Publications

biophysics. comment on "extreme electric fields power catalysis in the active site of ketosteroid isomerase".	fried et al. (reports, 19 december 2014, p. 1510) demonstrate electric field-dependent acceleration of biological catalysis using ketosteroid isomerase as a prototypic example. these findings were not extended to aqueous solution because water by itself has field fluctuations that are too large and fast to provide a catalytic effect. given physiological context, when water electrostatic interactions are considered, electric fields play a less important role in the catalysis.	2015	26315427
mechanistic implications of the unique structural features and dimerization of the cytoplasmic domain of the pseudomonas sigma regulator, pupr.	gram-negative bacteria tightly regulate intracellular levels of iron, an essential nutrient. to ensure this strict control, some outer membrane tonb-dependent transporters (tbdts) that are responsible for iron import stimulate their own transcription in response to extracellular binding by an iron-laden siderophore. this process is mediated by an inner membrane sigma regulator protein (an anti-sigma factor) that transduces an unknown periplasmic signal from the tbdt to release an intracellular s ...	2015	26313375
metabolic degradation of 1,4-dichloronaphthalene by pseudomonas sp. hy.	there is increasing concern regarding the adverse health effects of polychlorinated naphthalenes (pcns). the metabolic degradation of 1,4-dichloronaphthalene (1,4-dcn) as a model pcn, was studied using a strain of pseudomonas sp. hy. the metabolites were analyzed by gas chromatography-mass spectrometry (gc-ms). a series of metabolites including dihydroxy-dichloro-naphthalene, epoxy-dichlorinated naphthalene, dichlorinated naphthol, and dichlorinated salicylic acid were identified. the time-conce ...	2015	26308037
high-level expression, purification and large-scale production of l-methionine γ-lyase from idiomarina as a novel anti-leukemic drug.	l-methionine γ-lyase (mgl), a pyridoxal 5'-phosphate-dependent enzyme, possesses anti-tumor activity. however, the low activity of mgl blocks the anti-tumor effect. this study describes an efficient production process for the recombinant mgl (rmgl) from idiomarina constructed using the overexpression plasmid in escherichia coli bl21 (de3), purification, and large-scale production. the enzyme produced by the transformants accounted for 53% of the total proteins and accumulated at 1.95 mg/ml using ...	2015	26308011
rhizobacterial volatiles and photosynthesis-related signals coordinate myb72 expression in arabidopsis roots during onset of induced systemic resistance and iron-deficiency responses.	in arabidopsis roots, the transcription factor myb72 plays a dual role in the onset of rhizobacteria-induced systemic resistance (isr) and plant survival under conditions of limited iron availability. previously, it was shown that myb72 coordinates the expression of a gene module that promotes synthesis and excretion of iron-mobilizing phenolic compounds in the rhizosphere, a process that is involved in both iron acquisition and isr signaling. here, we show that volatile organic compounds (vocs) ...	2015	26307542
the cell shape-determining csd6 protein from helicobacter pylori constitutes a new family of l,d-carboxypeptidase.	helicobacter pylori causes gastrointestinal diseases, including gastric cancer. its high motility in the viscous gastric mucosa facilitates colonization of the human stomach and depends on the helical cell shape and the flagella. in h. pylori, csd6 is one of the cell shape-determining proteins that play key roles in alteration of cross-linking or by trimming of peptidoglycan muropeptides. csd6 is also involved in deglycosylation of the flagellar protein flaa. to better understand its function, b ...	2015	26306031
cellulose derived graphenic fibers for capacitive desalination of brackish water.	we describe a simple and inexpensive cellulose-derived and layer-by-layer stacked carbon fiber network electrode for capacitive deionization (cdi) of brackish water. the microstructure and chemical composition were characterized using spectroscopic and microscopic techniques; electrochemical/electrical performance was evaluated by cyclic voltammetry and 4-probe electrical conductivity and surface area by brunauer-emmett-teller analysis, respectively. the desalination performance was investigated ...	2015	26305260
functional identification of a novel gene, moae, for 3-succinoylpyridine degradation in pseudomonas putida s16.	microbial degradation of n-heterocyclic compounds, including xanthine, quinoline, nicotinate, and nicotine, frequently requires molybdenum hydroxylases. the intramolecular electron transfer chain of molybdenum hydroxylases consists of a molybdenum cofactor, two distinct [2fe-2s] clusters, and flavin adenine dinucleotide. 3-succinoylpyridine monooxygenase (spm), responsible for the transformation from 3-succinoylpyridine to 6-hydroxy-3-succinoylpyridine, is a crucial enzyme in the pyrrolidine pat ...	2015	26304596
crystal structure of pnpcd, a two-subunit hydroquinone 1,2-dioxygenase, reveals a novel structural class of fe2+-dependent dioxygenases.	aerobic microorganisms have evolved a variety of pathways to degrade aromatic and heterocyclic compounds. however, only several classes of oxygenolytic fission reaction have been identified for the critical ring cleavage dioxygenases. among them, the most well studied dioxygenases proceed via catecholic intermediates, followed by noncatecholic hydroxy-substituted aromatic carboxylic acids. therefore, the recently reported hydroquinone 1,2-dioxygenases add to the diversity of ring cleavage reacti ...	2015	26304122
genome-scale reconstruction of the metabolic network in pseudomonas stutzeri a1501.	pseudomonas stutzeri a1501 is an endophytic bacterium capable of nitrogen fixation. this strain has been isolated from the rice rhizosphere and provides the plant with fixed nitrogen and phytohormones. these interesting features encouraged us to study the metabolism of this microorganism at the systems-level. in this work, we present the first genome-scale metabolic model (ipb890) for p. stutzeri, involving 890 genes, 1135 reactions, and 813 metabolites. a combination of automatic and manual app ...	2015	26302703
a comparison of the microbial production and combustion characteristics of three alcohol biofuels: ethanol, 1-butanol, and 1-octanol.	over the last decade, microbes have been engineered for the manufacture of a variety of biofuels. saturated linear-chain alcohols have great potential as transport biofuels. their hydrocarbon backbones, as well as oxygenated content, confer combustive properties that make it suitable for use in internal combustion engines. herein, we compared the microbial production and combustion characteristics of ethanol, 1-butanol, and 1-octanol. in terms of productivity and efficiency, current microbial pl ...	2015	26301219
environmental stress speeds up dna replication in pseudomonas putida in chemostat cultivations.	cellular response to different types of stress is the hallmark of the cell's strategy for survival. how organisms adjust their cell cycle dynamics to compensate for changes in environmental conditions is an important unanswered question in bacterial physiology. a cell using binary fission for reproduction passes through three stages during its cell cycle: a stage from cell birth to initiation of replication, a dna replication phase and a period of cell division. we present a detailed analysis of ...	2016	26299279
2-(3'-indolyl)-n-arylthiazole-4-carboxamides: synthesis and evaluation of antibacterial and anticancer activities.	a new series of 2-(3'-indolyl)-n-arylthiazole-4-carboxamides 17a-p has been designed and synthesized. initial reaction of readily available thioamides 15 with bromopyruvic acid under refluxing conditions produced different thiazole carboxylic acids 16 which upon coupling with arylamines by using edci·hcl and hobt afforded diverse arylthiazole-4-carboxamides 17a-p in 78-87% yields. antibacterial activity evaluation against gram-positive and gram-negative bacterial strains led to compounds 17i-k a ...	2015	26298501
draft genome sequence of the phenol-degrading bacterium pseudomonas putida h.	in this study, we report the draft genome of pseudomonas putida h, a well-known bacterium capable of degrading various aromatic compounds. its genome size is 6,065 mbp with a gc content of 61.6%. this work will aid future studies on this versatile bacterium.	2015	26294632
draft genome sequence of pseudomonas sp. strain lfm046, a producer of medium-chain-length polyhydroxyalkanoate.	pseudomonas sp. lfm046 is a medium-chain-length polyhydroxyalkanoate (phamcl) producer capable of using various carbon sources (carbohydrates, organic acids, and vegetable oils) and was first isolated from sugarcane cultivation soil in brazil. the genome sequence was found to be 5.97 mb long with a g+c content of 66%.	2015	26294616
new delhi metallo-β-lactamase and oxa-48 carbapenemases in gram-negative bacilli isolates in libya.		2015	26294290
evaluation of phosphate-solubilizing bacteria on the growth and grain yield of rice (oryza sativa l.) cropped in northern iran.	this study aimed to evaluate the efficiency of four phosphate-solubilizing bacteria (psb) on the growth and yield of rice under different soil conditions.	2015	26294004
green synthesis and characterization of carica papaya leaf extract coated silver nanoparticles through x-ray diffraction, electron microscopy and evaluation of bactericidal properties.	the evolution of nanotechnology and the production of nanomedicine from various sources had proven to be of intense value in the field of biomedicine. the smaller size of nanoparticles is gaining importance in research for the treatment of various diseases. moreover the production of nanoparticles is eco-friendly and cost effective. in the present study silver nanoparticles were synthesized from carica papaya leaf extract (cpl) and characterized for their size and shape using scanning electron m ...	2015	26288570
salt stress induced changes in the exoproteome of the halotolerant bacterium tistlia consotensis deciphered by proteogenomics.	the ability of bacteria to adapt to external osmotic changes is fundamental for their survival. halotolerant microorganisms, such as tistlia consotensis, have to cope with continuous fluctuations in the salinity of their natural environments which require effective adaptation strategies against salt stress. changes of extracellular protein profiles from tistlia consotensis in conditions of low and high salinities were monitored by proteogenomics using a bacterial draft genome. at low salinity, w ...	2015	26287734
antimicrobial resistance of pseudomonas spp. isolated from wastewater and wastewater-impacted marine coastal zone.	in this study, species distribution and antimicrobial susceptibility of cultivated pseudomonas spp. were studied in influent (inf), effluent (eff), and marine outfall (mout) of wastewater treatment plant (wwtp). the susceptibility was tested against 8 antimicrobial classes, active against pseudomonas spp.: aminoglycosides, carbapenems, broad-spectrum cephalosporins from the 3rd and 4th generation, extended-spectrum penicillins, as well as their combination with the β-lactamase inhibitors, monoba ...	2015	26286796
assessing the genetic diversity of cu resistance in mine tailings through high-throughput recovery of full-length copa genes.	characterizing the genetic diversity of microbial copper (cu) resistance at the community level remains challenging, mainly due to the polymorphism of the core functional gene copa. in this study, a local blastn method using a copa database built in this study was developed to recover full-length putative copa sequences from an assembled tailings metagenome; these sequences were then screened for potentially functioning copa using conserved metal-binding motifs, inferred by evolutionary trace an ...	2015	26286020
reinvigorating natural product combinatorial biosynthesis with synthetic biology.	natural products continue to play a pivotal role in drug-discovery efforts and in the understanding if human health. the ability to extend nature's chemistry through combinatorial biosynthesis--altering functional groups, regiochemistry and scaffold backbones through the manipulation of biosynthetic enzymes--offers unique opportunities to create natural product analogs. incorporating emerging synthetic biology techniques has the potential to further accelerate the refinement of combinatorial bio ...	2015	26284672
co2 - intrinsic product, essential substrate, and regulatory trigger of microbial and mammalian production processes.	carbon dioxide formation mirrors the final carbon oxidation steps of aerobic metabolism in microbial and mammalian cells. as a consequence, [formula: see text] dissociation equilibria arise in fermenters by the growing culture. anaplerotic reactions make use of the abundant [formula: see text] levels for refueling citric acid cycle demands and for enabling oxaloacetate-derived products. at the same time, co2 is released manifold in metabolic reactions via decarboxylation activity. the levels of ...	2015	26284242
is the efficacy of biological control against plant diseases likely to be more durable than that of chemical pesticides?	the durability of a control method for plant protection is defined as the persistence of its efficacy in space and time. it depends on (i) the selection pressure exerted by it on populations of plant pathogens and (ii) on the capacity of these pathogens to adapt to the control method. erosion of effectiveness of conventional plant protection methods has been widely studied in the past. for example, apparition of resistance to chemical pesticides in plant pathogens or pests has been extensively d ...	2015	26284088
structure of bipa in gtp form bound to the ratcheted ribosome.	bpi-inducible protein a (bipa) is a member of the family of ribosome-dependent translational gtpase (trgtpase) factors along with elongation factors g and 4 (ef-g and ef4). despite being highly conserved in bacteria and playing a critical role in coordinating cellular responses to environmental changes, its structures (isolated and ribosome bound) remain elusive. here, we present the crystal structures of apo form and gtp analog, gdp, and guanosine-3',5'-bisdiphosphate (ppgpp)-bound bipa. in add ...	2015	26283392
interference competition among household strains of pseudomonas.	bacterial species exhibit biogeographical patterns like those observed in larger organisms. the distribution of bacterial species is driven by environmental selection through abiotic and biotic factors as well dispersal limitations. we asked whether interference competition, a biotic factor, could explain variability in habitat use by pseudomonas species in the human home. to answer this question, we screened almost 8000 directional, pairwise interactions between 89 pseudomonas strains including ...	2016	26276409
pseudomonas alkylphenolica sp. nov., a bacterial species able to form special aerial structures when grown on p-cresol.	pseudomonas sp. kl28t is an aerobic, rod-shaped bacterium that was isolated from the soil of changwon, south korea, based on its ability to grow in the presence of linear alkylphenols (c1-c5). despite several studies on strain kl28t, it could not be assigned to any known species in the genus pseudomonas. the name 'pseudomonas alkylphenolia' was proposed for kl28t, but the strain had not until now been characterized taxonomically and the name currently has no standing in the bacterial nomenclatur ...	2015	26276124
identification of the mcpa and mcpm genes, encoding methyl-accepting proteins involved in amino acid and l-malate chemotaxis, and involvement of mcpm-mediated chemotaxis in plant infection by ralstonia pseudosolanacearum (formerly ralstonia solanacearum phylotypes i and iii).	sequence analysis has revealed the presence of 22 putative methyl-accepting chemotaxis protein (mcp) genes in the ralstonia pseudosolanacearum gmi1000 genome. pcr analysis and dna sequencing showed that the highly motile r. pseudosolanacearum strain ps29 possesses homologs of all 22 r. pseudosolanacearum gmi1000 mcp genes. we constructed a complete collection of single mcp gene deletion mutants of r. pseudosolanacearum ps29 by unmarked gene deletion. screening of the mutant collection revealed t ...	2015	26276117
non-selective evolution of growing populations.	non-selective effects, like genetic drift, are an important factor in modern conceptions of evolution, and have been extensively studied for constant population sizes (kimura, 1955; otto and whitlock, 1997). here, we consider non-selective evolution in the case of growing populations that are of small size and have varying trait compositions (e.g. after a population bottleneck). we find that, in these conditions, populations never fixate to a trait, but tend to a random limit composition, and th ...	2015	26274606
diverse reductive dehalogenases are associated with clostridiales-enriched microcosms dechlorinating 1,2-dichloroethane.	the achievement of successful biostimulation of active microbiomes for the cleanup of a polluted site is strictly dependent on the knowledge of the key microorganisms equipped with the relevant catabolic genes responsible for the degradation process. in this work, we present the characterization of the bacterial community developed in anaerobic microcosms after biostimulation with the electron donor lactate of groundwater polluted with 1,2-dichloroethane (1,2-dca). through a multilevel analysis, ...	2015	26273600
characteristics of dr1790 disruptant and its functional analysis in deinococcus radiodurans.	deinococcus radiodurans (dr) is an extremophile that is well known for its resistance to radiation, oxidants and desiccation. the gene dr1790 of d. radiodurans was predicted to encode a yellow-related protein. the primary objective of the present study was to characterize the biological function of the dr1790 protein, which is a member of the ancient yellow/major royal jelly (mrj) protein family, in prokaryotes. fluorescence labeling demonstrated that the yellow-related protein encoded by dr1790 ...	2015	26273280
biomineralization processes of calcite induced by bacteria isolated from marine sediments.	biomineralization is a known natural phenomenon associated with a wide range of bacterial species. bacterial-induced calcium carbonate precipitation by marine isolates was investigated in this study. three genera of ureolytic bacteria, sporosarcina sp., bacillus sp. and brevundimonas sp. were observed to precipitate calcium carbonate minerals. of these species, sporosarcina sp. dominated the cultured isolates. b. lentus cp28 generated higher urease activity and facilitated more efficient precipi ...	2015	26273260
psychrotrophic bacteria in milk: how much do we really know?	the occurrence of psychrotrophic bacteria in raw milk is studied worldwide due to the difficulties associated with controlling their growth during cold storage and the consequent negative effects upon fluid milk or dairy products. among the psychrotrophic bacteria, the genus pseudomonas (represented primarily by p. fluorescens) has been highlighted as the cause of numerous defects in dairy products. in light of its perceived predominance, this species has frequently been chosen as a model organi ...	2015	26273245
complete biosynthesis of opioids in yeast.	opioids are the primary drugs used in western medicine for pain management and palliative care. farming of opium poppies remains the sole source of these essential medicines, despite diverse market demands and uncertainty in crop yields due to weather, climate change, and pests. we engineered yeast to produce the selected opioid compounds thebaine and hydrocodone starting from sugar. all work was conducted in a laboratory that is permitted and secured for work with controlled substances. we comb ...	2015	26272907
l-citrulline production by metabolically engineered corynebacterium glutamicum from glucose and alternative carbon sources.	l-citrulline plays an important role in human health and nutrition and is an intermediate of the l-arginine biosynthetic pathway. l-citrulline is a by-product of l-arginine production by corynebacterium glutamicum. in this study, c. glutamicum was engineered for overproduction of l-citrulline as major product without l-arginine being produced as by-product. to this end, l-arginine biosynthesis was derepressed by deletion of the arginine repressor gene argr and conversion of l-citrulline towards ...	2014	26267114
photosynthetic aeration in biological wastewater treatment using immobilized microalgae-bacteria symbiosis.	chlorella vulgaris encapsulated in alginate beads were added into a bioreactor treating synthetic wastewater using pseudomonas putida. a symbiotic co2/o2 gas exchange was established between the two microorganisms for photosynthetic aeration of wastewater. during batch operation, glucose removal efficiency in the bioreactor improved from 50% in 12 h without aeration to 100% in 6 h, when the bioreactor was aerated photosynthetically. during continuous operation, the bioreactor was operated at a l ...	2015	26266755
structural and functional adaptation of vancomycin resistance vant serine racemases.	vancomycin resistance in gram-positive bacteria results from the replacement of the d-alanyl-d-alanine target of peptidoglycan precursors with d-alanyl-d-lactate or d-alanyl-d-serine (d-ala-d-ser), to which vancomycin has low binding affinity. vant is one of the proteins required for the production of d-ala-d-ser-terminating precursors by converting l-ser to d-ser. vant is composed of two domains, an n-terminal membrane-bound domain, likely involved in l-ser uptake, and a c-terminal cytoplasmic ...	2015	26265719
bacterial rotary export atpases are allosterically regulated by the nucleotide second messenger cyclic-di-gmp.	the widespread second messenger molecule cyclic di-gmp (cdg) regulates the transition from motile and virulent lifestyles to sessile, biofilm-forming ones in a wide range of bacteria. many pathogenic and commensal bacterial-host interactions are known to be controlled by cdg signaling. although the biochemistry of cyclic dinucleotide metabolism is well understood, much remains to be discovered about the downstream signaling pathways that induce bacterial responses upon cdg binding. as part of ou ...	2015	26265469
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.	2015	26264238
bioaugmentation of mesorhizobium cicer, pseudomonas spp. and piriformospora indica for sustainable chickpea production.	chickpea establishes symbiotic association with mesorhizobium to fulfill its nitrogen (n) requirement. integrating chickpea rhizosphere with potential native mesorhizobia and other plant growth promoting microorganisms can contribute multiple benefits to plants. the present investigation was undertaken to study interactions among piriformospora indica (pi) with potential plant growth promoting rhizobacteria (pgpr) viz. pseudomonas argentinensis (lpgpr1), pseudomonas sp. (lpgpr2) along with natio ...	2015	26261403
analysis of the core genome and pangenome of pseudomonas putida.	pseudomonas putida are strict aerobes that proliferate in a range of temperate niches and are of interest for environmental applications due to their capacity to degrade pollutants and ability to promote plant growth. furthermore solvent-tolerant strains are useful for biosynthesis of added-value chemicals. we present a comprehensive comparative analysis of nine strains and the first characterization of the pseudomonas putida pangenome. the core genome of p. putida comprises approximately 3386 g ...	2016	26261031
isolation of a diphenylamine-degrading bacterium and characterization of its metabolic capacities, bioremediation and bioaugmentation potential.	the antioxidant diphenylamine (dpa) is used in fruit-packaging plants for the control of the physiological disorder apple scald. its use results in the production of dpa-contaminated wastewater which should be treated before finally discharged. biological treatment systems using tailored-made microbial inocula with specific catabolic activities comprise an appealing and sustainable solution. this study aimed to isolate dpa-degrading bacteria, identify the metabolic pathway of dpa and evaluate th ...	2015	26260839
origin and impact of nitric oxide in pseudomonas aeruginosa biofilms.	the formation of the organized bacterial community called biofilm is a crucial event in bacterial physiology. given that biofilms are often refractory to antibiotics and disinfectants to which planktonic bacteria are susceptible, their formation is also an industrially and medically relevant issue. pseudomonas aeruginosa, a well-known human pathogen causing acute and chronic infections, is considered a model organism to study biofilms. a large number of environmental cues control biofilm dynamic ...	2015	26260455
origin and impact of nitric oxide in pseudomonas aeruginosa biofilms.	the formation of the organized bacterial community called biofilm is a crucial event in bacterial physiology. given that biofilms are often refractory to antibiotics and disinfectants to which planktonic bacteria are susceptible, their formation is also an industrially and medically relevant issue. pseudomonas aeruginosa, a well-known human pathogen causing acute and chronic infections, is considered a model organism to study biofilms. a large number of environmental cues control biofilm dynamic ...	2015	26260455
efficacy of ph elevation as a bactericidal strategy for treating ballast water of freight carriers.	treatment of ship ballast water with sodium hydroxide (naoh) is one method currently being developed to minimize the risk to introduce aquatic invasive species. the bactericidal capability of sodium hydroxide was determined for 148 bacterial strains from ballast water collected in 2009 and 2010 from the m/v indiana harbor, a bulk-freight carrier plying the laurentian great lakes, usa. primary culture of bacteria was done using brain heart infusion agar and a developmental medium. strains were ch ...	2015	26257948
plant growth promotion induced by phosphate solubilizing endophytic pseudomonas isolates.	the use of plant growth promoting bacterial inoculants as live microbial biofertilizers provides a promising alternative to chemical fertilizers and pesticides. inorganic phosphate solubilization is one of the major mechanisms of plant growth promotion by plant associated bacteria. this involves bacteria releasing organic acids into the soil which solubilize the phosphate complexes converting them into ortho-phosphate which is available for plant up-take and utilization. the study presented here ...	2015	26257721
alcohol selectivity in a synthetic thermophilic n-butanol pathway is driven by biocatalytic and thermostability characteristics of constituent enzymes.	n-butanol is generated as a natural product of metabolism by several microorganisms, but almost all grow at mesophilic temperatures. a synthetic pathway for n-butanol production from acetyl coenzyme a (acetyl-coa) that functioned at 70°c was assembled in vitro from enzymes recruited from thermophilic bacteria to inform efforts for engineering butanol production into thermophilic hosts. recombinant versions of eight thermophilic enzymes (β-ketothiolase [thl], 3-hydroxybutyryl-coa dehydrogenase [h ...	2015	26253677
identification of the gene cluster for the anaerobic degradation of 3,5-dihydroxybenzoate (α-resorcylate) in thauera aromatica strain ar-1.	thauera aromatica strain ar-1 degrades 3,5-dihydroxybenzoate (3,5-dhb) with nitrate as an electron acceptor. previous biochemical studies have shown that this strain converts 3,5-dhb to hydroxyhydroquinone (1,2,4-trihydroxybenzene) through water-dependent hydroxylation of the aromatic ring and subsequent decarboxylation, and they suggest a pathway homologous to that described for the anaerobic degradation of 1,3-dihydroxybenzene (resorcinol) by azoarcus anaerobius. southern hybridization of a t. ...	2015	26253674
effects of formulation on microbicide potency and mitigation of the development of bacterial insusceptibility.	risk assessments of the potential for microbicides to select for reduced bacterial susceptibility have been based largely on data generated through the exposure of bacteria to microbicides in aqueous solution. since microbicides are normally formulated with multiple excipients, we have investigated the effect of formulation on antimicrobial activity and the induction of bacterial insusceptibility. we tested 8 species of bacteria (7 genera) before and after repeated exposure (14 passages), using ...	2015	26253662
homogentisate 1-2-dioxygenase downregulation in the chronic persistence of pseudomonas aeruginosa australian epidemic strain-1 in the cf lung.	some pseudomonas aeruginosa strains including australian epidemic strain-1 (aes-1 or aus-01) cause persistent chronic infection in cystic fibrosis (cf) patients, with greater morbidity and mortality. factors conferring persistence are largely unknown. previously we analysed the transcriptomes of aes-1 grown in luria broth, nematode growth medium for caenorhabditis elegans assay (both aerobic) and artificial sputum medium (mainly hypoxic). transcriptional comparisons included chronic aes-1 strain ...	2015	26252386
phylogenetic analysis of methionine synthesis genes from thalassiosira pseudonana.	diatoms are unicellular algae responsible for approximately 20% of global carbon fixation. their evolution by secondary endocytobiosis resulted in a complex cellular structure and metabolism compared to algae with primary plastids. the sulfate assimilation and methionine synthesis pathways provide s-containing amino acids for the synthesis of proteins and a range of metabolites such as dimethylsulfoniopropionate. to obtain an insight into the localization and organization of the sulfur metabolis ...	2015	26251775
occurrence of potentially pathogenic bacterial-endosymbionts in acanthamoeba spp.	acanthamoeba- bacteria interactions enable pathogenic bacteria to tolerate harsh conditions and lead to transmission to the susceptible host. the present study was aimed to address the presence of bacterial endosymbionts of acanthamoeba isolated from recreational water sources of tehran, iran. to the best of our knowledge this is the first study regarding occurrence of bacteria in environmental acanthamoeba spp. in iran.	2015	26246815
assessment of toxicity and biodegradability on activated sludge of priority and emerging pollutants.	several methods for evaluating the toxicity and biodegradability of hazardous pollutants (chlorinated compounds, chemical additives and pharmaceuticals) have been studied in this work. different bioassays using representative bacteria of marine and terrestrial ecosystems such as vibrio fischeri and pseudomonas putida have been used to assess the ecotoxicity. activated sludge was used to analyse the effect of those pollutants in a biological reactor of a sewage treatment plant (stp). the results ...	2016	26243262
whole-genome sequencing targets drug-resistant bacterial infections.	during the past two decades, the technological progress of whole-genome sequencing (wgs) had changed the fields of environmental microbiology and biotechnology, and, currently, is changing the underlying principles, approaches, and fundamentals of public health, epidemiology, health economics, and national productivity. today's wgs technologies are able to compete with conventional techniques in cost, speed, accuracy, and resolution for day-to-day control of infectious diseases and outbreaks in ...	2015	26243131
vibrio cholerae csra regulates toxr levels in response to amino acids and is essential for virulence.	toxr is a major virulence gene regulator in vibrio cholerae. although constitutively expressed under many laboratory conditions, our previous work demonstrated that the level of toxr increases significantly when cells are grown in the presence of the 4 amino acids asparagine, arginine, glutamate, and serine (nres). we show here that the increase in toxr production in response to nres requires the var/csr global regulatory circuit. the vars/vara two-component system controls the amount of active ...	2015	26242626
the potential of using low cost naturally available biogenic substrates for biological removal of chlorophenol.	this study details the application of naturally available biogenic substrates (nabs) in microbial degradation of 2-chlorophenol (cp). jatropha deoiled cakes (jdc) and karanja deoiled cakes (kdc) are used as nabs. the potential of nabs is compared with standard biogenic substrate, glucose. the study was carried out with both acclimatized mixed culture and pure culture, pseudomonas putida. microbial activity of the culture was monitored by measuring reduction in chlorophenol concentration, cod, to ...	2015	26238237
a new strategy for smoking cessation: characterization of a bacterial enzyme for the degradation of nicotine.	smoking is the leading cause of preventable diseases; thus, effective smoking cessation aids are crucial for reducing the prevalence of cigarette smoking and smoking-related illnesses. in our current campaign we offer a nicotine-degrading enzyme from pseudomonas putida, nica2, a flavin-containing protein. to explore its potential, a kinetic evaluation of the enzyme was conducted, which included determination of k(m), k(cat), buffer/serum half-life, and thermostability. additionally, the cataboli ...	2015	26237398
characterization of ph dependent mn(ii) oxidation strategies and formation of a bixbyite-like phase by mesorhizobium australicum t-g1.	despite the ubiquity of mn oxides in natural environments, there are only a few observations of biological mn(ii) oxidation at ph < 6. the lack of low ph mn-oxidizing bacteria (mob) isolates limits our understanding of how ph influences biological mn(ii) oxidation in extreme environments. here, we report that a novel mob isolate, mesorhizobium australicum strain t-g1, isolated from an acidic and metalliferous uranium mining area, can oxidize mn(ii) at both acidic and neutral ph using different e ...	2015	26236307
extracellular expression of natural cytosolic arginine deiminase from pseudomonas putida and its application in the production of l-citrulline.	the pseudomonas putida arginine deiminase (adi), a natural cytosolic enzyme, and thermobifida fusca cutinase were co-expressed in escherichia coli, and the optimized cutinase gene was used for increasing its expression level. 90.9% of the total adi protein was released into culture medium probably through a nonspecific leaking mechanism caused by the co-expressed cutinase. the enzymatic properties of the extracellular adi were found to be similar to those of adi prepared by conventional cytosoli ...	2015	26233330
three novel lantibiotics, ticins a1, a3, and a4, have extremely stable properties and are promising food biopreservatives.	lantibiotics are antimicrobial peptides with potential applications as the next generation of antimicrobials in the food industry and/or the pharmaceutical industry. nisin has successfully been used as a food preservative for over 40 years, but its major drawback is its limited stability under neutral and alkaline ph conditions. to identify alternatives with better biochemical properties, we screened more than 100 strains of the bacillus cereus group. three novel lantibiotics, ticins a1 (4,062.9 ...	2015	26231642
pseudomonas aeruginosa iscr-regulated ferredoxin nadp(+) reductase gene (fprb) functions in iron-sulfur cluster biogenesis and multiple stress response.	p. aeruginosa (pao1) has two putative genes encoding ferredoxin nadp(+) reductases, denoted fpra and fprb. here, the regulation of fprb expression and the protein's physiological roles in [4fe-4s] cluster biogenesis and stress protection are characterized. the fprb mutant has defects in [4fe-4s] cluster biogenesis, as shown by reduced activities of [4fe-4s] cluster-containing enzymes. inactivation of the gene resulted in increased sensitivity to oxidative, thiol, osmotic and metal stresses compa ...	2015	26230408
biochemical and spectroscopic studies of epoxyqueuosine reductase: a novel iron-sulfur cluster- and cobalamin-containing protein involved in the biosynthesis of queuosine.	queuosine is a hypermodified nucleoside present in the wobble position of trnas with a 5'-gun-3' sequence in their anticodon (his, asp, asn, and tyr). the 7-deazapurine core of the base is synthesized de novo in prokaryotes from guanosine 5'-triphosphate in a series of eight sequential enzymatic transformations, the final three occurring on trna. epoxyqueuosine reductase (queg) catalyzes the final step in the pathway, which entails the two-electron reduction of epoxyqueuosine to form queuosine. ...	2015	26230193
removal of protein capping enhances the antibacterial efficiency of biosynthesized silver nanoparticles.	the present study demonstrates an economical and environmental affable approach for the synthesis of "protein-capped" silver nanoparticles in aqueous solvent system. a variety of standard techniques viz. uv-visible spectroscopy, transmission electron microscopy (tem), energy dispersive spectroscopy (eds) and x-ray diffraction (xrd) measurements were employed to characterize the shape, size and composition of nanoparticles. the synthesized nanoparticles were found to be homogenous, spherical, mon ...	2015	26226385
the role of czcrs two-component systems in the heavy metal resistance of pseudomonas putida x4.	the role of different czcrs genes in metal resistance and the cross-link between czcrs and czccba in pseudomonas putida x4 were studied to advance understanding of the mechanisms by which p. putida copes with metal stress. similar to p. putida kt2440, two complete czcrs1 and czcrs2 two-component systems, as well as a czcr3 without the corresponding sensing component were amplified in p. putida x4. the histidine kinase genes czcs1 and czcs2 were inactivated and fused to lacz by homologous recombi ...	2015	26225958
meloidogyne incognita - rice (oryza sativa) interaction: a new model system to study plant-root-knot nematode interactions in monocotyledons.	plant-parasitic nematodes developed strategies to invade and colonize their host plants, including expression of immune suppressors to overcome host defenses. meloidogyne graminicola and m. incognita are root-knot nematode (rkn) species reported to damage rice (oryza sativa l.) cultivated in upland and irrigated systems. despite m. incognita wide host range, study of the molecular plant - rkn interaction has been so far limited to a few dicotyledonous model plants. the aim of this study was to i ...	2014	26224554
interplay of the ptsn (eiia(ntr)) protein of pseudomonas putida with its target sensor kinase kdpd.	the nitrogen phosphotransferase system (pts(ntr) ) of pseudomonas putida is a multi-component regulatory device that participates in controlling a variety of physiological processes in a post-translational fashion. a general survey of genes regulated by ptsn exposed transcription of the kdpfabc operon is most conspicuously affected. measurements of kdpfp promoter activity in different pts mutants showed that ptsn is responsible for repression of kdpfabc transcription. this effect could be assign ...	2015	26224366
biofilms and extracellular polymeric substances mediate the transport of graphene oxide nanoparticles in saturated porous media.	understanding the fate and transport of graphene oxide nanoparticles (gonps) in the subsurface environments is of crucial importance since they may pose potential risks to the environment and human health. however, little is known about the significance of biofilm on mobility of gonps in the subsurface. here we investigated the transport of gonps in saturated sand coated with bacillus subtilis (gram-positive) and pseudomonas putida (gram-negative) biofilms, and their secreted extracellular polym ...	2015	26223021
transcriptome profiling of wild-type and pga-knockout mutant strains reveal the role of exopolysaccharide in aggregatibacter actinomycetemcomitans.	exopolysaccharides have a diverse set of functions in most bacteria including a mechanistic role in protecting bacteria against environmental stresses. among the many functions attributed to the exopolysaccharides, biofilm formation, antibiotic resistance, immune evasion and colonization have been studied most extensively. the exopolysaccharide produced by many gram positive as well as gram negative bacteria including the oral pathogen aggregatibacter actinomycetemcomitans is the homopolymer of ...	2015	26221956
a high-throughput screening assay for distinguishing nitrile hydratases from nitrilases.	a modified colorimetric high-throughput screen based on ph changes combined with an amidase inhibitor capable of distinguishing between nitrilases and nitrile hydratases. this enzymatic screening is based on a binary response and is suitable for the first step of hierarchical screening projects.	2015	26221095
bioremediation of polyaromatic hydrocarbons (pahs) using rhizosphere technology.	the remediation of polluted sites has become a priority for society because of increase in quality of life standards and the awareness of environmental issues. over the past few decades there has been avid interest in developing in situ strategies for remediation of environmental contaminants, because of the high economic cost of physicochemical strategies, the biological tools for remediation of these persistent pollutants is the better option. major foci have been considered on persistent orga ...	2015	26221084
in vitro effect of bergamot (citrus bergamia) juice against caga-positive and-negative clinical isolates of helicobacter pylori.	helicobacter pylori infection has been associated with chronic gastritis, peptic ulcer and gastric carcinoma as over half of the world's population is colonized with this gram-negative bacterium. due to the increasing antibiotic resistance, its eradication rates fails in a great portion of patients. a number of studies showed that molecules largely distributed in commonly consumed fruits and vegetables may have antimicrobial activity. the aim of the present study was to investigate the effect of ...	2015	26220068
characterization of culturable bacterial endophytes and their capacity to promote plant growth from plants grown using organic or conventional practices.	plants have a diverse internal microbial biota that has been shown to have an important influence on a range of plant health attributes. although these endophytes have been found to be widely occurring, few studies have correlated agricultural production practices with endophyte community structure and function. one agricultural system that focuses on preserving and enhancing soil microbial abundance and biodiversity is organic farming, and numerous studies have shown that organically managed sy ...	2015	26217348
haloarchaea endowed with phosphorus solubilization attribute implicated in phosphorus cycle.	archaea are unique microorganisms that are present in ecological niches of high temperature, ph and salinity. a total of 157 archaea were obtained from thirteen sediment, water and rhizospheric soil samples collected from rann of kutch, gujarat, india. with an aim to screen phosphate solubilizing archaea, a new medium was designed as haloarchaea p solubilization (hps) medium. the medium supported the growth and p solubilization activity of archaea. employing the hps medium, twenty isolates showe ...	2015	26216440
endophytic bacteria from piper tuberculatum jacq.: isolation, molecular characterization, and in vitro screening for the control of fusarium solani f. sp piperis, the causal agent of root rot disease in black pepper (piper nigrum l.).	endophytic bacteria have been found to colonize internal tissues in many different plants, where they can have several beneficial effects, including defense against pathogens. in this study, we aimed to identify endophytic bacteria associated with roots of the tropical piperaceae piper tuberculatum, which is known for its resistance to infection by fusarium solani f. sp piperis, the causal agent of black pepper (piper nigrum) root rot disease in the amazon region. based on 16s rrna gene sequence ...	2015	26214435
acetylcholinesterase in biofouling species: characterization and mode of action of cyanobacteria-derived antifouling agents.	effective and ecofriendly antifouling (af) compounds have been arising from naturally produced chemicals. the objective of this study is to use cyanobacteria-derived agents to investigate the role of acetylcholinesterase (ache) activity as an effect and/or mode of action of promising af compounds, since ache inhibitors were found to inhibit invertebrate larval settlement. to pursue this objective, in vitro quantification of ache activity under the effect of several cyanobacterial strain extracts ...	2015	26213967
high voltage electrochemiluminescence (ecl) as a new method for detection of pah during screening for pah-degrading microbial consortia.	the search for new bacterial consortia capable of removing pah from the environment is associated with the need to employ novel, simple, and economically efficient detection methods. a fluorimetric method (fl) as well as high voltage electrochemiluminescence (ecl) on a modified surface of an aluminum electrode were used in order to determine the changes in the concentrations of pah in the studied aqueous solutions. the ecl signal (the spectrum and emission intensity for a given wavelength) was d ...	2015	26213425
phenolic wastewater treatment through extractive recovery coupled with biodegradation in a two-phase partitioning membrane bioreactor.	a two-phase partitioning membrane bioreactor (tppmb) was designed and operated for treatment of high strength phenolic wastewater through extraction/stripping and concomitant biodegradation. tributyl phosphate dissolved in kerosene was used as the organic phase, sodium hydroxide as the stripping phase and pseudomonas putida for biodegradation. in a semi-dispersive approach, organic phase dispersed in the stripping solution was contacted with wastewater through semi-permeable membranes for remova ...	2015	26210322
characterization of para-nitrophenol-degrading bacterial communities in river water by using functional markers and stable isotope probing.	microbial degradation is a major determinant of the fate of pollutants in the environment. para-nitrophenol (pnp) is an epa-listed priority pollutant with a wide environmental distribution, but little is known about the microorganisms that degrade it in the environment. we studied the diversity of active pnp-degrading bacterial populations in river water using a novel functional marker approach coupled with [(13)c6]pnp stable isotope probing (sip). culturing together with culture-independent ter ...	2015	26209677
sequencing of plasmids pambl1 and pambl2 from pseudomonas aeruginosa reveals a blavim-1 amplification causing high-level carbapenem resistance.	carbapenemases are a major concern for the treatment of infectious diseases caused by gram-negative bacteria. although plasmids are responsible for the spread of resistance genes among these pathogens, there is limited information on the nature of the mobile genetic elements carrying carbapenemases in pseudomonas aeruginosa.	2015	26209313
functional characterization of the mannitol promoter of pseudomonas fluorescens dsm 50106 and its application for a mannitol-inducible expression system for pseudomonas putida kt2440.	a new pbbr1mcs-2-derived vector containing the pseudomonas fluorescens dsm10506 mannitol promoter pmtle and mtlr encoding its arac/xyls type transcriptional activator was constructed and optimized for low basal expression. mannitol, arabitol, and glucitol-inducible gene expression was demonstrated with pseudomonas putida and egfp as reporter gene. the new vector was applied for functional characterization of pmtle. identification of the dna binding site of mtlr was achieved by in vivo egfp measu ...	2015	26207762
development of a tightly controlled off switch for saccharomyces cerevisiae regulated by camphor, a low-cost natural product.	here we describe the engineering of a distant homolog of the tet repressor, camr, isolated from pseudomonas putida, that is regulated by camphor, a very inexpensive small molecule (at micromolar concentrations) for use in saccharomyces cerevisiae. the repressor was engineered by expression from a constitutive yeast promoter, fusion to a viral activator protein cassette, and codon optimization. a suitable promoter responsive to the camr fusion protein was engineered by embedding a p. putida opera ...	2015	26206350
draft genome sequence of caprolactam-degrading pseudomonas putida strain sj3.	pseudomonas putida strain sj3, which possesses caprolactam-degrading ability, was isolated from dyeing industry wastewater in daegu, republic of korea. here, we describe the draft genome sequence and annotation of the strain. the 5,596,765-bp-long genome contains 4,293 protein-coding genes and 68 rna genes with 61.70% g+c content.	2015	26205864
characterization of dye-decolorizing peroxidase (dyp) from thermomonospora curvata reveals unique catalytic properties of a-type dyps.	dye-decolorizing peroxidases (dyps) comprise a new family of heme peroxidases, which has received much attention due to their potential applications in lignin degradation. a new dyp from thermomonospora curvata (tcdyp) was identified and characterized. unlike other a-type enzymes, tcdyp is highly active toward a wide range of substrates including model lignin compounds, in which the catalytic efficiency with abts (kcat(app)/km(app) = (1.7 × 10(7)) m(-1) s(-1)) is close to that of fungal dyps. st ...	2015	26205819
a novel quality measure and correction procedure for the annotation of microbial translation initiation sites.	the identification of translation initiation sites (tiss) constitutes an important aspect of sequence-based genome analysis. an erroneous tis annotation can impair the identification of regulatory elements and n-terminal signal peptides, and also may flaw the determination of descent, for any particular gene. we have formulated a reference-free method to score the tis annotation quality. the method is based on a comparison of the observed and expected distribution of all tiss in a particular gen ...	2015	26204119
high quality draft genome sequence and analysis of pontibacter roseus type strain src-1(t) (dsm 17521(t)) isolated from muddy waters of a drainage system in chandigarh, india.	pontibacter roseus is a member of genus pontibacter family cytophagaceae, class cytophagia. while the type species of the genus pontibacter actiniarum was isolated in 2005 from a marine environment, subsequent species of the same genus have been found in different types of habitats ranging from seawater, sediment, desert soil, rhizosphere, contaminated sites, solar saltern and muddy water. here we describe the features of pontibacter roseus strain src-1(t) along with its complete genome sequence ...	2015	26203325
cyanobacteria: photoautotrophic microbial factories for the sustainable synthesis of industrial products.	cyanobacteria are widely distributed gram-negative bacteria with a long evolutionary history and the only prokaryotes that perform plant-like oxygenic photosynthesis. cyanobacteria possess several advantages as hosts for biotechnological applications, including simple growth requirements, ease of genetic manipulation, and attractive platforms for carbon neutral production process. the use of photosynthetic cyanobacteria to directly convert carbon dioxide to biofuels is an emerging area of intere ...	2015	26199945
unearthing the genomes of plant-beneficial pseudomonas model strains wcs358, wcs374 and wcs417.	plant growth-promoting rhizobacteria (pgpr) can protect plants against pathogenic microbes through a diversity of mechanisms including competition for nutrients, production of antibiotics, and stimulation of the host immune system, a phenomenon called induced systemic resistance (isr). in the past 30 years, the pseudomonas spp. pgpr strains wcs358, wcs374 and wcs417 of the willie commelin scholten (wcs) collection have been studied in detail in pioneering papers on the molecular basis of pgpr-me ...	2015	26198432
bioactive 7-oxabicyclic[6.3.0]lactam and 12-membered macrolides from a gorgonian-derived cladosporium sp. fungus.	one new bicyclic lactam, cladosporilactam a (1), and six known 12-membered macrolides (2-7) were isolated from a gorgonian-derived cladosporium sp. fungus collected from the south china sea. their complete structural assignments were elucidated by comprehensive spectroscopic investigation. quantum chemistry calculations were used in support of the structural determination of 1. the absolute configuration of 1 was determined by calculation of its optical rotation. cladosporilactam a (1) was the f ...	2015	26198234
entner-doudoroff pathway for sulfoquinovose degradation in pseudomonas putida sq1.	sulfoquinovose (sq; 6-deoxy-6-sulfoglucose) is the polar head group of the plant sulfolipid sq-diacylglycerol, and sq comprises a major proportion of the organosulfur in nature, where it is degraded by bacteria. a first degradation pathway for sq has been demonstrated recently, a "sulfoglycolytic" pathway, in addition to the classical glycolytic (embden-meyerhof) pathway in escherichia coli k-12; half of the carbon of sq is abstracted as dihydroxyacetonephosphate (dhap) and used for growth, wher ...	2015	26195800
regulation mechanism of the ald gene encoding alanine dehydrogenase in mycobacterium smegmatis and mycobacterium tuberculosis by the lrp/asnc family regulator aldr.	in the presence of alanine, aldr, which belongs to the lrp/asnc family of transcriptional regulators and regulates ald encoding alanine dehydrogenase in mycobacterium smegmatis, changes its quaternary structure from a homodimer to an octamer with an open-ring conformation. four aldr-binding sites (o2, o1, o4, and o3) with a consensus sequence of ga/t-n2-nww/wwn-n2-a/tc were identified upstream of the m. smegmatis ald gene by means of dnase i footprinting analysis. o2, o1, and o4 are required for ...	2015	26195594
allopatric integrations selectively change host transcriptomes, leading to varied expression efficiencies of exotic genes in myxococcus xanthus.	exotic genes, especially clustered multiple-genes for a complex pathway, are normally integrated into chromosome for heterologous expression. the influences of insertion sites on heterologous expression and allotropic expressions of exotic genes on host remain mostly unclear.	2015	26194479
transcription factor-based biosensors enlightened by the analyte.	whole cell biosensors (wcbs) have multiple applications for environmental monitoring, detecting a wide range of pollutants. wcbs depend critically on the sensitivity and specificity of the transcription factor (tf) used to detect the analyte. we describe the mechanism of regulation and the structural and biochemical properties of tf families that are used, or could be used, for the development of environmental wcbs. focusing on the chemical nature of the analyte, we review tfs that respond to ar ...	2015	26191047
nitrile as activating group in the asymmetric bioreduction of β-cyanoacrylic acids catalyzed by ene-reductases.	asymmetric bioreduction of an (e)-β-cyano-2,4-dienoic acid derivative by ene-reductases allowed a shortened access to a precursor of pregabalin [(s)-3-(aminomethyl)-5-methylhexanoic acid] possessing the desired configuration in up to 94% conversion and >99% ee. deuterium labelling studies showed that the nitrile moiety was the preferred activating/anchor group in the active site of the enzyme over the carboxylic acid or the corresponding methyl ester.	2014	26190962
genetically engineering bacillus subtilis with a heat-resistant arsenite methyltransferase for bioremediation of arsenic-contaminated organic waste.	organic manures may contain high levels of arsenic (as) due to the use of as-containing growth-promoting substances in animal feed. to develop a bioremediation strategy to remove as from organic waste, bacillus subtilis 168, a bacterial strain which can grow at high temperature but is unable to methylate and volatilize as, was genetically engineered to express the arsenite s-adenosylmethionine methyltransferase gene (cmarsm) from the thermophilic alga cyanidioschyzon merolae. the genetically eng ...	2015	26187966
a portable expression resource for engineering cross-species genetic circuits and pathways.	genetic circuits and metabolic pathways can be reengineered to allow organisms to process signals and manufacture useful chemicals. however, their functions currently rely on organism-specific regulatory parts, fragmenting synthetic biology and metabolic engineering into host-specific domains. to unify efforts, here we have engineered a cross-species expression resource that enables circuits and pathways to reuse the same genetic parts, while functioning similarly across diverse organisms. our e ...	2015	26184393
dynamic response of pseudomonas putida s12 to sudden addition of toluene and the potential role of the solvent tolerance gene trgi.	pseudomonas putida s12 is exceptionally tolerant to various organic solvents. to obtain further insight into this bacterium's primary defence mechanisms towards these potentially harmful substances, we studied its genome wide transcriptional response to sudden addition of toluene. global gene expression profiles were monitored for 30 minutes after toluene addition. during toluene exposure, high oxygen-affinity cytochrome c oxidase is specifically expressed to provide for an adequate proton gradi ...	2015	26181384
biodegradation of polychlorinated biphenyls (pcbs) by the novel identified cyanobacterium anabaena pd-1.	polychlorinated biphenyls (pcbs), a class of hazardous pollutants, are difficult to dissipate in the natural environment. in this study, a cyanobacterial strain anabaena pd-1 showed good resistance against pcb congeners. compared to a control group, chlorophyll a content decreased 3.7% and 11.7% when anabaena pd-1 was exposed to 2 and 5 mg/l pcbs for 7 d. this cyanobacterial strain was capable of decomposing pcb congeners which was conclusively proved by determination of chloride ion concentrati ...	2015	26177203
biotechnological applications of functional metagenomics in the food and pharmaceutical industries.	microorganisms are found throughout nature, thriving in a vast range of environmental conditions. the majority of them are unculturable or difficult to culture by traditional methods. metagenomics enables the study of all microorganisms, regardless of whether they can be cultured or not, through the analysis of genomic data obtained directly from an environmental sample, providing knowledge of the species present, and allowing the extraction of information regarding the functionality of microbia ...	2015	26175729
functional expression, purification, and biochemical properties of subtilase sprp from pseudomonas aeruginosa.	the pseudomonas aeruginosa genome encodes a variety of different proteolytic enzymes several of which play an important role as virulence factors. interestingly, only two of these proteases are predicted to belong to the subtilase family and we have recently studied the physiological role of the subtilase sprp. here, we describe the functional overexpression of sprp in escherichia coli using a novel expression and secretion system. we show that sprp is autocatalytically activated by proteolysis ...	2015	26175208
identification of differentially abundant proteins of edwardsiella ictaluri during iron restriction.	edwardsiella ictaluri is a gram-negative facultative anaerobe intracellular bacterium that causes enteric septicemia in channel catfish. iron is an essential inorganic nutrient of bacteria and is crucial for bacterial invasion. reduced availability of iron by the host may cause significant stress for bacterial pathogens and is considered a signal that leads to significant alteration in virulence gene expression. however, the precise effect of iron-restriction on e. ictaluri protein abundance is ...	2015	26168192