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the homogentisate and homoprotocatechuate central pathways are involved in 3- and 4-hydroxyphenylacetate degradation by burkholderia xenovorans lb400.genome characterization of the model pcb-degrading bacterium burkholderia xenovorans lb400 revealed the presence of eleven central pathways for aromatic compounds degradation, among them, the homogentisate and the homoprotocatechuate pathways. however, the functionality of these central pathways in strain lb400 has not been assessed and related peripheral pathways has not been described.201121423751
rice root-associated bacteria: insights into community structures across 10 cultivars.in this study, the effects of plant genotype, soil type and nutrient use efficiency on the composition of different bacterial communities associated with rice roots were investigated. thus, total bacteria, alpha- and betaproteobacteria, pseudomonas and actinobacteria were studied using pcr, followed by denaturing gradient gel electrophoresis (pcr-dgge). rice genotype determined, to a large extent, the composition of the different bacterial communities across cultivars. several cultivars belongin ...201121426364
impact of chlorophenols on microbiota of an unpolluted acidic soil: microbial resistance and biodegradation.the impact of 2-monochlorophenol (mcp), 2,4,6-trichlorophenol (tcp) and pentachlorophenol (pcp) on the microbial community of an acidic forest soil was studied under controlled laboratory conditions by spiking microcosms with the pollutants at concentrations ranging from 0.1 to 5000 mg kg(-1) . a decrease in the cumulative respirometric values and changes in the bacterial and fungal community composition were detected at 1000 mg mcp kg(-1) , 100 mg tcp kg(-1) and 100 and 1000 mg pcp kg(-1) . how ...201121426365
marr homologs with urate-binding signature.bacteria that associate with living hosts require intricate mechanisms to detect and respond to host defenses. part of the early host defense against invading bacteria is the production of reactive oxygen species, and xanthine oxidase is one of the main producers of such agents. the end-product of the enzymatic activity of xanthine oxidase, urate, was previously shown to be the natural ligand for deinococcus radiodurans-encoded hucr and it was shown to attenuate dna binding by agrobacterium tume ...201121432936
biodiesel production in packed-bed reactors using lipase-nanoparticle biocomposite.the development of appropriate reactors is crucial for the production of biodiesel. in this study, a packed-bed reactor system using lipase-fe(3)o(4) nanoparticle biocomposite catalyst was successfully developed for biodiesel production based on soybean oil methanolysis. emulsification before methanolysis improved the reaction rate. the lipase-nanoparticle biocomposite showed high activity and stability in the single-packed-bed reactor at an optimal flow rate (0.25 ml min(-1)). after 240 h of re ...201121435865
[identification of bacterial contamination in liquid soap for hospital use].this study performed a bacteriological analysis of the liquid soap in dispensers that health professionals use for hand washing. this exploratory, cross-sectional study was developed at the hospitalization units of a medium-sized hospital in fortaleza, ceará, brazil. data were collected between may and july 2007. fifty-nine liquid soap dispensers were analyzed, of which 33 contained the following microorganisms: burkholderia cepacia (14), pseudomonas putidas (9), pseudomonas aeruginosa (3), kleb ...201121445502
[bacteriocins and bacteriophages of pathogenic burkholderia].detection of bacteriocins and phages in pathogenic bacteria of burkholderia genus and study of their specificity range.201121446163
differences in strategies to combat osmotic stress in burkholderia cenocepacia elucidated by nmr-based metabolic profiling.to investigate mechanisms of osmotic tolerance in burkholderia cenocepacia, a member of the b. cepacia complex (bcc) of closely related strains, which is of clinical as well as environmental importance.201121446999
vith world melioidosis congress report: celebrating a century of research. 201121449838
in vitro and in vivo studies of monoclonal antibodies with prominent bactericidal activity against burkholderia pseudomallei and burkholderia mallei.our laboratory has developed more than a hundred mouse monoclonal antibodies (mabs) against burkholderia pseudomallei and burkholderia mallei. these antibodies have been categorized into different groups based on their specificities and the biochemical natures of their target antigens. the current study first examined the bactericidal activities of a number of these mabs by an in vitro opsonic assay. then, the in vivo protective efficacy of selected mabs was evaluated using balb/c mice challenge ...201121450976
burkholderia glumae: next major pathogen of rice?burkholderia glumae causes bacterial panicle blight of rice, which is an increasingly important disease problem in global rice production. toxoflavin and lipase are known to be major virulence factors of this pathogen, and their production is dependent on the tofi/tofr quorum-sensing system, which is mediated by n-octanoyl homoserine lactone. flagellar biogenesis and a type iii secretion system are also required for full virulence of b. glumae. bacterial panicle blight is thought to be caused by ...201121453428
ligand binding induces an ammonia channel in 2-amino-2-desoxyisochorismate (adic) synthase phze.phze utilizes chorismate and glutamine to synthesize 2-amino-2-desoxyisochorismate (adic) in the first step of phenazine biosynthesis. the phze monomer contains both a chorismate-converting menaquinone, siderophore, tryptophan biosynthesis (mst) and a type 1 glutamine amidotransferase (gatase1) domain connected by a 45-residue linker. we present here the crystal structure of phze from burkholderia lata 383 in a ligand-free open and ligand-bound closed conformation at 2.9 and 2.1 å resolution, re ...201121454481
a psychrotrophic burkholderia cepacia strain isolated from refrigerated raw milk showing proteolytic activity and adhesion to stainless steel.the proteolytic activity of a psychrotrophic strain of burkholderia cepacia isolated from refrigerated raw milk was characterized. bur. cepacia produced proteolytic activity during growth at refrigeration temperature, with maximum activity at ph 6-7. the enzyme showed relative thermal stability in the range 40-50°c during 25 min, and maintained 80% its initial activity at 76°c/30 s. milk coagulation assay showed that the crude protease from bur. cepacia caused coagulation from day 2 for skimmed ...201121457588
a chemically modified lipase preparation for catalyzing the transesterification reaction in even highly polar organic solvents.acylation of pseudomonas cepacia lipase with pyromellitic dianhydride to modify 72% of total amino groups was carried out. different organic solvents were screened for precipitation of modified lipase. it was found that 1,2-dimethoxyethane was the best precipitant which precipitated 97% protein and complete activity. pcmc (protein coated microcrystals), clpcmc (crosslinked protein coated microcrystals), epros (enzyme precipitated and rinsed with organic solvents) and ph tuned preparations of mod ...201121463943
complete genome sequence of burkholderia gladioli bsr3.we report the complete genome sequence of burkholderia gladioli bsr3, isolated from a diseased rice sheath in south korea.201121478339
burkholderia cepacia endophthalmitis: clinico-microbiologic profile and outcomes.background:: to report the clinical presentations, antibiotic sensitivities, and outcomes of burkholderia cepacia endophthalmitis. methods:: retrospective, consecutive, noncomparative, interventional case series. we reviewed case records of culture-proven b. cepacia endophthalmitis from the endophthalmitis registry between january 2003 and december 2008. data collected included the cause of endophthalmitis, time of presentation, presenting visual acuity, initial surgical procedures performed, cl ...201121478807
comparative in vitro susceptibility of burkholderia pseudomallei to doripenem, ertapenem, tigecycline and moxifloxacin.burkholderia pseudomallei, the causative agent of melioidosis, continues to present therapeutic challenges in endemic areas. a number of clinical issues have prompted consideration of alternative antimicrobial therapies. these include stability in 24-h infusion pumps, broad-spectrum coverage in the empirical treatment of community-acquired pneumonia, cost, the need for effective oral agents and rare reports of emerging resistance. this study aimed to examine the in vitro susceptibility of b. pse ...201121481571
subsurface examination of a foliar biofilm using scanning electron- and focused-ion-beam microscopy.the dual beam scanning electron microscope, equipped with both a focused ion- and scanning electron-beam (fib sem) is a novel tool for the exploration of the subsurface structure of biological tissues. the fib can remove a predetermined amount of material from a selected site to allow for subsurface exploration and when coupled with sem or scanning ion-beam microscopy (sim) could be suitable to examine the subsurface structure of bacterial biofilms on the leaf surface. the suitability of chemica ...201121482121
molecular phylogeny of burkholderia pseudomallei from a remote region of papua new guinea.the island of new guinea is located midway between the world's two major melioidosis endemic regions of australia and southeast asia. previous studies in papua new guinea have demonstrated autochthonous melioidosis in balimo, western province. in contrast to other regions of endemicity, isolates recovered from both environmental and clinical sources demonstrate narrow genetic diversity over large spatial and temporal scales.201121483841
the airway microbiome in cystic fibrosis and implications for treatment.lung disease in cystic fibrosis (cf) results from chronic airway infection and inflammation leading to progressive bronchiectasis and respiratory failure. bacterial pathogens, including pseudomonas aeruginosa, staphylococcus aureus, and burkholderia cepacia, are known contributors. recent studies using culture-independent molecular techniques and anaerobic cultures have broadened our view of cf airway bacterial communities.201121494150
elucidating the reaction mechanism of the benzoate oxidation pathway encoded aldehyde dehydrogenase from burkholderia xenovorans lb400.oxidation of cis-3,4-dehydroadipyl-coa semialdehyde to cis-3,4-dehydroadipyl-coa by the aldehyde dehydrogenase, aldh(c) (ec.1.2.1.77), is an essential step in the metabolism of benzoate in burkholderia xenovorans lb400. in a previous study, we established a structural blueprint for this novel group of aldh enzymes. here, we build significantly on this initial work and propose a detailed reaction mechanism for aldh(c) based on comprehensive structural and functional investigations of active site ...201121495107
disseminated burkholderia gladioli infection in a lung transplant recipient with underlying hypocomplementemic urticarial vasculitis.g.r. thompson iii, b.l. wickes, m.l. herrera, t.c. haman, j.s. lewis ii, j.h. jorgensen. disseminated burkholderia gladioli infection in a lung transplant recipient with underlying hypocomplementemic urticarial vasculitis. transpl infect dis 2011. all rights reserved abstract: burkholderia gladioli is difficult to definitively identify within the laboratory using phenotypic testing alone. we describe a case of recurrent b. gladioli infection in a lung transplant recipient with underlying hypocom ...201121504528
phenylalanine induces burkholderia cenocepacia phenylacetic acid catabolism through degradation to phenylacetyl-coa in synthetic cystic fibrosis sputum medium.synthetic cystic fibrosis sputum medium (scfm) is rich in amino acids and supports robust growth of burkholderia cenocepacia, a member of the burkholderia cepacia complex (bcc). previous work demonstrated that b. cenocepacia phenylacetic acid (pa) catabolic genes are up-regulated during growth in scfm and are required for full virulence in a caenorhabditis elegans host model. in this work, we investigated the role of phenylalanine, one of the aromatic amino acids present in scfm, as an inducer o ...201121511027
[effect of probiotic bacteria on survival and growth of cortez oyster larvae, crassostrea corteziensis (bivalvia: ostreidae)].disease control problems have major constraints in aquaculture production, and the use of probiotics in larviculture is a valid alternative to antibiotics. this study analyzed the effect of probiotic bacteria on survival and final size of cortez oyster larvae crassostrea corteziensis. two different probiotic concentrations were evaluated, 1 x 10(4) and 1 x 10(5) cfu/ml of lactic acid bacteria (strain ns61) isolated from nodipecten subnodosus, and bacilli isolated from the white leg shrimp, litop ...201121516645
genomic analysis of the phenylacetyl-coa pathway in burkholderia xenovorans lb400.the phenylacetyl-coa (paa) catabolic pathway and genome-wide gene expression responses to phenylacetate catabolism were studied in the polychlorinated biphenyl (pcb)-degrading strain burkholderia xenovorans lb400. microarray and rt-qpcr analyses identified three non-contiguous chromosomal clusters of genes that are predicted to encode a complete paa pathway that were induced up to 40-fold during growth of lb400 on phenylacetate: paaghijkr, paaanebdf, and paac. comparison of the available genome ...201121519854
mycotic aneurysm caused by burkholderia pseudomallei: report of a brazilian strain genetically related to thai strains.clin microbiol infect 2011; 17: 719-721 abstract: melioidosis, a severe infectious disease caused by burkholderia pseudomallei that is prevalent in southeast asia and northern australia, has been sporadically reported in brazil since 2003. we report a case of aortic aneurysm with blood culture positive for b. pseudomallei. the phylogenetic analysis of 16s ribosomal dna showed this isolate to be evolutionarily grouped with the mshr346 strains from thailand.201121521412
identification of unknown ocular pathogens in clinically suspected eye infections using ribosomal rna gene sequence analysis.clin microbiol infect 2011; 17: 776-779 abstract: dna sequence-based identification of pathogens from ocular samples of patients with clinically suspected eye infections was accomplished using 16s and internal transcribed spacer (its) ribosomal rna gene sequence analysis. pcr was positive for 24 of 99 samples tested. both culture and 16s rdna sequence analysis identified pseudomonas aeruginosa, streptococci and enterobacteriaceae. isolates misidentified as burkholderia cepacia by biochemical tes ...201121521414
metagenomic analysis of the 1-aminocyclopropane-1-carboxylate deaminase gene (acds) operon of an uncultured bacterial endophyte colonizing solanum tuberosum l.deamination of the ethylene precursor 1-aminocyclopropane-1-carboxylic acid (acc) is a key plant-beneficial trait found in many plant growth-promoting bacteria. in this study, we analysed acc deaminase genes (acds) of bacterial endophytes colonizing field-grown potato plants. pcr analysis revealed the presence of two types of acds genes, the dominant one showing high homology to an acds gene derived from pseudomonas fluorescens. construction, functional screening and sequence analysis of metagen ...201121523387
deciphering the role of rnd efflux transporters in burkholderia cenocepacia.burkholderia cenocepacia j2315 is representative of a highly problematic group of cystic fibrosis (cf) pathogens. eradication of b. cenocepacia is very difficult with the antimicrobial therapy being ineffective due to its high resistance to clinically relevant antimicrobial agents and disinfectants. rnd (resistance-nodulation-cell division) efflux pumps are known to be among the mediators of multidrug resistance in gram-negative bacteria. since the significance of the 16 rnd efflux systems prese ...201121526150
bacterial leaf symbiosis in ardisia (myrsinoideae, primulaceae): molecular evidence for host specificity.the association between bacteria and leaves in ardisia has been described as a cyclic and obligate symbiosis in which bacteria are maintained throughout all stages of the plant's life cycle to guarantee normal growth and survival of the host. this intimate interaction suggests that both partners have co-diversified together. to test this co-speciation hypothesis, we constructed an endosymbiont (16s rdna and gyrb) and host (rps16, trnl, matk and its) phylogeny. phylogenetic analyses of the endosy ...201121527340
transport and delivery of antimicrobial agents in burkholderia biofilms. 201021529610
isolation of burkholderia cenocepacia j 2315 from non-cystic fibrosis pediatric patients in india.we report for the first time 2 cases of multidrug-resistant burkholderia cenocepacia j2315 isolated from blood samples of patients without cystic fibrosis from a pediatric unit in a hospital in india. the first patient presented with community-acquired bacteremia, and the second patient was immunocompromised and developed hospital-acquired infection approximately 17 days after admission. the isolates from both patients were multidrug-resistant and strong biofilm producers. surveillance cultures ...201121531270
specific developmental window for establishment of an insect-microbe gut symbiosis.the alydid stinkbug riptortus pedestris is specifically associated with a beneficial burkholderia symbiont in the midgut crypts. exceptional among insect-microbe mutualistic associations, the burkholderia symbiont is not vertically transmitted but orally acquired by nymphal insects from the environment every generation. here we experimentally investigated the process of symbiont acquisition during the nymphal development of r. pedestris. in a field population, many 2(nd) instar nymphs were burkh ...201121531836
transcript amplification from single bacterium for transcriptome analysis.total transcript amplification (tta) from single eukaryotic cells for transcriptome analysis is established, but tta from a single prokaryotic cell presents additional challenges with much less starting material, the lack of poly(a)-tails, and the fact that the messages can be polycistronic. here, we describe a novel method for single-bacterium tta using a model organism, burkholderia thailandensis, exposed to a subinhibitory concentration of the antibacterial agent, glyphosate. utilizing a b. t ...201121536723
burkholderia cenocepacia phenotypic clonal variation during three and a half years of residence in the lungs of a cystic fibrosis patient.chronic lung infection is the major cause of morbidity and premature mortality in cystic fibrosis (cf) patients. bacteria of the burkholderia cepacia complex are the most threatening pathogens in cf and a better understanding of how these bacteria adapt to the cf airway environment and resist to the host defense mechanisms and to therapeutically administered antibiotics is crucial. to provide clues on the adaptive strategies adopted by b. cenocepacia during long-term colonization, we carried out ...201121536796
adaptation and antibiotic tolerance of anaerobic burkholderia pseudomallei.the gram-negative bacterium, burkholderia pseudomallei, is the etiological agent of melioidosis and is remarkably resistant to most classes of antibacterials. even after months of treatment with antibacterials relatively effective in vitro, there is a high rate of treatment failure, indicating that this pathogen alters its patterns of antibacterial susceptibility in response to cues encountered in the host. the pathology of melioidosis indicates that b. pseudomallei encounter host microenvironme ...201121537012
improved antibiotic resistance gene cassette for marker exchange mutagenesis in ralstonia solanacearum and burkholderia species.marker exchange mutagenesis is a fundamental approach to understanding gene function at a molecular level in bacteria. new plasmids carrying a kanamycin resistance gene or a trimethoprim resistance gene were constructed to provide antibiotic resistance cassettes for marker exchange mutagenesis in ralstonia solanacearum and many antibiotic-resistant burkholderia spp. insertion sequences present in the flanking sequences of the antibiotic resistance cassette were removed to prevent aberrant gene r ...201121538255
diversity analysis of burkholderia cepacia complex in the water bodies of west lake, hangzhou, china.a survey of burkholderia cepacia complex (bcc) species was conducted in water bodies of west lake in china. a total of 670 bacterial isolates were recovered on selective media. out of them, 39.6% (265 isolates) were assigned to the following species: burkholderia multivorans, burkholderia cenocepacia reca lineage iiia, iiib, burkholderia stabilis, burkholderia vietnamiensis, and burkholderia seminalis while b. cenocepacia is documented as a dominant bcc species in water of west lake. in addition ...201121538256
the pseudomonas quinolone signal (pqs), and its precursor hhq, modulate interspecies and interkingdom behaviour.the pseudomonas quinolone signal (pqs), and its precursor 2-heptyl-4-quinolone (hhq), play a key role in coordinating virulence in the important cystic fibrosis pathogen pseudomonas aeruginosa. the discovery of hhq analogues in burkholderia and other microorganisms led us to investigate the possiblity that these compounds can influence interspecies behaviour. we found that surface-associated phenotypes were repressed in gram-positive and gram-negative bacteria as well as in pathogenic yeast in r ...201121539583
evolution of an endofungal lifestyle: deductions from the burkholderia rhizoxinica genome.abstract:201121539752
endophytic bacteria in toxic south african plants: identification, phylogeny and possible involvement in gousiekte.south african plant species of the genera fadogia, pavetta and vangueria (all belonging to rubiaceae) are known to cause gousiekte (literally 'quick disease'), a fatal cardiotoxicosis of ruminants characterised by acute heart failure four to eight weeks after ingestion. noteworthy is that all these plants harbour endophytes in their leaves: nodulating bacteria in specialized nodules in pavetta and non-nodulating bacteria in the intercellular spaces between mesophyll cells in fadogia and vangueri ...201121541284
chemoenzymatic synthesis of (2r,3r,4r)-dehydroxymethylepoxyquinomicin (dhmeq), a new activator of antioxidant transcription factor nrf2.dehydroxymethylepoxyquinomicin (dhmeq, 1a) is a specific and potent inhibitor of nf-κb, and it is now being developed as an anti-inflammatory and anticancer agent. while previously only the (2s,3s,4s)-form had been available from the racemate by using lipase-catalyzed enantioselective resolution, in the present study a new route for production of the (2r,3r,4r)-form was established by use of a chemoenzymatic approach. (1r*,2r*,3r*)-2,3-epoxy-5-n-[(2-hydroxybenzoyl)amino]-4,4-dimethoxycyclohex-5- ...201121541373
improved culture-based detection and quantification of burkholderia pseudomallei from soil.environmental surveillance of the gram-negative soil bacterium burkholderia pseudomallei, the aetiological agent of melioidosis, is important in order to define human populations and livestock at risk of acquiring the infection. this study aimed to develop a more sensitive method for the detection of b. pseudomallei from soil samples in endemic areas compared with the currently used culture method based on soil dispersion in water. we report the development of a new protocol that involves soil d ...201121543099
methods to classify bacterial pathogens in cystic fibrosis.many bacteria can be detected in cf sputum, pathogenic and commensal. modified koch's criteria for identification of established and emerging cf pathogens are therefore described. methods are described to isolate bacteria and to detect bacterial biofilms in sputum or lung tissue from cf patients by means of conventional culturing and staining techniques and by the pna fish technique. additionally, the confocal scanning laser microscopy technique is described for studying biofilms in vitro in a f ...201121547731
a case of native valve endocarditis caused by burkholderia cepacia without predisposing factors.abstract: background: infective endocarditis is rarely caused by burkholderia cepacia. this infection is known to occur particularly in immunocompromised hosts, intravenous heroin users, and in patients with prosthetic valve replacement. most patients with burkholderia cepacia endocarditis usually need surgical treatment in addition to antimicrobial treatment. case presentation : here, we report the case of a patient who developed burkholderia cepacia-induced native valve endocarditis with conse ...201121548997
lux-marking and application of carbofuran degrader burkholderia cepacia pcl3.a luxab-mutant of the carbofuran degrading bacterium burkholderia cepacia pcl3 was successfully constructed with the capability to emit a luminescence signal of 1.6×10(-3)rlucfu(-1). the mutant has a growth pattern and carbofuran degradation ability similar to pcl3 wild-type. the luminescent emission by pcl3:luxab1 directly correlated with the metabolic activity of the cells. the optimal ph, temperature and n-decanal concentration for luminescence emission are 7.0, 35°c and 0.01%, respectively. ...201121549227
complete genome sequence of the plant growth-promoting endophyte burkholderia phytofirmans strain psjn.burkholderia phytofirmans psjn(t) is able to efficiently colonize the rhizosphere, root and above-ground plant tissues of a wide variety of genetically unrelated plants such as potato, canola, maize and grapevine. strain psjn shows strong plant growth-promoting effects and was reported to enhance plant vigour and resistance to biotic and abiotic stresses. here, we report the genome sequence of this strain, which indicates the presence of multiple traits relevant for endophytic colonization and p ...201121551308
molecular assembly-assisted biocatalytic reactions in ionic liquids.room temperature ionic liquids (rtils), having no measurable vapor pressure, represent an interesting class of tunable designer solvents. due to their many unique properties, ils have been used as attractive alternatives to environmentally harmful ordinary organic solvents in a wide range of applications including enzymatic biotransformation. compared to conventional organic solvents, ils offer many advantages for biocatalysis such as enhanced conversion rates, high enantioselectivity, better en ...201121553181
crystal structures of burkholderia cenocepacia dihydropteroate synthase in the apo-form and complexed with the product 7,8-dihydropteroate.abstract:201121554707
burkholderia pseudomallei-induced expression of a negative regulator, sterile-{alpha} and armadillo motif (sarm) containing protein, in mouse macrophages: a possible mechanism for suppression of myd88-independent pathway.burkholderia pseudomallei, a causative agent of melioidosis, is a gram-negative facultative intracellular bacterium that can survive and multiply in macrophages. previously we demonstrated that b. pseudomallei failed to activate gene expression downstream of myd88-independent pathway, particularly the expression of ifn-β and inducible nitric oxide synthase (inos), leading to the inability of macrophages to kill this bacterium. in the present report, we extended our study to show that b. pseudoma ...201121555400
melioidosis: a clinical overview.introduction melioidosis, an infection caused by the environmental gram-negative bacillus burkholderia pseudomallei, has emerged as an important cause of morbidity and mortality in southeast asia and northern australia. sources of data a review of the literature using pubmed. areas of agreement approaches to diagnosis and antimicrobial therapy. areas of controversy whether seroconversion signals the presence of a quiescent bacterial focus and an increase in long-term risk of melioidosis. areas t ...201121558159
endophytic bacteria in the rice plant.endophytic bacteria are defined as bacteria detected inside surface-sterilized plants or extracted from inside plants and having no visibly harmful effects on the plants. various kinds of endophytic bacteria, such as pantoea, methylobacterium, azospirillum, herbaspirillum, burkholderia and rhizobium etc., have been found inside rice plants. this minireview summarizes and discusses recent studies of endophytic bacteria residing in rice plants, focusing on flora, origin, movement, and interaction ...200821558696
suppression of bacterial wilt and fusarium wilt by a burkholderia nodosa strain isolated from kalimantan soils, indonesia.a trial was conducted to suppress bacterial wilt of tomato (bwt) caused by ralstonia solanacearum using biocontrol agents (bcas) isolated from soils in kalimantan, indonesia. five isolates were selected from 270 isolates as better performing bcas through screening four times using a pumice medium. the isolates selected were identified as burkholderia nodosa, burkholderia sacchari, burkholderia pyrrocinia and burkholderia terricola according to 16s rdna sequences, fatty acid composition and carbo ...200821558699
isolation of effective 3-chlorobenzoate-degraders in soil using community analyses by pcr-dgge.the screening of pollutant degraders by relying solely on cultivation techniques such as liquid enrichment often fails to isolate the actual degraders in the environment. community analyses by pcr-denaturing gradient gel electrophoresis (dgge) were performed to isolate bacteria that can degrade 3-chlorobenzoate (3cb) effectively in soil. a forest soil sample was repeatedly dosed with 3cb (500 mg kg(-1)) to enrich it with indigenous 3cb-degraders, and changes in the bacterial community were monit ...200821558720
bacteria contributing to behaviour of radiocarbon in sodium acetate.an acetate-utilising bacterium was isolated and identified from deionised water that was used for flooding of paddy soils in this study's batch culture experiments. bacteria in the deionised water samples formed colonies on agar plates containing [1,2-(14)c] sodium acetate, and the autoradiograms showed that all the colonies were positive for (14)c utilisation. then one of the acetate-utilising bacteria was isolated. the isolate was characterised by phylogenetic analysis, cell morphology, gram s ...201121561944
new dimensions at molecular microbiology: 3d graphics and the wiley online library. 201121564330
the response of pseudomonas aeruginosa pao1 efflux pump-defective mutants to n-octanoyl-l-homoserine lactone.n-octanoyl-l-homoserine lactone (c8-hsl) is an acyl-homoserine-lactone signal utilized in the quorum-sensing (qs) systems of burkholderia cenocepacia and other bacterial species. although also produced by pseudomonas aeruginosa, its role in this species has not been elucidated. here, we report that c8-hsl modulated antibiotic resistance and pyocyanin production in a p. aeruginosa efflux pump-deficient mutant. the rhl/las quorum-sensing system and qscr gene were both shown to be nonessential in t ...200921566394
pulmonary melioidosis in cambodia: a prospective study.abstract: background: melioidosis is a disease caused by burkholderia pseudomallei and considered endemic in south-east asia but remains poorly documented in cambodia. we report the first series of hospitalized pulmonary melioidosis cases identified in cambodia describing clinical characteristics and outcomes. methods: we characterized cases of acute lower respiratory infections (alri) that were identified through surveillance in two provincial hospitals. severity was defined by systolic blood p ...201121569563
production and characterization of chimeric monoclonal antibodies against burkholderia pseudomallei and b. mallei using the dhfr expression system.burkholderia pseudomallei (bp) and b. mallei (bm) are closely related gram-negative, facultative anaerobic bacteria which cause life-threatening melioidosis in human and glanders in horse, respectively. our laboratory has previously generated and characterized more than 100 mouse monoclonal antibodies (mabs) against bp and bm, according to in vitro and in vivo assay. in this study, 3 mabs (bp7 10b11, bp7 2c6, and bp1 7f7) were selected to develop into chimeric mouse-human monoclonal antibodies ( ...201121573027
the structure of a burkholderia pseudomallei immunophilin-inhibitor complex reveals new approaches to antimicrobial development.macrophage infectivity potentiators (mips) are a subset of immunophilins associated with virulence in a range of micro-organisms. these proteins possess prolyl-peptide isomerase activity and are inhibited by drugs including rapamycin and tacrolimus. we determined the structure of the mip homologue (bpml1) from the human pathogen and biowarfare threat burkholderia pseudomallei by nuclear magnetic resonance and x-ray crystallography. the crystal structure suggests that key catalytic residues in th ...201121574961
pseudomonas quinolone signal affects membrane vesicle production in not only gram-negative but also gram-positive bacteria.many gram-negative bacteria naturally produce membrane vesicles (mvs) to the extracellular milieu. the pseudomonas quinolone signal (pqs), a quorum-sensing signal of pseudomonas aeruginosa, is a positive regulator of mv production. in this study, we investigated its effects on mv production in other gram-negative and -positive bacterial species. the addition of pqs to an escherichia coli k12 culture resulted in increased mv production and enlarged mvs. an excessive amount of mgcl(2) repressed e. ...201021576862
isolation and characterization of a 4-nitrotoluene-oxidizing enzyme from activated sludge by a metagenomic approach.to isolate a biocatalytic enzyme, metagenomic libraries were constructed in fosmids from samples of activated sludge used to treat coke plant wastewater. six indigo-producing clones were isolated from approximately 40,000 metagenomic clones in the search for the oxygenase responsible. in vitro mutagenesis and whole-sequencing revealed one open reading frame to be responsible for the production of indigo in the fosmid clones. the deduced sequence of the gene product showed 60% identity with 2-nap ...201021576864
in vitro activity of bal30072 against burkholderia pseudomallei.burkholderia pseudomallei is an intrinsically antibiotic-resistant category b priority pathogen and the aetiological agent of melioidosis. treatment of b. pseudomallei infection is biphasic and lengthy in order to combat the acute and chronic phases of the disease. acute-phase treatment preferably involves an intravenous cephalosporin (ceftazidime) or a carbapenem (imipenem or meropenem). in this study, the anti-b. pseudomallei efficacy of a new monosulfactam, bal30072, was tested against labora ...201121596528
endophytes and their potential to deal with co-contamination of organic contaminants (toluene) and toxic metals (nickel) during phytoremediation.the aim was to investigate if engineered endophytes that are capable of degrading organic contaminants, and deal with or ideally improve uptake and translocation of toxic metals, can improve phytoremediation of mixed organic-metal pollution. as a model system, yellow lupine was inoculated with the endophyte burkholderia cepacia vm1468 possessing (a) the ptom-bu61 plasmid, coding for constitutive toluene/tce degradation, and (b) the chromosomally inserted ncc-nre ni resistance/sequestration syste ...201121598790
a colorimetric assay of 1-aminocyclopropane-1-carboxylate (acc) based on ninhydrin reaction for rapid screening of bacteria containing acc deaminase.aims:  acc (1-aminocyclopropane-1-carboxylate) deaminase activity is an efficient marker for bacteria to promote plant growth by lowering ethylene levels in plants. we aim to develop a method for rapidly screening bacteria containing acc deaminase, based on a colorimetric ninhydrin assay of acc. methods and results:  a reliable colorimetric ninhydrin assay was developed to quantify acc using heat-resistant polypropylene chimney-top 96-well pcr plates, having the wells evenly heated in boiling wa ...201121599721
comparisons of resistance of cf and non-cf pathogens to hydrogen peroxide and hypochlorous acid oxidants in vitro.abstract: background: cystic fibrosis (cf) lung disease has a unique profile of pathogens predominated by pseudomonas aeruginosa (psa) and staphylococcus aureus (sa). these microorganisms must overcome host immune defense to colonize the cf lungs. polymorphonuclear neutrophils are a major component of the host defense against bacterial infection. a crucial microbicidal mechanism is the production of oxidants including hydrogen peroxide (h2o2) and hypochlorous acid (hocl) by neutrophils to achiev ...201121599970
mucosal immunization with liposome-nucleic acid adjuvants generates effective humoral and cellular immunity.development of effective new mucosal vaccine adjuvants has become a priority with the increase in emerging viral and bacterial pathogens. we previously reported that cationic liposomes complexed with non-coding plasmid dna (cldc) were effective parenteral vaccine adjuvants. however, little is known regarding the ability of liposome-nucleic acid complexes to function as mucosal vaccine adjuvants, or the nature of the mucosal immune responses elicited by mucosal liposome-nucleic acid adjuvants. to ...201121600950
flagellar glycosylation in burkholderia pseudomallei and burkholderia thailandensis.glycosylation of proteins is known to impart novel physical properties and biological roles to proteins from both eukaryotes and prokaryotes. in this study, gel based glycoproteomics were used to identify glycoproteins of the potential bio-threat agent burkholderia pseudomallei and the closely related but non-pathogenic b. thailandensis. top-down and bottom-up ms analysis identified that the flagellin proteins of both species were post-translationally modified by novel glycans. analysis of prote ...201121602339
burkholderia cepacia udp-glucose dehydrogenase (bcec) structure and the role of tyr10 in the final hydrolysis of ugds thioester intermediate.members of the burkholderia cepacia complex (bcc) are serious respiratory pathogens in immunocompromised individuals and in patients with cystic fibrosis (cf). they are exceptionally resistant to many antimicrobial agents and have the capacity of spreading between patients, leading to declined lung function and necrotising pneumonia. bcc members often express a mucoid phenotype associated with the secretion of the exopolysaccharide (eps) cepacian. there is much evidence supporting the fact that ...201121602353
small molecule inhibition of choline catabolism in pseudomonas aeruginosa and other aerobic choline-catabolizing bacteria.choline is abundant in association with eukaryotes and plays roles in osmoprotection, thermoprotection, and membrane biosynthesis in many bacteria. aerobic catabolism of choline is widespread amongst soil proteobacteria, particularly those associated with eukaryotes. catabolism of choline as a carbon, nitrogen, and/or energy source may play important roles in association with eukaryotes, including pathogenesis, symbioses, and nutrient cycling. we sought to generate choline analogues to study bac ...201121602374
culture-independent analysis of bacterial fuel contamination provides insights into the level of concordance with the standard industry practice of aerobic cultivation.bacterial diversity in contaminated fuels has not been systematically investigated using cultivation-independent methods. the fuel industry relies on phenotypic cultivation-based contaminant identification, which may lack accuracy and neglect difficult-to-culture taxa. using industry practice aerobic cultivation, 16s rrna gene sequencing and strain genotyping, a collection of 152 unique contaminant isolates from 54 fuel samples was assembled, and demonstrated a dominance of pseudomonas (21%), bu ...201121602386
patchwork assembly of nag-like nitroarene dioxygenase genes and 3-chlorocatechol degradation cluster for the pathway evolution of 2-chloronitrobenzene catabolism in pseudomonas stutzeri zwlr2-1.pseudomonas stutzeri zwlr2-1 utilizes 2-chloronitrobenzene (2cnb) as a sole source of carbon, nitrogen and energy. to identify genes involved in this pathway, a 16.2-kb dna fragment containing putative 2-chloronitrobenzene dioxygenase genes was cloned and sequenced. of the products from the 19 open reading frames that resulted from this fragment, cnbac and cnbad exhibited striking identities to the respective α- and β- subunits of the nag-like ring-hydroxylating dioxygenases involved in the meta ...201121602392
development and application of a cellular, gain-of-signal, bioluminescent reporter screen for inhibitors of type ii secretion in pseudomonas aeruginosa and burkholderia pseudomallei.the type ii secretion (t2s) system in gram-negative bacteria comprises the sec and tat pathways for translocating proteins into the periplasm and an outer membrane secretin for transporting proteins into the extracellular space. to discover sec/tat/t2s pathway inhibitors as potential new therapeutics, the authors used a pseudomonas aeruginosa bioluminescent reporter strain responsive to seca depletion and inhibition to screen compound libraries and characterize the hits. the reporter strain plac ...201121602485
the pgrt1 plasmid of pseudomonas putida dot-t1e encodes functions relevant for survival under harsh conditions in the environment.pseudomonas putida dot-t1e has the capacity to grow in the presence of high concentrations of toluene. this ability is mainly conferred by an efflux pump encoded in a self-transmissible 133 kb plasmid named pgrt1. sequence analysis of the pgrt1 plasmid revealed several key features. most of the genes related to the plasmid maintenance functions show similarity with those encoded on pbvie04 from burkholderia vietnamensis g4, and knock-out mutants in several of these genes confirmed their roles. t ...201121605303
antibacterial activity and mechanism of action of chitosan solutions against apricot fruit rot pathogen burkholderia seminalis.the in vitro antibacterial activity and mechanism of action of two kinds of acid-soluble chitosan and one water-soluble chitosan against apricot fruit rot pathogen burkholderia seminalis was examined in this study. results showed that water-soluble chitosan displayed limited antibacterial activity at four tested concentrations. however, two kinds of acid-soluble chitosan solution at 2.0mg/ml had strong antibacterial activity against b. seminalis although weak antibacterial activity was observed ...201121605851
hmm-frame: accurate protein domain classification for metagenomic sequences in the presence of frameshift errors.abstract: background: protein domain classification is an important step in metagenomic annotation. the state-of-the-art method for protein domain classification is profile hmm-based alignment. however, the relatively high rates of insertions and deletions in homopolymer regions of pyrosequencing reads create frameshifts, causing conventional profile hmm alignment tools to generate alignments with marginal scores. this makes error-containing gene fragments unclassifiable with conventional tools. ...201121609463
exploring the metabolic network of the epidemic pathogen burkholderia cenocepacia j2315 via genome-scale reconstruction.abstract: background: burkholderia cenocepacia is a threatening nosocomial epidemic pathogen in patients with cystic fibrosis (cf) or a compromised immune system. its high level of antibiotic resistance is an increasing concern in treatments against its infection. strain b. cenocepacia j2315 is the most infectious isolate from cf patients. there is a strong demand to reconstruct a genome-scale metabolic network of b. cenocepacia j2315 to systematically analyze its metabolic capabilities and its ...201121609491
enacyloxins are products of an unusual hybrid modular polyketide synthase encoded by a cryptic burkholderia ambifaria genomic island.gram-negative burkholderia cepacia complex (bcc) isolates were screened for antimicrobial activity against cystic fibrosis microbial pathogens, and the ability of b. ambifaria to inhibit b. multivorans was identified. the activity was mapped to a cluster of cryptic, quorum-sensing-regulated modular polyketide synthase (pks) genes. enacyloxin iia and its stereoisomer designated iso-enacyloxin iia were identified as metabolic products of the gene cluster, which encoded an unusual hybrid modular pk ...201121609847
identification of small-molecule inhibitors of yersinia pestis type iii secretion system yscn atpase.yersinia pestis is a gram negative zoonotic pathogen responsible for causing bubonic and pneumonic plague in humans. the pathogen uses a type iii secretion system (t3ss) to deliver virulence factors directly from bacterium into host mammalian cells. the system contains a single atpase, yscn, necessary for delivery of virulence factors. in this work, we show that deletion of the catalytic domain of the yscn gene in y. pestis co92 attenuated the strain over three million-fold in the swiss-webster ...201121611119
sources of diversity in bactobolin biosynthesis by burkholderia thailandensis e264.a series of deletion mutants in the recently identified bactobolin biosynthetic pathway defined the roles of several key biosynthetic enzymes and showed how promiscuity in three enzyme systems allows this cluster to produce multiple products. studies on the deletion mutants also led to four new bactobolin analogs that provide additional structure-activity relationships for this interesting antibiotic family.201121615115
spei restriction enzyme displays greater discriminatory power than xbai enzyme does in a pulsed-field gel electrophoresis study on 146 clinical burkholderia pseudomallei isolates.restriction enzymes spei and xbai were used in a pulsed-field gel electrophoresis (pfge) study for molecular characterization of 146 clinical burkholderia pseudomallei isolates. the pfge parameters were optimized to enable comparable, reproducible, and robust results. the optimized parameters for both spei and xbai restriction enzymes used in this study were 200 v and a pulse time of 5 to 65 s for a 28-h runtime. using spei, 9 different clusters were identified, whereas 6 clusters were identifie ...201121617308
chlorine dioxide inactivation of bacterial threat agents.aims:  to evaluate the efficacy of chlorine dioxide (clo(2) ) against seven species of bacterial threat (bt) agents in water. methods and results:  two strains of bacillus anthracis spores, yersinia pestis, francisella tularensis, burkholderia pseudomallei, burkholderia mallei, and brucella species were each inoculated into a clo(2) solution with an initial concentration of 2·0 mg l(-1) (spores only) and 0·25 mg l(-1) (all other bacteria) at ph 7 or 8, 5°c or 25°c. at 0·25 mg l(-1) in potable wa ...201121623848
reductive dehalogenation mediated initiation of aerobic degradation of 2-chloro-4-nitrophenol (2c4np) by burkholderia sp. strain sj98.burkholderia sp. strain sj98 (dsm 23195) was previously isolated and characterized for degradation and co-metabolic transformation of a number nitroaromatic compounds. in the present study, we evaluated its metabolic activity on chlorinated nitroaromatic compounds (cnacs). results obtained during this study revealed that strain sj98 can degrade 2-chloro-4-nitrophenol (2c4np) and utilize it as sole source of carbon, nitrogen, and energy under aerobic conditions. the cells of strain sj98 removed 2 ...201121626025
chemoenzymatic asymmetric synthesis of optically active pentane-1,5-diamine fragments by means of lipase-catalyzed desymmetrization transformations.a novel family of prochiral pentane-1,5-diamines has been efficiently synthesized possessing great stabilities and significantly higher than their corresponding propane-1,3-diamine analogues. diamines have been later desymmetrized using pseudomonas cepacia lipase as efficient biocatalyst for the mono- but also stereoselective protection of one of their amino groups. reaction parameters such as type and loading of enzyme, temperature, solvent, and acyl donor have been exhaustively analyzed search ...201121627134
the aftermath of the western australian melioidosis outbreak.abstract. melioidosis became a notifiable disease in western australia (wa) 2 years after the west kimberley melioidosis outbreak. two cases of melioidosis caused by the outbreak genotype of burkholderia pseudomallei (national collection of type cultures [nctc] 13177) occurred in 1998 and 1999 in persons who visited the outbreak location at the time. no other infections caused by the outbreak strain have been recorded in wa since that time, despite an average of four culture-positive cases per y ...201121633018
repeat blood culture positive for b. pseudomallei indicates an increased risk of death from melioidosis.abstract. melioidosis, a bacterial infection caused by burkholderia pseudomallei, is notoriously difficult to cure despite appropriate antimicrobial therapy and has a mortality rate of up to 40%. we demonstrate that a blood culture positive for b. pseudomallei taken at the end of the first and/or second week after hospitalization for melioidosis is a strong prognostic factor for death (adjusted odds ratio = 4.2, 95% confidence interval = 2.1-8.7, p < 0.001 and adjusted odds ratio = 2.6, 95% conf ...201121633019
the use of positive serological tests as evidence of exposure to burkholderia pseudomallei. 201121633045
melioidosis of the extremities in brunei darussalam.introduction: melioidosis caused by burkholderia pseudomallei is an infectious disease endemic to southeast asia and northern australia. it has a broad spectrum of clinical manifestations and high mortality, and can mimic other infectious diseases. the aim of this study was to review cases of melioidosis of the extremities in brunei darussalam. methods: culture-positive cases for burkholderia pseudomallei in raja isteri pengiran anak saleha hospital were identified from records in the microbiolo ...201121633768
racemase activity of b. cepacia lipase leads to dual-function asymmetric dynamic kinetic resolution of α-aminonitriles. 201121633990
a new route to dtdp-6-deoxy-l-talose and dtdp-l-rhamnose: dtdp-l-rhamnose 4-epimerase in burkholderia thailandensis.dtdp-l-rhamnose (dtdp-rha)-synthesizing dtdp-6-deoxy-l-lyxo-4-hexulose reductase (4-kr) and dtdp-rha 4-epimerase were characterized from burkholderia thailandensis e264 by utilizing rmld(bth) (bth_i1472) and wbib(bth) (bth_i1476), respectively. incubation of the recombinant wbib(bth) with rmla/rmlb/rmlc/tal, which has previously been shown to generate dtdp-6-deoxy-l-talose (dtdp-6dtal) from α-d-glucose-1-phosphate, dttp, and nadph, produced dtdp-rha. (1)h nmr measurements confirmed that both rml ...201121640586
characterization of the self-cleaving effector protein nope1 of bradyrhizobium japonicum.nope1 is a type iii-secreted protein of the symbiont bradyrhizobium japonicum which is expressed in nodules. in vitro it exhibits self-cleavage in a duplicated domain of unknown function (duf1521), but only in the presence of calcium. here we show that either domain is self-sufficient for cleavage. an exchange of the aspartic acid residue at the cleavage site with asparagine prevented cleavage, however, cleavage was still observed with glutamic acid at the same position, indicating that a negati ...201121642459
bacterial contamination of commercial ear cleaners following routine home use.ear cleaning solutions are designed for repeated use, which raises the possibility for bacterial contamination leading to recurrent or persistent infectious otitis. the purpose of this study was to investigate the prevalence of bacterial contamination of commercial ear cleaners following routine home use in dogs and to describe the characteristics that are associated with contamination. used ear cleaner bottles and information regarding their use were obtained from canine owners visiting veterin ...201121645141
retuning rieske-type oxygenases to expand substrate range.rieske-type oxygenases are promising biocatalysts for the destruction of persistent pollutants or for the synthesis of fine chemicals. in this work, we explored pathways through which rieske-type oxygenases evolve to expand their substrate range. bphae(p4), a variant biphenyl dioxygenase generated from burkholderia xenovorans lb400 bphae(lb400) by the double substitution t335a/f336m, and bphae(rr41), obtained by changing asn(338), ile(341), and leu(409) of bphae(p4) to gln(338), val(341), and ph ...201121653696
a mixed molecular modeling-robotics approach to investigate lipase large molecular motions.large-scale conformational rearrangement of a lid subdomain is a key event in the interfacial activation of many lipases. we present herein a study in which the large-scale "open-to-closed" movement of burkholderia cepacia lipase lid has been simulated at the atomic level using a hybrid computational method. the two-stage approach combines path-planning algorithms originating from robotics and molecular mechanics methods. in the first stage, a path-planning approach is used to compute continuous ...201121656568
rapid identification of burkholderia pseudomallei and burkholderia mallei by fluorescence in situ hybridization (fish) from culture and paraffin-embedded tissue samples.we evaluated newly developed probes for rapid identification of burkholderia (b.) pseudomallei and b. mallei and differentiation from b. thailandensis by fluorescence in situ hybridization (fish). fish correctly identified 100% of the tested b. pseudomallei (11), b. mallei (11), and b. thailandensis (1) strains, excluded 100% of all tested negative controls (61), and allowed demonstration of b. pseudomallei infection in a paraffin-embedded spleen tissue sample of an experimentally infected mouse ...201121658996
superoxide dismutase c is required for intracellular survival and virulence of burkholderia pseudomallei.burkholderia pseudomallei is an intracellular pathogen and the causative agent of melioidosis, a life-threatening disease of humans. within host cells, superoxide is an important mediator of pathogen killing. in this study, we have identified the b. pseudomallei k96243 sodc gene, shown that it has superoxide dismutase activity, and constructed an allelic deletion mutant of this gene. compared with the wild-type, the mutant was more sensitive to killing by extracellular superoxide, but not to sup ...201121659326
outbreak of burkholderia cepacia complex among ventilated pediatric patients linked to hospital sinks.we investigated a cluster of burkholderia cepacia complex colonization in ventilated pediatric patients. isolates from 15 patients, 2 sink drains, and several ventilator components were found to belong to a single b cenocepacia clone. hospital tap water used during oral and tracheostomy care was identified as the most likely mechanism for transmission.201121664002
the quorum-sensing molecules farnesol/homoserine lactone and dodecanol operate via distinct modes of action in candida albicans.living as a commensal, candida albicans must adapt and respond to environmental cues generated by the mammalian host and by microbes comprising the natural flora. these signals have opposing effects on c. albicans, with host cues promoting the yeast-to-hyphal transition and bacteria-derived quorum-sensing molecules inhibiting hyphal development. hyphal development is regulated through modulation of the cyclic amp (camp)/protein kinase a (pka) signaling pathway, and it has been postulated that qu ...201121666074
regulation of type vi secretion system during burkholderia pseudomallei infection.type iii and type vi secretion systems (t3sss and t6sss, respectively) are critical virulence determinants in several gram-negative pathogens. in burkholderia pseudomallei, the t3ss-3 and t6ss-1 clusters have been implicated in bacterial virulence in mammalian hosts. we recently discovered a regulatory cascade that coordinately controls the expression of t3ss-3 and t6ss-1. bsan is a central regulator located within t3ss-3 for the expression of t3ss-3 effectors and regulators for t6ss-1 such as v ...201121670170
synthesis and biotransformation of 2-alkyl-4(1h)-quinolones by recombinant pseudomonas putida kt2440.2-alkyl-4(1h)-quinolones (aqs) and related derivatives, which exhibit a variety of biological properties, are secondary metabolites produced by, e.g., pseudomonas and burkholderia spp. due to their main role as signaling molecules in the quorum sensing system of pseudomonas aeruginosa, 2-heptyl-4(1h)-quinolone (hhq) and its 3-hydroxy derivative, termed the "pseudomonas quinolone signal" (pqs), have received considerable attention. since chemical synthesis of different aqs is complex, we assessed ...201121670979
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