Spatial Control of Microbial Pesticide Degradation in Soil: A Model-Based Scenario Analysis

QpmH esterase from cotton rhizosphere bacteria: A novel approach for degrading quizalofop-p-ethyl herbicide

Within the rhizosphere, a rich population of biocontrol bacteria serves as a valuable resource for the biodegradation of environmental herbicides. This study aimed to evaluate rhizospheric microorganisms for their potential to degrade Quizalofop-p-ethyl, a widely used herbicide to control annual and perennial weeds in a variety of crops. A bacterial strain, MJ-8, isolated from cotton rhizosphere soil, demonstrated significant degradation activity. Based on morphological characteristics and 16S rRNA sequencing, the strain was identified as Priestia megaterium. Strain MJ-8 achieved a degradation rate of 90.65 % for Quizalofop-p-ethyl. Genomic analysis and amino acid sequence alignment revealed a key gene, designated QpmH, encoding a 30 kDa protein with strong biodegradation activity. Heterologous expression of the QpmH gene confirmed its role in Quizalofop-p-ethyl degradation. Molecular docking studies and structural modeling further elucidated the enzymatic mechanisms, supported by the analysis of their degradation products. Additionally, when QpmH gene was introduced into rice plants through Agrobacterium-mediated transformation, the resultant transformant conferred resistance to Quizalofop-p-ethyl at the recommended application dose. These findings highlight Priestia megaterium strain MJ-8 as a promising biological agent for sustainable herbicide management and position the QpmH gene as a potential new target for developing herbicide-resistant crops.

Beyond agriculture: Land use thresholds governing pesticide mixture risks in megacity surface waters

Growing concerns have emerged regarding the risks of pesticide mixtures in surface water ecosystems, yet the mechanisms through which human activities, especially land use patterns, affect these risks remain inadequately studied. This research presents an innovative approach, combining multi-scale land use analysis with pesticide risk assessment, quantifying relationships between mixed pesticide ecological risks and land use patterns. Findings indicate that the impacts of urban land use on pesticide ecological risks surpass the traditionally recognized agricultural effects, demonstrating significant spatial scale-dependent effects. Generalized additive model analysis reveals that 1-3 km and 2-3 km buffer zones represent the critical ranges where urban land use and cropland, respectively, have significant impacts on pesticide risks. Non-parametric change point analysis determined critical land use thresholds triggering significant ecological risk increases: 10-25 % for cropland and 10-30 % for urban areas. These discoveries provide crucial quantitative foundations for landscape planning and pesticide risk management. The results not only challenge traditional views of agricultural activities as primary pesticide sources but also provide new perspectives for pesticide pollution control and water quality management in large cities.

Unveiling the hydrolase Oph2876 mediated chlorpyrifos degradation mechanism in Pseudomonas nitroreducens and its potential for environmental bioremediation

Chlorpyrifos contamination is a currently on-going issue with significant environmental impacts. As such, rapid and effective techniques that remove chlorpyrifos from the environment are urgently required. Here, a strain of Pseudomonas nitroreducens W-7 exhibited exceptional degradation ability towards both chlorpyrifos and its major metabolite 3,5,6-trichloro-2-pyridinol (TCP). W-7 can effectively reduce the toxicity of chlorpyrifos and TCP towards a variety of sensitive organisms through its superior degradation capacity. W-7 demonstrated efficient soil bioremediation by removing over 50 % of chlorpyrifos (25 mg/kg) from both sterile and non-sterile soils within 5 days, with significantly reduced half-lives. Additionally, 16S rDNA high-throughput sequencing of the soil revealed that the introduction of W-7 had no significant impact on the soil microbial community. A pivotal hydrolase Oph2876 containing conserved motif (HxHxDH) and a bimetallic catalytic center was identified from W-7. Oph2876 was a heat- and alkali-resistant enzyme with low sequence similarity (< 44 %) with other reported organophosphorus hydrolases, with a better substrate affinity for hydrolysis of chlorpyrifos to TCP. The molecular docking and site-directed mutagenesis studies indicated that the amino acid residues Asp235, His214, and His282, which were associated with the conserved sequence "HxHxDH", were crucial for the activity of Oph2876. These findings contribute to a better understanding of the biodegradation mechanism of chlorpyrifos and present useful agents for the development of effective chlorpyrifos bioremediation strategies.

Enhanced remediation of acetochlor-contaminated soils using phosphate-modified biochar: Impacts on environmental fate, microbial communities, and plant health

Given that acetochlor (ACT) persists in soil for extended periods, disrupting microbial community structure and causing phytotoxicity to sensitive crops, this study investigated the potential of phosphate-modified biochar (PBC-800) to remediate ACT-contaminated soil. Incorporating 0.5 % PBC-800 into fluvo-aquic, red, and black soils increased their adsorption capacities by 80.4 mg g-1, 76.6 mg g-1, and 76.0 mg g-1, respectively. Even after six months of aging, the Kf values remained 1.6 to 5.1 times higher than in untreated soils. PBC-800 also accelerated ACT degradation across all three soil types, reducing residual ACT levels by 34.3 % to 76.4 % after 60 days, and shortening the degradation half-life by 5 to 7 days. High-throughput sequencing revealed that ACT reduced soil microbial diversity and disrupted community structure, while 0.5 % PBC-800 amendments promoted the growth of degradation-capable genera such as Rhodococcus, Lysobacter, and Gemmatimonas, enhancing microbial ecosystem stability. Furthermore, the amendment of soil with 0.5 % PBC-800 reduced ACT residue concentrations in maize and soybeans by 76.5 % to 82.9 %, and restored plant biomass, leaf chlorophyll content, and mesophyll cell ultrastructure to levels comparable to the control. Therefore, amending ACT-contaminated soil with PBC-800 mitigates ecological and environmental risks, boosts microbial activity, and safeguards plant health.

Niche-specification of aerobic 2,4-dichlorophenoxyacetic acid biodegradation by tfd-carrying bacteria in the rice paddy ecosystem

This study aimed for a better understanding of the niche specification of bacteria carrying the tfd-genes for aerobic 2,4-dichlorphenoxyacetic acid (2,4-D) degradation in the rice paddy ecosystem. To achieve this, a dedicated microcosm experiment was set up to mimic the rice paddy system, with and without 2,4-D addition, allowing spatial sampling of the different rice paddy compartments and niches, i.e., the main anaerobic bulk soil and the aerobic surface water, surface soil, root surface and rhizosphere compartments. No effect of 2,4-D on the growth and morphology of the rice plant was noted. 2,4-D removal was faster in the upper soil layers compared to the deeper layers and was more rapid after the second 2,4-D addition compared to the first. Moreover, higher relative abundances of the 2,4-D catabolic gene tfdA and of the mobile genetic elements IncP-1 and IS1071 reported to carry the tfd-genes, were observed in surface water and surface soil when 2,4-D was added. tfdA was also detected in the root surface and rhizosphere compartment but without response to 2,4-D addition. While analysis of the bacterial community composition using high-throughput 16S rRNA gene amplicon sequencing did not reveal expected tfd-carrying taxa, subtle community changes linked with 2,4-D treatment and the presence of the plant were observed. These findings suggest (i) that the surface soil and surface water are the primary and most favorable compartements/niches for tfd-mediated aerobic 2,4-D biodegradation and (ii) that the community structure in the 2,4-D treated rice paddy ecosystem is determined by a niche-dependent complex interplay between the effects of the plant and of 2,4-D.

Microbial degradation of plant toxins

Plants produce a variety of secondary metabolites in response to biotic and abiotic stresses. Although they have many functions, a subclass of toxic secondary metabolites mainly serve plants as deterring agents against herbivores, insects, or pathogens. Microorganisms present in divergent ecological niches, such as soil, water, or insect and rumen gut systems have been found capable of detoxifying these metabolites. As a result of detoxification, microbes gain growth nutrients and benefit their herbivory host via detoxifying symbiosis. Here, we review current knowledge on microbial degradation of toxic alkaloids, glucosinolates, terpenes, and polyphenols with an emphasis on the genes and enzymes involved in breakdown pathways. We highlight that the insect-associated microbes might find application in biotechnology and become targets for an alternative microbial pest control strategy.

Degradation strategies of pesticide residue: From chemicals to synthetic biology

The past 50 years have witnessed a massive expansion in the demand and application of pesticides. However, pesticides are difficult to be completely degraded without intervention hence the pesticide residue could pose a persistent threat to non-target organisms in many aspects. To aim at the problem of the abuse of pesticide products and excessive pesticide residues in the environment, chemical and biological degradation methods are widely developed but are scaled and insufficient to solve such a pollution. In recent years, bio-degradative tools instructed by synthetic biological principles have been further studied and have paved a way for pesticide degradation. Combining the customized design strategy and standardized assembly mode, the engineering bacteria for multi-dimensional degradation has become an effective tool for pesticide residue degradation. This review introduces the mechanisms and hazards of different pesticides, summarizes the methods applied in the degradation of pesticide residues, and discusses the advantages, applications, and prospects of synthetic biology in degrading pesticide residues.