Soil mesofauna alter the balance between stochastic and deterministic processes in the plastisphere during microbial succession

The impact of microplastic and sulfanilamide co-exposure on soil microbiota

Microplastics, as emerging contaminants, can absorb antibiotics, and their coexistence in soil ecosystems poses serious threats to soil health. While previous studies have primarily focused on the individual effects of microplastics or antibiotics, the interactions between these pollutants in soil environments remain poorly understood. In this study, we investigated the combined effects of sulfonamide antibiotics and microplastics-both non-degradable low-density polyethylene and degradable polylactic acid-on soil microbiota and physicochemical properties. Our findings revealed significant changes in soil properties under co-exposure conditions. Dissolved organic carbon emerged as the most influential factor affecting bacterial and fungal diversity. Co-exposure altered the composition of bacterial and fungal communities at both the phylum and genus levels, with soil bacteria showing stronger responses than fungi. Importantly, co-exposure exacerbated the ecological risks associated with individual contaminants. We also observed differences in how non-degradable and degradable microplastics impacted the stability and complexity of microbial community networks. Notably, co-exposure to degradable microplastics and sulfonamides led to a significant increase in the expression of antibiotic resistance genes (sul1 and int1). These findings enhance our understanding of the combined effects of microplastics and antibiotics on soil ecosystems and underscore the need for further research into their ecological risks.

When plastisphere and drilosphere meet: Earthworms facilitate microbiome and nutrient turnover to accelerate biodegradation of agricultural plastic films

Agricultural plastic mulching films have been an environmental concern for decades. The effects of the interactions between the anthropogenic plastisphere and other soil biospheres, particularly that of earthworms, on the fate of plastics remain poorly understood. Here, we investigated the decomposition of buried nonbiodegradable low-density polyethylene (LDPE) versus biodegradable PBTA/PLA copolymers in the presence of earthworms (Amynthas cortices) in dynamic microcosms. Earthworms significantly enhanced the biodegradation of plastic films in situ, as confirmed by mass reduction, surface modification, and changes in the molecular weights of films. Notably, the PBTA/PLA films exhibited a 1.41-fold increase in mass loss and a 5.69% reduction in the number-average molecular weight when incubated with earthworms. Earthworms influenced the microbial assembly within the plastisphere by increasing both bacterial and fungal biodiversity, as well as their network complexity. The time-decay patterns in the abundance of keystone degrader taxa, including the genera Noviherbaspirillum, Rhizobacter, and Mortierella, were mitigated by earthworms over the 60-day period. Additionally, earthworms preferentially consumed recalcitrant dissolved organic matter in LDPE and PBAT/PLA plastisphere soils, thereby increasing the bioavailability of components that serve as nutrient supplies for plastisphere microbiomes. Our findings demonstrate that earthworms enhance the decomposition of plastics in soils via cross-species interplay within the plastisphere and drilosphere, contributing not only to soil conditioning and biodiversity but also to plastic biodegradation in natural agroecosystems.

Microbial mechanisms of mesofauna pattern changes affecting soil greenhouse gas emissions and ecosystem multifunctionality

In mountainous regions, global warming has changed the biological diversity and community structure of both aboveground and belowground organisms, and it may cause biota to move from lower altitudes to higher altitudes. However, our understanding of such migrations of soil mesofauna caused by global warming on soil processes and functions remains limited. We carried out a 79-day experiment comprising treatments without mesofauna (WM), native mesofauna (NM), migratory mesofauna (MM), and both native and migratory mesofauna together (TM) to reveal the effects of soil mesofauna migration on greenhouse gas emissions, ecosystem multifunctionality, and the underlying mechanisms. We found that soil mesofauna enhanced CO2 emissions (46.59% for NM, 75.72% for MM, and 107.21% for TM) and N2O emissions (82.57% for NM, 121.47% for MM, and 204.69% for TM) when compared to WM. Soil multifunctionality was reduced by 207.64% under TM compared to NM. Partial least squares path modeling indicated that soil properties and microbial diversity have positive effects on soil multifunctionality. The diversity of soil mesofauna had a positive direct effect on soil CO2 and N2O emissions. Random forest analysis showed that mite Shannon diversity, springtail Shannon diversity, and springtail beta diversity emerged as the most critical biotic factors for predicting soil CO2 emissions, soil N2O emissions, and multifunctionality. These findings provide deeper insights into the responses of soil processes and functions to soil mesofauna migrations, as well as the management of mountain ecosystems.

Increased Transmission of Antibiotic Resistance Occurs in a Soil Food Chain under Pesticide Stress

The rising spread of antibiotic resistance is a global concern, but the pathways of dissemination within soil ecosystems remain poorly understood. Here, we quantified the occurrence of antibiotic resistance genes (ARGs) in gut microbiomes of soil collembolans (Folsomia candida) under pesticide stress (zinc thiazole, ZT) and analyzed the trophic transfer of ARGs to the microbiomes of predatory mites (Hypoaspis aculeifer), natural predators of collembolans. High throughput quantitative PCR was used to quantify ARGs, whereas gut microbiomes of collembolans and mites were characterized using 16S rRNA gene amplicon sequencing, and potential pathogens were identified. Our results revealed that ZT exposure significantly elevated the abundance of ARGs (e.g., AAC(6')-Ir) in soil collembolan microbiomes. With the increase of ARGs in prey collembolan microbiomes, an increase of ARGs in predatory mite microbiomes was observed through trophic transfer. Mobile genetic elements (MGEs) significantly contribute to the transmission of ARGs within this food chain. Additionally, co-occurrence analysis indicated a strong association between gut resistomes and pathogens, such as Brevundimonas diminuta, in the collembolans and predatory mites. Overall, our study provides evidence for the dissemination of ARGs through the collembolan-predatory mite food chain following pesticide exposure, which is important for understanding the broader dynamics of antibiotic resistance spreading in soil ecosystems.

Soil Plastisphere Reinforces the Adverse Effect of Combined Pollutant Exposure on the Microfood Web

Microbial interactions form microfood webs, crucial for ecological functions. The steady state of these webs, shaped by cooperation and competition among trophic levels, prevents pathogen proliferation and invasion, maintaining soil health. Combined pollutants pose a widespread environmental issue, exerting significant pressure on microfood webs. However, understanding how these webs respond to combined pollutants in soil plastispheres, an emerging niche, remains limited. This study explores trophic interactions among bacteria, fungi, and protists, examining their effects on potential pathogens in three soil types amended with Cu or disinfectant, along with their plastispheres, using a microcosm experiment. Pollutant exposure disrupts trophic-level interactions through bottom-up and top-down regulation in soils and plastispheres, respectively. Microfood web network topology parameters prove more sensitive to pollutant stress than indicators from a single trophic-level community composition. Combined exposure causes greater disruption to the microfood web than exposure to a single pollutant (Cu or didecyl dimethylammonium chloride (DDAC)). Plastisphere reinforces negative impacts of combined pollutant exposure on the microfood web network, escalating potential pathogenic bacteria. Overall, this study deepens our understanding of microfood web responses under pollutant pressure in soil plastispheres and provides valuable insights for health risk assessments of soil combined pollutants.

Distinctive patterns of bacterial community succession in the riverine micro-plastisphere in view of biofilm development and ecological niches

Exploring plastic bacterial community succession is a crucial step in analyzing and predicting the ecological assembly processes of the plastisphere and its associated environmental impacts. However, microbial biofilm development and niche differentiation during plastic bacterial community succession have rarely scarcely considered. Here, we assessed the differences between three microplastics (MPs) and two natural polymers in terms of biofilm development and niche properties during bacterial community succession, and identified a genus of MPs-degrading bacteria with strong competitive potential in the plastisphere. MPs biofilm development exhibits secondary succession characteristics, whereas natural polymer biofilms persist during the primary succession stage. During succession in plastic bacterial communities, the relationship between nutrient resources and microbial competition was reflected in a positive correlation between species competition and niche breadth, which contradicted the common belief that increased nutrient availability leads to reduced competition. Furthermore, the co-occurrence network revealed that specialists were species with greater competitive potential within the plastisphere. Additionally, the MPs-degrading Exiguobacterium genus represented a key taxon in the plastisphere. Our study provides a reliable pathway for revealing the specificity of plastic bacterial community succession from multiple perspectives and enhances the understanding of ecological assembly processes in the plastisphere.

Presence of microplastics enhanced the toxicity of silver nanoparticles on the collembolan Folsomia candida

There is growing interest in interactions of microplastics (MPs) with other pollutants. However, there is limited understanding of the combined effects of MPs and silver nanoparticles (AgNPs) on nontarget soil organisms. This work aimed to examine the effects of exposure to various AgNPs' concentrations alone (0, 0.1, 1, 10, 100, 1000 mg kg-1, 50 nm) and in combination with polyvinyl chloride microplastics (PVC MPs, 80-250 μm) at 0.1% concentration for 28 days on reproduction, Ag accumulation, C/N ratio, and isotopic fractionation of the standard soil fauna collembolan Folsomia candida. Results showed that compared to the AgNPs exposure alone, the presence of MPs significantly reduced reproduction by 51.4% and markedly increased Ag content in collembolans by 87.7% at 1000 mg kg-1 AgNPs, which evidenced a synergistic effect. Co-exposure to MPs and AgNPs resulted in a noticeable reduction in the C/N ratio in F. candida body tissues by 9.90% and 5.27% at 1 and 10 mg kg-1 AgNPs, respectively, showing additive and synergistic effects. Additionally, this co-exposure altered stable isotope fractionation, with the highest increments of δ15N by 32.3% and inhibition of δ13C by 2.62%, demonstrating the turnover of nutrients shift in the collembolan tissues. Collectively, this study demonstrates that con-current exposure to environmentally relevant concentration of MPs and relatively high doses of AgNPs synergistically induces toxic effects on F. candida, leading to Ag accumulation and reproduction decline. These findings imply that MPs could alter collembolans' responses to AgNPs exposure, potentially enhancing the metal ions' bioavailability in soil environments and posing ecotoxicological threats to soil-dwelling organisms.

Stable isotopes and nanoSIMS single-cell imaging reveals soil plastisphere colonizers able to assimilate sulfamethoxazole

The presence and accumulation of both, plastics and antibiotics in soils may lead to the colonization, selection, and propagation of soil bacteria with certain metabolic traits, e.g., antibiotic resistance, in the plastisphere. However, the impact of plastic-antibiotic tandem on the soil ecosystem functioning, particularly on microbial function and metabolism remains currently unexplored. Herein, we investigated the competence of soil bacteria to colonize plastics and degrade 13C-labeled sulfamethoxazole (SMX). Using single-cell imaging, isotope tracers, soil respiration and SMX mineralization bulk measurements we show that microbial colonization of polyethylene (PE) and polystyrene (PS) surfaces takes place within the first 30 days of incubation. Morphologically diverse microorganisms were colonizing both plastic types, with a slight preference for PE substrate. CARD-FISH bacterial cell counts on PE and PS surfaces formed under SMX amendment ranged from 5.36 × 103 to 2.06 × 104, and 2.06 × 103 to 3.43 × 103 hybridized cells mm-2, respectively. Nano-scale Secondary Ion Mass Spectrometry measurements show that 13C enrichment was highest at 130 days with values up to 1.29 atom%, similar to those of the 13CO2 pool (up to 1.26 atom%, or 22.55 ‰). Independent Mann-Whitney U test showed a significant difference between the control plastisphere samples incubated without SMX and those in 13C-SMX incubations (P < 0.001). Our results provide direct evidence demonstrating, at single-cell level, the capacity of bacterial colonizers of plastics to assimilate 13C-SMX from contaminated soils. These findings expand our knowledge on the role of soil-seeded plastisphere microbiota in the ecological functioning of soils impacted by anthropogenic stressors.

The soil plastisphere

Understanding the effects of plastic pollution in terrestrial ecosystems is a priority in environmental research. A central aspect of this suite of pollutants is that it entails particles, in addition to chemical compounds, and this makes plastic quite different from the vast majority of chemical environmental pollutants. Particles can be habitats for microbial communities, and plastics can be a source of chemical compounds that are released into the surrounding environment. In the aquatic literature, the term 'plastisphere' has been coined to refer to the microbial community colonizing plastic debris; here, we use a definition that also includes the immediate soil environment of these particles to align the definition with other concepts in soil microbiology. First, we highlight major differences in the plastisphere between aquatic and soil ecosystems, then we review what is currently known about the soil plastisphere, including the members of the microbial community that are enriched, and the possible mechanisms underpinning this selection. Then, we focus on outlining future prospects for research on the soil plastisphere.

Differential fungal assemblages and functions between the plastisphere of biodegradable and conventional microplastics in farmland

The heterogeneity of plastisphere and soil can lead to variation in microbiome, potentially impacting soil functions. Current studies of the plastisphere have mainly focused on bacterial communities, and fungal communities are poorly understood. Biodegradable and conventional microplastics may recruit specific microbial taxa due to their different biodegradability. Herein, we collected polyethylene (PE) and polybutylene adipate terephthalate/polylactide (PBAT/PLA) microplastics in farmland (Hebei, China) and characterized the fungal community in PE and PBAT/PLA plastisphere. Results from high-throughput sequencing showed significantly lower alpha diversity and distinct composition of fungal community in PBAT/PLA plastisphere compared to PE plastisphere. Additionally, the PBAT/PLA plastisphere demonstrated a significant enrichment of fungal taxa with potential plastic-degrading capability such as Nectriaceae, Pleosporaceae and Didymellaceae. The stochasticity of drift (28.7-43.5 %) and dispersal limitation (38.6-39.4 %) were dominant in the assembly of PE and PBAT/PLA plastisphere fungal community. Higher stable and more complex network in PBAT/PLA plastispheres were observed as compared to PE plastisphere. Besides, the total relative abundance of plant and animal pathogens were higher in PBAT/PLA plastisphere than that in PE plastisphere, suggesting that biodegradable microplastics may pose a higher threat to soil health. This study contributes to our understanding of the characteristics of plastisphere fungal communities in soil environments and the associated risks to terrestrial ecosystems resulting from microplastic accumulation.

Effects of deterministic assembly of communities caused by global warming on coexistence patterns and ecosystem functions

Seasonal rhythms in biological and ecological dynamics are fundamental in regulating the structuring of microbial communities. Evaluating the seasonal rhythms of microorganisms in response to climate change could provide information on their variability and stability over longer timescales (>20-year). However, information on temporal variability in microorganism responses to medium- and long-term global warming is limited. In this study, we aimed to elucidate the temporal dynamics of microbial communities in response to global warming; to this end, we integrated data on the maintenance of species diversity, community composition, temporal turnover rates (v), and community assembly process in two typical ecosystems (meadows and shrub habitat) on the Qinghai-Tibet Plateau. Our results showed that 21 years of global warming would increase the importance of the deterministic process for microorganisms in both ecosystems across all seasons (R2 of grassland (GL) control: 0.524, R2 of GL warming: 0.467; R2 of shrubland (SL) control: 0.556, R2 of SL warming: 0.543), reducing species diversity and altering community composition. Due to environmental filtration pressure from 21 years of warming, the low turnover rate (v of warming: -3.13/-2.00, v of control: -2.44/-1.48) of soil microorganisms reduces the resistance and resilience of ecological communities, which could lead to higher community similarity and more clustered taxonomic assemblages occurring across years. Changes to temperature might increase selection pressure on specialist taxa, which directly causes dominant species (v of warming: -1.63, v of control: -2.49) primarily comprising these taxa to be more strongly impacted by changing temperature than conditionally (v of warming: -1.47, v of control: -1.75) or always rare taxa (v of warming: -0.57, v of control: -1.33). Evaluation of the seasonal rhythms of microorganisms in response to global warming revealed that the variability and stability of different microbial communities in different habitats had dissimilar biological and ecological performances when challenged with an external disturbance. The balance of competition and cooperation, because of environmental selection, also influenced ecosystem function in complex terrestrial ecosystems. Overall, our study enriches the limited information on the temporal variability in microorganism responses to 21 years of global warming, and provides a scientific basis for evaluating the impact of climate warming on the temporal stability of soil ecosystems.

The forgotten impacts of plastic contamination on terrestrial micro- and mesofauna: A call for research

Microplastics (MP) and nanoplastics (NP) contamination of the terrestrial environment is a growing concern worldwide and is thought to impact soil biota, particularly the micro and mesofauna community, by various processes that may contribute to global change in terrestrial systems. Soils act as a long-term sink for MP, accumulating these contaminants and increasing their adverse impacts on soil ecosystems. Consequently, the whole terrestrial ecosystem is impacted by microplastic pollution, which also threatens human health by their potential transfer to the soil food web. In general, the ingestion of MP in different concentrations by soil micro and mesofauna can adversely affect their development and reproduction, impacting terrestrial ecosystems. MP in soil moves horizontally and vertically because of the movement of soil organisms and the disturbance caused by plants. However, the effects of MP on terrestrial micro-and mesofauna are largely overlooked. Here, we give the most recent information on the forgotten impacts of MP contamination of soil on microfauna and mesofauna communities (protists, tardigrades, soil rotifers, nematodes, collembola and mites). More than 50 studies focused on the impact of MP on these organisms between 1990 and 2022 have been reviewed. In general, plastic pollution does not directly affect the survival of organisms, except under co-contaminated plastics that can increase adverse effects (e.g. tire-tread particles on springtails). Besides, they can have adverse effects at oxidative stress and reduced reproduction (protists, nematodes, potworms, springtails or mites). It was observed that micro and mesofauna could act as passive plastic transporters, as shown for springtails or mites. Finally, this review discusses how soil micro- and mesofauna play a key role in facilitating the (bio-)degradation and movement of MP and NP through soil systems and, therefore, the potential transfer to soil depths. More research should be focused on plastic mixtures, community level and long-term experiments.

Effect of Fe3+ on the nutrient removal performance and microbial community in a biofilm system

In this study, the influence of Fe3+ on N removal, microbial assembly, and species interactions in a biofilm system was determined. The results showed that maximum efficiencies of ammonia nitrogen (NH4+-N), total nitrogen (TN), phosphorus (P), and chemical oxygen demand (COD) removal were achieved using 10 mg/L Fe3+, reaching values of 100, 78.85, 100, and 95.8%, respectively, whereas at concentrations of 15 and 30 mg/L Fe3+ suppressed the removal of NH4+-N, TN, and COD. In terms of absolute abundance, the expression of bacterial amoA, narG, nirK, and napA was maximal in the presence of 10 mg/L Fe3+ (9.18 × 105, 8.58 × 108, 1.09 × 108, and 1.07 × 109 copies/g dry weight, respectively). Irrespective of Fe3+ concentrations, the P removal efficiency remained at almost 100%. Candidatus_Competibacter (10.26–23.32%) was identified as the most abundant bacterial genus within the system. Determinism (50%) and stochasticity (50%) contributed equally to microbial community assembly. Co-occurrence network analysis revealed that in the presence of Fe3+, 60.94% of OTUs in the biofilm system exhibited positive interactions, whereas 39.06% exhibited negative interactions. Within the OTU-based co-occurrence network, fourteen species were identified as key microbes. The stability of the system was found to be predominantly shaped by microbial cooperation, complemented by competition for resources or niche incompatibility. The results of this study suggested that during chemical P removal in wastewater treatment plants using biofilm methods, the concentration of supplemental Fe3+ should be maintained at 10 mg/L, which would not only contribute to P elimination, but also enhance N and COD removal.