Exploring the potential of novel biomixtures and Lentinula edodes fungus for the degradation of selected pesticides. Evaluation for use in biobed systems

Metagenomic and metatranscriptomic analysis reveals enrichment for xenobiotic-degrading bacterial specialists and xenobiotic-degrading genes in a Canadian Prairie two-cell biobed system

Biobeds are agriculture-based bioremediation tools used to safely contain and microbially degrade on-farm pesticide waste and rinsate, thereby reducing the negative environmental impacts associated with pesticide use. While these engineered ecosystems demonstrate efficient pesticide removal, the microbiomes in these environments remain largely understudied both taxonomically and functionally. This study used metagenomic and metatranscriptomic techniques to characterize the microbial community in a two-cell Canadian biobed system before and after a field season of pesticide application. These culture-independent approaches identified an enrichment of xenobiotic-degrading bacteria, such as Afipia, Sphingopyxis and Pseudomonas, and enrichment and transcription of xenobiotic-degrading genes, such as peroxidases, oxygenases, and hydroxylases, among others; we were able to directly link the transcription of these genes to Pseudomonas, Oligotropha, Mesorhizobium, Rhodopseudomonas, and Stenotrophomonas taxa.

Potential use of fungal-bacterial co-cultures for the removal of organic pollutants

Fungi and bacteria coexist in a wide variety of natural and artificial environments which can lead to their association and interaction - ranging from antagonism to cooperation - that can affect the survival, colonization, spatial distribution and stress resistance of the interacting partners. The use of polymicrobial cultivation approaches has facilitated a more thorough understanding of microbial dynamics in mixed microbial communities, such as those composed of fungi and bacteria, and their influence on ecosystem functions. Mixed (multi-domain) microbial communities exhibit unique associations and interactions that could result in more efficient systems for the degradation and removal of organic pollutants. Several previous studies have reported enhanced biodegradation of certain pollutants when using combined fungal-bacterial treatments compared to pure cultures or communities of either fungi or bacteria (single domain systems). This article reviews: (i) the mechanisms of pollutant degradation that can occur in fungal-bacterial systems (e.g.: co-degradation, production of secondary metabolites, enhancement of degradative enzyme production, and transport of bacteria by fungal mycelia); (ii) case studies using fungal-bacterial co-cultures for the removal of various organic pollutants (synthetic dyes, polycyclic aromatic hydrocarbons, pesticides, and other trace or volatile organic compounds) in different environmental matrices (e.g. water, gas/vapors, soil); (iii) the key aspects of engineering artificial fungal-bacterial co-cultures, and (iv) the current challenges and future perspectives of using fungal-bacterial co-cultures for environmental remediation.

Indigenous biobed to limit point source pollution of imidacloprid in tropical countries

Point pollution of pesticides originating from the washing of spraying machines could be controlled by biobed system and it is in use in temperate countries. The biobed system is yet to be established in tropical countries. An indigenous biobed system was prepared using local resources like rice straw, farm yard manures (FYM) and paddy field soil to suit the tropical climate. Lowermost 3 cm layer of the biobed system was filled with rice husk biochar to prevent leaching of pesticides from the system. This model system was tested with high doses of imidacloprid (178 mg/column), a commonly used pesticide against number of insect-pests in different crops, for its degradation. The bio-mix trapped a major part of the imidacloprid on the top most layer of the biobed column and only a very small part of imidacloprid recovered from the leachate. The biobed system could degrade 70.13% of applied imidacloprid within 15 days of the experiment and only 5.27% of the total pesticide recovered 90 days after incubation. Addition of biochar layer adsorbed imidacloprid from the outgoing leachate from the biobed column. Biomixture boosted microbial activity more particularly fungal population, which might be responsible for imidacloprid degradation. Microbial biomass carbon, and soil enzymes indicated faster dissipation of imidacloprid from the top layer of the biobed. This simple but efficient biobed system using local resources can fulfill the need of the small and marginal farmers of Asian countries for pesticide decontamination.

Pesticide bioremediation in liquid media using a microbial consortium and bacteria-pure strains isolated from a biomixture used in agricultural areas

Microorganisms' role in pesticide degradation has been studied widely. Insitu treatments of effluents containing pesticides such as biological beds (biobeds) are efficient biological systems where biomixture (mixture of substrates) and microorganisms are the keys in pesticide treatment; however, microbial activity has been studied poorly, and its potential beyond biobeds has not been widely explored. In this study, the capacity of microbial consortium and bacteria-pure strains isolated from a biomixture (soil-straw; 1:1, v/v) used to treat agricultural effluents under real conditions were evaluated during a bioremediation process of five pesticides commonly used Yucatan Mexico. Atrazine, carbofuran, and glyphosate had the highest degradations (>90%) using the microbial consortium; 2,4-D and diazinon were the most persistent (DT50 = 8.64 and 6.63 days). From the 21 identified bacteria species in the microbial consortium, Pseudomonas nitroreducens was the most abundant (52%) according to identified sequences. For the pure strains evaluation 2,4-D (DT50 = 9.87 days), carbofuran (DT50 = 8.27 days), diazinon (DT50 = 8.80 days) and glyphosate (DT50 = 8.59 days) were less persistent in the presence of the mixed consortium (Ochrobactrum sp. DGG-1-3, Ochrobactrum sp. Ge-14, Ochrobactrum sp. B18 and Pseudomonas citronellolis strain ADA-23B). Time, pesticide, and strain type were significant (P < 0.05) in pesticide degradation, so this process is multifactorial. Microbial consortium and pure strains can be used to increase the biobed efficiency by inoculation, even in the remediation of soil contaminated by pesticides in agricultural areas.

Toxicity, Biodegradation, and Metabolic Fate of Organophosphorus Pesticide Trichlorfon on the Freshwater Algae Chlamydomonas reinhardtii

This study investigated the toxicity of trichlorfon (TCF) to the freshwater algae Chlamydomonas reinhardtii, as well as its biodegradation and metabolic fate. The growth of C. reinhardtii decreased with increasing TCF concentration, and the maximum inhibition ratio was 51.3% at 200 mg L^-1 TCF compared to the control. Analyses of pigment content, chlorophyll fluorescence, and antioxidant enzymes indicated that C. reinhardtii can produce resistance and acclimatize to the presence of TCF. The variations in pH during cultivation suggested that photosynthetic microalgae have innate advantages over bacteria and fungi in remediating TCF. A 100% biodegradation rate was achieved at a maximum concentration of 100 mg L^-1 TCF. Ten metabolites were identified by GC-MS, and the degradation pathways of TCF by the algae were proposed. This research demonstrated that C. reinhardtii is highly tolerant to and can efficiently degrade TCF. Thus, C. reinhardtii can be used to remove traces of TCF from natural water environments and to treat TCF-contaminated wastewater.

Role of aquifer media in determining the fate of polycyclic aromatic hydrocarbons in the natural water and sediments along the lower Ganges river basin

Groundwater-sourced drinking water quality in South Asia, specifically India, is extremely stressed, mostly from the presence of many pervasive and geogenic pollutants. The presence and behavior of anthropogenic pollutants like polycyclic aromatic hydrocarbons (PAHs) are poorly investigated on a regional or basin-wide scale. The present study provides one of the first documentation of the presence and behavior of PAH in the aquifer sediments in the Ganges river basin. Lower and medium molecular weight PAHs, e.g., naphthalene, phenanthrene, and fluoranthene were detected in 79, 36, and 13% of samples (n = 25). The PAH level in groundwater was approximately five times lower than river water. The sorption behavior of PAHs were studied in experiments in presence/absence of organic carbon and by simulating advective transport of low to medium molecular weight PAHs, e.g., naphthalene, phenanthrene, and fluoranthene in aquifer sediments collected from agricultural, peri-urban, and urban areas. Naphthalene and phenanthrene adsorbed on quartz and kaolinite, but not on clay minerals like kaolinite. Fluoranthene adsorbed more favorably on kaolinite. Numerical modeling of the advective transport of PAHs in aquifers suggest up to 25 times faster movement of pollutants from irrigation-induced pumping, indicating the strong control of hydraulics on the spatial distribution of PAHs in subsurface.

Identification of a Novel Nitroreductase LNR and Its Role in Pendimethalin Catabolism in Bacillus subtilis Y3

Microbial degradation plays a major role in the dissipation of pendimethalin, and nitroreduction is an initial and detoxicating step. Previously, a pendimethalin nitroreductase, PNR, was identified in Bacillus subtilis Y3. Here, another pendimethalin nitroreductase from strain Y3, LNR, was identified. LNR shares only 40% identity with PNR and reduces the aromatic ring C-6 nitro group of pendimethalin and both nitro groups of trifluralin, butralin, and oryzalin. The catalytic activities against the four dinitroanilines were much higher for LNR than for PNR. lnr deletion significantly reduced the pendimethalin-reduction activity (60% activity loss), while pnr deletion led to only 30% activity loss, indicating that both LNR and PNR were involved in pendimethalin nitroreduction in strain Y3; however, LNR played the major role. This study facilitates the elucidation of pendimethalin catabolism and provides degrading enzyme resources for the removal of dinitroaniline herbicide residues in environment and agricultural products.

Removal of triazines, triazoles and organophophates in biomixtures and application of a biopurification system for the treatment of laboratory wastewaters

Biopurification systems (BPS) have been barely explored for removing complex mixtures of pesticides. In this study, the potential of a biomixture to remove simultaneously a mixture of herbicides (triazines), fungicides (triazoles) and insecticides (organophosphates) is presented. Also, a BPS using the same biomixture was used for treating a pesticide testing laboratory wastewater containing a mixture of 38 compounds. Ecotoxicological assays were conducted on the BPS elutriates to investigate the mixture detoxification. A mixture (concentrations of 4-8 mg kg^-1) run in small-scale biomixture systems (SSB) for 128 d showed 59.3% removal of triazines, 68.5% of organophosphates and no elimination of triazoles. The treatment of the laboratory wastewater (individual concentrations range: 0.0036-0.25 mg kg^-1) in the pilot-scale BPS for 281 d resulted in the elimination pattern of organophosphates (90.0%) > triazoles (73.4%) > carbamates (71.3%) > triazines (54.3%). Complete detoxification towards Daphnia magna and partial detoxification in Lactuca sativa seeds germination occurred in the BPS. Although the pesticide mixture complexity is higher in the BPS, the lower concentrations found in this matrix, could explain removal differences between SSB and BPS and the apparent inhibition in the elimination of carbamates and some triazines observed in the latter. These findings suggest that disposal of pesticide-containing laboratory-wastewater should be done in separate containers, according to chemical groups before their treatment in separate BPS, in order to reduce treatment periods. Monitoring the treatment process in the BPS with a battery of ecotoxicological tests is strongly recommended.

Degradation of pendimethalin by the yeast YC2 and determination of its two main metabolites

In this study, we isolated a yeast strain, YC2, by enrichment culture from pendimethalin-contaminated soil. The analysis of its phenotypic features and 26S rRNA sequence confirmed that the strain YC2 is Clavispora lusitaniae. According to the kinetics of pendimethalin degradation, YC2 could degrade 74% of 200 mg L⁻¹ pendimethalin in CMB liquid culture over 8 days. LC-MS/MS was used to identify the metabolites of pendimethalin after degradation. This study confirmed that its metabolites consist of 1,2-dimethyl-3,5-dinitro-4-N(buta-1,3-dien-2-yl)-dinitrobenzenamine-N-oxide and 1,2-dimethyl-3,5-dinitro-4-N(prop-1-en-2-yl)-dinitrobenzenamine-N-oxide, which were broken down by a series of enzymatic reactions to produce CO₂ and H₂O. Thus, the study herein sheds light on the role of yeast in the degradation of pendimethalin.

In this study, we isolated a yeast strain, YC2, by enrichment culture from pendimethalin-contaminated soil.

Organophosphorus pesticide mixture removal from environmental matrices by a soil Streptomyces mixed culture

The current study aimed to evaluate the removal of a pesticide mixture composed of the insecticides chlorpyrifos (CP) and diazinon (DZ) from liquid medium, soil and a biobed biomixture by a Streptomyces mixed culture. Liquid medium contaminated with 100 mg L^-1 CP plus DZ was inoculated with the Streptomyces mixed culture. Results indicated that microorganisms increased their biomass and that the inoculum was viable. The inoculum was able to remove the pesticide mixture with a removal rate of 0.036 and 0.015 h^-1 and a half-life of 19 and 46 h^-1 for CP and DZ, respectively. The sterilized soil and biobed biomixture inoculated with the mixed culture showed that Streptomyces was able to colonize the substrates, exhibiting an increase in population determined by quantitative polymerase chain reaction (q-PCR), enzymatic activity dehydrogenase (DHA) and acid phosphatase (APP). In both the soil and biomixture, limited CP removal was observed (6-14%), while DZ exhibited a removal rate of 0.024 and 0.060 day^-1 and a half-life of 29 and 11 days, respectively. Removal of the organophosphorus pesticide (OP) mixture composed of CP and DZ from different environmental matrices by Streptomyces spp. is reported here for the first time. The decontamination strategy using a Streptomyces mixed culture could represent a promising alternative to eliminate CP and DZ residues from liquids as well as to eliminate DZ from soil and biobed biomixtures.

Identification of microbial species present in a pesticide dissipation process in biobed systems using typical substrates from southeastern Mexico as a biomixture at a laboratory scale

Biobed systems are an important option to control point pollution in agricultural areas. Substrates used and microbial diversity present in a biomixture perform an essential function in pesticide dissipation. In this study, the effects of soil (50% of volume/volume [V/V] proportion for all biomixtures) and four soil-based biomixtures (miniaturized biobeds; addition of novel substrates from southeastern Mexico) on dissipation of high concentrations of 2,4-dichlorophenoxyacetic acid (2,4-D), atrazine, carbofuran, diazinon, and glyphosate and on microbial diversity in biomixtures were evaluated. Small residual amounts of all pesticides at 20 (<2%) and 41 (<1%) days were observed; however, the lowest efficiency rates were observed in soil. Glyphosate was the only pesticide that completely dissipated in soil and biomixtures. Archaea, bacteria, and fungi were identified in biobeds, with bacteria being the most diverse microorganisms according to the identified species. The presence of white-rot fungi (normally related to pesticide degradation in biomixtures) was observed. Effects of the pesticide type and of biomixtures on pesticide dissipation were significant (P<0.05); however, only the effect of biomixtures on microbial diversity was significant (P<0.05); microbial diversity and richness had a significant effect on the residual amount of pesticides (P<0.05). Microbial diversity in terms of phyla was directly related to physicochemical parameters such as organic matter, lignin, water-holding capacity, and pH of soil and biomixtures.

Terbuthylazine and desethylterbuthylazine: Recent occurrence, mobility and removal techniques

The herbicide terbuthylazine (TBA) has displaced atrazine in most of EU countries, becoming one of the most regularly used pesticides and, therefore, frequently detected in natural waters. The affinity of TBA for soil organic matter suggests prolonged contamination; degradation leads to the release of the metabolite desethylterbuthylazine (DET), which has higher water solubility and binds more weakly to organic matter compared to the parent compound, resulting in higher associated risk for contamination of groundwater resources. Additionally, TBA and DET are chemicals of emerging concern because of their persistence and toxicity towards aquatic organisms; moreover, they are known to have significant endocrine disruption capacity to wildlife and humans. Conventional treatments applied during drinking water production do not lead to the complete removal of these chemicals; activated carbon provides the greatest efficiency, whereas ozonation can generate by-products with comparable oestrogenic activity to atrazine. Hydrogen peroxide alone is ineffective to degrade TBA, while UV/H₂O₂ advanced oxidation and photocatalysis are the most effective processes for oxidation of TBA. It has been determined that direct photolysis gives the highest degradation efficiency of all UV/H₂O₂ treatments, while most of the photocatalytic degradation is attributed to OH radicals, and TiO₂ solar-photocatalytic ozonation can lead to almost complete TBA removal in ∼30 min. Constructed wetlands provide a valuable buffer capacity, protecting downstream surface waters from contaminated runoff. TBA and DET occurrence are summarized and removal techniques are critically evaluated and compared, to provide the reader with a comprehensive guide to state-of-the-art TBA removal and potential future treatments.

Pesticide dissipation and microbial community changes in a biopurification system: influence of the rhizosphere

The dissipation of atrazine, chlorpyrifos and iprodione in a biopurification system and changes in the microbial and some biological parameters influenced by the rhizosphere of Lolium perenne were studied in a column system packed with an organic biomixture. Three column depths were analyzed for residual pesticides, peroxidase, fluorescein diacetate activity and microbial communities. Fungal colonization was analyzed by confocal laser scanning microscopy to assess the extent of its proliferation in wheat straw. The L. perenne rhizosphere enhanced pesticide dissipation and negligible pesticide residues were detected at 20-30 cm column depth. Atrazine, chlorpyrifos and iprodione removal was 82, 89 and 74% respectively in the first 10 cm depth for columns with vegetal cover. The presence of L. perenne in contaminated columns stimulated peroxidase activity in all three column depth sections. Fluorescein diacetate activity decreased over time in all column sections with the highest values in biomixtures with vegetal cover. Microbial communities, analyzed by PCR-DGGE, were not affected by the pesticide mixture application, presenting high values of similarity (>65%) with and without vegetal cover. Microbial abundance of Actinobacteria varied according to treatment and no clear link was observed. However, bacterial abundance increased over time and was similar with and without vegetal cover. On the other hand, fungal abundance decreased in all sections of columns after 40 days, but an increase was observed in response to pesticide application. Fungal colonization and straw degradation during pesticide dissipation were verified by monitoring the lignin autofluorescence loss.

Study of processes influencing bioavailability of pesticides in wood-soil systems: Effect of different factors

Lignocellulosic wastes and by-products containing lignin are now available in large amounts from forestry and industrial activities, and could be promising organic materials for the biosorption of pesticides by soils in order to reduce point-source pollution. Adding these materials to soil requires understanding the process of pesticide sorption-desorption by wood-soils, as sorption capacity could increase, with changes in pesticide bioavailability and final fate. The objective of this work was to study the effect that pine and oak wood added to soils had on the sorption/desorption of the pesticides linuron, alachlor, and metalaxyl. Experiments were conducted with two sandy loam and sandy clay soils each amended with two wood doses (5% and 50%) after different incubation times (0, 5 and 12 months). A low wood dose (5%) had no significant impact on the sorption (K_f) of alachlor, but K_f increased for linuron (up to 5.4-1.7 times) and metalaxyl (up to 4.4 and 8.6 times) in all wood-soil systems. The results were not significantly different after different incubation times. The desorption results indicated that wood decreases the sorption irreversibility of alachlor, and increases that of linuron and metalaxyl, with a varying effect of the wood-soil incubation time. The addition of a high wood dose to soil (50%) was more significant for increasing the sorption of all the pesticides, and the sorbed amounts remaining after desorption (>49% for linuron, >33% for alachlor and >6% for metalaxyl), although there was no apparent discrimination between the two types of woods. The role of the nature of the organic carbón (K_oc values) for sorption was evidenced for alachlor and metalaxyl, but not for linuron. These outcomes are of interest for extending wood application to soil as a barrier for avoiding environmental risk by point-source pollution due to the use and management of pesticides in farming systems.

Agricultural effluent treatment in biobed systems using novel substrates from southeastern Mexico: the relationship with physicochemical parameters of biomixtures

Misuse of pesticides in farming activities leads to contamination of drinking water sources and is responsible for animal and human health problems. The biobeds are practicable option to minimize contamination by pesticides during preparation, use and washing of equipment for pesticide treatments. This research aimed at testing substrate mixtures to optimize biobed efficiency to remove pesticides under the climate of the Yucatan (México). Agricultural soil and 11 mixtures adding vegetable compost, sisal pulp, corn stover and seaweed were tested under controlled conditions. Each biomixture was exposed to a mixture of five pesticides (2,4-diclorophenoxyacetic acid "2,4-D" [1.08 mg cm^-3], atrazine [2.50 mg cm^-3], carbofuran [0.23 mg cm^-3], diazinon [0.34 mg cm^-3], and glyphosate [0.36 mg cm^-3]) in a period of 41 days. Monitoring of the dissipation of pesticide residues showed that pesticides were quickly dissipated in soil at microcosm level experiment, while at two critical times of 20 and 41 days, all mixtures of substrates (biomixtures) were efficient in dissipation of high concentrations of pesticide in a short time (>99%). Time, biomixture and type of pesticide were shown to be the main parameters influencing pesticide dissipation (P < 0.05). Several other physicochemical parameters of the biomixtures, such as organic matter (OM), lignin, water holding capacity (WHC), and pH, were also significant on pesticide dissipation (P < 0.05), being pH the most significant.

Immobilization of the white-rot fungus Anthracophyllum discolor to degrade the herbicide atrazine

Herbicides cause environmental concerns because they are toxic and accumulate in the environment, food products and water supplies. There is a need to develop safe, efficient and economical methods to remove them from the environment, often by biodegradation. Atrazine is such herbicide. White-rot fungi have the ability to degrade herbicides of potential utility. This study formulated a novel pelletized support to immobilize the white-rot fungus Anthracophyllum discolor to improve its capability to degrade the atrazine using a biopurification system (BS). Different proportions of sawdust, starch, corn meal and flaxseed were used to generate three pelletized supports (F1, F2 and F3). In addition, immobilization with coated and uncoated pelletized supports (CPS and UPS, respectively) was assessed. UPS-F1 was determined as the most effective system as it provided high level of manganese peroxidase activity and fungal viability. The half-life (t_1/2) of atrazine decreased from 14 to 6 days for the control and inoculated samples respectively. Inoculation with immobilized A. discolor produced an increase in the fungal taxa assessed by DGGE and on phenoloxidase activity determined. The treatment improves atrazine degradation and reduces migration to surface and groundwater.

Assessing the effectiveness of a three-stage on-farm biobed in treating pesticide contaminated wastewater

Agricultural point source pesticide pollution arising from contaminated machinery washings and accidental spillages pose a significant threat to river water and groundwater quality. In this study, we assess the effectiveness of a three-stage on-farm biobed for treating pesticide contaminated wastewater from a large (20 km(2)) commercial arable estate. The facility consisted of an enclosed machinery wash-down unit (stage 1), a 49 m(2) lined compost-straw-topsoil biobed (stage 2), and a 200 m(2) drainage field with a trickle irrigation system (stage 3). Pesticide concentrations were analysed in water samples collected fortnightly between November 2013 and November 2015 from the biobed input and output sumps and from 20 porous pots buried at 45 cm and 90 cm depth within the drainage field. The results revealed that the biobed removed 68-98% of individual pesticides within the contaminated washings, with mean total pesticide concentrations reducing by 91.6% between the biobed input and output sumps. Drainage field irrigation removed a further 68-99% of individual pesticides, with total mean pesticide concentrations reducing by 98.4% and 97.2% in the 45 cm and 90 cm depth porous pots, respectively. The average total pesticide concentration at 45 cm depth in the drainage field (57 μg L(-1)) was 760 times lower than the mean concentration recorded in the input sump (43,334 μg L(-1)). There was no evidence of seasonality in the efficiency of biobed pesticide removal, nor was there evidence of a decline in removal efficiency over the two-year monitoring period. However, higher mean total pesticide concentrations at 90 cm (102 μg L(-1)) relative to 45 cm (57 μg L(-1)) depth indicated an accumulation of pesticide residues deeper within the soil profile. Overall, the results presented here demonstrate that a three-stage biobed can successfully reduce pesticide pollution risk from contaminated machinery washings on a commercial farm.