Towards food, feed and energy crops mitigating climate change

Agriculture is an important source of anthropogenic emissions of the greenhouse gases (GHG), methane (CH(4)) and nitrous oxide (N(2)O), and crops can affect the microbial processes controlling these emissions in many ways. Here, we summarize the current knowledge of plant-microbe interactions in relation to the CH(4) and N(2)O budgets and show how this is promoting new generations of crop cultivars that have the potential to mitigate GHG emissions for future agricultural use. The possibility of breeding low GHG-emitting cultivars is a paradigm shift towards sustainable agriculture that balances climate change and food and bioenergy security.     

Microorganisms and climate change: terrestrial feedbacks and mitigation options

Microbial processes have a central role in the global fluxes of the key biogenic greenhouse gases (carbon dioxide, methane and nitrous oxide) and are likely to respond rapidly to climate change. Whether changes in microbial processes lead to a net positive or negative feedback for greenhouse gas emissions is unclear. To improve the prediction of climate models, it is important to understand the mechanisms by which microorganisms regulate terrestrial greenhouse gas flux. This involves consideration of the complex interactions that occur between microorganisms and other biotic and abiotic factors. The potential to mitigate climate change by reducing greenhouse gas emissions through managing terrestrial microbial processes is a tantalizing prospect for the future.     

Microbial ecology of expanding oxygen minimum zones

Dissolved oxygen concentration is a crucial organizing principle in marine ecosystems. As oxygen levels decline, energy is increasingly diverted away from higher trophic levels into microbial metabolism, leading to loss of fixed nitrogen and to production of greenhouse gases, including nitrous oxide and methane. In this Review, we describe current efforts to explore the fundamental factors that control the ecological and microbial biodiversity in oxygen-starved regions of the ocean, termed oxygen minimum zones. We also discuss how recent advances in microbial ecology have provided information about the potential interactions in distributed co-occurrence and metabolic networks in oxygen minimum zones, and we provide new insights into coupled biogeochemical processes in the ocean.     

Elevated CO<Subscript>2</Subscript> and nitrogen addition accelerate net carbon gain in a brackish marsh

Wetlands have an inordinate influence on the global greenhouse gas budget, but how global changes may alter wetland contribution to future greenhouse gas fluxes is poorly understood. We determined the greenhouse gas balance of a tidal marsh exposed to nine years of experimental carbon dioxide (CO₂) and nitrogen (N) manipulation. We estimated net carbon (C) gain rates by measuring changes in plant and soil C pools over nine years. In wetland soils that accrete primarily through organic matter inputs, long-term measurements of soil elevation, along with soil C density, provide a robust estimate of net soil C gain. We used net soil C gain along with methane and nitrous oxide fluxes to determine the radiative forcing of the marsh under elevated CO₂ and N addition. Nearly all plots exhibited a net gain of C over the study period (up to 203 g C m^?2 year^?1), and C gain rates were greater with N and CO₂ addition. Treatment effects on C gain and methane emissions dominated trends in radiative forcing while nitrous oxide fluxes in all treatments were negligible. Though these soils experience salinities that typically suppress methane emissions, our results suggest that elevated CO₂ can stimulate methane emissions, overcoming positive effects of elevated CO₂ on C gain, converting brackish marshes that are typically net greenhouse gas sinks into sources. Adding resources, either CO₂ or N, will likely increase “blue carbon” accumulation rates in tidal marshes, but importantly, each resource can have distinct influences on the direction of total greenhouse forcing.     

Greenhouse gas emissions from rice microcosms amended with a plant microbial fuel cell

Methane (CH₄) release from wetlands is an important source of greenhouse gas emissions. Gas exchange occurs mainly through the aerenchyma of plants, and production of greenhouse gases is heavily dependent on rhizosphere biogeochemical conditions (i.e. substrate availability and redox potential). It is hypothesized that by introducing a biocatalyzed anode electrode in the rhizosphere of wetland plants, a competition for carbon and electrons can be invoked between electrical current-generating bacteria and methanogenic Archaea. The anode electrode is part of a bioelectrochemical system (BES) capable of harvesting electrical current from microbial metabolism. In this work, the anode of a BES was introduced in the rhizosphere of rice plants (Oryza sativa), and the impact on methane emissions was monitored. Microbial current generation was able to outcompete methanogenic processes when the bulk matrix contained low concentrations of organic carbon, provided that the electrical circuit with the effective electroactive microorganisms was in place. When interrupting the electrical circuit or supplying an excess of organic carbon, methanogenic metabolism was able to outcompete current generating metabolism. The qPCR results showed hydrogenotrophic methanogens were the most abundant methanogenic group present, while mixotrophic or acetoclastic methanogens were hardly detected in the bulk rhizosphere or on the electrodes. Competition for electron donor and acceptor were likely the main drivers to lower methane emissions. Overall, electrical current generation with BESs is an interesting option to control CH₄ emissions from wetlands but needs to be applied in combination with other mitigation strategies to be successful and feasible in practice.     

Inhibition of nitrous oxide reduction in forest soil microcosms by different forms of methanobactin

Copper plays a critical role in controlling greenhouse gas emissions as it is a key component of the particulate methane monooxygenase and nitrous oxide reductase. Some methanotrophs excrete methanobactin (MB) that has an extremely high copper affinity. As a result, MB may limit the ability of other microbes to gather copper, thereby decreasing their activity as well as impacting microbial community composition. Here, we show using forest soil microcosms that multiple forms of MB; MB from Methylosinus trichosporium OB3b (MB-OB3b) and MB from Methylocystis sp. strain SB2 (MB-SB2) increased nitrous oxide (N₂O) production as well caused significant shifts in microbial community composition. Such effects, however, were mediated by the amount of copper in the soils, with low-copper soil microcosms showing the strongest response to MB. Furthermore, MB-SB2 had a stronger effect, likely due to its higher affinity for copper. The presence of either form of MB also inhibited nitrite reduction and generally increased the presence of genes encoding for the iron-containing nitrite reductase (nirS) over the copper-dependent nitrite reductase (nirK). These data indicate the methanotrophic-mediated production of MB can significantly impact multiple steps of denitrification, as well as have broad effects on microbial community composition of forest soils.     

微生物驱动的滨海湿地N2O产生及其机制研究进展

滨海湿地位于海陆交界,具有初级生产力高、生物多样性丰富以及微生物驱动的营养元素循环活跃等特点,同时也是大气中一氧化二氮(N_2O)的重要排放源。N_2O是仅次于二氧化碳(CO2)和甲烷(CH4)的第三大温室气体,而全球90%以上的N_2O排放由微生物主导,并与滨海湿地氮循环的微生物群落多样性及功能密切相关。因此,滨海湿地系统中N_2O的产生与转化逐渐受到关注。本文综述了滨海湿地生态系统中微生物驱动下N_2O的产生过程,以及氮元素及其与碳、硫和金属元素耦合过程中产生N_2O的代谢途径,N_2O排放的时空变化与微生物调控,并对未来相关研究方向进行了展望,旨在揭示微生物驱动的N_2O产生及环境调控机制,为减缓全球变暖提供科学依据。     

稳定同位素技术在土壤N2O溯源研究中的应用

氧化亚氮(N₂O)作为三大温室气体之一,追溯其来源已经成为研究热点,稳定同位素技术在土壤N₂O来源追踪方面已得到广泛应用.本文概述了产生N₂O的微生物、产生过程及其主要影响因素,综述了国内外关于利用N₂O同位素特征值δ¹⁵N、δ¹⁸O和SP值(N₂O分子内¹⁵N在不同位置上的位嗜值)分析其来源的研究进展,以期为今后相关研究提供参考.其中关于SP的研究在国内尚属初级阶段,因此本文重点介绍国外SP在其溯源上的研究情况,并对今后国内相关研究提出一点看法.     

稳定同位素技术在土壤N2O溯源研究中的应用

氧化亚氮(N₂O)作为三大温室气体之一,追溯其来源已经成为研究热点,稳定同位素技术在土壤N₂O来源追踪方面已得到广泛应用.本文概述了产生N₂O的微生物、产生过程及其主要影响因素,综述了国内外关于利用N₂O同位素特征值δ¹⁵N、δ¹⁸O和SP值(N₂O分子内¹⁵N在不同位置上的位嗜值)分析其来源的研究进展,以期为今后相关研究提供参考.其中关于SP的研究在国内尚属初级阶段,因此本文重点介绍国外SP在其溯源上的研究情况,并对今后国内相关研究提出一点看法.     

Greenhouse gas mitigation in agriculture

Agricultural lands occupy 37% of the earth's land surface. Agriculture accounts for 52 and 84% of global anthropogenic methane and nitrous oxide emissions. Agricultural soils may also act as a sink or source for CO2, but the net flux is small. Many agricultural practices can potentially mitigate greenhouse gas (GHG) emissions, the most prominent of which are improved cropland and grazing land management and restoration of degraded lands and cultivated organic soils. Lower, but still significant mitigation potential is provided by water and rice management, set-aside, land use change and agroforestry, livestock management and manure management. The global technical mitigation potential from agriculture (excluding fossil fuel offsets from biomass) by 2030, considering all gases, is estimated to be approximately 5500-6000Mt CO2-eq.yr-1, with economic potentials of approximately 1500-1600, 2500-2700 and 4000-4300Mt CO2-eq.yr-1 at carbon prices of up to 20, up to 50 and up to 100 US$ t CO2-eq.-1, respectively. In addition, GHG emissions could be reduced by substitution of fossil fuels for energy production by agricultural feedstocks (e.g. crop residues, dung and dedicated energy crops). The economic mitigation potential of biomass energy from agriculture is estimated to be 640, 2240 and 16 000Mt CO2-eq.yr-1 at 0-20, 0-50 and 0-100 US$ t CO2-eq.-1, respectively.     

Challenges in the measurement of emissions of nitrous oxide and methane from livestock sector

Over the past two decades, the interest to decrease the emission levels of greenhouse gases (GHGs) has increased. The livestock sector has been put under continuous supervision and regulation because it is an important source of GHG emissions. In 2012, it was estimated that 3.46 Gton CO₂-eq was released from this sector, methane (CH₄) being the gas with the highest contribution (43 %), followed by nitrous oxide (21 %). In order to determine real emissions, it is necessary to use precise and reproducible measuring methods which can be complex and expensive. The challenges in these methods are focused on achieving an accurate assessment and monitoring of gas emissions, developing monitoring systems for the continuous measurement and implementation of methodologies for their validation in field in order to understand the complex nature of environmental variables affecting gas production. Different techniques for the measurement of CH₄ and nitrous oxide (N₂O) emissions are reviewed and discussed in this research. The passive flux sampling to measure emissions of these GHGs has been identified as an interesting alternative technique because it is practical, low cost and robust. This kind of sampler is highly adequate to measure emissions of N₂O and CH₄ originating from some sources of the livestock sector, but at this moment, no prototypes are commercially available and thus more research is necessary in this field.     

An integrated greenhouse gas assessment of an alternative to slash-and-burn agriculture in eastern Amazonia

Fires set for slash‐and‐burn agriculture contribute to the current unsustainable accumulation of atmospheric greenhouse gases, and they also deplete the soil of essential nutrients, which compromises agricultural sustainability at local scales. Integrated assessments of greenhouse gas emissions have compared intensive cropping systems in industrialized countries, but such assessments have not been applied to common cropping systems of smallholder farmers in developing countries. We report an integrated assessment of greenhouse gas emissions in slash‐and‐burn agriculture and an alternative chop‐and‐mulch system in the Amazon Basin. The soil consumed atmospheric methane (CH₄) under slash‐and‐burn treatment and became a net emitter of CH₄ to the atmosphere under the mulch treatment. Mulching also caused about a 50% increase in soil emissions of nitric oxide and nitrous oxide and required greater use of fertilizer and fuel for farm machinery. Despite these significantly higher emissions of greenhouse gases during the cropping phase under the alternative chop‐and‐mulch system, calculated pyrogenic emissions in the slash‐and‐burn system were much larger, especially for CH₄. The global warming potential CO₂‐equivalent emissions calculated for the entire crop cycles were at least five times lower in chop‐and‐mulch compared with slash‐and‐burn. The crop yields were similar for the two systems. While economic and logistical considerations remain to be worked out for alternatives to slash‐and‐burn, these results demonstrate a potential ‘win‐win’ strategy for maintaining soil fertility and reducing net greenhouse gas emissions, thus simultaneously contributing to sustainability at both spatial scales.     

地表UV-B辐射增强对土壤-大豆系统N2O排放的影响

通过大田试验和室外盆栽试验,采用人工增加紫外辐射的方法模拟UV-B辐射增强,用静态箱-气相色谱法测定N_2O排放通量,研究地表UV-B辐射增强对土壤-大豆系统N_2O排放的影响.结果表明:在相同的气象条件和田间管理措施下,UV-B辐射增强没有改变土壤-大豆系统N_2O排放通量的季节性变化规律.但从植株结荚到成熟,UV-B辐射增强降低了土壤-大豆系统N_2O排放通量,进而降低了N_2O的累积排放量.收割实验发现,在分枝开花期,UV-B辐射增强对土壤N_2O排放影响明显,降低了土壤N_2O排放通量;从结荚至鼓粒期,UV-B辐射增强主要通过降低植株地上部分N_2O排放通量来降低土壤-大豆系统的N_2O排放.UV-B辐射增强显著降低了植株的生物量,并影响到植株的氮代谢和土壤NH_4~+-N与微生物氮.UV-B辐射增强可能会导致农田生态系统N_2O排放量降低.     

Influence of temperature and soil water content on bacterial, archaeal and denitrifying microbial communities in drained fen grassland soil microcosms

In this study, microcosms were used to investigate the influence of temperature (4 and 28 degrees C) and water content (45% and 90% WHC) on microbial communities and activities in carbon-rich fen soil. Bacterial, archaeal and denitrifier community composition was assessed during incubation of microcosms for 12 weeks using terminal restriction fragment length polymorphism (T-RFLP) profiling of 16S rRNA and nitrous oxide reductase (nosZ) genes. In addition, microbial and denitrifier abundance, potential denitrification activity and production of greenhouse gases were measured. No detectable changes were observed in prokaryote or denitrifier abundance. In general, cumulatively after 12 weeks more carbon was respired at the higher temperature (3.7 mg CO(2) g(-1) soil), irrespective of the water content, whereas nitrous oxide production was greater under wet conditions (98-336 microg N(2)O g(-1) soil). After an initial lag phase, methane emissions (963 microg CH(4) g(-1) soil) were observed only under warm and wet conditions. T-RFLP analyses of bacterial 16S rRNA and nosZ genes revealed small or undetectable community changes in response to temperature and water content, suggesting that bacterial and denitrifying microbial communities are stable and do not respond significantly to seasonal changes in soil conditions. In contrast, archaeal microbial community structure was more dynamic and was strongly influenced by temperature.     

Greenhouse gas emissions and carbon sequestration potential in restored wetlands of the Canadian prairie pothole region

North American prairie pothole wetlands are known to be important carbon stores. As a result there is interest in using wetland restoration and conservation programs to mitigate the effects of increasing greenhouse gas concentration in the atmosphere. However, the same conditions which cause these systems to accumulate organic carbon also produce the conditions under which methanogenesis can occur. As a result prairie pothole wetlands are potential hotspots for methane emissions. We examined change in soil organic carbon density as well as emissions of methane and nitrous oxide in newly restored, long-term restored, and reference wetlands across the Canadian prairies to determine the net GHG mitigation potential associated with wetland restoration. Our results indicate that methane emissions from seasonal, semi-permanent, and permanent prairie pothole wetlands are quite high while nitrous oxide emissions from these sites are fairly low. Increases in soil organic carbon between newly restored and long-term restored wetlands supports the conclusion that restored wetlands sequester organic carbon. Assuming a sequestration duration of 33 years and a return to historical SOC densities we estimate a mean annual sequestration rate for restored wetlands of 2.7 Mg C ha⁻¹year⁻¹ or 9.9 Mg CO₂ eq. ha⁻¹ year⁻¹. Even after accounting for increased CH₄ emissions associated with restoration our research indicates that wetland restoration would sequester approximately 3.25 Mg CO₂ eq. ha⁻¹year⁻¹. This research indicates that widescale restoration of seasonal, semi-permanent, and permanent wetlands in the Canadian prairies could help mitigate GHG emissions in the near term until a more viable long-term solution to increasing atmospheric concentrations of GHGs can be found.     

4种温带森林非生长季土壤二氧化碳、甲烷和氧化亚氮通量

中高纬度森林土壤在漫长的非生长季中对重要温室气体——二氧化碳(CO2)、甲烷(CH4)和氧化亚氮(N2O)的释放或吸收在碳氮年收支中作用很大,但目前研究甚少。采用静态暗箱-气相色谱法,比较研究东北东部4种典型温带森林土壤表面CO2、CH4和N2O通量在非生长季中的时间动态及其影响因子。结果表明:4种森林土壤在非生长季中整体上均表现为CO2源、N2O源和CH4汇的功能。红松林、落叶松林、蒙古栎林、硬阔叶林的非生长季平均土壤表面CO2通量分别为(65.5±8.1)mgm-2h-1(平均值±标准差)、(70.5±10.2)mgm-2h-1、(77.1±8.0)mgm-2h-1、(80.5±23.5)mgm-2h-1;CH4通量分别为(-17.2±4.6)μgm-2h-1、(-15.4±4.2)μgm-2h-1、(-31.5±4.5)μgm-2h-1、(-23.6±4.1)μgm-2h-1;N2O通量分别为(19.3±5.1)μgm-2h-1、(11.5±2.5)μgm-2h-1、(16.4±4.0)μgm-2h-1、(14.4±5.4)μgm-2h-1;其中非生长季土壤表面CO2总排放量分别为143.4gm-2、162.8gm-2、189.9gm-2、252.7gm-2,分别占其年通量的7.3%、10.6%、8.4%和8.5%。所有林型非生长季土壤表面CO2通量在春季土壤解冻前均维持在较低水平;在解冻进程中随温度升高而增大。土壤表面CO2通量与5cm深土壤温度(T5)呈极显著的指数函数关系。在隆冬时节出现CH4净释放现象,但释放强度及其出现时间因林型而异,其中以红松林的释放强度较大,高达43.6μgm-2h-1。土壤表面CH4通量与T5呈显著的负相关。土壤表面N2O通量的时间动态格局在林型间的分异较大,但在春季土壤解冻阶段均释放出N2O,而释放峰值和出现时间因林型而异。土壤表面N2O通量与0—10cm深土壤含水量呈显著的正相关(红松林除外)。研究展示了不同温带森林类型的土壤水热条件对其非生长季土壤CO2、CH4和N2O通量的重要影响,但这3种温室气体的林型间分异的生物学机理尚需进一步研究。     

Greenhouse gas fluxes respond to different N fertilizer types due to altered plant-soil-microbe interactions

The application of inorganic nitrogen (N) fertilizers strongly influences the contribution of agriculture to the greenhouse effect, especially by potentially increasing emissions of nitrous oxide (N₂O), carbon dioxide (CO₂) and methane (CH₄) from soils. The present microcosm-study investigates the effect of different forms of inorganic N fertilizers on greenhouse gas (GHG) emissions from two different agricultural soils. The relationship between greenhouse gas emissions and soil microbial communities, N transformation rates and plant (Hordeum vulgare L. cv. Morex) growth were investigated. Repeated N fertilization led to increased N₂O emissions. In a parallel survey of functional microbial population dynamics we observed a stimulation of bacterial and archaeal ammonia oxidisers accompanied with these N₂O emissions. The ratio of archaeal to bacterial ammonium monooxygenase subunit A (amoA) gene copies (data obtained from Inselsbacher et al., 2010) correlated positively with N₂O fluxes, which suggests a direct or indirect involvement of archaea in N₂O fluxes. Repeated N fertilization also stimulated methane oxidation, which may also be related to a stimulation of ammonia oxidizers. The fertilizer effects differed between soil types: In the more organic Niederschleinz soil N-turnover rates increased more strongly after fertilization, while in the sandy Purkersdorf soil plant growth and soil respiration were accelerated depending on fertilizer N type. Compared to addition of NH ₄ ⁺ and NO ₃ ^? , addition of NH₄NO₃ fertilizer resulted in the largest increase in global warming potential as a summary indicator of all GHG related effects. This effect resulted from the strongest increase of both N₂O and CO₂ emission while plant growth was not equally stimulated, compared to e.g. KNO₃ fertilization. In order to decrease N losses from agricultural ecosystems and in order to minimize soil derived global warming potential, this study points to the need for interdisciplinary investigations of the highly complex interactions within plant-soil-microbe-atmosphere systems. By understanding the microbial processes underlying fertilizer effects on GHG emissions the N use efficiency of crops could be refined.     

Evaluation and GWAS of radicle gravitropic response in a core rice germplasm population

Plant and Soil - To assess 1) the cumulative greenhouse gas emissions –GHG- and global warming potential (methane – CH4- and nitrous oxide) from rice fields in the growing and fallow...     

Cost-effective emission abatement in europe considering interrelations in agriculture

Agriculture is an important source of ammonia (NH3), which contributes to acidification and eutrophication, as well as emissions of the greenhouse gases nitrous oxide (N2O) and methane (CH4). Controlling emissions of one of these pollutants through application of technical measures might have an impact (either beneficial or adverse) on emissions of the others. These side effects are usually ignored in policy making. This study analyses cost-effectiveness of measures to reduce acidification and eutrophication as well as agricultural emissions of N2O and CH4 in Europe, taking into account interrelations between abatement of NH3, N2O, and CH4 in agriculture. The model used is based on the RAINS (Regional Air pollution INformation and Simulation) model for air pollution in Europe, which includes emissions, abatement options, and atmospheric source-receptor relationships for pollutants contributing to acidification and eutrophication. We used an optimisation model that is largely based on the RAINS model but that also includes emissions of N2O and CH4 from agriculture and technical measures to reduce these emissions. For abatement options for agricultural emissions we estimated side effects on other emissions. The model determines abatement strategies to meet restrictions on emission and/or deposition levels at the least cost. Cost-effective strategies to reduce acidification and eutrophication in Europe were analysed. We found that NH3 abatement may cause an increase in N2O emissions. If total agricultural N2O and CH4 emissions in Europe were not allowed to increase, cost-effective allocation of emission reductions over countries in Europe changed considerably.     

Current knowledge of microbial community structures in landfills and its cover soils

Landfills are a vital component of our waste handling processes. Our lack of knowledge on the microbial processes in these systems, however, hampers our ability to design the next generation of landfills that: (1) enhance the rate and extent of waste decomposition, (2) produce byproducts of some value (e.g., methane that can be used for energy generation), and, (3) minimize their overall impact on driving climate change through the emission of greenhouse gases. In this review, the current state of knowledge the microbial community structure and activity in both the refuse and overlying cover soils is discussed, and suggestions provided for future research in this critical aspect of our infrastructure.