The effects of arbuscular mycorrhizal fungi (AMF) and Rhizophagus irregularis on soil microorganisms assessed by metatranscriptomics and metaproteomics

Arbuscular mycorrhizal fungi (AMF) form symbioses with approximately 80% of plant species and potentially benefit their hosts (e.g. nutrient acquisition) and the soil environment (e.g. soil aggregation). AMF also affect soil microbiota and soil multifunctionality. We manipulated AMF presence (via inoculation of non-sterile soil with Rhizophagus irregularis and using a hyphal compartment design) and used RNA-seq and metaproteomics to assess AMF roles in soil. The results indicated that AMF drove an active soil microbial community expressing transcripts and proteins related to nine metabolic functions, including the metabolism of C and N. We suggest two possible mechanisms: 1) the AMF hyphae produce exudates that select a beneficial community, or, 2) the hyphae compete with other soil microbes for available nutrients and consequently induce the community to mineralize nutrients from soil organic matter. We also identified candidate proteins that are potentially related to soil aggregation, such as Lpt and HSP60. Our results bridge microbial ecology and ecosystem functioning. We show that the AMF hyphosphere contains an active community related to soil respiration and nutrient cycling, thus potentially improving nutrient mineralization from soil organic matter and nutrient supply to the plants

Legacy effect of microplastics on plant–soil feedbacks

Microplastics affect plants and soil biota and the processes they drive. However, the legacy effect of microplastics on plant–soil feedbacks is still unknown. To address this, we used soil conditioned from a previous experiment, where Daucus carota grew with 12 different microplastic types (conditioning phase). Here, we extracted soil inoculum from those 12 soils and grew during 4 weeks a native D. carota and a range-expanding plant species Calamagrostis epigejos in soils amended with this inoculum (feedback phase). At harvest, plant biomass and root morphological traits were measured. Films led to positive feedback on shoot mass (higher mass with inoculum from soil conditioned with microplastics than with inoculum from control soil). Films may decrease soil water content in the conditioning phase, potentially reducing the abundance of harmful soil biota, which, with films also promoting mutualist abundance, microbial activity and carbon mineralization, would positively affect plant growth in the feedback phase. Foams and fragments caused positive feedback on shoot mass likely via positive effects on soil aeration in the conditioning phase, which could have increased mutualistic biota and soil enzymatic activity, promoting plant growth. By contrast, fibers caused negative feedback on root mass as this microplastic may have increased soil water content in the conditioning phase, promoting the abundance of soil pathogens with negative consequences for root mass. Microplastics had a legacy effect on root traits: D. carota had thicker roots probably for promoting mycorrhizal associations, while C. epigejos had reduced root diameter probably for diminishing pathogenic infection. Microplastic legacy on soil can be positive or negative depending on the plant species identity and may affect plant biomass primarily via root traits. This legacy may contribute to the competitive success of range-expanding species via positive effects on root mass (foams) and on shoot mass (PET films). Overall, microplastics depending on their shape and polymer type, affect plant–soil feedbacks

Extinction risk of soil biota

No species lives on earth forever. Knowing when and why species go extinct is crucial for a complete understanding of the consequences of anthropogenic activity, and its impact on ecosystem functioning. Even though soil biota play a key role in maintaining the functioning of ecosystems, the vast majority of existing studies focus on aboveground organisms. Many questions about the fate of belowground organisms remain open, so the combined effort of theorists and applied ecologists is needed in the ongoing development of soil extinction ecology

Evolutionary implications of microplastics for soil biota

This is the author accepted manuscript. The final version is available from CSIRO Publishing via the DOI in this recordMicroplastic pollution is increasingly considered to be a factor of global change: in addition to aquatic ecosystems, this persistent contaminant is also found in terrestrial systems and soils. Microplastics have been chiefly examined in soils in terms of the presence and potential effects on soil biota. Given the persistence and widespread distribution of microplastics, it is also important to consider potential evolutionary implications of the presence of microplastics in soil; we offer such a perspective for soil microbiota. We discuss the range of selection pressures likely to act upon soil microbes, highlight approaches for the study of evolutionary responses to microplastics, and present the obstacles to be overcome. Pondering the evolutionary consequences of microplastics in soils can yield new insights into the effects of this group of pollutants, including establishing ‘true’ baselines in soil ecology, and understanding future responses of soil microbial populations and communities.MR acknowledges support from the ERC Advanced Grant ‘Gradual Change’ (694368). UK received funding from the European Union's Horizon 2020 research and innovation program under Marie Skłodowska-Curie grant agreement no. 751699

Microplastics Reduce the Negative Effects of Litter-Derived Plant Secondary Metabolites on Nematodes in Soil

Microplastics and plant litter are ubiquitous in the soil environment, and both materials can influence soil properties and biota. Plant litter releases secondary metabolites (e.g., phenolic compounds) during the decomposition process, including chemical compounds active in plant defense. Effects of microplastics and plant litter on soil biota have been studied independently but we have limited information about the combined effects of both sources of chemicals. Here, we specifically focused on the interaction between plant litter and microplastics, as well as their potential effects on soil biota (i.e., nematodes). We used soils from a previous experiment that included three different types of microplastic fibers (MFs) and four different types of plant litter, which were incubated in the soil in all combinations of materials. After soil incubation (42 days) in the previous experiment, we here tested for effects on nematodes (Caenorhabditis elegans). Plant litter treatments negatively affected the reproduction of nematodes, but these effects were reduced when the soils were incubated along with MFs. We measured the phenolic concentrations in plant litter extracts in a kinetic experiment and found that phenolic concentrations significantly decreased with some of the MF additions. Our results suggest that microplastics can affect the potential effects of natural chemicals such as plant phenolic compounds. We urge future studies to consider this possibility as a key explanatory process underpinning effects of microplastic in the soil environment

Photodegradation modifies microplastic effects on soil properties and plant performance

1. Microplastics (MPs) in soil affect plant–soil systems depending on their shape and polymer type. However, previous research has not yet considered the effects of degraded plastics, which are the plastic materials actually present in the environment. 2. We selected eight MPs representing different shapes (fibres, films and foams) and polymer types, and exposed them to UV-C degradation. Each MP was mixed with soil at a concentration of 0.4% (w/w). The phytometer Daucus carota grew in each pot. At harvest, soil properties and plant biomass were measured. 3. Photodegradation altered MP physical and chemical properties, impacting plant–soil systems. MP degradation effects on plant and soil were observed with fibres and foams, but there were negligible effects with films. The latter could be explained by the polymer structure of films and manufacturer's additives, potentially delaying their degradation. 4. Degraded fibres increased soil respiration more than their non-degraded counterparts, as photodegradation increased the positive effects of fibres on soil water retention. The emergence of oxygenated groups during degradation may have increased the hydrophilicity of fibres, enhancing their ability to retain water. Degraded foams increased soil respiration, which could be related to the possible leaching of organic substances with lower partition coefficients, which may promote soil microbial activity. 5. In contrast, degraded foams decreased soil aggregation, likely as degradation produced larger holes increasing their permeability. Also, the increase in hydrophilic molecules could have decreased soil particle cohesiveness. Degraded fibres and foams increased shoot and root mass as a result of MP effects on soil properties. Photodegraded MPs affected root traits, which could be linked to MP effects on soil water status and plant coping strategies. 6. Synthesis and applications. Photodegradation can intensify the effects that microplastics (MPs) have on plant–soil systems, which would have frequently been underestimated had we only worked with pristine MPs. Plastic companies, agricultural practitioners and researchers should consider that plastics are being degraded as they enter the soil. Policies should promote practices to minimize MP accumulation in soils and ensure their proper disposal

Microplastic Shape, Polymer Type, and Concentration Affect Soil Properties and Plant Biomass

Microplastics may enter the soil in a wide range of shapes and polymers. However, little is known about the effects that microplastics of different shapes, polymers, and concentration may have on soil properties and plant performance. To address this, we selected 12 microplastics representing different shapes (fibers, films, foams, and fragments) and polymers, and mixed them each with soil at a concentration of 0.1, 0.2, 0.3, and 0.4%. A phytometer (Daucus carota) grew in each pot during 4 weeks. Shoot, root mass, soil aggregation, and microbial activity were measured. All shapes increased plant biomass. Shoot mass increased by ∼27% with fibers, ∼60% with films, ∼45% with foams, and by ∼54% with fragments, as fibers hold water in the soil for longer, films decrease soil bulk density, and foams and fragments can increase soil aeration and macroporosity, which overall promote plant performance. By contrast, all shapes decreased soil aggregation by ∼25% as microplastics may introduce fracture points into aggregates and due to potential negative effects on soil biota. The latter may also explain the decrease in microbial activity with, for example, polyethylene films. Our findings show that shape, polymer type, and concentration are key properties when studying microplastic effects on terrestrial systems

The potential of arbuscular mycorrhizal fungi to enhance metallic micronutrient uptake and mitigate food contamination in agriculture: prospects and challenges

Optimizing agroecosystems and crops for micronutrient uptake while reducing issues with inorganic contaminants (metal(loid)s) is a challenging task. One promising approach is to use arbuscular mycorrhizal fungi (AMF) and investigate the physiological, molecular and epigenetic changes that occur in their presence and that lead to changes in plant metal(loid) concentration (biofortification of micronutrients or mitigation of contaminants). Moreover, it is important to understand these mechanisms in the context of the soil microbiome, particularly those interactions of AMF with other soil microbes that can further shape crop nutrition. To address these challenges, a two-pronged approach is recommended: exploring molecular mechanisms and investigating microbiome management and engineering. Combining both approaches can lead to benefits in human health by balancing nutrition and contamination caused by metal(loid)s in the agro-ecosystemThis work was supported by grant PID2021-1255210B-I00 funded by MCIN/AEI/10.13039/ 501100011033 and by ‘ERDF A way of making Europe’, by the ‘European Union’. NC is a University of Ottawa Research Chair in Microbial Genomics, and his research on AMF genetics and genomics is supported by the Discovery Program of the Natural Sciences and Engineering Research Council (RGPIN2020-05643) and a Discovery Accelerator Supplements Program (RGPAS2020-00033