Degradation of butachlor and propanil by Pseudomonas sp. strain But2 and Acinetobacter baumannii strain DT

Degradation of pretilachlor and fenclorim and effects of these compounds on bacterial communities under anaerobic condition

Pretilachlor and safener fenclorim are the main components of herbicides widely applied to control weeds. Although some pure cultures of bacteria and fungi which degraded these compounds under aerobic conditions were isolated, no isolated pretilachlor- and fenclorim-degrading bacterial strains under anaerobic condition had been available. In this study, the degradation of these compounds and the effects of them on bacterial community structures were investigated under anaerobic conditions. The dissipation rates of pretilachlor and fenclorim in slurries were in the order: soil from paddy field ≈ sediment from river > sediment from mangrove. Moreover, three pretilachlor-degrading bacterial strains (Pseudomonas sp. Pr1, Proteiniclasticum sp. Pr2 and Paracoccus denitrificans Pr3) and two fenclorim-degrading strains (Dechloromonas sp. Fe1 and Ralstonia pickettii Fe2) isolated from a slurry of paddy soil utilized the substrates as sole carbon and energy sources under anaerobic conditions. The degradation of pure pretilachlor and fenclorim at various concentrations by corresponding mixed pure cultures followed the Michaelis-Menten model, with the maximum degradation was 3.10 ± 0.31 µM/day for pretilachlor, and 2.08 ± 0.18 µM/day for fenclorim. During the degradation, 2-chloro-N-(2,6-diethylphenyl) acetamide and 2,6-dimethylaniline were produced in pretilachlor degradation, and benzene was a product of fenclorim degradation. The synergistic degradation of both substrates by all isolated bacteria reduced the metabolites concentrations accumulated in media. This study provides valuable information on effects of pretilachlor and fenclorim on bacterial communities in soil and sediments, and degradation of these substrates by isolated bacteria under anaerobic condition.

Characterization of a novel amidohydrolase with promiscuous esterase activity from a soil metagenomic library and its application in degradation of amide herbicides

Amide herbicides have been extensively used worldwide and have received substantial attention due to their adverse environmental effects. Here, a novel amidohydrolase gene was identified from a soil metagenomic library using diethyl terephthalate (DET) as a screening substrate. The recombinant enzyme, AmiH52, was heterologously expressed in Escherichia coli and later purified and characterized, with the highest activity occurring at 40 ℃ and pH 8.0. AmiH52 was demonstrated to have both esterase and amidohydrolase activities, which exhibited highly specific activity for p-nitrophenyl butyrate (2669 U/mg) and degrading activity against several amide herbicides. In particular, it displayed the strongest activity against propanil, with a high degradation rate of 84% at 8 h. A GC-MS analysis revealed that propanil was transformed into 3,4-dichloroaniline (3,4-DCA) during this degradation. The molecular interactions and binding stability were then analyzed by molecular docking and molecular dynamics simulation, which revealed that several key amino acid residues, including Tyr164, Trp66, Ala59, Val283, Arg58, His33, His191, and His226, are involved in the specific interactions with propanil. This study provides a function-driven screening method for amide herbicide hydrolase from the metagenomic libraries and a promising propanil-degrading enzyme (AmiH52) for potential applications in environmental remediation.

Thiobencarb Degradation by Pseudomonas sp. Th1 and Cupriavidus oxalaticus Th2 Isolated from Soil

Thiobencarb has been extensively applied for weed control, resulting in severe environmental problems. In this study, thiobencarb degradation in liquid media and in soil by two bacterial strains, Pseudomonas sp. Th1 and Cupriavidus oxalaticus Th2, was investigated. Both bacterial isolates utilized the compound as a sole carbon, nitrogen and sulfur source. The utilization rates of thiobencarb by Pseudomonas sp. Th1 and C. oxalaticus Th2 in a liquid mineral medium were 1.02 ± 0.11 and 0.80 ± 0.07 µM/h at 100 µM, respectively. The determination of degradation and bacterial growth rates kinetics showed that the rates for pure thiobencarb followed the Michaelis-Menten model; meanwhile, the rates for thiobencarb in a commercial herbicide fitted well with the Edwards model. Their degradation by the mixed culture of both strains reduced the accumulation of intermediate products, including S-4-chlorobenzyl ethylthiocarbamate and 4-chlorobenzyl mercaptan, in media. The degradation by the mixed culture of these bacteria immobilized in rice straw was significantly higher than those of their free counterparts when determining in a packed bed bioreactor (P < 0.05). In addition, the inoculation of the mixed bacterial culture in soil significantly enhanced the degradation performance for both thiobencarb and propanil in a commercial herbicide. This study elucidates the differences in biodegradation of pure thiobencarb and thiobencarb in an herbicide.

Insights into the metabolic pathways and biodegradation mechanisms of chloroacetamide herbicides

Chloroacetamide herbicides are widely used around the world due to their high efficiency, resulting in increasing levels of their residues in the environment. Residual chloroacetamides and their metabolites have been frequently detected in soil, water and organisms and shown to have toxic effects on non-target organisms, posing a serious threat to the ecosystem. As such, rapid and efficient techniques that eliminate chloroacetamide residues from the ecosystem are urgently needed. Degradation of these herbicides in the environment mainly occurs through microbial metabolism. Microbial strains such as Acinetobacter baumannii DT, Bacillus altitudinis A16, Pseudomonas aeruginosa JD115, Sphingobium baderi DE-13, Catellibacterium caeni DCA-1, Stenotrophomonas acidaminiphila JS-1, Klebsiella variicola B2, and Paecilomyces marquandii can effectively degrade chloroacetamide herbicides. The degradation pathway of chloroacetamide herbicides in aerobic bacteria is mainly initiated by an N/C-dealkylation reaction, followed by aromatic ring hydroxylation and cleavage processes, whereas dechlorination is the initial reaction in anaerobic bacteria. The molecular mechanisms associated with bacterial degradation of chloroacetamide herbicides have been explored, with amidase, hydrolase, reductase, ferredoxin and cytochrome P450 oxygenase currently known to play a pivotal role in the catabolic pathways of chloroacetamides. The fungal pathway for the degradation of these herbicides is more complex with more diversified products, and the degradation enzymes and genes involved remain to be discovered. However, there are few reviews specifically summarizing the microbial degrading species and biochemical mechanisms of chloroacetamide herbicides. Here, we briefly summarize the latest progress resulting from research on microbial strain resources and enzymes involved in degradation of these herbicides and their corresponding genes. Furthermore, we explore the biochemical pathways and molecular mechanisms for biodegradation of chloroacetamide herbicides in depth, thereby providing a reference for further research on the bioremediation of such herbicides.

Degradation of isoproturon in vitro by a mix of bacterial strains isolated from arable soil

Isoproturon (IPU) is widely used to control annual grasses and broad leaf weeds in cereal crops. In this study, four IPU-degrading bacterial strains, i.e., Sphingomonas sp. ISP1, Arthrobacter sp. ISP2, Acinetobacter baumannii 4IA and Pseudomonas sp. ISP3, were isolated from agricultural soil. The mixed culture of four isolates completely degraded the herbicide at 100 mg/L within 10 days. During IPU degradation, several transient accumulations of the metabolites, including 3-(4-isopropylphenyl)-1-methylurea, 3-(4-isopropylphenyl)-urea, 4-isopropylaniline, and 4-toluidine, were also identified. Moreover, the inoculation of the isolated mixed culture into the soil from a mountain with no previous herbicide application increased the degradation rate by 51% of the herbicide on average. Furthermore, bioaugmentation with isolated bacteria in the soil resulted in short term variations in bacterial structure compared to the unaugmented soil. The findings of this study were instrumental in understanding the mechanisms of pesticide breakdown and bioremediation in liquid media and soil.

Recent Progress and Prospects in Catalytic Water Treatment

Presently, conventional technologies in water treatment are not efficient enough to completely mineralize refractory water contaminants. In this context, the implementation of catalytic processes could be an alternative. Despite the advantages provided in terms of kinetics of transformation, selectivity, and energy saving, numerous attempts have not yet led to implementation at an industrial scale. This review examines investigations at different scales for which controversies and limitations must be solved to bridge the gap between fundamentals and practical developments. Particular attention has been paid to the development of solar-driven catalytic technologies and some other emerging processes, such as microwave assisted catalysis, plasma-catalytic processes, or biocatalytic remediation, taking into account their specific advantages and the drawbacks. Challenges for which a better understanding related to the complexity of the systems and the coexistence of various solid-liquid-gas interfaces have been identified.

Genomic Analysis and Stability Evaluation of the Phenol-Degrading Bacterium Acinetobacter sp. DW-1 During Water Treatment

Phenol is a toxic organic molecule that is widely detected in the natural environment, even in drinking water sources. Biological methods were considered to be a good tool for phenol removal, especially microbial immobilized technology. However, research on the “seed” bacteria along with microbial community analysis in oligotrophic environment such as drinking water system has not been addressed. In this study, Acinetobacter sp. DW-1 with high phenol degradation ability had been isolated from a drinking water biofilter was used as seeded bacteria to treat phenol micro-polluted drinking water source. Meanwhile, the whole genome of strain DW-1 was sequenced using nanopore technology. The genomic analysis suggests that Acinetobacter sp. DW-1 could utilize phenol via the β-ketoadipate pathway, including the catechol and protocatechuate branches. Subsequently, a bio-enhanced polyhedral hollow polypropylene sphere (BEPHPS) filter was constructed to investigate the stability of the seeded bacteria during the water treatment process. The denatured gradient gel electrophoresis (DGGE) profile and the quantification of phenol hydroxylase gene results indicate that when the BEPHPS filter was operated for 56 days, Acinetobacter sp. was still a persistent and competitive bacterium in the treatment group. In addition, 16S rRNA gene amplicon sequencing results indicate that Acinetobacter sp., as well as Pseudomonas sp., Nitrospira sp., Rubrivivax sp. were the predominant bacteria in the treatment group, which were different from that in the CK group. This study provides a better understanding of the mechanisms of phenol degradation by Acinetobacter sp. DW-1 at the gene level, and provides new insights into the stability of seeded bacteria and its effects on microbial ecology during drinking water treatment.

Anaerobic Degradation of Propanil in Soil and Sediment Using Mixed Bacterial Culture

The widespread use of the herbicide, propanil, causes severe environmental problems. In this study, the effects of propanil on the bacterial community in a sediment slurry were determined. Moreover, the degradation of the herbicide by pure and mixed cultures was first conducted under anaerobic conditions. The results showed that propanil caused significant changes in the bacterial community under anaerobic conditions. Four bacterial strains, i.e., Geobacter sp. Pr-1, Paracoccus denitrificans Pr-2, Pseudomonas sp. Pr-3, and Rhodococcus sp. Pr-4, isolated from the an enrichment sediment slurry were the first pure cultures that degraded propanil and 3,4-dichloroaniline (3,4-DCA) under anaerobic conditions. Some individual isolates showed the slow degradation of propanil and 3,4-DCA, but the mixture of the four strains increased the degradation rates of both compounds. The mixed culture of these isolates transformed more than 90% of propanil within 10 days in liquid media with the amendment of dextrose, glucose, or acetate. The determination of degradation pathway showed that propanil was transformed to 3,4-DCA and some other products before degrading completely. This study provides valuable information on the effects of propanil on the bacterial community and the synergistic degradation of propanil under anaerobic conditions.