Partial substitution of manure increases N2O emissions in the alkaline soil but not acidic soils

The fertilization regimes of combining manure with synthetic fertilizer are benefits for crop yields and soil fertility in cropping systems as compared to sole synthetic fertilization, but the responses of nitrous oxide (N2O) emissions to these practices are inconsistent in the literatures. We hypothesized that it is caused by different proportions of nitrogen (N) applied as manure and various soil properties. Here, we conducted a microcosm experiment, and measured the N2O emissions from control (no N) and five manure substitution treatments (supplied 100 mg N kg-1 using the combination of urea with manure) with a range of proportions of N applied as manure (0, 25%, 50%, 75%, and 100%) in three different soil types (fluvo-aquic soil, black soil, and latosol) under aerobic condition. The stimulated effect on N2O emissions was more pronounced after manure application in an alkaline soil with high nitrification rate, due to relatively rapid soil DOC depletion and N mineralization of manure. N2O emissions from partial substitution of urea with manure were significantly higher than manure-only addition under high soil pH due to abundant labile C from manure. However, there was no difference between manure substitution treatments under acid soils. Nitrification inhibitor substantially decreased N2O emissions with increasing soil pH, but it was less effective in mitigating N2O emissions with larger proportion of manure. This is likely due to the slow nitrification under low soil pH, and denitrification derived N2O increased with increasing manure application rate. Collectively, our study shows that the application of manure substitution to alkaline soils requires careful consideration, which might have rapid nitrification potential and hence trigger significant N2O emissions. The knowledge gained in this work will help the decision-makers in optimizing a sound N fertilization regime interacted with soil properties for sustainable crop production and N2O mitigation.

Fate, risk and sources of antibiotic resistome and its attenuation dynamics in the river water-sediment system: Field and microcosm study

Antibiotic resistance genes (ARGs) in rivers have received widespread attentions. Deciphering the fate and spread mechanisms of ARGs in river system can contribute to the design of effective strategies for reducing resistome risk in the environment. Although some studies have reported the prevalence and distribution of ARGs in rivers worldwide, few have systematically explored their fates, sources and risks in river water-sediment system. Also, the role of natural sunlight on the attenuation and fate of ARGs in river remains to be demonstrated. To fill the gaps, field investigation and microcosm experiment have been conducted in this study to reveal the fate, risk, source-sink relationship and attenuation dynamics of ARGs in an urban river water-sediment system, by utilizing high-throughput sequencing-based metagenomic assembly analysis and machine-learning-based source tracking tool. In all, 527 unique ARGs belonging to 29 antimicrobial classes were identified in the river. Relatively, the level of ARGs in the sediments were significantly higher (p < 0.05) than that in the waters. Variance partitioning analysis indicated the biotic and abiotic factors co-governed the riverine resistome, totally explaining 76% and 83% variations of ARGs in the waters and sediments, respectively. Microcosm experiment under natural light and dark condition showed that light induced the decay of ARGs in the waters and might promote their transfers from waters to sediments, which were also confirmed by the attenuation dynamics of bacteria in the experimental water-sediment system. Notably, the co-occurrences of ARGs with MGEs and VFs on the same contigs suggested resistome risk in the river, and relatively, the risk scores in the sediments were significantly higher (p < 0.05) than those in the waters. Source apportionment with metagenomic resistome signatures showed the Wenyu River was the most dominant contributor of ARGs in the downstream, with average contributions of 44.5% and 40.8% in the waters and sediments, respectively.

The co-presence of polystyrene nanoplastics and ofloxacin demonstrates combined effects on the structure, assembly, and metabolic activities of marine microbial community

Nanoplastic is increasing in environments and can address toxic effects on various organisms. Particle size, concentration, and surface functionalization most influence nanoplastic toxicity. Besides, nanoplastic can adsorb other contaminants (e.g., antibiotics) to aggravate its adverse effects. The combined effects of nanoplastics and antibiotics on planktonic/benthic microbial communities, however, are still largely unknown. In this study, the combined effects of polystyrene nanoplastic and ofloxacin on the structure, assembly, and metabolic activities of marine microbial communities were investigated based on amplicon sequencing data. The results mainly demonstrate that: (1) nanoplastic and ofloxacin have greater impacts on prokaryotic communities than eukaryotic ones; (2) niche breadths of planktonic prokaryotes and benthic eukaryotes were shrank with both high nanoplastic and ofloxacin concentrations; (3) increased ofloxacin mainly reduces nodes/edges of co-occurrence networks, while nanoplastic centralizes network modularity; (4) increased nanoplastic under high ofloxacin concentration induces more differential prokaryotic pathways in planktonic communities, while benthic communities are less influenced. The present work indicates that co-presence of nanoplastics and ofloxacin has synergistic combined effects on community structure shifts, niche breadth shrinking, network simplifying, and differential prokaryotic pathways inducing in marine microbial communities, suggesting nanoplastics and its combined impacts with other pollutions should be paid with more concerns.

Changes in bacterial diversity, co-occurrence pattern, and potential pathogens following digestate fertilization: Extending pathogen management to field for anaerobic digestion of livestock manure

Digestate can spread pathogens into agroecosystem, posing serious threats to public health. However, the effect of digestate fertilization on digestate- or soil-borne pathogens has not been fully explored. Herein, two settings of microcosm experiment were performed with arable soil and digestate collected at two sites (Beilangzhong or Shunyi) to dissect the succession of the total and potential pathogenic bacterial communities following digestate fertilization. Each experimental setting consisted of three treatments, including digestate aerobically incubated in sterilized soil, and soil amended with sterilized or non-sterilized digestate. Digestate-borne potential pathogenic bacteria were enriched after the aerobic incubation, with Streptococcus sobrinus in the Beilangzhong setting, and Escherichia coli and Enterococcus faecium in the Shunyi setting. Potential soil-borne pathogenic bacteria, such as Acinetobacter lowffii and Pseudomonas fluorescens, were stimulated by the sterilized digestate in the Shunyi setting. Interestingly, S. sobrinus, E. coli, and Ent. faecium did not increase when digestate was amended into the non-sterilized soil, suggesting that soil microorganisms can inhibit the resurgence of these digestate-borne pathogens. A large-scale survey further revealed that organic fertilization exerted a site-dependent effect on different species of potential pathogen, but it did not enrich the total relative abundance of potential pathogenic bacteria in soils. Collectively, these results highlight that pathogen management of anaerobic digestion of livestock manure needs to be extended from anaerobic reactor to field.

Litter decomposition can be reduced by pesticide effects on detritivores and decomposers: Implications for tropical stream functioning

Understanding which factors affect the process of leaf litter decomposition is crucial if we are to predict changes in the functioning of stream ecosystems as a result of human activities. One major activity with known consequences on streams is agriculture, which is of particular concern in tropical regions, where forests are being rapidly replaced by crops. While pesticides are potential drivers of reduced decomposition rates observed in agricultural tropical streams, their specific effects on the performance of decomposers and detritivores are mostly unknown. We used a microcosm experiment to examine the individual and joint effects of an insecticide (chlorpyrifos) and a fungicide (chlorothalonil) on survival and growth of detritivores (Anchytarsus, Hyalella and Lepidostoma), aquatic hyphomycetes (AH) sporulation rate, taxon richness, assemblage structure, and leaf litter decomposition rates. Our results revealed detrimental effects on detritivore survival (which were mostly due to the insecticide and strongest for Hyalella), changes in AH assemblage structure, and reduced sporulation rate, taxon richness and microbial decomposition (mostly in response to the fungicide). Total decomposition was reduced especially when the pesticides were combined, suggesting that they operated differently and their effects were additive. Importantly, effects on decomposition were greater for single-species detritivore treatments than for the 3-species mixture, indicating that detritivore species loss may exacerbate the consequences of pesticides of stream ecosystem functioning.

Adverse effects of levofloxacin and oxytetracycline on aquatic microbial communities

The widespread use of levofloxacin (LEV) and oxytetracycline (OTC) in hospitals and farms inevitably contributes to water pollution through waste disposal processes, municipal wastewater treatment, and manure application to farmlands, which adversely affects aquatic microorganisms. Here, we evaluated the toxicity of LEV and OTC to cyanobacteria and eukaryotic algae monocultures and freshwater microcosms. Three test cyanobacteria were inhibited by both LEV and OTC at all examined concentrations. The growth of the eukaryotic organisms C. vulgaris and Monoraphidium sp. was only inhibited by high concentrations of OTC ranging from 1000 to 10,000 μg/L; however, they were less sensitive to LEV and OTC than cyanobacteria. In the aquatic microcosms, 5 μg/L of LEV and OTC did not affect the alpha diversity of prokaryotic and eukaryotic communities or the composition of the eukaryotic microbial communities after 14 d of exposure. However, this concentration of LEV and OTC significantly changed the prokaryotic microbial community structure at the genus level, and different antibiotics affected the prokaryotic microbial community differently, suggesting that different antibiotics affect prokaryotes through different molecular mechanisms, thereby leading to differences in prokaryotic microbial growth patterns. Moreover, the changes in the prokaryotic microbial community composition suggested that low antibiotic concentrations in water could disturb prokaryotic microbial communities and cause ecological risks.

Greenhouse gas emissions from intact riparian wetland soil columns continuously loaded with nitrate solution: a laboratory microcosm study

In this study, we aimed at determining greenhouse gas (GHG) (CO₂, CH₄, and N₂O) fluxes exchange between the soil collected from sites dominated by different vegetation types (Calamagrostis epigeios, Phragmites australis, and Carex schnimdtii) in nitrogenous loaded riparian wetland and the atmosphere. The intact soil columns collected from the wetland were incubated in laboratory and continuously treated with [Formula: see text]-enriched water simulating downward surface water percolating through the soil to become groundwater in a natural system. This study revealed that the soil collected from the site dominated by C. epigeios was net CO₂ and N₂O sources, whereas the soil from P. australis and C. schnimdtii were net sinks of CO₂ and N₂O, respectively. The soil from the site dominated by C. schnimdtii had the highest climate impact, as it had the highest global warming potential (GWP) compared with the other sites. Our study indicates that total organic carbon and [Formula: see text] concentration in the soil water has great influence on GHG fluxes. Carbon dioxide (CO₂) and N₂O fluxes were accelerated by the availability of higher [Formula: see text] concentration in soil water. On the other hand, higher [Formula: see text] concentration in soil water favors CH₄ oxidation, hence the low CH₄ production. Temporally, CO₂ fluxes were relatively higher in the first 15 days and reduced gradually likely due to a decline in organic carbon. The finding of this study implies that higher [Formula: see text] concentration in wetland soil, caused by human activities, could increase N₂O and CO₂ emissions from the soil. This therefore stresses the importance of controls of [Formula: see text] leaching in the mitigation of anthropogenic N₂O and CO₂ emissions.

Enhanced lake-eutrophication model combined with a fish sub-model using a microcosm experiment

Eutrophication models are effective tools for assessing aquatic environments. The lake ecosystem consists of at least three trophic levels: phytoplankton, zooplankton, and fish. However, only a few studies have included fish sub-models in existing eutrophication models. In addition, no specific value or range is available for certain parameters of the fish sub-model. In the present study, a lake microcosm experimental system was established to determine the range of fish sub-model parameters. A three-trophic-level eutrophication model was established by combining the fish sub-model and eutrophication model. The Bayesian Markov Chain Monte Carlo and genetic algorithm method was used to calibrate the parameters of the eutrophication model. The results show that the maximum relative errors were due to phosphate (5.31%), the minimum relative error was due to nitrate (1.94%), and the relative error of dissolved oxygen, ammonia N, zooplankton, and chlorophyll ranged from 3 to 4%. Compared with the two-trophic-level eutrophication model, the relative errors of ammonia nitrogen (4.17%), phosphate (- 5.31%), and nitrate (1.94%) in the three-trophic-level eutrophication model were lower than those in the two-trophic-level eutrophication model, indicating that the three-trophic-level eutrophication model can obtain highly accurate simulation results and provide a better understanding of eutrophication models for future use.

Simulating eutrophication in a metacommunity landscape: an aquatic model ecosystem

Aquatic habitats are often characterized by both high diversity and the threat of multiple anthropogenic stressors. Our research deals with temporal and spatial aspects of two of the main threats for biodiversity, namely eutrophication and fragmentation. It is known that pulsed nutrient addition creates temporal differences in environmental conditions, promoting higher diversity by preventing the best competitor from dominating. Furthermore, a metacommunity landscape with intermediate connectivity increases autotrophs' diversity and stability. However, it is yet unclear if these two factors are additive in increasing diversity and if the effects extend to the consumer level. With the goal of understanding how eutrophication impacts biodiversity in a metacommunity landscape, we hypothesized that pulsed nutrient addition will increase diversity among both autotrophs and heterotrophs, and this effect will be even greater in a metacommunity landscape. We simulated eutrophication and fragmentation in a microcosm experiment using phytoplankton as primary producers and microzooplankton as grazers. Four treatment combinations were tested including two different landscapes (metacommunity and isolated community) and two forms of nutrient supply (pulsed and continuous): metacommunity/continuous nutrient addition (MC); metacommunity/pulsed nutrient addition (MP); isolated community/continuous nutrient addition (IC); isolated community/pulsed nutrient addition (IP). As expected, pulsed nutrient addition had a persistent positive effect on phytoplankton diversity, with a weaker influence of landscape type. In contrast, the grazer community strongly benefited from a metacommunity landscape, with less significance of pulsed or continuous nutrient addition. Overall, the metacommunity landscape with pulsed nutrient supply supported higher diversity of primary producers and grazers.

Drought alters the trophic role of an opportunistic generalist in an aquatic ecosystem

Abiotic change can alter species interactions by modifying species' trophic roles, but this has not been well studied. Until now, bromeliad-dwelling tipulid larvae were thought to positively affect other macroinvertebrates via a facilitative processing chain. However, under drought, we found the opposite. We performed two microcosm experiments in which we factorially manipulated water level and predation by tipulids, and measured the effects on mosquito and chironomid larvae. The experiments differed in whether high water was contrasted with low or no water, allowing us to distinguish between the effects of desiccation stress (no water) and increased encounter rates due to compression of habitat or reductions in prey mobility (low and no water). We also included a caged tipulid treatment to measure any non-consumptive effects. As well as directly reducing prey survival, reductions in water level indirectly decreased chironomid and mosquito survival by altering the trophic role of tipulids. Our results suggest that increased encounter rates with prey led to tipulids becoming predatory under simulated drought, as tipulids consumed prey under both low and no water. When water level was high, tipulids exerted negative non-consumptive effects on prey survival. Because opportunistic predators are common throughout aquatic ecosystems, the effects of drought on the trophic roles of species may be widespread. Such restructuring of food webs should be considered when attempting to predict the ecological effects of environmental change.

Impacts of earthworm activity on the fate of straw carbon in soil: a microcosm experiment

Earthworms not only facilitate carbon (C) stabilization, but also accelerate organic matter mineralization by enhancing microbial respiration. However, the fate (mineralization vs stabilization) of newly added C by straw returning in arable lands with earthworm activity is still unclear. In the present 40 days incubation study, we incorporated artificially ¹³C-labeled straw into soil with and without presence of earthworms (Metaphire guillelmi). Flux measurements of CO₂ from soil (mineralization) were taken regularly, while straw-derived C remaining in the soil (stabilization) was measured at the end of the incubation. There was no significant difference of the cumulative CO₂ emission between earthworm presence and absence treatment. However, earthworm presence significantly decreased straw-derived cumulative CO₂-C emission when compared with the treatment without earthworm. Besides, earthworm incubation led to a significantly low light fraction organic carbon (LFOC) content and straw-derived LFOC proportion. Relative to the non-earthworm treatment, straw-derived C content significantly decreased in micro-aggregates (< 0.25 mm), but increased in large macro-aggregates (> 2 mm) in the earthworm treatment. In total, only 3.8% of added straw C was assimilated by earthworm within 40 days, while most of the straw C remained in the soil. Earthworms decreased straw-derived CO₂-C emission from 10.0 to 8.1% when compared with the non-earthworm treatment. In the present short period incubation experiment, compared with the soil without earthworms, the presence of Metaphire guillelmi (1) resulted a higher soil CO₂ emissions, which may mainly evolved from the older SOC, and (2) stabilized more residue-derived C in the soil aggregates. We therefore propose that Metaphire guillelmi may increase soil organic carbon pool turnover rates in the short term after straw returning by replacement of older SOC with newly added straw C.

Effects of Copper Exposure on Photosynthesis and Growth of the Seagrass Cymodocea nodosa: An Experimental Assessment

Seagrasses form some of the most important coastal habitats. They may be negatively affected by trace metal contamination in certain coastal areas. In this study we experimentally assessed selected morphological and physiological traits of the seagrass Cymodocea nodosa, with increasing concentrations of copper (Cu) under controlled laboratory conditions. Short term (21 days) sub-lethal effects such as decreased maximum quantum yield, increased leaf necrosis and decreased shoot growth and shoot recruitment were clearly observed at the highest Cu exposure (5 mg L(-1)), while the effects were weaker at the intermediate concentration (2.5 mg L(-1)) and almost absent at the lowest concentration (1 mg L(-1)), indicating that this species is highly tolerant to copper exposure, at least in the short term. This fact could help to explain its distribution in relatively polluted coastal waters.

Arsenic mobilization from sediments in microcosms under sulfate reduction

Arsenic is often assumed to be immobile in sulfidic environments. Here, laboratory-scale microcosms were conducted to investigate whether microbial sulfate reduction could control dissolved arsenic concentrations sufficiently for use in groundwater remediation. Sediments from the Vineland Superfund site and the Coeur d'Alene mining district were amended with different combination of lactate and sulfate and incubated for 30-40 days. In general, sulfate reduction in Vineland sediments resulted in transient and incomplete arsenic removal, or arsenic release from sediments. Sulfate reduction in the Coeur d'Alene sediments was more effective at removing arsenic from solution than the Vineland sediments, probably by arsenic substitution and adsorption within iron sulfides. X-ray absorption spectroscopy indicated that the Vineland sediments initially contained abundant reactive ferrihydrite, and underwent extensive sulfur cycling during incubation. As a result, arsenic in the Vineland sediments could not be effectively converted to immobile arsenic-bearing sulfides, but instead a part of the arsenic was probably converted to soluble thioarsenates. These results suggest that coupling between the iron and sulfur redox cycles must be fully understood for in situ arsenic immobilization by sulfate reduction to be successful.

Enhanced and stabilized arsenic retention in microcosms through the microbial oxidation of ferrous iron by nitrate

Magnetite strongly retains As, and is relatively stable under Fe(III)-reducing conditions common in aquifers that release As. Here, laboratory microcosm experiments were conducted to investigate a potential As remediation method involving magnetite formation, using groundwater and sediments from the Vineland Superfund site. The microcosms were amended with various combinations of nitrate, Fe(II) (aq) (as ferrous sulfate) and lactate, and were incubated for more than 5 weeks. In the microcosms enriched with 10 mM nitrate and 5 mM Fe(II) (aq), black magnetic particles were produced, and As removal from solution was observed even under sustained Fe(III) reduction stimulated by the addition of 10 mM lactate. The enhanced As retention was mainly attributed to co-precipitation within magnetite and adsorption on a mixture of magnetite and ferrihydrite. Sequential chemical extraction, X-ray absorption spectroscopy and magnetic susceptibility measurements showed that these minerals formed at pH 6-7 following nitrate-Fe(II) addition, and As-bearing magnetite was stable under reducing conditions. Scanning electron microscopy and X-ray diffraction indicated that nano-particulate magnetite was produced as coatings on fine sediments, and no aging effect was detected on morphology over the course of incubation. These results suggest that a magnetite based strategy may be a long-term remedial option for As-contaminated aquifers.