Soil Microcosm Experiments Research Articles

Decoupled responses of soil microbial diversity and ecosystem functions to successive degeneration processes in alpine pioneer community.

Many alpine ecosystems are undergoing vegetation degradation because of global changes, which are affecting ecosystem functioning and biodiversity. The ecological consequences of alpine pioneer community degradation have been less studied than glacial retreat or meadow degradation in alpine ecosystems. We document the comprehensive responses of microbial community characteristics to degradation processes using field-based sampling, conduct soil microcosm experiments to simulate the effects of global change on microorganisms, and explore their relationships to ecosystem functioning across stages of alpine pioneer community degradation. Our work provides the first evidence that alpine pioneer community degradation led to declines of 27% in fungal richness, 8% in bacterial richness, and about 50% in endemic microorganisms. As vegetation degraded, key ecosystem functions such as nutrient availability, soil enzymatic activity, microbial biomass, and ecosystem multifunctionality progressively increased. However, soil respiration rate and carbon storage exhibited unbalanced dynamics. Respiration rate increased by 190% during the middle stage of degradation compared with the primary stage, and it decreased by 38% in the later stage. This indicates that soil carbon loss or emission increases during the mid-successional stage, whereas in later successional stages, alpine meadows become significant carbon sinks. Compared with microbial community characteristics (such as richness of total and functional taxa, and network complexity), community resistance contributes more significantly to ecosystem functions. Especially, the bacterial community resistance is crucial for ecosystem functioning, yet it is greatly impaired by nitrogen addition. Based on microbial network, community assembly, and community resistance analyses, we conclude that fungi are more vulnerable to environmental changes and show smaller contributions to ecosystem functions than bacteria in degrading alpine ecosystems. Our findings enhance the knowledge of the distinct and synergistic functional contributions of microbial communities in degrading alpine ecosystems and offer guidance for developing restoration strategies that optimize ecosystem functioning of degraded alpine plant communities.

Nitrogen induced soil carbon gains are resistant to loss after the cessation of excess nitrogen inputs

Nitrogen (N) deposition has increased soil carbon (C) storage across eastern US temperate forests by reducing microbial decomposition. However, the fate of these N-induced soil C gains are uncertain given strong declines in N-deposition rates and rising soil temperatures. As N deposition has reduced soil pH and plant C investments into the rhizosphere, we compared the extent to which removing limitations to microbial decomposition by increasing soil pH, adding artificial root exudates, or elevating soil temperature would increase microbial decomposition in soils that have and have not received excess N inputs. We hypothesized that alleviating these microbial decomposition limitations would prime soil C losses from soils that have received excess N inputs. To test this hypothesis, we conducted a soil microcosm experiment where we compared microbial respiration, microbial biomass, and soil enzyme activity in soils from an unfertilized watershed and a previously N-fertilized watershed 4 years after the end of a 30-year N deposition experiment at the Fernow Experimental Forest in West Virginia. In both watersheds, we found that removing pH, plant carbon, or temperature limitations to decomposition stimulated microbial respiration. However, microbial decomposition and soil C losses were consistently lower in the previously N-fertilized watershed across all treatments. This response, coupled with a lack of differences in microbial biomass between watersheds and treatments, suggests that long-term N fertilization has fundamentally altered soil microbial communities and has led to a sustained impairment of the ability of the microbial community to decompose soil organic matter. Collectively, our results indicate that the legacy effect of N deposition on microbial communities may influence the persistence of soil C stocks in the face of global change.

Adverse effect of TWPs on soil fungi and the contribution of benzothiazole rubber additives

Tire wear particles (TWPs) pollution is widely present in soil, especially in areas severely affected by traffic. Herein, regular variation of fungal biomass with TWPs was found in soils with different distances from the highway. In addition, the concentrations of benzothiazole compounds (BTHs), an important class of rubber vulcanization accelerators, were found to be positively correlated to the TWPs abundance. Sixty days' soil microcosm experiments were conducted to further confirm the adverse effect of TWPs and BTHs on soil fungi. TWPs spiking at 1000 mg/kg, a detectable level in the roadside, resulted in significant reduction of biomass and significant changes of soil fungal community structure, with Eurotium and Polyporales being the sensitive species. BTH+ 2-hydroxybenzothiazole (OHBT) (the dominant BTHs in soil) spiking at 200 ng/kg, the dose equivalent to 1000 mg/kg TWPs pollution, also caused a similar magnitude of soil fungal biomass reduction. Adonis demonstrated no significant difference of fungal community structure between TWPs and BTH+OHBT spiked soil, suggesting the adverse effect of TWPs on soil fungi may be explained by the act of BTHs. Pure culture using the representative soil fungi Eurotium and Polyporales also confirmed that BTHs were the main contributors to the adverse effect of TWPs on soil fungi.

COVID-19 pandemic-related drugs and microplastics from mask fibers jointly affect soil functions and processes

The COVID-19 pandemic has led to an unprecedented increase in pharmaceutical drug consumption and plastic waste disposal from personal protective equipment. Most drugs consumed during the COVID-19 pandemic were used to treat other human and animal diseases. Hence, their nearly ubiquitous presence in the soil and the sharp increase in the last 3 years led us to investigate their potential impact on the environment. Similarly, the compulsory use of face masks has led to an enormous amount of plastic waste. Our study aims to investigate the combined effects of COVID-19 drugs and microplastics from FFP2 face masks on important soil processes using soil microcosm experiments. We used three null models (additive, multiplicative, and dominative models) to indicate potential interactions among different pharmaceutical drugs and mask MP. We found that the multiple-factor treatments tend to affect soil respiration and FDA hydrolysis more strongly than the individual treatments. We also found that mask microplastics when combined with pharmaceuticals caused greater negative effects on soil. Additionally, null model predictions show that combinations of high concentrations of pharmaceuticals and mask MP have antagonistic interactions on soil enzyme activities, while the joint effects of low concentrations of pharmaceuticals (with or without MP) on soil enzyme activities are mostly explained by null model predictions. Our study underscores the need for more attention on the environmental side effects of pharmaceutical contamination and their potential interactions with other anthropogenic global change factors.

Resting for viability: Gordonia polyisoprenivorans ZM27, a robust generalist for petroleum bioremediation under hypersaline stress

The intrinsic issue associated with the application of microbes for practical pollution remediation involves maintaining the expected activity of engaged strains or consortiums as effectively as that noted under laboratory conditions. Faced with various stress factors, degraders with dormancy ability are more likely to survive and exhibit degradation activity. In this study, a hydrocarbonoclastic and halotolerant strain, Gordonia polyisoprenivorans ZM27, was isolated via stimulation with resuscitation-promoting factor (Rpf). Long-term exposure to dual stresses of 10% NaCl and starvation induced ZM27 to enter a viable but nonculturable (VBNC)-like state, and ZM27 cells could be resuscitated upon Rpf stimulation. Notable changes in both morphological and physiological characteristics between VBNC-like ZM27 cells and resuscitated cells confirmed the response to Rpf and their robust resistance against harsh environments. Whole-genome sequencing and analysis indicated ZM27 could be a generalist degrader with dormancy ability. Subsequently, VBNC-like ZM27 was applied in a soil microcosm experiment to investigate the practical application potential under harsh conditions. VBNC-like ZM27 combined with Rpf stimulation exhibited the most effective biodegradation performance, and the initial n-hexadecane content (1000 mg kg−1) decreased by 63.29% after 14-day incubation. Based on 16S rRNA amplicon sequencing and analysis, Gordonia exhibited a positive response to Rpf stimulation. The relative abundance of genus Gordonia was negatively correlated with that of Alcanivorax, a genus of obligate hydrocarbon degrader with the greatest abundance during soil incubation. Based on the degradation profile and community analysis, generalist Gordonia may be more efficient in hydrocarbon degradation than specialist Alcanivorax under harsh conditions. The characteristics of ZM27, including its sustainable culturability under long-term stress, response to Rpf and robust performance in soil microcosms, are valuable for the remediation of petroleum pollution under stressful conditions. Our work validated the importance of dormancy and highlighted the underestimated role of low-activity degraders in petroleum remediation.

Joint effect of black carbon deriving from wheat straw burning and plastic mulch film debris on the soil biochemical properties, bacterial and fungal communities

Black carbon (BC) formed after straw burning remains in farmland soil and coexists with plastic mulch film (PMF) debris. It is unclear how BC influences soil multifunctionality in the presence of PMF debris. In this study, we determined the joint effects of BC and PMF debris on soil biochemical properties and microbial communities. We conducted a soil microcosm experiment by adding BC formed by direct burning of wheat straw and PMF debris (polyethylene (PE) and biodegradable PMF (BP)) into soil at the dosages of 1 %, and soils were sampled on the 15th, 30th, and 100th day of soil incubation for high-throughput sequencing. The results showed that the degradation of PMF debris was accompanied by the release of microplastics (MPs). BC decreased NH4+-N (PE: 68.63 %; BP: 58.97 %) and NO3−-N (PE: 12.83 %; BP: 51.37 %) and increased available phosphorus (AP) (PE: 79.12 %; BP: 26.09 %) in soil containing PMF debris. There were significant differences in enzyme activity among all the treatments. High-throughput sequencing indicated that BC reduced bacterial and fungal richness and fungal diversity in PMF debris-exposed soil, whereas PMF debris and BC resulted in significant changes in the proportion of dominant phyla and genera of bacteria and fungi, which were affected by incubation time. Furthermore, BC affected microorganisms by influencing soil properties, and pH and N content were the main influencing factors. In addition, FAPRPTAX analysis indicated that BC and PMF debris affected soil C and N cycling. These findings provide new insights into the response of soil multifunctionality to BC and PMF debris.

Warming enhanced the interaction effects of fungi and fungivores and soil potassium mineralization in tropical forest

Potassium (K) cycling in forest systems has received less attention than nitrogen (N) and phosphorus (P) cycles, despite its critical role in maintaining primary production and regulating water economy and use under climate warming. This study conducted a 10-year study in which we translocated dominant tropical forest tree seedlings and underlying soil (i.e., in situ soil) from high-altitude sites (600 m a.s.l.) to lower altitude sites at 300 m a.s.l. (+1.0 °C) and 30 m a.s.l. (+2.1 °C) to simulate climate warming in southern China. We investigated soil microbial and nematode communities, soil and foliar K concentrations at the aggregate level, and tree growth under different altitude sites. Microbial community was characterized by high-throughput sequencing, nematodes were identified to the genus level using microscope. The findings revealed that warming treatments significantly (p < 0.01) increased soil fungal gene abundance (+78 % at 300 m and +62 % at 30 m), fungal/bacterial abundance ratio (+121 % at 300 m and +101 % at 30 m), and soil fungivore abundance (+274 % at 300 m and +233 % at 30 m). These results indicate a shift in the soil decomposition pathway from bacterial to fungal-based channels. In addition, warming amplifies the interactions between fungi and fungivores. Aggregates had few effects on microbial biomass, but had significant effect on nematode abundance. Soil microcosm experiments consistently demonstrated that addition of the dominant fungivore Aphelenchoides significantly (p < 0.05) enhanced soil-exchangeable K by stimulating fungal gene abundance and activity. Furthermore, warming-induced changes in forest communities were observed. At the species-specific tree level, Syzygium rehderianum demonstrated the ability to take advantage of this scenario, exhibiting increased K uptake (−4% at 300 m and +32 % at 30 m). This may be attributed to the species being ectomycorrhizal-forming, where colonizing root surfaces can mobilize interlayer and structural K from the minerals. In contrast, Machilus breviflora exhibited lower foliar K concentrations (−42 % at 300 m and −41 % at 30 m) and reduced growth. However, warming had little effect on Schima superba, Myrsine seguinii, Itea chinensis, and Ardisia lindleyana growth. Warming-induced changes in the plant–soil system K cycle highlight the emergence of a new ecosystem structure with different soil web structures and distinct plant community species composition. Our results prompt further research to understand the microbiome-mediated complexities of understudied nutrient cycles, which are likely to be further altered in the future owing to climate change.

Effect of Low-density Polyethylene Microplastics on Natural Attenuation of Oxygenated Polycyclic Aromatic Hydrocarbons in Soil

The continuous accumulation of microplastics in agricultural soils may affect the natural attenuation of oxygen-containing polycyclic aromatic hydrocarbons (OPAHs). The effects of low-density polyethylene (LDPE) microplastics with the spiking proportion of 1 % and 0.01 % in soils on the natural attenuation of OPAHs were investigated via soil microcosm experiments. The relation between the response of bacterial communities and OPAHs dissipation was also explored. The initial content of OPAHs in the soil was 34.6 mg·kg-1. The dissipation of OPAHs in the soil on day 14 was inhibited by LDPE. The contents of OPAHs in LDPE groups were higher than that in the control by 0.9-1.6 mg·kg-1, and the inhibition degree increased with the proportion of LDPE. The contents of OPAHs were not significantly different among groups on day 28, indicating that the inhibitory effect of LDPE disappeared. LDPE did not change the composition of the dominant taxa in the OPAHs-contaminated soil community but influenced the relative abundances of some dominant taxa. LDPE increased the relative abundance of Proteobacteria and Actinobacteria at the phylum level and decreased that of Bacillus and increased those of Micromonospora, Sphingomonas, and Nitrospira (potential degrading bacteria of LDPE and endogenous substances) at the genus level, all four of which were the main genera dominating intergroup community differences. LDPE changed the α and β diversity of bacterial communities, but the extents were not significant. LDPE affected the function of the bacterial community, reducing the total abundance of PAHs-degrading genes and some degrading enzymes, inhibiting the growth of PAHs-degrading bacteria and thus interfering with the natural decay of OPAHs.

Biochar immobilized hydrolase degrades PET microplastics and alleviates the disturbance of soil microbial function via modulating nitrogen and phosphorus cycles

Microplastics (MPs) pose an emerging threat to soil ecological function, yet effective solutions remain limited. This study introduces a novel approach using magnetic biochar immobilized PET hydrolase (MB-LCC-FDS) to degrade soil polyethylene terephthalate microplastics (PET-MPs). MB-LCC-FDS exhibited a 1.68-fold increase in relative activity in aquatic solutions and maintained 58.5 % residual activity after five consecutive cycles. Soil microcosm experiment amended with MB-LCC-FDS observed a 29.6 % weight loss of PET-MPs, converting PET into mono(2-hydroxyethyl) terephthalate (MHET). The generated MHET can subsequently be metabolized by soil microbiota to release terephthalic acid. The introduction of MB-LCC-FDS shifted the functional composition of soil microbiota, increasing the relative abundances of Microbacteriaceae and Skermanella while reducing Arthobacter and Vicinamibacteraceae. Metagenomic analysis revealed that MB-LCC-FDS enhanced nitrogen fixation, P-uptake and transport, and organic-P mineralization in PET-MPs contaminated soil, while weakening the denitrification and nitrification. Structural equation model indicated that changes in soil total carbon and Simpson index, induced by MB-LCC-FDS, were the driving factors for soil carbon and nitrogen transformation. Overall, this study highlights the synergistic role of magnetic biochar-immobilized PET hydrolase and soil microbiota in degrading soil PET-MPs, and enhances our understanding of the microbiome and functional gene responses to PET-MPs and MB-LCC-FDS in soil systems.

Novel enzymes for biodegradation of polycyclic aromatic hydrocarbons identified by metagenomics and functional analysis in short-term soil microcosm experiments

Polycyclic aromatic hydrocarbons (PAHs) are highly toxic, carcinogenic substances. On soils contaminated with PAHs, crop cultivation, animal husbandry and even the survival of microflora in the soil are greatly perturbed, depending on the degree of contamination. Most microorganisms cannot tolerate PAH-contaminated soils, however, some microbial strains can adapt to these harsh conditions and survive on contaminated soils. Analysis of the metagenomes of contaminated environmental samples may lead to discovery of PAH-degrading enzymes suitable for green biotechnology methodologies ranging from biocatalysis to pollution control. In the present study, our goal was to apply a metagenomic data search to identify efficient novel enzymes in remediation of PAH-contaminated soils. The metagenomic hits were further analyzed using a set of bioinformatics tools to select protein sequences predicted to encode well-folded soluble enzymes. Three novel enzymes (two dioxygenases and one peroxidase) were cloned and used in soil remediation microcosms experiments. The experimental design of the present study aimed at evaluating the effectiveness of the novel enzymes on short-term PAH degradation in the soil microcosmos model. The novel enzymes were found to be efficient for degradation of naphthalene and phenanthrene. Adding the inorganic oxidant CaO2 further increased the degrading potential of the novel enzymes for anthracene and pyrene. We conclude that metagenome mining paired with bioinformatic predictions, structural modelling and functional assays constitutes a powerful approach towards novel enzymes for soil remediation.

Linking bacterial life strategies with the distribution pattern of antibiotic resistance genes in soil aggregates after straw addition

Straw addition markedly affects the soil aggregates and microbial community structure. However, its influence on the profile of antibiotic resistance genes (ARGs), which are likely associated with changes in bacterial life strategies, remains unclear. To clarify this issue, a soil microcosm experiment was incubated under aerobic (WS) or anaerobic (AnWS) conditions after straw addition, and metagenomic sequencing was used to characterise ARGs and bacterial communities in soil aggregates. The results showed that straw addition shifted the bacterial life strategies from K- to r-strategists in all aggregates, and the aerobic and anaerobic conditions stimulated the growth of aerobic and anaerobic r-strategist bacteria, respectively. The WS decreased the relative abundances of dominant ARGs such as QnrS5, whereas the AnWS increased their abundance. After straw addition, the macroaggregates consistently exhibited a higher number of significantly altered bacteria and ARGs than the silt+clay fractions. Network analysis revealed that the WS increased the number of aerobic r-strategist bacterial nodes and fostered more interactions between r-and K-strategist bacteria, thus promoting ARGs prevalence, whereas AnWS exhibited an opposite trend. These findings provide a new perspective for understanding the fate of ARGs and their controlling factors in soil ecosystems after straw addition. Environmental implicationsStraw soil amendment has been recommended to mitigate soil fertility degradation, improve soil structure, and ultimately increase crop yields. However, our findings highlight the importance of the elevated prevalence of ARGs associated with r-strategist bacteria in macroaggregates following the addition of organic matter, particularly fresh substrates. In addition, when assessing the environmental risk posed by ARGs in soil that receives crop straw, it is essential to account for the soil moisture content. This is because the species of r-strategist bacteria that thrive under aerobic and anaerobic conditions play a dominant role in the dissemination and accumulation of ARG.

Effect of n-hexadecanoic acid on N2O emissions from vegetable soil and its synergism with Pseudomonas stutzeri NRCB010

Recently, it has been recommended to utilize specific plant root metabolites to decrease nitrous oxide (N2O) emissions from agricultural soil. However, only a limited number of plant root metabolites have been shown to decrease soil N2O emissions, and their combined effects with plant growth-promoting rhizobacteria, as well as the mechanisms involved in mitigating N2O emissions, remain to be explored. This study investigated the impact and microbial mechanisms of three tomato root exudate metabolites, namely, methyl hexadecanoate, methyl stearate, and n-hexadecanoic acid, on N2O emissions. In a pure culture experiment, n-hexadecanoic acid significantly enhanced Pseudomonas stutzeri NRCB010 auxin production, nitrogen removal, N2O reduction capacity, and N2O reductase activity. Methyl stearate significantly promoted NRCB010 N removal and the N2O reduction capacity. In soil microcosm and greenhouse pot experiments, n-hexadecanoic acid decreased N2O cumulative emissions by 34.3 % and 46.6 %, respectively, and further decreases were observed when combined with NRCB010. Additionally, n-hexadecanoic acid, both independently and in combination with NRCB010, significantly promoted tomato growth. N-hexadecanoic acid, alone or with NRCB010, also altered soil microbial communities and nitrogen-cycle functional gene abundance. Structural equation models revealed that n-hexadecanoic acid, either alone or with NRCB010, decreased N2O cumulative emissions by modifying the environmental conditions to be more conducive to N2O mitigation (e.g., higher soil pH and organic matter content), inhibiting N2O production (through a decrease in ammonia-oxidizing bacteria and nirK gene copy numbers), and promoting N2O reduction (by increasing nosZII gene copy numbers). Our results support the potential use of n-hexadecanoic acid in enhancing crop productivity and mitigating N2O emissions in agricultural soils.

Virus decay and community composition in virus-amended sterile soil under slurry and unsaturated conditions

Soil viruses are abundant and diverse. The available research suggests viruses play a significant role in shaping the structure and function of soil microbial communities. Their effects are modulated by various environmental factors, including soil temperature, moisture, and geochemical conditions. This study investigated the persistence/inactivation of naturally occurring soil viruses added to sterilized soil, providing insights into virus decay under abiotic conditions. Soil microcosm experiments under saturated (slurry) conditions (5 g:12 mL) and unsaturated conditions (60% of field capacity) revealed a consistent decline in viral abundance over time. Under saturated conditions, there was a reduction of over 90% in viral abundance after 10 d, a steeper decline than the 55% reduction observed under unsaturated conditions during the same length of incubation. Notably, the composition of viruses also changed over time, and the remaining viruses demonstrated infectious capabilities for up to 13 d in saturated and 16 d in unsaturated soil, evidenced by changes in viral abundance upon the addition of live bacteria. Introducing live bacteria reduced the net viral dissipation in saturated soil but resulted in a net increase in viral abundance in unsaturated soil from 4.49 × 108 to 6.76 × 109 within 3 days. The increase in viral abundance in the unsaturated soil was partly due to the emergence of new viruses from prophage induction. This research presents a preliminary exploration into extracellular persistence of soil viruses under varying moisture conditions.

Changes in soil microbial functions involved in the carbon cycle response to conventional and biodegradable microplastics

Biodegradable mulch film has become an encouraging alternative to conventional petroleum–based plastic, but it is likely to generate more microplastics (MPs) than conventional films with lower resistance and thus profoundly affects the soil environment. However, the effects of biodegradable (BMPs) and conventional polyethylene MPs (PE–MPs) on soil microbial carbon (C) cycle remain unclear. Here, metagenomic sequencing was used to investigate microbial functional and relative taxonomic traits in response to PE–MP and BMP addition (5 % w/w) via a soil microcosm experiment. The results showed that the presence of BMPs, rather than PE–MPs, significantly changed soil microbial C cycling patterns at the functional and taxonomic levels. In soils, BMP addition significantly increased the abundances of genes regulating aerobic respiration, C decomposition (intracellular), C fixation, fermentation and CO oxidation pathways compared to those in the control and PE–MP added soils. Specifically, BMPs promoted soil starch and PHA (liable C) degradation, acetate and ethanol fermentation, Calvin–Benson–Bassham (CBB) cycle and 3–hydroxypropionate/4–hydroxybutyrate (3HP/4HB) associated with C fixation. Most of these C cycling pathways were further strengthened in the microplastisphere of BMPs. Furthermore, MPs selectively enriched specific taxa on their surface and subsequently increased their abundance in soils; Bradyrhizobium, Ramlibacter and Variovorax (enriched by BMPs) positively regulated labile C degradation, and Amycolatopsis and Nocardia (enriched by PE–MPs) promoted recalcitrant C degradation. Moreover, Pseudonocardia and Variovorax that were enriched by BMPs improved C dissimilation and assimilation by regulating fermentation and C fixation processes, respectively. Taken together, these results improve the understanding of the influence of conventional and biodegradable MPs on soil C cycling pathways and related microbial communities, highlighting that the presence of BMPs rather than PE–MPs accelerates soil C turnover.

Effect of Microplastics and Phenanthrene on Soil Chemical Properties, Enzymatic Activities, and Microbial Communities

Microplastic and polycyclic aromatic hydrocarbon (PAHs) pollution have received increasing attention due to their ubiquitous distribution and potential risks in soils. However, the effects of microplastics-PAHs combined pollution on soil ecosystems remain unclear. Polyethylene (PE)/polypropylene (PP) and phenanthrene (PHE) were selected as the representatives of microplastics and PAHs, respectively. A 300-day soil microcosm experiment was conducted to study the single and combined effects of PE/PP and PHE on soil chemical properties, enzymatic activities, and bacterial communities (i.e., quantity, composition, and function), using the soil agricultural chemical analysis method and 16S amplicon sequencing technology. The interactions of soil properties, enzyme activities, and flora in the presence of PE/PP and PHE were analyzed. The results showed that the addition of PE/PP and PHE slightly changed the pH, available phosphorus (AP), and microbial quantity (i.e., bacteria, actinomycetes, and mold) but considerably increased the fluorescein diacetate hydrolase (FDAse) activity. There was a significant enhancement of soil organic matter (SOM) and urease activity in PE, PP, PHE-PE, and PHE-PP amended systems. PHE, PHE-PE, and PHE-PP obviously increased the dehydrogenase/neutral phosphatase activities and available nitrogen (AN) content. PHE had little effect on the microbial community. The PE, PP, PHE-PE, and PHE-PP addition influenced the microbial community to some extent. PE/PP and PHE showed positive effects on the energy production, growth, and reproduction of soil microorganisms and then accelerated the metabolism/degradation of pollutants and membrane transport. The changes in AN and SOM induced by PE/PP and PHE were the key factors affecting soil enzyme activities. Alterations in AN, AP, and pH were mainly responsible for the increase in microbial population. The changes in the microbial community were related to soil chemical properties and enzyme activities, and SOM had a significant effect on the microbial community. The presence of different carbon sources (PE/PP and PHE) in the soil and the microbial interaction also affected the microbiota. In conclusion, the addition of single or combined pollutants of PE/PP and PHE influenced the soil chemical properties, enzymatic activities, bacterial communities, and their interaction processes, thus facilitating the adaptation of the microbial community to pollutant stress.

The impact of microplastics on sulfur REDOX processes in different soil types: A mechanism study

Microplastics can potentially affect the physical and chemical properties of soil, as well as soil microbial communities. This could, in turn, influence soil sulfur REDOX processes and the ability of soil to supply sulfur effectively. However, the specific mechanisms driving these effects remain unclear. To explore this, soil microcosm experiments were conducted to assess the impacts of polystyrene (PS) and polyphenylene sulfide (PPS) microplastics on sulfur reduction-oxidation (REDOX) processes in black, meadow, and paddy soils. The findings revealed that PS and PPS most significantly decreased SO42- in black soil by 9.4%, elevated SO42- in meadow soil by 20.8%, and increased S2- in paddy soil by 20.5%. PS and PPS microplastics impacted the oxidation process of sulfur in soil by influencing the activity of sulfur dioxygenase, which was mediated by α-proteobacteria and γ-proteobacteria, and the oxidation process was negatively influenced by soil organic matter. PS and PPS microplastics impacted the reduction process of sulfur in soil by influencing the activity of adenosine-5′-phosphosulfate reductase, sulfite reductase, which was mediated by Desulfuromonadales and Desulfarculales, and the reduction process was positively influenced by soil organic matter. In addition to their impacts on microorganisms, it was found that PP and PPS microplastics directly influenced the structure of soil enzymes, leading to alterations in soil enzyme activity. This study sheds light on the mechanisms by which microplastics impact soil sulfur REDOX processes, providing valuable insights into how microplastics influence soil health and functioning, which is essential for optimizing crop growth and maximizing yield in future agricultural practices.

Biodegradable microplastics boost dissimilatory nitrate reduction to ammonium (DNRA) process contributing to ammonium nitrogen retention in farmland soils

Microplastics (MPs) pollution in agriculture ecosystems profoundly affects biogeochemical cycles. However, the impacts of MPs, particularly biodegradable MPs, on dissimilatory nitrate reduction to ammonium (DNRA) process remain unclear. Herein, the alterations in denitrification and DNRA pathways and underlying mechanism by different MPs exposures (including conventional nonbiodegradable MPs (polyethylene (PE) and polypropylene (PP)) and biodegradable MPs (polylactic acid (PLA) and polybutylene adipate terephthalate (PBAT)) were explored via soil microcosm experiments accompanied with 15N isotope tracer technology and 16S rRNA high-throughput sequencing. Compared with control, PE and PP increased the rates of denitrification by 117–126% but significantly decreased DNRA rates by 39.3–63.4%, whereas DNRA activities in PLA and PBAT treatments were remarkably boosted by 163–242% and dominated soil nitrate bioreduction (6.67–8.69 μg N g−1 d −1). This differentiation was attributed to the nutrient imbalance induced by MPs and distinctly selective effects of MPs on functional microbes. Microbial interaction mechanism further suggested that limited bioavailable carbon intensified the competition between heterotrophic denitrifiers (e.g., Bacillus, Sphingomonas and Microvirga) and DNRA bacteria (e.g., Luteitalea and Streptomyces) for electron donor in nonbiodegradable MPs treatments, reducing the abundances of DNRA bacteria. However, the high bioavailable C/NOx– ratio resulting from biodegradable MPs degradation released such competition and more greatly promoted the activities of DNRA bacteria than denitrifiers, facilitating ammonium retention in soils. Collectively, this study highlights the promotion of biodegradable MPs on soil ammonium recycle via DNRA process in farmland ecosystems and can shed some light on current plastic mulch-film management toward a sustainable and cleaner agricultural industry.

Biochar-plant interactions enhance nonbiochar carbon sequestration in a rice paddy soil

Soil amendment with biochar is being promoted as a promising strategy for carbon (C) stabilization and accrual, which are key to climate change mitigation. However, it remains elusive on how biochar addition influences nonbiochar C in soils and its mechanisms, especially in the presence of plants. Here we conducted a 365-day soil microcosm experiment with and without adding 13C-labeled biochar into topsoil to quantify changes in nonbiochar C in the topsoil and subsoil in the presence or absence of rice plants and to determine the mechanisms by which biochar controls nonbiochar C accrual in the soil profile. The nonbiochar C content of topsoil was not affected by biochar addition in the absence of rice plants, but was significantly increased by 4.5% in the presence of rice plants, which could result from increases in the soil macroaggregate fraction, iron (Fe)-bound nonbiochar organic C content, and fungal biomass collectively. However, biochar amendment had no effect on the content of nonbiochar organic C in the subsoil. Overall, biochar-plant interactions drive more nonbiochar C sequestration in the topsoil, and the changes of nonbiochar C in planted soils following biochar addition should be quantified to better assess the soil C sequestration potential in agricultural lands.

Soil rare microorganisms mediated the plant cadmium uptake: The central role of protists

Plants and microorganisms symbiotically mediate and/or catalyse the turnover of elements in rhizosphere soils, thus directly influencing the effectiveness of phytoremediation in addressing heavy metal contamination. Soil rare microbial communities are diverse but not well understood in terms of their importance for phytoremediation. In this study, we simulated the loss of rare microorganisms through dilution-to-extinction approach, and investigated the effects on integrated rhizosphere microbiome with soil microcosm experiments, including bacteria, fungi, protists, and microfauna. Additionally, we explored the implications for ryegrass (Lolium multiflorum Lam.) growth and its uptake of Cd (cadmium). Compared with the undiluted group, ryegrass exhibited a significant decrease in Cd uptake ranging from 52.34 % to 73.71 % in the rare species-loss soils, indicating a lack of functional redundancy in rhizosphere soil microbial community following rare species loss. Interestingly, these soils displayed a remarkable 1.79-fold increase in plant biomass and a 41.02 % increase in plant height. By sequencing the 16S, 18S, and ITS rRNA gene amplicons of rhizosphere microbes, we found that soil rare species loss decreased the rhizosphere microbial α-diversity, changed the community structures, and shifted the functional potential. Protists were particularly affected. Through the analysis of species co-occurrence networks, along with the partial least squares path modeling, we found that the diversity of protists and bacteria and the co-occurring network connectivity of protists and fungi contributed most to plant Cd uptake and growth. These results highlighted the potential significance of rare microorganisms, particularly protists, in phytoextraction of Cd-contaminated soils, owing to their central role in the microbial food web.

Investigating the impact of microplastics on sulfur mineralization in different soil types: A mechanism study

Microplastics can affect the physicochemical properties of soil and soil microorganisms, potentially resulting in changes in the soil sulfur mineralization and its capacity to supply available sulfur. However, the specific mechanisms underlying these effects remain unclear. We performed soil microcosm experiments, in which the effects of polystyrene (PS) and polyphenylene sulfide (PPS) microplastics on sulfur mineralization were examined in black, meadow, and paddy soils under flooded and dry conditions. Under dry condition, the presence of PS and PPS microplastics impeded sulfur (S) mineralization in black and paddy soils, but promoted sulfur mineralization in meadow soil. The size of microplastics was identified as the primary factor influencing sulfur mineralization in black soil, while in meadow soil, it was influenced by the microplastics type. In the case of paddy soil, the concentration of microplastics was the key factor affecting sulfur mineralization. During the flooding period, PS and PPS microplastics in black and paddy soils curtailed sulfur mineralization, however expedited sulfur mineralization in meadow soil, with PS enhancing soil sulfur mineralization more pronouncedly than PPS in black soil. The type and concentration of microplastics were identified as the main factors affecting sulfur mineralization in black soil, while in paddy soil, it was influenced by the size of microplastics. The principal regulating factors of soil sulfur mineralization were the sulphatase and arylsulfatase enzymes produced by Actinobacteria, Xanthomonadales, and Rhizobiales microorganisms, while organic matter and Olsen-P also had an influential role. Additionally, microplastics directly affected the structure of soil enzymes, thereby altering soil enzyme activities. This study provided insights into the mechanism by which microplastics affect soil sulfur mineralization, offering significant implications for assessing the influence of microplastics on soil sulfur availability and making informed decisions about sulfur application in future agricultural practices.