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1.
ACS Chem Biol ; 19(6): 1237-1242, 2024 Jun 21.
Article in English | MEDLINE | ID: mdl-38723147

ABSTRACT

As an important functional monosaccharide, glucosamine (GlcN) is widely used in fields such as medicine, food nutrition, and health care. Here, we report a distinct GlcN biosynthesis method that utilizes engineered Bacillus subtilis glucosamine-6-phosphate synthase (BsGlmS) to convert D-fructose to directly generate GlcN. The best variant obtained by using a combinatorial active-site saturation test/iterative saturation mutagenesis (CAST/ISM) strategy was a quadruple mutant S596D/V597G/S347H/G299Q (BsGlmS-BK19), which has a catalytic activity 1736-fold that of the wild type toward D-fructose. Upon using mutant BK19 as a whole-cell catalyst, D-fructose was converted into GlcN with 65.32% conversion in 6 h, whereas the wild type only attained a conversion rate of 0.31% under the same conditions. Molecular docking and molecular dynamics simulations were implemented to provide insights into the mechanism underlying the enhanced activity of BK19. Importantly, the BsGlmS-BK19 variant specifically catalyzes D-fructose without the need for phosphorylated substrates, representing a significant advancement in GlcN biosynthesis.


Subject(s)
Bacillus subtilis , Glucosamine , Glutamine-Fructose-6-Phosphate Transaminase (Isomerizing) , Protein Engineering , Glucosamine/biosynthesis , Glucosamine/metabolism , Glucosamine/chemistry , Glutamine-Fructose-6-Phosphate Transaminase (Isomerizing)/metabolism , Glutamine-Fructose-6-Phosphate Transaminase (Isomerizing)/genetics , Glutamine-Fructose-6-Phosphate Transaminase (Isomerizing)/chemistry , Bacillus subtilis/enzymology , Bacillus subtilis/metabolism , Bacillus subtilis/genetics , Molecular Docking Simulation , Fructose/metabolism , Fructose/chemistry , Fructose/biosynthesis , Molecular Dynamics Simulation , Bacterial Proteins/metabolism , Bacterial Proteins/genetics , Bacterial Proteins/chemistry , Catalytic Domain
2.
Environ Sci Pollut Res Int ; 30(6): 15708-15721, 2023 Feb.
Article in English | MEDLINE | ID: mdl-36171319

ABSTRACT

This study explores the impact of mediators and metal ions of laccase-mediated oxidation and ferrate(VI) oxidation for the simultaneous removal of tetracycline antibiotics (TCs) and sulfonamide antibiotics (SAs) and to effectively remove their antimicrobial activity. The results showed that the antimicrobial activity of tetracycline against Bacillus altitudinis and Escherichia coli was significantly reduced, and the antimicrobial activity of sulfamethoxazole against B. altitudinis disappeared completely after treatment with the laccase-ABTS system. The combination of 6.0 U/mL of laccase and 0.2 mmol/L of ABTS removed 100% of 20.0 mg/L of tetracycline after 1.0 min at pH 6.0 and 25.0 °C, whereas the removal ratio of 20.0 mg/L of sulfamethoxazole was only 6.7%. The Al3+ and Cu2+ ions promoted the oxidation, and the Mn2+ ion decelerated the oxidation of tetracycline and sulfamethoxazole by the laccase-mediator systems. In contrast, the antimicrobial activity of tetracycline against B. altitudinis and E. coli was shown to be significantly reduced, and the sulfamethoxazole still retained high antimicrobial activity against B. altitudinis after treatment with Fe(VI) oxidation. The removal ratio of 20.0 mg/L of tetracycline was 100% after 1.0 min of treatment with 982.0 mg/L of K2FeO4 at pH 6.0 and 25.0 °C, whereas the removal ratio of 20.0 mg/L of sulfamethoxazole was only 49.5%. The Al3+, Cu2+, and Mn2+ ions both decelerated the oxidation of tetracycline and sulfamethoxazole by Fe(VI) oxidation. In general, the combination of the laccase-ABTS system and Fe(VI) was proposed for the simultaneous treatment of TCs and SAs in wastewater and to effectively remove their antimicrobial activity.


Subject(s)
Laccase , Water Pollutants, Chemical , Laccase/metabolism , Sulfamethoxazole , Escherichia coli/metabolism , Anti-Bacterial Agents/pharmacology , Anti-Bacterial Agents/chemistry , Metals , Tetracycline , Oxidation-Reduction , Ions , Water Pollutants, Chemical/chemistry
3.
Enzyme Microb Technol ; 155: 109977, 2022 Apr.
Article in English | MEDLINE | ID: mdl-34973504

ABSTRACT

Congo Red (CR) is a typical azo dye with highly toxic and carcinogenic properties. This study aimed to improve the decolorization activity of Bacillus pumilus W3 CotA-laccase for azo dye CR. This work analyzed the interaction between CotA-laccase and CR based on homology modeling and molecular docking. The three amino acids (Gly323, Thr377, Thr418) in the substrate-binding pocket were rationally modified through saturation mutation. Finally, the obtained multi-site mutants T377I/T418G and G323S/T377I/T418G decolorized 76.59% and 59.37% of CR within 24 h at pH 8.0 without a mediator, which were 3.15- and 2.44-fold higher than the wild-type CotA. The catalytic efficiency of the multi-site mutants T377I/T418G and G323S/T377I/T418G to CR were increased by 2.21- and 2.01-fold compared with the wild-type CotA, respectively. The mechanism of activity enhancement of mutants was proposed by structural analysis. This evidence suggests that the mutants T377I/T418G and G323S/T377I/T418G could be used as novel bioremediation tools.


Subject(s)
Bacillus pumilus , Bacillus pumilus/genetics , Coloring Agents , Congo Red , Laccase , Molecular Docking Simulation
4.
Chemosphere ; 272: 129916, 2021 Jun.
Article in English | MEDLINE | ID: mdl-33601203

ABSTRACT

Textile wastewater is characterized by high salinity and high temperature, and azo dye decolorization by mixed cultures under extreme salinity and thermophilic environments has received little attention. High salinity and temperature inhibit the biodecolorization efficiency in textile wastewater. In the present study, a halo-thermophilic bacterial consortium (HT1) that can decolorize azo dye at 10% salinity and 50 °C was enriched. Bacillus was the dominant genus, and this genus may play a key role in the decolorization process. HT1 can decolorize metanil yellow G (MYG) at a wide range of pH values (6-8), temperatures (40-60 °C), dye concentrations (100-200 mg/L) and salinities (1-15%). Laccase, manganese peroxidase, lignin peroxidase and azoreductase are involved in the decolorization process of MYG. In addition, the decolorization pathway of MYG was proposed based on GC-MS and FTIR results. The toxicity of MYG decreased after decolorization by HT1. A metagenomic sequencing approach was applied to identify the functional genes involved in degradation. Overall, this halo-thermophilic bacterial consortium could be a promising candidate for the treatment of textile wastewater under elevated temperature and salinity conditions.


Subject(s)
Azo Compounds , Coloring Agents , Archaea , Biodegradation, Environmental , Laccase
5.
Virulence ; 12(1): 679-689, 2021 12.
Article in English | MEDLINE | ID: mdl-33554733

ABSTRACT

Enhancing virus multiplication could assist in the rapid production of vaccines against viral diseases. Cold atmospheric plasma (CAP), a physical approach relying on reactive oxygen species to achieve the desirable cellular outcome, was shown to be effective in enhancing virus propagation, where bovine rhinotrachieitis virus and Madin-Darby Bovine Kidney cells were used as the modeling virus and cell line, respectively. CAP was shown to create synergies with virus infection in arresting host cells at the G2/M stage, decreasing cell membrane potential, increasing intracellular calcium level, and inducing selective autophagy. In addition, CAP was demonstrated to suppress virus-triggered immunogenic signaling as evaluated by IRF7 expression. We presented evidences on CAP-triggered maximization of host resources toward virus multiplication that is advantageous for viral vaccine production, and opened a novel regime for applying CAP in the sector of medical care and health.


Subject(s)
Host Microbial Interactions/drug effects , Plasma Gases/pharmacology , Virus Replication/drug effects , Animals , Autophagy/drug effects , Cattle , Cell Cycle/drug effects , Cell Line , Host Microbial Interactions/immunology , Kidney/cytology , Virus Replication/immunology
6.
Appl Microbiol Biotechnol ; 104(21): 9193-9204, 2020 Nov.
Article in English | MEDLINE | ID: mdl-32918582

ABSTRACT

Reactive Black 5 (RB5) is a typical refractory azo dye. Widespread utilization of RB5 has caused a variety of environmental and health problems. The enzymatic degradation of RB5 can be a promising solution due to its superiority as an eco-friendly and cost-competitive process. Bacterial CotA-laccase shows great application prospect to eliminate hazardous dyes from wastewater. However, efficient decolorization of RB5 CotA-laccase generally requires the participation of costly, toxic mediators. In the present study, we modified the amino acids Thr415 and Thr418 near the type 1 copper site and the amino acid Gln442 at the entrance of the substrate-binding pocket of Bacillus pumilus W3 CotA-laccase to boost its RB5 decolorization activity based on molecular docking analysis and site-saturation mutagenesis. Through the strategies, two double site mutants T415D/Q442A and T418K/Q442A obtained demonstrated 43.94 and 52.64% RB5 decolorization rates in the absence of a mediator at pH 10.0, respectively, which were about 3.70- and 4.43-fold higher compared with the wild-type CotA-laccase. Unexpectedly, the catalytic efficiency of the T418K/Q442A to ABTS was enhanced by 5.33-fold compared with the wild-type CotA-laccase. The mechanisms of conferring enhanced activity to the mutants were proposed by structural analysis. In summary, the mutants T415D/Q442A and T418K/Q442A have good application potentials for the biodegradation of RB5. KEY POINTS: • Three amino acids of CotA-laccase were manipulated by site-saturation mutagenesis. • Decolorization rate of two mutants to RB5 was enhanced 3.70- and 4.43-fold, respectively. • The mechanisms of awarding enhanced activity to the mutants were supposed.


Subject(s)
Bacillus pumilus , Laccase , Bacillus pumilus/genetics , Bacterial Proteins/genetics , Coloring Agents , Laccase/genetics , Molecular Docking Simulation , Mutagenesis , Naphthalenesulfonates
7.
Ecotoxicol Environ Saf ; 204: 111073, 2020 Nov.
Article in English | MEDLINE | ID: mdl-32755736

ABSTRACT

The high pH and salinity of textile wastewater is a major hindrance to azo dye decolorization. In this study, a mixed bacterial consortium ZW1 was enriched under saline (10% salinity) and alkaline (pH 10.0) conditions to decolorize Methanil Yellow G (MY-G). Consortium ZW1 was mainly composed of Halomonas (49.8%), Marinobacter (30.7%) and Clostridiisalibacter (19.2%). The effects of physicochemical factors were systematically investigated, along with the degradation pathway and metagenome analysis. The co-carbon source was found to be necessary, and the addition of yeast extract led to 93.3% decolorization of 100 mg/L MY-G within 16 h (compared with 1.12% for control). The optimum pH, salinity, temperature and initial dye concentration were 8.0, 5-10%, 40 °C and 100 mg/L, respectively. The typical dye-related degradation enzymes were most effective at 10% salinity. Consortium ZW1 was also able to differentially decolorize five other direct and acidic dyes in a short period. Phototoxicity tests revealed the detoxification of MY-G degradation products. Combining UV-vis, FTIR and GC-MS detection, the MY-G degradation pathway by consortium ZW1 was proposed. Furthermore, metagenomic approach was used to elucidate the functional potential of genes in MY-G biodegradation. These results signify the broad potential application of halo-alkaliphilic consortia in the bioremediation of dyeing wastewater.


Subject(s)
Azo Compounds/toxicity , Coloring Agents/toxicity , Metagenome , Microbiota/drug effects , Wastewater , Water Pollutants, Chemical/toxicity , Water Purification/methods , Azo Compounds/metabolism , Biodegradation, Environmental , Carbon/metabolism , Coloring Agents/metabolism , Microbiota/genetics , Salinity , Temperature , Textile Industry , Wastewater/chemistry , Wastewater/microbiology , Water Pollutants, Chemical/metabolism
8.
3 Biotech ; 10(7): 323, 2020 Jul.
Article in English | MEDLINE | ID: mdl-32656056

ABSTRACT

As a green biocatalyst, transaminase with high thermostability can be better employed to synthesize many pharmaceutical intermediates in industry. To improve the thermostability of (R)-selective amine transaminase from Bacillus altitudinis W3, related mutation sites were determined by multiple amino acid sequence alignment between wild-type ω-transaminase and four potential thermophilic ω-transaminases, followed by replacement of the related amino acid residues with proline by site-directed mutagenesis. Three stabilized mutants (D192P, T237P, and D192P/T237P) showing the highest stability were obtained and used for further analysis. Comparison with the wild-type enzyme revealed that the double mutant D192P/T237P exhibited the largest shift in thermostability, with a 2.5-fold improvement of t 1/2 at 40 °C, and a 6.3 °C increase in T 50 15, and a 5 °C higher optimal catalytic temperature. Additionally, this mutant exhibited an increase in catalytic efficiency (k cat/K m) relative to the wild-type enzyme. Modeling analysis indicated that the improved thermostability of the mutants could be associated with newly formed hydrophobic interactions and hydrogen bonds. This study shown that proline substitutions guided by sequence alignment to improve the thermostability of (R)-selective amine transaminase was effective and this method can also be used to engineering other enzymes.

9.
Appl Biochem Biotechnol ; 192(3): 861-880, 2020 Nov.
Article in English | MEDLINE | ID: mdl-32607897

ABSTRACT

In this study, horseradish peroxidase C1A (HRP C1A) from Armoracia rusticana was expressed in Escherichia coli as an inclusion body. Subsequently, an active recombinant HRP C1A was obtained by refolding gradually using dilution-ultrafiltration. The recombinant HRP C1A was immobilized on agarose-chitosan hydrogel at 86.9 ± 2.5% of immobilization efficiency. After immobilization of the recombinant HRP C1A, the pH and temperature stability were improved and the reusability of the recombinant HPR C1A was achieved. The immobilized HRP C1A activity was retained above 80% after 6 cycles. The immobilized recombinant HRP C1A was used for the decolorization of four various dyes, including acid blue 129 (AB129), methyl blue (MB), methyl red (MR), and trypan blue (TB). The decolorization rates are all more than 70%, among which the decolorization effect of AB129 was the most significant (the decolorization rate was 76.3 ± 1.6%). Furthermore, a plausible decolorization pathway for AB129 was proposed based on the identified intermediates by ultraperformance liquid chromatography coupled with mass spectrometry (UPLC-MS). This is the first report of the putative mechanism on the decolorization of AB129 by HRP.


Subject(s)
Anthraquinones/metabolism , Coloring Agents/metabolism , Enzymes, Immobilized/metabolism , Horseradish Peroxidase/metabolism , Hydrogels/chemistry , Recombinant Proteins/metabolism , Sulfonic Acids/metabolism , Biotransformation , Color , Enzymes, Immobilized/chemistry , Horseradish Peroxidase/chemistry , Hydrogen-Ion Concentration , Recombinant Proteins/chemistry , Temperature
10.
Ecotoxicol Environ Saf ; 193: 110335, 2020 Apr 15.
Article in English | MEDLINE | ID: mdl-32088549

ABSTRACT

In this study, mutant CotA-laccase SF was successfully expressed in Escherichia coli by co-expression with phospholipase C. The optimized extracellular expression of CotA-laccase SF was 1257.22 U/L. Extracellularly expressed CotA-laccase SF exhibits enzymatic properties similar to intracellular CotA-laccase SF. CotA-laccase SF could decolorize malachite green (MG) under neutral and alkaline conditions. The Km and kcat values of CotA-laccase SF to MG were 39.6 mM and 18.36 s-1. LC-MS analysis of degradation products showed that MG was finally transformed into 4-aminobenzophenone and 4-aminophenol by CotA-laccase. The toxicity experiment of garlic root tip cell showed that the toxicity of MG metabolites decreased. In summary, CotA-laccase SF had a good application prospect for degrading malachite green.


Subject(s)
Coloring Agents/metabolism , Laccase/metabolism , Rosaniline Dyes/metabolism , Coloring Agents/toxicity , Escherichia coli/genetics , Escherichia coli/metabolism , Laccase/genetics , Mutation , Rosaniline Dyes/toxicity
11.
AMB Express ; 10(1): 5, 2020 Jan 14.
Article in English | MEDLINE | ID: mdl-31938890

ABSTRACT

Increasing evidences suggest that intestinal microbiota balance closely correlated with host's health status could affected by external environment. Integrated crayfish-rice cultivation model is a highly efficient artificial ecosystem widely practiced in subtropical China. Less information is available to estimate the influence response to the micro-ecology of crayfish intestine and so as to influence the biological processes. Thus, 16S rRNA high-throughput sequencing approach was employed to investigate the composition diversity and functions of bacterial community in the intestines of Procambarus clarkii farmed within this model. Results exhibited the highly diversity of microflora with dominant phyla Actinobacteria, Proteobacteria, Tenericutes, Firmicutes and Bacteroidetes. The genera of Candidatus Bacilloplasma and Ornithinibacter were presented as predominant population much exceeds in richness comparing to that of other genus. Despite the highly diversity in the bacterial community, the predicted functions indicated relative consistent in biological processing pathway. Collectively, significant richness of genes was observed involved in amino acid and carbohydrate metabolism and membrane transport processing. This study would contribute to the understanding of the impact of growth conditions on host-microbiota relation especially in aquatic animals.

12.
J Hazard Mater ; 382: 121084, 2020 01 15.
Article in English | MEDLINE | ID: mdl-31473514

ABSTRACT

A native laccase (Lac-Q) with robust cold-adapted and thermostable characteristics from the white-rot fungus Pycnoporus sp. SYBC-L10 was purified, characterized, and used in antibiotic treatments. Degradation experiments revealed that Lac-Q at 10.0 U mL-1 coupled with 1.0 mmol L-1 ABTS could degrade 100% of the tetracycline or oxytetracycline (50 mg L-1) within 5 min with a static incubation at 0 °C (pH 6.0). The presence of the Mn2+ ion inhibited the removal rate of tetracycline and oxytetracycline by the Lac-Q-ABTS system, and the presence of Al3+, Cu2+, and Fe3+ accelerated the removal rate of tetracycline and oxytetracycline by the Lac-Q-ABTS system. Furthermore, the growth inhibition of Bacillus altitudinis SYBC hb4 and E. coli by tetracycline antibiotics revealed that the antimicrobial activity was significantly reduced after treatment with the Lac-Q-ABTS system. Finally, seven transformation products of oxytetracycline (namely TP 445, TP 431, TP 413, TP 399, TP 381, TP 367, and TP 351) were identified during the Lac-Q-mediated oxidation process by using UPLC-MS/MS. A possible degradation pathway including deamination, demethylation, and dehydration was proposed. These results suggest that the Lac-Q-ABTS system shows a great potential for the treatment of antibiotic wastewater containing different metal ions at various temperatures.


Subject(s)
Anti-Bacterial Agents/chemistry , Laccase/chemistry , Oxytetracycline/chemistry , Pycnoporus/enzymology , Tetracycline/chemistry , Waste Disposal, Fluid/methods , Water Pollutants, Chemical/chemistry , Basidiomycota/growth & development , Escherichia coli/growth & development , Laccase/isolation & purification , Metals/chemistry , Oxidation-Reduction , Temperature
13.
J Biosci Bioeng ; 129(5): 588-594, 2020 May.
Article in English | MEDLINE | ID: mdl-31761671

ABSTRACT

Recently, residual plasticizer phthalate esters (PAEs) in the different environments pose a serious health threat to humans and mammals. Biodegradation has been considered a promising and eco-friendly way to eliminate PAEs. In this study, a gene (baces04) encoding the novel PAEs hydrolase, carboxylesterase (BaCEs04), was screened from the genome of Bacillus velezensis SYBC H47 via bioinformatics analysis. Then, baces04 was cloned and expressed in Escherichia coli BL21 (DE3). BaCEs04 belonged to the esterase family VI. It contained a conserved domain (Gly159-His160-Ser161-Leu162-Gly163) and a typical serine hydrolase catalytic site (Ser161-Asp204-His261). The characterization of BaCEs04 showed that the activity was optimal at 60°C and pH 7.5. This enzyme also displayed high resistance to metal ions, organic solvents, and detergents. After treatment with BaCEs04 for 5 h, the degradation ratio of four different 1 mM PAEs, including dimethyl phthalate, diethyl phthalate, dipropyl phthalate, and dibutyl phthalate, was 32.4%, 50.5%, 77.9%, and 86.8%, respectively. The degradation products of four PAEs were identified as their corresponding monoalkyl phthalates. This is the first report that family VI esterase displaying PAE-hydrolysis activity. This study also proved that BaCEs04 could be used as an ideal candidate for the application in bioremediation and industry.


Subject(s)
Bacillus/enzymology , Bacterial Proteins/metabolism , Carboxylesterase/metabolism , Esters/metabolism , Phthalic Acids/metabolism , Bacillus/chemistry , Bacillus/genetics , Bacillus/metabolism , Bacterial Proteins/chemistry , Bacterial Proteins/genetics , Biodegradation, Environmental , Carboxylesterase/chemistry , Carboxylesterase/genetics , Carboxylic Ester Hydrolases/genetics , Carboxylic Ester Hydrolases/metabolism , Esters/chemistry , Hydrolysis , Kinetics , Phthalic Acids/chemistry
14.
Int J Biol Macromol ; 153: 1220-1230, 2020 Jun 15.
Article in English | MEDLINE | ID: mdl-31756468

ABSTRACT

In this study, three active alkaline proteases (AprEs) (BaApr1, BaApr2, and BaApr9) from Bacillus altitudinis W3 were obtained through bioinformatics analysis and verification. Multiple sequence alignment showed low identity of 64.60% and suggested that the three AprEs belonged to the S8A subfamily of serine proteases. They showed maximal activity with pH of 9.5 at 55 °C, 8.5 at 50 °C, and 10.5 at 45 °C, respectively. They were stable at alkaline condition and below 50 °C. In the presence of Ca2+, the optimal temperatures and thermostability of them were significantly improved. They were activated by Ca2+ and Mg2+ but inhibited by ethylenediaminetetraacetic acid (EDTA) and phenylmethanesulfonyl fluoride (PMSF). Surfactants had little effect on them, but most organic solvents had some inhibitory effect except for n-hexane. They were effective in hydrolyzing natural proteins such as casein and NON-fat powdered milk. BaApr1 exhibited the highest catalytic efficiency towards casein and showed an excellent effect on the desensitization of milk proteins. The present study reveals some useful characteristics of the three AprEs, and indicates that AprEs have potential application values in the desensitization process of milk proteins.


Subject(s)
Bacillus/enzymology , Bacterial Proteins/genetics , Bacterial Proteins/metabolism , Endopeptidases/genetics , Endopeptidases/metabolism , Milk Proteins/metabolism , Bacillus/genetics , Bacterial Proteins/isolation & purification , Biotechnology , Endopeptidases/isolation & purification , Enzyme Stability , Gene Expression , Hydrogen-Ion Concentration , Temperature
15.
J Biosci Bioeng ; 129(4): 405-411, 2020 Apr.
Article in English | MEDLINE | ID: mdl-31672431

ABSTRACT

CotA-laccases are potential enzymes that are widely used in decolorization of dyes and degradation of toxic substances. In this study, a novel CotA-laccase gene from Bacillus pumilus W3 was applied for rational design. After a series of site-directed genetic mutations, the mutant S208G/F227A showed a 5.1-fold higher catalytic efficiency (kcat/Km) than the wild-type CotA-laccase did. The optimal pH of S208G/F227A was 3.5 with ABTS as substrate. The residual activity of mutant S208G/F227A was more than 80% after incubated for 10 h at pH 7-11. Mutant S208G/F227A showed optimal temperature at 80°C with ABTS as substrate. The thermal stability of mutant laccase S208G/F227A was lower than that of wild-type CotA-laccase. This study showed that Gly208 and Ala227 play key roles in catalytic efficiency and it is possible to improve catalytic efficiency of CotA-laccase through site-directed mutagenesis.


Subject(s)
Bacillus pumilus/genetics , Laccase/genetics , Laccase/metabolism , Mutagenesis, Site-Directed , Protein Engineering/methods , Bacillus pumilus/enzymology , Bacterial Proteins/genetics , Bacterial Proteins/metabolism , Biotransformation/genetics , Catalysis , Coloring Agents/chemistry , Coloring Agents/metabolism , Genetic Enhancement/methods , Laccase/chemistry , Mutation , Organisms, Genetically Modified , Temperature
16.
Molecules ; 24(21)2019 Nov 05.
Article in English | MEDLINE | ID: mdl-31694203

ABSTRACT

Phoxim, a type of organophosphorus pesticide (OP), is widely used in both agriculture and fisheries. The persistence of phoxim has caused serious environmental pollution problems. In this study, Bacillus amyloliquefaciens YP6 (YP6), which is capable of promoting plant growth and degrading broad-spectrum OPs, was used to study phoxim degradation. Different culture media were applied to evaluate the growth and phoxim degradation of YP6. YP6 can grow rapidly and degrade phoxim efficiently in Luria-Bertani broth (LB broth) medium. Furthermore, it can also utilize phoxim as the sole phosphorus source in a mineral salt medium. Response surface methodology was performed to optimize the degradation conditions of phoxim by YP6 in LB broth medium. The optimum biodegradation conditions were 40 °C, pH 7.20, and an inoculum size of 4.17% (v/v). The phoxim metabolites, O,O-diethylthiophosphoric ester, phoxom, and α-cyanobenzylideneaminooxy phosphonic acid, were confirmed by liquid chromatography-mass spectrometry. Meanwhile, transcriptome analysis and qRT-PCR were performed to give insight into the phoxim-stress response at the transcriptome level. The hydrolase-, oxidase-, and NADPH-cytochrome P450 reductase-encoding genes were significantly upregulated for phoxim hydrolysis, sulfoxidation, and o-dealkylation. Furthermore, the phoxim biodegradation pathways by YP6 were proposed, for the first time, based on transcriptomic data and product analysis.


Subject(s)
Bacillus amyloliquefaciens/genetics , Bacillus amyloliquefaciens/metabolism , Genes, Bacterial/genetics , Organothiophosphorus Compounds/metabolism , Pesticides/metabolism , Transcriptome/genetics , Biodegradation, Environmental , Hydrogen-Ion Concentration , Hydrolysis , NADPH-Ferrihemoprotein Reductase/genetics
17.
J Appl Genet ; 60(3-4): 427-430, 2019 Nov.
Article in English | MEDLINE | ID: mdl-31407219

ABSTRACT

Aminotransferases have attracted considerable attention due to their extraordinary potential for the biosynthesis of chiral amines. Research on transaminase genes can facilitate their application to various fields. Herein, 89 putative aminotransferase genes potentially encoding useful biocatalysts were identified in three Bacillus strains genomes by genome annotation. Enzymes encoded by genes ota3, ota8, otae6, otae21, otaf1, otaf8, and otaf26 belong to pyridoxine 5'-phosphate-dependent enzyme class IV. These seven ω-aminotransferase genes are highly conserved according to phylogenetic tree and bioinformatics analyses, as are the putative lysine catalytic residues in the corresponding enzymes (ω-BPTA 1-7). The enzymes may possess similar activity to ω-aminotransferases from Arthrobacter sp. KNK 168. The potential application of these novel enzymes for the synthesis of medicinal amino compounds will be explored in future genetic engineering studies.


Subject(s)
Genome, Bacterial/genetics , Multigene Family/genetics , Phylogeny , Transaminases/genetics , Bacillus/enzymology , Bacillus/genetics , Bacillus amyloliquefaciens/enzymology , Bacillus amyloliquefaciens/genetics , Computational Biology , DNA, Bacterial/genetics , Sequence Analysis, DNA , Transaminases/classification
18.
Int J Biol Macromol ; 137: 732-740, 2019 Sep 15.
Article in English | MEDLINE | ID: mdl-31279886

ABSTRACT

Aminotransferases are widely employed as biocatalysts for the asymmetric synthesis of biologically active pharmaceuticals. Transaminase BpTA from Bacillus pumilus W3 can accept a broad spectrum of sterically demanding substrates, but it does not process the key five-membered ring intermediate of sitafloxacin. In the present study, we rationally constructed numerous single-point mutants and six multi-point mutants by combining the structural characteristics of transaminase and its substrates. Biochemical characteristics of wild-type and mutant enzymes were initially analyzed, and mutants I215M, I215F, and Y32L displayed increased catalytic efficiency, K155A, I215V and T252A completely lost enzyme activity. Residues K155 and T252 had a particularly strong influence on catalytic activity. Four multi-point mutants (L212M/I215M, Y32L/S190A/L212M/I215M, Y32L/Y159F/T252A and Y32W/Y159F/I215M/T252A) possess potential for industrial production of the key five-membered ring intermediate of sitafloxacin. Furthermore, mutants Y32L/Y159F/T252A and Y32W/Y159F/I215M/T252A can catalyze conversion of (R)-α-phenethylamine, albeit at an extremely low rate (<8%). In summary, mutants L212M/I215M and Y32L/S190A/L212M/I215M are more suitable for industrial production of the antibiotic, sitafloxacin, via an enzymatic approach.


Subject(s)
Bacillus pumilus/enzymology , Fluoroquinolones/chemistry , Fluoroquinolones/metabolism , Mutagenesis, Site-Directed , Transaminases/genetics , Transaminases/metabolism , Bacillus pumilus/genetics , Hydrogen-Ion Concentration , Hydrolysis , Kinetics , Models, Molecular , Mutation , Protein Domains , Stereoisomerism , Substrate Specificity , Transaminases/chemistry
19.
Sci Total Environ ; 670: 950-960, 2019 Jun 20.
Article in English | MEDLINE | ID: mdl-30921727

ABSTRACT

Overexploitation of rare earth elements (REEs) has caused serious desertification and environmental pollution. The ecological restoration of mining areas has attracted increasing attention in China. Soil microbiota is important for successful ecological remediation of abandoned mine land. In this study, soil samples were collected from a restored REE mine site, and the bacterial community composition and diversity were assessed by Illumina high-throughput sequencing targeting the V3-V4 region of the 16S rRNA gene. Microbiota significantly developed in the remediated land. A total of 663,781 effective 16S rRNA gene sequences were obtained, which were classified into 28 bacterial phyla and 3 archaeal phyla. The dominant phyla across all samples (>5% of total effective sequences) were Proteobacteria, Acidobacteria and Firmicutes. Bacterial diversity indices (OTU number, Shannon index and Chao1 index) of the restored soils were higher than those of the tailings and even surpassed those in the unmined site. Redundancy analysis indicated that soil nutrients (soil organic carbon, available phosphorus and total nitrogen) were the dominant factors, followed by soil pH, affecting bacterial community structure. In general, these results suggested that soil amendment and phytoremediation effectively improved the soil environment of the abandoned mine site, which also increased our understanding of the correlation between microbial variation and soil properties in restored REE mine soils.


Subject(s)
Biodegradation, Environmental , Metals, Rare Earth/metabolism , Soil Microbiology , Soil Pollutants/metabolism , China , Metals, Rare Earth/analysis , Mining , Proteobacteria , Soil , Soil Pollutants/analysis
20.
J Environ Sci Health B ; 54(4): 336-343, 2019.
Article in English | MEDLINE | ID: mdl-30822193

ABSTRACT

In recent decades, biodegradation has been considered a promising and eco-friendly way to eliminate organophosphorus pesticides (OPs) from the environment. To enrich current biodegrading-enzyme resources, an alkaline phosphatase (AP3) from Bacillus amyloliquefaciens YP6 was characterized and utilized to test the potential for new applications in the biodegradation of five broad-spectrum OPs. Characterization of AP3 demonstrated that activity was optimal at 40 °C and pH 10.3. The activity of AP3 was enhanced by Mg2+, Ca2+, and Cu2+, and strongly inhibited by Mn2+, EDTA, and L-Cys. Compared to disodium phenyl phosphate, p-nitrophenyl phosphate (pNPP) was more suitable to AP3, and the Vm, Km, kcat, kcat/Km values of AP3 for pNPP were 4,033 U mg-1, 12.2 mmol L-1, 3.3 × 106 s-1, and 2.7 × 108 s-1mol-1L, respectively. Degradation of the five OPs, which included chlorpyrifos, dichlorvos, dipterex, phoxim, and triazophos, was 18.7%, 53.0%, 5.5%, 68.3%, and 96.3%, respectively, after treatment with AP3 for 1 h. After treatment of the OP for 8 h, AP3 activities remained more than 80%, with the exception of phoxim. It can be postulated that AP3 may have a broad OP-degradation ability and could possibly provide excellent potential for biodegradation and bioremediation in polluted ecosystems.


Subject(s)
Alkaline Phosphatase/metabolism , Bacillus amyloliquefaciens/enzymology , Organophosphates/metabolism , Pesticides/metabolism , Aniline Compounds/metabolism , Biodegradation, Environmental , Chlorpyrifos/metabolism , Nitrophenols/metabolism , Organophosphorus Compounds/metabolism , Organothiophosphates/metabolism , Triazoles/metabolism
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