The earthworm Aporrectodea caliginosa stimulates abundance and activity of phenoxyalkanoic acid herbicide degraders

Interkingdom interaction: the soil isopod Porcellio scaber stimulates the methane-driven bacterial and fungal interaction

Porcellio scaber (woodlice) are (sub-)surface-dwelling isopods, widely recognized as "soil bioengineers", modifying the edaphic properties of their habitat, and affecting carbon and nitrogen mineralization that leads to greenhouse gas emissions. Yet, the impact of soil isopods on methane-cycling processes remains unknown. Using P. scaber as a model macroinvertebrate in a microcosm study, we determined how the isopod influences methane uptake and the associated interaction network in an agricultural soil. Stable isotope probing (SIP) with 13C-methane was combined to a co-occurrence network analysis to directly link activity to the methane-oxidizing community (bacteria and fungus) involved in the trophic interaction. Compared to microcosms without the isopod, P. scaber significantly induced methane uptake, associated to a more complex bacteria-bacteria and bacteria-fungi interaction, and modified the soil nutritional status. Interestingly, 13C was transferred via the methanotrophs into the fungi, concomitant to significantly higher fungal abundance in the P. scaber-impacted soil, indicating that the fungal community utilized methane-derived substrates in the food web along with bacteria. Taken together, results showed the relevance of P. scaber in modulating methanotrophic activity with implications for bacteria-fungus interaction.

Earthworms enhance the bioremediation of tris(2-butoxyethyl) phosphate-contaminated soil by releasing degrading microbes

The escalating awareness of the environmental risks posed by organophosphorus flame retardants (OPFRs), e.g., tris(2-butoxyethyl) phosphate (TBOEP), necessitates the development of effective approaches to mitigate their adverse ecological effects. However, research on the remediation of OPFR-contaminated soil remains limited. In this study, a strategy is proposed to enhance the microbial remediation of TBOEP-contaminated soil through the introduction of exotic earthworms (Eisenia fetida). The presence of earthworms led to a substantial increase in the 28-d removal rates of TBOEP at concentrations of 0.05, 0.5, and 5 mg/kg, with improvements of 32.3 ± 2.0%, 33.2 ± 1.3%, and 33.0 ± 5.6% compared to rates in the absence of earthworms, respectively. The underlying mechanisms for this enhancement include the earthworm-mediated enrichment of TBOEP-degrading bacteria, particularly Rhodococcus, Flavobacterium, and Pseudomonas, and the transfer of Rhodococcus from the earthworm gut to the soil, resulting in an increased relative abundance within the soil. Concurrently, the earthworms stimulated soil peroxidase activity, facilitating the oxidative degradation of TBOEP. Furthermore, the rise in dissolved organic matter content following earthworm treatment fostered the growth of degrading bacteria in the soil. Rhodococcus emerged as a dominant contributor to soil TBOEP removal, consuming humic-like compounds in dissolved organic matter. This investigation underscores the significance of gut microbes and offers valuable insights for the application of earthworm-based remediation strategies in OPFR-contaminated soil.

Predicting the bioremediation potential of earthworms of different ecotypes through a multi-biomarker approach

Earthworms are attracting the attention of bioremediation research because of their short-term impact on pollutant fate. However, earthworm-assisted bioremediation largely depends on the earthworm sensitivity to target pollutants and its metabolic capacity to break down contaminants. The most studied species in soil bioremediation has been Eisenia fetida, which inhabits the soil surface feeding on decomposing organic residues. Therefore, its bioremediation potential may be limited to organic matter-rich topsoil. We compared the detoxification potential against organophosphate (OP) pesticides of three earthworm species representative of the main ecotypes: epigeic, anecic, and endogeic. Selected biomarkers of pesticide detoxification (esterases, cytochrome P450-dependent monooxygenase, and glutathione S-transferase) and oxidative homeostasis (total antioxidant capacity, glutathione levels, and glutathione reductase [GR] and catalase activities) were measured in the muscle wall and gastrointestinal tract of E. fetida (epigeic), Lumbricus terrestris (anecic) and Aporrectodea caliginosa (endogeic). Our results show that L. terrestris was the most suitable species to bioremediate OP-contaminated soil for the following reasons: 1) Gut carboxylesterase (CbE) activity of L. terrestris was higher than that of E. fetida, whereas muscle CbE activity was more sensitivity to OP inhibition than that of E. fetida, which means a high capacity to inactivate the toxic oxon metabolites of OPs. 2) Muscle and gut phosphotriesterase activities were significantly higher in L. terrestris than in the other species. 3) Enzymatic (catalase and GR) and molecular mechanisms of free radical inactivation (glutathione) were 3- to 4-fold higher in L. terrestris concerning E. fetida and A. caliginosa, which reveals a higher potential to keep the cellular oxidative homeostasis against reactive metabolites formed during OP metabolism. Together with biological and ecological traits, these toxicological traits suggest L. terrestris a better candidate for soil bioremediation than epigeic earthworms.

Biodegradation of metoprolol in oxic and anoxic hyporheic zone sediments: unexpected effects on microbial communities

Abstract

Metoprolol is widely used as a beta-blocker and considered an emerging contaminant of environmental concern due to pseudo persistence in wastewater effluents that poses a potential ecotoxicological threat to aquatic ecosystems. Microbial removal of metoprolol in the redox-delineated hyporheic zone (HZ) was investigated using streambed sediments supplemented with 15 or 150 μM metoprolol in a laboratory microcosm incubation under oxic and anoxic conditions. Metoprolol disappeared from the aqueous phase under oxic and anoxic conditions within 65 and 72 days, respectively. Metoprolol was refed twice after initial depletion resulting in accelerated disappearance under both conditions. Metoprolol disappearance was marginal in sterile control microcosms with autoclaved sediment. Metoprolol was transformed mainly to metoprolol acid in oxic microcosms, while metoprolol acid and α-hydroxymetoprolol were formed in anoxic microcosms. Transformation products were transient and disappeared within 30 days under both conditions. Effects of metoprolol on the HZ bacterial community were evaluated using DNA- and RNA-based time-resolved amplicon Illumina MiSeq sequencing targeting the 16S rRNA gene and 16S rRNA, respectively, and were prominent on 16S rRNA rather than 16S rRNA gene level suggesting moderate metoprolol-induced activity-level changes. A positive impact of metoprolol on Sphingomonadaceae and Enterobacteriaceae under oxic and anoxic conditions, respectively, was observed. Nitrifiers were impaired by metoprolol under oxic and anoxic conditions. Collectively, our findings revealed high metoprolol biodegradation potentials in the hyporheic zone under contrasting redox conditions associated with changes in the active microbial communities, thus contributing to the attenuation of micropollutants.

Key points

• High biotic oxic and anoxic metoprolol degradation potentials in the hyporheic zone.

• Key metoprolol-associated taxa included Sphingomonadaceae, Enterobacteraceae, and Promicromonosporaceae.

• Negative impact of metoprolol on nitrifiers.

Supplementary Information

The online version contains supplementary material available at 10.1007/s00253-021-11466-w.

The relationship between the oxidative stress reaction and the microbial community by a combinative method of PA and CCA

Earthworms, as the first choice for soil monitoring and bio-remediation of cadmium (Cd)-contaminated soil, need to identify its mechanism under Cd stress. In this study, an artificial soil test method was used to determine the oxidative stress reaction indices, amino acid composition, and microbial community changes in earthworms under different stress durations and concentrations. For the first time, the canonical correlation analysis model and path analysis model were innovatively introduced into the data analysis to determine the mechanism that drives earthworm physiological functions after Cd stress. The results showed that in the low-stress concentration treatments (50-125 mg.kg^-1 DW), there was a driving relationship between oxidative stress reaction and microbial community in earthworm, and the driving factor was glycyl-L-glutamic acid at 50 mg.kg^-1 DW. With the increase of Cd stress intensity, the enzymes of oxidative stress promoted the survival microbes to begin to proliferate, and SOD became the main driving factor under 125 mg.kg^-1 DW Cd stress. In the high-stress concentration treatments (250-500 mg.kg^-1 DW), the driving effects were weakened or disappeared; while Cd-resistant microbial population appeared. This study provides a theoretical basis for the driving mechanism between oxidative stress effect and microbial community after Cd stress.

The dual beneficial effects of vermiremediation: Reducing soil bioavailability of cadmium (Cd) and improving soil fertility by earthworm (Eisenia fetida) modified by seasonality

This study aimed to assess earthworm's capability of reducing the bioavailability of cadmium (Cd) in soil and increasing soil fertility with the modification of seasonal variations of ambient temperatures on the efficacy of vermiremediation. Earthworms were exposed in soil fortified with 0, 5, 10, and 20 mg Cd kg^-1, for 7, 14 and 21 days in winter and spring. The bioavailability of Cd in soil, which is represented in the form of diethylenetriaminepentaacetic acid-extractable fraction (DTPA-Cd), were significantly reduced, ranging from 7.9 to 18.3% in winter and 8.8 to 20.8% in spring. Meanwhile, we found earthworm activities could significantly improve the soil fertility as the results of increasing the availability of nitrogen, phosphorous, and potassium in soil, a prominent advantage of vermiremediation in heavy metal-contaminated soil. Although seasonality could increase Cd toxicity in earthworms, higher ambient temperature in spring season also promoted the reduction of Cd bioavailability and the increase of soil fertility, due to significant increase of microbial populations. In conclusion, we reported the dual beneficial effects of vermiremediation in reducing bioavailability of Cd in soil and simultaneously improving soil fertility in which both outcomes were modified by seasonality.

Efficient Degradation of Phenoxyalkanoic Acid Herbicides by the Alkali-Tolerant Cupriavidus oxalaticus Strain X32

Phenoxyalkanoic acid (PAA) herbicides are mainly metabolized by microorganisms in soils, but the degraders that perform well under alkaline environments are rarely considered. Herein, we report Cupriavidus oxalaticus strain X32, which showed encouraging PAA-degradation abilities, PAA tolerance, and alkali tolerance. In liquid media, without the addition of exogenous carbon sources, X32 could completely remove 500 mg/L 2,4-dichlorophenoxyacetic acid (2,4-D) or 4-chloro-2-methylphenoxyacetic acid within 3 days, faster than that with the model degrader Cupriavidus necator JMP134. Particularly, X32 still functioned at pH 10.5. Of note, with X32 inoculation, we observed 2,4-D degradation in soils and diminished phytotoxicity to maize (Zea mays). Furthermore, potential mechanisms underlying PAA biodegradation and alkali tolerance were then analyzed by whole-genome sequencing. Three modules of tfd gene clusters involved in 2,4-D catabolism and genes encoding monovalent cation/proton antiporters involved in alkali tolerance were putatively identified. Thus, X32 could be a promising candidate for the bioremediation of PAA-contaminated sites, especially in alkaline surroundings.

Response of soil bacterial and fungal community structure succession to earthworm addition for bioremediation of metolachlor

Synergistic biodegradation of earthworms and soil microorganisms plays a key role in the removal of organic pollutants in soil, yet microbially mediated processes remain unclear, especially regarding the succession of soil microbial interactions. Herein, soil biochemical evaluation, microbial community characterization, and interaction network construction were combined to understand the mechanisms dominating microbial community succession during synergistic bioremediation of metolachlor-polluted soils. The results of the network analysis indicated that metolachlor could render more complex relations but weaker connection strength among soil microorganisms. The addition of earthworms significantly alleviated the stress of metolachlor on soil microbial interactions and resulted in the restoration of interactions to a great extent. Additionally, the soil physicochemical properties, enzyme activities, and microbial community changed greatly with the addition of metolachlor and earthworms. Some soil microorganisms became significantly correlated with soil properties, metolachlor concentrations, and enzyme activities. These results, dominated by the succession of soil microbial communities, provide a new perspective for assessing the remediation effect of contaminated soil by organic pollutants.

Study on the microbial community in earthworm and soil under cadmium stress based on contour line analysis

Cadmium (Cd) contamination in soil has become the focus of widespread concern in society today. In this paper, with Eisenia fetida as research subjects, an indoor simulation experiment was conducted. A BIOLOG microplate technique was used to determine the carbon source (single-carbon) utilization of the microbial communities in the contaminated soil and earthworms under Cd stress. Contour line analysis was used for the first time to study the difference of carbon source metabolism in microbial communities. And the effects of Cd stress on the functional diversity of the microbial communities and the detoxification mechanism in earthworms were researched. With two test groups, a short-term test and the long-term test were performed. The former test lasted for 10 days, with the removal of an earthworm every day for analysis; the latter test lasted for 30 days, with the removal of an earthworm every 10 days. The Cd²⁺ concentration was set at 0, 50, 100, 125, 250, or 500 mg kg^-1 dry weight, and 10 earthworms were inoculated in each concentration treatment. The earthworm homogenate and soil extracts were used to determine the carbon source utilization of the microbial communities. The results show that Cd stress changed the functional diversity of the microbial communities in the soil and earthworms. With the extension of stress time and the increase of stress concentration, earthworms will adjust their own physiological functions (including the microbial community structure and stress mechanism in the body) and regulate the microbial community structure in the external environment to obtain the necessary substances for growth. In addition, 2-hydroxybenzoic acid, γ-hydroxybutyric acid, glutamyl-L-glutamic acid, α-butyric acid, threonine, and α-cyclodextrin were important carbon sources for the earthworms to maintain their normal physiological metabolism under Cd stress. This study confirms that changes in microbial communities can be used to reveal the detoxification mechanisms of earthworm under heavy metal stress.

Stimulation of earthworms (Eisenia fetida) on soil microbial communities to promote metolachlor degradation

Degradation of metolachlor in surface soil is extremely important to its potential mobility and overall persistence. In this study, the effects of earthworms (Eisenia fetida) on the degradation of metolachlor at two concentration levels (5 and 20 mg kg^-1) in soil were investigated via the column experiment. The degradation kinetics of metolachlor indicate that addition of earthworms enhances metolachlor degradation significantly (P < 0.05), with the enhanced degradation rate of 30% and 63% in the low and high concentration treatments at the 15th day, respectively. Fungi rather than bacteria are primarily responsible for metolachlor degradation in soil, and earthworms stimulate metolachlor degradation mainly by stimulating the metolachlor-degrading functional microorganisms and improving fungal community structure. Earthworms prefer to promote the possible fungal degraders like order Sordariales, Microascales, Hypocreales and Mortierellales and the possible bacteria genus Rubritalea and strengthen the relationships between these primary fungi. Two metabolites metolachlor oxanilic (MOXA) and moetolachlor ethanesulfonic acid (MESA) are detected in soil and earthworms in the high concentration treatments. Earthworms stimulate the formation of MOXA and yet inhibit the formation of MESA in soil. Another metabolite metolachlor-2-hydroxy (M2H) is also detected in earthworms, which is reported firstly. The study provides an important information for the remediation of metolachlor-polluted soil.

Removal of persistent DDT residues from soils by earthworms: A mechanistic study

Earthworms have been reported to enhance DDT (1,1,1-trichloro-2,2-bis(4-chlorophenyl)ethane) removal from soils, but the mechanism underlying is still poorly understood. This study therefore worked on the links between DDT transformation in drilosphere and non-drilosphere matrices and the properties of these matrices in sterile and non-sterile soil columns with and without earthworms to reveal related mechanisms. The results show that earthworms shortened the half-time of DDT in soils from over 14 weeks to about 8 weeks; DDT residues were lower (p < 0.05) and its transformation products were higher (p < 0.05) in drilosphere matrixes than those in their non-drilosphere counterparts; DDD and DDMU was higher (p < 0.05) in the gut, and DDE was higher (p < 0.05) in the burrow; and the bioaccumulation of DDT in earthworm tissues only contributed less than 0.03% to the DDT removal enhanced by earthworms. The results further demonstrate that drilosphere is the hotspot of soil DDT transformation with oxidative degradation dominant in the burrow and reductive dechlorination in the gut, and earthworms enhanced DDT removal mainly by digesting and promoting the microbial degradation of DDT by indigenous microorganisms via improving soil properties. Knowledge of the mechanisms of DDT transformation by earthworms will support the use of earthworms in remediating DDT-contaminated soils.

Soil HONO emissions at high moisture content are driven by microbial nitrate reduction to nitrite: tackling the HONO puzzle

Nitrous acid (HONO) is a precursor of the hydroxyl radical (OH), a key oxidant in the degradation of most air pollutants. Field measurements indicate a large unknown source of HONO during the day time. Release of nitrous acid (HONO) from soil has been suggested as a major source of atmospheric HONO. We hypothesize that nitrite produced by biological nitrate reduction in oxygen-limited microzones in wet soils is a source of such HONO. Indeed, we found that various contrasting soil samples emitted HONO at high water-holding capacity (75-140%), demonstrating this to be a widespread phenomenon. Supplemental nitrate stimulated HONO emissions, whereas ethanol (70% v/v) treatment to minimize microbial activities reduced HONO emissions by 80%, suggesting that nitrate-dependent biotic processes are the sources of HONO. High-throughput Illumina sequencing of 16S rRNA as well as functional gene transcripts associated with nitrate and nitrite reduction indicated that HONO emissions from soil samples were associated with nitrate reduction activities of diverse Proteobacteria. Incubation of pure cultures of bacterial nitrate reducers and gene-expression analyses, as well as the analyses of mutant strains deficient in nitrite reductases, showed positive correlations of HONO emissions with the capability of microbes to reduce nitrate to nitrite. Thus, we suggest biological nitrate reduction in oxygen-limited microzones as a hitherto unknown source of atmospheric HONO, affecting biogeochemical nitrogen cycling, atmospheric chemistry, and global modeling.

Correlation of the oxidative stress indices and Cd exposure using a mathematical model in the earthworm, Eisenia fetida

With the increase in heavy metal pollution, it is of great significance to evaluate the ecological security and early warning of cadmium (Cd) contaminated soil. In this paper, a mathematical model was established for the first time by combining the advantages of the factor analysis method and the analytic hierarchy process, and was used to screen and analyze the ecological indices of oxidative stress in earthworms under Cd exposure. The experiment lasted for 40 days, removing one earthworm every 10 days. The Cd²⁺ concentration gradient was set at 0, 1, 10, 20, 100, 200, 400 and 800 mg kg^-1. The ecological indices measured were total protein (TP), peroxidase (POD), superoxide dismutase (SOD), glutathione peroxidase (GPX), glutathione-S-transferase (GST), catalase (CAT), acetylcholinesterase (AChE) and malondialdehyde (MDA) levels. The results showed that when the earthworm was exposed to Cd²⁺ for 10 days and 30 days, in the head tissues, the key indices to focus on for monitoring were both POD. At 20 days and 40 days, the key indices were both TP. For the tail tissue tests, under Cd exposure for 10 days, the key indicator focused on for monitoring was MDA. After 20 days of exposure, the key monitoring indicator was AChE. At 30 days, it was CAT, and at 40 days, it was TP. This study provides a theoretical basis for the prompt, inexpensive, accurate and scientific early warning of metal contaminated soils and establishes a foundation for application of the screening model for other ecological indicators.

Enhancement effect of earthworm (Eisenia fetida) on acetochlor biodegradation in soil and possible mechanisms

Acetochlor is a widely used chloroacetanilide herbicide and has posed environmental risks in soil and water due to its toxicity and high leaching capacity. Earthworm represents the dominant invertebrate in soil and can promote the decomposition of organic pollutants. The effect of earthworm on acetochlor degradation in soil was studied by soil column experiment with or without acetochlor and earthworm in sterile and natural soils. The degradation capacities of drilosphere components to acetochlor were investigated by microcosm experiments. Bacterial and fungal acetochlor degraders stimulated by earthworm were identified by high-throughput sequencing. The degradation kinetics of acetochlor suggested that both indigenous microorganisms and earthworm played important roles in acetochlor degradation. Acetochlor degradation was quicker in soil with earthworms than without earthworms, with the degradation rates increased by 62.3 ± 15.2% and 9.7 ± 1.7% in sterile and natural treatments respectively. The result was related to the neutralized pH, higher enzyme activities and enhanced soil microbial community diversity and richness in the presence of earthworms. Earthworm cast was the degradation hotpot in drilosphere and exhibited better anaerobic degradation capacity in microcosm experiments. The acetochlor degradation rate of cast in anaerobic environment was 12.0 ± 0.1% quicker than that in aerobic environment. Residual acetochlor in soil conferred a long-term impairment on fungal community, and this inhibition could be repaired by earthworm. Earthworm stimulated indigenous degraders like Sphingomonas and Microascales and carried suspected intestinal degraders like Mortierella and Escherichia_coli to degradation process. Cometabolism between nutrition cycle species and degraders in casts also contributed to its faster degradation rates. The study also presented some possible anaerobic degradation species like Rhodococcus, Pseudomonas_fulva and Methylobacillus.

Diversity, structure and sources of bacterial communities in earthworm cocoons

Animals start interactions with the bacteria that will constitute their microbiomes at embryonic stage. After mating, earthworms produce cocoons externally which will be colonized with bacteria from their parents and the environment. Due to the key role bacterial symbionts play on earthworm fitness, it is important to study bacterial colonization during cocoon formation. Here we describe the cocoon microbiome of the earthworms Eisenia andrei and E. fetida, which included 275 and 176 bacterial species, respectively. They were dominated by three vertically-transmitted symbionts, Microbacteriaceae, Verminephrobacter and Ca. Nephrothrix, which accounted for 88% and 66% of the sequences respectively. Verminephrobacter and Ca. Nephrothrix showed a high rate of sequence variation, suggesting that they could be biparentally acquired during mating. The other bacterial species inhabiting the cocoons came from the bedding, where they accounted for a small fraction of the diversity (27% and 7% of bacterial species for E. andrei and E. fetida bedding). Hence, earthworm cocoon microbiome includes a large fraction of the vertically-transmitted symbionts and a minor fraction, but more diverse, horizontally and non-randomly acquired from the environment. These data suggest that horizontally-transmitted bacteria to cocoons may play an important role in the adaptation of earthworms to new environments or diets.

Influence of soil temperature and moisture on biochemical biomarkers in earthworm and microbial activity after exposure to propiconazole and chlorantraniliprole

Predicted climate change could impact the effects that various chemicals have on organisms. Increased temperature or change in precipitation regime could either enhance or lower toxicity of pesticides. The aim of this study is to assess how change in temperature and soil moisture affect biochemical biomarkers in Eisenia fetida earthworm and microbial activity in their excrements after exposure to a fungicide - propiconazole (PCZ) and an insecticide - chlorantraniliprole (CAP). For seven days, earthworms were exposed to the pesticides under four environmental conditions comprising combinations of two different temperatures (20°C and 25°C) and two different soil water holding capacities (30% and 50%). After exposure, in the collected earthworm casts the microbial activity was measured through dehydrogenase activity (DHA) and biofilm forming ability (BFA), and in the postmitochondrial fraction of earthworms the activities of acetylcholinesterase (AChE), catalase (CAT) and glutathione-S-transferase (GST) respectively. The temperature and the soil moisture affected enzyme activities and organism's response to pesticides. It was determined that a three-way interaction (pesticide concentration, temperature and moisture) is statistically significant for the CAT and GST after the CAP exposure, and for the AChE and CAT after the PCZ exposure. Interestingly, the AChE activity was induced by both pesticides at a higher temperature tested. The most important two-way interaction that was determined occurred between the concentration and temperature applied. DHA and BFA, as markers of microbial activity, were unevenly affected by PCZ, CAP and environmental conditions. The results of this experiment demonstrate that experiments with at least two different environmental conditions can give a very good insight into some possible effects that the climate change could have on the toxicity of pesticides. The interaction of environmental factors should play a more important role in the risk assessments for pesticides.

Ecotoxicological assessment of soils polluted with chemical waste from lindane production: Use of bacterial communities and earthworms as bioremediation tools

An ecotoxicological survey of soils that were polluted with wastes from lindane (γ-HCH) production assessed the effects of organochlorine compounds on the metabolism of microbial communities and the toxicity of these compounds to a native earthworm (Allolobophora chlorotica). Furthermore, the bioremediation role of earthworms as facilitators of soil washing and the microbial degradation of these organic pollutants were also studied. Soil samples that presented the highest concentrations of ε-HCH, 2,4,6-trichlorophenol, pentachlorobenzene and γ-HCH were extremely toxic to earthworms in the short term, causing the death of almost half of the population. In addition, these soils inhibited the heterotrophic metabolic activity of the microbial community. These highly polluted samples also presented substances that were able to activate cellular detoxification mechanisms (measured as EROD and BFCOD activities), as well as compounds that were able to cause endocrine disruption. A few days of earthworm activity increased the extractability of HCH isomers (e.g., γ-HCH), facilitating the biodegradation of organochlorine compounds and reducing the intensity of endocrine disruption in soils that had low or medium contamination levels.

Scientific Opinion addressing the state of the science on risk assessment of plant protection products for in-soil organisms

Following a request from EFSA, the Panel on Plant Protection Products and their Residues developed an opinion on the science behind the risk assessment of plant protection products for in-soil organisms. The current risk assessment scheme is reviewed, taking into account new regulatory frameworks and scientific developments. Proposals are made for specific protection goals for in-soil organisms being key drivers for relevant ecosystem services in agricultural landscapes such as nutrient cycling, soil structure, pest control and biodiversity. Considering the time-scales and biological processes related to the dispersal of the majority of in-soil organisms compared to terrestrial non-target arthropods living above soil, the Panel proposes that in-soil environmental risk assessments are made at in- and off-field scale considering field boundary levels. A new testing strategy which takes into account the relevant exposure routes for in-soil organisms and the potential direct and indirect effects is proposed. In order to address species recovery and long-term impacts of PPPs, the use of population models is also proposed.

Disentangling the influence of earthworms in sugarcane rhizosphere

For the last 150 years many studies have shown the importance of earthworms for plant growth, but the exact mechanisms involved in the process are still poorly understood. Many important functions required for plant growth can be performed by soil microbes in the rhizosphere. To investigate earthworm influence on the rhizosphere microbial community, we performed a macrocosm experiment with and without Pontoscolex corethrurus (EW+ and EW−, respectively) and followed various soil and rhizosphere processes for 217 days with sugarcane. In EW+ treatments, N₂O concentrations belowground (15 cm depth) and relative abundances of nitrous oxide genes (nosZ) were higher in bulk soil and rhizosphere, suggesting that soil microbes were able to consume earthworm-induced N₂O. Shotgun sequencing (total DNA) revealed that around 70 microbial functions in bulk soil and rhizosphere differed between EW+ and EW− treatments. Overall, genes indicative of biosynthetic pathways and cell proliferation processes were enriched in EW+ treatments, suggesting a positive influence of worms. In EW+ rhizosphere, functions associated with plant-microbe symbiosis were enriched relative to EW− rhizosphere. Ecological networks inferred from the datasets revealed decreased niche diversification and increased keystone functions as an earthworm-derived effect. Plant biomass was improved in EW+ and worm population proliferated.

Fine scale spatial variability of microbial pesticide degradation in soil: scales, controlling factors, and implications

Pesticide biodegradation is a soil microbial function of critical importance for modern agriculture and its environmental impact. While it was once assumed that this activity was homogeneously distributed at the field scale, mounting evidence indicates that this is rarely the case. Here, we critically examine the literature on spatial variability of pesticide biodegradation in agricultural soil. We discuss the motivations, methods, and main findings of the primary literature. We found significant diversity in the approaches used to describe and quantify spatial heterogeneity, which complicates inter-studies comparisons. However, it is clear that the presence and activity of pesticide degraders is often highly spatially variable with coefficients of variation often exceeding 50% and frequently displays non-random spatial patterns. A few controlling factors have tentatively been identified across pesticide classes: they include some soil characteristics (pH) and some agricultural management practices (pesticide application, tillage), while other potential controlling factors have more conflicting effects depending on the site or the pesticide. Evidence demonstrating the importance of spatial heterogeneity on the fate of pesticides in soil has been difficult to obtain but modeling and experimental systems that do not include soil's full complexity reveal that this heterogeneity must be considered to improve prediction of pesticide biodegradation rates or of leaching risks. Overall, studying the spatial heterogeneity of pesticide biodegradation is a relatively new field at the interface of agronomy, microbial ecology, and geosciences and a wealth of novel data is being collected from these different disciplinary perspectives. We make suggestions on possible avenues to take full advantage of these investigations for a better understanding and prediction of the fate of pesticides in soil.

Effects of the geophagous earthworm Metaphire guillelmi on sorption, mineralization, and bound-residue formation of 4-nonylphenol in an agricultural soil

Effects of earthworms on fate of nonylphenol (NP) are obscure. Using (14)C-4-NP111 as a representative, we studied the fate of 4-NP in an agricultural soil with or without the earthworm Metaphire guillelmi and in fresh cast of the earthworm. Sorption of 4-NP on the cast (Kd 1564) was significantly higher than on the parent soil (Kd 1474). Mineralization of 4-NP was significantly lower in the cast (13.2%) and the soil with earthworms (10.4%) than in the earthworm-free soil (16.0%). One nitro metabolite of 4-NP111 (2-nitro-4-NP111) was identified in the soil and cast, and the presence of the earthworm significantly decreased its amounts. The presence of earthworm also significantly decreased formation of bound residues of 4-NP in the soil. Our results demonstrate that earthworms could significantly change the fate of 4-NP, underlining that earthworm effects should be considered when evaluating behavior and risk of 4-NP in soil.

Response of archaeal communities to oil spill in bioturbated mudflat sediments

The response of archaeal community to oil spill with the combined effect of the bioturbation activity of the polychaetes Hediste diversicolor was determined in mudflat sediments from the Aber-Benoît basin (Brittany, French Atlantic coast), maintained in microcosms. The dynamics of the archaeal community was monitored by combining comparative terminal restriction fragment length polymorphism (T-RFLP) fingerprints and sequence library analyses based on 16S rRNA genes and 16S cDNA. Methanogens were also followed by targeting the mcrA gene. Crenarchaeota were always detected in all communities irrespective of the addition of H. diversicolor and/or oil. In the presence of oil, modifications of archaeal community structures were observed. These modifications were more pronounced when H. diversicolor was added resulting in a more diverse community especially for the Euryarchaeota and Thaumarchaeota. The analysis of mcrA transcripts showed a specific structure for each condition since the beginning of the experiment. Overall, oiled microcosms showed different communities irrespective of H. diversicolor addition, while similar hydrocarbon removal capacities were observed.

Effect of earthworms on plant Lantana camara Pb-uptake and on bacterial communities in root-adhering soil

The present study aimed to assess the potential abilities of Lantana camara, an invasive plant species for phytoremediation in the presence of earthworm Pontoscolex corethrurus. Effects of earthworm on growth and lead (Pb) uptake by L. camara plant were studied in soil artificially contaminated at 500 or 1000mg of Pb kg(-1) soil. This species has a promising value for phytoremediation because it can uptake as much as 10% of 1000mgkg(-1) of Pb per year. Moreover, the presence of earthworms enhanced plant biomass by about 1.5-2 times and increased the uptake of lead by about 2-3 times. In the presence of earthworm, L. camara was thus able to uptake up 20% of Pb presence in the soil, corresponding to remediation time of 5 years if all organs are removed. As soil microorganisms are known to mediate many interactions between earthworms and plants, we documented the effect of earthworms on the bacterial community of root-adhering soil of L. camara. Cultivable bacterial biomass of root-adhering soil increased in the presence of earthworms. Similar trend was observed on bacterial metabolic activities. The increase of lead concentrations from 500 to 1000mgkg(-1) did not have any significant effect either on plant growth or on bacterial biomass and global activities but affected the structure and functional diversity of the bacterial community. These results showed that we should broaden the ecological context of phytoremediation by considering plant/microbial community/earthworm interactions that influence the absorption of heavy metals.

Augmentation of tribenuron methyl removal from polluted soil with Bacillus sp. strain BS2 and indigenous earthworms

Tribenuron methyl (TBM) is a member of the sulfonylurea herbicide family and is widely used worldwide. In this study, TBM-degrading bacteria were enriched with TBM as potential carbon, nitrogen or sulfur source, and 44 bacterial isolates were obtained. These isolates were phylogenetically diverse, and were grouped into 25 operational taxonomic units and 14 currently known genera. Three representatives, Bacillus sp. strain BS2, Microbacterium sp. strain BS3, and Cellulosimicrobium sp. strain BS11, were selected, and their growth and TBM removal from culture broth were investigated. In addition, indigenous earthworms were collected and applied to augment TBM degradation in lab-scale soil column experiments. Results demonstrated that Bacillus sp. strain BS2 and earthworms significantly increased TBM removal during soil column experiments.