| insights into methyltransferase specificity and bioactivity of derivatives of the antibiotic plantazolicin. | peptide antibiotics represent a class of conformationally constrained natural products of growing pharmaceutical interest. plantazolicin (pzn) is a linear, polyheterocyclic natural product with highly selective and potent activity against the anthrax-causing bacterium, bacillus anthracis. the bioactivity of pzn is contingent on dimethylation of its n-terminal arg residue by an s-adenosylmethionine-dependent methyltransferase. here, we explore the substrate tolerances of two homologous pzn methyl ... | 2015 | 25635336 |
| ab initio dynamics of the cytochrome p450 hydroxylation reaction. | the iron(iv)-oxo porphyrin π-cation radical known as compound i is the primary oxidant within the cytochromes p450, allowing these enzymes to affect the substrate hydroxylation. in the course of this reaction, a hydrogen atom is abstracted from the substrate to generate hydroxyiron(iv) porphyrin and a substrate-centered radical. the hydroxy radical then rebounds from the iron to the substrate, yielding the hydroxylated product. while compound i has succumbed to theoretical and spectroscopic char ... | 2015 | 25681906 |
| a first line of stress defense: small heat shock proteins and their function in protein homeostasis. | small heat shock proteins (shsps) are virtually ubiquitous molecular chaperones that can prevent the irreversible aggregation of denaturing proteins. shsps complex with a variety of non-native proteins in an atp-independent manner and, in the context of the stress response, form a first line of defense against protein aggregation in order to maintain protein homeostasis. in vertebrates, they act to maintain the clarity of the eye lens, and in humans, shsp mutations are linked to myopathies and n ... | 2015 | 25681016 |
| homologs of the acinetobacter baumannii acei transporter represent a new family of bacterial multidrug efflux systems. | multidrug efflux systems are a major cause of resistance to antimicrobials in bacteria, including those pathogenic to humans, animals, and plants. these proteins are ubiquitous in these pathogens, and five families of bacterial multidrug efflux systems have been identified to date. by using transcriptomic and biochemical analyses, we recently identified the novel acei (acinetobacter chlorhexidine efflux) protein from acinetobacter baumannii that conferred resistance to the biocide chlorhexidine, ... | 2015 | 25670776 |
| the bacillus cereus group is an excellent reservoir of novel lanthipeptides. | lantibiotics are ribosomally synthesized peptides that contain multiple posttranslational modifications. research on lantibiotics has increased recently, mainly due to their broad-spectrum antimicrobial activity, especially against some clinical gram-positive pathogens. many reports about various bacteriocins in the bacillus cereus group have been published, but few were about lantibiotics. in this study, we identified 101 putative lanthipeptide gene clusters from 77 out of 223 strains of this g ... | 2015 | 25548056 |
| transcriptional analysis of deinococcus radiodurans reveals novel small rnas that are differentially expressed under ionizing radiation. | small noncoding rnas (srnas) are posttranscriptional regulators that have been identified in multiple species and shown to play essential roles in responsive mechanisms to environmental stresses. the natural ability of specific bacteria to resist high levels of radiation has been of high interest to mechanistic studies of dna repair and biomolecular protection. deinococcus radiodurans is a model extremophile for radiation studies that can survive doses of ionizing radiation of >12,000 gy, 3,000 ... | 2015 | 25548054 |
| comparative proteome analysis reveals four novel polyhydroxybutyrate (phb) granule-associated proteins in ralstonia eutropha h16. | identification of proteins that were present in a polyhydroxybutyrate (phb) granule fraction isolated from ralstonia eutropha but absent in the soluble, membrane, and membrane-associated fractions revealed the presence of only 12 polypeptides with phb-specific locations plus 4 previously known phb-associated proteins with multiple locations. none of the previously postulated phb depolymerase isoenzymes (phaza2 to phaza5, phazd1, and phazd2) and none of the two known 3-hydroxybutyrate oligomer hy ... | 2015 | 25548058 |
| increasing carbapenem-resistant gram-negative bacilli and decreasing metallo-β-lactamase producers over eight years from korea. | the trends and types of carbapenemase-producing gram-negative bacilli were analyzed from clinical specimens collected between 2005 and 2012 at a korean teaching hospital. the proportions of carbapenem-resistant acinetobacter spp. increased markedly to 66%. metallo-β-lactamase producers significantly decreased and the majority shifted from the bla(vim-2) type to the bla(imp-1) type. | 2015 | 25684011 |
| collagen-like proteins (clpa, clpb, clpc, and clpd) are required for biofilm formation and adhesion to plant roots by bacillus amyloliquefaciens fzb42. | the genes of collagen-like proteins (clps) have been identified in a broad range of bacteria, including some human pathogens. they are important for biofilm formation and bacterial adhesion to host cells in some human pathogenic bacteria, including several bacillus spp. strains. interestingly, some bacterial clp-encoding genes (clps) have also been found in non-human pathogenic strains such as b. cereus and b. amyloliquefaciens, which are types of plant-growth promoting rhizobacteria (pgpr). in ... | 2015 | 25658640 |
| draft genome sequence of acinetobacter oleivorans pf1, a diesel-degrading and plant-growth-promoting endophytic strain isolated from poplar trees growing on a diesel-contaminated plume. | we report the 3.7-mb draft genome of acinetobacter oleivorans strain pf1, a hydrocarbonoclastic gram-negative bacterium in the class gammaproteobacteria, isolated from poplar trees growing on a diesel-contaminated plume at the ford motor company site in genk, belgium. strain pf1 is a potent plant-growth promoter, useful for diesel fuel phytoremediation applications. | 2015 | 25657268 |
| rhizobia and their bio-partners as novel drivers for functional remediation in contaminated soils. | environmental pollutants have received considerable attention due to their serious effects on human health. there are physical, chemical, and biological means to remediate pollution; among them, bioremediation has become increasingly popular. the nitrogen-fixing rhizobia are widely distributed in the soil and root ecosystems and can increase legume growth and production by supplying nitrogen, resulting in the reduced need for fertilizer applications. rhizobia also possess the biochemical and eco ... | 2015 | 25699064 |
| tetrahydroisoquinolines affect the whole-cell phenotype of mycobacterium tuberculosis by inhibiting the atp-dependent mure ligase. | (s)-leucoxine, isolated from the colombian lauraceae tree rhodostemonodaphne crenaticupula madriñan, was found to inhibit the growth of mycobacterium tuberculosis h37rv. a biomimetic approach for the chemical synthesis of a wide array of 1-substituted tetrahydroisoquinolines was undertaken with the aim of elucidating a common pharmacophore for these compounds with novel mode(s) of anti-tb action. | 2015 | 25656411 |
| a dye-decolorizing peroxidase from bacillus subtilis exhibiting substrate-dependent optimum temperature for dyes and β-ether lignin dimer. | in the biorefinery using lignocellulosic biomass as feedstock, pretreatment to breakdown or loosen lignin is important step and various approaches have been conducted. for biological pretreatment, we screened bacillus subtilis kctc2023 as a potential lignin-degrading bacterium based on veratryl alcohol (va) oxidation test and the putative heme-containing dye-decolorizing peroxidase was found in the genome of b. subtilis kctc2023. the peroxidase from b. subtilis kctc2023 (bsdyp) was capable of ox ... | 2015 | 25650125 |
| integrating food webs with metabolic networks: modeling contaminant degradation in marine ecosystems. | | 2015 | 25691892 |
| reclassification of bacteriovorax marinus as halobacteriovorax marinus gen. nov., comb. nov. and bacteriovorax litoralis as halobacteriovorax litoralis comb. nov.; description of halobacteriovoraceae fam. nov. in the class deltaproteobacteria. | the taxonomic status of saltwater bdellovibrio-like prokaryotic predators has been revised to assign species to halobacteriovorax gen. nov. a reclassification of bacteriovorax marinus as halobacteriovorax marinus comb. nov. (type strain atcc baa-682(t) = dsm 15412(t)) and bacteriovorax litoralis as halobacteriovorax litoralis comb. nov. (type strain atcc baa-684(t) = dsm 15409(t)) is proposed. this revision is necessary because a previous proposal to retain saltwater isolates as species of bacte ... | 2015 | 25406234 |
| plasmid detection, characterization, and ecology. | plasmids are important vehicles for rapid adaptation of bacterial populations to changing environmental conditions. it is thought that to reduce the cost of plasmid carriage, only a fraction of a local population carries plasmids or is permissive to plasmid uptake. plasmids provide various accessory traits which might be beneficial under particular conditions. the genetic variation generated by plasmid carriage within populations ensures the robustness toward environmental changes. plasmid-media ... | 2015 | 26104560 |
| unraveling the kinetic diversity of microbial 3-dehydroquinate dehydratases of shikimate pathway. | 3-dehydroquinate dehydratase (dhqase) catalyzes the conversion of 3-dehydroquinic acid to 3-dehydroshikimic acid of the shikimate pathway. in this study, 3180 prokaryotic genomes were examined and 459 dhqase sequences were retrieved. based on sequence analysis and their original hosts, 38 dhqase genes were selected for chemical synthesis. the selected dhqases were translated into new dna sequences according to the genetic codon usage bias by both escherichia coli and corynebacterium glutamicum. ... | 2015 | 25852984 |
| iaa producing enterobacter sp. i-3 as a potent bio-herbicide candidate for weed control: a special reference with lettuce growth inhibition. | development of bio-herbicides is an emerging method to weed management in agricultural field. very few studies were conducted on identification of microbial bio-herbicides to weed control. the present study was aimed to isolate and identify the effective bio-herbicide potential bacterium from soil and assess their role on plant growth inhibition. three-hundred and one rhizobacteria were isolated from agriculture field soil samples collected from various parts of republic of korea. two bacterial ... | 2015 | 25805908 |
| sensor kinase pa4398 modulates swarming motility and biofilm formation in pseudomonas aeruginosa pa14. | pseudomonas aeruginosa is an opportunistic human pathogen that is able to sense and adapt to numerous environmental stimuli by the use of transcriptional regulators, including two-component regulatory systems. in this study, we demonstrate that the sensor kinase pa4398 is involved in the regulation of swarming motility and biofilm formation in p. aeruginosa pa14. apa4398 mutant strain was considerably impaired in swarming motility, while biofilm formation was increased by approximately 2-fold. t ... | 2015 | 25501476 |
| novel reporter for identification of interference with acyl homoserine lactone and autoinducer-2 quorum sensing. | two reporter strains were established to identify novel biomolecules interfering with bacterial communication (quorum sensing [qs]). the basic design of these escherichia coli-based systems comprises a gene encoding a lethal protein fused to promoters induced in the presence of qs signal molecules. consequently, these e. coli strains are unable to grow in the presence of the respective qs signal molecules unless a nontoxic qs-interfering compound is present. the first reporter strain designed to ... | 2015 | 25527543 |
| heterologous production of curcuminoids. | curcuminoids, components of the rhizome of turmeric, show several beneficial biological activities, including anticarcinogenic, antioxidant, anti-inflammatory, and antitumor activities. despite their numerous pharmaceutically important properties, the low natural abundance of curcuminoids represents a major drawback for their use as therapeutic agents. therefore, they represent attractive targets for heterologous production and metabolic engineering. the understanding of biosynthesis of curcumin ... | 2015 | 25631288 |
| ligand binding specificity of rutr, a member of the tetr family of transcription regulators in escherichia coli. | rutr is a member of the large family of tetr transcriptional regulators in escherichia coli. it was originally discovered as the regulator of the rutabcdefg operon encoding a novel pathway for pyrimidine utilization, but its highest affinity target is the control region of the carab operon, encoding carbamoylphosphate synthase. unlike most other tetr-like regulators, rutr exerts both positive and negative effects on promoter activity. furthermore, rutr exhibits a very narrow ligand binding speci ... | 2015 | 25685666 |
| isolation of vim-2-producing pseudomonas monteilii clinical strains disseminated in a tertiary hospital in northern spain. | we describe here the occurrence of blavim-2 in 10 carbapenem-resistant pseudomonas monteilii strains isolated from different clinical samples from patients at the university hospital marqués de valdecilla in northern spain. all the blavim-2-harboring p. monteilii isolates possessed a class 1 integron, with the cassette array [inti1_blavim-2_aac(6')-ib_qaceδ1_sul1]. our results show the emergence of vim-2-producing multidrug-resistant species other than pseudomonas aeruginosa or pseudomonas putid ... | 2015 | 25421471 |
| a moonlighting metabolic protein influences repair at dna double-stranded breaks. | catalytically active proteins with divergent dual functions are often described as 'moonlighting'. in this work we characterize a new, chromatin-based function of lys20, a moonlighting protein that is well known for its role in metabolism. lys20 was initially described as homocitrate synthase (hcs), the first enzyme in the lysine biosynthetic pathway in yeast. its nuclear localization led to the discovery of a key role for lys20 in dna damage repair through its interaction with the myst family h ... | 2015 | 25628362 |
| the lipid-modifying multiple peptide resistance factor is an oligomer consisting of distinct interacting synthase and flippase subunits. | phospholipids are synthesized at the inner leaflet of the bacterial cytoplasmic membrane but have to be translocated to the outer leaflet to maintain membrane lipid bilayer composition and structure. even though phospholipid flippases have been proposed to exist in bacteria, only one such protein, mprf, has been described. mprf is a large integral membrane protein found in several prokaryotic phyla, whose c terminus modifies phosphatidylglycerol (pg), the most common bacterial phospholipid, with ... | 2015 | 25626904 |
| feasibility study of an alkaline-based chemical treatment for the purification of polyhydroxybutyrate produced by a mixed enriched culture. | this study focused on investigating the feasibility of purifying polyhydroxybutyrate (phb) from mixed culture biomass by alkaline-based chemical treatment. the phb-containing biomass was enriched on acetate under non-sterile conditions. alkaline treatment (0.2 m naoh) together with surfactant sds (0.2 w/v% sds) could reach 99% purity, with more than 90% recovery. the lost phb could be mostly attributed to phb hydrolysis during the alkaline treatment. phb hydrolysis could be moderated by increasi ... | 2015 | 25642402 |
| quorum sensing triggers the stochastic escape of individual cells from pseudomonas putida biofilms. | the term 'quorum sensing' (qs) is generally used to describe the phenomenon that bacteria release and perceive signal molecules to coordinate cooperative behaviour in response to their population size. qs-based communication has therefore been considered a social trait. here we show that qs signals (n-acyl-homoserine lactones, ahls) are stochastically produced in young biofilms of pseudomonas putida and act mainly as self-regulatory signals rather than inducing neighbouring cells. we demonstrate ... | 2015 | 25592773 |
| production of cinnamic and p-hydroxycinnamic acid from sugar mixtures with engineered escherichia coli. | the aromatic compounds cinnamic acid (ca) and p-hydroxycinnamic acid (phca) are used as flavoring agents as well as precursors of chemicals. these compounds are present in plants at low concentrations, therefore, complex purification processes are usually required to extract the product. an alternative production method for these aromatic acids is based on the use of microbial strains modified by metabolic engineering. these biotechnological processes are usually based on the use of simple sugar ... | 2015 | 25592545 |
| structure, bioactivity, and resistance mechanism of streptomonomicin, an unusual lasso peptide from an understudied halophilic actinomycete. | natural products are the most historically significant source of compounds for drug development. however, unacceptably high rates of compound rediscovery associated with large-scale screening of common microbial producers have resulted in the abandonment of many natural product drug discovery efforts, despite the increasing prevalence of clinically problematic antibiotic resistance. screening of underexplored taxa represents one strategy to avoid rediscovery. herein we report the discovery, isol ... | 2015 | 25601074 |
| oxidative stress protection by polyphosphate--new roles for an old player. | inorganic polyphosphate is a universally conserved biopolymer whose association with oxidative stress resistance has been documented in many species, but whose mode of action has been poorly understood. here we review the recent discovery that polyphosphate functions as a protein-protective chaperone, examine the mechanisms by which polyphosphate-metal ion interactions reduce oxidative stress, and summarize polyphosphate's roles in regulating general stress response pathways. given the simple ch ... | 2015 | 25589044 |
| interplay of physical mechanisms and biofilm processes: review of microfluidic methods. | bacteria in natural and artificial environments often reside in self-organized, integrated communities known as biofilms. biofilms are highly structured entities consisting of bacterial cells embedded in a matrix of self-produced extracellular polymeric substances (eps). the eps matrix acts like a biological 'glue' enabling microbes to adhere to and colonize a wide range of surfaces. once integrated into biofilms, bacterial cells can withstand various forms of stress such as antibiotics, hydrody ... | 2015 | 25385289 |
| diabetic foot gangrene patient with multi-drug resistant pseudomonas putida infection in karawaci district, indonesia. | pseudomonas putida is a rod-shaped, non fermenting gram-negative organism frequently found in the environment that utilizes aerobic metabolism, previously thought to be of low pathogenicity. it had been reported as cause of skin and soft tissue infection, especially in immunocompromised patients. a female green grocer, 51 year-old came to internal medicine out-patient clinic with gangrene and osteomyelitis on her 1(st), 2(nd) and 3(rd) digit and wound on the sole of the right foot since 1 month ... | 2015 | 25722620 |
| iron uptake analysis in a set of clinical isolates of pseudomonas putida. | pseudomonas putida strains are frequent inhabitants of soil and aquatic niches and they are occasionally isolated from hospital environments. as the available iron sources in human tissues, edaphic, and aquatic niches are different, we have analyzed iron-uptake related genes in different p. putida strains that were isolated from all these environments. we found that these isolates can be grouped into different clades according to the genetics of siderophore biosynthesis and recycling. the pyover ... | 2016 | 28082966 |
| structural insights on pha binding protein phap from aeromonas hydrophila. | phasins or phaps are a group of amphiphilic proteins that are found attached to the surface of microbial polyhydroxyalkanoate (pha) granules. they have both structural and regulatory functions and can affect intracellular pha accumulation and mediate protein folding. the molecular basis for the diverse functions of the phaps has not been fully understood due to the lack of the structural knowledge. here we report the structural and biochemical studies of the phap cloned from aeromonas hydrophila ... | 2016 | 28009010 |
| inactivation of salmonella spp. and listeria spp. by palmitic, stearic, and oleic acid sophorolipids and thiamine dilauryl sulfate. | food contaminated with human pathogens, such as salmonella spp. and listeria monocytogenes, frequently causes outbreaks of foodborne illness. consumer concern over the use of synthesized antimicrobials to enhance microbial food safety has led to a search of natural alternatives. the objectives of this study were to evaluate the antimicrobial activity of various types of sophorolipids (sls) and thiamine dilauryl sulfate (tds) against pathogenic salmonella spp. and listeria spp. both free and lact ... | 2016 | 28066390 |
| first chemo-enzymatic synthesis of the (r)-taniguchi lactone and substrate profiles of camo and otemo, two new baeyer-villiger monooxygenases. | this study investigates the substrate profile of cycloalkanone monooxygenase and 2-oxo-δ(3)-4,5,5-trimethylcyclopentenylacetyl-coenzyme a monooxygenase, two recently discovered enzymes of the baeyer-villiger monooxygenase family, used as whole-cell biocatalysts. biooxidations of a diverse set of ketones were performed on analytical scale: desymmetrization of substituted prochiral cyclobutanones and cyclohexanones, regiodivergent oxidation of terpenones and bicyclic ketones, as well as kinetic re ... | 2016 | 28127101 |
| first chemo-enzymatic synthesis of the (r)-taniguchi lactone and substrate profiles of camo and otemo, two new baeyer-villiger monooxygenases. | this study investigates the substrate profile of cycloalkanone monooxygenase and 2-oxo-δ(3)-4,5,5-trimethylcyclopentenylacetyl-coenzyme a monooxygenase, two recently discovered enzymes of the baeyer-villiger monooxygenase family, used as whole-cell biocatalysts. biooxidations of a diverse set of ketones were performed on analytical scale: desymmetrization of substituted prochiral cyclobutanones and cyclohexanones, regiodivergent oxidation of terpenones and bicyclic ketones, as well as kinetic re ... | 2016 | 28127101 |
| the detoxification and degradation of benzothiazole from the wastewater in microbial electrolysis cells. | in this study, the high-production-volume chemical benzothiazole (bth) from synthetic water was fully degraded into less toxic intermediates of simple organic acids using an up-flow internal circulation microbial electrolysis reactor (uicmer) under the hydraulic retention time (hrt) of 24 h. the bioelectrochemical system was operated at 25 ± 2 °c and continuous-flow mode. the bth loading rate varied during experiments from 20 g·m(-3)·day(-1) to 110 g·m(-3)·day(-1). bth and soluble cod (chemical ... | 2016 | 27999421 |
| advances and challenges in logical modeling of cell cycle regulation: perspective for multi-scale, integrative yeast cell models. | the eukaryotic cell cycle is robustly designed, with interacting molecules organized within a definite topology that ensures temporal precision of its phase transitions. its underlying dynamics are regulated by molecular switches, for which remarkable insights have been provided by genetic and molecular biology efforts. in a number of cases, this information has been made predictive, through computational models. these models have allowed for the identification of novel molecular mechanisms, lat ... | 2016 | 27993914 |
| advances and challenges in logical modeling of cell cycle regulation: perspective for multi-scale, integrative yeast cell models. | the eukaryotic cell cycle is robustly designed, with interacting molecules organized within a definite topology that ensures temporal precision of its phase transitions. its underlying dynamics are regulated by molecular switches, for which remarkable insights have been provided by genetic and molecular biology efforts. in a number of cases, this information has been made predictive, through computational models. these models have allowed for the identification of novel molecular mechanisms, lat ... | 2016 | 27993914 |
| redox properties of extracellular polymeric substances (eps) from electroactive bacteria. | although the capacity for electroactive bacteria to convert environmental metallic minerals and organic pollutants is well known, the role of the redox properties of microbial extracellular polymeric substances (eps) in this process is poorly understood. in this work, the redox properties of eps from two widely present electroactive bacterial strains (shewanella oneidensis and pseudomonas putida) were explored. electrochemical analysis demonstrates that the eps extracted from the two strains exh ... | 2016 | 27991531 |
| genes encoding norcoclaurine synthase occur as tandem fusions in the papaveraceae. | norcoclaurine synthase (ncs) catalyzes the enantioselective pictet-spengler condensation of dopamine and 4-hydroxyphenylacetaldehyde as the first step in benzylisoquinoline alkaloid (bia) biosynthesis. ncs orthologs in available transcriptome databases were screened for variants that might improve the low yield of bias in engineered microorganisms. databases for 21 bia-producing species from four plant families yielded 33 assembled contigs with homology to characterized ncs genes. predicted tran ... | 2016 | 27991536 |
| copy number variability of expression plasmids determined by cell sorting and droplet digital pcr. | plasmids are widely used for molecular cloning or production of proteins in laboratory and industrial settings. constant modification has brought forth countless plasmid vectors whose characteristics in terms of average plasmid copy number (pcn) and stability are rarely known. the crucial factor determining the pcn is the replication system; most replication systems in use today belong to a small number of different classes and are available through repositories like the standard european vector ... | 2016 | 27993152 |
| inoculation of soil with plant growth promoting bacteria producing 1-aminocyclopropane-1-carboxylate deaminase or expression of the corresponding acds gene in transgenic plants increases salinity tolerance in camelina sativa. | camelina sativa (camelina) is an oilseed crop touted for use on marginal lands; however, it is no more tolerant of soil salinity than traditional crops, such as canola. plant growth-promoting bacteria (pgpb) that produce 1-aminocyclopropane-1-carboxylate deaminase (acc deaminase) facilitate plant growth in the presence of abiotic stresses by reducing stress ethylene. rhizospheric and endophytic pgpb and the corresponding acds- mutants of the latter were examined for their ability to enhance tole ... | 2016 | 28018305 |
| arsenic resistance strategy in pantoea sp. imh: organization, function and evolution of ars genes. | pantoea sp. imh is the only bacterium found in genus pantoea with a high as resistance capacity, but its molecular mechanism is unknown. herein, the organization, function, and evolution of ars genes in imh are studied starting with analysis of the whole genome. two ars systems - ars1 (arsr1b1c1h1) and ars2 (arsr2b2c2h2) - with low sequence homology and two arsc-like genes, were found in the imh genome. both ars1 and ars2 are involved in the as resistance, where ars1 is the major contributor at ... | 2016 | 27966630 |
| high titer heterologous rhamnolipid production. | heterologous mono-rhamnolipid production by pseudomonas putida kt2440 psynpro8ot_rhlab using glucose as the single carbon source was characterized in fed-batch bioreactor cultivations. for the described experiments, a defined mineral salt medium was used, and a two phase glucose feeding profile was applied, which yielded a final rhamnolipid concentration of 14.9 g/l. applying the feeding profile, glucose stayed almost constant until 28 h of cultivation and decreased afterwards to limiting levels ... | 2016 | 27957724 |
| systemic responses of barley to the 3-hydroxy-decanoyl-homoserine lactone producing plant beneficial endophyte acidovorax radicis n35. | quorum sensing auto-inducers of the n-acyl homoserine lactone (ahl) type produced by gram-negative bacteria have different effects on plants including stimulation on root growth and/or priming or acquirement of systemic resistance in plants. in this communication the influence of ahl production of the plant growth promoting endophytic rhizosphere bacterium acidovorax radicis n35 on barley seedlings was investigated. a. radicis n35 produces 3-hydroxy-c10-homoserine lactone (3-oh-c10-hsl) as the m ... | 2016 | 28018401 |
| identification of electrode respiring, hydrocarbonoclastic bacterial strain stenotrophomonas maltophilia mk2 highlights the untapped potential for environmental bioremediation. | electrode respiring bacteria (erb) possess a great potential for many biotechnological applications such as microbial electrochemical remediation systems (mers) because of their exoelectrogenic capabilities to degrade xenobiotic pollutants. very few erb have been isolated from mers, those exhibited a bioremediation potential toward organic contaminants. here we report once such bacterial strain, stenotrophomonas maltophilia mk2, a facultative anaerobic bacterium isolated from a hydrocarbon fed m ... | 2016 | 28018304 |
| functional characterization of aconitase x as a cis-3-hydroxy-l-proline dehydratase. | in the aconitase superfamily, which includes the archetypical aconitase, homoaconitase, and isopropylmalate isomerase, only aconitase x is not functionally annotated. the corresponding gene (lhpi) was often located within the bacterial gene cluster involved in l-hydroxyproline metabolism. screening of a library of (hydroxy)proline analogues revealed that this protein catalyzes the dehydration of cis-3-hydroxy-l-proline to δ(1)-pyrroline-2-carboxylate. furthermore, electron paramagnetic resonance ... | 2016 | 27929065 |
| insights into functional and evolutionary analysis of carbaryl metabolic pathway from pseudomonas sp. strain c5pp. | carbaryl (1-naphthyl n-methylcarbamate) is a most widely used carbamate pesticide in the agriculture field. soil isolate, pseudomonas sp. strain c5pp mineralizes carbaryl via 1-naphthol, salicylate and gentisate, however the genetic organization and evolutionary events of acquisition and assembly of pathway have not yet been studied. the draft genome analysis of strain c5pp reveals that the carbaryl catabolic genes are organized into three putative operons, 'upper', 'middle' and 'lower'. the seq ... | 2016 | 27924916 |
| a metabolic widget adjusts the phosphoenolpyruvate-dependent fructose influx in pseudomonas putida. | fructose uptake in the soil bacterium pseudomonas putida occurs through a canonical phosphoenolpyruvate (pep)-dependent sugar transport system (pts(fru)). the logic of the genetic circuit that rules its functioning is puzzling: the transcription of the frubka operon, encoding all the components of pts(fru), can escape the repression exerted by the catabolite repressor/activator protein cra solely in the presence of intracellular fructose-1-p, an agonist formed only when fructose has been already ... | 2016 | 27933319 |
| properties of alternative microbial hosts used in synthetic biology: towards the design of a modular chassis. | the chassis is the cellular host used as a recipient of engineered biological systems in synthetic biology. they are required to propagate the genetic information and to express the genes encoded in it. despite being an essential element for the appropriate function of genetic circuits, the chassis is rarely considered in their design phase. consequently, the circuits are transferred to model organisms commonly used in the laboratory, such as escherichia coli, that may be suboptimal for a requir ... | 2016 | 27903818 |
| synthesis and functions of jasmonates in maize. | of the over 600 oxylipins present in all plants, the phytohormone jasmonic acid (ja) remains the best understood in terms of its biosynthesis, function and signaling. much like their eicosanoid analogues in mammalian system, evidence is growing for the role of the other oxylipins in diverse physiological processes. ja serves as the model plant oxylipin species and regulates defense and development. for several decades, the biology of ja has been characterized in a few dicot species, yet the func ... | 2016 | 27916835 |
| microscope in 2017: an expanding and evolving integrated resource for community expertise of microbial genomes. | the annotation of genomes from ngs platforms needs to be automated and fully integrated. however, maintaining consistency and accuracy in genome annotation is a challenging problem because millions of protein database entries are not assigned reliable functions. this shortcoming limits the knowledge that can be extracted from genomes and metabolic models. launched in 2005, the microscope platform (http://www.genoscope.cns.fr/agc/microscope) is an integrative resource that supports systematic and ... | 2016 | 27899624 |
| microscope in 2017: an expanding and evolving integrated resource for community expertise of microbial genomes. | the annotation of genomes from ngs platforms needs to be automated and fully integrated. however, maintaining consistency and accuracy in genome annotation is a challenging problem because millions of protein database entries are not assigned reliable functions. this shortcoming limits the knowledge that can be extracted from genomes and metabolic models. launched in 2005, the microscope platform (http://www.genoscope.cns.fr/agc/microscope) is an integrative resource that supports systematic and ... | 2016 | 27899624 |
| salicylic acid is involved in the basal resistance of tomato plants to citrus exocortis viroid and tomato spotted wilt virus. | tomato plants expressing the nahg transgene, which prevents accumulation of endogenous salicylic acid (sa), were used to study the importance of the sa signalling pathway in basal defence against citrus exocortis viroid (cevd) or tomato spotted wilt virus (tswv). the lack of sa accumulation in the cevd- or tswv-infected nahg tomato plants led to an early and dramatic disease phenotype, as compared to that observed in the corresponding parental money maker. addition of acibenzolar-s-methyl, a ben ... | 2016 | 27893781 |
| metabolic engineering of pseudomonas putida kt2440 for the production of para-hydroxy benzoic acid. | para-hydroxy benzoic acid (phba) is the key component for preparing parabens, a common preservatives in food, drugs, and personal care products, as well as high-performance bioplastics such as liquid crystal polymers. pseudomonas putida kt2440 was engineered to produce phba from glucose via the shikimate pathway intermediate chorismate. to obtain the phba production strain, chorismate lyase ubic from escherichia coli and a feedback resistant 3-deoxy-d-arabino-heptulosonate-7-phosphate synthase e ... | 2016 | 27965953 |
| multiple and variable nhej-like genes are involved in resistance to dna damage in streptomyces ambofaciens. | non-homologous end-joining (nhej) is a double strand break (dsb) repair pathway which does not require any homologous template and can ligate two dna ends together. the basic bacterial nhej machinery involves two partners: the ku protein, a dna end binding protein for dsb recognition and the multifunctional ligd protein composed a ligase, a nuclease and a polymerase domain, for end processing and ligation of the broken ends. in silico analyses performed in the 38 sequenced genomes of streptomyce ... | 2016 | 27965636 |
| initiation of chromosomal replication in predatory bacterium bdellovibrio bacteriovorus. | bdellovibrio bacteriovorus is a small gram-negative predatory bacterium that attacks other gram-negative bacteria, including many animal, human, and plant pathogens. this bacterium exhibits a peculiar biphasic life cycle during which two different types of cells are produced: non-replicating highly motile cells (the free-living phase) and replicating cells (the intracellular-growth phase). the process of chromosomal replication in b. bacteriovorus must therefore be temporally and spatially regul ... | 2016 | 27965633 |
| whole-genome sequences of two manganese(ii)-oxidizing bacteria, bosea sp. strain biwako-01 and alphaproteobacterium strain u9-1i. | this report describes the whole-genome sequences of two mn(ii)-oxidizing bacteria, filamentous mn oxide microparticle-forming bosea sp. strain biwako-01 and alphaproteobacterium strain u9-1i. | 2016 | 27881541 |
| enhancing poly(3-hydroxyalkanoate) production in escherichia coli by the removal of the regulatory gene arca. | recombinant escherichia coli is a desirable platform for the production of many biological compounds including poly(3-hydroxyalkanoates), a class of naturally occurring biodegradable polyesters with promising biomedical and material applications. although the controlled production of desirable polymers is possible with the utilization of fatty acid feedstocks, a central challenge to this biosynthetic route is the improvement of the relatively low polymer yield, a necessary factor of decreasing t ... | 2016 | 27878786 |
| draft genome sequence of pseudomonas mosselii gil3, isolated from catfish and antagonistic against hypervirulent aeromonas hydrophila. | pseudomonas mosselii gil3 was isolated from a catfish that survived from lethal challenge with hypervirulent aeromonas hydrophila (vah). when assayed in vitro, the bacterium showed antagonism against vah. sequence analysis revealed that the genome of p. mosselii gil3 encodes numerous aromatic metabolism pathways and proteins for biosynthesis of antimicrobial compounds. | 2016 | 27856595 |
| two-step production of phenylpyruvic acid from l-phenylalanine by growing and resting cells of engineered escherichia coli: process optimization and kinetics modeling. | phenylpyruvic acid (ppa) is widely used in the pharmaceutical, food, and chemical industries. here, a two-step bioconversion process, involving growing and resting cells, was established to produce ppa from l-phenylalanine using the engineered escherichia coli constructed previously. first, the biotransformation conditions for growing cells were optimized (l-phenylalanine concentration 20.0 g·l-1, temperature 35°c) and a two-stage temperature control strategy (keep 20°c for 12 h and increase the ... | 2016 | 27851793 |
| mutation of the streptococcus gordonii thiol-disulfide oxidoreductase sdba leads to enhanced biofilm formation mediated by the ciarh two-component signaling system. | streptococcus gordonii is a commensal inhabitant of human oral biofilms. previously, we identified an enzyme called sdba that played an important role in biofilm formation by s. gordonii. sdba is thiol-disulfide oxidoreductase that catalyzes disulfide bonds in secreted proteins. surprisingly, inactivation of sdba results in enhanced biofilm formation. in this study we investigated the basis for biofilm formation by the δsdba mutant. the results revealed that biofilm formation was mediated by the ... | 2016 | 27846284 |
| adaptive evolution of phosphorus metabolism in prochlorococcus. | inorganic phosphorus is scarce in the eastern mediterranean sea, where the high-light-adapted ecotype hli of the marine picocyanobacterium prochlorococcus marinus thrives. physiological and regulatory control of phosphorus acquisition and partitioning has been observed in hli both in culture and in the field; however, the optimization of phosphorus metabolism and associated gains for its phosphorus-limited-growth (plg) phenotype have not been studied. here, we reconstructed a genome-scale metabo ... | 2016 | 27868089 |
| novel culturing techniques select for heterotrophs and hydrocarbon degraders in a subantarctic soil. | the soil substrate membrane system (ssms) is a novel micro-culturing technique targeted at terrestrial soil systems. we applied the ssms to pristine and diesel fuel spiked polar soils, along with traditional solid media culturing and culture independent 454 tag pyrosequencing to elucidate the effects of diesel fuel on the soil community. the ssms enriched for up to 76% of the total soil diversity within high diesel fuel concentration soils, in contrast to only 26% of the total diversity for the ... | 2016 | 27827405 |
| draft genome sequence of a multi-metal resistant bacterium pseudomonas putida ath-43 isolated from greenwich island, antarctica. | | 2016 | 27877169 |
| bacterial genome engineering and synthetic biology: combating pathogens. | the emergence and prevalence of multidrug resistant (mdr) pathogenic bacteria poses a serious threat to human and animal health globally. nosocomial infections and common ailments such as pneumonia, wound, urinary tract, and bloodstream infections are becoming more challenging to treat due to the rapid spread of mdr pathogenic bacteria. according to recent reports by the world health organization (who) and centers for disease control and prevention (cdc), there is an unprecedented increase in th ... | 2016 | 27814687 |
| lapf and its regulation by fis affect the cell surface hydrophobicity of pseudomonas putida. | the ability of bacteria to regulate cell surface hydrophobicity is important for the adaptation to different environmental conditions. the hydrophobicity of cell surface can be determined by several factors, including outer membrane and surface proteins. in this study, we report that an adhesin lapf influences cell surface hydrophobicity of pseudomonas putida. cells lacking lapf are less hydrophobic than wild-type cells in stationary growth phase. moreover, the overexpression of the global regul ... | 2016 | 27812186 |
| partial least squares with structured output for modelling the metabolomics data obtained from complex experimental designs: a study into the y-block coding. | partial least squares (pls) is one of the most commonly used supervised modelling approaches for analysing multivariate metabolomics data. pls is typically employed as either a regression model (pls-r) or a classification model (pls-da). however, in metabolomics studies it is common to investigate multiple, potentially interacting, factors simultaneously following a specific experimental design. such data often cannot be considered as a "pure" regression or a classification problem. nevertheless ... | 2016 | 27801817 |
| the bacterial enhancer-dependent rna polymerase. | transcription initiation is highly regulated in bacterial cells, allowing adaptive gene regulation in response to environment cues. one class of promoter specificity factor called sigma54 enables such adaptive gene expression through its ability to lock the rna polymerase down into a state unable to melt out promoter dna for transcription initiation. promoter dna opening then occurs through the action of specialized transcription control proteins called bacterial enhancer-binding proteins (bebps ... | 2016 | 27789741 |
| heavy metal pollution from gold mines: environmental effects and bacterial strategies for resistance. | mining activities can lead to the generation of large quantities of heavy metal laden wastes which are released in an uncontrolled manner, causing widespread contamination of the ecosystem. though some heavy metals classified as essential are important for normal life physiological processes, higher concentrations above stipulated levels have deleterious effects on human health and biota. bacteria able to withstand high concentrations of these heavy metals are found in the environment as a resul ... | 2016 | 27792205 |
| coconut lethal yellowing diseases: a phytoplasma threat to palms of global economic and social significance. | the recent discovery of bogia coconut syndrome in papua new guinea (png) is the first report of a lethal yellowing disease (lyd) in oceania. numerous outbreaks of lyds of coconut have been recorded in the caribbean and africa since the late nineteenth century and have caused the death of millions of palms across several continents during the twentieth century. despite the severity of economic losses, it was only in the 1970s that the causes of lyds were identified as phytoplasmas, a group of ins ... | 2016 | 27833616 |
| synergistic nisin-polymyxin combinations for the control of pseudomonas biofilm formation. | the emergence and dissemination of multi-drug resistant pathogens is a global concern. moreover, even greater levels of resistance are conferred on bacteria when in the form of biofilms (i.e., complex, sessile communities of bacteria embedded in an organic polymer matrix). for decades, antimicrobial peptides have been hailed as a potential solution to the paucity of novel antibiotics, either as natural inhibitors that can be used alone or in formulations with synergistically acting antibiotics. ... | 2016 | 27833601 |
| depth and well type related to groundwater microbiological contamination. | use of groundwater from private wells in households has increased considerably, owing to a better cost/benefit ratio than that of water provided by local utilities for a fee. however, this water is usually untreated, which makes it a vehicle for diseases. thus, monitoring this water is necessary to ensure its integrity and quality. we aimed to evaluate the physical, chemical, and microbiological parameters of untreated groundwater drawn from different types of wells, and the antimicrobial suscep ... | 2016 | 27775681 |
| draft genome sequence of a pseudomonas sp. strain carrying blaimp-25 and blavim-2 carbapenemase genes from hospital sewage. | pseudomonas strain wchp16 recovered from hospital sewage in west china hospital, chengdu, china was found to carry two carbapenemase genes blaimp-25 and blavim-2 here, we report its 5.7-mb draft genome sequence, comprising 141 contigs and an average 59.53% g+c content. the genome contained 5,504 coding sequences and 67 trna genes. | 2016 | 27795238 |
| label-free, rapid and quantitative phenotyping of stress response in e. coli via ramanome. | rapid profiling of stress-response at single-cell resolution yet in a label-free, non-disruptive and mechanism-specific manner can lead to many new applications. we propose a single-cell-level biochemical fingerprinting approach named "ramanome", which is the collection of single-cell raman spectra (scrs) from a number of cells randomly selected from an isogenic population at a given time and condition, to rapidly and quantitatively detect and characterize stress responses of cellular population ... | 2016 | 27756907 |
| flhf is required for swarming motility and full pathogenicity of bacillus cereus. | besides sporulation, bacillus cereus can undergo a differentiation process in which short swimmer cells become elongated and hyperflagellated swarmer cells that favor migration of the bacterial community on a surface. the functionally enigmatic flagellar protein flhf, which is the third paralog of the signal recognition particle (srp) gtpases ffh and ftsy, is required for swarming in many bacteria. previous data showed that flhf is involved in the control of the number and positioning of flagell ... | 2016 | 27807433 |
| exported epoxide hydrolases modulate erythrocyte vasoactive lipids during plasmodium falciparum infection. | erythrocytes are reservoirs of important epoxide-containing lipid signaling molecules, including epoxyeicosatrienoic acids (eets). eets function as vasodilators and anti-inflammatory modulators in the bloodstream. bioactive eets are hydrolyzed to less active diols (dihydroxyeicosatrienoic acids) by epoxide hydrolases (ehs). the malaria parasite plasmodium falciparum infects host red blood cells (rbcs) and exports hundreds of proteins into the rbc compartment. in this study, we show that two para ... | 2016 | 27795395 |
| an apple fruit fermentation (aff) treatment improves the composition of the rhizosphere microbial community and growth of strawberry (fragaria × ananassa duch 'benihoppe') seedlings. | plant growth can be promoted by the application of apple fruit fermentation (aff), despite unclear of the underlying mechanisms, the effects involved in aff on rhizosphere microorganisms have been hypothesized. we investigated the consequences of applying aff alone or in combination with bacillus licheniformis to strawberry tissue culture seedlings in vitro, the analyses of denaturing gradient gel electrophoresis (dgge) and 16s rdna were performed to determine aff effects on rhizosphere. moreove ... | 2016 | 27755580 |
| determination of functional collective motions in a protein at atomic resolution using coherent neutron scattering. | protein function often depends on global, collective internal motions. however, the simultaneous quantitative experimental determination of the forms, amplitudes, and time scales of these motions has remained elusive. we demonstrate that a complete description of these large-scale dynamic modes can be obtained using coherent neutron-scattering experiments on perdeuterated samples. with this approach, a microscopic relationship between the structure, dynamics, and function in a protein, cytochrom ... | 2016 | 27757419 |
| investigation into the mode of phosphate activation in the 4-hydroxy-4-methyl-2-oxoglutarate/4-carboxy-4-hydroxy-2-oxoadipate aldolase from pseudomonas putida f1. | the 4-hydroxy-4-methyl-2-oxoglutarate (hmg)/4-carboxy-4-hydroxy-2-oxoadipate (cha) aldolase is the last enzyme of both the gallate and protocatechuate 4,5-cleavage pathways which links aromatic catabolism to central cellular metabolism. the enzyme is a class ii, divalent metal dependent, aldolase which is activated in the presence of inorganic phosphate (pi), increasing its turnover rate >10-fold. this phosphate activation is unique for a class ii aldolase. the aldolase pyruvate methyl proton ex ... | 2016 | 27741265 |
| flavin-dependent redox transfers by the two-component diketocamphane monooxygenases of camphor-grown pseudomonas putida ncimb 10007. | the progressive titres of key monooxygenases and their requisite native donors of reducing power were used to assess the relative contribution of various camphor plasmid (cam plasmid)- and chromosome-coded activities to biodegradation of (rac)-camphor at successive stages throughout growth of pseudomonas putida ncimb 10007 on the bicylic monoterpenoid. a number of different flavin reductases (frs) have the potential to supply reduced flavin mononucleotide to both 2,5- and 3,6-diketocamphane mono ... | 2016 | 27754389 |
| draft genome sequence of the marine rhodobacteraceae strain o3.65, cultivated from oil-polluted seawater of the deepwater horizon oil spill. | the marine alphaproteobacterium strain o3.65 was isolated from an enrichment culture of surface seawater contaminated with weathered oil (slicks) from the deepwater horizon (dwh) oil spill and belongs to the ubiquitous, diverse and ecological relevant roseobacter group within the rhodobacteraceae. here, we present a preliminary set of physiological features of strain o3.65 and a description and annotation of its draft genome sequence. based on our data we suggest potential ecological roles of th ... | 2016 | 27777651 |
| cpxr activates mexab-oprm efflux pump expression and enhances antibiotic resistance in both laboratory and clinical nalb-type isolates of pseudomonas aeruginosa. | resistance-nodulation-division (rnd) efflux pumps are responsible for multidrug resistance in pseudomonas aeruginosa. in this study, we demonstrate that cpxr, previously identified as a regulator of the cell envelope stress response in escherichia coli, is directly involved in activation of expression of rnd efflux pump mexab-oprm in p. aeruginosa. a conserved cpxr binding site was identified upstream of the mexa promoter in all genome-sequenced p. aeruginosa strains. cpxr is required to enhance ... | 2016 | 27736975 |
| inhibition of xanthomonas fragariae, causative agent of angular leaf spot of strawberry, through iron deprivation. | in commercial production settings, few options exist to prevent or treat angular leaf spot (als) of strawberry, a disease of economic importance and caused by the bacterial pathogen xanthomonas fragariae. in the process of isolating and identifying x. fragariae bacteria from symptomatic plants, we observed growth inhibition of x. fragariae by bacterial isolates from the same leaf macerates. identified as species of pseudomonas and rhizobium, these isolates were confirmed to suppress growth of x. ... | 2016 | 27790193 |
| comprehensive genomic and phenotypic metal resistance profile of pseudomonas putida strain s13.1.2 isolated from a vineyard soil. | trace metals are required in many cellular processes in bacteria but also induce toxic effects to cells when present in excess. as such, various forms of adaptive responses towards extracellular trace metal ions are essential for the survival and fitness of bacteria in their environment. a soil pseudomonas putida, strain s13.1.2 has been isolated from french vineyard soil samples, and shown to confer resistance to copper ions. further investigation revealed a high capacity to tolerate elevated c ... | 2016 | 27730570 |
| molecular detection of acanthamoeba spp., naegleria fowleri and vermamoeba (hartmannella) vermiformis as vectors for legionella spp. in untreated and solar pasteurized harvested rainwater. | legionella spp. employ multiple strategies to adapt to stressful environments including the proliferation in protective biofilms and the ability to form associations with free-living amoeba (fla). the aim of the current study was to identify legionella spp., acanthamoeba spp., vermamoeba (hartmannella) vermiformis and naegleria fowleri that persist in a harvested rainwater and solar pasteurization treatment system. | 2016 | 27724947 |
| highly efficient and stable novel nanobiohybrid catalyst to avert 3,4-dihydroxybenzoic acid pollutant in water. | the present study reported for the first time covalent immobilization of protocatechuate 3,4-dioxygenase (3,4-pod) onto functionalized multi-walled carbon nanotubes (f-mwcnt) for degrading the toxic 3,4-dihydroxybenzoic acid (3,4-dhba) pollutant in water. the f-mwcnts had a maximum 3,4-pod loading of 1060 μg/mg. immobilized 3,4 pod had 44% of relative structural changes to its free configurations. nevertheless, >90% of relative activity and about 50% of catalytic efficiency were retained to the ... | 2016 | 27721429 |
| metabolic engineering of corynebacterium glutamicum for enhanced production of 5-aminovaleric acid. | 5-aminovaleric acid (5ava) is an important five-carbon platform chemical that can be used for the synthesis of polymers and other chemicals of industrial interest. enzymatic conversion of l-lysine to 5ava has been achieved by employing lysine 2-monooxygenase encoded by the davb gene and 5-aminovaleramidase encoded by the dava gene. additionally, a recombinant escherichia coli strain expressing the davb and dava genes has been developed for bioconversion of l-lysine to 5ava. to use glucose and xy ... | 2016 | 27717386 |
| flagellin flic phosphorylation affects type 2 protease secretion and biofilm dispersal in pseudomonas aeruginosa pao1. | protein phosphorylation has a major role in controlling the life-cycle and infection stages of bacteria. proteome-wide occurrence of s/t/y phosphorylation has been reported for many prokaryotic systems. previously, we reported the phosphoproteome of pseudomonas aeruginosa and pseudomonas putida. in this study, we show the role of s/t phosphorylation of one motility protein, flic, in regulating multiple surface-associated phenomena of p. aeruginosa pao1. this is the first report of occurrence of ... | 2016 | 27701473 |
| mitochondrial carriers link the catabolism of hydroxyaromatic compounds to the central metabolism in candida parapsilosis. | the pathogenic yeast candida parapsilosis metabolizes hydroxyderivatives of benzene and benzoic acid to compounds channeled into central metabolism, including the mitochondrially localized tricarboxylic acid cycle, via the 3-oxoadipate and gentisate pathways. the orchestration of both catabolic pathways with mitochondrial metabolism as well as their evolutionary origin is not fully understood. our results show that the enzymes involved in these two pathways operate in the cytoplasm with the exce ... | 2016 | 27707801 |
| disruption of pseudomonas putida by high pressure homogenization: a comparison of the predictive capacity of three process models for the efficient release of arginine deiminase. | disruption of pseudomonas putida kt2440 by high-pressure homogenization in a french press is discussed for the release of arginine deiminase (adi). the enzyme release response of the disruption process was modelled for the experimental factors of biomass concentration in the broth being disrupted, the homogenization pressure and the number of passes of the cell slurry through the homogenizer. for the same data, the response surface method (rsm), the artificial neural network (ann) and the suppor ... | 2016 | 27699703 |
| plant drought tolerance enhancement by trehalose production of desiccation-tolerant microorganisms. | a collection of desiccation-tolerant xeroprotectant-producing microorganisms was screened for their ability to protect plants against drought, and their role as plant growth-promoting rhizobacteria was investigated in two different crops (tomato and pepper). the most commonly described biochemical mechanisms for plant protection against drought by microorganisms including the production of phytohormones, antioxidants and xeroprotectants were analyzed. in particular, the degree of plant protectio ... | 2016 | 27746776 |
| harnessing host-vector microbiome for sustainable plant disease management of phloem-limited bacteria. | plant health and productivity is strongly influenced by their intimate interaction with deleterious and beneficial organisms, including microbes, and insects. of the various plant diseases, insect-vectored diseases are of particular interest, including those caused by obligate parasites affecting plant phloem such as candidatus (ca.) phytoplasma species and several species of ca. liberibacter. recent studies on plant-microbe and plant-insect interactions of these pathogens have demonstrated that ... | 2016 | 27746788 |
| draft genome sequences of four hospital-associated pseudomonas putida isolates. | we present here the draft genome sequences of four pseudomonas putida isolates belonging to a single clone suspected for nosocomial transmission between patients and a bronchoscope in a tertiary hospital. the four genome sequences belong to a single lineage but contain differences in their mobile genetic elements. | 2016 | 27688339 |
| activation of the glutamic acid-dependent acid resistance system in escherichia coli bl21(de3) leads to increase of the fatty acid biotransformation activity. | the biosynthesis of carboxylic acids including fatty acids from biomass is central in envisaged biorefinery concepts. the productivities are often, however, low due to product toxicity that hamper whole-cell biocatalyst performance. here, we have investigated factors that influence the tolerance of escherichia coli to medium chain carboxylic acid (i.e., n-heptanoic acid)-induced stress. the metabolic and genomic responses of e. coli bl21(de3) and mg1655 grown in the presence of n-heptanoic acid ... | 2016 | 27681369 |
| structural and histone binding ability characterization of the arb2 domain of a histone deacetylase hda1 from saccharomyces cerevisiae. | hda1 is the catalytic core component of the h2b- and h3- specific histone deacetylase (hdac) complex from saccharomyces cerevisiae, which is involved in the epigenetic repression and plays a crucial role in transcriptional regulation and developmental events. though the n-terminal catalytic hdac domain of hda1 is well characterized, the function of the c-terminal arb2 domain remains unknown. in this study, we determine the crystal structure of the arb2 domain from s. cerevisiae hda1 at a resolut ... | 2016 | 27665728 |
| antibiotic resistance of diverse bacteria from aquaculture in borneo. | the administration of antimicrobials in aquaculture provides a selective pressure creating a reservoir of multiple resistant bacteria in the cultured fish and shrimps as well as the aquaculture environment. the objective of this study was to determine the extent of antibiotic resistance in aquaculture products and aquaculture's surrounding environment in sarawak, malaysian borneo. ninety-four identified bacterial isolates constituted of 17 genera were isolated from sediment, water, and cultured ... | 2016 | 27746817 |
| transcriptomic analysis of the highly efficient oil-degrading bacterium acinetobacter venetianus rag-1 reveals genes important in dodecane uptake and utilization. | the hydrocarbonoclastic bacterium acinetobacter venetianus rag-1 has attracted substantial attention due to its powerful oil-degrading capabilities and its potential to play an important ecological role in the cleanup of alkanes. in this study, we compare the transcriptome of the strain rag-1 grown in dodecane, the corresponding alkanol (dodecanol), and sodium acetate for the characterization of genes involved in dodecane uptake and utilization. comparison of the transcriptional responses of rag ... | 2016 | 27664055 |