is important to evaluate the results in such cases. with this goal in mind, we processed a real 16s rrna m ...201323536909
detection of imp metallo-β-lactamase in carbapenem-nonsusceptible enterobacteriaceae and non-glucose-fermenting gram-negative rods by immunochromatography assay.metallo-β-lactamases (mbls) are transmissible carbapenemases of increasing prevalence in gram-negative bacteria among health care facilities worldwide. control of the further spread of these carbapenem-resistant bacteria relies on clinical microbiological laboratories correctly identifying and classifying the mbls. in this study, we evaluated a simple and rapid method for detecting imp, the most prevalent mbl in japan. we used an immunochromatography (ic) assay for 181 carbapenem-nonsusceptible ...201323536409
high activity catechol 1,2-dioxygenase from stenotrophomonas maltophilia strain kb2 as a useful tool in cis,cis-muconic acid production.this is the first report of a catechol 1,2-dioxygenase from stenotrophomonas maltophilia strain kb2 with high activity against catechol and its methyl derivatives. this enzyme was maximally active at ph 8.0 and 40 °c and the half-life of the enzyme at this temperature was 3 h. kinetic studies showed that the value of k m and v max was 12.8 μm and 1,218.8 u/mg of protein, respectively. during our studies on kinetic properties of the catechol 1,2-dioxygenase we observed substrate inhibition at >80 ...201323536173
family-specific degenerate primer design: a tool to design consensus degenerated oligonucleotides.designing degenerate pcr primers for templates of unknown nucleotide sequence may be a very difficult task. in this paper, we present a new method to design degenerate primers, implemented in family-specific degenerate primer design (fas-dpd) computer software, for which the starting point is a multiple alignment of related amino acids or nucleotide sequences. to assess their efficiency, four different genome collections were used, covering a wide range of genomic lengths: arenavirus (10 × 10(4) ...201323533783
the type ii secretion system (xcp) of pseudomonas putida is active and involved in the secretion of phosphatases.the genome of the gram-negative bacterium pseudomonas putida harbours a complete set of xcp genes for a type ii protein secretion system (t2ss). this study shows that expression of these genes is induced under inorganic phosphate (pi ) limitation and that the system enables the utilization of various organic phosphate sources. a phosphatase of the phox family, previously designated uxpb, was identified, which was produced under low pi conditions and transported across the cell envelope in an xcp ...201323530902
isolation from a nonclinical sample of leclercia adecarboxylata producing a vim-1 metallo-β-lactamase. 201323529733
indole toxicity involves the inhibition of adenosine triphosphate production and protein folding in pseudomonas putida.high concentrations of indole are known to be toxic to cells due to perturbations in membrane potential. here, we report for the first time a transcriptome analysis of a soil model bacterium, pseudomonas putida kt2440, under indole treatment. we demonstrated that 47 genes are differentially expressed, including 11 genes involved in the tricarboxylic acid cycle (tca cycle) and 12 genes involved in chaperone and protease functions (hslv, hslu, htpg, grpe, dnak, ibpa, groel, groes, clpb, lon-1, lon ...201323527579
thermo-regulation of genes mediating motility and plant interactions in pseudomonas syringae.pseudomonas syringae is an important phyllosphere colonist that utilizes flagellum-mediated motility both as a means to explore leaf surfaces, as well as to invade into leaf interiors, where it survives as a pathogen. we found that multiple forms of flagellum-mediated motility are thermo-suppressed, including swarming and swimming motility. suppression of swarming motility occurs between 28° and 30 °c, which coincides with the optimal growth temperature of p. syringae. both flic (encoding flagel ...201323527276
escherichia coli nema is an efficient chromate reductase that can be biologically immobilized to provide a cell free system for remediation of hexavalent chromium.hexavalent chromium is a serious and widespread environmental pollutant. although many bacteria have been identified that can transform highly water-soluble and toxic cr(vi) to insoluble and relatively non-toxic cr(iii), bacterial bioremediation of cr(vi) pollution is limited by a number of issues, in particular chromium toxicity to the remediating cells. to address this we sought to develop an immobilized enzymatic system for cr(vi) remediation. to identify novel cr(vi) reductase enzymes we fir ...201323527133
identification of a missing link in the evolution of an enzyme into a transcriptional regulator.the evolution of transcriptional regulators through the recruitment of dna-binding domains by enzymes is a widely held notion. however, few experimental approaches have directly addressed this hypothesis. here we report the reconstruction of a plausible pathway for the evolution of an enzyme into a transcriptional regulator. the bzdr protein is the prototype of a subfamily of prokaryotic transcriptional regulators that controls the expression of genes involved in the anaerobic degradation of ben ...201323526945
characterization of pseudomonas aeruginosa growth on o-acylcarnitines and identification of a short-chain acylcarnitine hydrolase.to survive in various environments, from host tissue to soil, opportunistic bacterial pathogens must be metabolically flexible and able to use a variety of nutrient sources. we are interested in pseudomonas aeruginosa's catabolism of quaternary amine compounds that are prevalent in association with eukaryotes. carnitine and acylcarnitines are abundant in animal tissues, particularly skeletal muscle, and are used to shuttle fatty acids in and out of the mitochondria, where they undergo β-oxidatio ...201323524670
camphor pathway redux: functional recombinant expression of 2,5- and 3,6-diketocamphane monooxygenases of pseudomonas putida atcc 17453 with their cognate flavin reductase catalyzing baeyer-villiger reactions.whereas the biochemical properties of the monooxygenase components that catalyze the oxidation of 2,5-diketocamphane and 3,6-diketocamphane (2,5-dkcmo and 3,6-dkcmo, respectively) in the initial catabolic steps of (+) and (-) isomeric forms of camphor (cam) metabolism in pseudomonas putida atcc 17453 are relatively well characterized, the actual identity of the flavin reductase (fred) component that provides the reduced flavin to the oxygenases has hitherto been ill defined. in this study, a 37- ...201323524667
structural studies of pseudomonas and chromobacterium ω-aminotransferases provide insights into their differing substrate specificity.the crystal structures and inhibitor complexes of two industrially important ω-aminotransferase enzymes from pseudomonas aeruginosa and chromobacterium violaceum have been determined in order to understand the differences in their substrate specificity. the two enzymes share 30% sequence identity and use the same amino acceptor, pyruvate; however, the pseudomonas enzyme shows activity towards the amino donor β-alanine, whilst the chromobacterium enzyme does not. both enzymes show activity toward ...201323519665
structural insights into diversity and n-alkane biodegradation mechanisms of alkane hydroxylases.environmental microbes utilize four degradation pathways for the oxidation of n-alkanes. although the enzymes degrading n-alkanes in different microbes may vary, enzymes functioning in the first step in the aerobic degradation of alkanes all belong to the alkane hydroxylases. alkane hydroxylases are a class of enzymes that insert oxygen atoms derived from molecular oxygen into different sites of the alkane terminus (or termini) depending on the type of enzymes. in this review, we summarize the d ...201323519435
phospholipid catabolism by gut microbiota and the risk of cardiovascular disease. 201323518648
in silico protein structure modeling and conservation analysis of chrr, a class-i chromate reducing flavoenzyme from pseudomonas putida.hexavalent chromium [cr(vi)] is a widespread environmental pollutant, arising as a by-product of numerous industrial processes. bacteria can reduce toxic and carcinogenic cr(vi) to insoluble and less toxic cr(iii), offering promise for an environmental friendly and affordable solution to chromate pollution. chrr, a class i chromate-reducing flavoenzyme from pseudomonas putida is an efficient chromate reducer. the crystal structure of chrr is yet unknown to the scientific community, hence a three ...201323517724
reciprocal regulation of the autophosphorylation of enzyme intr by glutamine and α-ketoglutarate in escherichia coli.in addition to the phosphoenolpyruvate:sugar phosphotransferase system (sugar pts), most proteobacteria possess a paralogous system (nitrogen phosphotransferase system, pts(ntr)). the first proteins in both pathways are enzymes (enzyme i(sugar) and enzyme i(ntr)) that can be autophosphorylated by phosphoenolpyruvate. the most striking difference between enzyme i(sugar) and enzyme i(ntr) is the presence of a gaf domain at the n-terminus of enzyme i(ntr). since the pts(ntr) was identified in 1995, ...201323517463
phylogenetic analysis of six-domain multi-copper blue proteins.multicopper blue proteins, composed of several repetitive copper-binding domains similar to one-domain cupredoxin-like proteins, were found in almost all organisms. they are classified into the three different groups, based on their two-, three- or six-domain organization. we found orthologs of chordate six-domain copper-binding proteins in animals, plants, bacteria and archea. the phylogenetic analysis of 183 multicopper blue proteins and their copper-binding sites comparison make us think that ...201323516668
a quantitative measure of electrostatic perturbation in holo and apo enzymes induced by structural changes.biological pathways are subject to subtle manipulations that achieve a wide range of functional variation in differing physiological niches. in many instances, changes in the structure of an enzyme on ligand binding germinate electrostatic perturbations that form the basis of its changed catalytic or transcriptional efficiency. computational methods that seek to gain insights into the electrostatic changes in enzymes require expertise to setup and computing prowess. in the current work, we prese ...201323516628
display of multimeric antimicrobial peptides on the escherichia coli cell surface and its application as whole-cell antibiotics.concerns over the increasing emergence of antibiotic-resistant pathogenic microorganisms due to the overuse of antibiotics and the lack of effective antibiotics for livestock have prompted efforts to develop alternatives to conventional antibiotics. antimicrobial peptides (amps) with a broad-spectrum activity and rapid killing, along with little opportunity for the development of resistance, represent one of the promising novel alternatives. their high production cost and cytotoxicity, however, ...201323516591
an artificial functional family filter in homolog searching in next-generation sequencing metagenomics.in functional metagenomics, blast homology search is a common method to classify metagenomic reads into protein/domain sequence families such as clusters of orthologous groups of proteins (cogs) in order to quantify the abundance of each cog in the community. the resulting functional profile of the community is then used in downstream analysis to correlate the change in abundance to environmental perturbation, clinical variation, and so on. however, the short read length coupled with next-genera ...201323516532
the complete genome sequence of the plant growth-promoting bacterium pseudomonas sp. uw4.the plant growth-promoting bacterium (pgpb) pseudomonas sp. uw4, previously isolated from the rhizosphere of common reeds growing on the campus of the university of waterloo, promotes plant growth in the presence of different environmental stresses, such as flooding, high concentrations of salt, cold, heavy metals, drought and phytopathogens. in this work, the genome sequence of uw4 was obtained by pyrosequencing and the gaps between the contigs were closed by directed pcr. the p. sp. uw4 genome ...201323516524
complete genome of the solvent-tolerant staphylococcus warneri strain sg1.staphylococcus warneri is a gram-positive bacterium commonly found in human skin flora. the genome of a laboratory s. warneri isolate, strain sg1, was sequenced to explore its mechanism of solvent tolerance and its potential as a chassis for biofuel production.201323516183
direct bacterial identification in positive blood cultures by use of two commercial matrix-assisted laser desorption ionization-time of flight mass spectrometry systems.matrix-assisted laser desorption ionization-time of flight mass spectrometry (maldi-tof ms) for the identification of bacteria and fungi was recently introduced in microbiology laboratories. this technology could greatly improve the clinical management of patients and guidance for chemotherapy. in this study, we used a commercial maldi sepsityper extraction method to evaluate the performance of two commercial maldi-tof ms systems, the vitek ms ivd (biomérieux) and the microflex lt biotyper (bruk ...201323515548
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