Publications
| Title | Abstract | Year Filter | PMID(sorted ascending) Filter |
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| effects of temperature and ph on the activities of catechol 2,3-dioxygenase obtained from crude oil contaminated soil in ilaje, ondo state, nigeria. | enrichment technique was employed for the isolation of the crude oil degrading bacteria. the isolated bacteria were screened for their degradative ability and the best degrading bacteria were selected based on their growth. specific activities of catechol-2,3-dioxygenase and effects of temperature and ph and their stabilities on the enzyme relative activities were observed. bacteria isolated from the soil sample include; bacillus cereus, b. amyloliquficiens, b. firmus, acinetobacter calcoaceticu ... | 2015 | 26464607 |
| plant hormone salicylic acid produced by a malaria parasite controls host immunity and cerebral malaria outcome. | the apicomplexan parasite toxoplasma gondii produces the plant hormone abscisic acid, but it is unclear if phytohormones are produced by the malaria parasite plasmodium spp., the most important parasite of this phylum. here, we report detection of salicylic acid, an immune-related phytohormone of land plants, in p. berghei anka and t. gondii cell lysates. however, addition of salicylic acid to p. falciparum and t. gondii culture had no effect. we transfected p. falciparum 3d7 with the nahg gene, ... | 2015 | 26466097 |
| high throughput multispectral image processing with applications in food science. | recently, machine vision is gaining attention in food science as well as in food industry concerning food quality assessment and monitoring. into the framework of implementation of process analytical technology (pat) in the food industry, image processing can be used not only in estimation and even prediction of food quality but also in detection of adulteration. towards these applications on food science, we present here a novel methodology for automated image analysis of several kinds of food ... | 2015 | 26466349 |
| integrative and conjugative elements (ices): what they do and how they work. | horizontal gene transfer plays a major role in microbial evolution, allowing microbes to acquire new genes and phenotypes. integrative and conjugative elements (ices, a.k.a. conjugative transposons) are modular mobile genetic elements integrated into a host genome and are passively propagated during chromosomal replication and cell division. induction of ice gene expression leads to excision, production of the conserved conjugation machinery (a type iv secretion system), and the potential to tra ... | 2015 | 26473380 |
| evaluation of the broad-range pcr/esi-ms technology in blood specimens for the molecular diagnosis of bloodstream infections. | rapid identification of the etiological agent in bloodstream infections is of vital importance for the early administration of the most appropriate antibiotic therapy. molecular methods may offer an advantage to current culture-based microbiological diagnosis. the goal of this study was to evaluate the performance of iridica, a platform based on universal genetic amplification followed by mass spectrometry (pcr/esi-ms) for the molecular diagnosis of sepsis-related pathogens directly from the pat ... | 2015 | 26474394 |
| degradation of benzene by pseudomonas veronii 1ydbtex2 and 1yb2 is catalyzed by enzymes encoded in distinct catabolism gene clusters. | pseudomonas veronii 1ydbtex2, a benzene and toluene degrader, and pseudomonas veronii 1yb2, a benzene degrader, have previously been shown to be key players in a benzene-contaminated site. these strains harbor unique catabolic pathways for the degradation of benzene comprising a gene cluster encoding an isopropylbenzene dioxygenase where genes encoding downstream enzymes were interrupted by stop codons. extradiol dioxygenases were recruited from gene clusters comprising genes encoding a 2-hydrox ... | 2015 | 26475106 |
| degradation of benzene by pseudomonas veronii 1ydbtex2 and 1yb2 is catalyzed by enzymes encoded in distinct catabolism gene clusters. | pseudomonas veronii 1ydbtex2, a benzene and toluene degrader, and pseudomonas veronii 1yb2, a benzene degrader, have previously been shown to be key players in a benzene-contaminated site. these strains harbor unique catabolic pathways for the degradation of benzene comprising a gene cluster encoding an isopropylbenzene dioxygenase where genes encoding downstream enzymes were interrupted by stop codons. extradiol dioxygenases were recruited from gene clusters comprising genes encoding a 2-hydrox ... | 2015 | 26475106 |
| a newly isolated pseudomonas putida s-1 strain for batch-mode-propanethiol degradation and continuous treatment of propanethiol-containing waste gas. | pseudomonas putida s-1 was isolated from activated sludge. this novel strain was capable of degrading malodorous 1-propanethiol (pt). pt degradation commenced with no lag phase by cells pre-grown in nutrition-rich media, such as luria-bertani (lb), and pt-contained mineral medium at specific growth rates of 0.10-0.19 h(-1); this phenomenon indicated the operability of a large-scale cell culture. a possible pt degradation pathway was proposed on the basis of the detected metabolites, including di ... | 2016 | 26476310 |
| over-the-counter monocyclic non-steroidal anti-inflammatory drugs in environment-sources, risks, biodegradation. | recently, the increased use of monocyclic non-steroidal anti-inflammatory drugs has resulted in their presence in the environment. this may have potential negative effects on living organisms. the biotransformation mechanisms of monocyclic non-steroidal anti-inflammatory drugs in the human body and in other mammals occur by hydroxylation and conjugation with glycine or glucuronic acid. biotransformation/biodegradation of monocyclic non-steroidal anti-inflammatory drugs in the environment may be ... | 2015 | 26478634 |
| clinical and radiological profile of acute fibrinous and organizing pneumonia: a retrospective study. | acute fibrinous and organizing pneumonia (afop) is a unique pathological entity with intra-alveolar fibrin in the form of "fibrin balls" and organizing pneumonia. it was divided into rare idiopathic interstitial pneumonia according to the classification notified by american thoracic society/european respiratory society in 2013. as a rare pathological entity, it is still not well known and recognized by clinicians. we reviewed the clinical features of 20 patients with afop diagnosed in a teaching ... | 2015 | 26481733 |
| plastic waste as a novel substrate for industrial biotechnology. | 2015 | 26482561 | |
| fleq dna binding consensus sequence revealed by studies of fleq-dependent regulation of biofilm gene expression in pseudomonas aeruginosa. | the transcription factor fleq from pseudomonas aeruginosa derepresses expression of genes involved in biofilm formation when intracellular levels of the second messenger cyclic diguanosine monophosphate (c-di-gmp) are high. fleq also activates transcription of flagellar genes, and the expression of these genes is highest at low intracellular c-di-gmp. fleq thus plays a central role in mediating the transition between planktonic and biofilm lifestyles of p. aeruginosa. previous work showed that f ... | 2015 | 26483521 |
| fleq dna binding consensus sequence revealed by studies of fleq-dependent regulation of biofilm gene expression in pseudomonas aeruginosa. | the transcription factor fleq from pseudomonas aeruginosa derepresses expression of genes involved in biofilm formation when intracellular levels of the second messenger cyclic diguanosine monophosphate (c-di-gmp) are high. fleq also activates transcription of flagellar genes, and the expression of these genes is highest at low intracellular c-di-gmp. fleq thus plays a central role in mediating the transition between planktonic and biofilm lifestyles of p. aeruginosa. previous work showed that f ... | 2015 | 26483521 |
| organophosphate hydrolase in conductometric biosensor for the detection of organophosphate pesticides. | the research has developed an enzyme biosensor for the detection organophosphate pesticide residues. the biosensor consists of a pair of screen-printed carbon electrode (spces). one of electrodes contains immobilized organophosphate hydrolase (oph) on a chitosan membrane by cross-linking it with glutaraldehyde. the area of the electrodes was optimized to 3, 5, and 7 mm(2). the oph was isolated from pseudomonas putida, and was purified by the ammonium sulfate precipitation method, with 6444 ppm ( ... | 2015 | 26483607 |
| variability in subpopulation formation propagates into biocatalytic variability of engineered pseudomonas putida strains. | pivotal challenges in industrial biotechnology are the identification and overcoming of cell-to-cell heterogeneity in microbial processes. while the development of subpopulations of isogenic cells in bioprocesses is well described (intra-population variability), a possible variability between genetically identical cultures growing under macroscopically identical conditions (clonal variability) is not. a high such clonal variability has been found for the recombinant expression of the styrene mon ... | 2015 | 26483771 |
| choosing a suitable method for the identification of replication origins in microbial genomes. | as the replication of genomic dna is arguably the most important task performed by a cell and given that it is controlled at the initiation stage, the events that occur at the replication origin play a central role in the cell cycle. making sense of dna replication origins is important for improving our capacity to study cellular processes and functions in the regulation of gene expression, genome integrity in much finer detail. thus, clearly comprehending the positions and sequences of replicat ... | 2015 | 26483774 |
| functional characterization and stability improvement of a 'thermophilic-like' ene-reductase from rhodococcus opacus 1cp. | ene-reductases (ers) are widely applied for the asymmetric synthesis of relevant industrial chemicals. a novel er oyero2 was found within a set of 14 putative old yellow enzymes (oyes) obtained by genome mining of the actinobacterium rhodococcus opacus 1cp. multiple sequence alignment suggested that the enzyme belongs to the group of 'thermophilic-like' oyes. oyero2 was produced in escherichia coli and biochemically characterized. the enzyme is strongly nadph dependent and uses non-covalently bo ... | 2015 | 26483784 |
| plant derived substances with anti-cancer activity: from folklore to practice. | plants have had an essential role in the folklore of ancient cultures. in addition to the use as food and spices, plants have also been utilized as medicines for over 5000 years. it is estimated that 70-95% of the population in developing countries continues to use traditional medicines even today. a new trend, that involved the isolation of plant active compounds begun during the early nineteenth century. this trend led to the discovery of different active compounds that are derived from plants ... | 2015 | 26483815 |
| biodegradation kinetics and interactions of styrene and ethylbenzene as single and dual substrates for a mixed bacterial culture. | this study examined biodegradation kinetics of styrene and ethylbenzene as representatives of alkenylbenzenes and mono-alkylbenzenes, respectively. the compounds were studied independently and as binary mixtures using a series of aerobic batch degradation experiments introduced by acclimatized mix culture. initial concentration of styrene and ethylbenzene in the liquid phase vacillated from 0 to 220 mg/l. the andrew model was applied for the biodegradation of individual substrates and the estima ... | 2015 | 26483955 |
| comparative genomic analysis and phenazine production of pseudomonas chlororaphis, a plant growth-promoting rhizobacterium. | pseudomonas chlororaphis ht66, a plant growth-promoting rhizobacterium that produces phenazine-1-carboxamide with high yield, was compared with three genomic sequenced p. chlororaphis strains, gp72, 30-84 and o6. the genome sizes of four strains vary from 6.66 to 7.30 mb. comparisons of predicted coding sequences indicated 4833 conserved genes in 5869-6455 protein-encoding genes. phylogenetic analysis showed that the four strains are closely related to each other. its competitive colonization in ... | 2015 | 26484173 |
| light-induced structural changes in a short light, oxygen, voltage (lov) protein revealed by molecular dynamics simulations-implications for the understanding of lov photoactivation. | the modularity of light, oxygen, voltage (lov) blue-light photoreceptors has recently been exploited for the design of lov-based optogenetic tools, which allow the light-dependent control of biological functions. for the understanding of lov sensory function and hence the optimal design of lov-based optogentic tools it is essential to gain an in depth atomic-level understanding of the underlying photoactivation and intramolecular signal-relay mechanisms. to address this question we performed mol ... | 2015 | 26484348 |
| soil-derived microbial consortia enriched with different plant biomass reveal distinct players acting in lignocellulose degradation. | here, we investigated how different plant biomass, and-for one substrate-ph, drive the composition of degrader microbial consortia. we bred such consortia from forest soil, incubated along nine aerobic sequential - batch enrichments with wheat straw (ws1, ph 7.2; ws2, ph 9.0), switchgrass (sg, ph 7.2), and corn stover (cs, ph 7.2) as carbon sources. lignocellulosic compounds (lignin, cellulose and xylan) were best degraded in treatment sg, followed by cs, ws1 and ws2. in terms of composition, th ... | 2015 | 26487437 |
| soil-derived microbial consortia enriched with different plant biomass reveal distinct players acting in lignocellulose degradation. | here, we investigated how different plant biomass, and-for one substrate-ph, drive the composition of degrader microbial consortia. we bred such consortia from forest soil, incubated along nine aerobic sequential - batch enrichments with wheat straw (ws1, ph 7.2; ws2, ph 9.0), switchgrass (sg, ph 7.2), and corn stover (cs, ph 7.2) as carbon sources. lignocellulosic compounds (lignin, cellulose and xylan) were best degraded in treatment sg, followed by cs, ws1 and ws2. in terms of composition, th ... | 2015 | 26487437 |
| resistance integrons: class 1, 2 and 3 integrons. | as recently indiscriminate abuse of existing antibiotics in both clinical and veterinary treatment leads to proliferation of antibiotic resistance in microbes and poses a dilemma for the future treatment of such bacterial infection, antimicrobial resistance has been considered to be one of the currently leading concerns in global public health, and reported to widely spread and extended to a large variety of microorganisms. in china, as one of the currently worst areas for antibiotics abuse, the ... | 2015 | 26487554 |
| biconnectivity of the cellular metabolism: a cross-species study and its implication for human diseases. | the maintenance of stability during perturbations is essential for living organisms, and cellular networks organize multiple pathways to enable elements to remain connected and communicate, even when some pathways are broken. here, we evaluated the biconnectivity of the metabolic networks of 506 species in terms of the clustering coefficients and the largest biconnected components (lbcs), wherein a biconnected component (bc) indicates a set of nodes in which every pair is connected by more than ... | 2015 | 26490723 |
| pulmonary nocardiosis in the immunocompetent host: case series. | pulmonary nocardiosis is commonly recognized as an opportunistic infection in patients with predisposing immunosuppressive conditions. however, reports of pulmonary nocardiosis in the immunocompetent host are rare. here, we report a case series of four patients with pulmonary nocardiosis without a predisposing condition. | 2015 | 26491594 |
| influence of substrates on the surface characteristics and membrane proteome of fibrobacter succinogenes s85. | although fibrobacter succinogenes s85 is one of the most proficient cellulose degrading bacteria among all mesophilic organisms in the rumen of herbivores, the molecular mechanism behind cellulose degradation by this bacterium is not fully elucidated. previous studies have indicated that cell surface proteins might play a role in adhesion to and subsequent degradation of cellulose in this bacterium. it has also been suggested that cellulose degradation machinery on the surface may be selectively ... | 2015 | 26492413 |
| draft genome sequence of the polychlorinated biphenyl-degrading bacterium pseudomonas stutzeri kf716 (nbrc 110668). | pseudomonas stutzeri kf716 (nbrc 110668) utilizes biphenyl as a sole source of carbon and energy and degrades polychlorinated biphenyls. here, we report the first draft genome sequence of a biphenyl-degrading strain of the species p. stutzeri. | 2015 | 26494664 |
| influence of humic acid on the stability and bacterial toxicity of zinc oxide nanoparticles in water. | the present study investigated the stability of zinc oxide nanoparticles (zno nps) by the adsorption of humic acid (ha) and the mechanism of adsorption. the effect of humic acid on np toxicity was determined by escherichia coli (atcc 13534), e. coli (atcc 25922), and pseudomonas putida (mtcc 4910). the nanoparticles showed low zeta potential and were least stable in the absence of ha. however, the negative surface charge of the particles increased in the presence of ha (0-50mg/l) that reduced th ... | 2015 | 26496792 |
| biocontrol of the potato blackleg and soft rot diseases caused by dickeya dianthicola. | development of protection tools targeting dickeya species is an important issue in the potato production. here, we present the identification and the characterization of novel biocontrol agents. successive screenings of 10,000 bacterial isolates led us to retain 58 strains that exhibited growth inhibition properties against several dickeya sp. and/or pectobacterium sp. pathogens. most of them belonged to the pseudomonas and bacillus genera. in vitro assays revealed a fitness decrease of the test ... | 2015 | 26497457 |
| biocontrol of the potato blackleg and soft rot diseases caused by dickeya dianthicola. | development of protection tools targeting dickeya species is an important issue in the potato production. here, we present the identification and the characterization of novel biocontrol agents. successive screenings of 10,000 bacterial isolates led us to retain 58 strains that exhibited growth inhibition properties against several dickeya sp. and/or pectobacterium sp. pathogens. most of them belonged to the pseudomonas and bacillus genera. in vitro assays revealed a fitness decrease of the test ... | 2015 | 26497457 |
| anodes stimulate anaerobic toluene degradation via sulfur cycling in marine sediments. | hydrocarbons released during oil spills are persistent in marine sediments due to the absence of suitable electron acceptors below the oxic zone. here, we investigated an alternative bioremediation strategy to remove toluene, a model monoaromatic hydrocarbon, using a bioanode. bioelectrochemical reactors were inoculated with sediment collected from a hydrocarbon-contaminated marine site, and anodes were polarized at 0 mv and +300 mv (versus an ag/agcl [3 m kcl] reference electrode). the degradat ... | 2015 | 26497463 |
| anodes stimulate anaerobic toluene degradation via sulfur cycling in marine sediments. | hydrocarbons released during oil spills are persistent in marine sediments due to the absence of suitable electron acceptors below the oxic zone. here, we investigated an alternative bioremediation strategy to remove toluene, a model monoaromatic hydrocarbon, using a bioanode. bioelectrochemical reactors were inoculated with sediment collected from a hydrocarbon-contaminated marine site, and anodes were polarized at 0 mv and +300 mv (versus an ag/agcl [3 m kcl] reference electrode). the degradat ... | 2015 | 26497463 |
| the chitinase c gene pschic from pseudomonas sp. and its synergistic effects on larvicidal activity. | pseudomonas sp. strain txg6-1, a chitinolytic gram-negative bacterium, was isolated from a vegetable field in taixing city, jiangsu province, china. in this study, a pseudomonas chitinase c gene (pschic) was isolated from the chromosomal dna of this bacterium using a pair of specific primers. the pschic gene consisted of an open reading frame of 1443 nucleotides and encoded 480 amino acid residues with a calculated molecular mass of 51.66 kda. the deduced pschic amino acid sequence lacked a sign ... | 2015 | 26500441 |
| biocide effects of volatile organic compounds produced by potential biocontrol rhizobacteria on sclerotinia sclerotiorum. | six rhizobacteria isolated from common bean and able to protect bean plants from the common bacterial blight (cbb) causal agent, were in vitro evaluated for their potential antifungal effects toward different plant pathogenic fungi, mostly soil-borne. by dual culture assays, the above bacteria resulted producing diffusible and volatile metabolites which inhibited the growth of the majority of the pathogens under study. in particular, the latter substances highly affected the mycelium growth of s ... | 2015 | 26500617 |
| deterioration to extinction of wastewater bacteria by non-thermal atmospheric pressure air plasma as assessed by 16s rdna-dgge fingerprinting. | the use of cold plasma jets for inactivation of a variety of microorganisms has recently been evaluated via culture-based methods. accordingly, elucidation of the role of cold plasma in decontamination would be inaccurate because most microbial populations within a system remain unexplored owing to the high amount of yet uncultured bacteria. the impact of cold atmospheric plasma on the bacterial community structure of wastewater from two different industries was investigated by metagenomic-based ... | 2015 | 26500637 |
| structure-odor relationships of linalool, linalyl acetate and their corresponding oxygenated derivatives. | linalool 1 is an odorant that is commonly perceived as having a pleasant odor, but is also known to elicit physiological effects such as inducing calmness and enhancing sleep. however, no comprehensive studies are at hand to show which structural features are responsible for these prominent effects. therefore, a total of six oxygenated derivatives were synthesized from both 1 and linalyl acetate 2, and were tested for their odor qualities and relative odor thresholds (ots) in air. linalool was f ... | 2015 | 26501053 |
| the lasb elastase of pseudomonas aeruginosa acts in concert with alkaline protease apra to prevent flagellin-mediated immune recognition. | the opportunistic pathogen pseudomonas aeruginosa is capable of establishing severe and persistent infections in various eukaryotic hosts. it encodes a wide array of virulence factors and employs several strategies to evade immune detection. in the present study, we screened the harvard medical school transposon mutant library of p. aeruginosa pa14 for bacterial factors that modulate interleukin-8 responses in a549 human airway epithelial cells. we found that in addition to the previously identi ... | 2015 | 26502908 |
| the lasb elastase of pseudomonas aeruginosa acts in concert with alkaline protease apra to prevent flagellin-mediated immune recognition. | the opportunistic pathogen pseudomonas aeruginosa is capable of establishing severe and persistent infections in various eukaryotic hosts. it encodes a wide array of virulence factors and employs several strategies to evade immune detection. in the present study, we screened the harvard medical school transposon mutant library of p. aeruginosa pa14 for bacterial factors that modulate interleukin-8 responses in a549 human airway epithelial cells. we found that in addition to the previously identi ... | 2015 | 26502908 |
| complementarity among plant growth promoting traits in rhizospheric bacterial communities promotes plant growth. | an assessment of roles of rhizospheric microbial diversity in plant growth is helpful in understanding plant-microbe interactions. using random combinations of rhizospheric bacterial species at different richness levels, we analysed the contribution of species richness, compositions, interactions and identity on soil microbial respiration and plant biomass. we showed that bacterial inoculation in plant rhizosphere enhanced microbial respiration and plant biomass with complementary relationships ... | 2015 | 26503744 |
| sarcosine catabolism in pseudomonas aeruginosa is transcriptionally regulated by sour. | sarcosine (n-methylglycine) is present in many environments inhabited by pseudomonads and is likely most often encountered as an intermediate in the metabolism of choline, carnitine, creatine, and glyphosate. while the enzymology of sarcosine metabolism has been relatively well studied in bacteria, the regulatory mechanisms governing catabolism have remained largely unknown. we previously determined that the sarcosine-catabolic (sox) operon of pseudomonas aeruginosa is induced by the arac family ... | 2015 | 26503852 |
| sarcosine catabolism in pseudomonas aeruginosa is transcriptionally regulated by sour. | sarcosine (n-methylglycine) is present in many environments inhabited by pseudomonads and is likely most often encountered as an intermediate in the metabolism of choline, carnitine, creatine, and glyphosate. while the enzymology of sarcosine metabolism has been relatively well studied in bacteria, the regulatory mechanisms governing catabolism have remained largely unknown. we previously determined that the sarcosine-catabolic (sox) operon of pseudomonas aeruginosa is induced by the arac family ... | 2015 | 26503852 |
| biosorption of cadmium and manganese using free cells of klebsiella sp. isolated from waste water. | in the present study, we evaluated a bacterium that was isolated from waste water for its ability to take up cadmium and manganese. the strain, identified both biochemically and by its 16s rrna gene sequence as klebsiella, was named yangling i2 and was found to be highly resistant to heavy metals. surface characterization of the bacterium via sem revealed gross morphological changes, with cells appearing as biconcave discs after metal exposure rather than their typical rod shape. the effects of ... | 2015 | 26505890 |
| c-di-gmp regulates motile to sessile transition by modulating msha pili biogenesis and near-surface motility behavior in vibrio cholerae. | in many bacteria, including vibrio cholerae, cyclic dimeric guanosine monophosphate (c-di-gmp) controls the motile to biofilm life style switch. yet, little is known about how this occurs. in this study, we report that changes in c-di-gmp concentration impact the biosynthesis of the msha pili, resulting in altered motility and biofilm phenotypes in v. cholerae. previously, we reported that cdgj encodes a c-di-gmp phosphodiesterase and a δcdgj mutant has reduced motility and enhanced biofilm form ... | 2015 | 26505896 |
| immune-relevant and antioxidant activities of vitellogenin and yolk proteins in fish. | vitellogenin (vtg), the major egg yolk precursor protein, is traditionally thought to provide protein- and lipid-rich nutrients for developing embryos and larvae. however, the roles of vtg as well as its derived yolk proteins lipovitellin (lv) and phosvitin (pv) extend beyond nutritional functions. accumulating data have demonstrated that vtg, lv and pv participate in host innate immune defense with multifaceted functions. they can all act as multivalent pattern recognition receptors capable of ... | 2015 | 26506386 |
| biosynthetic origin of the antibiotic pseudopyronines a and b in pseudomonas putida bw11m1. | within the framework of our effort to discover new antibiotics from pseudomonads, pseudopyronines a and b were isolated from the plant-derived pseudomonas putida bw11m1. pseudopyronines are 3,6-dialkyl-4-hydroxy-2-pyrones and displayed high in vitro activities against several human pathogens, and in our hands also towards the plant pathogen pseudomonas savastanoi. here, the biosynthesis of pseudopyronine b was studied by a combination of feeding experiments with isotopically labeled precursors, ... | 2015 | 26507104 |
| environment-induced conformational and functional changes of l-2-haloacid dehalogenase. | 2-haloacid dehalogenases have been highly studied due to their potential applications in chemical industries and bioremediation. although biochemical and structural characterizations of the enzyme have been detailed, no information was available regarding environmental effects on the structure-function relationship. here, circular dichroism spectroscopy (cd) was used to investigate the correlation between changes on the conformation and the function of l-2-haloacid dehalogenase (hadl aj1) from t ... | 2016 | 26508534 |
| a structure-based classification of class a β-lactamases, a broadly diverse family of enzymes. | for medical biologists, sequencing has become a commonplace technique to support diagnosis. rapid changes in this field have led to the generation of large amounts of data, which are not always correctly listed in databases. this is particularly true for data concerning class a β-lactamases, a group of key antibiotic resistance enzymes produced by bacteria. many genomes have been reported to contain putative β-lactamase genes, which can be compared with representative types. we analyzed several ... | 2016 | 26511485 |
| a structure-based classification of class a β-lactamases, a broadly diverse family of enzymes. | for medical biologists, sequencing has become a commonplace technique to support diagnosis. rapid changes in this field have led to the generation of large amounts of data, which are not always correctly listed in databases. this is particularly true for data concerning class a β-lactamases, a group of key antibiotic resistance enzymes produced by bacteria. many genomes have been reported to contain putative β-lactamase genes, which can be compared with representative types. we analyzed several ... | 2016 | 26511485 |
| the role of plant-microbe interactions and their exploitation for phytoremediation of air pollutants. | since air pollution has been linked to a plethora of human health problems, strategies to improve air quality are indispensable. despite the complexity in composition of air pollution, phytoremediation was shown to be effective in cleaning air. plants are known to scavenge significant amounts of air pollutants on their aboveground plant parts. leaf fall and runoff lead to transfer of (part of) the adsorbed pollutants to the soil and rhizosphere below. after uptake in the roots and leaves, plants ... | 2015 | 26516837 |
| biodegradation of di-n-butyl phthalate by achromobacter sp. isolated from rural domestic wastewater. | a bacterial strain w-1, isolated from rural domestic wastewater, can utilize the environmental hormone di-n-butyl phthalate (dbp) as the sole carbon and energy source. the isolated bacterium species was confirmed to belong to the genus achromobacter based on its 16s rrna gene sequence. the results of substrate utilization tests showed that the strain w-1 could utilize other common phthalates and phenol. high-performance liquid chromatography analysis revealed that the optimal conditions for dbp ... | 2015 | 26516878 |
| diversity of pseudomonas genomes, including populus-associated isolates, as revealed by comparative genome analysis. | the pseudomonas genus contains a metabolically versatile group of organisms that are known to occupy numerous ecological niches, including the rhizosphere and endosphere of many plants. their diversity influences the phylogenetic diversity and heterogeneity of these communities. on the basis of average amino acid identity, comparative genome analysis of >1,000 pseudomonas genomes, including 21 pseudomonas strains isolated from the roots of native populus deltoides (eastern cottonwood) trees resu ... | 2015 | 26519390 |
| diversity of pseudomonas genomes, including populus-associated isolates, as revealed by comparative genome analysis. | the pseudomonas genus contains a metabolically versatile group of organisms that are known to occupy numerous ecological niches, including the rhizosphere and endosphere of many plants. their diversity influences the phylogenetic diversity and heterogeneity of these communities. on the basis of average amino acid identity, comparative genome analysis of >1,000 pseudomonas genomes, including 21 pseudomonas strains isolated from the roots of native populus deltoides (eastern cottonwood) trees resu ... | 2015 | 26519390 |
| transcription factor-based biosensors in biotechnology: current state and future prospects. | living organisms have evolved a plethora of sensing systems for the intra- and extracellular detection of small molecules, ions or physical parameters. several recent studies have demonstrated that these principles can be exploited to devise synthetic regulatory circuits for metabolic engineering strategies. in this context, transcription factors (tfs) controlling microbial physiology at the level of transcription play a major role in biosensor design, since they can be implemented in synthetic ... | 2015 | 26521244 |
| transcription factor-based biosensors in biotechnology: current state and future prospects. | living organisms have evolved a plethora of sensing systems for the intra- and extracellular detection of small molecules, ions or physical parameters. several recent studies have demonstrated that these principles can be exploited to devise synthetic regulatory circuits for metabolic engineering strategies. in this context, transcription factors (tfs) controlling microbial physiology at the level of transcription play a major role in biosensor design, since they can be implemented in synthetic ... | 2015 | 26521244 |
| genetically engineered pseudomonas putida x3 strain and its potential ability to bioremediate soil microcosms contaminated with methyl parathion and cadmium. | a multifunctional pseudomonas putida x3 strain was successfully engineered by introducing methyl parathion (mp)-degrading gene and enhanced green fluorescent protein (egfp) gene in p. putida x4 (cctcc: 209319). in liquid cultures, the engineered x3 strain utilized mp as sole carbon source for growth and degraded 100 mg l(-1) of mp within 24 h; however, this strain did not further metabolize p-nitrophenol (pnp), an intermediate metabolite of mp. no discrepancy in minimum inhibitory concentrations ... | 2016 | 26521245 |
| high-throughput 3d tracking of bacteria on a standard phase contrast microscope. | bacteria employ diverse motility patterns in traversing complex three-dimensional (3d) natural habitats. 2d microscopy misses crucial features of 3d behaviour, but the applicability of existing 3d tracking techniques is constrained by their performance or ease of use. here we present a simple, broadly applicable, high-throughput 3d bacterial tracking method for use in standard phase contrast microscopy. bacteria are localized at micron-scale resolution over a range of 350 × 300 × 200 μm by maxim ... | 2015 | 26522289 |
| whole-cell-based identification of electrochemically active bacteria in microbial fuel cells by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry. | electrochemically active bacteria (eab) that are capable of producing electricity from renewable biomass and organic wastes have been of particular interest in recent years. methods for selective enrichment, accurate identification and easy acquisition of eab fingerprints for phylogenetic characterization would facilitate utilization of these bioenergy-producing species in practical environmental engineering applications. | 2015 | 26522312 |
| the oxygenating constituent of 3,6-diketocamphane monooxygenase from the cam plasmid of pseudomonas putida: the first crystal structure of a type ii baeyer-villiger monooxygenase. | the three-dimensional structures of the native enzyme and the fmn complex of the overexpressed form of the oxygenating component of the type ii baeyer-villiger 3,6-diketocamphane monooxygenase have been determined to 1.9 å resolution. the structure of this dimeric fmn-dependent enzyme, which is encoded on the large cam plasmid of pseudomonas putida, has been solved by a combination of multiple anomalous dispersion from a bromine crystal soak and molecular replacement using a bacterial luciferase ... | 2015 | 26527149 |
| subtractive assembly for comparative metagenomics, and its application to type 2 diabetes metagenomes. | comparative metagenomics remains challenging due to the size and complexity of metagenomic datasets. here we introduce subtractive assembly, a de novo assembly approach for comparative metagenomics that directly assembles only the differential reads that distinguish between two groups of metagenomes. using simulated datasets, we show it improves both the efficiency of the assembly and the assembly quality of the differential genomes and genes. further, its application to type 2 diabetes (t2d) me ... | 2015 | 26527161 |
| the metacyc database of metabolic pathways and enzymes and the biocyc collection of pathway/genome databases. | the metacyc database (metacyc.org) is a freely accessible comprehensive database describing metabolic pathways and enzymes from all domains of life. the majority of metacyc pathways are small-molecule metabolic pathways that have been experimentally determined. metacyc contains more than 2400 pathways derived from >46,000 publications, and is the largest curated collection of metabolic pathways. biocyc (biocyc.org) is a collection of 5700 organism-specific pathway/genome databases (pgdbs), each ... | 2015 | 26527732 |
| the metacyc database of metabolic pathways and enzymes and the biocyc collection of pathway/genome databases. | the metacyc database (metacyc.org) is a freely accessible comprehensive database describing metabolic pathways and enzymes from all domains of life. the majority of metacyc pathways are small-molecule metabolic pathways that have been experimentally determined. metacyc contains more than 2400 pathways derived from >46,000 publications, and is the largest curated collection of metabolic pathways. biocyc (biocyc.org) is a collection of 5700 organism-specific pathway/genome databases (pgdbs), each ... | 2015 | 26527732 |
| multicenter evaluation of the bruker maldi biotyper ca system for the identification of clinical aerobic gram-negative bacterial isolates. | the prompt and accurate identification of bacterial pathogens is fundamental to patient health and outcome. recent advances in matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (maldi-tof ms) have revolutionized bacterial identification in the clinical laboratory, but uniform incorporation of this technology in the u.s. market has been delayed by a lack of fda-cleared systems. in this study, we conducted a multicenter evaluation of the maldi biotyper ca (mbt-ca) system ... | 2015 | 26529504 |
| adaptation of the autotrophic acetogen sporomusa ovata to methanol accelerates the conversion of co2 to organic products. | acetogens are efficient microbial catalysts for bioprocesses converting c1 compounds into organic products. here, an adaptive laboratory evolution approach was implemented to adapt sporomusa ovata for faster autotrophic metabolism and co2 conversion to organic chemicals. s. ovata was first adapted to grow quicker autotrophically with methanol, a toxic c1 compound, as the sole substrate. better growth on different concentrations of methanol and with h2-co2 indicated the adapted strain had a more ... | 2015 | 26530351 |
| plant growth-promoting bacteria as inoculants in agricultural soils. | plant-microbe interactions in the rhizosphere are the determinants of plant health, productivity and soil fertility. plant growth-promoting bacteria (pgpb) are bacteria that can enhance plant growth and protect plants from disease and abiotic stresses through a wide variety of mechanisms; those that establish close associations with plants, such as the endophytes, could be more successful in plant growth promotion. several important bacterial characteristics, such as biological nitrogen fixation ... | 2015 | 26537605 |
| evaluation of shotgun metagenomics sequence classification methods using in silico and in vitro simulated communities. | the field of metagenomics (study of genetic material recovered directly from an environment) has grown rapidly, with many bioinformatics analysis methods being developed. to ensure appropriate use of such methods, robust comparative evaluation of their accuracy and features is needed. for taxonomic classification of sequence reads, such evaluation should include use of clade exclusion, which better evaluates a method's accuracy when identical sequences are not present in any reference database, ... | 2015 | 26537885 |
| interspecies interactions are an integral determinant of microbial community dynamics. | this study investigated the factors that determine the dynamics of bacterial communities in a complex system using multidisciplinary methods. since natural and engineered microbial ecosystems are too complex to study, six types of synthetic microbial ecosystems (smes) were constructed under chemostat conditions with phenol as the sole carbon and energy source. two to four phenol-degrading, phylogenetically and physiologically different bacterial strains were used in each sme. phylogeny was based ... | 2015 | 26539177 |
| a putative non-canonical ras-like gtpase from p. falciparum: chemical properties and characterization of the protein. | during its development the malaria parasite p. falciparum has to adapt to various different environmental contexts. key cellular mechanisms involving g-protein coupled signal transduction chains are assumed to act at these interfaces. heterotrimeric g-proteins are absent in plasmodium. we here describe the first cloning and expression of a putative, non-canonical ras-like g protein (acronym pfg) from plasmodium. pfg reveals an open reading frame of 2736 bp encoding a protein of 912 amino acids w ... | 2015 | 26540393 |
| significantly improved solvent tolerance of escherichia coli by global transcription machinery engineering. | escherichia coli has emerged as a promising platform microorganism to produce biofuels and fine chemicals of industrial interests. certain obstacles however remain to be overcome, among which organic-solvent tolerance is a crucial one. | 2015 | 26542360 |
| characterization of lactobacillus salivarius alanine racemase: short-chain carboxylate-activation and the role of a131. | many strains of lactic acid bacteria produce high concentrations of d-amino acids. among them, lactobacillus salivarius ucc 118 produces d-alanine at a relative concentration much greater than 50 % of the total d, l-alanine (100d/d, l-alanine). we characterized the l. salivarius alanine racemase (alr) likely responsible for this d-alanine production and found that the enzyme was activated by carboxylates, which is an unique characteristic among alrs. in addition, alignment of the amino acid sequ ... | 2015 | 26543773 |
| quantitative 'omics analyses of medium chain length polyhydroxyalkanaote metabolism in pseudomonas putida ls46 cultured with waste glycerol and waste fatty acids. | transcriptomes and proteomes of pseudomonas putida ls46 cultured with biodiesel-derived waste glycerol or waste free fatty acids, as sole carbon sources, were compared under conditions that were either permissive or non-permissive for synthesis of medium chain length polyhydroxyalkanoates (mcl-pha). the objectives of this study were to elucidate mechanisms that influence activation of biopolymer synthesis, intra-cellular accumulation, and monomer composition, and determine if these were physiolo ... | 2015 | 26544181 |
| two polyhydroxyalkanoate synthases from distinct classes from the aromatic degrader cupriavidus pinatubonensis jmp134 exhibit the same substrate preference. | cupriavidus pinatubonensis jmp134 utilizes a variety of aromatic substrates as sole carbon sources, including meta-nitrophenol (mnp). two polyhydroxyalkanoate (pha) synthase genes, phac1 and phac2, were annotated and categorized as class i and class ii pha synthase genes, respectively. in this study, both his-tagged purified phac1 and phac2 were shown to exhibit typical class i pha synthase substrate specificity to make short-chain-length (scl) pha from 3-hydroxybutyryl-coa and failed to make me ... | 2015 | 26544851 |
| identification of genes conferring tolerance to lignocellulose-derived inhibitors by functional selections in soil metagenomes. | the production of fuels or chemicals from lignocellulose currently requires thermochemical pretreatment to release fermentable sugars. these harsh conditions also generate numerous small-molecule inhibitors of microbial growth and fermentation, limiting production. we applied small-insert functional metagenomic selections to discover genes that confer microbial tolerance to these inhibitors, identifying both individual genes and general biological processes associated with tolerance to multiple ... | 2016 | 26546427 |
| the cytochrome p450 cyp6p4 is responsible for the high pyrethroid resistance in knockdown resistance-free anopheles arabiensis. | pyrethroid insecticides are the front line vector control tools used in bed nets to reduce malaria transmission and its burden. however, resistance in major vectors such as anopheles arabiensis is posing a serious challenge to the success of malaria control. herein, we elucidated the molecular and biochemical basis of pyrethroid resistance in a knockdown resistance-free anopheles arabiensis population from chad, central africa. using heterologous expression of p450s in escherichia coli coupled w ... | 2016 | 26548743 |
| the stringent response regulator dksa is required for salmonella enterica serovar typhimurium growth in minimal medium, motility, biofilm formation, and intestinal colonization. | salmonella enterica serovar typhimurium is a facultative intracellular human and animal bacterial pathogen posing a major threat to public health worldwide. salmonella pathogenicity requires complex coordination of multiple physiological and virulence pathways. dksa is a conserved gram-negative regulator that belongs to a distinct group of transcription factors that bind directly to the rna polymerase secondary channel, potentiating the effect of the signaling molecule ppgpp during a stringent r ... | 2015 | 26553464 |
| the stringent response regulator dksa is required for salmonella enterica serovar typhimurium growth in minimal medium, motility, biofilm formation, and intestinal colonization. | salmonella enterica serovar typhimurium is a facultative intracellular human and animal bacterial pathogen posing a major threat to public health worldwide. salmonella pathogenicity requires complex coordination of multiple physiological and virulence pathways. dksa is a conserved gram-negative regulator that belongs to a distinct group of transcription factors that bind directly to the rna polymerase secondary channel, potentiating the effect of the signaling molecule ppgpp during a stringent r ... | 2015 | 26553464 |
| σ54-dependent regulome in desulfovibrio vulgaris hildenborough. | the σ(54) subunit controls a unique class of promoters in bacteria. such promoters, without exception, require enhancer binding proteins (ebps) for transcription initiation. desulfovibrio vulgaris hildenborough, a model bacterium for sulfate reduction studies, has a high number of ebps, more than most sequenced bacteria. the cellular processes regulated by many of these ebps remain unknown. | 2015 | 26555820 |
| antimicrobial effect of malpighia punicifolia and extension of water buffalo steak shelf-life. | in the present study, a multiple approach was used to characterize malpighia punicifolia extract and to evaluate its inhibitory activity against several meat spoilage bacteria. first, volatile fraction, vitamins and phenolic compounds of the extract obtained by supercritical fluid extraction were determined by gc-ms and hplc. then, the antimicrobial action of the extract was in vitro evaluated against pseudomonas putida dsmz 291(t), pseudomonas fluorescens dsmz 50009(t), pseudomonas fragi dsmz 3 ... | 2015 | 26556435 |
| antimicrobial effect of malpighia punicifolia and extension of water buffalo steak shelf-life. | in the present study, a multiple approach was used to characterize malpighia punicifolia extract and to evaluate its inhibitory activity against several meat spoilage bacteria. first, volatile fraction, vitamins and phenolic compounds of the extract obtained by supercritical fluid extraction were determined by gc-ms and hplc. then, the antimicrobial action of the extract was in vitro evaluated against pseudomonas putida dsmz 291(t), pseudomonas fluorescens dsmz 50009(t), pseudomonas fragi dsmz 3 ... | 2015 | 26556435 |
| diversity of culturable bacterial endophytes of saffron in kashmir, india. | saffron (crocus sativus) is a medicinally important plant. the kashmir valley (j&k, india) emblematizes one of the major and quality saffron producing areas in the world. nonetheless, the area has been experiencing a declining trend in the production of saffron during the last decade. poor disease management is one of the major reasons for declining saffron production in the area. endophytes are known to offer control against many diseases of host plant. during the present study, culturable bact ... | 2015 | 26558164 |
| regulation of the alkane hydroxylase cyp153 gene in a gram-positive alkane-degrading bacterium, dietzia sp. strain dq12-45-1b. | cyp153, one of the most common medium-chain n-alkane hydroxylases belonging to the cytochrome p450 superfamily, is widely expressed in n-alkane-degrading bacteria. cyp153 is also thought to cooperate with alkb in degrading various n-alkanes. however, the mechanisms regulating the expression of the protein remain largely unknown. in this paper, we studied cyp153 gene transcription regulation by the potential arac family regulator (cypr) located upstream of the cyp153 gene cluster in a broad-spect ... | 2016 | 26567302 |
| bromochloromethane, a methane analogue, affects the microbiota and metabolic profiles of the rat gastrointestinal tract. | bromochloromethane (bcm), an inhibitor of methanogenesis, has been used in animal production. however, little is known about its impact on the intestinal microbiota and metabolic patterns. the present study aimed to investigate the effect of bcm on the colonic bacterial community and metabolism by establishing a wistar rat model. twenty male wistar rats were randomly divided into two groups (control and treated with bcm) and raised for 6 weeks. bacterial fermentation products in the cecum were d ... | 2016 | 26567308 |
| hiph catalyzes the hydroxylation of 4-hydroxyisophthalate to protocatechuate in 2,4-xylenol catabolism by pseudomonas putida ncimb 9866. | in addition to growing on p-cresol, pseudomonas putida ncimb 9866 is the only reported strain capable of aerobically growing on 2,4-xylenol, which is listed as a priority pollutant by the u.s. environmental protection agency. several enzymes involved in the oxidation of the para-methyl group, as well as the corresponding genes, have previously been reported. the enzyme catalyzing oxidation of the catabolic intermediate 4-hydroxyisophthalate to the ring cleavage substrate protocatechuate was also ... | 2016 | 26567311 |
| characterization of the vibrio fischeri fatty acid chemoreceptors, vfcb and vfcb2. | bacteria use a wide variety of methyl-accepting chemotaxis proteins (mcps) to mediate their attraction to or repulsion from different chemical signals in their environment. the bioluminescent marine bacterium vibrio fischeri is the monospecific symbiont of the hawaiian bobtail squid, euprymna scolopes, and encodes a large repertoire of mcps that are hypothesized to be used during different parts of its complex, multistage lifestyle. here, we report the initial characterization of two such mcps f ... | 2016 | 26567312 |
| influence of the crc regulator on the hierarchical use of carbon sources from a complete medium in pseudomonas. | the crc protein, together with the hfq protein, participates in catabolite repression in pseudomonads, helping to coordinate metabolism. little is known about how crc affects the hierarchy of metabolite assimilation from complex mixtures. using proton nuclear magnetic resonance (nmr) spectroscopy, we carried out comprehensive metabolite profiling of culture supernatants (metabolic footprinting) over the course of growth of both pseudomonas putida and p. aeruginosa, and compared the wild-type str ... | 2016 | 26568055 |
| role of loop-clamping side chains in catalysis by triosephosphate isomerase. | the side chains of y208 and s211 from loop 7 of triosephosphate isomerase (tim) form hydrogen bonds to backbone amides and carbonyls from loop 6 to stabilize the caged enzyme-substrate complex. the effect of seven mutations [y208t, y208s, y208a, y208f, s211g, s211a, y208t/s211g] on the kinetic parameters for tim catalyzed reactions of the whole substrates dihydroxyacetone phosphate and d-glyceraldehyde 3-phosphate [(k(cat)/k(m))(gap) and (k(cat)/k(m))dhap] and of the substrate pieces glycolaldeh ... | 2015 | 26570983 |
| dissecting proton delocalization in an enzyme's hydrogen bond network with unnatural amino acids. | extended hydrogen bond networks are a common structural motif of enzymes. a recent analysis proposed quantum delocalization of protons as a feature present in the hydrogen bond network spanning a triad of tyrosines (y(16), y(32), and y(57)) in the active site of ketosteroid isomerase (ksi), contributing to its unusual acidity and large isotope shift. in this study, we utilized amber suppression to substitute each tyrosine residue with 3-chlorotyrosine to test the delocalization model and the pro ... | 2015 | 26571340 |
| high prevalence of oxacillinases in clinical multidrug-resistant acinetobacter baumannii isolates from the tshwane region, south africa - an update. | acinetobacter baumannii is an important hospital-acquired pathogen in healthcare facilities that frequently causes bacteraemia and ventilator-associated pneumonia in intensive care units. acinetobacter baumannii can be isolated from various sites in the hospital environment like medical equipment, bed linen, medical personnel and indwelling catheters. it is difficult to treat a. baumannii infections because of their highly resistant antimicrobial profiles. the purpose of this study was to determ ... | 2015 | 26573617 |
| sustainable production of valuable compound 3-succinoyl-pyridine by genetically engineering pseudomonas putida using the tobacco waste. | treatment of solid and liquid tobacco wastes with high nicotine content remains a longstanding challenge. here, we explored an environmentally friendly approach to replace tobacco waste disposal with resource recovery by genetically engineering pseudomonas putida. the biosynthesis of 3-succinoyl-pyridine (sp), a precursor in the production of hypotensive agents, from the tobacco waste was developed using whole cells of the engineered pseudomonas strain, s16dspm. under optimal conditions in fed-b ... | 2015 | 26574178 |
| community rescue in experimental metacommunities. | the conditions that allow biodiversity to recover following severe environmental degradation are poorly understood. we studied community rescue, the recovery of a viable community through the evolutionary rescue of many populations within an evolving community, in metacommunities of soil microbes adapting to a herbicide. the metacommunities occupied a landscape of crossed spatial gradients of the herbicide (dalapon) and a resource (glucose), whereas their constituent communities were either isol ... | 2015 | 26578777 |
| the extent of functional redundancy changes as species' roles shift in different environments. | assessing the ecological impacts of environmental change requires knowledge of the relationship between biodiversity and ecosystem functioning. the exact nature of this relationship can differ considerably between ecosystems, with consequences for the efficacy of species diversity as a buffer against environmental change. using a microbial model system, we show that the relationship can vary depending on environmental conditions. shapes suggesting functional redundancy in one environment can cha ... | 2015 | 26578806 |
| genetically engineered microorganisms for the detection of explosives' residues. | the manufacture and use of explosives throughout the past century has resulted in the extensive pollution of soils and groundwater, and the widespread interment of landmines imposes a major humanitarian risk and prevents civil development of large areas. as most current landmine detection technologies require actual presence at the surveyed areas, thus posing a significant risk to personnel, diverse research efforts are aimed at the development of remote detection solutions. one possible means p ... | 2015 | 26579085 |
| bacteriocins from the rhizosphere microbiome - from an agriculture perspective. | bacteria produce and excrete a versatile and dynamic suit of compounds to defend against microbial competitors and mediate local population dynamics. these include a wide range of broad-spectrum non-ribosomally synthesized antibiotics, lytic enzymes, metabolic by-products, proteinaceous exotoxins, and ribosomally produced antimicrobial peptides (bacteriocins). most bacteria produce at least one bacteriocin. bacteriocins are of interest in the food industry as natural preservatives and in the pro ... | 2015 | 26579159 |
| structure characterization of phospholipids and lipid a of pseudomonas putida kt2442. | pseudomonas putida kt2442 is an important bacterium for producing various types of polyhydroxyalkanoate polymers. phospholipids and lipid a in membranes of p. putida play important roles in stress responses, but detailed structural information of these lipids is not known. in this study, phospholipids and lipid a were isolated from p. putida kt2442, and their structures were analyzed using thin layer chromatography, high performance liquid chromatography, and electrospray ionization/mass spectro ... | 2015 | 26579930 |
| atomic force microscopy measurements of bacterial adhesion and biofilm formation onto clay-sized particles. | bacterial adhesion onto mineral surfaces and subsequent biofilm formation play key roles in aggregate stability, mineral weathering, and the fate of contaminants in soils. however, the mechanisms of bacteria-mineral interactions are not fully understood. atomic force microscopy (afm) was used to determine the adhesion forces between bacteria and goethite in water and to gain insight into the nanoscale surface morphology of the bacteria-mineral aggregates and biofilms formed on clay-sized mineral ... | 2015 | 26585552 |
| identification of a novel nematotoxic protein by challenging the model mushroom coprinopsis cinerea with a fungivorous nematode. | the dung of herbivores, the natural habitat of the model mushroom coprinopsis cinerea, is a nutrient-rich but also very competitive environment for a saprophytic fungus. we showed previously that c. cinerea expresses constitutive, tissue-specific armories against antagonists such as animal predators and bacterial competitors. in order to dissect the inducible armories against such antagonists, we sequenced the poly(a)-positive transcriptome of c. cinerea vegetative mycelium upon challenge with f ... | 2015 | 26585824 |
| identification of a novel nematotoxic protein by challenging the model mushroom coprinopsis cinerea with a fungivorous nematode. | the dung of herbivores, the natural habitat of the model mushroom coprinopsis cinerea, is a nutrient-rich but also very competitive environment for a saprophytic fungus. we showed previously that c. cinerea expresses constitutive, tissue-specific armories against antagonists such as animal predators and bacterial competitors. in order to dissect the inducible armories against such antagonists, we sequenced the poly(a)-positive transcriptome of c. cinerea vegetative mycelium upon challenge with f ... | 2015 | 26585824 |
| pseudomonas induces salinity tolerance in cotton (gossypium hirsutum) and resistance to fusarium root rot through the modulation of indole-3-acetic acid. | abiotic stresses cause changes in the balance of phytohormones in plants and result in inhibited root growth and an increase in the susceptibility of plants to root rot disease. the aim of this work was to ascertain whether microbial indole-3-acetic acid (iaa) plays a role in the regulation of root growth and microbially mediated control of root rot of cotton caused by fusarium solani. seed germination and seedling growth were improved by both nacl and mg2so4 (100 mm) solutions when treated with ... | 2015 | 26587006 |
| chemotaxis and degradation of organophosphate compound by a novel moderately thermo-halo tolerant pseudomonas sp. strain bur11: evidence for possible existence of two pathways for degradation. | an organophosphate (op) degrading chemotactic bacterial strain bur11 isolated from an agricultural field was identified as a member of pseudomonas genus on the basis of its 16s rrna gene sequence. the strain could utilize parathion, chlorpyrifos and their major hydrolytic intermediates as sole source of carbon for its growth and exhibited positive chemotactic response towards most of them. optimum concentration of parathion for its growth was recorded to be 200 ppm and 62% of which was degraded ... | 2015 | 26587344 |
| metabolic and genomic analysis elucidates strain-level variation in microbacterium spp. isolated from chromate contaminated sediment. | hexavalent chromium [cr(vi)] is a soluble carcinogen that has caused widespread contamination of soil and water in many industrial nations. bacteria have the potential to aid remediation as certain strains can catalyze the reduction of cr(vi) to insoluble and less toxic cr(iii). here, we examine cr(vi) reducing microbacterium spp. (cr-k1w, cr-k20, cr-k29, and cr-k32) isolated from contaminated sediment (seymore, indiana) and show varying chromate responses despite the isolates' phylogenetic simi ... | 2015 | 26587353 |