Publications
| Title | Abstract | Year(sorted ascending) Filter | PMID Filter |
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| purification and properties of glycine oxidase from pseudomonas putida kt2440. | glycine oxidase, encoded by the thio gene, participates in the biosynthesis of thiamin by providing glyoxyl imine to form the thiazole moiety of thiamin. we have purified and characterized thio from pseudomonas putida kt2440. it has a monomeric structure that is distinct from the homotetrameric thios from bacillus subtilis and geobacillus kaustophilus. the p. putida thio is unique in that glycine is its preferred substrate, which differs markedly from the b. subtilis and g. kaustophilus enzymes ... | 2015 | 26875494 |
| 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 |
| variation in bacterial atp concentration during rapid changes in extracellular ph and implications for the activity of attached bacteria. | in this study we investigated the relationship between a rapid change in extracellular ph and the alteration of bacterial atp concentration. this relationship is a key component of a hypothesis indicating that bacterial bioenergetics - the creation of atp from adp via a proton gradient across the cytoplasmic membrane - can be altered by the physiochemical charge-regulation effect, which results in a ph shift at the bacteria's surface upon adhesion to another surface. the bacterial atp concentrat ... | 2015 | 26037699 |
| bacterial cell surface properties: role of loosely bound extracellular polymeric substances (lb-eps). | this study investigated the effect of loosely bound extracellular polymeric substances (lb-eps) on the comprehensive surface properties of four bacteria (bacillus subtilis, streptococcus suis, escherichia coli and pseudomonas putida). the removal of lb-eps from bacterial surfaces by high-speed centrifugation (12,000×g) was confirmed by sem images. viability tests showed that the percentages of viable cells ranged from 95.9% to 98.0%, and no significant difference was found after treatment (p>0.0 ... | 2015 | 25805151 |
| detoxification of the veterinary antibiotic chloramphenicol using electron beam irradiation. | electron beam irradiation has shown potential as an alternative process for the treatment of industrial effluents that contain toxic organic chemicals. this study investigated the effectiveness of electron beam in degrading chloramphenicol (cap) in aqueous solution. the degradation efficiency was 32.4% at 1 kgy, 86.9% at 5 kgy, and 100% at 10 kgy. the total organic carbon (toc) of cap in aqueous solution declined 4.6% at 1 kgy, 12.1% at 5 kgy, and 17.1% at 10 kgy of irradiation with electron bea ... | 2015 | 25616384 |
| the crystal structure of the versatile cytochrome p450 enzyme cyp109b1 from bacillus subtilis. | the crystal structure of the versatile cyp109b1 enzyme from bacillus subtilis has been solved at 1.8 å resolution. this is the first structure of an enzyme from this cyp family, whose members are prevalent across diverse species of bacteria. in the crystal structure the enzyme has an open conformation with an access channel leading from the heme to the surface. the substrate-free structure reveals the location of the key residues in the active site that are responsible for binding the substrate ... | 2015 | 25587700 |
| functional expression of l-lysine α-oxidase from scomber japonicus in escherichia coli for one-pot synthesis of l-pipecolic acid from dl-lysine. | l-pipecolic acid is a key component of biologically active molecules and a pharmaceutically important chiral building block. it can be stereoselectively produced from l-lysine by a two-step bioconversion involving l-lysine α-oxidase and ∆(1)-piperideine-2-carboxylae (pip2c) reductase. in this study, we focused on an l-lysine α-oxidase from scomber japonicus that was originally identified as an apoptosis-inducing protein (aip) and applied the enzyme to one-pot fermentation of l-pipecolic acid in ... | 2015 | 25547835 |
| antioxidative enzyme profiling and biosorption ability of cupriavidus metallidurans ch34 and pseudomonas putida mt2 under cadmium stress. | cupriavidus metallidurans ch34 and pseudomonas putida mt2 were used as cadmium (cd)-resistant and -sensitive bacteria, respectively, to study their biosorption ability and their antioxidative enzymes. the minimal inhibitory concentration of c. metallidurans ch34 for cd was found to be 30 mm, and for p. putida mt2 it was 1.25 mm. the tube dilution method revealed the heavy-metal resistance pattern of c. metallidurans ch34 as ni(2+) (10 mm)>zn(2+) (4 mm)>cu(2+) (2 mm)>hg(2+) (1 mm)>cr(2+) (1 mm)>p ... | 2015 | 23832807 |
| genetic analysis of plant endophytic pseudomonas putida bp25 and chemo-profiling of its antimicrobial volatile organic compounds. | black pepper associated bacterium bp25 was isolated from root endosphere of apparently healthy cultivar panniyur-5 that protected black pepper against phytophthora capsici and radopholus similis - the major production constraints. the bacterium was characterized and mechanisms of its antagonistic action against major pathogens are elucidated. the polyphasic phenotypic analysis revealed its identity as pseudomonas putida. multi locus sequence typing revealed that the bacterium shared gene sequenc ... | 2015 | 25801973 |
| detection and characterization of a bacteriocin, putadicin t01, produced by pseudomonas putida isolated from hot spring water. | pseudomonas strains isolated from hot spring water were tested for bacteriocin-like substance (bls) production using a target panel of closely related microorganisms and other gram-positive and gram-negative bacteria. molecular identification was carried out through specific pcr and 16s rna sequence analysis. isolates were identified as brevundimonas diminuta and pseudomonas putida, the latter exhibited antimicrobial activity. pseudomonas putida strains produce an inhibitory substance against ot ... | 2015 | 25556393 |
| increasing antibiotic resistance in preservative-tolerant bacterial strains isolated from cosmetic products. | to ensure the microbiological quality, consumer safety and organoleptic properties of cosmetic products, manufacturers need to comply with defined standards using several preservatives and disinfectants. a drawback regarding the use of these preservatives is the possibility of generating cross-insusceptibility to other disinfectants or preservatives, as well as cross resistance to antibiotics. therefore, the objective of this study was to understand the adaptive mechanisms of enterobacter gergov ... | 2015 | 26415667 |
| recent advances in the elucidation of enzymatic function in natural product biosynthesis. | with the successful production of artemisinic acid in yeast, the promising potential of synthetic biology for natural product biosynthesis is now being realized. the recent total biosynthesis of opioids in microbes is considered to be another landmark in this field. the importance and significance of enzymes in natural product biosynthetic pathways have been re-emphasized by these advancements. therefore, the characterization and elucidation of enzymatic function in natural product biosynthesis ... | 2015 | 26989472 |
| recent advances in the elucidation of enzymatic function in natural product biosynthesis. | with the successful production of artemisinic acid in yeast, the promising potential of synthetic biology for natural product biosynthesis is now being realized. the recent total biosynthesis of opioids in microbes is considered to be another landmark in this field. the importance and significance of enzymes in natural product biosynthetic pathways have been re-emphasized by these advancements. therefore, the characterization and elucidation of enzymatic function in natural product biosynthesis ... | 2015 | 26989472 |
| study of the aminoglycoside subsistence phenotype of bacteria residing in the gut of humans and zoo animals. | recent studies indicate that next to antibiotic resistance, bacteria are able to subsist on antibiotics as a carbon source. here we evaluated the potential of gut bacteria from healthy human volunteers and zoo animals to subsist on antibiotics. nine gut isolates of escherichia coli and cellulosimicrobium sp. displayed increases in colony forming units (cfu) during incubations in minimal medium with only antibiotics added, i.e., the antibiotic subsistence phenotype. furthermore, laboratory strain ... | 2015 | 26793182 |
| study of the aminoglycoside subsistence phenotype of bacteria residing in the gut of humans and zoo animals. | recent studies indicate that next to antibiotic resistance, bacteria are able to subsist on antibiotics as a carbon source. here we evaluated the potential of gut bacteria from healthy human volunteers and zoo animals to subsist on antibiotics. nine gut isolates of escherichia coli and cellulosimicrobium sp. displayed increases in colony forming units (cfu) during incubations in minimal medium with only antibiotics added, i.e., the antibiotic subsistence phenotype. furthermore, laboratory strain ... | 2015 | 26793182 |
| escherichia coli overexpressing a baeyer-villiger monooxygenase from acinetobacter radioresistens becomes resistant to imipenem. | antimicrobial resistance is a global issue currently resulting in the deaths of hundreds of thousands of people a year worldwide. data present in the literature illustrate the emergence of many bacterial species that display resistance to known antibiotics; acinetobacter spp. are a good example of this. we report here that acinetobacter radioresistens has a baeyer-villiger monooxygenase (ar-bvmo) with 100% amino acid sequence identity to the ethionamide monooxygenase of multidrug-resistant (mdr) ... | 2015 | 26459905 |
| escherichia coli overexpressing a baeyer-villiger monooxygenase from acinetobacter radioresistens becomes resistant to imipenem. | antimicrobial resistance is a global issue currently resulting in the deaths of hundreds of thousands of people a year worldwide. data present in the literature illustrate the emergence of many bacterial species that display resistance to known antibiotics; acinetobacter spp. are a good example of this. we report here that acinetobacter radioresistens has a baeyer-villiger monooxygenase (ar-bvmo) with 100% amino acid sequence identity to the ethionamide monooxygenase of multidrug-resistant (mdr) ... | 2015 | 26459905 |
| assay of blood and synovial fluid of patients with rheumatoid arthritis for staphylococcus aureus enterotoxin d: absence of bacteria but presence of its toxin. | rheumatoid arthritis (ra) is the most common chronic inflammatory disease. the staphylococcal superantigens are considered as the causative agent of ra disease. | 2015 | 26870313 |
| metabolic engineering and comparative performance studies of synechocystis sp. pcc 6803 strains for effective utilization of xylose. | wood sugars such as xylose can be used as an inexpensive carbon source for biotechnological applications. the model cyanobacterium synechocystis sp. pcc 6803 lacks the ability to catabolize wood sugars as an energy source. here, we generated four synechocystis strains that heterologously expressed xylab enzymes, which mediate xylose catabolism, either in combination with or without one of three xylose transporters, namely xyle, galp, or glf. except for glf, which is derived from the bacterium zy ... | 2015 | 26732758 |
| prevalence and antimicrobial resistance of microbes causing bloodstream infections in unguja, zanzibar. | bloodstream infections (bsi) are frequent and cause high case-fatality rates. urgent antibiotic treatment can save patients' lives, but antibiotic resistance can render antibiotic therapy futile. this study is the first to collect epidemiological data on bsi from unguja, zanzibar. | 2015 | 26700032 |
| role of burkholderia pseudomallei sigma n2 in amino acids utilization and in regulation of catalase e expression at the transcriptional level. | burkholderia pseudomallei is the causative agent of melioidosis. the complete genome sequences of this pathogen have been revealed, which explain some pathogenic mechanisms. in various hostile conditions, for example, during nitrogen and amino acid starvation, bacteria can utilize alternative sigma factors such as rpos and rpon to modulate genes expression for their adaptation and survival. in this study, we demonstrate that mutagenesis of rpon2, which lies on chromosome 2 of b. pseudomallei and ... | 2015 | 26904748 |
| 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 |
| endophytic cultivable bacteria of the metal bioaccumulator spartina maritima improve plant growth but not metal uptake in polluted marshes soils. | endophytic bacterial population was isolated from spartina maritima tissues, a heavy metal bioaccumulator cordgrass growing in the estuaries of tinto, odiel, and piedras river (south west spain), one of the most polluted areas in the world. strains were identified and ability to tolerate salt and heavy metals along with plant growth promoting and enzymatic properties were analyzed. a high proportion of these bacteria were resistant toward one or several heavy metals and metalloids including as, ... | 2015 | 26733985 |
| profiling expression of lipoxygenase in cucumber during compatible and incompatible plant-pathogen interactions. | we compared lipoxygenase (lox) expression in cucumber in response to host and non-host pathogens. our results displayed significant difference in expression of lox between compatible and incompatible interaction at 12, 24 and 48 h after inoculation. moreover, lox expression at 72 h after inoculation was similar in both compatible and incompatible interaction. it seems that early induction of lox plays a crucial role in plant defense against pathogens. | 2015 | 27186031 |
| profiling expression of lipoxygenase in cucumber during compatible and incompatible plant-pathogen interactions. | we compared lipoxygenase (lox) expression in cucumber in response to host and non-host pathogens. our results displayed significant difference in expression of lox between compatible and incompatible interaction at 12, 24 and 48 h after inoculation. moreover, lox expression at 72 h after inoculation was similar in both compatible and incompatible interaction. it seems that early induction of lox plays a crucial role in plant defense against pathogens. | 2015 | 27186031 |
| exacerbation of substrate toxicity by iptg in escherichia coli bl21(de3) carrying a synthetic metabolic pathway. | heterologous expression systems based on promoters inducible with isopropyl-β-d-1-thiogalactopyranoside (iptg), e.g., escherichia coli bl21(de3) and cognate laci(q)/p(lacuv5)-t7 vectors, are commonly used for production of recombinant proteins and metabolic pathways. the applicability of such cell factories is limited by the complex physiological burden imposed by overexpression of the exogenous genes during a bioprocess. this burden originates from a combination of stresses that may include com ... | 2015 | 26691337 |
| direct conversion of theophylline to 3-methylxanthine by metabolically engineered e. coli. | methylxanthines are natural and synthetic compounds found in many foods, drinks, pharmaceuticals, and cosmetics. aside from caffeine, production of many methylxanthines is currently performed by chemical synthesis. this process utilizes many chemicals, multiple reactions, and different reaction conditions, making it complicated, environmentally dissatisfactory, and expensive, especially for monomethylxanthines and paraxanthine. a microbial platform could provide an economical, environmentally fr ... | 2015 | 26691652 |
| a functional 4-hydroxybenzoate degradation pathway in the phytopathogen xanthomonas campestris is required for full pathogenicity. | plants contain significant levels of natural phenolic compounds essential for reproduction and growth, as well as defense mechanisms against pathogens. xanthomonas campestris pv. campestris (xcc) is the causal agent of crucifers black rot. here we showed that genes required for the synthesis, utilization, transportation, and degradation of 4-hydroxybenzoate (4-hba) are present in xcc. xcc rapidly degrades 4-hba, but has no effect on 2-hydroxybenzoate and 3-hydroxybenzoate when grown in xoln medi ... | 2015 | 26672484 |
| 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 |
| defining the metabolic functions and roles in virulence of the rpon1 and rpon2 genes in ralstonia solanacearum gmi1000. | the alternative sigma factor rpon is a unique regulator found among bacteria. it controls numerous processes that range from basic metabolism to more complex functions such as motility and nitrogen fixation. our current understanding of rpon function is largely derived from studies on prototypical bacteria such as escherichia coli. bacillus subtilis and pseudomonas putida. although the extent and necessity of rpon-dependent functions differ radically between these model organisms, each bacterium ... | 2015 | 26659655 |
| discrimination between bacterial species by ratiometric analysis of their carbohydrate binding profile. | antibiotic resistance is a global health concern meaning there is an urgent need for new treatments and diagnostics. here glycosylated surfaces are used to profile the binding patterns of a range of gram-negative, gram-positive and mycobacteria. this enables the creation of 'barcodes' to enable identification and discrimination between the strains, which could not be achieved by single-point glycan binding and offers a new concept in bacteria detection. | 2015 | 26647648 |
| discrimination between bacterial species by ratiometric analysis of their carbohydrate binding profile. | antibiotic resistance is a global health concern meaning there is an urgent need for new treatments and diagnostics. here glycosylated surfaces are used to profile the binding patterns of a range of gram-negative, gram-positive and mycobacteria. this enables the creation of 'barcodes' to enable identification and discrimination between the strains, which could not be achieved by single-point glycan binding and offers a new concept in bacteria detection. | 2015 | 26647648 |
| bacterial exchange in household washing machines. | household washing machines (wms) launder soiled clothes and textiles, but do not sterilize them. we investigated the microbial exchange occurring in five household wms. samples from a new cotton t-shirt were laundered together with a normal laundry load. analyses were performed on the influent water and the ingoing cotton samples, as well as the greywater and the washed cotton samples. the number of living bacteria was generally not lower in the wm effluent water as compared to the influent water. ... | 2015 | 26696989 |
| ustilago maydis produces itaconic acid via the unusual intermediate trans-aconitate. | itaconic acid is an important biomass-derived chemical building block but has also recently been identified as a metabolite produced in mammals, which has antimicrobial activity. the biosynthetic pathway of itaconic acid has been elucidated in the ascomycetous fungus aspergillus terreus and in human macrophages. in both organisms itaconic acid is generated by decarboxylation of the tricarboxylic acid (tca) cycle intermediate cis-aconitate. here, we show that the basidiomycetous fungus ustilago m ... | 2015 | 26639528 |
| ustilago maydis produces itaconic acid via the unusual intermediate trans-aconitate. | itaconic acid is an important biomass-derived chemical building block but has also recently been identified as a metabolite produced in mammals, which has antimicrobial activity. the biosynthetic pathway of itaconic acid has been elucidated in the ascomycetous fungus aspergillus terreus and in human macrophages. in both organisms itaconic acid is generated by decarboxylation of the tricarboxylic acid (tca) cycle intermediate cis-aconitate. here, we show that the basidiomycetous fungus ustilago m ... | 2015 | 26639528 |
| 'deadman' and 'passcode' microbial kill switches for bacterial containment. | biocontainment systems that couple environmental sensing with circuit-based control of cell viability could be used to prevent escape of genetically modified microbes into the environment. here we present two engineered safeguard systems known as the 'deadman' and 'passcode' kill switches. the deadman kill switch uses unbalanced reciprocal transcriptional repression to couple a specific input signal with cell survival. the passcode kill switch uses a similar two-layered transcription design and ... | 2015 | 26641934 |
| 'deadman' and 'passcode' microbial kill switches for bacterial containment. | biocontainment systems that couple environmental sensing with circuit-based control of cell viability could be used to prevent escape of genetically modified microbes into the environment. here we present two engineered safeguard systems known as the 'deadman' and 'passcode' kill switches. the deadman kill switch uses unbalanced reciprocal transcriptional repression to couple a specific input signal with cell survival. the passcode kill switch uses a similar two-layered transcription design and ... | 2015 | 26641934 |
| a method for rapid quantitative assessment of biofilms with biomolecular staining and image analysis. | the accumulation of bacteria in surface-attached biofilms can be detrimental to human health, dental hygiene, and many industrial processes. natural biofilms are soft and often transparent, and they have heterogeneous biological composition and structure over micro- and macroscales. as a result, it is challenging to quantify the spatial distribution and overall intensity of biofilms. in this work, a new method was developed to enhance the visibility and quantification of bacterial biofilms. firs ... | 2015 | 26643074 |
| a method for rapid quantitative assessment of biofilms with biomolecular staining and image analysis. | the accumulation of bacteria in surface-attached biofilms can be detrimental to human health, dental hygiene, and many industrial processes. natural biofilms are soft and often transparent, and they have heterogeneous biological composition and structure over micro- and macroscales. as a result, it is challenging to quantify the spatial distribution and overall intensity of biofilms. in this work, a new method was developed to enhance the visibility and quantification of bacterial biofilms. firs ... | 2015 | 26643074 |
| production of fatty acids in ralstonia eutropha h16 by engineering β-oxidation and carbon storage. | ralstonia eutropha h16 is a facultatively autotrophic hydrogen-oxidizing bacterium capable of producing polyhydroxybutyrate (phb)-based bioplastics. as phb's physical properties may be improved by incorporation of medium-chain-length fatty acids (mcfas), and mcfas are valuable on their own as fuel and chemical intermediates, we engineered r. eutropha for mcfa production. expression of ucfatb2, a medium-chain-length-specific acyl-acp thioesterase, resulted in production of 14 mg/l laurate in wild ... | 2015 | 26664804 |
| phosphorus and compost management influence maize (zea mays) productivity under semiarid condition with and without phosphate solubilizing bacteria. | phosphorus (p) unavailability and lack of organic matter in the soils under semiarid climates are the two major constraints for low crop productivity. field trial was conducted to study the effects of p levels, compost application times and seed inoculation with phosphate solubilizing bacteria (psb) on the yield and yield components of maize (zea mays l., cv. azam). the experiment was conducted at the agronomy research farm of the university of agriculture peshawar-pakistan during summer 2014. t ... | 2015 | 26697038 |
| characterization of thermotolerant chitinases encoded by a brevibacillus laterosporus strain isolated from a suburban wetland. | to isolate and characterize chitinases that can be applied with practical advantages, 57 isolates of chitin-degrading bacteria were isolated from the soil of a suburban wetland. 16s rrna gene analysis revealed that the majority of these strains belonged to two genera, paenibacillus and brevibacillus. taking thermostability into account, the chitinases (chia and chic) of a b. laterosporus strain were studied further. ni-nta affinity-purified chia and chic were optimally active at ph 7.0 and 6.0, ... | 2015 | 26690223 |
| characterization of pseudooxynicotine amine oxidase of pseudomonas putida s16 that is crucial for nicotine degradation. | pseudooxynicotine amine oxidase (pnao) is essential to the pyrrolidine pathway of nicotine degradation of pseudomonas putida strain s16, which is significant for the detoxification of nicotine, through removing the ch3nh2 group. however, little is known about biochemical mechanism of this enzyme. here, we characterized its properties and biochemical mechanism. isotope labeling experiments provided direct evidence that the newly introduced oxygen atom in 3-succinoylsemialdehyde-pyridine is derive ... | 2015 | 26634650 |
| overflow metabolism in escherichia coli results from efficient proteome allocation. | overflow metabolism refers to the seemingly wasteful strategy in which cells use fermentation instead of the more efficient respiration to generate energy, despite the availability of oxygen. known as the warburg effect in the context of cancer growth, this phenomenon occurs ubiquitously for fast-growing cells, including bacteria, fungi and mammalian cells, but its origin has remained unclear despite decades of research. here we study metabolic overflow in escherichia coli, and show that it is a ... | 2015 | 26632588 |
| mutational and acquired carbapenem resistance mechanisms in multidrug resistant pseudomonas aeruginosa clinical isolates from recife, brazil. | an investigation was carried out into the genetic mechanisms responsible for multidrug resistance in nine carbapenem-resistant pseudomonas aeruginosa isolates from different hospitals in recife, brazil. susceptibility to antimicrobial agents was determined by broth microdilution. polymerase chain reaction (pcr) was employed to detect the presence of genes encoding β-lactamases, aminoglycoside-modifying enzymes (ames), 16s rrna methylases, integron-related genes and oprd. expression of genes codi ... | 2015 | 26676375 |
| indirect manganese removal by stenotrophomonas sp. and lysinibacillus sp. isolated from brazilian mine water. | manganese is a contaminant in the wastewaters produced by brazilian mining operations, and the removal of the metal is notoriously difficult because of the high stability of the mn(ii) ion in aqueous solutions. to explore a biological approach for removing excessive amounts of aqueous mn(ii), we investigated the potential of mn(ii) oxidation by both consortium and bacterial isolates from a brazilian manganese mine. a bacterial consortium was able to remove 99.7% of the mn(ii). a phylogenetic ana ... | 2015 | 26697496 |
| metabolic engineering of acinetobacter baylyi adp1 for removal of clostridium butyricum growth inhibitors produced from lignocellulosic hydrolysates. | pretreatment of lignocellulosic biomass can produce inhibitory compounds that are harmful for microorganisms used in the production of biofuels and other chemicals from lignocellulosic sugars. selective inhibitor removal can be achieved with biodetoxification where microorganisms catabolize the inhibitors without consuming the sugars. we engineered the strictly aerobic acinetobacter baylyi adp1 for detoxification of lignocellulosic hydrolysates by removing the gene for glucose dehydrogenase, gcd ... | 2015 | 26628912 |
| isolation and characterization of two novel halotolerant catechol 2, 3-dioxygenases from a halophilic bacterial consortium. | study of enzymes in halophiles will help to understand the mechanism of aromatic hydrocarbons degradation in saline environment. in this study, two novel catechol 2,3-dioxygenases (c23o1 and c23o2) were cloned and overexpressed from a halophilic bacterial consortium enriched from an oil-contaminated saline soil. phylogenetic analysis indicated that the novel c23os and their relatives formed a new branch in subfamily i.2.a of extradiol dioxygenases and the sequence differences were further analyz ... | 2015 | 26621792 |
| 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 |
| a novel biocatalyst for efficient production of 2-oxo-carboxylates using glycerol as the cost-effective carbon source. | the surplus of glycerol has increased remarkably as a main byproduct during the biofuel's production. exploiting an alternative route for glycerol utilization is significantly important for sustainability of biofuels. | 2015 | 26609321 |
| integrative genomic mining for enzyme function to enable engineering of a non-natural biosynthetic pathway. | the ability to biosynthetically produce chemicals beyond what is commonly found in nature requires the discovery of novel enzyme function. here we utilize two approaches to discover enzymes that enable specific production of longer-chain (c5-c8) alcohols from sugar. the first approach combines bioinformatics and molecular modelling to mine sequence databases, resulting in a diverse panel of enzymes capable of catalysing the targeted reaction. the median catalytic efficiency of the computationall ... | 2015 | 26598135 |
| purification, characterization of l-methioninase from candida tropicalis, and its application as an anticancer. | the aim of the present study is to purify l-methioninase from candida tropicalis 34.19-fold with 27.98% recovery after ion exchange chromatography followed by gel filtration. the purified enzyme revealed a single band on sds-page gel with a molecular weight of 46 kda. its optimum temperature was 45 to 55 and thermal stability was 55°c for 15 min. the enzyme had optimum ph at 6.5 and stability at a ph range of 5.5 to 7.0 for 24 hr. the maximum activity was observed with substrate concentration of ... | 2015 | 26691554 |
| metabolic engineering of pseudomonas putida kt2440 to produce anthranilate from glucose. | the pseudomonas putida kt2440 strain was engineered in order to produce anthranilate (oab, ortho-aminobenzoate), a precursor of the aromatic amino acid tryptophan, from glucose as sole carbon source. to enable the production of the metabolic intermediate oab, the trpdc operon encoding an anthranilate phosphoribosyltransferase (trpd) and an indole-3-glycerol phosphate synthase (trpc), were deleted. in addition, the chorismate mutase (phea) responsible for the conversion of chorismate over prephen ... | 2015 | 26635771 |
| purification and characterization of a novel nad(p)+-farnesol dehydrogenase from polygonum minus leaves. | juvenile hormones have attracted attention as safe and selective targets for the design and development of environmentally friendly and biorational insecticides. in the juvenile hormone iii biosynthetic pathway, the enzyme farnesol dehydrogenase catalyzes the oxidation of farnesol to farnesal. in this study, farnesol dehydrogenase was extracted from polygonum minus leaves and purified 204-fold to apparent homogeneity by ion-exchange chromatography using deae-toyopearl, sp-toyopearl, and super-q ... | 2015 | 26600471 |
| 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 |
| genome sequence and description of the anaerobic lignin-degrading bacterium tolumonas lignolytica sp. nov. | tolumonas lignolytica brl6-1(t) sp. nov. is the type strain of t. lignolytica sp. nov., a proposed novel species of the tolumonas genus. this strain was isolated from tropical rainforest soils based on its ability to utilize lignin as a sole carbon source. cells of tolumonas lignolytica brl6-1(t) are mesophilic, non-spore forming, gram-negative rods that are oxidase and catalase negative. the genome for this isolate was sequenced and returned in seven unique contigs totaling 3.6mbp, enabling the ... | 2015 | 26594307 |
| water stress responses of tomato mutants impaired in hormone biosynthesis reveal abscisic acid, jasmonic acid and salicylic acid interactions. | to investigate the putative crosstalk between ja and aba in solanum lycopersicum plants in response to drought, suppressor of prosystemin-mediated responses2 (spr2, ja-deficient) and flacca (flc, aba-deficient) mutants together with the naphthalene/salicylate hydroxylase (nahg) transgenic (sa-deficient) line were used. hormone profiling and gene expression of key enzymes in aba, ja and sa biosynthesis were analyzed during early stages of drought. aba accumulation was comparable in spr2 and wild ... | 2015 | 26635826 |
| 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 |
| 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 |
| 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 |
| metabolic pathway involved in 2-methyl-6-ethylaniline degradation by sphingobium sp. strain mea3-1 and cloning of the novel flavin-dependent monooxygenase system meaba. | 2-methyl-6-ethylaniline (mea) is the main microbial degradation intermediate of the chloroacetanilide herbicides acetochlor and metolachlor. sphingobium sp. strain mea3-1 can utilize mea and various alkyl-substituted aniline and phenol compounds as sole carbon and energy sources for growth. we isolated the mutant strain mea3-1mut, which converts mea only to 2-methyl-6-ethyl-hydroquinone (mehq) and 2-methyl-6-ethyl-benzoquinone (mebq). mea may be oxidized by the p450 monooxygenase system to 4-hyd ... | 2015 | 26386060 |
| biodegradation of the organic disulfide 4,4'-dithiodibutyric acid by rhodococcus spp. | four rhodococcus spp. exhibited the ability to use 4,4'-dithiodibutyric acid (dtdb) as a sole carbon source for growth. the most important step for the production of a novel polythioester (pte) using dtdb as a precursor substrate is the initial cleavage of dtdb. thus, identification of the enzyme responsible for this step was mandatory. because rhodococcus erythropolis strain mi2 serves as a model organism for elucidation of the biodegradation of dtdb, it was used to identify the genes encoding ... | 2015 | 26407888 |
| formation of polyphosphate by polyphosphate kinases and its relationship to poly(3-hydroxybutyrate) accumulation in ralstonia eutropha strain h16. | a protein (phax) that interacted with poly(3-hydroxybutyrate) (phb) depolymerase phaza1 and with phb granule-associated phasin protein phap2 was identified by two-hybrid analysis. deletion of phax resulted in an increase in the level of polyphosphate (polyp) granule formation and in impairment of phb utilization in nutrient broth-gluconate cultures. a procedure for enrichment of polyp granules from cell extracts was developed. twenty-seven proteins that were absent in other cell fractions were i ... | 2015 | 26407880 |
| quantifying nad(p)h production in the upper entner-doudoroff pathway from pseudomonas putida kt2440. | despite the lack of biochemical information, all available in silico metabolic models of pseudomonas putida kt2440 consider nadp as the only cofactor accepted by the glucose-6-phosphate dehydrogenases. because the entner-doudoroff pathway is the main glycolytic route in this bacterium, determining how much nadh and nadph are produced in the reaction catalyzed by these enzymes is very important for the correct interpretation of metabolic flux distributions. to determine the actual cofactor prefer ... | 2015 | 26702395 |
| 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 |
| 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 |
| 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 |
| the flagellar motor of caulobacter crescentus generates more torque when a cell swims backward. | caulobacter crescentus, a monotrichous bacterium, swims by rotating a single right-handed helical filament. cw motor rotation thrusts the cell forward (1), a mode of motility known as the pusher mode; ccw motor rotation pulls the cell backward, a mode of motility referred to as the puller mode (2). the situation is opposite in e. coli, a peritrichous bacterium, where ccw rotation of multiple left-handed filaments drives the cell forward. the flagellar motor in e. coli generates more torque in th ... | 2015 | 27499800 |
| the flagellar motor of caulobacter crescentus generates more torque when a cell swims backward. | caulobacter crescentus, a monotrichous bacterium, swims by rotating a single right-handed helical filament. cw motor rotation thrusts the cell forward (1), a mode of motility known as the pusher mode; ccw motor rotation pulls the cell backward, a mode of motility referred to as the puller mode (2). the situation is opposite in e. coli, a peritrichous bacterium, where ccw rotation of multiple left-handed filaments drives the cell forward. the flagellar motor in e. coli generates more torque in th ... | 2015 | 27499800 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| contribution of the distal pocket residue to the acyl-chain-length specificity of (r)-specific enoyl-coenzyme a hydratases from pseudomonas spp. | (r)-specific enoyl-coenzyme a (enoyl-coa) hydratases (phajs) are capable of supplying monomers from fatty acid β-oxidation to polyhydroxyalkanoate (pha) biosynthesis. phaj1pp from pseudomonas putida showed broader substrate specificity than did phaj1pa from pseudomonas aeruginosa, despite sharing 67% amino acid sequence identity. in this study, the substrate specificity characteristics of two pseudomonas phaj1 enzymes were investigated by site-directed mutagenesis, chimeragenesis, x-ray crystall ... | 2015 | 26386053 |
| pbar, an iclr family transcriptional activator for the regulation of the 3-phenoxybenzoate 1',2'-dioxygenase gene cluster in sphingobium wenxiniae jz-1t. | the 3-phenoxybenzoate (3-pba) 1',2'-dioxygenase gene cluster (pbaa1a2b cluster), which is responsible for catalyzing 3-phenoxybenzoate to 3-hydroxybenzoate and catechol, is inducibly expressed in sphingobium wenxiniae strain jz-1(t) by its substrate 3-pba. in this study, we identified a transcriptional activator of the pbaa1a2b cluster, pbar, using a dna affinity approach. pbar is a 253-amino-acid protein with a molecular mass of 28,000 da. pbar belongs to the iclr family of transcriptional regu ... | 2015 | 26386050 |
| phylogenetic and kinetic characterization of a suite of dehydrogenases from a newly isolated bacterium, strain sg61-1l, that catalyze the turnover of guaiacylglycerol-β-guaiacyl ether stereoisomers. | lignin is a complex aromatic polymer found in plant cell walls that makes up 15 to 40% of plant biomass. the degradation of lignin substructures by bacteria is of emerging interest because it could provide renewable alternative feedstocks and intermediates for chemical manufacturing industries. we have isolated a bacterium, strain sg61-1l, that rapidly degrades all of the stereoisomers of one lignin substructure, guaiacylglycerol-β-guaiacyl ether (gge), which contains a key β-o-4 linkage found i ... | 2015 | 26386069 |
| membrane-associated glucose-methanol-choline oxidoreductase family enzymes phcc and phcd are essential for enantioselective catabolism of dehydrodiconiferyl alcohol. | sphingobium sp. strain syk-6 is able to degrade various lignin-derived biaryls, including a phenylcoumaran-type compound, dehydrodiconiferyl alcohol (dca). in syk-6 cells, the alcohol group of the b-ring side chain of dca is initially oxidized to the carboxyl group to generate 3-(2-(4-hydroxy-3-methoxyphenyl)-3-(hydroxymethyl)-7-methoxy-2,3-dihydrobenzofuran-5-yl) acrylic acid (dca-c). next, the alcohol group of the a-ring side chain of dca-c is oxidized to the carboxyl group, and then the resul ... | 2015 | 26362985 |
| metabolic engineering of a novel muconic acid biosynthesis pathway via 4-hydroxybenzoic acid in escherichia coli. | cis,cis-muconic acid (ma) is a commercially important raw material used in pharmaceuticals, functional resins, and agrochemicals. ma is also a potential platform chemical for the production of adipic acid (aa), terephthalic acid, caprolactam, and 1,6-hexanediol. a strain of escherichia coli k-12, bw25113, was genetically modified, and a novel nonnative metabolic pathway was introduced for the synthesis of ma from glucose. the proposed pathway converted chorismate from the aromatic amino acid pat ... | 2015 | 26362984 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| the dualistic nature of integrative and conjugative elements. | integrative and conjugative elements (ices) are mobile genetic elements that play a key role in bacterial adaptation. such elements are found in almost every bacterial genera and species, and often code for adaptive traits conferring selective advantages to their host. ices maintain by integrating into and replicating along with a replicon of the host genome. ices can propagate by conjugative transfer toward a recipient cell following excision from the replicon as a circular covalently-closed mo ... | 2015 | 26942046 |
| yjeh is a novel exporter of l-methionine and branched-chain amino acids in escherichia coli. | amino acid efflux transport systems have important physiological functions and play vital roles in the fermentative production of amino acids. however, no methionine exporter has yet been identified in escherichia coli. in this study, we identified a novel amino acid exporter, yjeh, in e. coli. the yjeh overexpression strain exhibited high tolerance to the structural analogues of l-methionine and branched-chain amino acids, decreased intracellular amino acid levels, and enhanced export rates in ... | 2015 | 26319875 |
| crystal structure of quinone-dependent alcohol dehydrogenase from pseudogluconobacter saccharoketogenes. a versatile dehydrogenase oxidizing alcohols and carbohydrates. | the quinone-dependent alcohol dehydrogenase (pqq-adh, e.c. 1.1.5.2) from the gram-negative bacterium pseudogluconobacter saccharoketogenes ifo 14464 oxidizes primary alcohols (e.g. ethanol, butanol), secondary alcohols (monosaccharides), as well as aldehydes, polysaccharides, and cyclodextrins. the recombinant protein, expressed in pichia pastoris, was crystallized, and three-dimensional (3d) structures of the native form, with pqq and a ca(2+) ion, and of the enzyme in complex with a zn(2+) ion ... | 2015 | 26440996 |
| 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 |
| 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 |