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living in an extremely polluted environment: clues from the genome of melanin-producing aeromonas salmonicida subsp. pectinolytica 34melt.aeromonas salmonicida subsp. pectinolytica 34mel(t) can be considered an extremophile due to the characteristics of the heavily polluted river from which it was isolated. while four subspecies of a. salmonicida are known fish pathogens, 34mel(t) belongs to the only subspecies isolated solely from the environment. genome analysis revealed a high metabolic versatility, the capability to cope with diverse stress agents, and the lack of several virulence factors found in pathogenic aeromonas. the mo ...201526025898
adhesins involved in attachment to abiotic surfaces by gram-negative bacteria.during the first step of biofilm formation, initial attachment is dictated by physicochemical and electrostatic interactions between the surface and the bacterial envelope. depending on the nature of these interactions, attachment can be transient or permanent. to achieve irreversible attachment, bacterial cells have developed a series of surface adhesins promoting specific or nonspecific adhesion under various environmental conditions. this article reviews the recent advances in our understandi ...201526350310
the relationship between extensively drug-resistant tuberculosis and multidrug-resistant gram-negative bacilli.the relationship between extensively drug-resistant tuberculosis (xdr-tb) and multidrug-resistant gram-negative bacilli (mdr-gnb) is unclear. identification of the relationship between xdr-tb and mdr-gnb would have important implications for patient care.201526230499
microbial source tracking in adjacent karst springs.modern man-made environments, including urban, agricultural, and industrial environments, have complex ecological interactions among themselves and with the natural surroundings. microbial source tracking (mst) offers advanced tools to resolve the host source of fecal contamination beyond indicator monitoring. this study was intended to assess karst spring susceptibilities to different fecal sources using mst quantitative pcr (qpcr) assays targeting human, bovine, and swine markers. it involved ...201526002893
population changes in a community of alkaliphilic iron-reducing bacteria due to changes in the electron acceptor: implications for bioremediation at alkaline cr(vi)-contaminated sites.a serial enrichment culture has been grown in an alkaline fe(iii)-citrate-containing medium from an initial inoculum from a soil layer beneath a chromium ore processing residue (copr) disposal site where cr(iii) is accumulating from cr(vi) containing leachate. this culture is dominated by two bacterial genera in the order clostridiales, tissierella, and an unnamed clostridium xi subgroup. this paper investigates the growth characteristics of the culture when cr(vi) is added to the growth medium ...201525995525
advantages and risks of husbandry and housing changes to improve animal wellbeing in a breeding colony of common marmosets (callithrix jacchus).between 1975 and 2014, housing conditions for laboratory-housed marmosets changed dramatically after the introduction of new guidelines designed to improve their care and wellbeing. according to these guidelines, our facility provided marmosets with outside enclosures, switched to deep litter as bedding material, and discontinued the use of disinfectant agents in animal enclosures. however, both deep litter and access to outside enclosures hypothetically increase the risk of potential exposure t ...201526045452
low serum neutrophil gelatinase-associated lipocalin level as a marker of malnutrition in maintenance hemodialysis patients.neutrophil gelatinase-associated lipocalin (ngal or lcn2) is an iron-transporting factor which possesses various activities such as amelioration of kidney injury and host defense against pathogens. its circulating concentrations are elevated in acute and chronic kidney diseases and show a positive correlation with poor renal outcome and mortality, but its clinical significance in maintenance hemodialysis (hd) patients remains elusive.201526161663
multiplex detection of nine food-borne pathogens by mpcr and capillary electrophoresis after using a universal pre-enrichment medium.routine microbiological quality analyses in food samples require, in some cases, an initial incubation in pre-enrichment medium. this is necessary in order to ensure that small amounts of pathogenic strains are going to be detected. in this work, a universal pre-enrichment medium has been developed for the simultaneous growth of bacillus cereus, campylobacter jejuni, clostridium perfringens, cronobacter sakazakii, escherichia coli, enterobacteriaceae family (38 species, 27 genera), listeria mono ...201526579100
mining the phytomicrobiome to understand how bacterial coinoculations enhance plant growth.in previous work, we showed that coinoculating rhizobium leguminosarum bv. viciae 128c53 and bacillus simplex 30n-5 onto pisum sativum l. roots resulted in better nodulation and increased plant growth. we now expand this research to include another alpha-rhizobial species as well as a beta-rhizobium, burkholderia tuberum stm678. we first determined whether the rhizobia were compatible with b. simplex 30n-5 by cross-streaking experiments, and then medicago truncatula and melilotus alba were coino ...201526442090
oviposition responses of aedes mosquitoes to bacterial isolates from attractive bamboo infusions.the mosquitoes aedes aegypti and aedes albopictus are vectors of pathogenic viruses that cause major human illnesses including dengue, yellow fever and chikungunya. both mosquito species are expanding their geographic distributions and now occur worldwide in temperate and tropical climates. collection of eggs in oviposition traps (ovitraps) is commonly used for monitoring and surveillance of container-inhabiting aedes populations by public health agencies charged with managing mosquito-transmitt ...201526399712
plant-based culture media: efficiently support culturing rhizobacteria and correctly mirror their in-situ diversity.our previous publications and the data presented here provide evidences on the ability of plant-based culture media to optimize the cultivability of rhizobacteria and to support their recovery from plant-soil environments. compared to the tested chemically-synthetic culture media (e.g. nutrient agar and n-deficient combined-carbon sources media), slurry homogenates, crude saps, juices and powders of cactus (opuntia ficus-indica) and succulent plants (aloe vera and aloe arborescens) were rich eno ...201526966571
plant-based culture media: efficiently support culturing rhizobacteria and correctly mirror their in-situ diversity.our previous publications and the data presented here provide evidences on the ability of plant-based culture media to optimize the cultivability of rhizobacteria and to support their recovery from plant-soil environments. compared to the tested chemically-synthetic culture media (e.g. nutrient agar and n-deficient combined-carbon sources media), slurry homogenates, crude saps, juices and powders of cactus (opuntia ficus-indica) and succulent plants (aloe vera and aloe arborescens) were rich eno ...201526966571
influence of rhizobacterial volatiles on the root system architecture and the production and allocation of biomass in the model grass brachypodium distachyon (l.) p. beauv.plant growth-promoting rhizobacteria are increasingly being seen as a way of complementing conventional inputs in agricultural systems. the effects on their host plants are diverse and include volatile-mediated growth enhancement. this study sought to assess the effects of bacterial volatiles on the biomass production and root system architecture of the model grass brachypodium distachyon (l.) beauv.201526264238
effect of iaa on in vitro growth and colonization of nostoc in plant roots.nostoc is widely known for its ability to fix atmospheric nitrogen and the establishment of symbiotic relationship with a wide range of plants from various taxonomic groups. several strains of nostoc produce phytohormones that promote growth of its plant partners. nostoc os-1 was therefore selected for study because of the presence of putative ipdc gene that encodes a key enzyme to produce indole-3-acetic acid (iaa). the results indicated that both cellular and released iaa was found high with i ...201525699072
metabolic network modeling of microbial communities.genome-scale metabolic network reconstructions and constraint-based analyses are powerful methods that have the potential to make functional predictions about microbial communities. genome-scale metabolic networks are used to characterize the metabolic functions of microbial communities via several techniques including species compartmentalization, separating species-level and community-level objectives, dynamic analysis, the 'enzyme-soup' approach, multiscale modeling, and others. there are man ...201526109480
epidemiology of neonatal sepsis and implicated pathogens: a study from egypt.prospective analytic study was conducted in nicus of three egyptian neonatal network (egnn) participants in mansoura hospitals in egypt over a period of 18 months from march 2011 to august 2012. by using egnn 28-day discharge form, all demographic, clinical, and laboratory data were recorded and studied. during the study period, 357 neonates were diagnosed as suspected sepsis with an incidence of 45.9% (357/778) among the admitted neonates at the three neonatal intensive care units. 344 neonates ...201526146621
mesaconase/fumarase fumd in escherichia coli o157:h7 and promiscuity of escherichia coli class i fumarases fuma and fumb.mesaconase catalyzes the hydration of mesaconate (methylfumarate) to (s)-citramalate. the enzyme participates in the methylaspartate pathway of glutamate fermentation as well as in the metabolism of various c5-dicarboxylic acids such as mesaconate or l-threo-β-methylmalate. we have recently shown that burkholderia xenovorans uses a promiscuous class i fumarase to catalyze this reaction in the course of mesaconate utilization. here we show that classical escherichia coli class i fumarases a and b ...201526658641
the challenge of efflux-mediated antibiotic resistance in gram-negative bacteria.the global emergence of multidrug-resistant gram-negative bacteria is a growing threat to antibiotic therapy. the chromosomally encoded drug efflux mechanisms that are ubiquitous in these bacteria greatly contribute to antibiotic resistance and present a major challenge for antibiotic development. multidrug pumps, particularly those represented by the clinically relevant acrab-tolc and mex pumps of the resistance-nodulation-division (rnd) superfamily, not only mediate intrinsic and acquired mult ...201525788514
tick-borne infections in human and animal population worldwide.the abundance and activity of ectoparasites and its hosts are affected by various abiotic factors, such as climate and other organisms (predators, pathogens and competitors) presenting thus multiples forms of association (obligate to facultative, permanent to intermittent and superficial to subcutaneous) developed during long co-evolving processes. ticks are ectoparasites widespread globally and its eco epidemiology are closely related to the environmental conditions. they are obligatory hematop ...201527047089
innate and adaptive humoral responses coat distinct commensal bacteria with immunoglobulin a.immunoglobulin a (iga) is prominently secreted at mucosal surfaces and coats a fraction of the intestinal microbiota. however, the commensal bacteria bound by iga are poorly characterized and the type of humoral immunity they elicit remains elusive. we used bacterial flow cytometry coupled with 16s rrna gene sequencing (iga-seq) in murine models of immunodeficiency to identify iga-bound bacteria and elucidate mechanisms of commensal iga targeting. we found that residence in the small intestine, ...201526320660
biofilm models of polymicrobial infection.interactions between microbes are complex and play an important role in the pathogenesis of infections. these interactions can range from fierce competition for nutrients and niches to highly evolved cooperative mechanisms between different species that support their mutual growth. an increasing appreciation for these interactions, and desire to uncover the mechanisms that govern them, has resulted in a shift from monomicrobial to polymicrobial biofilm studies in different disease models. here w ...201526592098
long-term evaluation of the antimicrobial susceptibility and microbial profile of subgingival biofilms in individuals with aggressive periodontitis.this study evaluates the antimicrobial susceptibility and composition of subgingival biofilms in generalized aggressive periodontitis (gap) patients treated using mechanical/antimicrobial therapies, including chlorhexidine (chx), amoxicillin (amx) and metronidazole (met). gap patients allocated to the placebo (c, n = 15) or test group (t, n = 16) received full-mouth disinfection with chx, scaling and root planning, and systemic amx (500 mg)/met (250 mg) or placebos. subgingival plaque samples we ...201526273264
intrastrand triplex dna repeats in bacteria: a source of genomic instability.repetitive nucleic acid sequences are often prone to form secondary structures distinct from b-dna. prominent examples of such structures are dna triplexes. we observed that certain intrastrand triplex motifs are highly conserved and abundant in prokaryotic genomes. a systematic search of 5246 different prokaryotic plasmids and genomes for intrastrand triplex motifs was conducted and the results summarized in the itxf database available online at http://bioinformatics.uni-konstanz.de/utils/itxf/ ...201526450966
genome-wide gene order distances support clustering the gram-positive bacteria.initially using 143 genomes, we developed a method for calculating the pair-wise distance between prokaryotic genomes using a monte carlo method to estimate the conservation of gene order. the method was based on repeatedly selecting five or six non-adjacent random orthologs from each of two genomes and determining if the chosen orthologs were in the same order. the raw distances were then corrected for gene order convergence using an adaptation of the jukes-cantor model, as well as using the co ...201525653643
genome-wide gene order distances support clustering the gram-positive bacteria.initially using 143 genomes, we developed a method for calculating the pair-wise distance between prokaryotic genomes using a monte carlo method to estimate the conservation of gene order. the method was based on repeatedly selecting five or six non-adjacent random orthologs from each of two genomes and determining if the chosen orthologs were in the same order. the raw distances were then corrected for gene order convergence using an adaptation of the jukes-cantor model, as well as using the co ...201525653643
the initial state of the human gut microbiome determines its reshaping by antibiotics.microbiome studies have demonstrated the high inter-individual diversity of the gut microbiota. however, how the initial composition of the microbiome affects the impact of antibiotics on microbial communities is relatively unexplored. to specifically address this question, we administered a second-generation cephalosporin, cefprozil, to healthy volunteers. stool samples gathered before antibiotic exposure, at the end of the treatment and 3 months later were analysed using shotgun metagenomic se ...201526359913
the initial state of the human gut microbiome determines its reshaping by antibiotics.microbiome studies have demonstrated the high inter-individual diversity of the gut microbiota. however, how the initial composition of the microbiome affects the impact of antibiotics on microbial communities is relatively unexplored. to specifically address this question, we administered a second-generation cephalosporin, cefprozil, to healthy volunteers. stool samples gathered before antibiotic exposure, at the end of the treatment and 3 months later were analysed using shotgun metagenomic se ...201526359913
root-associated bacterial endophytes from ralstonia solanacearum resistant and susceptible tomato cultivars and their pathogen antagonistic effects.this study was undertaken to assess if the root-associated native bacterial endophytes in tomato have any bearing in governing the host resistance to the wilt pathogen ralstonia solanacearum. internal colonization of roots by bacterial endophytes was confirmed through confocal imaging after syto-9 staining. endophytes were isolated from surface-sterilized roots of 4-weeks-old seedlings of known wilt resistant (r) tomato cultivar arka abha and susceptible (s) cv. arka vikas on nutrient agar after ...201525926818
characterization of pkp-m1144, a novel cole1-like plasmid encoding imp-8, ges-5, and bel-1 β-lactamases, from a klebsiella pneumoniae sequence type 252 isolate.imp-8 metallo-β-lactamase was identified in klebsiella pneumoniae sequence type 252 (st252), isolated in a portuguese hospital in 2009. blaimp-8 was the first gene cassette of a novel class 3 integron, in1144, also carrying the blages-5, blabel-1, and aaca4 cassettes. in1144 was located on a cole1-like plasmid, pkp-m1144 (12,029 bp), with a replication region of limited nucleotide similarity to those of other rna-priming plasmids, such as pjhcmw1. in1144 and pkp-m1144 represent an interesting ca ...201526033721
diagnostic value of bronchoalveolar lavage in leukemic and bone marrow transplant patients: the impact of antimicrobial therapy.there is significant morbidity and mortality from pneumonia in leukemic and bone marrow transplant patients. we sought to explore the diagnostic yield of bronchoalveolar lavage (bal) in these patients with new pulmonary infiltrates. a retrospective chart review of approximately 200 non- human immunodeficiency virus (hiv) leukemic and hematopoietic stem cell transplantation (hsct) patients who underwent bronchoscopy at a single academic cancer center was performed. antimicrobial use for less than ...201525574361
persistence of nasal colonization with human pathogenic bacteria and associated antimicrobial resistance in the german general population.the nares represent an important bacterial reservoir for endogenous infections. this study aimed to assess the prevalence of nasal colonization by different important pathogens, the associated antimicrobial susceptibility and risk factors. we performed a prospective cohort study among 1878 nonhospitalized volunteers recruited from the general population in germany. participants provided nasal swabs at three time points (each separated by 4-6 months). staphylococcus aureus, enterobacteriaceae and ...201526862431
persistence of nasal colonization with human pathogenic bacteria and associated antimicrobial resistance in the german general population.the nares represent an important bacterial reservoir for endogenous infections. this study aimed to assess the prevalence of nasal colonization by different important pathogens, the associated antimicrobial susceptibility and risk factors. we performed a prospective cohort study among 1878 nonhospitalized volunteers recruited from the general population in germany. participants provided nasal swabs at three time points (each separated by 4-6 months). staphylococcus aureus, enterobacteriaceae and ...201526862431
bacterial colonies in solid media and foods: a review on their growth and interactions with the micro-environment.bacteria, either indigenous or added, are immobilized in solid foods where they grow as colonies. since the 80's, relatively few research groups have explored the implications of bacteria growing as colonies and mostly focused on pathogens in large colonies on agar/gelatine media. it is only recently that high resolution imaging techniques and biophysical characterization techniques increased the understanding of the growth of bacterial colonies, for different sizes of colonies, at the microscop ...201526648910
evaluation of an inexpensive growth medium for direct detection of escherichia coli in temperate and sub-tropical waters.the cost and complexity of traditional methods for the detection of faecal indicator bacteria, including e. coli, hinder widespread monitoring of drinking water quality, especially in low-income countries and outside controlled laboratory settings. in these settings the problem is exacerbated by the lack of inexpensive media for the detection of e. coli in drinking water. we developed a new low-cost growth medium, aquatest (at), and validated its use for the direct detection of e. coli in temper ...201526495983
contact-dependent growth inhibition (cdi) and cdib/cdia two-partner secretion proteins.bacteria have developed several strategies to communicate and compete with one another in complex environments. one important mechanism of inter-bacterial competition is contact-dependent growth inhibition (cdi), in which gram-negative bacteria use cdib/cdia two-partner secretion proteins to suppress the growth of neighboring target cells. cdib is an omp85 outer-membrane protein that exports and assembles cdia exoproteins onto the inhibitor cell surface. cdia binds to receptors on susceptible ba ...201526388411
antibacterial effects of cinnamon: from farm to food, cosmetic and pharmaceutical industries.herbs and spices have been used since ancient times, because of their antimicrobial properties increasing the safety and shelf life of food products by acting against foodborne pathogens and spoilage bacteria. plants have historically been used in traditional medicine as sources of natural antimicrobial substances for the treatment of infectious disease. therefore, much attention has been paid to medicinal plants as a source of alternative antimicrobial strategies. moreover, due to the growing d ...201526378575
rapidec carba np test for rapid detection of carbapenemase producers.performances of the rapidec carba np test (biomérieux) were evaluated for detection of all types of carbapenemases in enterobacteriaceae, acinetobacter baumannii, and pseudomonas aeruginosa. in less than 2 h after sample preparation, it showed a sensitivity and specificity of 96%. this ready-to-use test is well adapted to the daily need for detection of carbapenemase producers in any laboratory worldwide.201526085619
prevalence of and risk factors for multidrug-resistant acinetobacter baumannii colonization among high-risk nursing home residents.to characterize the epidemiology of multidrug-resistant (mdr) acinetobacter baumannii colonization in high-risk nursing home (nh) residents.201526072936
involvement of aph(3')-iia in the formation of mosaic aminoglycoside resistance genes in natural environments.intragenic recombination leading to mosaic gene formation is known to alter resistance profiles for particular genes and bacterial species. few studies have examined to what extent aminoglycoside resistance genes undergo intragenic recombination. we screened the genbank database for mosaic gene formation in homologs of the aph(3')-iia (nptii) gene. aph(3')-iia inactivates important aminoglycoside antibiotics. the gene is widely used as a selectable marker in biotechnology and enters the environm ...201526042098
intraspecies competition in serratia marcescens is mediated by type vi-secreted rhs effectors and a conserved effector-associated accessory protein.the type vi secretion system (t6ss) is widespread in gram-negative bacteria and can deliver toxic effector proteins into eukaryotic cells or competitor bacteria. antibacterial t6sss are increasingly recognized as key mediators of interbacterial competition and may contribute to the outcome of many polymicrobial infections. multiple antibacterial effectors can be delivered by these systems, with diverse activities against target cells and distinct modes of secretion. polymorphic toxins containing ...201525939831
occurrence of multidrug resistant extended spectrum beta-lactamase-producing bacteria on iceberg lettuce retailed for human consumption.antibiotic resistance in bacteria is a global problem exacerbated by the dissemination of resistant bacteria via uncooked food, such as green leafy vegetables. new strains of bacteria are emerging on a daily basis with novel expanded antibiotic resistance profiles. in this pilot study, we examined the occurrence of antibiotic resistant bacteria against five classes of antibiotics on iceberg lettuce retailed in local convenience stores in rochester, michigan. in this study, 138 morphologically di ...201526064922
ultrastructural study on the morphological changes in indigenous bacteria of mucous layer and chyme throughout the rat intestine.indigenous bacteria in the alimentary tract are exposed to various bactericidal peptides and digestive enzymes, but the viability status and morphological changes of indigenous bacteria are unclear. therefore, the present study aimed to ultrastructurally clarify the degeneration and viability status of indigenous bacteria in the rat intestine. the majority of indigenous bacteria in the ileal mucous layer possessed intact cytoplasm, but the cytoplasm of a few bacteria contained vacuoles. the vacu ...201525890991
identification of nasal colonization with β-lactamase-producing enterobacteriaceae in patients, health care workers and students in madagascar.this study assesses the nasal occurrence of β-lactamase-producing enterobacteriaceae both in patients in a hospital department of infectious diseases at admission and in healthy madagascan students and health care workers. nasal swabs from 681 students, 824 health care workers, and 169 patients were obtained in antananarivo, madagascar, and transferred to germany. screening for β-lactamase (esbl, ampc) producing enterobacteriaceae was performed by cultural and molecular approaches, comprising br ...201525908994
the carbapenem inactivation method (cim), a simple and low-cost alternative for the carba np test to assess phenotypic carbapenemase activity in gram-negative rods.a new phenotypic test, called the carbapenem inactivation method (cim), was developed to detect carbapenemase activity in gram-negative rods within eight hours. this method showed high concordance with results obtained by pcr to detect genes coding for the carbapenemases kpc, ndm, oxa-48, vim, imp and oxa-23. it allows reliable detection of carbapenemase activity encoded by various genes in species of enterobacteriaceae (e.g., klebsiella pneumoniae, escherichia coli and enterobacter cloacae), bu ...201525798828
de novo amino acid biosynthesis contributes to salmonella enterica growth in alfalfa seedling exudates.salmonella enterica is a member of the plant microbiome. growth of s. enterica in sprouting-seed exudates is rapid; however, the active metabolic networks essential in this environment are unknown. to examine the metabolic requirements of s. enterica during growth in sprouting-seed exudates, we inoculated alfalfa seeds and identified 305 s. enterica proteins extracted 24 h postinoculation from planktonic cells. over half the proteins had known metabolic functions, and they are involved in over o ...201525416761
sweetgum: an ancient source of beneficial compounds with modern benefits.sweetgum trees are large, deciduous trees found in asia and north america. sweetgum trees are important resources for medicinal and other beneficial compounds. many of the medicinal properties of sweetgum are derived from the resinous sap that exudes when the outer bark of the tree has been damaged. the sap, known as storax, has been used for centuries to treat common ailments such as skin problems, coughs, and ulcers. more recently, storax has proven to be a strong antimicrobial agent even agai ...201526009686
rapid bursts and slow declines: on the possible evolutionary trajectories of enzymes.the evolution of enzymes is often viewed as following a smooth and steady trajectory, from barely functional primordial catalysts to the highly active and specific enzymes that we observe today. in this review, we summarize experimental data that suggest a different reality. modern examples, such as the emergence of enzymes that hydrolyse human-made pesticides, demonstrate that evolution can be extraordinarily rapid. experiments to infer and resurrect ancient sequences suggest that some of the f ...201525926697
inhibition of the growth of bacillus subtilis dsm10 by a newly discovered antibacterial protein from the soil metagenome.a functional metagenomics based approach exploiting the microbiota of suppressive soils from an organic field site has succeeded in the identification of a clone with the ability to inhibit the growth of bacillus subtilis dsm10. sequencing of the fosmid identified a putative β-lactamase-like gene abgt. transposon mutagenesis of the abgt gene resulted in a loss in ability to inhibit the growth of b. subtilis dsm10. further analysis of the deduced amino acid sequence of abgt revealed moderate homo ...201525692994
structural and mechanistic insights into the pseudomonas fluorescens 2-nitrobenzoate 2-nitroreductase nbaa.the bacterial 2-nitroreductase nbaa is the primary enzyme initiating the degradation of 2-nitrobenzoate (2-nba), and its activity is controlled by posttranslational modifications. to date, the structure of nbaa remains to be elucidated. in this study, the crystal structure of a cys194ala nbaa mutant was determined to a 1.7-å resolution. the substrate analog 2-nba methyl ester was used to decipher the substrate binding site by inhibition of the wild-type nbaa protein. tandem mass spectrometry sho ...201526025888
maldi-tof mass spectrometry: a powerful tool for clinical microbiology at hôpital principal de dakar, senegal (west africa).our team in europe has developed the routine clinical laboratory identification of microorganisms by matrix-assisted laser desorption ionization time-of-flight (maldi-tof) mass spectrometry (ms). to evaluate the utility of maldi-tof ms in tropical africa in collaboration with local teams, we installed an apparatus in the hôpital principal de dakar (senegal), performed routine identification of isolates, and confirmed or completed their identification in france. in the case of discordance or a la ...201526716681
the effect of infection control nurses on the occurrence of pseudomonas aeruginosa healthcare-acquired infection and multidrug-resistant strains in critically-ill children.healthcare-acquired pseudomonas aeruginosa (p. aeruginosa) infections in the pediatric intensive care unit (picu), which have a high incidence, increase treatment costs and mortality, and seriously threaten the safety of critically ill children. it is essential to seek convenient and effective methods to control and prevent healthcare-acquired infections (hais). this research was conducted to study the effect of infection control nurses on the occurrence of p. aeruginosa hais and multi-drug resi ...201526630032
cell wall recycling-linked coregulation of ampc and penb β-lactamases through ampd mutations in burkholderia cenocepacia.in many gram-negative pathogens, mutations in the key cell wall-recycling enzyme ampd (n-acetyl-anhydromuramyl-l-alanine amidase) affect the activity of the regulator ampr, which leads to the expression of ampc β-lactamase, conferring resistance to expanded-spectrum cephalosporin antibiotics. burkholderia cepacia complex (bcc) species also have these amp homologs; however, the regulatory circuitry and the nature of causal ampd mutations remain to be explored. a total of 92 ampd mutants were obta ...201526416862
comparison of serum procalcitonin in respiratory infections and bloodstream infections.this study observed the relationship between procalcitonin (pct) and results of sputum culture, the relationship between pct and results of blood culture to evaluate and compare the value of pct in respiratory and bloodstream infections.201526885109
multicenter evaluation of the bruker maldi biotyper ca system for the identification of clinical aerobic gram-negative bacterial isolates.the prompt and accurate identification of bacterial pathogens is fundamental to patient health and outcome. recent advances in matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (maldi-tof ms) have revolutionized bacterial identification in the clinical laboratory, but uniform incorporation of this technology in the u.s. market has been delayed by a lack of fda-cleared systems. in this study, we conducted a multicenter evaluation of the maldi biotyper ca (mbt-ca) system ...201526529504
pneumonia caused by klebsiella spp. in 46 horses.klebsiella spp. are implicated as a common cause of bacterial pneumonia in horses, but few reports describe clinical presentation and disease progression.201526492860
pneumonia caused by klebsiella spp. in 46 horses.klebsiella spp. are implicated as a common cause of bacterial pneumonia in horses, but few reports describe clinical presentation and disease progression.201526492860
detection of esbl- and ampc-producing e. coli isolates from urinary tract infections.extended-spectrum β-lactamases (esbls) and ampc enzymes have been observed in virtually all species of the family enterobacteriaceae. the β-lactamase producing bacteria cause many serious infections, including urinary tract infections. these enzymes are predominantly plasmid mediated. there are no recommended guidelines for detection of this resistance mechanism and there is a need to address this issue as much as the detection of esbls. this study was undertaken to characterize esbl and ampc pr ...201526605249
pathogen profile and drug resistance analysis of spontaneous peritonitis in cirrhotic patients.to investigate the microbiological characteristics and drug resistance in liver cirrhosis patients with spontaneous peritonitis.201526420967
comparative genomics of non-pseudomonal bacterial species colonising paediatric cystic fibrosis patients.the genetic disorder cystic fibrosis is a life-limiting condition affecting ∼70,000 people worldwide. targeted, early, treatment of the dominant infecting species, pseudomonas aeruginosa, has improved patient outcomes; however, there is concern that other species are now stepping in to take its place. in addition, the necessarily long-term antibiotic therapy received by these patients may be providing a suitable environment for the emergence of antibiotic resistance. to investigate these issues, ...201526401445
determinants of bacteriological outcomes in exacerbations of chronic obstructive pulmonary disease.changes in sputum microbiology following antibiotic treatment of acute exacerbations of chronic obstructive pulmonary disease (aecopd), including patterns of bacteriological relapse and superinfection are not well understood. sputum microbiology at exacerbation is not routinely performed, but pathogen presence and species are determinants of outcomes. therefore, we determined whether baseline clinical factors could predict the presence of bacterial pathogens at exacerbation. bacterial eradicatio ...201526370552
determinants of bacteriological outcomes in exacerbations of chronic obstructive pulmonary disease.changes in sputum microbiology following antibiotic treatment of acute exacerbations of chronic obstructive pulmonary disease (aecopd), including patterns of bacteriological relapse and superinfection are not well understood. sputum microbiology at exacerbation is not routinely performed, but pathogen presence and species are determinants of outcomes. therefore, we determined whether baseline clinical factors could predict the presence of bacterial pathogens at exacerbation. bacterial eradicatio ...201526370552
inhibition of aac(6')-ib-mediated resistance to amikacin in acinetobacter baumannii by an antisense peptide-conjugated 2',4'-bridged nucleic acid-nc-dna hybrid oligomer.multiresistant acinetobacter baumannii, a common etiologic agent of severe nosocomial infections in compromised hosts, usually harbors aac(6')-ib. this gene specifies resistance to amikacin and other aminoglycosides, seriously limiting the effectiveness of these antibiotics. an antisense oligodeoxynucleotide (odn4) that binds to a duplicated sequence on the aac(6')-ib mrna, one of the copies overlapping the initiation codon, efficiently inhibited translation in vitro. an isosequential nuclease-r ...201526169414
meropenem population pharmacokinetics in critically ill patients with septic shock and continuous renal replacement therapy: influence of residual diuresis on dose requirements.meropenem dosing in critically ill patients with septic shock and continuous renal replacement therapy (crrt) is complex, with the recommended maintenance doses being 500 mg to 1,000 mg every 8 h (q8h) to every 12 h. this multicenter study aimed to describe the pharmacokinetics (pks) of meropenem in this population to identify the sources of pk variability and to evaluate different dosing regimens to develop recommendations based on clinical parameters. thirty patients with septic shock and crrt ...201526124172
evaluation of aerial microbial pollutants in al-haram al-nabawi during pilgrimage of 2013.al-madinah al-munawwarah is the second holiest site in islam. the possibility of new emerging microbes is valid due to the increased number of pilgrims. the objectives of the current study were to estimate the numbers of fungi and bacteria inside and outside al-haram al-nabawi and to find whether new bacterial and fungal species have emerged compared to previous studies. air samples were collected twice a day from 12 spots and four directions during the pilgrim year of 2013 for four consecutive ...201528053593
evaluation of aerial microbial pollutants in al-haram al-nabawi during pilgrimage of 2013.al-madinah al-munawwarah is the second holiest site in islam. the possibility of new emerging microbes is valid due to the increased number of pilgrims. the objectives of the current study were to estimate the numbers of fungi and bacteria inside and outside al-haram al-nabawi and to find whether new bacterial and fungal species have emerged compared to previous studies. air samples were collected twice a day from 12 spots and four directions during the pilgrim year of 2013 for four consecutive ...201528053593
the diagnostic accuracy of three rapid diagnostic tests for typhoid fever at chittagong medical college hospital, chittagong, bangladesh.to determine the diagnostic accuracy of three rapid diagnostic tests (rdts) for typhoid fever in febrile hospitalised patients in bangladesh.201526094960
risk factors of infectious complications following flexible ureteroscope with a holmium laser: a retrospective study.we aimed to evaluate the effectiveness of flexible ureteroscope for treating kidney stones and the risk factors for infectious complications following flexible ureteroscope (furs) with a holmium laser.201526379932
microbial colonization of open abdomen in critically ill surgical patients.this study was designed to describe the time-course and microbiology of colonization of open abdomen in critically ill surgical patients and to study its association with morbidity, mortality and specific complications of open abdomen. a retrospective cohort analysis was done.201526136816
infectious diseases linked to cross-contamination of flexible endoscopes.flexible endoscopes are widely used to examine, diagnose, and treat medical disorders. while the risk of endoscopy-related transmission of infection is estimated to be very low, more health care-associated infections are related to contaminated endoscopes than to any other medical device. flexible endoscopes can get highly contaminated with microorganisms, secretions and blood during use. the narrow lumens and multiple internal channels make the cleaning of flexible endoscopes a complex and diff ...201526355428
the role of point-of-care tests in antibiotic stewardship for urinary tract infections in a resource-limited setting on the thailand-myanmar border.published literature from resource-limited settings is infrequent, although urinary tract infections (uti) are a common cause of outpatient presentation and antibiotic use. point-of-care test (poct) interpretation relates to antibiotic use and antibiotic resistance. we aimed to assess the diagnostic accuracy of poct and their role in uti antibiotic stewardship.201525963224
u.s. compounding pharmacy-related outbreaks, 2001-2013: public health and patient safety lessons learned.pharmacy-compounded sterile preparations (p-csps) are frequently relied upon in u.s. health care but are increasingly being linked to outbreaks of infections. we provide an updated overview of outbreak burden and characteristics, identify drivers of p-csp demand, and discuss public health and patient safety lessons learned to help inform prevention.201526001553
community acquired multi-drug resistant clinical isolates of escherichia coli in a tertiary care center of nepal.multi-drug resistance (mdr) in gram-negative organisms is an alarming problem in the world. mdr and extensively-drug resistance (xdr) is in increasing trend due to the production of different types of beta (β)-lactamases. thus the aim of this study was to document the incidence of mdr and xdr in clinical isolates of escherichia coli and also to find out the enzymatic mechanisms of β-lactam antibiotics resistance.201525937923
long-term outcome of patients with p22 (phox) -deficient chronic granulomatous disease on jeju island, korea.this study investigated the long-term clinical outcomes of patients with p22 (phox) -deficient chronic granulomatous disease (cgd) on jeju island and retrospectively evaluated the effects of interferon-gamma (ifn-γ) prophylaxis.201525932034
a locked nucleic acid (lna)-based real-time pcr assay for the rapid detection of multiple bacterial antibiotic resistance genes directly from positive blood culture.bacterial strains resistant to various antibiotic drugs are frequently encountered in clinical infections, and the rapid identification of drug-resistant strains is highly essential for clinical treatment. we developed a locked nucleic acid (lna)-based quantitative real-time pcr (lna-qpcr) method for the rapid detection of 13 antibiotic resistance genes and successfully used it to distinguish drug-resistant bacterial strains from positive blood culture samples. a sequence-specific primer-probe s ...201525775001
bacteriological assessment of the hospital environment in two referral hospitals in yaoundé-cameroon.many studies still show significant numbers of surgical patients contracting nosocomial infections each year globally with high morbidity and mortality. the aim of this study was to identify potential bacteria reservoirs that may be responsible for nosocomial infection in surgical services in the yaoundé university teaching hospital (yuth) and the central hospital yaoundé (chy).201526140067
understanding the concept of health care-associated pneumonia in lung transplant recipients.limited data are available regarding the etiologic impact of health care-associated pneumonia (hcap) in lung transplant recipients. therefore, our aim was to evaluate the microbiologic differences between hcap and hospital-acquired pneumonia (hap)/ventilator-associated pneumonia (vap) in lung transplant recipients with a radiographically confirmed diagnosis of pneumonia.201525742187
direct susceptibility testing by disk diffusion on clinical samples: a rapid and accurate tool for antibiotic stewardship.we compared the accuracy of direct susceptibility testing (dst) with conventional antimicrobial susceptibility testing (ast), both using disk diffusion, on clinical samples. a total of 123 clinical samples (respiratory tract samples, urine, vaginal and abdominal abscess discharges, bile fluid and a haematoma punctate) were selected on various indications; direct inoculation on mueller-hinton agar and antibiotic paper disks were applied. in parallel, standard culture, identification and ast on th ...201525698312
risk factors for early onset of catheter-related bloodstream infection in an intensive care unit in china: a retrospective study.catheter-related bloodstream infection (crbsi) is a life-threatening condition encountered in patients with long-term central venous catheter (cvc) indwelling. the objective was to investigate the clinical characteristics, treatment, and prognosis of crbsi in the intensive care unit (icu) in a chinese center, as well as the risk factors for early crbsi.201525695128
identification and regulation of a novel citrobacter rodentium gut colonization fimbria (gcf).the gram-negative enteric bacterium citrobacter rodentium is a natural mouse pathogen that has been extensively used as a surrogate model for studying the human pathogens enteropathogenic and enterohemorrhagic escherichia coli. all three pathogens produce similar attaching and effacing (a/e) lesions in the intestinal epithelium. during infection, these bacteria employ surface structures called fimbriae to adhere and colonize the host intestinal epithelium. for c. rodentium, the roles of only a s ...201525666139
use of 16s rrna gene for identification of a broad range of clinically relevant bacterial pathogens.according to world health organization statistics of 2011, infectious diseases remain in the top five causes of mortality worldwide. however, despite sophisticated research tools for microbial detection, rapid and accurate molecular diagnostics for identification of infection in humans have not been extensively adopted. time-consuming culture-based methods remain to the forefront of clinical microbial detection. the 16s rrna gene, a molecular marker for identification of bacterial species, is ub ...201525658760
review on the antimicrobial resistance of pathogens from tracheal and endotracheal aspirates of patients with clinical manifestations of pneumonia in bacolod city in 2013.microbiological content specifically bacterial and fungal etiologies from tracheal aspirates in a tertiary hospital in bacolod city was reviewed for baseline information. a total of 130 tracheal aspirates were subjected for culture to isolate and identify the pathogen and determine their susceptibilities to various antibiotics. productions of certain enzymes responsible for antibiotic resistance like esbl (extended spectrum beta-lactamase), metallo-β-lactamase, and carbapenemase were also studie ...201526904750
the alpha-defensin test for periprosthetic joint infection responds to a wide spectrum of organisms.the alpha-defensin test has been previously demonstrated to be highly accurate in the diagnosis of prosthetic joint infection (pji), nearly matching the musculoskeletal infection society definition for pji. however, the relationship between alpha-defensin levels and differing infecting organism has not yet been investigated.201525631170
volatile-sulfur-compound profile distinguishes burkholderia pseudomallei from burkholderia thailandensis.solid-phase microextraction gas chromatography-mass spectrometry (spme-gcms) was used to show that dimethyl sulfide produced by burkholderia pseudomallei is responsible for its unusual truffle-like smell and distinguishes the species from burkholderia thailandensis. spme-gcms can be safely used to detect dimethyl sulfide produced by agar-grown b. pseudomallei.201525568444
molecular weaponry: diverse effectors delivered by the type vi secretion system.the type vi secretion system is a widespread bacterial nanomachine, used to deliver toxins directly into eukaryotic or prokaryotic target cells. these secreted toxins, or effectors, act on diverse cellular targets, and their action provides the attacking bacterial cell with a significant fitness advantage, either against rival bacteria or eukaryotic host organisms. in this review, we discuss the delivery of diverse effectors by the type vi secretion system, the modes of action of the so-called ' ...201526432982
genetic determinants of heat resistance in escherichia coli.escherichia coli aw1.7 is a heat resistant food isolate and the occurrence of pathogenic strains with comparable heat resistance may pose a risk to food safety. to identify the genetic determinants of heat resistance, 29 strains of e. coli that differed in their of heat resistance were analyzed by comparative genomics. strains were classified as highly heat resistant strains, exhibiting a d60-value of more than 6 min; moderately heat resistant strains, exhibiting a d60-value of more than 1 min; ...201526441869
novel glucose-1-phosphatase with high phytase activity and unusual metal ion activation from soil bacterium pantoea sp. strain 3.5.1.phosphorus is an important macronutrient, but its availability in soil is limited. many soil microorganisms improve the bioavailability of phosphate by releasing it from various organic compounds, including phytate. to investigate the diversity of phytate-hydrolyzing bacteria in soil, we sampled soils of various ecological habitats, including forest, private homesteads, large agricultural complexes, and urban landscapes. bacterial isolate pantoea sp. strain 3.5.1 with the highest level of phytas ...201526209662
specific detection and identification of american mulberry-infecting and italian olive-associated strains of xylella fastidiosa by polymerase chain reaction.xylella fastidiosa causes bacterial leaf scorch in many landscape trees including elm, oak, sycamore and mulberry, but methods for specific identification of a particular tree host species-limited strain or differentiation of tree-specific strains are lacking. it is also unknown whether a particular landscape tree-infecting x. fastidiosa strain is capable of infecting multiple landscape tree species in an urban environment. we developed two pcr primers specific for mulberry-infecting strains of ...201526061051
a taxonomic framework for emerging groups of ecologically important marine gammaproteobacteria based on the reconstruction of evolutionary relationships using genome-scale data.in recent years a large number of isolates were obtained from saline environments that are phylogenetically related to distinct clades of oligotrophic marine gammaproteobacteria, which were originally identified in seawater samples using cultivation independent methods and are characterized by high seasonal abundances in coastal environments. to date a sound taxonomic framework for the classification of these ecologically important isolates and related species in accordance with their evolutiona ...201525914684
molecular variation and horizontal gene transfer of the homocysteine methyltransferase gene mmum and its distribution in clinical pathogens.the homocysteine methyltransferase encoded by mmum is widely distributed among microbial organisms. it is the key enzyme that catalyzes the last step in methionine biosynthesis and plays an important role in the metabolism process. it also enables the microbial organisms to tolerate high concentrations of selenium in the environment. in this research, 533 mmum gene sequences covering 70 genera of the bacteria were selected from genbank database. the distribution frequency of mmum is different in ...201525552925
bioaugmentation of lactobacillus delbrueckii ssp. bulgaricus tistr 895 to enhance bio-hydrogen production of rhodobacter sphaeroides kku-ps5.bioaugmentation or an addition of the desired microorganisms or specialized microbial strains into the anaerobic digesters can enhance the performance of microbial community in the hydrogen production process. most of the studies focused on a bioaugmentation of native microorganisms capable of producing hydrogen with the dark-fermentative hydrogen producers while information on bioaugmentation of purple non-sulfur photosynthetic bacteria (pnsb) with lactic acid-producing bacteria (lab) is still ...201526613000
crystal structure of dim-1, an acquired subclass b1 metallo-β-lactamase from pseudomonas stutzeri.metallo-β-lactamases (mbls) hydrolyze almost all classes of β-lactam antibiotic, including carbapenems-currently first choice drugs for opportunistic infections by gram-negative bacterial pathogens. mbl inhibitor development is complicated by the diversity within this group of enzymes, and by the appearance of new enzymes that continue to be identified both as chromosomal genes and on mobile genetic elements. one such newly discovered mbl is dim-1, a mobile enzyme originally discovered in the op ...201526451836
unprecedented silver resistance in clinically isolated enterobacteriaceae: major implications for burn and wound management.increased utilization of inorganic silver as an adjunctive to many medical devices has raised concerns of emergent silver resistance in clinical bacteria. although the molecular basis for silver resistance has been previously characterized, to date, significant phenotypic expression of these genes in clinical settings is yet to be observed. here, we identified the first strains of clinical bacteria expressing silver resistance at a level that could significantly impact wound care and the use of ...201526014954
rapid and reliable identification of gram-negative bacteria and gram-positive cocci by deposition of bacteria harvested from blood cultures onto the maldi-tof plate.rapid identification of the causative agent(s) of bloodstream infections using the matrix-assisted laser desorption/ionization time-of-flight (maldi-tof) methodology can lead to increased empirical antimicrobial therapy appropriateness. herein, we aimed at establishing an easier and simpler method, further referred to as the direct method, using bacteria harvested by serum separator tubes from positive blood cultures and placed onto the polished steel target plate for rapid identification by mal ...201526084329
identification of gram-negative bacteria and genetic resistance determinants from positive blood culture broths by use of the verigene gram-negative blood culture multiplex microarray-based molecular assay.bloodstream infection is a serious condition associated with significant morbidity and mortality. the outcome of these infections can be positively affected by the early implementation of effective antibiotic therapy based on the identification of the infecting organism and genetic markers associated with antibiotic resistance. in this study, we evaluated the microarray-based verigene gram-negative blood culture (bc-gn) assay in the identification of 8 genus or species targets and 6 genetic resi ...201525994165
synthesis and extracellular accumulation of silver nanoparticles by employing radiation-resistant deinococcus radiodurans, their characterization, and determination of bioactivity.there has been rapid progress in exploring microorganisms for green synthesis of nanoparticles since microbes show extraordinary diversity in terms of species richness and niche localization. microorganisms are easy to culture using relatively inexpensive and simple nutrients under varied conditions of temperature, pressure, ph, etc. in this work, deinococcus radiodurans that possesses the ability to withstand extremely high radiation and desiccation stress has been employed for the synthesis of ...201525673991
ecology and biotechnology of selenium-respiring bacteria.in nature, selenium is actively cycled between oxic and anoxic habitats, and this cycle plays an important role in carbon and nitrogen mineralization through bacterial anaerobic respiration. selenium-respiring bacteria (serb) are found in geographically diverse, pristine or contaminated environments and play a pivotal role in the selenium cycle. unlike its structural analogues oxygen and sulfur, the chalcogen selenium and its microbial cycling have received much less attention by the scientific ...201525631289
abuo, a tolc-like outer membrane protein of acinetobacter baumannii, is involved in antimicrobial and oxidative stress resistance.although acinetobacter baumannii is well accepted as a nosocomial pathogen, only a few of the outer membrane proteins (omps) have been functionally characterized. in this study, we demonstrate the biological functions of abuo, a homolog of tolc from escherichia coli. inactivation of abuo led to increased sensitivity to high osmolarity and oxidative stress challenge. the δabuo mutant displayed increased susceptibility to antibiotics, such as amikacin, carbenicillin, ceftriaxone, meropenem, strept ...201525512405
evaluation of antimicrobial therapy of blood culture positive healthcare-associated infections in children.knowledge of the quality of antimicrobial therapy (amt) used for invasive healthcare-associated infections (hais) in paediatrics is scarce. influence of the final information about the isolated pathogen on the subsequent targeted amt was investigated in our study.201526539831
high potential application in bioremediation of selenate by proteus hauseri strain qw4.selenium is essential for biological systems at low concentrations and toxic at higher levels. heavy metals and metalloids such as selenium are major contaminants in 40% of hazardous waste sites. thus, bioremediation has been considered as an effective means of cleaning up of selenium-contaminated sites.201526622970
a taqman-based multiplex qpcr assay and dna extraction method for phylotype iib sequevars 1&2 (select agent) strains of ralstonia solanacearum.ralstonia solanacearum race 3 biovar 2 strains belonging to phylotype iib, sequevars 1 and 2 (iib-1&2) cause brown rot of potato in temperate climates, and are quarantined pathogens in canada and europe. since these strains are not established in the u.s. and because of their potential risk to the potato industry, the u.s. government has listed them as select agents. cultivated geraniums are also a host and have the potential to spread the pathogen through trade, and its extracts strongly inhibi ...201526426354
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