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1.
Arch Toxicol ; 96(2): 571-583, 2022 02.
Article in English | MEDLINE | ID: mdl-34962578

ABSTRACT

The biologically stable and highly toxic organophosphorus nerve agent (OP) VX poses a major health threat. Standard medical therapy, consisting of reactivators and competitive muscarinic receptor antagonists, is insufficient. Recently, two engineered mutants of the Brevundimonas diminuta phosphotriesterase (PTE) with enhanced catalytic efficiency (kcat/KM = 21 to 38 × 106 M-1 min-1) towards VX and a preferential hydrolysis of the more toxic P(-) enantiomer were described: PTE-C23(R152E)-PAS(100)-10-2-C3(I106A/C59V/C227V/E71K)-PAS(200) (PTE-2), a single-chain bispecific enzyme with a PAS linker and tag having enlarged substrate spectrum, and 10-2-C3(C59V/C227V)-PAS(200) (PTE-3), a stabilized homodimeric enzyme with a double PASylation tag (PAS-tag) to reduce plasma clearance. To assess in vivo efficacy, these engineered enzymes were tested in an anesthetized rat model post-VX exposure (~ 2LD50) in comparison with the recombinant wild-type PTE (PTE-1), dosed at 1.0 mg kg-1 i.v.: PTE-2 dosed at 1.3 mg kg-1 i.v. (PTE-2.1) and 2.6 mg kg-1 i.v. (PTE-2.2) and PTE-3 at 1.4 mg kg-1 i.v. Injection of the mutants PTE-2.2 and PTE-3, 5 min after s.c. VX exposure, ensured survival and prevented severe signs of a cholinergic crisis. Inhibition of erythrocyte acetylcholinesterase (AChE) could not be prevented. However, medulla oblongata and diaphragm AChE activity was partially preserved. All animals treated with the wild-type enzyme, PTE-1, showed severe cholinergic signs and died during the observation period of 180 min. PTE-2.1 resulted in the survival of all animals, yet accompanied by severe signs of OP poisoning. This study demonstrates for the first time efficient detoxification in vivo achieved with low doses of heterodimeric PTE-2 as well as PTE-3 and indicates the suitability of these engineered enzymes for the development of highly effective catalytic scavengers directed against VX.


Subject(s)
Chemical Warfare Agents/toxicity , Organothiophosphorus Compounds/toxicity , Phosphoric Triester Hydrolases/pharmacology , Animals , Caulobacteraceae/enzymology , Cholinesterase Inhibitors/toxicity , Male , Phosphoric Triester Hydrolases/chemistry , Phosphoric Triester Hydrolases/genetics , Protein Engineering , Rats , Rats, Wistar , Stereoisomerism
2.
Arch Toxicol ; 95(8): 2815-2823, 2021 08.
Article in English | MEDLINE | ID: mdl-34160649

ABSTRACT

Highly toxic organophosphorus nerve agents, especially the extremely stable and persistent V-type agents such as VX, still pose a threat to the human population and require effective medical countermeasures. Engineered mutants of the Brevundimonas diminuta phosphotriesterase (BdPTE) exhibit enhanced catalytic activities and have demonstrated detoxification in animal models, however, substrate specificity and fast plasma clearance limit their medical applicability. To allow better assessment of their substrate profiles, we have thoroughly investigated the catalytic efficacies of five BdPTE mutants with 17 different nerve agents using an AChE inhibition assay. In addition, we studied one BdPTE version that was fused with structurally disordered PAS polypeptides to enable delayed plasma clearance and one bispecific BdPTE with broadened substrate spectrum composed of two functionally distinct subunits connected by a PAS linker. Measured kcat/KM values were as high as 6.5 and 1.5 × 108 M-1 min-1 with G- and V-agents, respectively. Furthermore, the stereoselective degradation of VX enantiomers by the PASylated BdPTE-4 and the bispecific BdPTE-7 were investigated by chiral LC-MS/MS, resulting in a several fold faster hydrolysis of the more toxic P(-) VX stereoisomer compared to P(+) VX. In conclusion, the newly developed enzymes BdPTE-4 and BdPTE-7 have shown high catalytic efficacy towards structurally different nerve agents and stereoselectivity towards the toxic P(-) VX enantiomer in vitro and offer promise for use as bioscavengers in vivo.


Subject(s)
Caulobacteraceae/enzymology , Nerve Agents/metabolism , Phosphoric Triester Hydrolases/metabolism , Catalysis , Chromatography, Liquid , Hydrolysis , Mutation , Nerve Agents/chemistry , Nerve Agents/toxicity , Phosphoric Triester Hydrolases/genetics , Stereoisomerism , Substrate Specificity , Tandem Mass Spectrometry
3.
Biochemistry ; 59(33): 3038-3043, 2020 08 25.
Article in English | MEDLINE | ID: mdl-32786401

ABSTRACT

The COVID-19 pandemic threatens to overwhelm healthcare systems around the world. The only current FDA-approved treatment, which directly targets the virus, is the ProTide prodrug remdesivir. In its activated form, remdesivir prevents viral replication by inhibiting the essential RNA-dependent RNA polymerase. Like other ProTide prodrugs, remdesivir contains a chiral phosphorus center. The initial selection of the (SP)-diastereomer for remdesivir was reportedly due to the difficulty in producing the pure (RP)-diastereomer of the required precursor. However, the two currently known enzymes responsible for the initial activation step of remdesivir are each stereoselective and show differential tissue distribution. Given the ability of the COVID-19 virus to infect a wide array of tissue types, inclusion of the (RP)-diastereomer may be of clinical significance. To help overcome the challenge of obtaining the pure (RP)-diastereomer of remdesivir, we have developed a novel chemoenzymatic strategy that utilizes a stereoselective variant of the phosphotriesterase from Pseudomonas diminuta to enable the facile isolation of the pure (RP)-diastereomer of the chiral precursor for the chemical synthesis of the (RP)-diastereomer of remdesivir.


Subject(s)
Adenosine Monophosphate/analogs & derivatives , Alanine/analogs & derivatives , Antiviral Agents/chemical synthesis , Adenosine Monophosphate/chemical synthesis , Alanine/chemical synthesis , Betacoronavirus , COVID-19 , Caulobacteraceae/enzymology , Coronavirus Infections , Humans , Molecular Structure , Pandemics , Phosphoric Triester Hydrolases/chemistry , Pneumonia, Viral , RNA-Dependent RNA Polymerase/antagonists & inhibitors , SARS-CoV-2 , Virus Replication/drug effects
4.
J Gen Appl Microbiol ; 66(2): 116-120, 2020 Jun 17.
Article in English | MEDLINE | ID: mdl-32213752

ABSTRACT

Heterologous production of a useful carotenoid astaxanthin was achieved in a cyanobacterium Synechocystis sp. PCC 6803 with the aid of marine bacterial genes. Astaxanthin and its intermediates emerged at high levels, whereas ß-carotene and zeaxanthin disappeared in the strain. Total carotenoid accumulation was nearly two fold compared with wild type. The astaxanthin-producing strain was capable of only growing heterotrophically, which was likely due to the absence of ß-carotene. Further enhanced accumulation was pursued by gene overexpression for possible rate-limiting steps in the biosynthesis pathway.


Subject(s)
Caulobacteraceae/enzymology , Mixed Function Oxygenases/metabolism , Oxygenases/metabolism , Synechocystis/genetics , Synechocystis/metabolism , Biosynthetic Pathways , Caulobacteraceae/genetics , Chromatography, High Pressure Liquid , Gene Expression Regulation, Bacterial , Genes, Bacterial , Metabolic Engineering , Microorganisms, Genetically-Modified , Mixed Function Oxygenases/genetics , Oxygenases/genetics , Transformation, Bacterial , Xanthophylls/metabolism
5.
Molecules ; 25(6)2020 Mar 17.
Article in English | MEDLINE | ID: mdl-32192230

ABSTRACT

Enzyme-catalyzed hydrolysis of echothiophate, a P-S bonded organophosphorus (OP) model, was spectrofluorimetrically monitored, using Calbiochem Probe IV as the thiol reagent. OP hydrolases were: the G117H mutant of human butyrylcholinesterase capable of hydrolyzing OPs, and a multiple mutant of Brevundimonas diminuta phosphotriesterase, GG1, designed to hydrolyze a large spectrum of OPs at high rate, including V agents. Molecular modeling of interaction between Probe IV and OP hydrolases (G117H butyrylcholinesterase, GG1, wild types of Brevundimonas diminuta and Sulfolobus solfataricus phosphotriesterases, and human paraoxonase-1) was performed. The high sensitivity of the method allowed steady-state kinetic analysis of echothiophate hydrolysis by highly purified G117H butyrylcholinesterase concentration as low as 0.85 nM. Hydrolysis was michaelian with Km = 0.20 ± 0.03 mM and kcat = 5.4 ± 1.6 min-1. The GG1 phosphotriesterase hydrolyzed echothiophate with a high efficiency (Km = 2.6 ± 0.2 mM; kcat = 53400 min-1). With a kcat/Km = (2.6 ± 1.6) × 107 M-1min-1, GG1 fulfills the required condition of potential catalytic bioscavengers. quantum mechanics/molecular mechanics (QM/MM) and molecular docking indicate that Probe IV does not interact significantly with the selected phosphotriesterases. Moreover, results on G117H mutant show that Probe IV does not inhibit butyrylcholinesterase. Therefore, Probe IV can be recommended for monitoring hydrolysis of P-S bonded OPs by thiol-free OP hydrolases.


Subject(s)
Biocatalysis , Echothiophate Iodide/metabolism , Enzymes/metabolism , Organophosphorus Compounds/metabolism , Spectrometry, Fluorescence , Butyrylcholinesterase/metabolism , Caulobacteraceae/enzymology , Echothiophate Iodide/chemistry , Humans , Hydrolysis , Kinetics , Molecular Docking Simulation , Mutant Proteins/metabolism , Phosphoric Triester Hydrolases/metabolism , Sulfolobus/enzymology
6.
Toxicol Lett ; 321: 138-145, 2020 Mar 15.
Article in English | MEDLINE | ID: mdl-31891759

ABSTRACT

Organophosphorus (OP)1 nerve agents pose a severe toxicological threat, both after dissemination in military conflicts and by terrorists. Hydrolytic enzymes, which may be administered into the blood stream of victims by injection and can decompose the circulating nerve agent into non-toxic metabolites in vivo, could offer a treatment. Indeed, for the phosphotriesterase found in the bacterium Brevundimonas diminuta (BdPTE),2 engineered versions with improved catalytic efficiencies have been described; yet, their biochemical stabilities are insufficient for therapeutic use. Here, we describe the application of rational protein design to develop novel mutants of BdPTE that are less susceptible to oxidative damage. In particular, the replacement of two unpaired cysteine residues by more inert amino acids led to higher stability while maintaining high catalytic activity towards a broad spectrum of substrates, including OP pesticides and V-type nerve agents. The mutant BdPTE enzymes were produced in Escherichia coli, purified to homogeneity, and their biochemical and enzymological properties were assessed. Several candidates both revealed enhanced thermal stability and were less susceptible to oxidative stress, as demonstrated by mass spectrometry. These mutants of BdPTE may show promise for the treatment of acute intoxications by nerve agents as well as OP pesticides.


Subject(s)
Antidotes/pharmacology , Bacterial Proteins/pharmacology , Caulobacteraceae/enzymology , Nerve Agents/poisoning , Organophosphate Poisoning/drug therapy , Organophosphorus Compounds/toxicity , Phosphoric Triester Hydrolases/pharmacology , Antidotes/metabolism , Bacterial Proteins/genetics , Bacterial Proteins/metabolism , Caulobacteraceae/genetics , Drug Stability , Enzyme Stability , Hot Temperature , Mutation , Organophosphate Poisoning/enzymology , Organothiophosphorus Compounds/poisoning , Oxidation-Reduction , Phosphoric Triester Hydrolases/genetics , Phosphoric Triester Hydrolases/metabolism , Protein Denaturation , Recombinant Proteins/pharmacology , Sarin/poisoning , Soman/poisoning
7.
Protein Expr Purif ; 166: 105502, 2020 02.
Article in English | MEDLINE | ID: mdl-31546007

ABSTRACT

Cellouronate is a (1,4)-ß-D-glucuronan prepared by TEMPO-mediated oxidation from regenerated cellulose. We have previously isolated a cellouronate-degrading bacterial strain, Brevundimonas sp. SH203, that produces a cellouronate lyase (ß-1,4-glucuronan lyase, CUL-I). In this study, the gene encoding CUL-I was cloned, and the recombinant enzyme was heterologously expressed in Escherichia coli. The predicted CUL-I protein is composed of 426 amino acid residues and includes a putative 21-amino acid signal peptide. The recombinant CUL-I specifically depolymerized ß-1,4-glycoside linkages of cellouronate, and its mode of action was endo-type, like the native CUL-I. Sequence analysis showed CUL-I has no similarity to previously known polysaccharide lyases (PLs), indicating that CUL-I should be classified into a novel PL family.


Subject(s)
Caulobacteraceae/genetics , Polysaccharide-Lyases/genetics , Recombinant Proteins/genetics , Amino Acid Sequence , Base Sequence , Caulobacteraceae/enzymology , Cloning, Molecular , Escherichia coli/genetics , Gene Expression , Glycosides/chemistry , Glycosides/metabolism , Oxidation-Reduction , Polysaccharide-Lyases/chemistry , Polysaccharide-Lyases/classification , Protein Sorting Signals/genetics , Recombinant Proteins/chemistry , Recombinant Proteins/classification
8.
Plant Biotechnol J ; 17(8): 1501-1513, 2019 08.
Article in English | MEDLINE | ID: mdl-30623551

ABSTRACT

Tomato fruit are an important nutritional component of the human diet and offer potential to act as a cell factory for speciality chemicals, which are often produced by chemical synthesis. In the present study our goal was to produce competitive levels of the high value ketocarotenoid, astaxanthin, in tomato fruit. The initial stage in this process was achieved by expressing the 4, 4' carotenoid oxygenase (crtW) and 3, 3' hydroxylase (crtZ) from marine bacteria in tomato under constitutive control. Characterization of this genotype showed a surprising low level production of ketocarotenoids in ripe fruit but over production of lycopene (~3.5 mg/g DW), accompanied by delayed ripening. In order to accumulate these non-endogenous carotenoids, metabolite induced plastid differentiation was evident as well as esterification. Metabolomic and pathway based transcription studies corroborated the delayed onset of ripening. The data also revealed the importance of determining pheno/chemotype inheritance, with ketocarotenoid producing progeny displaying loss of vigour in the homozygous state but stability and robustness in the hemizygous state. To iteratively build on these data and optimize ketocarotenoid production in this genotype, a lycopene ß-cyclase was incorporated to avoid precursor limitations and a more efficient hydroxylase was introduced. These combinations resulted in the production of astaxanthin (and ketocarotenoid esters) in ripe fruit at ~3 mg/g DW. Based on previous studies, this level of product formation represents an economic competitive value in a Generally Regarded As Safe (GRAS) matrix that requires minimal downstream processing.


Subject(s)
Fruit/metabolism , Lycopene/analysis , Solanum lycopersicum/metabolism , Carotenoids/metabolism , Caulobacteraceae/enzymology , Caulobacteraceae/genetics , Gene Expression Regulation, Plant , Genotype , Solanum lycopersicum/genetics , Mixed Function Oxygenases/genetics , Oxygenases/genetics , Plant Proteins , Plants, Genetically Modified/metabolism , Plastids , Xanthophylls/metabolism
9.
J Agric Food Chem ; 66(46): 12217-12226, 2018 Nov 21.
Article in English | MEDLINE | ID: mdl-30375865

ABSTRACT

The metabolism of widely used aryloxyphenoxypropionate herbicides has been extensively studied in microbes. However, the information on the degradation of diclofop-methyl (DCM) is limited, with no genetic and biochemical investigation reported. The consortium L1 of Rhodococcus sp. JT-3 and Brevundimonas sp. JT-9 was able to degrade DCM through a synergistic metabolism. To elaborate the molecular mechanism of DCM degradation, the metabolic pathway for DCM was first investigated. DCM was initially transformed by strain JT-3 to diclofop acid and then by strain JT-9 to 2-(4-hydroxyphenoxy) propionic acid as well as 2,4-dichlorophenol. Subsequently, the two dcm gene clusters, dcmAE and dcmB1B2CD, involved in further degradation of 2,4-dichlorophenol, were successfully cloned from strain JT-3, and the functions of each gene product were identified. DcmA, a glutathione-dependent dehalogenase, was responsible for catalyzing the reductive dehalogenation of 2,4-dichlorophenol to 4-chlorophenol, which was then converted by the two-component monooxygenase DcmB1B2 to 4-chlorocatechol as the ring cleavage substrate of the dioxygenase DcmC. In this study, the overall DCM degradation pathway of the consortium L1 was proposed and, particularly, the lower part on the DCP degradation was characterized at the genetic and biochemical levels.


Subject(s)
Bacterial Proteins/metabolism , Caulobacteraceae/metabolism , Halogenated Diphenyl Ethers/metabolism , Herbicides/metabolism , Microbial Consortia , Multigene Family , Rhodococcus/metabolism , Bacterial Proteins/genetics , Biodegradation, Environmental , Caulobacteraceae/enzymology , Caulobacteraceae/genetics , Dioxygenases/genetics , Dioxygenases/metabolism , Mixed Function Oxygenases/genetics , Mixed Function Oxygenases/metabolism , Rhodococcus/enzymology , Rhodococcus/genetics
10.
Microb Cell Fact ; 16(1): 112, 2017 Jun 19.
Article in English | MEDLINE | ID: mdl-28629408

ABSTRACT

BACKGROUND: Lactofen, a member of the diphenylether herbicides, has high activity and is commonly used to control broadleaf weeds. As a post-emergent herbicide, it is directly released to the environment, and easily caused the pollution. This herbicide is degraded in soil mainly by microbial activity, but the functional enzyme involved in the biodegradation of lactofen is still not clear now. RESULTS: A novel esterase gene lacH, involved in the degradation of lactofen, was cloned from the strain Brevundimonas sp. LY-2. The gene contained an open reading frame of 921 bp, and a putative signal peptide at the N-terminal was identified with the most likely cleavage site between Ala 28 and Ala 29. The encoded protein, LacH, could catalyze the hydrolysis of lactofen to form acifluorfen. Phylogenetic analysis showed that LacH belong to family V of bacterial lipolytic enzymes. Biochemical characterization analysis showed that LacH was a neutral esterase with an optimal pH of 7.0 and an optimal temperature of 40 °C toward lactofen. Besides, the activity of LacH was strongly inhibited by Hg2+ and Zn2+. LacH preferred short chain p-nitrophenyl esters (C2-C6), exhibited maximum activity toward p-nitrophenyl acetate. Furthermore, the enantioselectivity of LacH during lactofen hydrolysis was also studied, and the results show that R-(-)-lactofen was degraded faster than S-(+)-lactofen, indicating the occurrence of enantioselectivity in the enzymatic reaction. CONCLUSIONS: Our studies characterized a novel esterase involved in the biodegradation of diphenylether herbicide lactofen. The esterase showed enantioselectivity during lactofen degradation, which revealed the occurrence of enzyme-mediated enantioselective degradation of chiral herbicides.


Subject(s)
Caulobacteraceae/enzymology , Esterases/metabolism , Halogenated Diphenyl Ethers/metabolism , Biodegradation, Environmental , Caulobacteraceae/drug effects , Caulobacteraceae/metabolism , Esterases/chemistry , Esterases/genetics , Herbicides/metabolism , Hydrogen-Ion Concentration , Ions/pharmacology , Mercury , Open Reading Frames , Phylogeny , Protein Sorting Signals , Substrate Specificity , Zinc/pharmacology
11.
Plant Physiol ; 173(3): 1617-1635, 2017 03.
Article in English | MEDLINE | ID: mdl-28153925

ABSTRACT

Ketolated and hydroxylated carotenoids are high-value compounds with industrial, food, and feed applications. Chemical synthesis is currently the production method of choice for these compounds, with no amenable plant sources readily available. In this study, the 4,4' ß-oxygenase (crtW) and 3,3' ß-hydroxylase (crtZ) genes from Brevundimonas sp. SD-212 were expressed under constitutive transcriptional control in Nicotiana glauca, which has an emerging potential as a biofuel and biorefining feedstock. The transgenic lines produced significant levels of nonendogenous carotenoids in all tissues. In leaf and flower, the carotenoids (∼0.5% dry weight) included 0.3% and 0.48%, respectively, of nonendogenous ketolated and hydroxylated carotenoids. These were 4-ketolutein, echinenone (and its 3-hydroxy derivatives), canthaxanthin, phoenicoxanthin, 4-ketozeaxanthin, and astaxanthin. Stable, homozygous genotypes expressing both transgenes inherited the chemotype. Subcellular fractionation of vegetative tissues and microscopic analysis revealed the presence of ketocarotenoids in thylakoid membranes, not predominantly in the photosynthetic complexes but in plastoglobules. Despite ketocarotenoid production and changes in cellular ultrastructure, intermediary metabolite levels were not dramatically affected. The study illustrates the utility of Brevundimonas sp. SD-212 CRTZ and CRTW to produce ketocarotenoids in a plant species that is being evaluated as a biorefining feedstock, the adaptation of the plastid to sequester nonendogenous carotenoids, and the robustness of plant metabolism to these changes.


Subject(s)
Carotenoids/metabolism , Nicotiana/metabolism , Plants, Genetically Modified/metabolism , Bacterial Proteins/genetics , Bacterial Proteins/metabolism , Biosynthetic Pathways/genetics , Carotenoids/chemistry , Caulobacteraceae/enzymology , Caulobacteraceae/genetics , Flowers/chemistry , Flowers/genetics , Flowers/metabolism , Gene Expression , Microscopy, Electron, Transmission , Mixed Function Oxygenases/genetics , Mixed Function Oxygenases/metabolism , Molecular Structure , Oxygenases/genetics , Oxygenases/metabolism , Plant Leaves/chemistry , Plant Leaves/genetics , Plant Leaves/metabolism , Plants, Genetically Modified/genetics , Plastids/genetics , Plastids/metabolism , Plastids/ultrastructure , Reverse Transcriptase Polymerase Chain Reaction , Thylakoids/chemistry , Thylakoids/genetics , Thylakoids/metabolism , Nicotiana/chemistry , Nicotiana/genetics , Xanthophylls/chemistry , Xanthophylls/metabolism , beta Carotene/chemistry , beta Carotene/metabolism
12.
FEMS Microbiol Lett ; 363(24)2016 12.
Article in English | MEDLINE | ID: mdl-27915249

ABSTRACT

Many toxic insecticides used worldwide as well as some chemical warfare agents are phosphotriester derivatives. Therefore, detoxification of organophosphorus compounds has become the subject of many studies and in particular bioremediation, based on the phosphotriesterase catalysed hydrolysis of these compounds, has shown to be an effective and ecological methodology. In order to identify new bacterial phosphotriesterases, a simple and sensitive fluorimetric screening method on solid media was employed that allowed the selection of six strains with phosphotriesterase activity. Since pH and temperature are important parameters for bioremediation of contaminated soils and waters, the influence of these variables on the rate of the enzymatic hydrolysis was assessed. This study afforded notable results, being the most remarkable one the increased activity exhibited by Nocardia asteroides and Streptomyces setonii strains at 50°C, 7 and 30 times higher than at 30°C, respectively. Compared with the results obtained with Brevundimonas diminuta, whose activity is usually considered as reference, an increase of 26 and 75 times is observed, respectively.


Subject(s)
Caulobacteraceae/enzymology , Phosphoric Triester Hydrolases/analysis , Streptomyces/enzymology , Bacteriological Techniques/methods , Enzyme Stability , Hydrogen-Ion Concentration , Mass Screening/methods , Nocardia asteroides/enzymology , Phosphoric Triester Hydrolases/chemistry , Temperature
13.
PLoS One ; 10(7): e0132062, 2015.
Article in English | MEDLINE | ID: mdl-26161539

ABSTRACT

The objectives of this study were to uncover Salix purpurea-microbe xenobiotic degradation systems that could be harnessed in rhizoremediation, and to identify microorganisms that are likely involved in these partnerships. To do so, we tested S. purpurea's ability to stimulate the expression of 10 marker microbial oxygenase genes in a soil contaminated with hydrocarbons. In what appeared to be a detoxification rhizosphere effect, transcripts encoding for alkane 1-monooxygenases, cytochrome P450 monooxygenases, laccase/polyphenol oxidases, and biphenyl 2,3-dioxygenase small subunits were significantly more abundant in the vicinity of the plant's roots than in bulk soil. This gene expression induction is consistent with willows' known rhizoremediation capabilities, and suggests the existence of S. purpurea-microbe systems that target many organic contaminants of interest (i.e. C4-C16 alkanes, fluoranthene, anthracene, benzo(a)pyrene, biphenyl, polychlorinated biphenyls). An enhanced expression of the 4 genes was also observed within the bacterial orders Actinomycetales, Rhodospirillales, Burkholderiales, Alteromonadales, Solirubrobacterales, Caulobacterales, and Rhizobiales, which suggest that members of these taxa are active participants in the exposed partnerships. Although the expression of the other 6 marker genes did not appear to be stimulated by the plant at the community level, signs of additional systems that rest on their expression by members of the orders Solirubrobacterales, Sphingomonadales, Actinomycetales, and Sphingobacteriales were observed. Our study presents the first transcriptomics-based identification of microbes whose xenobiotic degradation activity in soil appears stimulated by a plant. It paints a portrait that contrasts with the current views on these consortia's composition, and opens the door for the development of laboratory test models geared towards the identification of root exudate characteristics that limit the efficiency of current willow-based rhizoremediation applications.


Subject(s)
Petroleum Pollution/analysis , Salix/physiology , Soil Pollutants/analysis , Actinomycetales/enzymology , Actinomycetales/genetics , Alteromonadaceae/enzymology , Alteromonadaceae/genetics , Bacterial Proteins/genetics , Bacterial Proteins/metabolism , Biodegradation, Environmental , Burkholderiaceae/enzymology , Burkholderiaceae/genetics , Caulobacteraceae/enzymology , Caulobacteraceae/genetics , Cytochrome P-450 CYP4A/genetics , Cytochrome P-450 CYP4A/metabolism , Cytochrome P-450 Enzyme System/genetics , Cytochrome P-450 Enzyme System/metabolism , Gene Expression Regulation, Bacterial , Genes, Bacterial , Iron-Sulfur Proteins/genetics , Iron-Sulfur Proteins/metabolism , Laccase/genetics , Laccase/metabolism , Metabolic Networks and Pathways , Oxygenases/genetics , Oxygenases/metabolism , Rhizobiaceae/enzymology , Rhizobiaceae/genetics , Rhodospirillales/enzymology , Rhodospirillales/genetics , Xenobiotics
14.
Chem Commun (Camb) ; 51(29): 6403-6, 2015 Apr 14.
Article in English | MEDLINE | ID: mdl-25764989

ABSTRACT

Phosphotriesterase was engineered into a spontaneously forming trimer by appending it to a synthetic collagen-like triple-helix motif. Enzymatic hydrolysis of the insecticide and organophosphate nerve agent simulant paraoxon was then examined. Assembling the phosphotriesterase trimer onto semiconductor quantum dots increased the enzyme's catalytic rate and efficiency.


Subject(s)
Phosphoric Triester Hydrolases/chemistry , Phosphoric Triester Hydrolases/metabolism , Protein Multimerization , Quantum Dots/chemistry , Biocatalysis , Caulobacteraceae/enzymology , Hydrolysis , Kinetics , Models, Molecular , Protein Structure, Quaternary
15.
J Microbiol Biotechnol ; 24(3): 379-85, 2014 Mar 28.
Article in English | MEDLINE | ID: mdl-24150492

ABSTRACT

The purpose of this study was to compare the ability of an engineered Escherichia coli to degrade chlorpyrifos (Cp) using an organophosphorus hydrolase enzyme by employing the Lpp-OmpA chimera and the N-terminal domain of the ice nucleation protein as anchoring motifs. Tracing of the expression location of the recombinant protein using SDS-PAGE showed the presentation of OPH by both anchors on the outer membrane. This is the first report on the presentation of OPH on the cell surface by Lpp-OmpA under the control of the T7 promoter. The results showed cell growth in the presence of Cp as the sole source of energy, without growth inhibition, and with higher whole-cell activity for both cells harboring plasmids pENVO and pELMO, at approximately 10,342.85 and 10,857.14 U/mg, respectively. Noticeably, the protein displayed by pELMO was lower than the protein displayed by pENVO. It can be concluded that Lpp-OmpA can display less protein, but more functional OPH protein. These results highlight the high potential, of both engineered bacteria, for use in the bioremediation of pesticide-contaminated sources in the environment.


Subject(s)
Aryldialkylphosphatase/metabolism , Bacterial Outer Membrane Proteins/genetics , Cell Surface Display Techniques/methods , Chlorpyrifos/metabolism , Escherichia coli Proteins/genetics , Escherichia coli/enzymology , Lipoproteins/genetics , Aryldialkylphosphatase/genetics , Bacterial Outer Membrane Proteins/metabolism , Biotransformation , Carbon/metabolism , Caulobacteraceae/enzymology , Caulobacteraceae/genetics , Electrophoresis, Polyacrylamide Gel , Environmental Pollutants/metabolism , Escherichia coli/genetics , Escherichia coli/growth & development , Escherichia coli/metabolism , Escherichia coli Proteins/metabolism , Flavobacterium/enzymology , Flavobacterium/genetics , Insecticides/metabolism , Lipoproteins/metabolism , Membrane Proteins/genetics , Membrane Proteins/metabolism , Recombinant Fusion Proteins/genetics , Recombinant Fusion Proteins/metabolism
16.
Proc Natl Acad Sci U S A ; 110(48): 19396-401, 2013 Nov 26.
Article in English | MEDLINE | ID: mdl-24235137

ABSTRACT

A method was developed to monitor dynamic changes in protein structure and interfacial behavior on surfaces by single-molecule Förster resonance energy transfer. This method entails the incorporation of unnatural amino acids to site-specifically label proteins with single-molecule Förster resonance energy transfer probes for high-throughput dynamic fluorescence tracking microscopy on surfaces. Structural changes in the enzyme organophosphorus hydrolase (OPH) were monitored upon adsorption to fused silica (FS) surfaces in the presence of BSA on a molecule-by-molecule basis. Analysis of >30,000 individual trajectories enabled the observation of heterogeneities in the kinetics of surface-induced OPH unfolding with unprecedented resolution. In particular, two distinct pathways were observed: a majority population (∼ 85%) unfolded with a characteristic time scale of 0.10 s, and the remainder unfolded more slowly with a time scale of 0.7 s. Importantly, even after unfolding, OPH readily desorbed from FS surfaces, challenging the common notion that surface-induced unfolding leads to irreversible protein binding. This suggests that protein fouling of surfaces is a highly dynamic process because of subtle differences in the adsorption/desorption rates of folded and unfolded species. Moreover, such observations imply that surfaces may act as a source of unfolded (i.e., aggregation-prone) protein back into solution. Continuing study of other proteins and surfaces will examine whether these conclusions are general or specific to OPH in contact with FS. Ultimately, this method, which is widely applicable to virtually any protein, provides the framework to develop surfaces and surface modifications with improved biocompatibility.


Subject(s)
Aryldialkylphosphatase/chemistry , Biocompatible Materials/chemistry , Caulobacteraceae/enzymology , Microscopy, Fluorescence/methods , Models, Molecular , Protein Conformation , Adsorption , Aryldialkylphosphatase/metabolism , Biocompatible Materials/metabolism , Fluorescence Resonance Energy Transfer , Kinetics , Silicon Dioxide/chemistry , Silicon Dioxide/metabolism
17.
J Am Chem Soc ; 135(32): 12038-47, 2013 Aug 14.
Article in English | MEDLINE | ID: mdl-23862624

ABSTRACT

Lasso peptides are a class of ribosomally derived natural products with diverse bioactivities. The characteristic threaded lasso structure in these peptides derives from an isopeptide bond attaching the N-terminus of the peptide to an acidic side chain. Here we describe the heterologous expression of a lasso peptide gene cluster encoding two lasso peptides, astexin-2 and astexin-3, and solve the solution structure of astexin-3. This cluster also encodes an enzyme annotated as a protease. We show that this enzyme, AtxE2, is a lasso peptide isopeptidase that specifically hydrolyzes astexins-2 and -3, converting them to linear peptides. Astexin-3 is highly thermostable and resists unthreading after extensive heat treatment. In contrast, astexin-2 unthreads upon heat treatment. AtxE2 has no activity toward unthreaded astexin-2, demonstrating that this isopeptidase must recognize a knotted structure in order to function. We also use this isopeptidase as a tool to study evolutionary relationships between lasso peptide gene clusters.


Subject(s)
Carbon-Nitrogen Lyases/metabolism , Caulobacteraceae/enzymology , Peptides/metabolism , Amino Acid Sequence , Carbon-Nitrogen Lyases/genetics , Caulobacteraceae/genetics , Caulobacteraceae/metabolism , Hydrolysis , Models, Molecular , Molecular Sequence Data , Multigene Family , Peptides/chemistry , Peptides/genetics , Phylogeny
18.
Lett Appl Microbiol ; 57(1): 63-8, 2013 Jul.
Article in English | MEDLINE | ID: mdl-23574004

ABSTRACT

UNLABELLED: Organophosphate hydrolase (OPH), the product of an organophosphate-degrading (opd) gene cloned from Brevundimonas diminuta, hydrolyses the triester linkage found in neurotoxic organophosphate (OP) insecticides and nerve agents. Despite the fact that OPHs have a broad substrate range, OP compounds with a P-S linkage, such as insecticides like acephate, are poor substrates for the enzyme. Expression of OPH in acephate-utilizing Pseudomonas sp. Ind01 generated a live biocatalyst capable of degrading a wide range of OP insecticides. The heterologously expressed OPH, which is a substrate of twin arginine transport (Tat) pathway, successfully targeted to the membrane of Pseudomonas sp. Ind01. The membrane-associated OPH had a size that coincided with the mature form of OPH (mOPH), suggesting successful processing and targeting of the expressed OPH to the membrane. Pseudomonas sp. Ind01 expressing OPH degraded a variety of OP insecticides besides using acephate as sole carbon source. SIGNIFICANCE AND IMPACT OF THE STUDY: A biocatalyst capable of degrading a wide range of organophosphate (OP) insecticides was generated by expressing an organophosphate degradation gene in Pseudomonas sp. Ind01 involved in mineralization of acephate. The biocatalyst can be used to eliminate a wide range of OP insecticide residues from the environment.


Subject(s)
Insecticides/metabolism , Organophosphorus Compounds/metabolism , Phosphoric Monoester Hydrolases/genetics , Pseudomonas/metabolism , Biodegradation, Environmental , Caulobacteraceae/enzymology , Caulobacteraceae/genetics , Hydrolysis , Organothiophosphorus Compounds/metabolism , Pesticide Residues , Phosphoramides/metabolism , Phosphoric Monoester Hydrolases/metabolism , Pseudomonas/classification , Pseudomonas/enzymology , Pseudomonas/genetics
19.
Prikl Biokhim Mikrobiol ; 49(6): 554-60, 2013.
Article in Russian | MEDLINE | ID: mdl-25434179

ABSTRACT

The physicochemical and enzymatic properties of hybrid analogues of the Brevundimonas diminuta Gl7ACA-acylase (BrdGIA), containing the N-terminal chitin-binding domain of the bacterial chitinase (BrdG1A/NmChBD) or the C-terminal oligohistidine sequence (BrdGIA/H), were studied. An enhanced thermostability level of BrdG1A/NmChBD could suggest the stabilizing effect of the chitin-binding domain. An analysis of pH profiles of the enzymatic activity of recombinat BrdGIA analogues did not reveal significant differences: the catalytic activity of both variants changed slightly in the.interval ofpH values from 6.0 to 9.0 but drastically decreased at lower pH values. Both analogues demonstrated similar sensitivity towards denaturing agents: addition of 2.0 M ofguanidine chloride resulted in the complete inactivation of both enzymes. A scheme was developed for obtaining isolated recombinant alpha- and beta-subunits of BrdGLA. In vitro enzyme reconstructions indicated that the alpha-subunit was necessary for the formation of a correct spatial structure of the beta-subunit and for the formation of a functionally active enzyme.


Subject(s)
Amidohydrolases/chemistry , Bacterial Proteins/chemistry , Caulobacteraceae/enzymology , Amidohydrolases/genetics , Bacterial Proteins/genetics , Caulobacteraceae/genetics , Enzyme Stability , Protein Structure, Quaternary , Protein Structure, Tertiary , Recombinant Proteins/chemistry , Recombinant Proteins/genetics
20.
J Clin Microbiol ; 50(8): 2830-2, 2012 Aug.
Article in English | MEDLINE | ID: mdl-22692741

ABSTRACT

In the literature, only three Brevundimonas diminuta environmental isolates carrying metallo-ß-lactamase genes were recently published. However, so far, no B. diminuta clinical isolates carrying these carbapenem resistance genes have been described. Here we report the first VIM-2 metallo-ß-lactamase-producing B. diminuta clinical isolate obtained from an immunocompromised patient.


Subject(s)
Anti-Bacterial Agents/pharmacology , Caulobacteraceae/enzymology , Caulobacteraceae/isolation & purification , Gram-Negative Bacterial Infections/diagnosis , Gram-Negative Bacterial Infections/microbiology , beta-Lactamases/metabolism , beta-Lactams/pharmacology , Caulobacteraceae/drug effects , DNA, Bacterial/chemistry , DNA, Bacterial/genetics , DNA, Ribosomal/chemistry , DNA, Ribosomal/genetics , Female , Gram-Negative Bacterial Infections/pathology , Humans , Immunocompromised Host , Microbial Sensitivity Tests , Middle Aged , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA , beta-Lactam Resistance
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