Effect of increasing atmospheric methane concentration on ammonium inhibition of soil methane consumption

Different oxygen affinities of methanotrophs and Comammox Nitrospira inform an electrically induced symbiosis for nitrogen loss

Aerobic methanotrophs establish a symbiotic association with denitrifiers to facilitate the process of aerobic methane oxidation coupled with denitrification (AME-D). However, the symbiosis has been frequently observed in hypoxic conditions continuing to pose an enigma. The present study has firstly characterized an electrically induced symbiosis primarily governed by Methylosarcina and Hyphomicrobium for the AME-D process in a hypoxic niche caused by Comammox Nitrospira. The kinetic analysis revealed that Comammox Nitrospira exhibited a higher apparent oxygen affinity compared to Methylosarcina. While the coexistence of comammox and AME-D resulted in an increase in methane oxidation and nitrogen loss rates, from 0.82 ± 0.10 to 1.72 ± 0.09 mmol CH4 d-1 and from 0.59 ± 0.04 to 1.30 ± 0.15 mmol N2 d-1, respectively. Furthermore, the constructed microbial fuel cells demonstrated a pronounced dependence of the biocurrents on AME-D due to oxygen competition, suggesting the involvement of direct interspecies electron transfer in the AME-D process under hypoxic conditions. Metagenomic and metatranscriptomic analysis revealed that Methylosarcina efficiently oxidized methane to formaldehyde, subsequently generating abundant NAD(P)H for nitrate reduction by Hyphomicrobium through the dissimilatory RuMP pathway, leading to CO2 production. This study challenges the conventional understanding of survival mechanism employed by AME-D symbionts, thereby contributing to the characterization responsible for limiting methane emissions and promoting nitrogen removal in hypoxic regions.

Attenuation of Methane Oxidation by Nitrogen Availability in Arctic Tundra Soils

CH₄ emission in the Arctic has large uncertainty due to the lack of mechanistic understanding of the processes. CH₄ oxidation in Arctic soil plays a critical role in the process, whereby removal of up to 90% of CH₄ produced in soils by methanotrophs can occur before it reaches the atmosphere. Previous studies have reported on the importance of rising temperatures in CH₄ oxidation, but because the Arctic is typically an N-limited system, fewer studies on the effects of inorganic nitrogen (N) have been reported. However, climate change and an increase of available N caused by anthropogenic activities have recently been reported, which may cause a drastic change in CH₄ oxidation in Arctic soils. In this study, we demonstrate that excessive levels of available N in soil cause an increase in net CH₄ emissions via the reduction of CH₄ oxidation in surface soil in the Arctic tundra. In vitro experiments suggested that N in the form of NO₃^- is responsible for the decrease in CH₄ oxidation via influencing soil bacterial and methanotrophic communities. The findings of our meta-analysis suggest that CH₄ oxidation in the boreal biome is more susceptible to the addition of N than in other biomes. We provide evidence that CH₄ emissions in Arctic tundra can be enhanced by an increase of available N, with profound implications for modeling CH₄ dynamics in Arctic regions.

Litter-derived nitrogen reduces methane uptake in tropical rainforest soils

Litter comprises a major nutrient source when decomposed via soil microbes and functions as subtract that limits gas exchange between soil and atmosphere, thereby restricting methane (CH4) uptake in soils. However, the impact and inherent mechanism of litter and its decomposition on CH4 uptake in soils remains unknown in forest. Therefore, to declare the mechanisms of litter input and decomposition effect on the soil CH4 flux in forest, this study performed a litter-removal experiment in a tropical rainforest, and investigated the effects of litter input and decomposition on the CH4 flux among forest ecosystems through a literature review. Cumulative annual CH4 flux was -3.30 kg CH4-C ha^-1 y^-1. The litter layer decreased annual accumulated CH4 uptake by 8% which greater in the rainy season than the dry season in the tropical rainforest. Litter decomposition and the input of carbon and nitrogen in litter biomass reduced CH4 uptake significantly and the difference in CH4 flux between treatment with litter and without litter was negatively associated with N derived from litter input. Based on the literature review about litter effect on soil CH4 around world forests, the effect of litter dynamics on CH4 uptake was regulated by litter-derived nitrogen input and the amount soil inorganic nitrogen content. Our results suggest that nitrogen input via litter decomposition, which increased with temperature, caused a decline in CH4 uptake by forest soils, which could weaken the contribution of the forest in mitigating global warming.

The impacts of nitrogen addition on upland soil methane uptake: A global meta-analysis

Elevated nitrogen (N) addition from anthropogenic activities has great impacts on soil methane (CH₄) uptake, which could interrupt the existing global CH₄ balance and cause feedbacks to climate and biogeochemical processes. Previous studies have come to inconsistent conclusions on both the quantification of the response of CH₄ uptake to N addition and understanding of its underlying mechanisms, probably due to the lack of experimental data. Here, we conduct a broad meta-analysis of 90 papers to quantify the responses of CH₄ uptake to N addition in upland soil. The results show that N addition has a significant negative impact on soil CH₄ uptake (-19.25%), which is termed the N inhibition effect. Soil pH is identified as the dominant factor, with the other factors affecting the CH₄ uptake through the alteration of soil pH. The N inhibition effect is observed to be large and significant in forest and grassland, but small and insignificant in farmland, because of the distinct composition of their methanotrophic communities. A threshold of the N addition level is identified at about 68 kg N ha^-1 year^-1, which indicates the lowest N inhibition effect. Furthermore, the convex relationship between response ratio of CH₄ uptake (negative) and N addition duration indicates that a medium level of N addition duration has the largest N inhibition effect, and longer or shorter durations will both reduce the effect. Our analysis of the N inhibition effect implies that controlling the N addition level could effectively reduce the CH₄ concentration in the atmosphere and thus relieve global warming.

Ammonium promoting methane oxidation by stimulating the Type Ia methane-oxidizing bacteria in tidal flat sediments of the Yangtze River estuary

Estuary and coastal environments have essential ecosystem functions in greenhouse gas sinks and removal of nitrogen pollution. Methane-oxidizing bacteria (MOB) and ammonia-oxidizing bacteria (AOB) communities play critical functions in the estuary's tidal flat sediments. Therefore, the effects of ammonium on MOB communities and methane on AOB communities need to be further explained. In this study, microcosm incubations with different contents of ammonium or methane were conducted for a relatively short (24 h) or long (28 days) period with tidal flat sediments from the Yangtze River estuary. Subsequently, the tagged highly degenerate primer PCR and DNA-based stable isotope probing method were employed to demonstrate the effects on MOB and AOB populations. The results indicated that the methane consumption was enhanced with ammonium supplements within 24 h of incubation. Supplement of 2 μmol/g d.w.s (μmol per gram dry weight soil) NH₄⁺ increased the amount of MOB and its proportion to the total bacteria (p < 0.05) for 28 days incubation. The ammonium supplement increased the proportion of Methylomonas and Methylobacter based on the 16S rRNA gene. According to the functional gene analysis, the MOB primarily engaged in methane oxidation include Methylomonas, Methylobacter, Methylomicrobium, and Methylosarcina, which were associated with Type Ia MOB. It suggested that ammonium supplement may promote methane oxidation by stimulating the Type Ia MOB in tidal flat sediments of the Yangtze River estuary. The current research helps understand the effect of ammonium on methane consumption in the estuary and coastal environments.

Unimodal Response of Soil Methane Consumption to Increasing Nitrogen Additions

Nitrogen (N) status has a great impact on methane (CH₄) consumption by soils. Modeling studies predicting soil CH₄ consumption assume a linear relationship between CH₄ uptake and N addition rate. Here, we present evidence that a nonlinear relationship may better characterize changes in soil CH₄ uptake with increasing N additions. By conducting a field experiment with eight N-input levels in a Tibetan alpine steppe, we observed a unimodal relationship; CH₄ uptake increased at low to medium N levels but declined at high N levels. Environmental and microbial properties jointly determined this response pattern. The generality of the unimodal trend was further validated by two independent analyses: (i) we examined soil CH₄ uptake across at least five N-input levels in upland ecosystems across China. A unimodal CH₄ uptake-N addition rate relationship was observed in 3 out of 4 cases; and (ii) we performed a meta-analysis to explore the N-induced changes in soil CH₄ uptake with increasing N additions across global upland ecosystems. Results showed that the changes in CH₄ uptake exhibited a quadratic correlation with N addition rate. Overall, we suggest that the unimodal relationship should be considered in biogeochemistry models for accurately predicting soil CH₄ consumption under global N enrichment.

Methane production, oxidation and mitigation: A mechanistic understanding and comprehensive evaluation of influencing factors

Methane is one of the critical greenhouse gases, which absorb long wavelength radiation, affects the chemistry of atmosphere and contributes to global climate change. Rice ecosystem is one of the major anthropogenic sources of methane. The anaerobic waterlogged soil in rice field provides an ideal environment to methanogens for methanogenesis. However, the rate of methanogenesis differs according to rice cultivation regions due to a number of biological, environmental and physical factors like carbon sources, pH, Eh, temperature etc. The interplay between the different conditions and factors may also convert the rice fields into sink from source temporarily. Mechanistic understanding and comprehensive evaluation of these variations and responsible factors are urgently required for designing new mitigation options and evaluation of reported option in different climatic conditions. The objective of this review paper is to develop conclusive understanding on the methane production, oxidation, and emission and methane measurement techniques from rice field along with its mitigation/abatement mechanism to explore the possible reduction techniques from rice ecosystem.

Biomimetic Hydrogel Composites for Soil Stabilization and Contaminant Mitigation

We have developed a novel method to synthesize a hyper-branched biomimetic hydrogel network across a soil matrix to improve the mechanical strength of the loose soil and simultaneously mitigate potential contamination due to excessive ammonium. This method successfully yielded a hierarchical structure that possesses the water retention, ion absorption, and soil aggregation capabilities of plant root systems in a chemically controllable manner. Inspired by the robust organic-inorganic composites found in many living organisms, we have combined this hydrogel network with a calcite biomineralization process to stabilize soil. Our experiments demonstrate that poly(acrylic acid) (PAA) can work synergistically with enzyme-induced carbonate precipitation (EICP) to render a versatile, high-performance soil stabilization method. PAA-enhanced EICP provides multiple benefits including lengthening of water supply time, localization of cementation reactions, reduction of harmful byproduct ammonium, and achievement of ultrahigh soil strength. Soil crusts we have obtained can sustain up to 4.8 × 10³ kPa pressure, a level comparable to cementitious materials. An ammonium removal rate of 96% has also been achieved. These results demonstrate the potential for hydrogel-assisted EICP to provide effective soil improvement and ammonium mitigation for wind erosion control and other applications.

A five-year study of the impact of nitrogen addition on methane uptake in alpine grassland

It remains unclear how nitrogen (N) deposition affects soil methane (CH₄) uptake in semiarid and arid zones. An in situ field experiment was conducted from 2010 to 2014 to systematically study the effect of various N application rates (0, 10, 30, and 90 kg N ha⁻¹ yr⁻¹) on CH₄ flux in alpine grassland in the Tianshan Mountains. No significant influence of N addition on CH₄ uptake was found. Initially the CH₄ uptake rate increased with increasing N application rate by up to 11.5% in 2011 and then there was gradual inhibition by 2014. However, the between-year variability in CH₄ uptake was very highly significant with average uptake ranging from 52.9 to 106.6 μg C m⁻² h⁻¹ and the rate depended largely on seasonal variability in precipitation and temperature. CH₄ uptake was positively correlated with soil temperature, air temperature and to a lesser extent with precipitation, and was negatively correlated with soil moisture and NO₃⁻-N content. The results indicate that between-year variability in CH₄ uptake was impacted by precipitation and temperature and was not sensitive to elevated N deposition in alpine grassland.

Biologically derived fertilizer: A multifaceted bio-tool in methane mitigation

Methane emissions are affected by agricultural practices. Agriculture has increased in scale and intensity because of greater food, feed and energy demands. The application of chemical fertilizers in agriculture, particularly in paddy fields, has contributed to increased atmospheric methane emissions. Using organic fertilizers may improve crop yields and the methane sink potential within agricultural systems, which may be further improved when combined with beneficial microbes (i.e. biofertilizers) that improve the activity of methane oxidizing bacteria such as methanotrophs. Biofertilizers may be an effective tool for agriculture that is environmentally beneficial compared to conventional inorganic fertilizers. This review highlights and discusses the interplay between ammonia and methane oxidizing bacteria, the potential interactions of microbial communities with microbially-enriched organic amendments and the possible role of these biofertilizers in augmenting the methane sink potential of soils. It is suggested that biofertilizer applications should not only be investigated in terms of sustainable agriculture productivity and environmental management, but also in terms of their effects on methanogen and methanotroph populations.

Bioconversion of natural gas to liquid fuel: opportunities and challenges

Natural gas is a mixture of low molecular weight hydrocarbon gases that can be generated from either fossil or anthropogenic resources. Although natural gas is used as a transportation fuel, constraints in storage, relatively low energy content (MJ/L), and delivery have limited widespread adoption. Advanced utilization of natural gas has been explored for biofuel production by microorganisms. In recent years, the aerobic bioconversion of natural gas (or primarily the methane content of natural gas) into liquid fuels (Bio-GTL) by biocatalysts (methanotrophs) has gained increasing attention as a promising alternative for drop-in biofuel production. Methanotrophic bacteria are capable of converting methane into microbial lipids, which can in turn be converted into renewable diesel via a hydrotreating process. In this paper, biodiversity, catalytic properties and key enzymes and pathways of these microbes are summarized. Bioprocess technologies are discussed based upon existing literature, including cultivation conditions, fermentation modes, bioreactor design, and lipid extraction and upgrading. This review also outlines the potential of Bio-GTL using methane as an alternative carbon source as well as the major challenges and future research needs of microbial lipid accumulation derived from methane, key performance index, and techno-economic analysis. An analysis of raw material costs suggests that methane-derived diesel fuel has the potential to be competitive with petroleum-derived diesel.

Simulated nitrogen deposition reduces CH4 uptake and increases N2O emission from a subtropical plantation forest soil in southern China

To date, few studies are conducted to quantify the effects of reduced ammonium (NH4+) and oxidized nitrate (NO3-) on soil CH4 uptake and N2O emission in the subtropical forests. In this study, NH4Cl and NaNO3 fertilizers were applied at three rates: 0, 40 and 120 kg N ha(-1) yr(-1). Soil CH4 and N2O fluxes were determined twice a week using the static chamber technique and gas chromatography. Soil temperature and moisture were simultaneously measured. Soil dissolved N concentration in 0-20 cm depth was measured weekly to examine the regulation to soil CH4 and N2O fluxes. Our results showed that one year of N addition did not affect soil temperature, soil moisture, soil total dissolved N (TDN) and NH4+-N concentrations, but high levels of applied NH4Cl and NaNO3 fertilizers significantly increased soil NO3(-)-N concentration by 124% and 157%, respectively. Nitrogen addition tended to inhibit soil CH4 uptake, but significantly promoted soil N2O emission by 403% to 762%. Furthermore, NH4+-N fertilizer application had a stronger inhibition to soil CH4 uptake and a stronger promotion to soil N2O emission than NO3(-)-N application. Also, both soil CH4 and N2O fluxes were driven by soil temperature and moisture, but soil inorganic N availability was a key integrator of soil CH4 uptake and N2O emission. These results suggest that the subtropical plantation soil sensitively responses to atmospheric N deposition, and inorganic N rather than organic N is the regulator to soil CH4 uptake and N2O emission.

Nitrous oxide and methane emissions from optimized and alternative cereal cropping systems on the North China Plain: a two-year field study

The impacts of different crop rotation systems with their corresponding management practices on grain yield, greenhouse gas emissions, and fertilizer nitrogen (N) and irrigation water use efficiencies are not well documented. This holds especially for the North China Plain which provides the staple food for hundreds of millions of people and where groundwater resources are polluted with nitrate and depleted through irrigation. Here, we report on fertilizer N and irrigation water use, grain yields, and nitrous oxide (N2O) and methane (CH4) emissions of conventional and optimized winter wheat-summer maize double-cropping systems, and of three alternative cropping systems, namely a winter wheat-summer maize (or soybean)-spring maize system, with three harvests in two years; and a single spring maize system with one crop per year. The results of this two-year study show that the optimized double-cropping system led to a significant increase in grain yields and a significant decrease in fertilizer N use and net greenhouse gas intensity, but the net greenhouse gas N2O emissions plus CH4 uptake and the use of irrigation water did not decrease relative to the conventional system. Compared to the conventional system the net greenhouse gas emissions, net greenhouse gas intensity and use of fertilizer N and irrigation water decreased in the three alternative cropping systems, but at the cost of grain yields except in the winter wheat-summer maize-spring maize system. Net uptake of CH4 by the soil was little affected by cropping system. Average N2O emission factors were only 0.17% for winter wheat and 0.53% for maize. In conclusion, the winter wheat-summer maize-spring maize system has considerable potential to decrease water and N use and decrease N2O emissions while maintaining high grain yields and sustainable use of groundwater.

Do nitrogen fertilizers stimulate or inhibit methane emissions from rice fields?

In rice cultivation, there are controversial reports on net impacts of nitrogen (N) fertilizers on methane (CH ₄ ) emissions. Nitrogen fertilizers increase crop growth as well as alter CH ₄ producing (Methanogens) and consuming (Methanotrophs) microbes, and thereby produce complex effects on CH ₄ emissions. Objectives of this study were to determine net impact of N fertilizers on CH ₄ emissions and to identify their underlying mechanisms in the rice soils. Database was obtained from 33 published papers that contained CH ₄ emissions observations from N fertilizer (28-406 kg N ha^-1 ) treatment and its control. Results have indicated that N fertilizers increased CH ₄ emissions in 98 of 155 data pairs in rice soils. Response of CH ₄ emissions per kg N fertilizer was significantly (P < 0.05) greater at < 140 kg N ha^-1 than > 140 kg N ha^-1 indicating that substrate switch from CH ₄ to ammonia by Methanotrophs may not be a dominant mechanism for increased CH ₄ emissions. On the contrary, decreased CH ₄ emission in intermittent drainage by N fertilizers has suggested the stimulation of Methanotrophs in rice soils. Effects of N fertilizer stimulated Methanotrophs in reducing CH ₄ emissions were modified by the continuous flood irrigation due to limitation of oxygen to Methanotrophs. Greater response of CH ₄ emissions per kg N fertilizer in urea than ammonia sulfate probably indicated the interference of sulfate in the CH ₄ production process. Overall, response of CH ₄ emissions to N fertilizers was correlated with N-induced crop yield (r = +0.39; P < 0.01), probably due to increased carbon substrates for Methanogens. Using CH ₄ emission observations, this meta-analysis has identified dominant microbial processes that control net effects of N fertilizers on CH ₄ emissions in rice soils. Finally, we have provided a conceptual model that included microbial processes and controlling factors to predict effects of N fertilizers on CH ₄ emissions in rice soils.

Moisture effects on greenhouse gases generation in nitrifying gas-phase compost biofilters

Gas-phase compost biofilters are extensively used in concentrated animal feeding operations to remove odors and, in some cases, ammonia from air sources. The expected biochemical pathway for these predominantly aerobic systems is nitrification. However, non-uniform media with low oxygen levels can shift biofilter microbial pathways to denitrification, a source of greenhouse gases. Several factors contribute to the formation of anoxic/anaerobic zones: media aging, media and particle structure, air velocity distribution, compaction, biofilm thickness, and moisture content (MC) distribution. The present work studies the effects of media moisture conditions on ammonia (NH(3)) removal and greenhouse gas generation (nitrous oxide, N(2)O and methane, CH(4)) for gas-phase compost biofilters subject to a 100-day controlled drying process. Continuous recordings were made for the three gases and water vapor (2.21-h sampling cycle, each cycle consisted of three gas species, and water vapor, for a total of 10,050 data points). Media moisture conditions were classified into three corresponding media drying rate (DR) stages: Constant DR (wetter media), falling DR, and stable-dry system. The first-half of the constant DR period (0-750 h; MC=65-52%, w.b.) facilitated high NH(3) removal rates, but higher N(2)O generation and no CH(4) generation. At the drier stages of the constant DR (750-950 h; MC=52-48%, w.b.) NH(3) removal remained high but N(2)O net generation decreased to near zero. In the falling DR stage (1200-1480 h; MC=44-13%) N(2)O generation decreased, CH(4) increased, and NH(3) was no longer removed. No ammonia removal or greenhouse gas generation was observed in the stable-dry system (1500-2500 h; MC=13%). These results indicate that media should remain toward the drier region of the constant DR (in close proximity to the falling DR stage; MC=50%, approx.), to maintain high levels of NH(3) removal, reduced levels of N(2)O generation, and nullify levels of CH(4) generation.

Nitrifying and denitrifying pathways of methanotrophic bacteria

Nitrous oxide, a potent greenhouse gas and ozone-depleting molecule, continues to accumulate in the atmosphere as a product of anthropogenic activities and land-use change. Nitrogen oxides are intermediates of nitrification and denitrification and are released as terminal products under conditions such as high nitrogen load and low oxygen tension among other factors. The rapid completion and public availability of microbial genome sequences has revealed a high level of enzymatic redundancy in pathways terminating in nitrogen oxide metabolites, with few enzymes involved in returning nitrogen oxides to dinitrogen. The aerobic methanotrophic bacteria are particularly useful for discovering and analysing diverse mechanisms for nitrogen oxide production, as these microbes both nitrify (oxidize ammonia to nitrite) and denitrify (reduce nitrate/nitrite to nitrous oxide via nitric oxide), and yet do not rely on these pathways for growth. The fact that methanotrophs have a rich inventory for nitrogen oxide metabolism is, in part, a consequence of their evolutionary relatedness to ammonia-oxidizing bacteria. Furthermore, the ability of individual methanotrophic taxa to resist toxic intermediates of nitrogen metabolism affects the relative abundance of nitrogen oxides released into the environment, the composition of their community, and the balance between nitrogen and methane cycling.

Biofiltration of air polluted with methane at concentration levels similar to swine slurry emissions: influence of ammonium concentration

An evaluation of the effect of ammonium on the performance of two up-flow inorganic packed bed biofilters treating methane was conducted. The air flow rate was set to 3.0 L min(-1) for an empty bed residence time of 6.0 min. The biofilter was fed with a methane concentration of 0.30% (v/v). The ammonium concentration in the nutrient solution was increased by small increments (from 0.01 to 0.025 gN-NH(4) (+) L(-1)) for one biofilter and by large increments of 0.05 gN-NH(4) (+) L(-1) in the other biofilter. The total concentration of nitrogen was kept constant at 0.5 gN-NH(4) (+) L(-1) throughout the experiment by balancing ammonium with nitrate. For both biofilters, the methane elimination capacity, carbon dioxide production, nitrogen bed retention and biomass content decreased with the ammonium concentration in the nutrient solution. The biofilter with smaller ammonium increments featured a higher elimination capacity and carbon dioxide production rate, which varied from 4.9 to 14.3 g m(-3) h(-1) and from 11.5 to 30 g m(-3) h(-1), respectively. Denitrification was observed as some values of the nitrate production rate were negative for ammonium concentrations below 0.2 gN-NH(4) (+) L(-1). A Michalelis-Menten-type model fitted the ammonium elimination rate and the nitrate production rate.

Methane oxidation in landfill waste biocover soil: kinetics and sensitivity to ambient conditions

Waste biocover soil was investigated as an alternative in regions with a shortage of landfill cover soil. In the work, effects of the composition, ambient conditions and nitrogen stress on CH(4) oxidation in waste biocover soil were studied. The results showed that the optimal composition of waste biocover soil as a landfill cover material for CH(4) oxidation was original pH value, 45% moisture and a particle size of ≤ 4mm. CH(4) oxidation rate increased rapidly over a CH(4) concentration range of 0.01-10% (v/v), and kept stable at CH(4) concentrations of 10-30% (v/v). The Michaelis-Menten model showed a good fit for the kinetic of CH(4) oxidation in landfill waste biocover soil with a maximum of 9.03 μmol/gd.w./h. The average Q(10) was 10.6 in the batch experiments. A level of 5% of oxygen concentration was enough to sustain the activity of methanotrophs community structure in waste biocover soil. Waste biocover soil had low baseline concentrations of NH(4)(+)-N and NO(3)(-)-N. Ammonia volatilization from landfills and nitrification in landfill waste biocover soils might stimulate CH(4) consumption at concentrations below 600 mg/kg. However, the contents of NH(4)(+)-N and NO(3)(-)-N above 1200 mg/kg would inhibit CH(4) oxidation in landfill waste biocover soil. Compared with NO(3)(-)-N, NH(4)(+)-N had a greater stimulating action as nutrient at lower concentrations and inhibitory effect at higher concentrations on CH(4) oxidation in landfill waste biocover soil.

Flux measurements of benzene and toluene from landfill cover soils

Carbon dioxide and CH(4), C(6)H(6) and C(7)H(8) fluxes from the soil cover of Case Passerini landfill site (Florence, Italy) were measured using the accumulation and static closed chamber methods, respectively. Results show that the CH(4)/CO(2), CH(4)/C(6)H(6) and CH(4)/C(7)H(8) ratios of the flux values are relatively low when compared with those of the 'pristine' biogas produced by degradation processes acting on the solid waste material disposed in the landfill. This suggests that when biogas transits through the cover soil, CH(4) is affected by degradation processes activated by oxidizing bacteria at higher extent than both CO(2) and mono-aromatics. Among the investigated hydrocarbons, C(6)H(6) has shown the highest stability in a wide range of redox conditions. Toluene behaviour only partially resembles that of C(6)H(6), possibly because de-methylation processes require less energy than that necessary for the degradation of C(6)H(6), the latter likely occurring via benzoate at anaerobic conditions and/or through various aerobic metabolic pathways at relatively shallow depth in the cover soil where free oxygen is present. According to these considerations, aromatics are likely to play an important role in the environmental impact of biogas released into the atmosphere from such anthropogenic emission sites, usually only ascribed to CO(2) and CH(4). In this regard, flux measurements using accumulation and static closed chamber methods coupled with gas chromatography and gas chromatography-mass spectrometry analysis may properly be used to obtain a dataset for the estimation of the amount of volatile organic compounds dispersed from landfills.

Nitrogen as a regulatory factor of methane oxidation in soils and sediments

The oxidation of methane by methane-oxidising microorganisms is an important link in the global methane budget. Oxic soils are a net sink while wetland soils are a net source of atmospheric methane. It has generally been accepted that the consumption of methane in upland as well as lowland systems is inhibited by nitrogenous fertiliser additions. Hence, mineral nitrogen (i.e. ammonium/nitrate) has conceptually been treated as a component with the potential to enhance emission of methane from soils and sediments to the atmosphere, and results from numerous studies have been interpreted as such. Recently, ammonium-based fertilisation was demonstrated to stimulate methane consumption in rice paddies. Growth and activity of methane-consuming bacteria in microcosms as well as in natural rice paddies was N limited. Analysing the available literature revealed that indications for N limitation of methane consumption have been reported in a variety of lowland soils, upland soils, and sediments. Obviously, depriving methane-oxidising bacteria of a suitable source of N hampers their growth and activity. However, an almost instantaneous link between the presence of mineral nitrogen (i.e. ammonium, nitrate) and methane-oxidising activity, as found in rice soils and culture experiments, requires an alternative explanation. We propose that switching from mineral N assimilation to the fixation of molecular nitrogen may explain this phenomenon. However, there is as yet no experimental evidence for any mechanism of instantaneous stimulation, since most studies have assumed that nitrogenous fertiliser is inhibitory of methane oxidation in soils and have focused only on this aspect. Nitrogen as essential factor on the sink side of the global methane budget has been neglected, leading to erroneous interpretation of methane emission dynamics, especially from wetland environments. The purpose of this minireview is to summarise and balance the data on the regulatory role of nitrogen in the consumption of methane by soils and sediments, and thereby stimulate the scientific community to embark on experiments to close the existing gap in knowledge.

Degradation of C2-C15 volatile organic compounds in a landfill cover soil

The composition of non-methane volatile organic compounds (hereafter VOCs) in i) the cover soil, at depths of 30, 50 and 70 cm, and ii) gas recovery wells from Case Passerini landfill site, (Florence, Italy) was determined by GC-MS. The study, based on the analysis of interstitial gases sampled along vertical profiles within the cover soil, was aimed to investigate the VOC behaviour as biogas transits from a reducing to a relatively more oxidizing environment. A total of 48 and 63 different VOCs were identified in the soil and well gases, respectively. Aromatics represent the dominant group (71.5% of total VOC) in soil gases, followed by alkanes (6.8%), ketones (5.7%), organic acids (5.2%), aldehydes (3.0%), esters (2.6%), halogenated compounds (2.1%) and terpenes (1.3%). Cyclics, heterocyclics, S-bearing compounds and phenols are <or=1%. In the wells the VOC composition is characterized by higher concentrations of cyclic (7.6%) and S-bearing compounds (2%) and lower concentrations of O-bearing compounds. The vertical distribution of VOCs in the cover soil shows significant variations: alkanes, aromatics and cyclics decrease at decreasing depth, whereas an inverse trend is displayed by the O-bearing species. Total VOC and CH(4) concentrations at a depth of 30 cm in the soil are comparable, inferring that microbial activity is likely affecting VOCs at a very minor extent with respect to CH(4). According to these considerations, to assess the biogas emission impact, usually carried out on the sole basis of CO(2) and CH(4) emission rates, the physical-chemical behaviour of VOCs in the cover soil, regulating the discharge of these highly contaminant compounds in ambient air, has to be taken into account. The soil vertical distribution of these species can be used to better evaluate the efficiency of oxidative capability of intermediate and final covers.

First genome data from uncultured upland soil cluster alpha methanotrophs provide further evidence for a close phylogenetic relationship to Methylocapsa acidiphila B2 and for high-affinity methanotrophy involving particulate methane monooxygenase

Members of upland soil cluster alpha (USC alpha) are assumed to be methanotrophic bacteria (MB) adapted to the trace level of atmospheric methane. So far, these MB have eluded all cultivation attempts. While the 16S rRNA phylogeny of USC alpha members is still not known, phylogenies constructed for the active-site polypeptide (encoded by pmoA) of particulate methane monooxygenase (pMMO) placed USC alpha next to the alphaproteobacterial Methylocapsa acidiphila B2. To assess whether the pmoA tree reflects the evolutionary identity of USC alpha, a 42-kb genomic contig of a USC alpha representative was obtained from acidic forest soil by screening a metagenomic fosmid library of 250,000 clones using pmoA-targeted PCR. For comparison, a 101-kb genomic contig from M. acidiphila was analyzed, including the pmo operon. The following three lines of evidence confirmed a close phylogenetic relationship between USC alpha and M. acidiphila: (i) tetranucleotide frequency patterns of 5-kb genomic subfragments, (ii) annotation and comparative analysis of the genomic fragments against all completely sequenced genomes available in public domain databases, and (iii) three single gene phylogenies constructed using the deduced amino acid sequences of a putative prephenate dehydratase, a staphylococcal-like nuclease, and a putative zinc metalloprotease. A comparative analysis of the pmo operons of USC alpha and M. acidiphila corroborated previous reports that both the pmo operon structure and the predicted secondary structure of deduced pMMO are highly conserved among all MB.

Methane production in rice soil is inhibited by cyanobacteria

The present study was aimed at understanding the role of cyanobacteria and Azolla in methane production and oxidation in laboratory simulation experiments using soil samples from rice fields. All the seven cyanobacterial strains tested effected a significant decrease in the headspace concentration of methane in flooded soil, incubated under light. Synechocystis sp. was the most effective in retarding methane concentration by 10-20 fold over that in controls without cyanobacteria. The decrease in the headspace concentration of methane was negligible in nonsterile soil samples, inoculated with Synechocystis sp. and then incubated under dark. Moist soil cores (0-5 cm depth), collected from rice fields that had been treated with urea in combination with a cyanobacterial mixture, Azolla microphylla, or cyanobacterial mixture plus A. microphylla, effected distinctly more rapid decrease in the headspace concentration of methane added at 200 microl(-1) than did the soil cores from plots treated with urea alone (30, 60, 90 and 120 kg N ha(-1)), irrespective of the rate of chemical nitrogen applied to rice fields. Besides, soil cores from plots treated with urea alone at 60, 90 and 120 kg N ha(-1) oxidised methane more rapidly than did the core samples from plots treated with urea alone at 30kg N ha(-1). Cyanobacteria and A. microphylla, applied to flood water, appear to play a major role in mitigation of methane emission from rice fields-through enhanced methane oxidation.

The effect of soil acidification on atmospheric methane uptake by a Maine forest soil(1)

Soil from the zone of maximal methanotrophic activity (approximately 5-8 cm depth) in a mixed coniferous-hardwood forest consumed atmospheric methane over a wide pH range (3.5-7.5) with a broad optimum between 4.8 and 6.0. Methane uptake at native soil pH values (4.4-4.8) was only slightly less rapid than rates at optimal pH values. Addition of mineral acids to intact soil cores in pulsed applications decreased atmospheric methane consumption. The extent of inhibition varied with the type, concentration and volume of acid added: nitric acid was more inhibitory than sulfuric acid at an equivalent soil pH, and methane uptake decreased with increasing volumes and concentrations of added acid. Although ammonium chloride at 1 µmol g fresh weight (gfw) soil(-1) inhibited methane uptake, the extent of inhibition did not vary significantly with decreasing soil pH below values of 4.4.

Response of atmospheric methane consumption by maine forest soils to exogenous aluminum salts

Atmospheric methane consumption by Maine forest soils was inhibited by additions of environmentally relevant levels of aluminum. Aluminum chloride was more inhibitory than nitrate or sulfate salts, but its effect was comparable to that of a chelated form of aluminum. Inhibition could be explained in part by the lower soil pH values which resulted from aluminum addition. However, significantly greater inhibition by aluminum than by mineral acids at equivalent soil pH values indicated that inhibition also resulted from direct effects of aluminum per se. The extent of inhibition by exogenous aluminum increased with increasing methane concentration for soils incubated in vitro. At methane concentrations of >10 ppm, inhibition could be observed when aluminum chloride was added at concentrations as low as 10 nmol g (fresh weight) of soil(-1). These results suggest that widespread acidification of soils and aluminum mobilization due to acid precipitation may exacerbate inhibition of atmospheric methane consumption due to changes in other parameters and increase the contribution of methane to global warming.

The biogeochemical controls of N2O production and emission in landfill cover soils: the role of methanotrophs in the nitrogen cycle

Emissions of N2O from cover soils of both abandoned (> 30 years) and active landfills greatly exceed the maximum fluxes previously reported for tropical soils, suggesting high microbial activities for N2O production. Low soil matrix potentials (<-0.7 MPa) indicate that nitrification was the most likely mechanism of N2O formation during most of the time of sampling. Soil moisture had a strong influence on N2O emissions. The production of N2O was stimulated by as much as 20 times during laboratory incubations, when moisture was increased from -2.0 MPa to -0.6 MPa. Additional evidence from incubation experiments and delta13C analyses of fatty acids (18:1) diagnostic of methanotrophs suggests that N2O is formed in these soils by nitrification via methanotrophic bacteria. In a NH3(g)-amended landfill soil, the rate of N2O production was significantly increased when incubated with 100 ppmv methane compared with 1.8 ppmv (atmospheric) methane. Preincubation of a landfill soil with 1% CH4 for 2 weeks resulted in higher rates of N2O production when subsequently amended with NH3(g) relative to a control soil preincubated without CH4. At one location, at the soil depth (9-16 cm) of maximum methane consumption and N2O production, we observe elevated concentrations of organic carbon and nitrogen and distinct minima in delta15N (+1.0%) and delta13C (-33.8%) values for organic nitrogen and organic carbon respectively. A delta13C value of -39.3% was measured for 18:1 carbon fatty acids in this soil, diagnostic of type II methanotrophs. The low delta15N value for organic nitrogen is consistent with N2 fixation by type II methanotrophs. These observations all point to a methanotrophic origin for the organic matter at this depth. The results of this study corroborate previous reports of methanotrophic nitrification and N2O formation in aqueous and soil environments and suggest a predominance of type II rather than type I or type X methanotrophs in this landfill soil.

Stimulation by ammonium-based fertilizers of methane oxidation in soil around rice roots

Methane is involved in a number of chemical and physical processes in the Earth's atmosphere, including global warming. Atmospheric methane originates mainly from biogenic sources, such as rice paddies and natural wetlands; the former account for at least 30% of the global annual emission of methane to the atmosphere. As an increase of rice production by 60% is the most appropriate way to sustain the estimated increase of the human population during the next three decades, intensified global fertilizer application will be necessary: but it is known that an increase of the commonly used ammonium-based fertilizers can enhance methane emission from rice agriculture. Approximately 10-30% of the methane produced by methanogens in rice paddies is consumed by methane-oxidizing bacteria associated with the roots of rice; these bacteria are generally thought to be inhibited by ammonium-based fertilizers, as was demonstrated for soils and sediments. In contrast, we show here that the activity and growth of such bacteria in the root zone of rice plants are stimulated after fertilization. Using a combination of radioactive fingerprinting and molecular biology techniques, we identify the bacteria responsible for this effect. We expect that our results will make necessary a re-evaluation of the link between fertilizer use and methane emissions, with effects on global warming studies.

Attributes of atmospheric carbon monoxide oxidation by Maine forest soils

CO, one of the most important trace gases, regulates tropospheric methane, hydroxyl radical, and ozone contents. Ten to 25% of the estimated global CO flux may be consumed by soils annually. Depth profiles for (14)CO oxidation and CO concentration indicated that CO oxidation occurred primarily in surface soils and that photooxidation of soil organic matter did not necessarily contribute significantly to CO fluxes. Kinetic analyses revealed that the apparent K(m) was about 18 nM (17 ppm) and the V(max) was 6.9 micromol g (fresh weight)(-1) h(-1); the apparent K(m) was similar to the apparent K(m) for atmospheric methane consumption, but the V(max) was more than 100 times higher. Atmospheric CO oxidation responded sensitively to soil water regimes; decreases in water content in initially saturated soils resulted in increased uptake, and optimum uptake occurred at water contents of 30 to 60%. However, extended drying led to decreased uptake and net CO production. Rewetting could restore CO uptake, albeit with a pronounced hysteresis. The responses to changing temperatures indicated that the optimum temperature for net uptake was between 20 and 25 degrees C and that there was a transition to net production at temperatures above 30 degrees C. The responses to methyl fluoride and acetylene indicated that populations other than ammonia oxidizers and methanotrophs must be involved in forest soils. The response to acetylene was notable, since the strong initial inhibition was reversed after 12 h of incubation; in contrast, methyl fluoride did not have an inhibitory effect. Ammonium did not inhibit CO uptake; the level of nitrite inhibition was initially substantial, but nitrite inhibition was reversible over time. Nitrite inhibition appeared to occur through indirect effects based on abiological formation of NO.

Characterization of methanotrophic bacterial populations in soils showing atmospheric methane uptake

The global methane cycle includes both terrestrial and atmospheric processes and may contribute to feedback regulation of the climate. Most oxic soils are a net sink for methane, and these soils consume approximately 20 to 60 Tg of methane per year. The soil sink for atmospheric methane is microbially mediated and sensitive to disturbance. A decrease in the capacity of this sink may have contributed to the approximately 1%. year(-1) increase in the atmospheric methane level in this century. The organisms responsible for methane uptake by soils (the atmospheric methane sink) are not known, and factors that influence the activity of these organisms are poorly understood. In this study the soil methane-oxidizing population was characterized by both labelling soil microbiota with (14)CH(4) and analyzing a total soil monooxygenase gene library. Comparative analyses of [(14)C]phospholipid ester-linked fatty acid profiles performed with representative methane-oxidizing bacteria revealed that the soil sink for atmospheric methane consists of an unknown group of methanotrophic bacteria that exhibit some similarity to type II methanotrophs. An analysis of monooxygenase gene libraries from the same soil samples indicated that an unknown group of bacteria belonging to the alpha subclass of the class Proteobacteria was present; these organisms were only distantly related to extant methane-oxidizing strains. Studies on factors that affect the activity, population dynamics, and contribution to global methane flux of "atmospheric methane oxidizers" should be greatly facilitated by use of biomarkers identified in this study.

High-affinity methane oxidation by a soil enrichment culture containing a type II methanotroph

Methanotrophic bacteria in an organic soil were enriched on gaseous mixing ratios of <275 parts per million of volume (ppmv) of methane (CH4). After 4 years of growth and periodic dilution (>10(20) times the initial soil inoculum), a mixed culture was obtained which displayed an apparent half-saturation constant [Km(app)] for CH4 of 56 to 186 nM (40 to 132 ppmv). This value was the same as that measured in the soil itself and about 1 order of magnitude lower than reported values for pure cultures of methane oxidizers. However, the Km(app) increased when the culture was transferred to higher mixing ratios of CH4 (1,000 ppmv, or 1%). Denaturing gradient gel electrophoresis of the enrichment grown on <275 ppmv of CH4 revealed a single gene product of pmoA, which codes for a subunit of particulate methane monooxygenase. This suggested that only one methanotroph species was present. This organism was isolated from a sample of the enrichment culture grown on 1% CH4 and phylogenetically positioned based on its 16S rRNA, pmoA, and mxaF gene sequences as a type II strain of the Methylocystis/Methylosinus group. A coculture of this strain with a Variovorax sp., when grown on <275 ppmv of CH4, had a Km(app) (129 to 188 nM) similar to that of the initial enrichment culture. The data suggest that the affinity of methanotrophic bacteria for CH4 varies with growth conditions and that the oxidation of atmospheric CH4 observed in this soil is carried out by type II methanotrophic bacteria which are similar to characterized species.

Methane consumption by soils of dryland rice agriculture: influence of varieties and N-fertilization

Growth of three rice varieties (Heera, Dhala Heera and Narendra-118) and their relationship with methane consumption was investigated under rainfed (dryland) condition. Overall methane flux rates ranged between -0.58 to 1.25 mg m(-2) h(-1) across varieties, treatments, and dates of measurements. Except for two days when soil was saturated, the soil consumed 0.05-0.58 mg CH4 m(-2) h(-1); these rates were inversely related with soil moisture. N-fertilization reduced consumption rates. Although all plant growth parameters, except for number of tillers, exhibited relationship with methane consumption in control plots, only root porosity did so in fertilized plots. Combinations of plant growth characteristics explained 74-92% variability in seasonal CH4 consumption in unfertilized plots. It was concluded that methane consumption by dryland soils was influenced by rice variety, soil moisture and nitrogen fertilization.

Low-concentration kinetics of atmospheric CH4 oxidation in soil and mechanism of NH4+ inhibition

NH4+ inhibition kinetics for CH4 oxidation were examined at near-atmospheric CH4 concentrations in three upland forest soils. Whether NH4+-independent salt effects could be neutralized by adding nonammoniacal salts to control samples in lieu of deionized water was also investigated. Because the levels of exchangeable endogenous NH4+ were very low in the three soils, desorption of endogenous NH4+ was not a significant factor in this study. The Km(app) values for water-treated controls were 9.8, 22, and 57 nM for temperate pine, temperate hardwood, and birch taiga soils, respectively. At CH4 concentrations of </=15 &mgr;l liter-1, oxidation followed first-order kinetics in the fine-textured taiga soil, whereas the coarse-textured temperate soils exhibited Michaelis-Menten kinetics. Compared to water controls, the Km(app) values in the temperate soils increased in the presence of NH4+ salts, whereas the Vmax(app) values decreased substantially, indicating that there was a mixture of competitive and noncompetitive inhibition mechanisms for whole NH4+ salts. Compared to the corresponding K+ salt controls, the Km(app) values for NH4+ salts increased substantially, whereas the Vmax(app) values remained virtually unchanged, indicating that NH4+ acted by competitive inhibition. Nonammoniacal salts caused inhibition to increase with increasing CH4 concentrations in all three soils. In the birch taiga soil, this trend occurred with both NH4+ and K+ salts, and the slope of the increase was not affected by the addition of NH4+. Hence, the increase in inhibition resulted from an NH4+-independent mechanism. These results show that NH4+ inhibition of atmospheric CH4 oxidation resulted from enzymatic substrate competition and that additional inhibition that was not competitive resulted from a general salt effect that was independent of NH4+.