Publications

TitleAbstractYear(sorted ascending)
Filter
PMID
Filter
the catalytic roles of p185 and t188 and substrate-binding loop flexibility in 3α-hydroxysteroid dehydrogenase/carbonyl reductase from comamonas testosteroni.3α-hydroxysteroid dehydrogenase/carbonyl reductase from comamonas testosteroni reversibly catalyzes the oxidation of androsterone with nad(+) to form androstanedione and nadh. structurally the substrate-binding loop of the residues, t188-k208, is unresolved, while binding with nad(+) causes the appearance of t188-p191 in the binary complex. this study determines the functional roles of the flexible substrate-binding loop in conformational changes and enzyme catalysis. a stopped-flow study reveal ...201323717450
identification of genes and pathways related to phenol degradation in metagenomic libraries from petroleum refinery wastewater.two fosmid libraries, totaling 13,200 clones, were obtained from bioreactor sludge of petroleum refinery wastewater treatment system. the library screening based on pcr and biological activity assays revealed more than 400 positive clones for phenol degradation. from these, 100 clones were randomly selected for pyrosequencing in order to evaluate the genetic potential of the microorganisms present in wastewater treatment plant for biodegradation, focusing mainly on novel genes and pathways of ph ...201323637911
ultrasound assessment of thrombotic complications in pediatric patients with tunneled central venous catheters.central venous access consists in inserting a vascular catheter to the vena cava and placing its tip in the vicinity of the opening to the right atrium. in the patients of the clinic of pediatrics, hematology and oncology at the academic clinical centre of the medical university in gdańsk, such implantation procedures are conducted 40-50 times in a year using broviac/hickman catheters that are placed in the subclavian vein. in the ultrasound and biopsy laboratory at the clinic mentioned above, a ...201326673005
microarray-based identification of differentially expressed genes in intracellular brucella abortus within raw264.7 cells.brucella spp. is a species of facultative intracellular gram-negative bacteria that induces abortion and causes sterility in domesticated mammals and chronic undulant fever in humans. important determinants of brucella's virulence and potential for chronic infection include the ability to circumvent the host cell's internal surveillance system and the capability to proliferate within dedicated and non-dedicated phagocytes. hence, identifying genes necessary for intracellular survival may hold th ...201323950864
natural rice rhizospheric microbes suppress rice blast infections.the natural interactions between plant roots and their rhizospheric microbiome are vital to plant fitness, modulating both growth promotion and disease suppression. in rice (oryza sativa), a globally important food crop, as much as 30% of yields are lost due to blast disease caused by fungal pathogen magnaporthe oryzae. capitalizing on the abilities of naturally occurring rice soil bacteria to reduce m. oryzae infections could provide a sustainable solution to reduce the amount of crops lost to ...201424884531
newly identified pathogens associated with periodontitis: a systematic review.there is substantial evidence supporting the role of certain oral bacteria species in the onset and progression of periodontitis. nevertheless, results of independent-culture diagnostic methods introduced about a decade ago have pointed to the existence of new periodontal pathogens. however, the data of these studies have not been evaluated together, which may generate some misunderstanding on the actual role of these microorganisms in the etiology of periodontitis. the aim of this systematic re ...201425074492
inhibition of batrachochytrium dendrobatidis caused by bacteria isolated from the skin of boreal toads, anaxyrus (bufo) boreas boreas, from grand teton national park, wyoming, usa.the chytrid fungus batrachochytrium dendrobatidis is a significant cause of the worldwide decline in amphibian populations; however, various amphibian species are capable of coexisting with b. dendrobatidis. among them are boreal toads (anaxyrus (bufo) boreas boreas) located in grand teton national park (gtnp) in wyoming, usa. the purpose of this study was to identify cultivable bacterial isolates from the skin microbiota of boreal toads from gtnp and determine if they were capable of inhibiting ...201424826077
efficient asymmetric synthesis of 1-cyano-tetrahydroisoquinolines from lipase dual activity and opposite enantioselectivities in α-aminonitrile resolution.dual promiscuous racemization/amidation activities of lipases leading to efficient dynamic kinetic resolution protocols of racemic α-aminonitrile compounds are described. α-amidonitrile products of high enantiomeric purity could be formed in high yields. several lipases from different sources were shown to exhibit the dual catalytic activities, where opposite enantioselectivities could be recorded for certain substrates.201425055970
two structurally different dienelactone hydrolases (tfdei and tfdeii) from cupriavidus necator jmp134 plasmid pjp4 catalyse cis- and trans-dienelactones with similar efficiency.in this study, dienelactone hydrolases (tfdei and tfdeii) located on plasmid pjp4 of cupriavidus necator jmp134 were cloned, purified, characterized and three dimensional structures were predicted. tfdei and tfdeii genes were cloned into pet21b vector and expressed in e. coli bl21(de3). the enzymes were purified by applying ultra-membrane filtration, anion-exchange qff and gel-filtration columns. the enzyme activity was determined by using cis-dienelactone. the three-dimensional structure of enz ...201425054964
rate of positive urine culture and double-j catheters colonization on the basis of microorganism dna analysis.the aim of the trial was to estimate the relationship between colonization of the double-j catheter, and the microorganisms cultured from urine.201424982789
the quest for a unified view of bacterial land colonization.exploring molecular mechanisms underlying bacterial water-to-land transition represents a critical start toward a better understanding of the functioning and stability of the terrestrial ecosystems. here, we perform comprehensive analyses based on a large variety of bacteria by integrating taxonomic, phylogenetic and metagenomic data, in the quest for a unified view that elucidates genomic, evolutionary and ecological dynamics of the marine progenitors in adapting to nonaquatic environments. we ...201424451209
potential for plant growth promotion by a consortium of stress-tolerant 2,4-dinitrotoluene-degrading bacteria: isolation and characterization of a military soil.the presence of explosives in soils and the interaction with drought stress and nutrient limitation are among the environmental factors that severely affect plant growth on military soils. in this study, we seek to isolate and identify the cultivable bacteria of a 2,4-dinitrotoluene (dnt) contaminated soil (ds) and an adjacent grassland soil (gs) of a military training area aiming to isolate new plant growth-promoting (pgp) and 2,4-dnt-degrading strains. metabolic profiling revealed disturbances ...201424467368
soil salinity: a serious environmental issue and plant growth promoting bacteria as one of the tools for its alleviation.salinity is one of the most brutal environmental factors limiting the productivity of crop plants because most of the crop plants are sensitive to salinity caused by high concentrations of salts in the soil, and the area of land affected by it is increasing day by day. for all important crops, average yields are only a fraction - somewhere between 20% and 50% of record yields; these losses are mostly due to drought and high soil salinity, environmental conditions which will worsen in many region ...201425737642
soil salinity: a serious environmental issue and plant growth promoting bacteria as one of the tools for its alleviation.salinity is one of the most brutal environmental factors limiting the productivity of crop plants because most of the crop plants are sensitive to salinity caused by high concentrations of salts in the soil, and the area of land affected by it is increasing day by day. for all important crops, average yields are only a fraction - somewhere between 20% and 50% of record yields; these losses are mostly due to drought and high soil salinity, environmental conditions which will worsen in many region ...201425737642
p. aeruginosa sgnh hydrolase-like proteins algj and algx have similar topology but separate and distinct roles in alginate acetylation.the o-acetylation of polysaccharides is a common modification used by pathogenic organisms to protect against external forces. pseudomonas aeruginosa secretes the anionic, o-acetylated exopolysaccharide alginate during chronic infection in the lungs of cystic fibrosis patients to form the major constituent of a protective biofilm matrix. four proteins have been implicated in the o-acetylation of alginate, algijf and algx. to probe the biological function of algj, we determined its structure to 1 ...201425165982
biofertilizers function as key player in sustainable agriculture by improving soil fertility, plant tolerance and crop productivity.current soil management strategies are mainly dependent on inorganic chemical-based fertilizers, which caused a serious threat to human health and environment. the exploitation of beneficial microbes as a biofertilizer has become paramount importance in agriculture sector for their potential role in food safety and sustainable crop production. the eco-friendly approaches inspire a wide range of application of plant growth promoting rhizobacteria (pgprs), endo- and ectomycorrhizal fungi, cyanobac ...201424885352
bacterial degradation of chlorophenols and their derivatives.chlorophenols (cps) and their derivatives are persistent environmental pollutants which are used in the manufacture of dyes, drugs, pesticides and other industrial products. cps, which include monochlorophenols, polychlorophenols, chloronitrophenols, chloroaminophenols and chloromethylphenols, are highly toxic to living beings due to their carcinogenic, mutagenic and cytotoxic properties. several physico-chemical and biological methods have been used for removal of cps from the environment. bact ...201424589366
new insights into 1-aminocyclopropane-1-carboxylate (acc) deaminase phylogeny, evolution and ecological significance.the main objective of this work is the study of the phylogeny, evolution and ecological importance of the enzyme 1-aminocyclopropane-1-carboxylate (acc) deaminase, the activity of which represents one of the most important and studied mechanisms used by plant growth-promoting microorganisms. the acc deaminase gene and its regulatory elements presence in completely sequenced organisms was verified by multiple searches in diverse databases, and based on the data obtained a comprehensive analysis w ...201424905353
electronic waste - an emerging threat to the environment of urban india.electronic waste or e-waste is one of the emerging problems in developed and developing countries worldwide. it comprises of a multitude of components with valuable materials, some containing toxic substances, that can have an adverse impact on human health and the environment. previous studies show that india has generated 0.4 million tons of e-waste in 2010 which may increase to 0.5 to 0.6 million tons by 2013-2014. coupled with lack of appropriate infrastructural facilities and procedures for ...201424444377
cyanuric acid hydrolase from azorhizobium caulinodans ors 571: crystal structure and insights into a new class of ser-lys dyad proteins.cyanuric acid hydrolase (cah) catalyzes the hydrolytic ring-opening of cyanuric acid (2,4,6-trihydroxy-1,3,5-triazine), an intermediate in s-triazine bacterial degradation and a by-product from disinfection with trichloroisocyanuric acid. in the present study, an x-ray crystal structure of the cah-barbituric acid inhibitor complex from azorhizobium caulinodans ors 571 has been determined at 2.7 å resolution. the cah protein fold consists of three structurally homologous domains forming a β-barre ...201424915109
parallel histories of horizontal gene transfer facilitated extreme reduction of endosymbiont genomes in sap-feeding insects.bacteria confined to intracellular environments experience extensive genome reduction. in extreme cases, insect endosymbionts have evolved genomes that are so gene-poor that they blur the distinction between bacteria and endosymbiotically derived organelles such as mitochondria and plastids. to understand the host's role in this extreme gene loss, we analyzed gene content and expression in the nuclear genome of the psyllid pachypsylla venusta, a sap-feeding insect that harbors an ancient endosym ...201424398322
computational design of a ph stable enzyme: understanding molecular mechanism of penicillin acylase's adaptation to alkaline conditions.protein stability provides advantageous development of novel properties and can be crucial in affording tolerance to mutations that introduce functionally preferential phenotypes. consequently, understanding the determining factors for protein stability is important for the study of structure-function relationship and design of novel protein functions. thermal stability has been extensively studied in connection with practical application of biocatalysts. however, little work has been done to ex ...201424959852
silencing by h-ns potentiated the evolution of salmonella.the bacterial h-ns protein silences expression from sequences with higher at-content than the host genome and is believed to buffer the fitness consequences associated with foreign gene acquisition. loss of h-ns results in severe growth defects in salmonella, but the underlying reasons were unclear. an experimental evolution approach was employed to determine which secondary mutations could compensate for the loss of h-ns in salmonella. six independently derived s. typhimurium hns mutant strains ...201425375226
burkholderia ambifaria and b. caribensis promote growth and increase yield in grain amaranth (amaranthus cruentus and a. hypochondriacus) by improving plant nitrogen uptake.grain amaranth is an emerging crop that produces seeds having high quality protein with balanced amino-acid content. however, production is restricted by agronomic limitations that result in yields that are lower than those normally produced by cereals. in this work, the use of five different rhizobacteria were explored as a strategy to promote growth and yields in amaranthus hypochondriacus cv. nutrisol and a. cruentus cv. candil, two commercially important grain amaranth cultivars. the plants ...201424533068
draft genome sequence analysis of a pseudomonas putida w15oct28 strain with antagonistic activity to gram-positive and pseudomonas sp. pathogens.pseudomonas putida is a member of the fluorescent pseudomonads known to produce the yellow-green fluorescent pyoverdine siderophore. p. putida w15oct28, isolated from a stream in brussels, was found to produce compound(s) with antimicrobial activity against the opportunistic pathogens staphylococcus aureus, pseudomonas aeruginosa, and the plant pathogen pseudomonas syringae, an unusual characteristic for p. putida. the active compound production only occurred in media with low iron content and w ...201425369289
chromobacterium csp_p reduces malaria and dengue infection in vector mosquitoes and has entomopathogenic and in vitro anti-pathogen activities.plasmodium and dengue virus, the causative agents of the two most devastating vector-borne diseases, malaria and dengue, are transmitted by the two most important mosquito vectors, anopheles gambiae and aedes aegypti, respectively. insect-bacteria associations have been shown to influence vector competence for human pathogens through multi-faceted actions that include the elicitation of the insect immune system, pathogen sequestration by microbes, and bacteria-produced anti-pathogenic factors. t ...201425340821
characterization of the medium- and long-chain n-alkanes degrading pseudomonas aeruginosa strain sjtd-1 and its alkane hydroxylase genes.a gram-negative aliphatic hydrocarbon-degrading bacterium sjtd-1 isolated from oil-contaminated soil was identified as pseudomonas aeruginosa by comparative analyses of the 16s rrna sequence, phenotype, and physiological features. sjtd-1 could efficiently mineralize medium- and long-chain n-alkanes (c12-c30) as its sole carbon source within seven days, showing the most optimal growth on n-hexadecane, followed by n-octadecane, and n-eicosane. in 36 h, 500 mg/l of tetradecane, hexadecane, and octa ...201425165808
interactions of non-natural halogenated substrates with d-specific dehalogenase (dehd) mutants using in silico studies.the d-2-haloacid dehalogenase of d-specific dehalogenase (dehd) from rhizobium sp. rc1 catalyses the hydrolytic dehalogenation of d-haloalkanoic acids, inverting the substrate-product configuration and thereby forming the corresponding l-hydroxyalkanoic acids. our investigations were focused on dehd mutants: r134a and y135a. we examined the possible interactions between these mutants with haloalkanoic acids and characterized the key catalytic residues in the wild-type dehalogenase, to design deh ...201426019583
isolation and characterization of broad spectrum coaggregating bacteria from different water systems for potential use in bioaugmentation.the bridging bacteria with broad-spectrum coaggregation ability play an important role during multispecies-biofilm development. in this study, through a visual and semi-quantitative assay, twenty-two bacterial strains with aggregation ability were obtained from 8 different water environments, and these strains were assigned to 7 genera according to their 16s rdna and they were aeromonas, bacillus, comamonas, exiguobacterium, pseudomonas, shewanella and comamonas. furthermore, all possible 231 pa ...201424736645
growth kinetics, effect of carbon substrate in biosynthesis of mcl-pha by pseudomonas putida bet001.growth associated biosynthesis of medium chain length poly-3-hydroxyalkanoates (mcl-pha) in pseudomonas putida bet001 isolated from palm oil mill effluent was studied. models with substrate inhibition terms described well the kinetics of its growth. selected fatty acids (c8:0 to c18:1) and ammonium were used as carbon and nitrogen sources during growth and pha biosynthesis, resulting in pha accumulation of about 50 to 69% (w/w) and pha yields ranging from 10.12 g l(-1) to 15.45 g l(-1), respecti ...201425242925
antibiotic resistance determinants in a pseudomonas putida strain isolated from a hospital.environmental microbes harbor an enormous pool of antibiotic and biocide resistance genes that can impact the resistance profiles of animal and human pathogens via horizontal gene transfer. pseudomonas putida strains are ubiquitous in soil and water but have been seldom isolated from humans. we have established a collection of p. putida strains isolated from in-patients in different hospitals in france. one of the isolated strains (hb3267) kills insects and is resistant to the majority of the an ...201424465371
metabolic engineering of pseudomonas sp. strain vlb120 as platform biocatalyst for the production of isobutyric acid and other secondary metabolites.over the recent years the production of ehrlich pathway derived chemicals was shown in a variety of hosts such as escherichia coli, corynebacterium glutamicum, and yeast. exemplarily the production of isobutyric acid was demonstrated in escherichia coli with remarkable titers and yields. however, these examples suffer from byproduct formation due to the fermentative growth mode of the respective organism. we aim at establishing a new aerobic, chassis for the synthesis of isobutyric acid and othe ...201424397404
novel assay to measure the plasmid mobilizing potential of mixed microbial communities.mobilizable plasmids lack necessary genes for complete conjugation and are therefore non-self-transmissible. instead, they rely on the conjugation system of conjugal plasmids to be horizontally transferred to new recipients. while community permissiveness, the fraction of a mixed microbial community that can receive self-transmissible conjugal plasmids, has been studied, the intrinsic ability of a community to mobilize plasmids that lack conjugation systems is unexplored. here, we present a nove ...201425566238
bacterial communities in semen from men of infertile couples: metagenomic sequencing reveals relationships of seminal microbiota to semen quality.some previous studies have identified bacteria in semen as being a potential factor in male infertility. however, only few types of bacteria were taken into consideration while using pcr-based or culturing methods. here we present an analysis approach using next-generation sequencing technology and bioinformatics analysis to investigate the associations between bacterial communities and semen quality. ninety-six semen samples collected were examined for bacterial communities, measuring seven cli ...201425340531
a novel, nested, multiplex, real-time pcr for detection of bacteria and fungi in blood.the study describes the application of the pcr method for the simultaneous detection of dna of gram-negative bacteria, gram-positive bacteria, yeast fungi and filamentous fungi in blood and, thus, a whole range of microbial etiological agents that may cause sepsis. material for the study was sterile blood inoculated with four species of microorganisms (escherichia coli, staphylococcus aureus, candida albicans and aspergillus fumigatus) and blood collected from patients with clinical symptoms of ...201424893651
teleost microbiomes: the state of the art in their characterization, manipulation and importance in aquaculture and fisheries.indigenous microbiota play a critical role in the lives of their vertebrate hosts. in human and mouse models it is increasingly clear that innate and adaptive immunity develop in close concert with the commensal microbiome. furthermore, several aspects of digestion and nutrient metabolism are governed by intestinal microbiota. research on teleosts has responded relatively slowly to the introduction of massively parallel sequencing procedures in microbiomics. nonetheless, progress has been made i ...201424917852
the gut microbiota of larvae of rhynchophorus ferrugineus oliver (coleoptera: curculionidae).the red palm weevil (rpw) rhynchophorus ferrugineus olivier (coleoptera: curculionidae) is one of the major pests of palms. the larvae bore into the palm trunk and feed on the palm tender tissues and sap, leading the host tree to death. the gut microbiota of insects plays a remarkable role in the host life and understanding the relationship dynamics between insects and their microbiota may improve the biological control of insect pests. the purpose of this study was to analyse the diversity of t ...201424884866
evolving epidemiology and antimicrobial resistance in spontaneous bacterial peritonitis: a two-year observational study.current recommendations for empirical antimicrobial therapy in spontaneous bacterial peritonitis (sbp) are based on quite old trials. since microbial epidemiology and the management of patients have changed, whether these recommendations are still appropriate must be confirmed.201424884471
cultivable endophytic bacteria from leaf bases of agave tequilana and their role as plant growth promoters.agave tequilana weber var. 'azul' is grown for the production of tequila, inulin and syrup. diverse bacteria inhabit plant tissues and play a crucial role for plant health and growth. in this study culturable endophytic bacteria were extracted from leaf bases of 100 healthy agave tequilana plants. in plant tissue bacteria occurred at mean population densities of 3 million cfu/g of fresh plant tissue. three hundred endophytic strains were isolated and 16s rdna sequences grouped the bacteria into ...201425763038
comparison of bacterial community structure and dynamics during the thermophilic composting of different types of solid wastes: anaerobic digestion residue, pig manure and chicken manure.this study investigated the impact of composting substrate types on the bacterial community structure and dynamics during composting processes. to this end, pig manure (pm), chicken manure (cm), a mixture of pm and cm (pm + cm), and a mixture of pm, cm and anaerobic digestion residue (adr) (pm + cm + adr) were selected for thermophilic composting. the bacterial community structure and dynamics during the composting process were detected and analysed by polymerase chain reaction-denaturing gradie ...201424963997
a novel peptidoglycan binding protein crucial for pbp1a-mediated cell wall biogenesis in vibrio cholerae.the bacterial cell wall, which is comprised of a mesh of polysaccharide strands crosslinked via peptide bridges (peptidoglycan, pg), is critical for maintenance of cell shape and survival. pg assembly is mediated by a variety of penicillin binding proteins (pbp) whose fundamental activities have been characterized in great detail; however, there is limited knowledge of the factors that modulate their activities in different environments or growth phases. in vibrio cholerae, the cause of cholera, ...201424945690
cultivable endophytic bacteria from leaf bases of agave tequilana and their role as plant growth promoters.agave tequilana weber var. 'azul' is grown for the production of tequila, inulin and syrup. diverse bacteria inhabit plant tissues and play a crucial role for plant health and growth. in this study culturable endophytic bacteria were extracted from leaf bases of 100 healthy agave tequilana plants. in plant tissue bacteria occurred at mean population densities of 3 million cfu/g of fresh plant tissue. three hundred endophytic strains were isolated and 16s rdna sequences grouped the bacteria into ...201425763038
marine sediments microbes capable of electrode oxidation as a surrogate for lithotrophic insoluble substrate metabolism.little is known about the importance and/or mechanisms of biological mineral oxidation in sediments, partially due to the difficulties associated with culturing mineral-oxidizing microbes. we demonstrate that electrochemical enrichment is a feasible approach for isolation of microbes capable of gaining electrons from insoluble minerals. to this end we constructed sediment microcosms and incubated electrodes at various controlled redox potentials. negative current production was observed in incub ...201425642220
marine sediments microbes capable of electrode oxidation as a surrogate for lithotrophic insoluble substrate metabolism.little is known about the importance and/or mechanisms of biological mineral oxidation in sediments, partially due to the difficulties associated with culturing mineral-oxidizing microbes. we demonstrate that electrochemical enrichment is a feasible approach for isolation of microbes capable of gaining electrons from insoluble minerals. to this end we constructed sediment microcosms and incubated electrodes at various controlled redox potentials. negative current production was observed in incub ...201425642220
study of the structure-function-stability relationships in yeast d-amino acid oxidase: hydrophobization of alpha-helices.hydrophobization of alpha-helices is one of the general approaches used for improving the thermal stability of enzymes. a total of 11 serine residues located in alpha-helices have been found based on multiple alignments of the amino acid sequences of d-amino acid oxidases from different organisms and the analysis of the 3d-structure of d-amino acid oxidase from yeast trigonopsis variabilis (tvdaao, ec 1.4.3.3). as a result of further structural analysis, eight ser residues in 67, 77, 78, 105, 27 ...201425349716
structural characterization of a hypothetical protein: a potential agent involved in trimethylamine metabolism in catenulispora acidiphila.catenulispora acidiphila is a newly identified lineage of actinomycetes that produces antimicrobial activities and represents a promising source of novel antibiotics and secondary metabolites. among the discovered protein coding genes, 68 % were assigned a putative function, while the remaining 32 % are genes encoding "hypothetical" proteins. caci_0382 is one of the "hypothetical" proteins that has very few homologs. sequence analysis shows that the protein belongs to the ntf2-like protein famil ...201424562475
identification and characterization of the spiruchostatin biosynthetic gene cluster enable yield improvement by overexpressing a transcriptional activator.spiruchostatins a and b are members of the fk228-family of natural products with potent histone deacetylase inhibitory activities and antineoplastic activities. however, their production in the wild-type strain of pseudomonas sp. q71576 is low. to improve the yield, the spiruchostatin biosynthetic gene cluster (spi) was first identified by rapid genome sequencing and characterized by genetic mutations. this spi gene cluster encodes a hybrid biosynthetic pathway similar to that encoded by the fk2 ...201424973954
microbial community structures and dynamics in the o3/bac drinking water treatment process.effectiveness of drinking water treatment, in particular pathogen control during the water treatment process, is always a major public health concern. in this investigation, the application of pcr-dgge technology to the analysis of microbial community structures and dynamics in the drinking water treatment process revealed several dominant microbial populations including: α-proteobacteria, β-proteobacteria, γ-proteobacteria, bacteroidetes, actinobacteria firmicutes and cyanobacteria. α-proteobac ...201424937529
melioidosis presenting as lymphadenitis: a case report.melioidosis is an infection caused by the facultative intracellular gram-negative bacterium; burkholderia pseudomallei. it gives rise to protean clinical manifestations and has a varied prognosis. although it was rare in sri lanka increasing numbers of cases are being reported with high morbidity and mortality. here we report a case of melioidosis presenting with lymphadenitis which was diagnosed early and treated promptly with a good outcome.201424927768
from community approaches to single-cell genomics: the discovery of ubiquitous hyperhalophilic bacteroidetes generalists.the microbiota of multi-pond solar salterns around the world has been analyzed using a variety of culture-dependent and molecular techniques. however, studies addressing the dynamic nature of these systems are very scarce. here we have characterized the temporal variation during 1 year of the microbiota of five ponds with increasing salinity (from 18% to >40%), by means of card-fish and dgge. microbial community structure was statistically correlated with several environmental parameters, includ ...201424926861
prophylactic antibody treatment and intramuscular immunization reduce infectious human rhinovirus 16 load in the lower respiratory tract of challenged cotton rats.human rhinoviruses (hrv) represent the single most important etiological agents of the common cold and are the most frequent cause of acute respiratory infections in humans. currently the performance of available animal models for immunization studies using hrv challenge is very limited. the cotton rat (sigmodon hispidus) is a well-recognized model for the study of human respiratory viral infections. in this work we show that, without requiring any genetic modification of either the host or the ...201425328560
from community approaches to single-cell genomics: the discovery of ubiquitous hyperhalophilic bacteroidetes generalists.the microbiota of multi-pond solar salterns around the world has been analyzed using a variety of culture-dependent and molecular techniques. however, studies addressing the dynamic nature of these systems are very scarce. here we have characterized the temporal variation during 1 year of the microbiota of five ponds with increasing salinity (from 18% to >40%), by means of card-fish and dgge. microbial community structure was statistically correlated with several environmental parameters, includ ...201424926861
u2 snrnp is required for expression of the 3' end of genes.pre-mrna in eukaryotes is subjected to mrna processing, which includes capping, polyadenylation, and splicing. transcription and mrna processing are coupled, and this coupling stimulates mrna processing; however, the effects of mrna processing on transcription are not fully understood. in this study, we found that inhibition of u2 snrnp by a splicing inhibitor, spliceostatin a (ssa), or by an antisense oligonucleotide to u2 snrna, caused gene-specific 3'-end down-regulation. removal of ssa from ...201424845214
quorum quenching mediated approaches for control of membrane biofouling.membrane biofouling is widely acknowledged as the most frequent adverse event in wastewater treatment systems resulting in significant loss of treatment efficiency and economy. different strategies including physical cleaning and use of antimicrobial chemicals or antibiotics have been tried for reducing membrane biofouling. such traditional practices are aimed to eradicate biofilms or kill the bacteria involved, but the greater efficacy in membrane performance would be achieved by inhibiting bio ...201424910534
the non-canonical hydroxylase structure of yfcm reveals a metal ion-coordination motif required for ef-p hydroxylation.ef-p is a bacterial trna-mimic protein, which accelerates the ribosome-catalyzed polymerization of poly-prolines. in escherichia coli, ef-p is post-translationally modified on a conserved lysine residue. the post-translational modification is performed in a two-step reaction involving the addition of a β-lysine moiety and the subsequent hydroxylation, catalyzed by poxa and yfcm, respectively. the β-lysine moiety was previously shown to enhance the rate of poly-proline synthesis, but the role of ...201425274739
abstracts, 9th german allergy congress, wiesbaden, 2-4 october 2014. 201426120532
synonymous codon bias and functional constraint on gc3-related dna backbone dynamics in the prokaryotic nucleoid.while mrna stability has been demonstrated to control rates of translation, generating both global and local synonymous codon biases in many unicellular organisms, this explanation cannot adequately explain why codon bias strongly tracks neighboring intergene gc content; suggesting that structural dynamics of dna might also influence codon choice. because minor groove width is highly governed by 3-base periodicity in gc, the existence of triplet-based codons might imply a functional role for the ...201425200075
rhamnolipid biosurfactants-past, present, and future scenario of global market. 201425228898
degradation of toluene by ortho cleavage enzymes in burkholderia fungorum flu100.burkholderia fungorum flu100 simultaneously oxidized any mixture of toluene, benzene and mono-halogen benzenes to (3-substituted) catechols with a selectivity of nearly 100%. further metabolism occurred via enzymes of ortho cleavage pathways with complete mineralization. during the transformation of 3-methylcatechol, 4-carboxymethyl-2-methylbut-2-en-4-olide (2-methyl-2-enelactone, 2-ml) accumulated transiently, being further mineralized only after a lag phase of 2 h in case of cells pre-grown on ...201425130674
degradation of toluene by ortho cleavage enzymes in burkholderia fungorum flu100.burkholderia fungorum flu100 simultaneously oxidized any mixture of toluene, benzene and mono-halogen benzenes to (3-substituted) catechols with a selectivity of nearly 100%. further metabolism occurred via enzymes of ortho cleavage pathways with complete mineralization. during the transformation of 3-methylcatechol, 4-carboxymethyl-2-methylbut-2-en-4-olide (2-methyl-2-enelactone, 2-ml) accumulated transiently, being further mineralized only after a lag phase of 2 h in case of cells pre-grown on ...201425130674
structural and functional analysis show that the escherichia coli uncharacterized protein yjcs is likely an alkylsulfatase.sodium dodecyl sulfate (sds) is a widely used anionic surfactant in industry and research settings, and is known to have a detrimental effect to the environment. the pathway of sds degradation by bacteria is initiated by an alkylsulfatase and the oxidized product, 1-dodecanoic acid, subsequently enters into the β-oxidation pathway and is used as a carbon source. in this work, we solved the crystal structure of escherichia coli uncharacterized protein yjcs and identified that it belongs to the ty ...201425066955
comparison of substrate specificity of escherichia coli p-aminobenzoyl-glutamate hydrolase with pseudomonas carboxypeptidase g.reduced folic acid derivatives support biosynthesis of dna, rna and amino acids in bacteria as well as in eukaryotes, including humans. while the genes and steps for bacterial folic acid synthesis are known, those associated with folic acid catabolism are not well understood. a folate catabolite found in both humans and bacteria is p-aminobenzoyl-glutamate (paba-glu). the enzyme p-aminobenzoyl-glutamate hydrolase (pgh) breaks down paba-glu and is part of an apparent operon, the abg region, in e. ...201427795973
isolation and characterization of atrazine mineralizing bacillus subtilis strain hb-6.atrazine is a widely used herbicide with great environmental concern due to its high potential to contaminate soil and waters. an atrazine-degrading bacterial strain hb-6 was isolated from industrial wastewater and the 16s rrna gene sequencing identified hb-6 as a bacillus subtilis. pcr assays indicated that hb-6 contained atrazine-degrading genes trzn, atzb and atzc. the strain hb-6 was capable of utilizing atrazine and cyanuric acid as a sole nitrogen source for growth and even cleaved the s-t ...201425238246
the dimerization domain in dape enzymes is required for catalysis.the emergence of antibiotic-resistant bacterial strains underscores the importance of identifying new drug targets and developing new antimicrobial compounds. lysine and meso-diaminopimelic acid are essential for protein production and bacterial peptidoglycan cell wall remodeling and are synthesized in bacteria by enzymes encoded within dap operon. therefore dap enzymes may serve as excellent targets for developing a new class of antimicrobial agents. the dape-encoded n-succinyl-l,l-diaminopimel ...201424806882
characterization and function of the first antibiotic isolated from a vent organism: the extremophile metazoan alvinella pompejana.the emblematic hydrothermal worm alvinella pompejana is one of the most thermo tolerant animal known on earth. it relies on a symbiotic association offering a unique opportunity to discover biochemical adaptations that allow animals to thrive in such a hostile habitat. here, by studying the pompeii worm, we report on the discovery of the first antibiotic peptide from a deep-sea organism, namely alvinellacin. after purification and peptide sequencing, both the gene and the peptide tertiary struct ...201424776651
fast and economic immobilization methods described for non-commercial pseudomonas lipases.there is an increasing interest to seek new enzyme preparations for the development of new products derived from bioprocesses to obtain alternative bio-based materials. in this context, four non-commercial lipases from pseudomonas species were prepared, immobilized on different low-cost supports, and examined for potential biotechnological applications.201424755191
microbial growth and carbon use efficiency in the rhizosphere and root-free soil.plant-microbial interactions alter c and n balance in the rhizosphere and affect the microbial carbon use efficiency (cue)-the fundamental characteristic of microbial metabolism. estimation of cue in microbial hotspots with high dynamics of activity and changes of microbial physiological state from dormancy to activity is a challenge in soil microbiology. we analyzed respiratory activity, microbial dna content and cue by manipulation the c and nutrients availability in the soil under beta vulgar ...201424722409
sepsis in intensive care unit patients with traumatic brain injury: factors associated with higher mortality.patients with traumatic brain injury are particularly susceptible to sepsis, which may exacerbate the systemic inflammatory response and lead to organ dysfunction. the influence of clinical variables on the mortality of intensive care unit patients with traumatic brain injury and sepsis was investigated.201425028949
classification of healthcare-associated infection: a systematic review 10 years after the first proposal.ten years after the first proposal, a consensus definition of healthcare-associated infection (hcai) has not been reached, preventing the development of specific treatment recommendations. a systematic review of all definitions of hcai used in clinical studies is made.201424597462
characterization of 3-phosphoglycerate kinase from corynebacterium glutamicum and its impact on amino acid production.corynebacterium glutamicum cg1790/pgk encodes an enzyme active as a 3-phosphoglycerate kinase (pgk) (ec 2.7.2.3) catalyzing phosphoryl transfer from 1,3-biphosphoglycerate (bpg) to adp to yield 3-phosphoglycerate (3-pg) and atp in substrate chain phosphorylation.201424593686
dissolving mechanism of strain p17 on insoluble phosphorus of yellow-brown soil.strain p17 was a bacterial strain identified as bacillus megaterium isolated from ground accumulating phosphate rock powder. the fermentation broth of strain p17 and the yellow-brown soil from nanjing agricultural university garden were collected to conduct this study. the simulation of fixed insoluble phosphorous forms after applying calcium superphosphate into yellow-brown soil was performed in pots, while available p and total p of soil were extremely positive correlative with those of ground ...201425477929
membrane bioprocesses for pharmaceutical micropollutant removal from waters.the purpose of this review work is to give an overview of the research reported on bioprocesses for the treatment of domestic or industrial wastewaters (ww) containing pharmaceuticals. conventional ww treatment technologies are not efficient enough to completely remove all pharmaceuticals from water. indeed, these compounds are becoming an actual public health problem, because they are more and more present in underground and even in potable waters. different types of bioprocesses are described ...201425295629
genomics-based exploration of virulence determinants and host-specific adaptations of pseudomonas syringae strains isolated from grasses.the pseudomonas syringae species complex has recently been named the number one plant pathogen, due to its economic and environmental impacts, as well as for its role in scientific research. the bacterium has been repeatedly reported to cause outbreaks on bean, cucumber, stone fruit, kiwi and olive tree, as well as on other crop and non-crop plants. it also serves as a model organism for research on the type iii secretion system (t3ss) and plant-pathogen interactions. while most of the current w ...201425437611
pcrg protects the two long helical oligomerization domains of pcrv, by an interaction mediated by the intramolecular coiled-coil region of pcrg.pcrv is a hydrophilic translocator of type three secretion system (ttss) and a structural component of the functional translocon. c-terminal helix of pcrv is essential for its oligomerization at the needle tip. conformational changes within pcrv regulate the effector translocation. pcrg is a cytoplasmic regulator of ttss and forms a high affinity complex with pcrv. c-terminal residues of pcrg control the effector secretion.201424460624
a multidisciplinary intervention to reduce infections of esbl- and ampc-producing, gram-negative bacteria at a university hospital.in response to a considerable increase in the infections caused by esbl/ampc-producing klebsiella pneumonia in 2008, a multidisciplinary intervention, with a main focus on antimicrobial stewardship, was carried out at one university hospital. four other hospitals were used as controls. stringent guidelines for antimicrobial treatment and prophylaxis were disseminated throughout the intervention hospital; cephalosporins were restricted for prophylaxis use only, fluoroquinolones for empiric use in ...201424466106
microbial enhanced heavy oil recovery by the aid of inhabitant spore-forming bacteria: an insight review.crude oil is the major source of energy worldwide being exploited as a source of economy, including oman. as the price of crude oil increases and crude oil reserves collapse, exploitation of oil resources in mature reservoirs is essential for meeting future energy demands. as conventional recovery methods currently used have become less efficient for the needs, there is a continuous demand of developing a new technology which helps in the upgradation of heavy crude oil. microbial enhanced oil re ...201424550702
ex situ diet influences the bacterial community associated with the skin of red-eyed tree frogs (agalychnis callidryas).amphibians support symbiotic bacterial communities on their skin that protect against a range of infectious pathogens, including the amphibian chytrid fungus. the conditions under which amphibians are maintained in captivity (e.g. diet, substrate, enrichment) in ex situ conservation programmes may affect the composition of the bacterial community. in addition, ex situ amphibian populations may support different bacterial communities in comparison to in situ populations of the same species. this ...201424416427
public health implications of contamination of franc cfa (xaf) circulating in buea (cameroon) with drug resistant pathogens.studies in different parts of the world have implicated money as a vehicle for transmission of pathogens. such information which is necessary to facilitate infection control strategies is lacking in many sub-saharan countries including cameroon. this study analyzed the franc de la communauté financiere d'afrique (franc cfa), the currency used in cameroon and other countries in the central african sub-region, as a potential vehicle for transmission of pathogenic bacteria and fungi, particularly d ...201424401290
encapsulating peritoneal sclerosis - a rare and serious complication of peritoneal dialysis: case series.encapsulating peritoneal sclerosis is a pathological entity mainly associated with peritoneal dialysis (pd). the clinical syndrome is characterized by various degrees of intestinal obstruction due to thickening, sclerosis and calcification of peritoneum resulting in the encapsulation and cocooning of the bowel. it is a rare but potentially devastating complication associated with a considerable morbidity and mortality.201425870687
nanomedicine and therapy of lung diseases.the use of nanotechnology has significantly increased in different fields of science, including the development of drug delivery systems. currently, the most modern pharmaceutical nanocarriers, such as liposomes, micelles, nanoemulsions and polymeric nanoparticles, demonstrate extremely useful properties from the point of view of drug therapy. in this context, the development of nanocarriers for pulmonary application has been much debated by the scientific community in recent decades. although r ...201425628213
outcomes of patients with healthcare-associated pneumonia: worse disease or sicker patients?healthcare-associated pneumonia (hcap) is an entity distinct from community-acquired pneumonia (cap). hcap has a higher case-fatality rate, due either to hcap organisms or to the health status of hcap patients. the contribution of hcap criteria to case-fatality rate is unknown.201425222889
bioconversion of α-pinene by a novel cold-adapted fungus chrysosporium pannorum.the psychrotrophic fungus chrysosporium pannorum a-1 is reported for the first time as a novel biocatalyst for o2-promoted oxidation of α-pinene. gc-ms analysis indicated that the main products of the reaction were compounds of a high commercial value, verbenol (1) and verbenone (2). exponentially growing cells (days 2-3) were about twice as active as cells in the late stationary phase in terms of the total concentration of products. the highest yields of 1 and 2 were obtained using three-day an ...201425487757
bioconversion of α-pinene by a novel cold-adapted fungus chrysosporium pannorum.the psychrotrophic fungus chrysosporium pannorum a-1 is reported for the first time as a novel biocatalyst for o2-promoted oxidation of α-pinene. gc-ms analysis indicated that the main products of the reaction were compounds of a high commercial value, verbenol (1) and verbenone (2). exponentially growing cells (days 2-3) were about twice as active as cells in the late stationary phase in terms of the total concentration of products. the highest yields of 1 and 2 were obtained using three-day an ...201425487757
reactive oxygen species mediated bacterial biofilm inhibition via zinc oxide nanoparticles and their statistical determination.the formation of bacterial biofilm is a major challenge in clinical applications. the main aim of this study is to describe the synthesis, characterization and biocidal potential of zinc oxide nanoparticles (nps) against bacterial strain pseudomonas aeruginosa. these nanoparticles were synthesized via soft chemical solution process in a very short time and their structural properties have been investigated in detail by using x-ray diffraction and transmission electron microscopy measurements. in ...201425402188
foliar endophytic fungi as potential protectors from pathogens in myrmecophytic acacia plants.in defensive ant-plant interactions myrmecophytic plants express reduced chemical defense in their leaves to protect themselves from pathogens, and it seems that mutualistic partners are required to make up for this lack of defensive function. previously, we reported that mutualistic ants confer plants of acacia hindsii protection from pathogens, and that the protection is given by the ant-associated bacteria. here, we examined whether foliar endophytic fungi may potentially act as a new partner ...201426843901
detection of metallo-beta lactamases among carbapenem-resistant pseudomonas aeruginosa.carbapenems are important drugs used for the treatment of pseudomonas aeruginosa infections, however metallo-β-lactamases (mbl) are able to efficiently hydrolyze these classes of drugs. immediate detection of the mbl-producing p. aeruginosa is necessary in order to accurately treat infections caused by this organism.201425774271
applying nightingale charts to evaluate the heterogeneity of biomedical waste in a hospital.to evaluate the heterogeneity of biomedical waste (bw) using nightingale charts.201425591088
significance of serum antibodies against hsp 60 and hsp 70 for the diagnostic of infectious diseases.heat shock proteins (hsp) represent important antigenic targets for the immune response, playing an important role in the pathology and infectious diseases control. the purpose of this work was to investigate the levels of hsp60 and hsp70 specific antibodies in the bloodstream of patients with different bacterial infections and cancer, in order to evaluate their potential role as diagnosis markers of different infectious diseases. detection of specific anti-hsp 60 and hsp 70 serum levels was per ...201425483863
bacteria-bacteria interactions within the microbiota of the ancestral metazoan hydra contribute to fungal resistance.epithelial surfaces of most animals are colonized by diverse microbial communities. although it is generally agreed that commensal bacteria can serve beneficial functions, the processes involved are poorly understood. here we report that in the basal metazoan hydra, ectodermal epithelial cells are covered with a multilayered glycocalyx that provides a habitat for a distinctive microbial community. removing this epithelial microbiota results in lethal infection by the filamentous fungus fusarium ...201425514534
bacteria-bacteria interactions within the microbiota of the ancestral metazoan hydra contribute to fungal resistance.epithelial surfaces of most animals are colonized by diverse microbial communities. although it is generally agreed that commensal bacteria can serve beneficial functions, the processes involved are poorly understood. here we report that in the basal metazoan hydra, ectodermal epithelial cells are covered with a multilayered glycocalyx that provides a habitat for a distinctive microbial community. removing this epithelial microbiota results in lethal infection by the filamentous fungus fusarium ...201425514534
antibiotic susceptibilities of bacteria isolated within the oral flora of florida blacktip sharks: guidance for empiric antibiotic therapy.sharks possess a variety of pathogenic bacteria in their oral cavity that may potentially be transferred into humans during a bite. the aim of the presented study focused on the identification of the bacteria present in the mouths of live blacktip sharks, carcharhinus limbatus, and the extent that these bacteria possess multi-drug resistance. swabs were taken from the oral cavity of nineteen live blacktip sharks, which were subsequently released. the average fork length was 146 cm (±11), suggest ...201425110948
does netosis contribute to the bacterial pathoadaptation in cystic fibrosis?significant advances in our understanding of neutrophil biology were made in the past several years. the exciting discovery that neutrophils deploy neutrophil extracellular traps (nets) to catch pathogens paved the way for a series of additional studies to define the molecular mechanisms of net generation and the biological significance of netosis in acute and chronic pathologic conditions. this review highlights the latest knowledge regarding net structures, deployment, and function, with an em ...201425157250
identification of a novel nidovirus in an outbreak of fatal respiratory disease in ball pythons (python regius).respiratory infections are important causes of morbidity and mortality in reptiles; however, the causative agents are only infrequently identified.201425106433
preparation of dental resins resistant to enzymatic and hydrolytic degradation in oral environments.the short average service life of traditional dental composite restorative materials and increasing occurrence of secondary caries adjacent to composite restorations and sealants are necessitating the development of new, longer lasting compositions. novel monomers and their polymers, reinforcing fillers, and adhesive components are needed. the goal of this research is to develop resin systems for use in restorations, sealants, and other dental services that are superior in properties and enduran ...201526358180
skin-derived c-terminal filaggrin-2 fragments are pseudomonas aeruginosa-directed antimicrobials targeting bacterial replication.soil- and waterborne bacteria such as pseudomonas aeruginosa are constantly challenging body surfaces. since infections of healthy skin are unexpectedly rare, we hypothesized that the outermost epidermis, the stratum corneum, and sweat glands directly control the growth of p. aeruginosa by surface-provided antimicrobials. due to its high abundance in the upper epidermis and eccrine sweat glands, filaggrin-2 (flg2), a water-insoluble 248 kda s100 fused-type protein, might possess these innate eff ...201526371476
structure analysis uncovers a highly diverse but structurally conserved effector family in phytopathogenic fungi.phytopathogenic ascomycete fungi possess huge effector repertoires that are dominated by hundreds of sequence-unrelated small secreted proteins. the molecular function of these effectors and the evolutionary mechanisms that generate this tremendous number of singleton genes are largely unknown. to get a deeper understanding of fungal effectors, we determined by nmr spectroscopy the 3-dimensional structures of the magnaporthe oryzae effectors avr1-co39 and avr-pia. despite a lack of sequence simi ...201526506000
mechanism of aromatic amine carcinogen bypass by the y-family polymerase, dpo4.bulky dna damage inhibits dna synthesis by replicative polymerases and often requires the action of error prone bypass polymerases. the exact mechanism governing adduct-induced mutagenesis and its dependence on the dna sequence context remains unclear. in this work, we characterize dpo4 binding conformations and activity with dna templates modified with the carcinogenic dna adducts, 2-aminofluoene (af) or n-acetyl-2-aminofluorene (aaf), using single-molecule fret (smfret) analysis and dna synthe ...201526481355
port site infection in laparoscopic surgery: a review of its management.laparoscopic surgery (ls), also termed minimal access surgery, has brought a paradigm shift in the approach to modern surgical care. early postoperative recovery, less pain, improved aesthesis and early return to work have led to its popularity both amongst surgeons and patients. its application has progressed from cholecystectomies and appendectomies to various other fields including gastrointestinal surgery, urology, gynecology and oncosurgery. however, ls has its own package of complications. ...201526488021
multi-disciplinary antimicrobial strategies for improving orthopaedic implants to prevent prosthetic joint infections in hip and knee.like any foreign object, orthopaedic implants are susceptible to infection when introduced into the human body. without additional preventative measures, the absolute number of annual prosthetic joint infections will continue to rise, and may exceed the capacity of health care systems in the near future. bacteria are difficult to eradicate from synovial joints due to their exceptionally diverse taxonomy, complex mechanistic attachment capabilities, and tendency to evolve antibiotic resistance. w ...201526449208
p accumulation and physiological responses to different high p regimes in polygonum hydropiper for understanding a p-phytoremediation strategy.phosphorus (p) accumulators used for phytoremediation vary in their potential to acquire p from different high p regimes. growth and p accumulation in polygonum hydropiper were both dependent on an increasing level of ihp (1-8 mm p) and on a prolonged growth period (3-9 weeks), and those of the mining ecotype (me) were higher than the non-mining ecotype (nme). biomass increments in root, stem, and leaf of both ecotypes were significantly greater in ihp relative to other organic p (po) sources (g ...201526648137
Displaying items 901 - 1000 of 1128