Publications

heat resistance mediated by a new plasmid encoded clp atpase, clpk, as a possible novel mechanism for nosocomial persistence of klebsiella pneumoniae.	klebsiella pneumoniae is an important opportunistic pathogen and a frequent cause of nosocomial infections. we have characterized a k. pneumoniae strain responsible for a series of critical infections in an intensive care unit over a two-year period. the strain was found to be remarkably thermotolerant providing a conceivable explanation of its persistence in the hospital environment. this marked phenotype is mediated by a novel type of clp atpase, designated clpk. the clpk gene is encoded by a ...	2010	21085699
[a case of pseudomonas mendocina endocarditis].		2010	21094007
pseudo-outbreak of pseudomonas mendocina in stem cell cultures.	pseudomonas mendocina was first isolated in the 1970s from soil and water samples collected in the province of mendoza, argentina. its recovery from human clinical specimens other than urine and leg ulcers was not documented until 1992, when a case report of an endocarditis caused by p. mendocina was published. we report the detection of p. mendocina in diagnostic stem cell cultures in the haematology unit, which initiated an outbreak investigation after identification of p. mendocina from three ...	2010	21146254
size-dependent bioavailability of hematite (α-fe2o3) nanoparticles to a common aerobic bacterium.	the size-dependent bioavailability of hematite (α-fe(2)o(3)) nanoparticles to obligate aerobic pseudomonas mendocina bacteria was examined using the natural siderophore-producing wild type strain and a siderophore(-) mutant strain. results showed that fe from hematite less than a few tens of nm in size appears to be considerably more bioavailable than fe associated with larger particles. this increased bioavailability is related to the total available particle surface area, and depends in part o ...	2010	21174456
effect of high temperature on bacterial community dynamics in anaerobic acidogenesis using mesophilic sludge inoculum.	in this study, we investigated the microbial community dynamics in thermal acidogenesis using mesophilic sludge. from the result of optimization with a response surface methodology, the acidogenic optimum conditions predicted were a hydraulic retention time of 2.0 days and 51 degrees c. denaturing gradient gel electrophoresis (dgge) profiles shows that the monitored bacterial community present consists of pseudomonas mendocina, bacillus halodurans, clostridium hastiforme, gracilibacter thermotol ...	2010	19362824
molecular epidemiology of a pseudomonas aeruginosa hospital outbreak driven by a contaminated disinfectant-soap dispenser.	pseudomonas aeruginosa infection represents a main cause of morbidity and mortality among immunocompromised patients. this study describes a fatal epidemic of p. aeruginosa that occurred in a hematology unit in italy.	2011	21359222
multiple roles of component proteins in bacterial multicomponent monooxygenases: phenol hydroxylase and toluene/o-xylene monooxygenase from pseudomonas sp. ox1.	phenol hydroxylase (ph) and toluene/o-xylene monooxygenase (tomo) from pseudomonas sp. ox1 require three or four protein components to activate dioxygen for the oxidation of aromatic substrates at a carboxylate-bridged diiron center. in this study, we investigated the influence of the hydroxylases, regulatory proteins, and electron-transfer components of these systems on substrate (phenol; nadh) consumption and product (catechol; h(2)o(2)) generation. single-turnover experiments revealed that on ...	2011	21366224
regulation and characterization of the dadrax locus for d-amino acid catabolism in pseudomonas aeruginosa pao1.	d-amino acids are essential components for bacterial peptidoglycan, and these natural compounds are also involved in cell wall remodeling and biofilm disassembling. in pseudomonas aeruginosa, the dadax operon, encoding the d-amino acid dehydrogenase dada and the amino acid racemase dadx, is essential for d- and l-ala catabolism, and its expression requires a transcriptional regulator, dadr. in this study, purified recombinant dada alone was sufficient to demonstrate the proposed enzymatic activi ...	2011	21378189
non-identity-mediated crispr-bacteriophage interaction mediated via the csy and cas3 proteins.	studies of the escherichia, neisseria, thermotoga, and mycobacteria clustered regularly interspaced short palindromic repeat (crispr) subtypes have resulted in a model whereby crisprs function as a defense system against bacteriophage infection and conjugative plasmid transfer. in contrast, we previously showed that the yersinia-subtype crispr region of pseudomonas aeruginosa strain ucbpp-pa14 plays no detectable role in viral immunity but instead is required for bacteriophage dms3-dependent inh ...	2011	21398535
power plays: iron transport and energy transduction in pathogenic vibrios.	the vibrios are a unique group of bacteria inhabiting a vast array of aquatic environments. many vibrio species are capable of infecting a wide assortment of hosts. some of these species include v. parahaemolyticus, v. alginolyticus, v. vulnificus, v. anguillarum, and v. cholerae. the ability of these organisms to utilize iron is essential in establishing both an infection in their hosts as well as surviving in the environment. bacteria are able to sequester iron through the secretion of low mol ...	2011	21399938
insights into the different dioxygen activation pathways of methane and toluene monooxygenase hydroxylases.	the methane and toluene monooxygenase hydroxylases (mmoh and tmoh, respectively) have almost identical active sites, yet the physical and chemical properties of their oxygenated intermediates, designated p, h(peroxo), q, and q in mmoh and tomoh(peroxo) in a subclass of tmoh, tomoh, are substantially different. we review and compare the structural differences in the vicinity of the active sites of these enzymes and discuss which changes could give rise to the different behavior of h(peroxo) and ...	2011	21517016
bioinformatic characterization of the trimeric intracellular cation-specific channel protein family.	trimeric intracellular cation-specific (tric) channels are integral to muscle excitation-contraction coupling. tric channels provide counter-ionic flux when calcium is rapidly transported from intracellular stores to the cell cytoplasm. until recently, knowledge of the presence of these proteins was limited to animals. we analyzed the tric family and identified a profusion of prokaryotic family members with topologies and motifs similar to those of their eukaryotic counterparts. prokaryotic memb ...	2011	21519847
prevalence of sos-mediated control of integron integrase expression as an adaptive trait of chromosomal and mobile integrons.	abstract:	2011	21529368
ptra is a periplasmic protein involved in cu-tolerance in pseudomonas aeruginosa.	in this work, we demonstrate that ptra (ha et al., 2004, mol microbiol. 54:307-20) is a periplasmic protein, specifically synthesized in the presence of copper, and involved in tolerance of pseudomonas aeruginosa to copper. our biochemical and genetic analyses challenge its role in transcriptional inhibition of type iii secretion system.	2011	21531801
complete genome of medium-chain-length polyhydroxyalkanoates and alginate oligosaccharides synthesis strain pseudomonas mendocina nk-01.	pseudomonas mendocina nk-01 can synthesize medium-chain-length polyhydroxyalkanoate (pha(mcl)) and alginate oligosaccharides (ao) simultaneously from glucose in the condition of limited nitrogen source. here we report the complete sequence of the 5.4-mbp genome of pseudomonas mendocina nk-01, that was isolated from farmland soil in tianjin, china.	2011	21551299
poly-3-hydroxyoctanoate p(3ho), a medium chain length polyhydroxyalkanoate homopolymer from pseudomonas mendocina.	pseudomonas mendocina was found to produce a unique homopolymer of poly(3-hydroxyoctanoate), p(3ho), rather than a copolymer, when grown on sodium octanoate as the sole carbon source. although this polymer has been produced by other organisms, interestingly this is the first time an absolute homopolymer has been produced by a wild type organism. in addition, a detailed study on the effects of different extraction methods on the yield, molecular weight, thermal properties, and lipopolysaccharide ...	2011	21561067
pseudomonas entomophila and pseudomonas mendocina: potential models for studying the bacterial type vi secretion system.	a diversity of molecular translocation mechanisms, including various secretion systems, has been elaborated in host-bacterial interactions. the newly described type vi secretion system (t6ss) appears to be involved in bacterial pathogenesis by acting as a nano-syringe, contributing in translocation of several effector-proteins into the eukaryotic host cell cytoplasm. recent evidences revealed the involvement of t6ss machinery in inter-bacterial interactions. several pseudomonas species are found ...	2011	21600307
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 ...	2011	21602374
simultaneous production and characterization of medium-chain-length polyhydroxyalkanoates and alginate oligosaccharides by pseudomonas mendocina nk-01.	when pseudomonas mendocina nk-01 was cultivated in a 200-l fermentor using glucose as carbon source, 0.316 g l(-1) medium-chain-length polyhydroxyalkanoate (pha(mcl)) and 0.57 g l(-1) alginate oligosaccharides (ao) were obtained at the end of the process. gc/ms was used to characterize the pha(mcl), which was found to be a polymer mainly consisting of 3ho (3-hydroxyoctanoate) and 3hd (3-hydroxydecanoate). t (m) and t (g) values for the pha(mcl) were 51.03°c and -41.21°c, respectively, by dsc. it ...	2011	21617928
defining the pseudomonas genus: where do we draw the line with azotobacter?	the genus pseudomonas has gone through many taxonomic revisions over the past 100 years, going from a very large and diverse group of bacteria to a smaller, more refined and ordered list having specific properties. the relationship of the pseudomonas genus to azotobacter vinelandii is examined using three genomic sequence-based methods. first, using 16s rrna trees, it is shown that a. vinelandii groups within the pseudomonas close to pseudomonas aeruginosa. genomes from other related organisms ( ...	2011	21811795
defining the pseudomonas genus: where do we draw the line with azotobacter?	the genus pseudomonas has gone through many taxonomic revisions over the past 100 years, going from a very large and diverse group of bacteria to a smaller, more refined and ordered list having specific properties. the relationship of the pseudomonas genus to azotobacter vinelandii is examined using three genomic sequence-based methods. first, using 16s rrna trees, it is shown that a. vinelandii groups within the pseudomonas close to pseudomonas aeruginosa. genomes from other related organisms ( ...	2011	21811795
pseudomonas mendocina sepsis in a healthy man.		2011	21809738
novel lipolytic enzymes identified from metagenomic library of deep-sea sediment.	metagenomic library was constructed from a deep-sea sediment sample and screened for lipolytic activity. open-reading frames of six positive clones showed only 33-58% amino acid identities to the known proteins. one of them was assigned to a new group while others were grouped into families i and v or estd family. by employing a combination of approaches such as removing the signal sequence, coexpression of chaperone genes, and low temperature induction, we obtained five soluble recombinant prot ...	2011	21845199
within-genome evolution of repins: a new family of miniature mobile dna in bacteria.	repetitive sequences are a conserved feature of many bacterial genomes. while first reported almost thirty years ago, and frequently exploited for genotyping purposes, little is known about their origin, maintenance, or processes affecting the dynamics of within-genome evolution. here, beginning with analysis of the diversity and abundance of short oligonucleotide sequences in the genome of pseudomonas fluorescens sbw25, we show that over-represented short sequences define three distinct groups ...	2011	21698139
production optimization of cyanophycinase chpeal from pseudomonas alcaligenes dip1.	abstract: pseudomonas alcaligenes dip1 produces an extracellular cyanophycinase (cpheal). the corresponding gene (cpheal) was identified from subclones of a genomic dna gene library by heterologously expressing the functionally active enzyme in escherichia coli. the nucleotide sequence of the gene (1260 base pairs) was determined indicating a theoretical mass of 43.6 kda (mature cpheal) plus a leader peptide of 2,6 kda which corresponds well to the apparent molecular mass of 45 kda as revealed b ...	2011	22060187
Analysis of Substrate Access to Active Sites in Bacterial Multicomponent Monooxygenase Hydroxylases: X-ray Crystal Structure of Xenon-Pressurized Phenol Hydroxylase from Pseudomonas sp. OX1.	In all structurally characterized bacterial multicomponent monooxygenase (BMM) hydroxylase proteins, a series of hydrophobic cavities in the a-subunit trace a conserved path from the protein exterior to the carboxylate-bridged diiron active site. This study examines these cavities as a potential route for transport of dioxygen to the active site by crystallographic characterization of a xenon-pressurized sample of the hydroxylase component of phenol hydroxylase from Pseudomonas sp. OX1. Computat ...	2011	22136180
assessment of denitrifying bacterial composition in activated sludge.	the abundance and structure of denitrifying bacterial community in different activated sludge samples were assessed, where the abundance of denitrifying functional genes showed nirs in the range of 10(4)-10(5), nosz with 10(4)-10(6) and 16s rrna gene in the range 10(9)-10(10) copy number per ml of sludge. the culturable approach revealed pseudomonas sp. and alcaligenes sp. to be numerically high, whereas culture independent method showed betaproteobacteria to dominate the sludge samples. comamon ...	2011	21868215
[Isolation, identification and soil remediation of fomesafen-degrading strain FB8].	In order to find new strains to degrade fomesafen in contaminated soil, we isolated and identified a high-efficiency degrading bacterium from polluted soil. The degrading characteristics and remediation ability of the strain were also studied.	2011	22126079
Identification of the Midgut Microbiota of An. stephensi and An. maculipennis for Their Application as a Paratransgenic Tool against Malaria.	The midgut microbiota associated with Anopheles stephensi and Anopheles maculipennis (Diptera: Culicidae) was investigated for development of a paratransgenesis-based approach to control malaria transmission in Eastern Mediterranean Region (EMR). Here, we present the results of a polymerase chain reaction (PCR) and biochemical-based approaches to identify the female adult and larvae mosquitoe microbiota of these two major malaria vectors, originated from South Eastern and North of Iran. Plating ...	2011	22163022
study of the tmos/tmot two-component system: towards the functional characterization of the family of tods/todt like systems.	the two-component system tmos/tmot controls the expression of the toluene-4-monooxygenase pathway in pseudomonas mendocina rk1 via modulation of p(tmox) activity. the tmos/tmot system belongs to the family of tods/todt like proteins. the sensor kinase tmos is a 108 kda protein composed of seven different domains. using isothermal titration calorimetry we show that purified tmos binds a wide range of aromatic compounds with high affinities. tightest ligand binding was observed for toluene (k(d) ...	2011	22212183
ehrlichia chaffeensis tandem repeat proteins and ank200 are type 1 secretion system substrates related to the repeats-in-toxin exoprotein family.	ehrlichia chaffeensis has type 1 and 4 secretion systems (t1ss and t4ss), but the substrates have not been identified. potential substrates include secreted tandem repeat protein (trp) 47, trp120, and trp32, and the ankyrin repeat protein, ank200, that are involved in molecular host-pathogen interactions including dna binding and a network of protein-protein interactions with host targets associated with signaling, transcriptional regulation, vesicle trafficking, and apoptosis. in this study we ...	2011	22919588
annotation of protein domains reveals remarkable conservation in the functional make up of proteomes across superkingdoms.	the functional repertoire of a cell is largely embodied in its proteome, the collection of proteins encoded in the genome of an organism. the molecular functions of proteins are the direct consequence of their structure and structure can be inferred from sequence using hidden markov models of structural recognition. here we analyze the functional annotation of protein domain structures in almost a thousand sequenced genomes, exploring the functional and structural diversity of proteomes. we find ...	2011	24710297
rapid identification of acinetobacter spp. by fluorescence in situ hybridization (fish) from colony and blood culture material.	multi-drug-resistant strains of the acinetobacter baumannii complex cause nosocomial infections. rapid identification of acinetobacter spp. is desirable in order to facilitate therapeutic or hygiene decisions. we evaluated a newly designed dna probe that can be used under standard conditions in both a microwave oven and a slide chamber for the rapid identification of acinetobacter spp. by fluorescence in situ hybridization (fish). using fish, the new probe correctly identified 81/81 acinetobacte ...	2011	24516735
biological removal of azo and triphenylmethane dyes and toxicity of process by-products.	increasing environmental pollution is connected with broad applications of dyes and imperfection of dyeing technology. decolourization of triphenylmethane brilliant green and disazo evans blue by bacterial and fungal strains and toxicity (phyto- and zootoxicity) of degradation by-products were investigated. influence of incubation method on dyes removal was evaluated (static, semi-static, shaken). dead biomass was used for sorption estimation. toxicity of treated dyes was measured to estimate po ...	2011	22593606
biological removal of azo and triphenylmethane dyes and toxicity of process by-products.	increasing environmental pollution is connected with broad applications of dyes and imperfection of dyeing technology. decolourization of triphenylmethane brilliant green and disazo evans blue by bacterial and fungal strains and toxicity (phyto- and zootoxicity) of degradation by-products were investigated. influence of incubation method on dyes removal was evaluated (static, semi-static, shaken). dead biomass was used for sorption estimation. toxicity of treated dyes was measured to estimate po ...	2011	22593606
clinical characteristics and prognosis of acute bacterial meningitis in elderly patients over 65: a hospital-based study.	to examine the clinical characteristics of bacterial meningitis in elderly patients.	2011	22204457
decontamination of mda reagents for single cell whole genome amplification.	single cell genomics is a powerful and increasingly popular tool for studying the genetic make-up of uncultured microbes. a key challenge for successful single cell sequencing and analysis is the removal of exogenous dna from whole genome amplification reagents. we found that uv irradiation of the multiple displacement amplification (mda) reagents, including the phi29 polymerase and random hexamer primers, effectively eliminates the amplification of contaminating dna. the methodology is quick, s ...	2011	22028825
potent antibacterial antisense peptide-peptide nucleic acid conjugates against pseudomonas aeruginosa.	pseudomonas aeruginosa is an opportunistic pathogen causing severe infections in hospital settings, especially with immune compromised patients, and the increasing prevalence of multidrug resistant strains urges search for new drugs with novel mechanisms of action. in this study we introduce antisense peptide-peptide nucleic acid (pna) conjugates as antibacterial agents against p. aeruginosa. we have designed and optimized antisense peptide-pna conjugates targeting the translation initiation reg ...	2012	23030590
fatty acid biosynthesis in pseudomonas aeruginosa is initiated by the faby class of β-ketoacyl acyl carrier protein synthases.	the prototypical type ii fatty acid synthesis (fas) pathway in bacteria utilizes two distinct classes of β-ketoacyl synthase (kas) domains to assemble long-chain fatty acids, the kasiii domain for initiation and the kasi/ii domain for elongation. the central role of fas in bacterial viability and virulence has stimulated significant effort toward developing kas inhibitors, particularly against the kasiii domain of the β-acetoacetyl-acyl carrier protein (acp) synthase fabh. herein, we show that t ...	2012	22753059
multiple transcription-activating sequences regulate the rsmz regulatory small rna of pseudomonas brassicacearum.	the muts-rpos region is known to be a highly polymorphic segment of the chromosome owing to horizontal gene transfer and evolutionary processes. in pseudomonas, muts-fdxa-rsmz-rpos organization is highly conserved, as well as the promoter region of the rsmz small rna (srna)-encoding gene. one exception to this conservation is in pseudomonas brassicacearum, where a 308-nucleotide (nt) sequence, predicted to form a hairpin structure in single-stranded dna (ssdna), is inserted between the rpos and ...	2012	22773788
membrane vesicle formation as a multiple-stress response mechanism enhances pseudomonas putida dot-t1e cell surface hydrophobicity and biofilm formation.	among the adaptive responses of bacteria to rapid changes in environmental conditions, those of the cell envelope are known to be the most crucial. therefore, several mechanisms with which bacteria change their cell surface and membranes in the presence of different environmental stresses have been elucidated. among these mechanisms, the release of outer membrane vesicles (mv) in gram-negative bacteria has attracted particular research interest because of its involvement in pathogenic processes, ...	2012	22752175
pseudomonas aeruginosa possesses two putative type i signal peptidases, lepb and pa1303, each with distinct roles in physiology and virulence.	type i signal peptidases (spases) cleave signal peptides from proteins during translocation across biological membranes and hence play a vital role in cellular physiology. spase activity is also of fundamental importance to the pathogenesis of infection for many bacteria, including pseudomonas aeruginosa, which utilizes a variety of secreted virulence factors, such as proteases and toxins. p. aeruginosa possesses two noncontiguous spase homologues, lepb (pa0768) and pa1303, which share 43% amino ...	2012	22730125
effect of salt on survival and p-solubilization potential of phosphate solubilizing microorganisms from salt affected soils.	a total of 23 phosphate solubilizing bacteria (psb) and 35 phosphate solubilizing fungi (psf) were isolated from 19 samples of salt affected soils. the ability of 12 selected psb and psf to grow and solubilize tricalcium phosphate in the presence of different concentrations of nacl was examined. among 12 psb, aerococcus sp. strain psbcrg1-1 recorded the highest (12.15) log viable cell count at 0.4 m nacl concentration after 7 days after incubation (dai) and the lowest log cell count (1.39) was r ...	2012	24936136
pseudomonas biofilm matrix composition and niche biology.	biofilms are a predominant form of growth for bacteria in the environment and in the clinic. critical for biofilm development are adherence, proliferation, and dispersion phases. each of these stages includes reinforcement by, or modulation of, the extracellular matrix. pseudomonas aeruginosa has been a model organism for the study of biofilm formation. additionally, other pseudomonas species utilize biofilm formation during plant colonization and environmental persistence. pseudomonads produce ...	2012	22212072
evaluation of the bruker biotyper and vitek ms matrix-assisted laser desorption ionization-time of flight mass spectrometry systems for identification of nonfermenting gram-negative bacilli isolated from cultures from cystic fibrosis patients.	the bruker biotyper and vitek ms matrix-assisted laser desorption ionization-time of flight (maldi-tof) mass spectrometry (ms) instruments were evaluated for the identification of nonfermenting gram-negative bacilli (nfgnb) by a blinded comparison to conventional biochemical or molecular methods. two hundred nfgnb that were recovered from cultures from cystic fibrosis patients in the university of iowa health care (uihc) microbiology laboratory between 1 january 2006 and 31 october 2010 were sen ...	2012	22495566
characterization of bacteria in ballast water using maldi-tof mass spectrometry.	to evaluate a rapid and cost-effective method for monitoring bacteria in ballast water, several marine bacterial isolates were characterized by matrix-assisted laser desorption ionization-time of flight mass spectrometry (maldi-tof ms). since international maritime organization (imo) regulations are concerned with the unintended transportation of pathogenic bacteria through ballast water, emphasis was placed on detecting species of vibrio, enterococci and coliforms. seawater samples collected fr ...	2012	22685576
ethanolamine utilization in vibrio alginolyticus.	ethanolamine is used as an energy source by phylogenetically diverse bacteria including pathogens, by the concerted action of proteins from the eut-operon. previous studies have revealed the presence of eutbc genes encoding ethanolamine-ammonia lyase, a key enzyme that breaks ethanolamine into acetaldehyde and ammonia, in about 100 bacterial genomes including members of gamma-proteobacteria. however, ethanolamine utilization has not been reported for any member of the vibrio genus. our comparati ...	2012	23234435
genes that influence swarming motility and biofilm formation in variovorax paradoxus eps.	variovorax paradoxus is an aerobic soil bacterium associated with important biodegradative processes in nature. we use v. paradoxus eps to study multicellular behaviors on surfaces.	2012	22363744
characterization of a novel subgroup of extracellular medium-chain-length polyhydroxyalkanoate depolymerases from actinobacteria.	nineteen medium-chain-length (mcl) poly(3-hydroxyalkanoate) (pha)-degrading microorganisms were isolated from natural sources. from them, seven gram-positive and three gram-negative bacteria were identified. the ability of these microorganisms to hydrolyze other biodegradable plastics, such as short-chain-length (scl) pha, poly(ε-caprolactone) (pcl), poly(ethylene succinate) (pes), and poly(l-lactide) (pla), has been studied. on the basis of the great ability to degrade different polyesters, str ...	2012	22865072
induction of drought tolerance in cucumber plants by a consortium of three plant growth-promoting rhizobacterium strains.	our previous work showed that a consortium of three plant growth-promoting rhizobacterium (pgpr) strains (bacillus cereus ar156, bacillus subtilis sm21, and serratia sp. xy21), termed as bbs for short, was a promising biocontrol agent. the present study investigated its effect on drought tolerance in cucumber plants. after withholding watering for 13 days, bbs-treated cucumber plants had much darker green leaves and substantially lighter wilt symptoms than control plants. compared to the control ...	2012	23285089
genome sequence of pseudomonas mendocina dlhk, isolated from a biotrickling reactor.	pseudomonas mendocina dlhk is an aerobic bacterium isolated from a biotrickling reactor which can remove nitric oxide, a common air pollutant from combustion exhaust gas. here, we present the draft genome of pseudomonas mendocina dlhk.	2012	23105066
heavy-metal resistance of a france vineyard soil bacterium, pseudomonas mendocina strain s5.2, revealed by whole-genome sequencing.	here we present the draft genome of pseudomonas mendocina strain s5.2, possessing tolerance to a high concentration of copper. in addition to being copper resistant, the genome of p. mendocina strain s5.2 contains a number of heavy-metal-resistant genes known to confer resistance to multiple heavy-metal ions.	2012	23105092
microbial community structure at different fermentation stages of kutajarista, a herbal formulation.	kutajarista is an ayurvedic fermented herbal formulation prescribed for gastrointestinal disorders. this herbal formulation undergoes a gradual fermentative process and takes around 2 months for production. in this study, microbial composition at initial stages of fermentation of kutajarista was assessed by culture independent 16s rrna gene clone library approach. physicochemical changes were also compared at these stages of fermentation. high performance liquid chromatography-mass spectrometry ...	2012	24426073
microbial community structure at different fermentation stages of kutajarista, a herbal formulation.	kutajarista is an ayurvedic fermented herbal formulation prescribed for gastrointestinal disorders. this herbal formulation undergoes a gradual fermentative process and takes around 2 months for production. in this study, microbial composition at initial stages of fermentation of kutajarista was assessed by culture independent 16s rrna gene clone library approach. physicochemical changes were also compared at these stages of fermentation. high performance liquid chromatography-mass spectrometry ...	2012	24426073
panning of a phage display library against a synthetic capsule for peptide ligands that bind to the native capsule of bacillus anthracis.	bacillus anthracis is the causative agent of anthrax with the ability to not only produce a tripartite toxin, but also an enveloping capsule comprised primarily of γ-d-glutamic acid residues. the purpose of this study was to isolate peptide ligands capable of binding to the native capsule of b. anthracis from a commercial phage display peptide library using a synthetic form of the capsule consisting of 12 γ-d-glutamic acid residues. following four rounds of selection, 80 clones were selected ran ...	2012	23029033
abrolhos bank reef health evaluated by means of water quality, microbial diversity, benthic cover, and fish biomass data.	the health of the coral reefs of the abrolhos bank (southwestern atlantic) was characterized with a holistic approach using measurements of four ecosystem components: (i) inorganic and organic nutrient concentrations, [1] fish biomass, [1] macroalgal and coral cover and (iv) microbial community composition and abundance. the possible benefits of protection from fishing were particularly evaluated by comparing sites with varying levels of protection. two reefs within the well-enforced no-take are ...	2012	22679480
screening and characterization of a novel alkaline lipase from acinetobacter calcoaceticus 1-7 isolated from bohai bay in china for detergent formulation.	a novel alkaline lipase-producing strain 1-7 identified as acinetobacter calcoaceticus was isolated from soil samples collected from bohai bay, china, using an olive oil alkaline plate, which contained olive oil as the sole carbon source. the lipase from strain 1-7 showed the maximum activity at ph 9.0 under 40 °c. one interesting feature of this enzyme is that it exhibits lipase activity over a broad range of temperatures and good stability. it is also stable at a broad range of phs from 4.0 to ...	2012	24031813
lactate utilization is regulated by the fadr-type regulator lldr in pseudomonas aeruginosa.	nad-independent l-lactate dehydrogenase (l-ildh) and nad-independent d-lactate dehydrogenase (d-ildh) activities are induced coordinately by either enantiomer of lactate in pseudomonas strains. inspection of the genomic sequences of different pseudomonas strains revealed that the lldpde operon comprises 3 genes, lldp (encoding a lactate permease), lldd (encoding an l-ildh), and llde (encoding a d-ildh). cotranscription of lldp, lldd, and llde in pseudomonas aeruginosa strain xmg starts with the ...	2012	22408166
comparative genomics reveals adaptation by alteromonas sp. sn2 to marine tidal-flat conditions: cold tolerance and aromatic hydrocarbon metabolism.	alteromonas species are globally distributed copiotrophic bacteria in marine habitats. among these, sea-tidal flats are distinctive: undergoing seasonal temperature and oxygen-tension changes, plus periodic exposure to petroleum hydrocarbons. strain sn2 of the genus alteromonas was isolated from hydrocarbon-contaminated sea-tidal flat sediment and has been shown to metabolize aromatic hydrocarbons there. strain sn2's genomic features were analyzed bioinformatically and compared to those of alter ...	2012	22563400
dissociation of immune responses from pathogen colonization supports pattern recognition in c. elegans.	caenorhabditis elegans has been used for over a decade to characterize signaling cascades controlling innate immune responses. however, what initiates these responses in the worm has remained elusive. to gain a better understanding of the initiating events we delineated genome-wide immune responses to the bacterial pathogen pseudomonas aeruginosa in worms heavily-colonized by the pathogen versus worms visibly not colonized. we found that infection responses in both groups were identical, suggest ...	2012	22514739
involvement of two latex-clearing proteins during rubber degradation and insights into the subsequent degradation pathway revealed by the genome sequence of gordonia polyisoprenivorans strain vh2.	the increasing production of synthetic and natural poly(cis-1,4-isoprene) rubber leads to huge challenges in waste management. only a few bacteria are known to degrade rubber, and little is known about the mechanism of microbial rubber degradation. the genome of gordonia polyisoprenivorans strain vh2, which is one of the most effective rubber-degrading bacteria, was sequenced and annotated to elucidate the degradation pathway and other features of this actinomycete. the genome consists of a circ ...	2012	22327575
characterization of esterase a, a pseudomonas stutzeri a15 autotransporter.	autotransporters are a widespread family of proteins, generally known as virulence factors produced by gram-negative bacteria. in this study, the esterase a (esta) autotransporter of the rice root-colonizing beneficial bacterium pseudomonas stutzeri a15 was characterized. a multiple sequence alignment identified esta as belonging to clade ii of the gdsl esterase family. autologous overexpression allowed the investigation of several features of both autotransporter proteins and gdsl esterases. fi ...	2012	22307303
novel, highly specific n-demethylases enable bacteria to live on caffeine and related purine alkaloids.	the molecular basis for the ability of bacteria to live on caffeine as a sole carbon and nitrogen source is unknown. pseudomonas putida cbb5, which grows on several purine alkaloids, metabolizes caffeine and related methylxanthines via sequential n-demethylation to xanthine. metabolism of caffeine by cbb5 was previously attributed to one broad-specificity methylxanthine n-demethylase composed of two subunits, ndma and ndmb. here, we report that ndma and ndmb are actually two independent rieske n ...	2012	22328667
engineering non-heme mono- and dioxygenases for biocatalysis.	oxygenases are ubiquitous enzymes that catalyze the introduction of one or two oxygen atoms to unreactive chemical compounds. they require reduction equivalents from nadh or nadph and comprise metal ions, metal ion complexes, or coenzymes in their active site. thus, for industrial purposes, oxygenases are most commonly employed using whole cell catalysis, to alleviate the need for co-factor regeneration. biotechnological applications include bioremediation, chiral synthesis, biosensors, fine che ...	2012	24688652
multidrug-resistance and toxic metal tolerance of medically important bacteria isolated from an aquaculture system.	the use of antimicrobials and toxic metals should be considered carefully in aquaculture and surrounding environments. we aimed to evaluate medically relevant bacteria in an aquaculture system and their susceptibility to antimicrobials and toxic metals. selective cultures for enterobacteria (ent), non-fermenting gram-negative rods (nfr) and gram-positive cocci (gpc) were obtained from water samples collected in two different year seasons. the isolated bacteria were biochemically identified and a ...	2012	22972388
distribution and properties of the genes encoding the biosynthesis of the bacterial cofactor, pyrroloquinoline quinone.	pyrroloquinoline quinone (pqq) is a small, redox active molecule that serves as a cofactor for several bacterial dehydrogenases, introducing pathways for carbon utilization that confer a growth advantage. early studies had implicated a ribosomally translated peptide as the substrate for pqq production. this study presents a sequence- and structure-based analysis of the components of the pqq operon. we find the necessary components for pqq production are present in 126 prokaryotes, most of which ...	2012	22324760
glioblastoma multiforme: novel therapeutic approaches.	the current therapy for glioblastoma multiforme involves total surgical resection followed by combination of radiation therapy and temozolomide. unfortunately, the efficacy for such current therapy is limited, and newer approaches are sorely needed to treat this deadly disease. we have recently described the isolation of bacterial proteins and peptides with anticancer activity. in phase i human clinical trials, one such peptide, p28, derived from a bacterial protein azurin, showed partial and co ...	2012	22462021
milk microbiome signatures of subclinical mastitis-affected cattle analysed by shotgun sequencing.	metagenomic analysis of milk samples collected from kankrej, gir (bos indicus) and crossbred (bos taurus × b. indicus) cattle harbouring subclinical mastitis was carried out by next-generation sequencing 454 gs-flx technology to elucidate the microbial community structure of cattle milk.	2012	22277077
ligational behavior of schiff bases towards transition metal ion and metalation effect on their antibacterial activity.	new schiff bases pyrazine-2-carboxylicacid (phenyl-pyridin-2-yl-methylene)-hydrazide (hpch-bp) hl(1) and pyrazine-2-carboxylicacid (pyridin-2-ylmethylene)-hydrazide (hpch-pc) hl(2) derived from condensation of pyrazine carboxylic hydrazide (hpch) with 2-benzoyl pyridine (bp) or pyridine 2-carbaldehyde (pc) and their transition metal complexes of type ml((1-2)2) have been synthesized, where m=mn(ii), co(ii), ni(ii), cu(ii) and zn(ii). characterization of ligands and their metal complexes was carr ...	2012	22813991
characterization of pseudomonas mendocina lr capable of removing nitrogen from various nitrogen-contaminated water samples when cultivated with cyperus alternifolius l.	a new strain of denitrifying bacterium, pseudomonas mendocina lr, was isolated from rhizosphere soil of aquatic plants living in a river contaminated with industrial wastewater and domestic sewage. the isolate was found to fully remove as much as 613.2 mg nitrate in 60 h under stationary culture conditions. the effects of carbon sources and nitrogen sources on nitrogen removal were investigated using a modified denitrification medium (dm). sodium citrate was identified as the most effective sour ...	2012	22633966
augmented production of alginate oligosaccharides by the pseudomonas mendocina nk-01 mutant.	pseudomonas mendocina nk-01 can simultaneously synthesize medium-chain-length polyhydroxyalkanoate (pha(mcl)) and alginate oligosaccharides (ao) from glucose under conditions of limited nitrogen. in this study, the pha(mcl) synthesis pathway was blocked by a deletion of approximately 57% of the sequence of pha synthase operon mediated by the suicide plasmid, pex18tcc1zc2amp. deletion of the pha synthase operon in p. mendocina nk-01 was confirmed by polymerase chain reaction (pcr) and antibiotic ...	2012	22429775
characteristics of an aerobic denitrifier that utilizes ammonium and nitrate simultaneously under the oligotrophic niche.	an aerobic denitrifier was isolated from the hua-jia-chi pond in china and identified as pseudomonas mendocina 3-7 (genbank no. hq285879). this isolated strain could express periplasmic nitrate reductase which is essential for aerobic denitrification occurred when the dissolved oxygen (do) level maintains at 3-10 mg l(-1).	2012	22392687
[screening, denitrification characteristics, and anaerobic ammonium oxidation ability of denitrifying bacterium ahd7].	a highly efficient denitrifying bacterium ahd7 was screened from activated sludge. after static culture at 30 degrees c for 3 days, the denitrification rate of the ahd7 reached 91.7%, and during denitrification, nitrite had lower accumulation, with its concentration basically maintained at 1.8 mg x l(-1). the microscopy observation demonstrated that the ahd7 was a gram-negative bacillus, with an average size of 0.5 microm x (1.5-2.5) microm. based on its biochemical/morphological characteristics ...	2012	23431796
bactquant: an enhanced broad-coverage bacterial quantitative real-time pcr assay.	bacterial load quantification is a critical component of bacterial community analysis, but a culture-independent method capable of detecting and quantifying diverse bacteria is needed. based on our analysis of a diverse collection of 16 s rrna gene sequences, we designed a broad-coverage quantitative real-time pcr (qpcr) assay--bactquant--for quantifying 16 s rrna gene copy number and estimating bacterial load. we further utilized in silico evaluation to complement laboratory-based qpcr characte ...	2012	22510143
comparison of pcr/electron spray ionization-time-of-flight-mass spectrometry versus traditional clinical microbiology for active surveillance of organisms contaminating high-use surfaces in a burn intensive care unit, an orthopedic ward and healthcare workers.	understanding nosocomial pathogen transmission is restricted by culture limitations. novel platforms, such as pcr-based electron spray ionization-time-of-flight-mass spectrometry (esi-tof-ms), may be useful as investigational tools.	2012	23050585
functional genes to assess nitrogen cycling and aromatic hydrocarbon degradation: primers and processing matter.	targeting sequencing to genes involved in key environmental processes, i.e., ecofunctional genes, provides an opportunity to sample nature's gene guilds to greater depth and help link community structure to process-level outcomes. vastly different approaches have been implemented for sequence processing and, ultimately, for taxonomic placement of these gene reads. the overall quality of next generation sequence analysis of functional genes is dependent on multiple steps and assumptions of unknow ...	2013	24062736
comparison of medium-chain-length polyhydroxyalkanoates synthases from pseudomonas mendocina nk-01 with the same substrate specificity.	the medium-chain-length polyhydroxyalkanoate (phamcl) synthase genes phac1 and phac2 of pseudomonas mendocina nk-01 were cloned and inserted into expression plasmid pbbr1mcs-2 to form pbbr1mcs-c1 and pbbr1mcs-c2 which were expressed respectively in the phamcl-negative strain p. mendocina c7 whose phamcl synthesis operon was defined knock out. p. mendocina c7 derivatives p. mendocina c7c1 and c7c2 carrying pbbr1mcs-c1 and pbbr1mcs-c2 respectively were constructed. fermentation and gel permeation ...	2013	23238264
a case of an atypical femoral fracture associated with bacterial biofilm--pathogen or bystander?	we report a case of an 86-year-old woman with an atypical femoral fracture (aff) who was treated with intramedullary nailing followed by lateral femoral plating. she developed a second femoral shaft fracture distal to the intramedullary nail which required a second operation. biopsy of the periosteum overlying the site of the initial proximal aff was sent for pathogen analysis. using the ibis t5000 platform and the bac plate assay, a polymicrobial infection was diagnosed consisting of bifidobact ...	2013	23229469
characterization of the pseudomonas aeruginosa metalloendopeptidase, mep72, a member of the vfr regulon.	pseudomonas aeruginosa vfr (the virulence factor regulator) enhances p. aeruginosa virulence by positively regulating the expression of numerous virulence genes. a previous microarray analysis identified numerous genes positively regulated by vfr in strain pak, including the yet uncharacterized pa2782 and pa2783.	2013	24279383
purification and characterization of two extracellular polyhydroxyalkanoate depolymerases from pseudomonas mendocina.	two polyhydroxyalkanoate depolymerases, phaase i and phaase ii, were purified to homogeneity from the culture supernatant of an effective pha-degrading bacterium, pseudomonas mendocina ds04-t. the molecular masses of phaase i and phaase ii were determined by sds-page as 59.4 and 33.8 kda, respectively. their optimum ph values were 8.5 and 8, respectively. enzymatic activity was optimal at 50 °c. both purified enzymes could degrade phb, phbv, and p(3hb-co-4hb). addition of na(+) and k(+) slightly ...	2013	23881326
a metagenomic study highlights phylogenetic proximity of quorum-quenching and xenobiotic-degrading amidases of the as-family.	quorum-sensing (qs) signals of the n-acylhomoserine lactone (nahl) class are cleaved by quorum-quenching enzymes, collectively named nahlases. here, functional metagenomics allowed the discovery of a novel bacterial nahlase in a rhizosphere that was treated with γ-caprolactone. as revealed by rrs-dgge and rrs-pyrosequencing, this treatment increased the percentage of the nahl-degrading bacteria and strongly biased the structure of the bacterial community, among which azospirillum dominated. amon ...	2013	23762380
a case of unusual gram-negative bacilli septic arthritis in an immunocompetent patient.	the gram-negative bacilli acinetobacter baumannii, burkholderia cepacia, ochrobactrum anthropi, pseudomonas mendocina, ralstonia spp., serratia marcescens and stenotrophomonas maltophilia are ubiquitous environmental organisms of low virulence, and do not usually cause illness in immunocompetent hosts. we report a case of multiple concurrent opportunistic gram-negative bacilli causing septic arthritis in a healthy patient following trauma to the knee. repeated operations, including arthroscopy, ...	2013	24005465
pseudomonas guguanensis sp. nov., a gammaproteobacterium isolated from a hot spring.	an aerobic, gram-stain-negative, rod-shaped bacterium (designated strain cc-g9a(t)), motile by a polar-flagellum, was isolated from a hot spring water sample in taiwan. strain cc-g9a(t) could grow at 20-42 °c, ph 6.0-10.0 and tolerate up to 7% (w/v) nacl. the 16s rrna gene sequence analysis of strain cc-g9a(t) showed pairwise sequence similarity to pseudomonas mendocina lmg 1223(t) (97.7%), pseudomonas alcaligenes atcc 14909(t) (97.8 %), pseudomonas alcaliphila dsm 17744(t) (97.8 %), pseudomonas ...	2013	23918786
characterization of a lipase from a newly isolated pseudomonas sp.	lipases are valuable biocatalysts which are widely used in the detergent, food, dairy and pharmaceutical industries. the aims of the present study included the isolation of a lipase-producer from industrial zones and the partial characterization of the enzyme.	2013	25848516
copper enhanced monooxygenase activity and ft-ir spectroscopic characterisation of biotransformation products in trichloroethylene degrading bacterium: stenotrophomonas maltophilia pm102.	stenotrophomonas maltophilia pm102 (ncbi genbank acc. no. jq797560) is capable of growth on trichloroethylene as the sole carbon source. in this paper, we report the purification and characterisation of oxygenase present in the pm102 isolate. enzyme activity was found to be induced 10.3-fold in presence of 0.7 mm copper with a further increment to 14.96-fold in presence of 0.05 mm nadh. optimum temperature for oxygenase activity was recorded at 36°c. the reported enzyme was found to have enhance ...	2013	24083236
comparative genomic analysis and benzene, toluene, ethylbenzene, and o-, m-, and p-xylene (btex) degradation pathways of pseudoxanthomonas spadix bd-a59.	pseudoxanthomonas spadix bd-a59, isolated from gasoline-contaminated soil, has the ability to degrade all six btex (benzene, toluene, ethylbenzene, and o-, m-, and p-xylene) compounds. the genomic features of strain bd-a59 were analyzed bioinformatically and compared with those of another fully sequenced pseudoxanthomonas strain, p. suwonensis 11-1, which was isolated from cotton waste compost. the genome of strain bd-a59 differed from that of strain 11-1 in many characteristics, including the n ...	2013	23160122
modulation of malaria infection in anopheles gambiae mosquitoes exposed to natural midgut bacteria.	the development of plasmodium falciparum within the anopheles gambiae mosquito relies on complex vector-parasite interactions, however the resident midgut microbiota also plays an important role in mediating parasite infection. in natural conditions, the mosquito microbial flora is diverse, composed of commensal and symbiotic bacteria. we report here the isolation of culturable midgut bacteria from mosquitoes collected in the field in cameroon and their identification based on the 16s rrna gene ...	2013	24324714
molybdate reduction to molybdenum blue by an antarctic bacterium.	a molybdenum-reducing bacterium from antarctica has been isolated. the bacterium converts sodium molybdate or mo⁶⁺ to molybdenum blue (mo-blue). electron donors such as glucose, sucrose, fructose, and lactose supported molybdate reduction. ammonium sulphate was the best nitrogen source for molybdate reduction. optimal conditions for molybdate reduction were between 30 and 50 mm molybdate, between 15 and 20°c, and initial ph between 6.5 and 7.5. the mo-blue produced had a unique absorption spectr ...	2013	24381945
kinetics of molybdenum reduction to molybdenum blue by bacillus sp. strain a.rzi.	molybdenum is very toxic to agricultural animals. mo-reducing bacterium can be used to immobilize soluble molybdenum to insoluble forms, reducing its toxicity in the process. in this work the isolation of a novel molybdate-reducing gram positive bacterium tentatively identified as bacillus sp. strain a.rzi from a metal-contaminated soil is reported. the cellular reduction of molybdate to molybdenum blue occurred optimally at 4 mm phosphate, using 1% (w/v) glucose, 50 mm molybdate, between 28 and ...	2013	24369531
genome sequence analysis indicates that the model eukaryote nematostella vectensis harbors bacterial consorts.	analysis of the genome sequence of the starlet sea anemone, nematostella vectensis, reveals many genes whose products are phylogenetically closer to proteins encoded by bacteria or bacteriophages than to any metazoan homologs. one explanation for such sequence affinities could be that these genes have been horizontally transferred from bacteria to the nematostella lineage. we show, however, that bacterium-like and phage-like genes sequenced by the n. vectensis genome project tend to cluster on s ...	2013	23995941
genome sequence of a strain of the human pathogenic bacterium pseudomonas alcaligenes that caused bloodstream infection.	pseudomonas alcaligenes, a gram-negative aerobic bacterium, is a rare opportunistic human pathogen. here, we report the whole-genome sequence of p. alcaligenes strain mry13-0052, which was isolated from a bloodstream infection in a medical institution in japan and is resistant to antimicrobial agents, including broad-spectrum cephalosporins and monobactams.	2013	24179116
selectively dispersed isotope labeling for protein structure determination by magic angle spinning nmr.	the power of nuclear magnetic resonance spectroscopy derives from its site-specific access to chemical, structural and dynamic information. however, the corresponding multiplicity of interactions can be difficult to tease apart. complimentary approaches involve spectral editing on the one hand and selective isotope substitution on the other. here we present a new "redox" approach to the latter: acetate is chosen as the sole carbon source for the extreme oxidation numbers of its two carbons. cons ...	2013	23990199
naoh-debittering induces changes in bacterial ecology during table olives fermentation.	limited information is available on the impact of the naoh treatment on table olive fermentations, and for this reason a polyphasic approach has been adopted here to investigate its effect on the fermentation dynamics and bacterial biodiversity. the microbial counts of the main groups involved in the transformation have not shown any differences, apart from a more prompt start of the fermentation when the olives were subjected to the naoh treatment. the data produced by culture-independent analy ...	2013	23935928
the clinical isolate pseudomonas aeruginosa mma83 carries two copies of the blandm-1 gene in a novel genetic context.	the genetic context of the blandm-1 gene in the genome of pseudomonas aeruginosa mma83 was investigated. sequencing of the cosmid selected for the blandm-1 gene revealed the presence of two blandm-1 copies in the genome of p. aeruginosa mma83 in a unique genetic environment. additionally, mating assays, dna-dna hybridization, and an s1 nuclease assay strongly suggest that the blandm-1 gene in p. aeruginosa mma83 is chromosome borne.	2013	23612199
diversity of microbial communities in production and injection waters of algerian oilfields revealed by 16s rrna gene amplicon 454 pyrosequencing.	the microorganisms inhabiting many petroleum reservoirs are multi-extremophiles capable of surviving in environments with high temperature, pressure and salinity. their activity influences oil quality and they are an important reservoir of enzymes of industrial interest. to study these microbial assemblages and to assess any modifications that may be caused by industrial practices, the bacterial and archaeal communities in waters from four algerian oilfields were described and compared. three di ...	2013	23805243
discovery of functional toxin/antitoxin systems in bacteria by shotgun cloning.	toxin-antitoxin (ta) modules, composed of a toxic protein and a counteracting antitoxin, play important roles in bacterial physiology. we examined the experimental insertion of 1.5 million genes from 388 microbial genomes into an escherichia coli host using more than 8.5 million random clones. this revealed hundreds of genes (toxins) that could only be cloned when the neighboring gene (antitoxin) was present on the same clone. clustering of these genes revealed ta families widespread in bacteria ...	2013	23478446
draft genome sequence of chromate-resistant and biofilm-producing strain pseudomonas alcaliphila 34.	we report the draft genome sequence of pseudomonas alcaliphila 34, a cr(vi)-hyperresistant and biofilm-producing bacterium that might be used for the bioremediation of chromate-polluted soils. the genome sequence might be helpful in exploring the mechanisms involved in chromium resistance and biofilm formation.	2013	23469336
ferritin and ferrihydrite nanoparticles as iron sources for pseudomonas aeruginosa.	metabolism of iron derived from insoluble and/or scarce sources is essential for pathogenic and environmental microbes. the ability of pseudomonas aeruginosa to acquire iron from exogenous ferritin was assessed; ferritin is an iron-concentrating and antioxidant protein complex composed of a catalytic protein and caged ferrihydrite nanomineral synthesized from fe(ii) and o(2) or h(2)o(2). ferritin and free ferrihydrite supported growth of p. aeruginosa with indistinguishable kinetics and final cu ...	2013	23417538
simultaneous quantification of multiple bacteria by the bactochip microarray designed to target species-specific marker genes.	bacteria are ubiquitous throughout the environment, the most abundant inhabitants of the healthy human microbiome, and causal pathogens in a variety of diseases. their identification in disease is often an essential step in rapid diagnosis and targeted intervention, particularly in clinical settings. at present, clinical bacterial detection and discrimination is primarily culture-based, requiring both time and microbiological expertise, especially for bacteria that are not easily cultivated. hig ...	2013	23409037
proteolysin, a novel highly thermostable and cosolvent-compatible protease from the thermophilic bacterium coprothermobacter proteolyticus.	through genome mining, we identified a gene encoding a putative serine protease of the thermitase subgroup of subtilases (ec 3.4.21.66) in the thermophilic bacterium coprothermobacter proteolyticus. the gene was functionally expressed in escherichia coli, and the enzyme, which we called proteolysin, was purified to near homogeneity from crude cell lysate by a single heat treatment step. proteolysin has a broad ph tolerance and is active at temperatures of up to 80°c. in addition, the enzyme show ...	2013	23851086