Temperature and oxygen level determine N2 O respiration activities of heterotrophic N2 O-reducing bacteria: Biokinetic study

Reduction of methane and nitrous oxide emissions from stormwater bioretention cells through microbial electrolytic cells

This study investigated the reduction of methane (CH4) and nitrous oxide (N2O) emissions from stormwater bioretention cells through microbial electrolytic cell (MEC), showing the largest reduction of 32.21 % (CH4) at 9.2 μA/m2 of current density and 56.16 % (N2O) at 3.5 μA/m2 of current density, compared with the corresponding in the control (0 μA/m2 of current density). Kinetic of CH4 and N2O emissions could be well fitted by Logistic model with high correlation coefficient (R2 > 0.9500) and model efficiency (ME > 0.95) but low relative root mean square error (RRMSE < 7.88). The increase of pmoA and polysaccharide (PS) were responsible for CH4 reduction, while N2O reduction was attributed to the decrease of nirS and the increase for nosZ and protein (PN), which could explain the lowest GWPd (10.67 mgCO2-eq/m2/h) at 3.5 μA/m2 of current density, suggesting that MEC could be promising for the reduction of CH4 and N2O emissions from bioretention cells.

Evaluating the role of high N2O affinity complete denitrifiers and non-denitrifying N2O reducing bacteria in reducing N2O emissions in river

Freshwater rivers are hotspots of N2O greenhouse gas emissions. Dissolved organic carbon (DOC) is the dominant electron donor for microbial N2O reduction, which can reduce N2O emission through enriching high N2O affinity denitrifiers or enriching non-denitrifying N2O-reducing bacteria (N2ORB), but the primary regulatory pathway remains unclear. Here, field study indicated that high DOC concentration in rivers enhanced denitrification rate but reduced N2O flux by improving nosZ gene abundance. Then, four N2O-fed membrane aeration biofilm reactors inoculated with river sediments from river channel, estuary, adjacent lake, and a mixture were continuously performed for 360 days, including low, high, and mixed DOC stages. During enrichment stages, the (nirS+nirK)/nosZ ratio showed no significant difference, but the community structure of denitrifiers and N2ORB changed significantly (p < 0.05). In addition, N2ORB strains isolated from different enrichment stages positioned in different branches of the phylogenetic tree. N2ORB strains isolated during high DOC stage showed significant higher maximum N2O-reducing capability (Vmax: 0.6 ± 0.4 ×10-4 pmol h-1 cell-1) and N2O affinity (a0: 7.8 ± 7.7 ×10-12 L cell-1 h-1) than strains isolated during low (Vmax: 0.1 ± 0.1 ×10-4 pmol h-1 cell-1, a0: 0.7 ± 0.4 ×10-12 L cell-1 h-1) and mixed DOC stages (Vmax: 0.1 ± 0.1 ×10-4 pmol h-1 cell-1, a0: 0.9 ± 0.9 ×10-12 L cell-1 h-1) (p < 0.05). Hence, under high DOC concentration conditions, the primary factor in reducing N2O emissions in rivers is the enrichment of complete denitrifiers with high N2O affinity, rather than non-denitrifying N2ORB.

Benthic clade II-type nitrous oxide reducers suppress nitrous oxide emissions in shallow lakes

Shallow lakes, recognized as hotspots for nitrogen cycling, contribute to the emission of the potent greenhouse gas nitrous oxide (N2O), but the current emission estimates for this gas have a high degree of uncertainty. However, the role of N2O-reducing bacteria (N2ORB) as N2O sinks and their contribution to N2O reduction in aquatic ecosystems in response to N2O dynamics have not been determined. Here, we investigated the N2O dynamics and microbial processes in the nitrogen cycle, which included both N2O production and consumption, in five shallow lakes spanning approximately 500 km. The investigated sites exhibited N2O oversaturation, with excess dissolved N2O concentrations (ΔN2O) ranging from 0.55 ± 0.61 to 53.17 ± 15.75 nM. Sediment-bound N2O (sN2O) was significantly positively correlated with the nitrate concentration in the overlying water (p < 0.05), suggesting that nitrate accumulation contributes to benthic N2O generation. High N2O consumption activity (RN2O) corresponded to low ΔN2O. In addition, a significant negative correlation was found between RN2O and nir/nosZ, showing that bacteria encoding nosZ contributed to N2O consumption in the benthic sediments. Redundancy analysis indicated that benthic functional genes effectively reflected the variations in RN2O and ∆N2O. qPCR analysis revealed that the clade II nosZ gene was more sensitive to ΔN2O than the clade I nosZ gene. Furthermore, four novel genera of potential nondenitrifying N2ORB were identified based on metagenome-assembled genome analysis. These genera, which are affiliated with clade II, lack genes responsible for N2O production. Collectively, benthic N2ORB, especially for clade II-type N2ORB, harnesses N2O consumption activity leading to low N2O emissions from shallow lakes. This study advances our knowledge of the role of benthic clade II-type N2ORB in regulating N2O emissions in shallow lakes.

Contribution of Microorganisms with the Clade II Nitrous Oxide Reductase to Suppression of Surface Emissions of Nitrous Oxide

The sources and sinks of nitrous oxide, as control emissions to the atmosphere, are generally poorly constrained for most environmental systems. Initial depth-resolved analysis of nitrous oxide flux from observation wells and the proximal surface within a nitrate contaminated aquifer system revealed high subsurface production but little escape from the surface. To better understand the environmental controls of production and emission at this site, we used a combination of isotopic, geochemical, and molecular analyses to show that chemodenitrification and bacterial denitrification are major sources of nitrous oxide in this subsurface, where low DO, low pH, and high nitrate are correlated with significant nitrous oxide production. Depth-resolved metagenomes showed that consumption of nitrous oxide near the surface was correlated with an enrichment of Clade II nitrous oxide reducers, consistent with a growing appreciation of their importance in controlling release of nitrous oxide to the atmosphere. Our work also provides evidence for the reduction of nitrous oxide at a pH of 4, well below the generally accepted limit of pH 5.

Effect and microbial mechanism of suspended sediments particle size on nitrous oxide emission in eutrophic lakes

Suspended sediment (SPS) is an important environmental factor in eutrophic lakes, where they may play a significant role in the microbial nitrogen cycle and thus affect the N2O source and sink function. This study investigated the correlation and corresponding microbial mechanisms between N2O emission fluxes and SPS particle sizes. N2O emission characteristics were investigated in four parallel operated lab-scale microcosmic systems, in which different sizes of SPS particles were inoculated (i.e., <75, 75-150, 150-300, and >300 μm). The results show that, N2O emission fluxes in the eutrophic lakes were exponentially correlated with the lake trophic level index (TLI) (R2 = 0.94, p < 0.01) and the specific surface area of the SPS (R2 = 0.38, p < 0.05). In the microcosmic systems, SPS with 75-150 μm particles had the highest N2O emission rate of 5.94 ± 0.007 μg N/L/d, which was 2.6 times that of the <75 μm particle size system. The microcosmic system with particle size >300 μm had the highest N2O reduction rate (Vmax) of 6.776 μmol/L/h, which was 16-50 times that of the other three groups. Larger particle size SPS have a smaller specific surface area, which could affect the microenvironment on SPS surface and thus affect the microbe functions. The microbial community structure results indicated that the dominant microorganisms on the SPS surface were denitrifying bacteria. The maximum (nirS + nirK)/nosZ ratio was 30.2 for the 75-150 μm system, which was nearly 2 times higher than the other systems. The >300 μm system had the highest nosZ abundance, indicating a strong ability to reduce N2O. The co-occurrence networks analysis indicated that the cooperation and competition among nitrifiers and denitrifiers determined N2O emissions. These results provide fundamental insights into the influence of SPS size on N2O emissions in eutrophic lakes.

Deoxygenation turns the coastal Red Sea lagoons into sources of nitrous oxide

Direct measurements of dissolved N₂O concentrations, fluxes and saturation percentages undertaken for the first time in two coastal lagoons - Al-Shabab and Al-Arbaeen, along the east coast of the Red Sea, revealed the region as a significant source of N₂O to the atmosphere. The exacerbated dissolved inorganic nitrogen (DIN) from various anthropogenic sources led to substantial oxygen depletion in both the lagoons, which turned to bottom anoxia at Al-Arbaeen lagoon during the spring season. We assume that the accumulation of N₂O is caused by nitrifier-denitrification in the hypoxic/anoxic boundaries. In fact, the results indicated that oxygen-depleted bottom waters favoured denitrification when the oxygenated surface waters recorded nitrification signals. Overall, the N₂O concentration ranged from 109.4 to 788.6 nM (40.6-325.6 nM) in spring and 58.7 to 209.8 nM (35.8-89.9 nM) in winter in the Al-Arbaeen (Al-Shabab) lagoon. The N₂O flux ranged from 647.1 to 1763.2 μmol m^-2 day^-1 (85.9 to 160.2 μmol m^-2 day^-1) and 112.5 to 150.8 μmol m^-2 day^-1 (76.1 to 88.7 μmol m^-2 day^-1) in the spring and winter respectively, in the Al-Arbaeen (Al-Shabab) lagoons. The ongoing developmental activities may worsen the current situation of hypoxia and associated biogeochemical feedbacks; therefore, the present results underline the need for continuous monitoring of both lagoons to restrict more severe oxygen depletion in future.

Clarifying Microbial Nitrous Oxide Reduction under Aerobic Conditions: Tolerant, Intolerant, and Sensitive

One of the major challenges for the bioremediation application of microbial nitrous oxide (N2O) reduction is its oxygen sensitivity. While a few strains were reported capable of reducing N2O under aerobic conditions, the N2O reduction kinetics of phylogenetically diverse N2O reducers are not well understood. Here, we analyzed and compared the kinetics of clade I and clade II N2O-reducing bacteria in the presence or absence of oxygen (O2) by using a whole-cell assay with N2O and O2 microsensors. Among the seven strains tested, N2O reduction of Stutzerimonas stutzeri TR2 and ZoBell was not inhibited by oxygen (i.e., oxygen tolerant). Paracoccus denitrificans, Azospirillum brasilense, and Gemmatimonas aurantiaca reduced N2O in the presence of O2 but slower than in the absence of O2 (i.e., oxygen sensitive). N2O reduction of Pseudomonas aeruginosa and Dechloromonas aromatica did not occur when O2 was present (i.e., oxygen intolerant). Amino acid sequences and predicted structures of NosZ were highly similar among these strains, whereas oxygen-tolerant N2O reducers had higher oxygen consumption rates. The results suggest that the mechanism of O2 tolerance is not directly related to NosZ structure but is rather related to the scavenging of O2 in the cells and/or accessory proteins encoded by the nos cluster. IMPORTANCE Some bacteria can reduce N2O in the presence of O2, whereas others cannot. It is unclear whether this trait of aerobic N2O reduction is related to the phylogeny and structure of N2O reductase. The understanding of aerobic N2O reduction is critical for guiding emission control, due to the common concurrence of N2O and O2 in natural and engineered systems. This study provided the N2O reduction kinetics of various bacteria under aerobic and anaerobic conditions and classified the bacteria into oxygen-tolerant, -sensitive, and -intolerant N2O reducers. Oxygen-tolerant N2O reducers rapidly consumed O2, which could help maintain the low O2 concentration in the cells and keep their N2O reductase active. These findings are important and useful when selecting N2O reducers for bioremediation applications.

Consumption of N2O by Flavobacterium azooxidireducens sp. nov. Isolated from Decomposing Leaf Litter of Phragmites australis (Cav.)

Microorganisms acting as sinks for the greenhouse gas nitrous oxide (N₂O) are gaining increasing attention in the development of strategies to control N₂O emissions. Non-denitrifying N₂O reducers are of particular interest because they can provide a real sink without contributing to N₂O release. The bacterial strain under investigation (IGB 4-14^T), isolated in a mesocosm experiment to study the litter decomposition of Phragmites australis (Cav.), is such an organism. It carries only a nos gene cluster with the sec-dependent Clade II nosZ and is able to consume significant amounts of N₂O under anoxic conditions. However, consumption activity is considerably affected by the O₂ level. The reduction of N₂O was not associated with cell growth, suggesting that no energy is conserved by anaerobic respiration. Therefore, the N₂O consumption of strain IGB 4-14^T rather serves as an electron sink for metabolism to sustain viability during transient anoxia and/or to detoxify high N₂O concentrations. Phylogenetic analysis of 16S rRNA gene similarity revealed that the strain belongs to the genus Flavobacterium. It shares a high similarity in the nos gene cluster composition and the amino acid similarity of the nosZ gene with various type strains of the genus. However, phylogenomic analysis and comparison of overall genome relatedness indices clearly demonstrated a novel species status of strain IGB 4-14^T, with Flavobacterium lacus being the most closely related species. Various phenotypic differences supported a demarcation from this species. Based on these results, we proposed a novel species Flavobacterium azooxidireducens sp. nov. (type strain IGB 4-14^T = LMG 29709^T = DSM 103580^T).

Simultaneous nitrification-denitrification in biofilm systems for wastewater treatment: Key factors, potential routes, and engineered applications

Simultaneous nitrification-denitrification (SND) is an advantageous bioprocess that allows the complete removal of ammonia nitrogen through sequential redox reactions leading to nitrogen gas production. SND can govern nitrogen removal in single-stage biofilm systems, such as the moving bed biofilm reactor and aerobic granular sludge system, as oxygen gradients allow the development of multilayered biofilms including nitrifying and denitrifying bacteria. Environmental and operational conditions can strongly influence SND performance, biofilm development and biochemical pathways. Recent advances have outlined the possibility to reduce the carbon and energy consumption of the process via the "shortcut pathway", and simultaneously remove both N and phosphorus under specific operational conditions, opening new possibilities for wastewater treatment. This work critically reviews the factors influencing SND and its application in biofilm systems from laboratory to full scale. Operational strategies to enhance SND efficiency and hints to reduce nitrous oxide emission and operational costs are provided.

Impact and microbial mechanism of continuous nanoplastics exposure on the urban wastewater treatment process

Contamination by nanoplastics in urban water has aroused increasing concern. The impact of nanoplastic exposure on the wastewater treatment process in the long term is still unclear. This study investigated the effect of continuous nanoplastic exposure (R1:0, R2:10, R3:100, and R4:1000 μg/L) on the nitrification and denitrification processes for over 200 days in a sequencing batch reactor (SBR). The results revealed that nanoplastic exposure does not demonstrate significant inhibition of total nitrogen removal. The ammonia oxidation rate (19.24 ± 0.01 mgN/gMLVSS/h, p < 0.05) and denitrification rate (11.78 ± 0.11 mgN/ gMLVSS/h, p < 0.05) in R4 was significantly lower than the control (R1: 0 μg/L). The maximal reaction velocities of N₂O reduction (Vmax) were improved after long-term exposure to nanoplastics in high concentrations. The R3 demonstrated the highest Vmax value-six times higher than R4 and approximately 20 times higher than R1 and R2. The microbial structure largely varied with the exposure to nanoplastics, where the exposure to a high concentration largely suppressed the nitrifier and selectively enriched the denitrifier. The percentage of the top 20 genera of denitrifiers increased from 31.76% to 63.42%, and the nitrifiers decreased from an initial 12.40% to 2.83% for R4. The predominant genera were found to be Thauera, Azoarcus, and Defluviicoccus in R4 and R3 which indicated their tolerance to nanoplastics. The function prediction results indicated that the membrane transport function was significantly enhanced and the lipid metabolism function was significantly reduced in R4 as compared with the control (R1, p<0.05). This may be attributed to the adsorption of nanoplastics on bacteria. Observation under a scan electronic microscope demonstrated that the nanoplastics were firmly attached to the microbe surface and aggregated in activated sludge at high nanoplastics dosed reactor. These results deepen the understanding of the effect of nanoplastics on the urban wastewater treatment process and provide valuable information for the management of nanoplastic contamination in urban wastewater.

Engineering multiscale polypyrrole/carbon nanotubes interface to boost electron utilization in a bioelectrochemical system coupled with chemical absorption for NO removal

The chemical absorption-bioelectrochemical reduction (CABER) integrated system provides an alternative of good potential for NO removal. The efficient utilization of cathode electrons directly determines the system performance and operating cost. Herein, we synthesize a polypyrrole/carbon nanotubes (PPy/CNTs) composite to engineer a micro-and nanoscale interface with low resistance and high biocompatibility between the cathode and biofilms in the CABER system. The resulting PPy/CNTs biocathodes exhibit 36.4% increase in biomass density, 40.7%-302.6% increase in Faraday efficiency along Fe(III)EDTA reduction, and 204% increase in Fe(II)EDTA-NO reduction rate. The enrichment of functional microorganisms is validated to be a key strengthening factor, as the proportion of which increased from 57.9% to 84.6%. Moreover, for efficient electron transfer and utilization, a low-resistance electron transfer route, "electrode substrate → PPy (→ CNTs) → microbial cells → Fe(III)EDTA or Fe(II)EDTA-NO", is realized in the multiscale conductive networks constructed of PPy/CNTs composite and microbial nanowires.

Low nitrous oxide concentration and spatial microbial community transition across an urban river affected by treated sewage

Urban rivers receive used water derived from anthropogenic activities and are a crucial source of the potent greenhouse gas nitrous oxide (N₂O). However, considerable uncertainties still exist regarding the variation and mechanisms of N₂O production in response to the discharge of treated sewage from municipal wastewater treatment plants (WWTPs). This study investigated N₂O concentrations and microbial processes responsible for nitrogen conversion upstream and downstream of WWTPs along the Tama River flowing through Tokyo, Japan. We evaluated the effect of treated sewage on dissolved N₂O concentrations and inherent N₂O consumption activities in the river sediments. In summer and winter, the mean dissolved N₂O concentrations were 0.67 µg-N L^-1 and 0.82 µg-N L^-1, respectively. Although the dissolved N₂O was supersaturated (mean 288.7% in summer, mean 240.7% in winter) in the river, the N₂O emission factors (EF_5r, 0.013%-0.025%) were significantly lower than those in other urban rivers and the Intergovernmental Panel on Climate Change default value (0.25%). The nitrate (NO₃^-) concentration in the Tama River increased downstream of the WWTPs discharge sites, and it was the main nitrogen constituent. An increasing trend of NO₃^- concentration was observed from upstream to downstream, along with an increase in the N₂O consumption potential of the river sediment. A multiple regression model showed that NO₃^- is the crucial factor influencing N₂O saturation. The diversity in the upstream microbial communities was greater than that in the downstream ones, indicating the involvement of treated sewage discharge in shaping the microbial communities. Functional gene quantification for N₂O production and consumption suggested that nirK-type denitrifiers likely contributed to N₂O production. Structural equation models (SEMs) revealed that treated sewage discharged from WWTPs increased the NO₃^- loading from upstream to downstream in the river, inducing changes in the microbial communities and enhancing the N₂O consumption activities. Collectively, aerobic conditions limited denitrification and in turn facilitated nitrification, leading to low N₂O emissions even despite high NO₃^- loadings in the Tama River. Our findings unravel an overestimation of the N₂O emission potential in an urban oxygen-rich river affected by treated sewage discharge.

Organic carbon determines nitrous oxide consumption activity of clade I and II nosZ bacteria: Genomic and biokinetic insights

Harnessing nitrous oxide (N2O)-reducing bacteria is a promising strategy to reduce the N2O footprint of engineered systems. Applying a preferred organic carbon source as an electron donor accelerates N2O consumption by these bacteria. However, their N2O consumption potential and activity when fed different organic carbon species remain unclear. Here, we systematically compared the effects of various organic carbon sources on the activity of N2O-reducing bacteria via investigation of their biokinetic properties and genomic potentials. Five organic carbon sources-acetate, succinate, glycerol, ethanol, and methanol-were fed to four N2O-reducing bacteria harboring either clade I or clade II nosZ gene. Respirometric analyses were performed with four N2O-reducing bacterial strains, identifying distinct shifts in DO- and N2O-consumption biokinetics in response to the different feeding schemes. Regardless of the N2O-reducing bacteria, higher N2O consumption rates, accompanied by higher biomass yields, were obtained with acetate and succinate. The biomass yield (15.45 ± 1.07 mg-biomass mmol-N2O-1) of Azospira sp. strain I13 (clade II nosZ) observed under acetate-fed condition was significantly higher than those of Paracoccus denitrificans and Pseudomonas stutzeri, exhibiting greater metabolic efficiency. However, the spectrum of the organic carbon species utilizable to Azospira sp. strain I13 was limited, as demonstrated by the highly variable N2O consumption rates observed with different substrates. The potential to metabolize the supplemented carbon sources was investigated by genomic analysis, the results of which corroborated the N2O consumption biokinetics results. Moreover, electron donor selection had a substantial impact on how N2O consumption activities were recovered after oxygen exposure. Collectively, our findings highlight the importance of choosing appropriate electron donor additives for increasing the N2O sink capability of biological nitrogen removal systems.