Response of denitrifying genes coding for nitrite (nirK or nirS) and nitrous oxide (nosZ) reductases to different physico-chemical parameters during agricultural waste composting

nosZ II/nosZ I ratio regulates the N2O reduction rates in the eutrophic lake sediments

Nitrous oxide (N2O) is a more potent greenhouse gas with an atmospheric lifetime of 121 years, contributing significantly to climate change and stratospheric ozone depletion. Lakes are hotspots for N2O release due to the imbalance between N2O sources and sinks. N2O-reducing bacteria are the only biological means to mitigate N2O emission, yet their roles in lakes are not well studied. This study investigated the potential for N2O reduction, keystones of typical and atypical N2O-reducing bacterial communities, and their correlations with environmental factors in the sediments of Lake Taihu through microcosm experiments, high-throughput sequencing of the nosZ gene, and statistical modeling. The results showed that potential N2O reduction rates in sediments ranged from 13.71 to 76.95 μg N2O g-1 d-1, with lower rates in December compared to March and July. Correlation analysis indicated that the nosZ II/nosZ I ratio and the trophic lake index (TLI) were the primary factors influencing N2O reduction rates and N2O-reducing bacterial community structures. The genera Pseudogulbenkiania and Ardenticatena were identified as the most abundant typical and atypical N2O-reducing bacteria, respectively, and were also recognized as the keystone taxa. Quantitative real-time PCR (qPCR) results revealed that nosZ II was more abundant than nosZ I in the sediments. Partial least squares path modeling (PLS-PM) further demonstrated that atypical N2O-reducing bacteria had significant positive effects on N2O reduction process in the sediments (p < 0.05). Overall, this study highlights the crucial ecological roles of atypical N2O-reducing bacteria in the sediments of the eutrophic lake of Taihu, underscoring their potential in mitigating N2O emissions.

Unraveling the impact of perfluorooctanoic acid on sulfur-based autotrophic denitrification process

PFOA has garnered heightened scrutiny for its impact on denitrification, especially given its frequent detection in secondary effluent discharged from wastewater treatment plants. However, it is still unclear what potential risk PFOA release poses to a typical advanced treatment process, especially the sulfur-based autotrophic denitrification (SAD) process. In this study, different PFOA concentration were tested to explore their impact on denitrification kinetics and microbial dynamic responses of the SAD process. The results showed that an increase PFOA concentration from 0 to 1000 μg/L resulted in a decrease in nitrate removal rate from 9.52 to 7.73 mg-N/L·h. At the same time, it increased nitrite accumulation and N2O emission by 6.11 and 2.03 times, respectively. The inhibitory effect of PFOA on nitrate and nitrite reductase activity in the SAD process was linked to the observed fluctuations in nitrate and nitrite levels. It is noteworthy that nitrite reductase was more vulnerable to the influence of PFOA than nitrate reductase. Furthermore, PFOA showed a significant impact on gene expression and microbial community. Metabolic function prediction revealed a notable decrease in nitrogen metabolism and an increase in sulfur metabolism under PFOA exposure. This study highlights that PFOA has a considerable inhibitory effect on SAD performance.

Response of microbial communities and biogeochemical cycling functions to sediment physicochemical properties and microplastic pollution under damming and water diversion projects

Understanding the interactions among flow-sediment, microorganisms, and biogeochemical cycles is crucial for comprehending the ecological response mechanisms of dams and water diversion. This study focused on the spatial patterns of carbon, nitrogen, phosphorus, and sulfur (CNPS) cycle functional genes in the water resource for the middle route of the South-to-North Water Diversion Project in China, specifically the Danjiangkou Reservoir (comprising the Han and Dan reservoirs). The investigation incorporated sediment physicochemical properties and microplastic pollution. Numerous microbial species were identified, revealing that microbial communities demonstrated sensitivity to changes in sedimentary mud content. The communities exhibited greater β diversity due to finer sediment particles in the Han Reservoir (HR), whereas in the Dan Reservoir (DR), despite having higher sediment nutrient content and MPs pollution, did not display this pattern. Regarding the composition and structure of microbial communities, the study highlighted that sediment N and P content had a more significant influence compared to particle size and MPs. The quantitative microbial element cycling (QMEC) results confirmed the presence of extensive chemolithotrophic microbes and strong nitrogen cycle activity stemming from long-term water storage and diversion operations. The denitrification intensity in the HR surpassed that of the DR. Notably, near the pre-dam area, biological nitrogen fixation, phosphorus removal, and sulfur reduction exhibited noticeable increases. Dam construction refined sediment, fostering the growth of different biogeochemical cycling bacteria and increasing the abundance of CNPS cycling genes. Furthermore, the presence of MPs exhibited a positive correlation with S cycling genes and a negative correlation with C and N cycling genes. These findings suggest that variations in flow-sediment dynamics and MPs pollution have significant impact the biogeochemical cycle of the reservoir.

Strategies of soil microbial N-cycling in different cadmium contaminated soil with wheat straw return

Cadmium contamination inevitably affects the microbially mediated transformation of nitrogen in soils with wheat straw return. The responses of nitrogen functional microorganisms to cadmium in acidic and alkaline soils under wheat straw returned are still unclear. In this study, quantitative polymerase chain reaction (qPCR) and sequencing of nitrifying and denitrifying bacteria were performed to investigate the effects of wheat straw application on nitrogen conversion in different Cd-contaminated soils during an incubation experiment. Results showed that the presence of Cd decreased the abundance of hao gene catalyzing nitrification and norB gene catalyzing denitrification process, resulting the accumulation of NH4+-N and reduction of NO3--N in the acidic soils. Additionally, Cd-contamination stimulates the nitrification catalyzed by bacterial amoA gene and thus reduced the NH4+-N content in the alkaline soils. Meanwhile, Cd dominated the decrease of NO3--N content by promoting denitrification process catalyzed by nirS gene. Among all nitrifying and denitrifying microorganisms, Nitrosospira are tolerant to Cd stress under alkaline condition but sensitive to acidic condition, which dominantly harbored hao gene in the acidic soils and bacterial amoA gene in the alkaline soils. This study aimed to provide reasonable information for the rational adoption of wheat straw returning strategies to realize nitrogen regulation in Cd-contaminated farmland soil.

Nitrogen and sulfur cycling and their coupling mechanisms in eutrophic lake sediment microbiomes

Microorganisms play important roles in the biogeochemical cycles of lake sediment. However, the integrated metabolic mechanisms governing nitrogen (N) and sulfur (S) cycling in eutrophic lakes remain poorly understood. Here, metagenomic analysis of field and bioreactor enriched sediment samples from a typical eutrophic lake were applied to elucidate the metabolic coupling of N and S cycling. Our results showed significant diverse genes involved in the pathways of dissimilatory sulfur metabolism, denitrification and dissimilatory nitrate reduction to ammonium (DNRA). The N and S associated functional genes and microbial groups generally showed significant correlation with the concentrations of NH4+, NO2- and SO42, while with relatively low effects from other environmental factors. The gene-based co-occurrence network indicated clear cooperative interactions between N and S cycling in the sediment. Additionally, our analysis identified key metabolic processes, including the coupled dissimilatory sulfur oxidation (DSO) and DNRA as well as the association of thiosulfate oxidation complex (SOX systems) with denitrification pathway. However, the enriched N removal microorganisms in the bioreactor ecosystem demonstrated an additional electron donor, incorporating both the SOX systems and DSO processes. Metagenome-assembled genomes-based ecological model indicated that carbohydrate metabolism is the key linking factor for the coupling of N and S cycling. Our findings uncover the coupling mechanisms of microbial N and S metabolism, involving both inorganic and organic respiration pathways in lake sediment. This study will enhance our understanding of coupled biogeochemical cycles in lake ecosystems.

Comparative analysis of three next-generation sequencing techniques to measure nosZ gene abundance in Missouri claypan soils

Quantitative next-generation sequencing techniques have been critical in gaining a better understanding of microbial ecosystems. In soils, denitrifying microorganisms are responsible for dinitrogen (N2) production. The nosZ gene codes for nitrous oxide reductase, the enzyme facilitating the reduction of nitrous oxide (N2O) to N2. The objectives of this research were to: 1) understand how soil depth influences RNA concentration and nosZ gene abundance; 2) assess the spatial dependence of nosZ gene abundance in two claypan soil fields; and 3) compare and evaluate multiple RNA-based sequencing methods for quantifying nosZ gene abundance in soils in relation to dinitrogen (N2) production. Research sites consisted of two intensively studied claypan soil fields in Central Missouri, USA. Soil cores were collected from two landscape transects across both fields and analyzed for extractable soil RNA at two depths (0-15 cm and 15-30 cm). Measurements of nosZ gene abundance were obtained using real-time quantitative polymerase chain reaction (RT-qPCR), droplet digital polymerase chain reaction (ddPCR), and nanostring sequencing (NS). In both fields, soil RNA concentrations were significantly greater at 0-15 cm depth compared to 15-30 cm. These data indicated low overall soil microbial activity below 15 cm. Due to low quantities of extractable soil RNA in the subsoil, nosZ gene abundance was only determined in the 0-15 cm depth. Sequencing method comparisons of average nosZ gene abundance showed that NS results were constrained to a narrow range and were 10-20-fold lower than ddPCR and RT-qPCR at each landscape position within each field. Droplet digital PCR appears to be the most promising method, as it reflected changes in N2 production across landscape position.

Greenhouse gas emission characteristics during kitchen waste composting with biochar and zeolite addition

Aerobic kitchen waste composting can contribute to greenhouse gas (GHGs) emissions and global warming. This study investigated the effects of biochar and zeolite on GHGs emissions during composting. The findings demonstrated that biochar could reduce N2O and CH4 cumulative releases by 47.7 %and 47.9 %, respectively, and zeolite could reduce the cumulative release of CO2 by 28.4 %. Meanwhile, the biochar and zeolite addition could reduce the abundance of potential core microorganisms associated with GHGs emissions. In addition, biochar and zeolite reduced N2O emissions by regulating the abundance of nitrogen conversion functional genes. Biochar and zeolite were shown to reduce the impact of bacterial communities on GHGs emissions. In summary, this study revealed that biochar and zeolite can effectively reduce GHG emissions during composting by altering the compost microenvironment and regulating microbial community structure. Such findings are valuable for facilitating high-quality resource recovery of organic solid waste.

Characteristics of denitrification activity, functional genes, and denitrifying community composition in the composting process of kitchen and garden waste

N₂O can be easily produced during the co-composting of kitchen waste (KW) and garden waste (GW). This study investigated the effects of the co-composting of KW and GW at different ratios (1:2, 1:1.5, 1:1, and 1.5:1) on the denitrifying activities, functional genes, and community composition of denitrifiers. The results showed that the denitrification activity of KW and GW at a 1:2 ratio was the lowest. The gene abundances of nirS, nirK, nosZI, and nosZII were high on days 12 and 28 under the four different ratios. Network analysis demonstrated that nosZ-type denitrifiers could construct a complex and reciprocal bacterial network to promote the reduction of N₂O to N₂. Mantel test results revealed that nirS-, nirK-, nosZI-, and nosZII-type denitrifiers were significantly positively correlated with pH, C/N, and moisture content. These findings demonstrated that composting with appropriate proportions of KW and GW could reduce N₂O emissions caused by denitrification.

Effects of Nitrogen Input on Community Structure of the Denitrifying Bacteria with Nitrous Oxide Reductase Gene (nosZ I): a Long-Term Pond Experiment

Excessive nitrogen (N) input is an important factor influencing aquatic ecosystems and has received increasing public attention in the past decades. It remains unclear how N input affects the denitrifying bacterial communities that play a key role in regulating N cycles in various ecosystems. To test our hypothesis-that the abundance and biodiversity of denitrifying bacterial communities decrease with increasing N-we compared the abundance and composition of denitrifying bacteria having nitrous oxide reductase gene (nosZ I) from sediments (0-20 cm) in five experimental ponds with different nitrogen fertilization treatment (TN10, TN20, TN30, TN40, TN50) using quantitative PCR and pyrosequencing techniques. We found that (1) N addition significantly decreased nosZ I gene abundance, (2) the Invsimpson and Shannon indices (reflecting biodiversity) first increased significantly along with the increasing N loading in TN10-TN40 followed by a decrease in TN50, (3) the beta diversity of the nosZ I denitrifier was clustered into three groups along the TN concentration levels: Cluster I (TN50), Cluster II (TN40), and Cluster III (TN10-TN30), (4) the proportions of Alphaproteobacteria and Betaproteobacteria in the high-N treatment (TN50) were significantly lower than in the lower N treatments (TN10-TN30). (5) The TN concentration was the most important factor driving the alteration of denitrifying bacteria assemblages. Our findings shed new light on the response of denitrification-related bacteria to long-term N loading at pond scale and on the response of denitrifying microorganisms to N pollution.

Effect of nitrous oxide (N2O) on the structure and function of nitrogen-oxide reducing microbial communities

Nitrous oxide (N₂O) is a potent greenhouse gas that can be produced by nitrifying and denitrifying bacteria. Yet the effects of N₂O on microbial communities is not well understood. We used batch tests to explore the effects of N₂O on mixed denitrifying communities. Batch tests were carried out with acetate as the electron donor and with the following electron acceptors: nitrate (NO₃^-), nitrite (NO₂^-), N₂O, NO₃^- + N₂O, and NO₂^- + N₂O. Activated sludge from a municipal wastewater treatment plant was used as the inoculum. The bacteria grew readily with N₂O as the sole acceptor. When N₂O was provided along with NO₃^- or NO₂^-, it was used concurrently and resulted in higher growth rates than the same acceptors without added N₂O. The microbial communities resulting from N₂O addition were significantly different at the genus level from those with just NO₃^- or NO₂^-. Tests with N₂O as the sole added acceptor revealed a reduced diversity. Analysis of inferred gene content using PICRUSt2 indicated a greater abundance of genera with a complete denitrification pathway when growing on N₂O or NO₂^-, relative to all other tests. This suggests that specific N₂O reduction rates are high, and that N₂O alone selects for a low-diversity, fully denitrifying community. When N₂O is present with NO₂^- or NO₃^-, the microbial communities were more diverse and did not select exclusively for full denitrifiers. N₂O alone appears to select for a "generalist" community with full denitrification pathways and lower diversity. In terms of denitrification genes, the combination of acceptors with N₂O appeared to increase the number of microbes carrying nirK, while fully denitrifying bacteria appear more likely to carry nirS. Lastly, all the taxa in NO₂^- and N₂O samples were predicted to harbor nosZ. This suggests the potential for reduced N₂O emissions in denitrifying systems.

Impact of soil amendments on nitrous oxide emissions and the associated denitrifying communities in a semi-arid environment

Denitrifying bacteria produce and utilize nitrous oxide (N2O), a potent greenhouse gas. However, there is little information on how organic fertilization treatments affect the denitrifying communities and N2O emissions in the semi-arid Loess Plateau. Here, we evaluated how the denitrifying communities are responsible for potential denitrification activity (PDA) and N2O emissions. A field experiment was conducted with five fertilization treatments, including no fertilization (CK), mineral fertilizer (MF), mineral fertilizer plus commercial organic fertilizer (MOF), commercial organic fertilizer (OFP), and maize straw (MSP). Our result showed that soil pH, soil organic carbon (SOC), and dissolved organic nitrogen (DON) were significantly increased under MSP treatment compared to MF treatment, while nitrate nitrogen (NO3−−N) followed the opposite trend. Organic fertilization treatments (MOF, OFP, and MSP treatments) significantly increased the abundance and diversity of nirS- and nosZ-harboring denitrifiers, and modified the community structure compared to CK treatment. The identified potential keystone taxa within the denitrifying bacterial networks belonged to the distinct genera. Denitrification potentials were significantly positively correlated with the abundance of nirS-harboring denitrifiers, rather than that of nirK- and nosZ-harboring denitrifiers. Random forest modeling and structural equation modeling consistently determined that the abundance, community composition, and network module I of nirS-harboring denitrifiers may contribute significantly to PDA and N2O emissions. Collectively, our findings highlight the ecological importance of the denitrifying communities in mediating denitrification potentials and the stimulatory impact of organic fertilization treatments on nitrogen dynamics in the semi-arid Loess Plateau.

Effects of biochar and biogas residue amendments on N2O emission, enzyme activities and functional genes related with nitrification and denitrification during rice straw composting

This study was carried out to determine the response characteristics of N₂O emission, enzyme activities, and functional gene abundances involved in nitrification/denitirification process with biochar and biogas residue amendments during rice straw composting. The results revealed that N₂O release mainly occurred during the second fermentation phase. Biogas residue amendment promoted N₂O emission, while biochar addition decreased its emission by 33.6%. The nirK gene was abundant through composting process. Biogas residues increased the abundance of denitrification genes, resulting in further release of N₂O. Biochar enhanced nosZ gene abundance and accelerated the reduction of N₂O. Nitrate reductase (NR), nitrite reductase (NiR), N₂O reductase (N₂OR), and ammonia monooxygenase (AMO) activities were greatly stimulated by biochar or biogas residue rather than their combined addition. Pearson regression analysis indicated that N₂O emission negatively correlated with ammonium and positively correlated with nosZ, nirK, 18S rDNA, total nitrogen, and nitrate (P < 0.05).

Unveiling changes of microbial community involved in N and P removal in constructed wetlands with exposing to silver nanoparticles

Constructed wetlands (CWs) are environmentally friendly engineered systems to purify wastewater, with low-cost and easy maintenance. However, it is not clear on responses of functional microbes for nitrogen (N) and phosphorus (P) biotransformation in CWs to silver nanoparticles (Ag NPs). The high throughput sequencings were employed to reveal microbial communities in vertical flow subsurface CWs with stable operation for 120 days. The results indicated that NH₄⁺-N, TN and TP removal of soil layer decreased by 43.56%, 15.7% and 22.7% under stress of Ag NPs. Microbial richness index and compositions were affected, and control wetland enriched Sulfurospirillum, Desulfarculaceae and Flavobacterium whereas CWs exposed to Ag NPs enriched Desulfosporosinus and Desulfurispora from LEfSe analysis. Moreover, after dosing Ag NPs, relative abundances of functional genes amoA and hao for nitrification, nirK and norB for denitrification and ppx and phoA/phoD for phosphorus conversions in upper soil were significantly downregulated. Inhibition on functional bacteria and genes of Ag NPs explained poor removal efficiencies of nitrogen and phosphorus pollutants in CWs. Our findings give an insight into ecological toxicity of Ag NPs on CWs with N and P bioconversions and provide the understanding of response of nitrifiers, denitrifies and PAOs.

Effects of functional-membrane covering technique on nitrogen succession during aerobic composting: Metabolic pathways, functional enzymes, and functional genes

This study investigated and assessed the effect of the functional-membrane covering technique (FMCT) on nitrogen succession during aerobic composting. By comparative experiments involving high-throughput sequencing and qPCR, nitrogen metabolism (including the ko00910 pathway and functional enzyme and gene abundances) was analyzed, and the nitrogen succession mechanism was identified. The FMCT created a micro-positive pressure, improved the aerobic conditions, and increased the oxygen utilization rate and temperature. This strongly affected the nitrogen metabolism pathway and down-regulated the nitrifying and denitrifying bacteria abundances. The FMCT up-regulated the relative abundance of glutamate dehydrogenase and down-regulated the absolute abundances of AOB and nxrA. This and the high temperature increased NH₃ emissions by 13.78%-73.37%. The FMCT down-regulated the abundances of denitrifying gene groups (nirS + nirK)/nosZ and nitric oxide reductase associated with N₂O emissions and decreased N₂O emissions by 16.44%-41.15%. The results improve the understanding of the mechanism involved in nitrogen succession using the FMCT.

Efficacies of Nitrogen Removal and Comparisons of Microbial Communities in Full-Scale (Pre-Anoxic Systems) Municipal Water Resource Recovery Facilities at Low and High COD:TN Ratios

At a low COD:TN ratio (≤5) in influent, maintaining a longer HRT (≥9 h) and longer SRT (≥30 d) are suggested to improve higher N removal efficiency in case of operation at low DO (Dissolved oxygen) level (0.9 ± 0.2 mg-O2/L). However, in case of operation at high DO level (4.0 ± 0.5 mg-O2/L), short HRT (1 h) and typical SRT (17 d) make it possible to achieve nitrogen removal. On the other hand, at a high COD:TN ratio (≥8.4), a typical HRT (9–15 h), SRT (12–19 d), and DO level (1.3–2.6 mg-O2/L) would be applied. Microbial distribution analysis showed an abundance of AOA (Ammonia-oxidizing archaea) under conditions of low DO (≤0.9 mg-O2/L). Nitrosomonas sp. are mostly found in the all investigated water resource recovery facilities (WRRFs). Nitrosospira sp. are only found under operating conditions of longer SRT for WRRFs with a low COD:TN ratio. In comparison between abundances of Nitrobacter sp. and Nitrospira sp., abundances of Nitrobacter sp. are proportional to low DO concentration rather than abundance of Nitrospira sp. A predominance of nosZ-type denitrifiers were found at low DO level. Abundance of denitrifiers by using nirS genes showed an over-abundance of denitrifiers by using nirK genes at low and high COD:TN ratios.

Driving factors of nitrogen conversion during chicken manure aerobic composting under penicillin G residue: Quorum sensing and its signaling molecules

This study explored effects of different concentrations of penicillin G on nitrogen conversion, bacterial community composition, and quorum sensing during chicken manure aerobic composting. After composting, adding penicillin G down-regulated the abundance of 71 genera and up-regulated the abundance of 103 genera. These bacterial genera were mainly Firmicutes and Proteobacteria. 16S rRNA gene sequencing was employed for function prediction, and the results showed that the addition of penicillin G increased nitrification, reduced denitrification. The autoinducer-1 (AI-1), autoinducer-3 (AI-3) and Phr signal molecules further participated in the nitrogen cycle by regulating the population behavior among multiple bacterial genera. In addition, SEM analysis showed that the quorum sensing system negatively regulated the abundance of genus related to the nitrogen conversion during chicken manure aerobic composting. This is a new theoretical analysis of the research on the treatment of hazardous materials.

Food waste composting based on patented compost bins: Carbon dioxide and nitrous oxide emissions and the denitrifying community analysis

Mature compost and rice bran were used as bulking agents to perform Food Waste Rapid Composting (FWRC) in a patented composting bin. The characteristics of CO₂ and N₂O emission and the denitrifying community were investigated. The release of CO₂ and N₂O concentrated in the early composting stage and reduced greatly after 28 h, and the N₂O emission peak of the treatment with mature compost was 8.5 times higher than that of rice bran. The high N₂O generation resulted from massive denitrifying bacteria and NO_x^--N in the composting material. The relative abundances of denitrifiers, correspondingly genes of narG and nirK were much higher in the treatment with mature compost, which contributed to the N₂O emission. Moreover, the correlation matrices revealed that N₂O fluxes correlated well with moisture, pH, temperature, and the abundances of nirK and nosZ genes during FWRC.

Impact of acyl-homoserine lactones on the response of nitrogen cycling in sediment to florfenicol stress

Antibiotic residuals disrupt environmental microbial metabolism and can alter the nitrogen cycle. Quorum sensing has both inter- and intra-species effects that are directly related to the population densities necessary for microbial nitrogen cycling. Here, we explored how acyl-homoserine lactones (AHLs) can change the response of nitrogen cycling to florfenicol in sediments. AHLs might promote microbial reproduction in sediment under florfenicol stress. The relative abundances of Proteobacteria and Euryarchaeota in the antibiotic and AHL treatment groups were higher than those in the control group. AHLs reduced the effects of antibiotics on the abundance of Nitrospira at sampling times of 3d, 10d, and 20d. In the annotation results, nitrate reductase showed the highest abundance, followed by nitrite reductase, nitrogenase, nitric oxide (NO) reductase, nitrous oxide reductase, and ammonia monooxygenase. The abundances of these genes have changed in response to pressure by florfenicol and the addition of AHLs. We also found significant associations between the nitrogen cycle-related functional genes and dominant genera. In particular, glutamate metabolic enzymes and nitrate/nitrite transporters were the primary participants in correlation. Florfenicol can rapidly alter microbial community structures in sediments, affect the functional diversity of microorganisms, and hinder the nitrogen cycle. The response of microorganisms to florfenicol was regulated by the addition of AHLs. This process might alter the use and production of nitrogenous substances in the environment by functional communities in sediments.

Biogas slurry application could potentially reduce N2O emissions and increase crop yield

The huge excrement quantity from the increasing large-scale livestock stressed the ecological, environmental deterioration. As a major benefit for handling livestock manure, the slurry of biogas (BS) is developed during the production of biogas that might increase plant productivity. However, nitrous oxide (N₂O) emissions from BS are considered a significant danger to the environment due to global warming potential. Furthermore, applying different proportions of BS combined with chemical fertilizer (CF) on N₂O productions in the North China Plain (NCP) remains unclear. Herein, two sequential field trials were performed by maize-wheat rotations to substitute the CF by BS and reduce N₂O emissions while keeping the crop yield stable. Four treatments were conducted, including T1, T3, T6, and CK. A total of 226.5 kg N ha^-1 used in the maize-wheat rotation system. Additionally, different ratios of BS (100%, 80%, and 50%) combined with CF were used in wheat season in the tillering stage. Results showed integrated applications of BS with CF have potential for reducing N₂O emission. Our findings showed that the maximum grain yield of CF was 6250 kg ha^-1, which might be achieved by applying 38% BS and 62% of CF. This ratio yielded 1.03 kg ha^-1 N₂O emissions, which was 15% lesser than the N₂O emission of CK, 1.21 kg ha^-1. Considering whole growing period of wheat biogas treatments significantly reduced the cumulative N₂O emissions from 17% to 26% compared to CF. To achieve maximum yield and minimum N₂O emissions, an optimum 38% BS ratio has been suggested. The integrated use of BS and CF provided the greatest grain yield because of necessary nutrients provided by both slurry and CF. Consequently, N₂O emissions reduced based on frequency and type of fertilizer. In conclusion, 38% ratio of BS combined with 62% CF would be a suitable approach to mitigate N₂O emission and simultaneously increase crop yield in NCP.

The contrasting effects of biochar and straw on N2O emissions in the maize season in intensively farmed soil

This study evaluated the combined effects of biochar and straw on N2O flux and the community compositions of nitrifiers and denitrifiers in the maize season in an intensively farmed area in northern China. The experiment consisted of four treatments: (1) CK (only chemical fertilizer application); (2) C (biochar application); (3) SR (straw application to the field); and (4) C+SR (the application of both biochar and straw). The results indicated that during the maize growing season, N2O flux decreased by 30.3% in the C treatment and increased by 13.2% and 37.0% in the SR and C+SR treatments compared with CK, respectively. NO3--N, NH4+-N, and microbial biomass carbon (MBC) were the main soil factors affecting N2O flux, and they were positively correlated with NO3--N and negatively correlated with MBC in the C treatment and positively correlated with NH4+-N in the SR and C+SR treatments. Both biochar addition and straw return shifted the community compositions of nitrifiers and denitrifiers. N2O production was mainly reduced by promoting the ammonia-oxidizing bacteria (AOB) gene abundance and inhibiting the nirK gene abundance in the C treatment but promoted by inhibiting the AOB and nosZ gene abundances in the SR and C+SR treatments. Nitrosospira (AOB) and Rhizobium (nirK) were the main contributors among the treatments. NO3--N, NH4+-N, and MBC were the main soil factors affecting the denitrifier communities. The predominant species associated with the nirK, nirS, and nosZ genes were positively correlated with NO3--N and MBC and negatively correlated with NH4+-N. These results provide valuable information on the mechanism of N2O production and reduction in biochar- and straw-amended soil under field conditions.

Diversity of nitrogen cycling genes at a Midwest long-term ecological research site with different management practices

Nitrogen fertilizer results in the release of nitrous oxide (N₂O), a concern because N₂O is an ozone-depleting substance and a greenhouse gas. Although the reduction of N₂O to nitrogen gas can control emissions, the factors impacting the enzymes involved have not been fully explored. The current study investigated the abundance and diversity of genes involved in nitrogen cycling (primarily denitrification) under four agricultural management practices (no tillage [NT], conventional tillage [CT], reduced input, biologically-based). The work involved examining soil shotgun sequencing data for nine genes (napA, narG, nirK, nirS, norB, nosZ, nirA, nirB, nifH). For each gene, relative abundance values, diversity and richness indices, and taxonomic classification were determined. Additionally, the genes associated with nitrogen metabolism (defined by the KEGG hierarchy) were examined. The data generated were statistically compared between the four management practices. The relative abundance of four genes (nifH, nirK, nirS, and norB) were significantly lower in the NT treatment compared to one or more of the other soils. The abundance values of napA, narG, nifH, nirA, and nirB were not significantly different between NT and CT. The relative abundance of nirS was significantly higher in the CT treatment compared to the others. Diversity and richness values were higher for four of the nine genes (napA, narG, nirA, nirB). Based on nirS/nirK ratios, CT represents the highest N₂O consumption potential in four soils. In conclusion, the microbial communities involved in nitrogen metabolism were sensitive to different agricultural practices, which in turn, likely has implications for N₂O emissions. KEY POINTS: • Four genes were less abundant in NT compared to one or more of the others soils (nifH, nirK, nirS, norB). • The most abundant sequences for many of the genes classified within the Proteobacteria. • Higher diversity and richness indices were observed for four genes (napA, narG, nirA, nirB). • Based on nirS/nirK ratios, CT represents the highest N₂O consumption potential.

Elucidating the microbiological characteristics of cyromazine affecting the nitrogen cycle during aerobic composting of pig manure

Cyromazine as insect growth inhibitor have been frequently detected in the environment, which show a potential threat to environment and soil health. Nitrogen is an essential component of all living organisms and the main nutrient limiting life on our planet. In this study, quantitative polymerase chain reaction (qPCR) and sequencing of nitrifying and denitrifying bacteria were conducted to investigate the dynamic effects of cyromazine on nitrogen conversion during laboratory-based composting. Results showed that the presence of cyromazine significantly reduced the abundance of amoA gene during the thermophilic phase of composting (p < 0.01), resulting in lower oxidation of NH₄⁺-N. The archaea amoA gene was more resistant to cyromazine. The nirK gene was more abundant than the nirS gene during composting and was significantly reduced only under high concentrations of cyromazine (p < 0.01). The high dose of cyromazine (15 mg/kg) severely damaged the nitrogen fixation capacity of compost products. Cyromazine exhibited an inhibition effect on richness (ACE, Chao) of nitrifying and denitrifying microorganisms during the thermophilic period, while increased the diversity (shannon) at all stages of composting. Pseudomonas_formosensis was the core denitrifiers that harbored nosZ gene, Nitrosomonas_eutropha and Nitrosospira_sp_Nl5 were the dominant nitrifier that harbored amoA gene, and these species have a negative response to cyromazine. Network analysis indicated that the dominant bacteria harboring amoA and nosZ genes were hubs of nitrogen oxidation and reduction processes. Structural equation modeling revealed that NO₂^--N conversion played a crucial role in driving denitrification, and increase of NH₄⁺-N content was attributed to the inhibition of nitrification and denitrification during composting caused by cyromazine.

Evaluation of nitrogen conversion pathway during composting under amoxicillin stress: Mainly driven by core microbial community

The aim of this study was to explore the effects of different concentrations of amoxicillin (AMX) on nitrogen (N) conversion and bacterial community structure during aerobic composting. The results revealed that AMX led to a lower temperature and increased pH during the thermophilic phase of composting. AMX inhibited the relative abundance (RA) of Firmicutes at the initial phase but increased the RA of Actinobacteria and Bacteroidetes compared with the control treatment. The core bacterial community linked to N conversion was determined by network analysis. AMX decreased the RA of amoA, a gene related to nitrification, and increased the RAs of nirK and nosZ, which are related to denitrification. Meanwhile, AMX inhibited the activity of ammonia-oxidizing bacteria but promoted the activity of denitrifying bacteria. Therefore, the main adverse effect of AMX on compost quality is to change the microbial community structure and affect the physical and chemical properties of composting.

Comparative analysis of upward and downward vertical flow constructed wetlands on the nitrogen removal and functional microbes treating wastewater containing Ag nanoparticles

This study investigated impacts of silver nanoparticles (AgNPs) on nitrogen removal within constructed wetlands (CWs) with different flow directions. The obtained results showed that addition of AgNPs at 0.5 and 2 mg/L significantly inhibited NH₄⁺-N removal, resulting from lower abundances of functional genes (amoA and nxrA) within CWs. And higher abundances of amoA and nxrA genes at 0.5 mg/L were observed in downward flow CW, leading to better NH₄⁺-N removal, compared to upward flow CW. Besides, nitrifying genes amoA and nxrA in upward flow CW at 2.0 mg/L exhibited higher than downward flow CW, explaining better NH₄⁺-N removal in upward flow CW. 0.5 mg/L AgNPs significantly declined NO₃^--N and TN removal, resulted from decreasing abundances of nirK, nirS and nosZ. In contrast, abundances of nirK, nirS and nosZ genes had slightly lower or higher than before adding AgNPs in upward flow CW, leading to lower NO₃^--N and TN effluent concentrations. High throughput sequencing also indicated the changes of functional bacterial community after exposing to AgNPs.

Centrality of cattle solid wastes in vermicomposting technology - A cleaner resource recovery and biowaste recycling option for agricultural and environmental sustainability

The current review reports the importance and significance of cattle solid waste in vermicomposting technology concerning biowaste pollution in the environment. Needy increasing population evokes livestock production resulting in the massive generation of livestock wastes, especially cattle dung. Improper disposal and handling of biowastes originating from agriculture, industries, forests, rural and urban areas lead to nutrient loss, environmental pollution and health risks. Among the organic waste disposal methods available, vermicomposting is regarded as an environmentally friendly technology for bioconversion of agricultural, industrial, rural and urban generated organic solid wastes which are serving as reservoirs of environmental pollution. In vermicomposting of organic wastes, cattle dung plays a central role in mineralization, nutrient recovery, earthworm and microbial activity leading to vermifertilizer production. Even though the vermicomposting studies use cattle dung invariably as an amendment material, its importance has not been reviewed to highlight its central role. Hence, the present review mainly emphasizes the key role played by cattle dung in vermicomposting. Vermiconversion of cattle dung alone and in combination with other biowaste materials of environmental concern, mechanisms involved and benefits of vermicompost in sustainable agriculture are the major objectives addressed in the present review. The analysis reveals that cattle dung is indispensable amendment material for vermicomposting technology to ensure agricultural and environmental sustainability by reducing pollution risks associated with biowastes on one hand, and nutrient-rich benign vermifertilizer production on the other hand.

Modified cornstalk biochar can reduce ammonia emissions from compost by increasing the number of ammonia-oxidizing bacteria and decreasing urease activity

This study examined how the addition of modified cornstalk biochar (CB) affected ammonia (NH₃) emissions during composting. Four treatments were established, including a control (CK) with layer manure and sawdust only, and the CK mixtures adding 10% HNO₃ CB (NA), 10% H₂O₂ CB (HP) and 10% HNO₃- H₂O₂ CB (MI). As the results showed, NH₃ emissions was reduced by 47.83% (NA), 61.69% (HP) and 45.69% (MI) when the modified CB used as a compost additive (P < 0.05). According to the data analysis, the addition of modified CB significantly increased the number of ammonia-oxidizing bacteria (AOB), inhibited urease activity and decreased the abundance of narG and nirS at rising temperatures and high temperatures (P < 0.05). Redundancy analysis demonstrated a negative correlation between NH₃ emissions and AOB and a positive correlation with urease activity, narG and nirS. Thus, the modified CB helped reduce NH₃ emissions by regulating nitrification processes.

Calcium Superphosphate-Mediated Reshaping of Denitrifying Bacteria Community Contributed to N2O Mitigation in Pig Manure Windrow Composting

Composting is recognized as an effective strategy for the sustainable use of organic wastes, but also as an important emission source of nitrous oxide (N2O) contributing to global warming. The effects of calcium superphosphate (CaSSP) on N2O production during composting are reported to be controversial, and the intrinsic microbial mechanism remains unclear. Here, a pig manure windrow composting experiment lasting for ~60 days was performed to evaluate the effects of CaSSP amendment (5%, w/w) on N2O fluxes in situ, and to determine the denitrifiers' response, and their driving factors. Results indicated that CaSSP amendment significantly reduced N2O emissions as compared to the control pile (maximum N2O emission rate reduced by 64.5% and total emission decreased by 49.8%). CaSSP amendment reduced the abundance of nirK gene encoding for nitrite reductase, while the abundance of nosZ gene (N2O reductase) was enriched. Finally, we built a schematic model and indicated that the abundance of nirK gene was likely to play a key role in mediating N2O production, which were correlated with NH4+-N and NO3--N changing responsive to CaSSP. Our finding implicates that CaSSP application could be a potential strategy for N2O mitigation in manure windrow composting, and the revealed microbial mechanism is helpful for deepening the understanding of the interaction among N-cycle functional genes, physicochemical factors, and greenhouse gases (GHG) emissions.

Microbial driving mechanism of biochar and bean dregs on NH3 and N2O emissions during composting

In this study, the effect of biochar (BC) and bean dregs (BD) on nitrifiers and denitrifiers as well as the contributions to the NH₃ and N₂O emissions were investigated. Compared with the BD treatment, the maximum value of NH₃ and N₂O emission was decreased by 32.92% and 46.61% in the BD + BC treatment, respectively. The production of NH₃ and N₂O was closely associated with the abundance and structure of nitrogen functional genes. BD + BC increased the abundance of AOB amoA gene to decrease the NH₃ emission. The abundance of nirS was more closely associated with N₂O. The abundance of nirS in the BD + BC was lowered by 18.93% compared with the BD treatment, thereby decreasing the N₂O emission after composting. Besides, the nosZ-type gene was the more functional denitrification bacterial communities to effect the N₂O emissions.

Effects of inoculation with lignocellulose-degrading microorganisms on nitrogen conversion and denitrifying bacterial community during aerobic composting

The present study compared the effects of inoculation (WSD treatment) and non-inoculation (CK treatment) with lignocellulose-degrading microorganisms on nitrogen conversion, nitrogen functional genes, and the denitrifying bacterial community during aerobic composting, and their potential relations to NH₃ and N₂O emissions were also explored. Results showed that, WSD reduced the NH₃ and N₂O emissions by 25.9% and 34.98%, respectively, compared with CK. WSD also reduced the abundances of nitrifying (bacteria amoA) and denitrifying (nirS, nirK, and nosZ) genes during composting, which were significantly positively correlated with N₂O emissions (P < 0.01). The most important nosZ denitrifying microorganisms belonged to Proteobacteria. Redundancy analysis showed that environmental factors could affect the succession of the denitrifying bacterial community during composting. Based on these results, structural equation modeling demonstrated that the reduction in N₂O emissions under WSD was related to the lower accumulation of NO₃^--N utilized by denitrifying microorganisms during the compost maturation period.

Distinct Expression of the Two NO-Forming Nitrite Reductases in Thermus antranikianii DSM 12462T Improved Environmental Adaptability

Hot spring ecosystems are analogous to some thermal environments on the early Earth and represent ideal models to understand life forms and element cycling on the early Earth. Denitrification, an important component of biogeochemical nitrogen cycle, is highly active in hot springs. Nitrite (NO₂^-) reduction to nitric oxide (NO) is the significant and rate-limiting pathway in denitrification and is catalyzed by two types of nitrite reductases, encoded by nirS and nirK genes. NirS and NirK were originally considered incompatible in most denitrifying organisms, although a few strains have been reported to possess both genes. Herein, we report the functional division of nirS and nirK in Thermus, a thermophilic genus widespread in thermal ecosystems. Transcriptional levels of nirS and nirK coexisting in Thermus antranikianii DSM 12462^T were measured to assess the effects of nitrite, oxygen, and stimulation time. Thirty-nine Thermus strains were used to analyze the phylogeny and distribution of nirS and nirK; six representative strains were used to assess the denitrification phenotype. The results showed that both genes were actively transcribed and expressed independently in T. antranikianii DSM 12462^T. Strains with both nirS and nirK had a wider range of nitrite adaptation and revealed nir-related physiological adaptations in Thermus: nirK facilitated adaptation to rapid changes and extended the adaptation range of nitrite under oxygen-limited conditions, while nirS expression was higher under oxic and relatively stable conditions.

The differential proliferation of AOB and NOB during natural nitrifier cultivation and acclimation with raw sewage as seed sludge

Nitrifier immigration from sewers to wastewater treatment systems is attracting increasing attention for understanding nitrifier community assembly mechanisms, and improving process modeling and operation. In this study, nitrifiers in raw sewage were cultivated and acclimated in a sequencing batch reactor (SBR) for 90 days to investigate the characteristics of the influent nitrifiers after immigration. During the experiment, specific nitrite utilization rate (SNUR) exceeded specific ammonia utilization rate (SAUR) when floc size reached 224 ± 46 μm, and nitrogen loss occurred at the same time. The ratio of nitrite oxidizing bacteria (NOB) to ammonia oxidizing bacteria (AOB) increased from 0.84 to 2.14 after cultivation. The Illumina MiSeq sequencing showed that the dominant AOB was Nitrosomonas sp. Nm84 and unidentified species, and the three most abundant Nitrospira were Nitrospira defluvii, Nitrospira calida, and unidentified Nitrospira spp. in both raw sewage and cultivated activated sludge. The shared reads of raw sewage and activated sludge were 48.76% for AOB and 89.35% for Nitrospira. These indicated that nitrifiers, especially NOB, immigrated from influent can survive and propagate in wastewater systems, which may be a significant hinder to suppress NOB in the application of advanced nitrogen remove process based on partial nitrification in the mainstream.

Co-composting of sewage sludge and Phragmites australis using different insulating strategies

Insulating strategies are indispensable for laboratory-scale composting reactors, however, current insulation methods interfere with the aerobic fermentation behaviors related to composting. To address this issue, a centre-oriented real-time temperature compensation strategy was designed in this study. Five 9 L reactors (R1-R5) with different insulation strategies were used for the co-composting of dewatered sludge and Phragmites australis and compared. The process performance was assessed by monitoring the temperature, O₂ and CO₂ emissions, the physical-chemical properties of the composting materials were evaluated by measuring the organic matter (OM), carbon nitrogen ratio (C/N), pH, electrical conductivity (EC), and fluorescence excitation-emission matrix (EEM) spectra. And a 16S rDNA analysis was used to quantify the evolution of bacterial community. The main findings are as follows. Compared with R1 as a control, the insulating strategies can increase the maximum temperature and prolong the thermophilic phase of composting. Comparing R1 and R3 showed that real-time temperature compensation can better restore the real fermentation of the compost. The results showed that R5 had the best composting effect, reaching 69.8 °C, which was 25.1%, 29.7%, 19.3%, and 17.3% higher than R1, R2, R3, and R4, respectively, and remaining in the thermophilic phase for 4.24 d, which is 1.4, 1.5, 1.3, and 0.2 times longer than R1, R2, R3, and R4, respectively. Furthermore, it can significantly reduce the temperature difference between the centre and edge of the reactor, which improved the composting material allocation efficiency and composting process control accuracy, further providing a basis for the actual full-scale composting operation.

Is wood ash amendment a suitable mitigation strategy for N2O emissions from soil?

Wood ash, the by-product of biomass combustion to energy, can return important nutrients back to the soil and counteract acidification. However, the application of wood ash may affect the emission of greenhouse gases. Here, the effect of wood ash application on nitrous oxide (N₂O) emissions from different soil environments were investigated in a 40 days incubation experiment comprising ten different soil types amended with five different wood ash concentrations (0, 3, 9, 20, and 54 t ash ha^-1). The emitted N₂O was measured continuously, and initial soil properties without ash application (carbon (C), nitrogen (N), ammonium (NH₄⁺), nitrate (NO₃^-), and pH) and resulting soil properties (pH, NH₄⁺, and NO₃^-) were measured prior and after the incubation period, respectively. The Random Forests (RF) model was used to identify which factors (initial and resulting soil properties, vegetation, management, wood ash doze, and respiration rate) were the most important to predict the development of emitted N₂O after ash application. Wood ash either increased, decreased, or had no effect on the amount of emitted N₂O depending on soil type and ash dose. The RF model identified the final resulting pH as the most important factor for the prediction of emitted N₂O. The results suggest that wood ash can mitigate N₂O emissions from soil, however, this effect depends on soil type where a mitigating effect of wood ash application was observed mainly in low pH soils with high soil organic matter whereas an increase in N₂O emissions was observed in mineral soils that had previously received N fertilization. This study emphasises the importance of pH manipulation in regards to N₂O emissions from soil.

Biological nutrient removal and recovery from solid and liquid livestock manure: Recent advance and perspective

Rapid development of livestock industry produces large amount of livestock manure rich in nutrients, organic matters, antibiotics, and heavy metals, thus imposes great harms to human and environment, if the manure is not suitably treated. Biological removal and recovery of nutrients from manure as agriculture fertilizer is attractive due to low cost and simple operation. This review offers an overview of recent development in biological nutrient removal and recovery from livestock manure. Livestock manure is divided into solid manure and liquid manure. Composting and anaerobic digestion of solid manure are fully discussed and important parameters are investigated. Then various processes of nutrient removal and recovery from liquid manure are summarized. Brief economic sustainability and eco-environmental effects are carried out. Finally, current challenges and future prospects in this field are analyzed.

Insight into the microbiology of nitrogen cycle in the dairy manure composting process revealed by combining high-throughput sequencing and quantitative PCR

Nitrogen cycling during composting process is not yet fully understood. This study explored the key genes involved in nitrogen cycling during dairy manure composting process using high-throughput sequencing and quantitative PCR technologies. Results showed that nitrogen fixation occurred mainly during the thermophilic and cooling phases, and significantly enhanced the nitrogen content of compost. Thermoclostridium stercorarium was the main diazotroph. Ammonia oxidation occurred during the maturation phase and Nitrosomonas sp. was the most abundant ammonia oxidizing bacteria. Denitrification contributed to the greatest nitrogen loss during the composting process. The nirK community was dominated by Luteimonas sp. and Achromobacter sp., while the nirS community was dominated by Alcaligenes faecalis and Pseudomonas stutzeri. The nosZ community varied in a succession of Halomonas ilicicola, Pseudomonas flexibili and Labrenzia alba dominated communities according to different composting phases. Based on these results, nitrogen cycling models for different phases of the dairy manure composting process were established.

Differences in distribution of functional microorganism at DNA and cDNA levels in cow manure composting

Denitrification and nitrification processes are the two prominent pathways of nitrogen (N) transformation in composting matrix. This study explored the dynamics of denitrifying and nitrifying bacteria at different composting stages of cow manure and corn straw using functional gene sequencing at DNA and cDNA levels. Corresponding agreement among OTUs, NMDS, mental test and network analyses revealed that functional bacteria community compositions and responses to physicochemical factors were different at DNA and cDNA levels. Specifically, some OTUs were detected at the DNA level but were not observed at cDNA level, differences were also found in the distribution patterns of nitrifying and denitrifying bacteria communities at both levels. Furthermore, co-occurrence network analysis indicated that Pseudomonas, Paracoccus and Nitrosomonas were identified as the keystone OTUs at the DNA level, while Paracoccus, Agrobacterium and Nitrosospira were keystone OTUs at the cDNA level. Mantel test revealed that TN, C/N and moisture content significantly influenced both the denitrifying bacteria and ammonia-oxidizing bacteria (AOB) communities at the DNA level. NO₃^--N, NH₄⁺-N, TN, C/N, and moisture content only registered significant correlation with the nosZ-type denitrifiers and ammonia-oxidizing bacteria (AOB) communities at the cDNA level. Structural equation model (SEM) showed that TN, NH₄⁺-N, and pH were direct and significantly influenced the gene abundance of denitrifying bacteria. Howbeit, TN, NH₄⁺-N, and NO₃^--N had significant direct effects on amoA gene abundance.

Towards the circular nitrogen economy - A global meta-analysis of composting technologies reveals much potential for mitigating nitrogen losses

Composting is an important technology to treat biowastes and recycle nutrients, but incurs nitrogen (N) losses that lower the value of the final products and cause pollution. Technologies aimed at reducing N losses during composting have inconsistent outcomes. To deepen insight into mitigation options, we conducted a global meta-analysis based on 932 observations from 121 peer-reviewed published studies. Overall, N losses averaged 31.4% total N (TN), 17.2% NH₃-N, and 1.4% N₂O-N, with NH₃-N accounting for 55% of TN losses. The primary drivers affecting N losses were composting method, type of biowaste, and duration of composting. N losses were significantly impacted by the carbon-to-nitrogen (C/N) ratio of the input materials (feedstock of nutrient dense biowastes and C-rich bulking agents), moisture content and pH. Our analysis revealed N-conserving optima with C/N ratios of 25-30, 60-65% moisture content and pH 6.5-7.0. In situ mitigation technologies that control feedstock and processing conditions reduced average N losses by 31.4% (TN), 35.4% (NH₃-N) and 35.8% (N₂O-N). Biochar and magnesium-phosphate salts emerged as the most effective N-conserving strategies, curbing losses of TN by 30.2 and 60.6%, NH₃ by 52.6 and 69.4%, and N₂O by 66.2 and 35.4% respectively. We conclude that existing technologies could preserve ~0.6 Tg of biowaste-N globally, which equates to 16% of the chemical N-fertilizer used in African croplands, or 39% of the annual global increases of 1.58 Tg fertilizer-N. However, the adoption of N-conserving technologies is constrained by a lack of knowledge of best practice, suitable infrastructure, policies and receptive markets. To realize an N-conserving composting industry that supports sustainable practices and the circular nitrogen economy, stakeholders have to act collectively. Benefits will include lowering direct and indirect greenhouse gas emissions associated with agriculture, and facilitating the recarbonization of soils.

Roles of nxrA-like oxidizers and nirS-like reducers in nitrite conversion during swine manure composting

Nitrite has a key role in nitrogen conversion during composting. In this study, the dynamic changes in the NO₂^- contents, abundances of nirS and nxrA, and the bacteria that harbored these genes were determined during composting. NO₂^- accumulated during the initial composting stage. The nirS gene was abundant throughout composting, whereas the nxrA gene was only abundant in the late composting phases. Ralstonia sp. and Thauera sp. were the dominant denitrifiers that harbored nirS, and Nitrobacter winogradskyi Nb-255 was the dominant nitrifier that harbored nxrA. Structural equation modeling showed that NO₂^- was mainly reduced by nirS in the early phases, and oxidized by nxrA in the late phases, but especially in the maturity phase. Network analysis showed that the dominant bacteria harboring nirS and nxrA were hubs in the modules related to the reduction and oxidation of NO₂^-, and they had competitive relationships during the cooling and maturity phases.

Beneficial effects of bacterial agent/bentonite on nitrogen transformation and microbial community dynamics during aerobic composting of pig manure

This study investigated the effects of adding a bacterial agent (B) and bentonite (BT) on nitrogen transformation, nitrogen functional genes, and the microbial community dynamics during the aerobic composting of pig manure, as well as their contributions to NH₃ and N₂O emissions. Treatments B, BT, and BT + B reduced the NH₃ emissions by 31.34%, 18.82%, and 23.67%, respectively, and the N₂O emissions by 53.16%, 72.56%, and 63.41%. N₂O and NH₃ emissions were strongly related to the functional genes. Adding bacterial agent promoted the ammonia oxidation process to reduce NH₃ emissions, whereas the influence of bentonite on nitrogen conversion was mostly related to nirS and nirK in denitrification processes. Nitrification and denitrification were dominated by different functional microorganisms in various stages of composting, where Proteobacteria comprised the most important denitrifying microorganisms. Thus, the additives reduced NH₃ and N₂O emissions by regulating nitrification and denitrification processes, and adding both was highly advantageous.

Nitrification plays a key role in N2O emission in electric-field assisted aerobic composting

Nitrous oxide (N₂O) emission is a serious environmental problem in composting. Previous studies have indicated that electric field assistance results in lower N₂O emissions in aerobic composting; however, the exact mechanisms involved in electric-field assisted aerobic composting (EAAC) are not clear. In this study, the biological N transformation processes and the N-associated genes were investigated. The results demonstrated that electric field application inhibited nitrification, weakened the nitrifying functional genes (the hao and nxrA genes declined maximally by 86% and 86.8%, respectively), and increased the N₂O consumption-related gene (nosZ) by a maximum factor of 2.76 compared with that in CAC. The correlation analysis demonstrated that nitrification was the main source of N₂O emission in EAAC. The findings imply that EAAC is a promising process for mitigating N₂O emission at the source during aerobic composting.

The changes in functional marker genes associated with nitrogen biological transformation during organic-inorganic co-composting

In this article, the changes in the functional marker genes associated with nitrogen biological transformation during the organic-inorganic co-composting process with adding biochar or not were studied. Results showed that the addition of biochar increased the abundance of ureC, AOA amoA and AOB amoA gene while decreased the abundance of nirK gene. The addition of 10% biochar by weight ratio was better for the optimization of nitrogen biological transformation process. The correlation analysis showed that the ureC gene was highly correlated with NH₄⁺-N concentration while the AOA amoA and AOB amoA genes were moderately correlated with NH₄⁺-N concentration. Similarly, the nirK gene was moderately correlated with NO₃^--N concentration. This work would contribute to understanding the mechanisms underlying in the nitrogen bio-transformation further at the molecular level during organic-inorganic co-composting.

Genetic associations as indices for assessing nitrogen transformation processes in co-composting of cattle manure and rice straw

In this study, mechanism of nitrogen transformation was investigated in terms of genetic associations (nitrogen-related gene groups) in co-composting of cattle manure and rice straw. Mutual validation among KEGG, Pearson correlation, stepwise regression, and Path analyses indicated that the functional genes synergistically affected on nitrogen transformation in composting process. NxrA/qnorB (0.9419 ± 0.0334) and (amoA + anammox)/Bacteria (0.7187 ± 0.0334) were the key functional gene groups mediating NH₄⁺-N transformation. AmoA/(narG + napA) (-0.8400 ± 0.0129), amoA/bacteria (0.8692 ± 0.0273), and (nirK + nirS)/nosZ (1.1652 ± 0.0089) determined NO₃^--N, NO₂^--N and N₂O transformation, respectively. AmoA/(napA + narG) mediated both NO₃^--N and NO₂^--N transformation. AmoA/anammox (-0.7172 ± 0.0591) and (nirK + nirS)/nosZ (-0.6626 ± 0.0825) served as predominant factors for total nitrogen removal. These results provided a molecular-level insight that nitrification, anaerobic ammonia oxidation and denitrification (SNAD) might simultaneously contribute to nitrogen transformation during composting, rather than sequentially.

Changes of heavy metal fractions during co-composting of agricultural waste and river sediment with inoculation of Phanerochaete chrysosporium

The effects of Phanerochaete chrysosporium on the bioavailability of multiple heavy metals (Pb, Cd, Cu, and Zn) in river sediments were investigated by co-composting with the agricultural waste. The results showed that the Phanerochaete chrysosporium inoculation can greatly enhance the passivation on Cu, Pb and Cd during 60 days co-composting. The effects in the three metals followed the order: Cu > Cd > Pb. There were no differences for Zn whether inoculation with P. chrysosporium or not. Redundancy analysis (RDA) implied that more than 4/5 of the variation of all fractions data for all heavy metals was explained by all significant canonical axes. P. chrysosporium can change the significant parameters for each metal and enhance the explanatory power of RDA model. The inoculation can strengthen the effect of OM (organic matter) on the bioavailability of heavy metals, but weaken the contribution of pH.

Effects of combined biochar and organic fertilizer on nitrous oxide fluxes and the related nitrifier and denitrifier communities in a saline-alkali soil

This study intended to evaluate the combined effects of both biochar and organic fertilizer on nitrous oxide (N₂O) fluxes and composition of nitrifier and denitrifier of saline-alkali soil. Therefore, four different treatments such as CK (only chemical fertilizer), B (only biochar), M (only organic fertilizer), BM (B:M = 1:1) were used in this experiment. The results showed that N₂O emissions were decreased in B and BM treatments compare to the control. In contrast, N₂O emissions were highest before day 12 but lowest after day 19 in M treatment compare to the control. Application of biochar, organic fertilizer and biochar plus organic fertilizer decreased the nirS and nirK genes copies and enhanced the nosZ gene copies which resulting in the lower N₂O fluxes. The ammonia-oxidizing bacteria (AOB) amoA and nirK genes copies were significantly increased by organic fertilizer before day 12, leading to high N₂O emissions. The genera Nitrosospira (AOB) and Nitrososphaera (ammonia-oxidizing archaea, AOA) assumed absolute superiority. Additionally, Nitrosospira (AOB) was also appeared in nirK-type denitrifiers, illustrating denitrification was carried out by nitrifiers. The genera Azospirillum (nirS), Burkholderia (nosZ) and Polymorphum (nosZ) were dominant in CK. There was only one dominant genus, Mesorhizobium (nosZ) in the B treatment. The genera Mesorhizobium (nirK), Azoarcus (nirS), Kocuria (nirS) and Pseudomonas (nosZ) occupied the main status in the M treatment. The relative abundance of Rhodanobacter (nirS) and Azospirillum (nosZ) were higher in the BM treatment compared with other treatments. Soil water content (SWC), pH, NH₄⁺-N and NO₃^--N were the main factors affecting AOB and denitrifiers, which influencing N₂O emissions. Overall, combined application of biochar and organic fertilizer can reduce the N₂O emission where AOB and nirK-type denitrifier were the main contributors to the N₂O emission.

Evolutions of different microbial populations and the relationships with matrix properties during agricultural waste composting with amendment of iron (hydr)oxide nanoparticles

This study investigated the evolutions of different microbial populations and multivariate relationships between their abundances and environmental variables during composting with amendment of Fe (hydr)oxide nanoparticles. Piles treated with nanohematite and nanomagnetite were denoted as T-nanohematite and T-nanomagnetite, and another one was T-control. It was found that nanohematite more effectively increased bacteria and fungi abundances with 1.24∼1.58 times average value of T-control, while nanomagnetite was more useful to actinomycetes. As the most significant variable, the total effect of temperature in T-control and T-nanomagnetite was increased to 0.87 and 0.92, respectively, because both the direct and indirect effects were positive, while it in T-nanohematite was reduced to 0.18 by the negative indirect effect. Partial redundancy analysis suggested that each microbial abundance shared different relationships with composting parameters. Overall, actinomycetes was more sensitive to changes of composting parameters than bacteria and fungi.

Effects of earthworms on nitrogen transformation and the correspond genes (amoA and nirS) in vermicomposting of sewage sludge and rice straw

The effects of earthworms on nitrogen transformation and the responsible functional genes during disposal of sewage sludge and rice straw were investigated in this study. Vermicomposting resulted in the lower pH and total organic carbon (TOC) compared to the control treatment without earthworms. Moreover, the presence of earthworms could promote the nitrogen mineralization and nitrification process in vermicomposting. Earthworms increased the activity of ammonia monooxygenase and abundance of amoA-nitrifier and reduced its diversity, whereas they reduced the density of nirS-denitrifying bacteria but enhanced its diversity. Nitrosospira was the dominant amoA-nitrifier and earthworms stimulated its growth in the vermicomposting. The presence of earthworms could also affect the community composition of nirS-denitrifying bacteria despite most of the nirS-denitrifier was not be classified at the genus level. In conclusion, the presence of earthworms had significant influence on the diversity and abundances of amoA and nirS genes and affect the nitrogen bio-transformation in vermicomposting.

Denitrification characterization of dissolved oxygen microprofiles in lake surface sediment through analyzing abundance, expression, community composition and enzymatic activities of denitrifier functional genes

The responses of denitrifiers and denitrification ability to dissolved oxygen (DO) concent in different layers of surface lake sediments are still poorly understood. Here, the optimal denitrification condition was constructed based on response surface methodology (RSM) to analyze the denitrification characteristics of surface sediments. The aerobic zone (AEZ), hypoxic zone (HYZ), up-anoxic zone (ANZ-1) and sub-anoxic zone (ANZ-2) were partitioned based on the oxygen contents, and sediments were collected using a customized-designed sub-millimeter scale sampling device. Integrated real-time quantitative PCR, Illumina Miseq-based sequencing and denitrifying enzyme activities analysis revealed that denitrification characteristics varied among different DO layers. Among the four layers, the DNA abundance and RNA expression levels of norB, nirS and nosZ were the highest at the aerobic layer, hypoxic layer and up-axoic layer, respectively. The hypoxia and up-anaerobic layer were the active nitrogen removal layers, since these two layers displayed the highest DNA abundance, RNA expression level and enzyme activities of denitrification functional genes. The abundance of major denitrifying bacteria showed significant differences among layers, with Azoarcus, Pseudogulbenkiania and Rhizobium identified as the main nirS, nirK and nosZ-based denitrifiers. Pearson’s correlation revealed that the response of denitrifiers to environmental factors differed greatly among DO layers. Furthermore, napA showed higher DNA abundance and RNA expression level in the aerobic and hypoxic layers than anaerobic layers, indicating that aerobic denitrifiers might play important roles at these layers.

Structural and Functional Changes of Groundwater Bacterial Community During Temperature and pH Disturbances

In this study, we report the characteristics of a microbial community in sampled groundwater and elucidate the effects of temperature and pH disturbances on bacterial structure and nitrogen-cycling functions. The predominant phyla of candidate OD1, candidate OP3, and Proteobacteria represented more than half of the total bacteria, which clearly manifested as a "low nucleic acid content (LNA) bacteria majority" type via flow cytometric fingerprint. The results showed that LNA bacteria were more tolerant to rapid changes in temperature and pH, compared to high nucleic acid content (HNA) bacteria. A continuous temperature increase test demonstrated that the LNA bacterial group was less competitive than the HNA bacterial group in terms of maintaining their cell intactness and growth potential. In contrast, the percentage of intact LNA bacteria was maintained at nearly 70% with pH decrease, despite a 50% decrease in total intact cells. Next-generation sequencing results revealed strong resistance and growth potential of phylum Proteobacteria when the temperature increased or the pH decreased in groundwater, especially for subclasses α-, β-, and γ-Proteobacteria. In addition, relative abundance of nitrogen-related functional genes by qPCR showed no difference in nitrifiers or denitrifiers within 0.45 μm-captured and 0.45 μm-filterable bacteria due to phylogenetic diversity. One exception was the monophyletic anammox bacteria that belong to the phylum Planctomycetes, which were mostly captured on a 0.45-μm filter. Furthermore, we showed that both temperature increase and pH decrease could enhance the denitrification potential, whereas the nitrification and anammox potentials were weakened.

Impacts of iron oxide nanoparticles on organic matter degradation and microbial enzyme activities during agricultural waste composting

The effects of iron oxide nanoparticles (IONPs, including Fe₂O₃ NPs and Fe₃O₄ NPs) on composting were investigated through evaluating their influences on organic matter (OM) degradation, dehydrogenase (DHA) and urease (UA) activities, and quality of the final compost product. Results showed that composting amended with Fe₂O₃ NPs was more effective to facilitate OM degradation. At the end of composting, the total OM loss in T-C, T-Fe₂O₃ NPs and T-Fe₃O₄ NPs was 66.19%, 75.53% and 61.31%, respectively. DHA and UA were also improved on the whole by the amendment of IONPs, especially Fe₂O₃ NPs. Although relationships between enzyme activities and environmental variables were changed by different treatments, temperature was the most influential to variations of both DHA and UA in all treatments, which independently explained 75.1%, 34.7% and 38.4% of variations in the two enzyme activities in T-C, T-Fe₂O₃ NPs and T-Fe₃O₄ NPs, respectively. Compared with DHA, UA was more closely related to the environmental parameters. The germination index in T-C, T-Fe₂O₃ NPs and T-Fe₃O₄ NPs was 134.49%, 153.64% and 146.76%, and the average shoot length was 3.16, 3.87 and 3.45 cm, respectively, indicating that amendment of IONPs, especially Fe₂O₃ NPs, could promote seed germination and seedling growth. Therefore, composting amended with IONPs was a feasible and promising method to improve composting performance, enzyme activities as well as quality of the final compost product.

Enzymatic mechanism of organic nitrogen conversion and ammonia formation during vegetable waste composting using two amendments

Elucidating the mechanism of nitrogen conversion during composting is crucial for controlling nutrient loss and improving the quality of compost. To explore the enzymatic mechanism of organic conversion during composting, composting experiments using vegetable waste and chicken manure mixed with wheat straw and corn stalk as two separate treatments: WS and CS, respectively, were conducted in 63 L aerated static pile reactors for 33 d. The changes in the nitrogen fractions and related-enzymes activities were analyzed during different periods. The total nitrogen content increased by 34.3% during WS and decreased by 6.22% during CS after 33d of composting. The ammounium nitrogen content decreased by 79.6% and 51.4% during WS and CS. The nitrate, nitrite, organic, acid-insoluble organic nitrogen contents increased by approximately 52.6-123.9%, 590.9-5875%, 59.1-213.8%, and 764.4-7834.1%, respectively. The amount of total hydrolysable organic nitrogen increased by 18.8% during WS and decreased by 26.7% in CS. Structural equation modeling revealed that the contributions of different types of nitrogen to the formation of NH₄⁺ during WS composting decreased as follows: amine nitrogen (AN) > amino acid nitrogen (AAN) > amino sugar nitrogen (ASN) > hydrolysable unknown nitrogen (HUN), while the corresponding nitrogen contributions during CS decreased as follows: AAN > AN > HUN > ASN. The AN and AAN were most easily converted into NH₄⁺ during WS and CS, respectively, while ASN was synthesized from NH₄⁺ during vegetable waste composting. Using redundancy analysis it was revealed that nitrate reductase (50.1%), nitrite reductase (23.2%) and urease (7.1%) played leading roles in nitrogen transformation. Furthermore, total organic carbon (59.6%) was the main factor that affected enzymes activities.