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Agricultural managed aquifer recharge (AgMAR) is a strategy whereby surface water is used to intentionally flood croplands to recharge underlying aquifers. However, nitrate (NO3−) contamination in agriculturally intensive regions poses a threat to groundwater resources under AgMAR. We use a reactive transport model to understand the effects of AgMAR management strategies (i.e., by varying the frequency, duration between flooding events, and amount of water) on NO3− leaching to groundwater under different stratigraphic configurations and antecedent moisture conditions. We examine the potential of denitrification and nitrogen retention in deep vadose zone sediments (∼15 m) using variable AgMAR application rates on two-dimensional representations of differently textured soils, soils with discontinuous bands/channels, and with preferential flow paths characteristic of agricultural fields. Simulations indicate finer textured sediments, alone or embedded within/adjacent to high flow regions, are important reducing zones providing conditions needed for denitrification. Simulation results suggest that applying water all-at-once rather than in increments transports higher concentrations of NO3− deeper into the profile, which may exacerbate groundwater quality. This transport into deeper depths can be aggravated by wetter antecedent soil moisture conditions. However, applying water all-at-once also increases denitrification within the vadose zone by promoting anoxic conditions. We conclude that AgMAR can be designed to enhance denitrification in the subsurface and reduce NO3− leaching to groundwater, while specifically accounting for lithologic heterogeneity, antecedent soil moisture conditions, and depth to the water table. Our findings are potentially relevant to other systems that experience flooding inundation such as floodplains and dedicated recharge basins.

In this study, we investigate the biogeochemical consequences of fire in seasonally flooded Amazon forests, where recent declines in forest cover have been linked to increases in fire frequency and severity. Previous studies have hypothesized that a quasi-permanent state-shift transition from typical Amazon forests to open savannas can occur when fire results in further depletion of already impoverished soil nutrient pools. Asymbiotic N2 fixation (ANF) is an essential pathway for fire-affected forests to acquire nitrogen (N) after disturbance, but ANF response to fire has yet to be quantified in Amazonia. Here, we quantify ANF through field sampling and laboratory incubations using 15N-labeled dinitrogen (15N2) and measurement of 14 biogeochemical parameters in surface (0–10 cm) and subsurface (10–30 cm) soils. Our data represent burned and unburned replicated sampling sites, across five stands, spanning a gradient from infrequent (once in 13 years) to frequent (five times in 13 years) fire occurrences. ANF did not vary with fire frequency but was, on average, 24% lower in burned than in unburned surface soils across all stands. Burned and unburned subsurface soils had similar ANF rates. About 58% of ANF variance was explained by the joint effect of carbon (C):N ratio and available phosphorus (P) in burned and unburned soils. ANF increased linearly with C:N and P availability in unburned soils, but a highly non-linear relationship was observed in burned soils. Our findings show that fire alters soil C-to-nutrient stoichiometry, which resulted in lower N inputs via ANF into burned relative to unburned tropical forest soils.

Microbial biomass represents a substantial source of labile C contributing to soil organic matter (SOM) maintenance. Microbial residues may associate with the soil matrix through a variety of mechanisms, reducing its bioavailability and increasing its persistence in soil. Our objective was to examine soil matrix effects on the stability of non-living microbial C inputs in two contrasting forest ecosystems by following microbial residues (Fungi, Actinobacteria, Gram-positive bacteria (Gm +), Gram-negative bacteria (Gm −)) into SOM fractions in a temperate forest in California (CA) and a tropical forest in Puerto Rico (PR) for 3 and 2 years, respectively. We isolated 3 SOM fractions: (i) free light fraction (FLF), (ii) occluded light fraction (OLF), and (iii) dense fraction (DF). Additionally, we characterized SOM fraction chemistry to infer quality and source of native fraction SOM. Our results showed greater stabilization as mineral-associated microbial C (i.e., as DF and OLF), compared with loose detrital C (i.e., FLF). There was no microbial group effect (i.e., differences in fraction C recovery among different microbial cell types). Our findings suggest that mineral association is more important for stabilizing non-living microbial C in soil than the cellular structure of the initial source of microbial inputs, with site specific edaphic factors as the major controllers of the amount of microbial residues stabilized.

Background: Climate-smart agriculture (CSA) addresses the challenge of meeting the growing demand for food, fibre and fuel, despite the changing climate and fewer opportunities for agricultural expansion on additional lands. CSA focuses on contributing to economic development, poverty reduction and food security; maintaining and enhancing the productivity and resilience of natural and agricultural ecosystem functions, thus building natural capital; and reducing trade-offs involved in meeting these goals. Current gaps in knowledge, work within CSA, and agendas for interdisciplinary research and science-based actions identified at the 2013 Global Science Conference on Climate-Smart Agriculture (Davis, CA, USA) are described here within three themes: (1) farm and food systems, (2) landscape and regional issues and (3) institutional and policy aspects. The first two themes comprise crop physiology and genetics, mitigation and adaptation for livestock and agriculture, barriers to adoption of CSA practices, climate risk management and energy and biofuels (theme 1); and modelling adaptation and uncertainty, achieving multifunctionality, food and fishery systems, forest biodiversity and ecosystem services, rural migration from climate change and metrics (theme 2). Theme 3 comprises designing research that bridges disciplines, integrating stakeholder input to directly link science, action and governance. Outcomes: In addition to interdisciplinary research among these themes, imperatives include developing (1) models that include adaptation and transformation at either the farm or landscape level; (2) capacity approaches to examine multifunctional solutions for agronomic, ecological and socioeconomic challenges; (3) scenarios that are validated by direct evidence and metrics to support behaviours that foster resilience and natural capital; (4) reductions in the risk that can present formidable barriers for farmers during adoption of new technology and practices; and (5) an understanding of how climate affects the rural labour force, land tenure and cultural integrity, and thus the stability of food production. Effective work in CSA will involve stakeholders, address governance issues, examine uncertainties, incorporate social benefits with technological change, and establish climate finance within a green development framework. Here, the socioecological approach is intended to reduce development controversies associated with CSA and to identify technologies, policies and approaches leading to sustainable food production and consumption patterns in a changing climate.

Nitrate (NO 3 - ) leaching is a serious health and ecological concern in global agroecosystems, particularly those under the application of agricultural-managed aquifer recharge (Ag-MAR); however, there is an absence of information on microbial controls affecting NO 3 - leaching outcomes. We combine natural dual isotopes of NO 3 - ( 15 N/ 14 N and 18 O/ 16 O) with metagenomics, quantitative polymerase chain reaction (PCR), and a threshold indicator taxa analysis (TITAN) to investigate the activities, taxon profiles, and environmental controls of soil microbiome associated with NO 3 - leaching at different depths from Californian vineyards under Ag-MAR application. The isotopic signatures demonstrated a significant priming effect ( P < 0.01) of Ag-MAR on denitrification activities in the topsoil (0-10 cm), with a 12-25-fold increase of 15 N-NO 3 - and 18 O-NO 3 - after the first 24 h of flooding, followed by a sharp decrease in the enrichment of both isotopes with ∼80% decline in denitrification activities thereafter. In contrast, deeper soils (60-100 cm) showed minimal or no denitrification activities over the course of Ag-MAR application, thus resulting in 10-20-fold of residual NO 3 - being leached. Metagenomic profiling and laboratory microcosm demonstrated that both nitrifying and denitrifying groups, responsible for controlling NO 3 - leaching, decreased in abundance and potential activity rates with soil depth. TITAN suggested that Nitrosocosmicus and Bradyrhizobium , as the major nitrifier and denitrifier, had the highest and lowest tipping points with regard to the NO 3 - changes ( P < 0.05), respectively. Overall, our study provides new insight into specific depth limitations of microbial controls on soil NO 3 - leaching in agroecosystems.

The resilience of forests to drought events has become a major natural resource sustainability concern, especially in response to climate change. Yet, little is known about the legacy effects of repeated droughts, and tree species ability to respond across environmental gradients. In this study, we used a tree-ring database (121 sites) to evaluate the overall resilience of tree species to drought events in the last century. We investigated how climate and geography affected the response at the species level. We evaluated temporal trends of resilience using a predictive mixed linear modeling approach. We found that pointer years (e.g., tree growth reduction) occurred during 11.3% of the 20th century, with an average decrease in tree growth of 66% compared to the previous period. The occurrence of pointer years was associated with negative values of the Standardized Precipitation Index (SPI, 81.6%) and Palmer Drought Severity Index (PDSI, 77.3%). Tree species differed in their resilience capacity, however, species inhabiting xeric conditions were less resistant but with higher recovery rates (e.g., Abies concolor, Pinus lambertiana, and Pinus jeffreyi). On average, tree species needed 2.7 years to recover from drought events, with extreme cases requiring more than a decade to reach pre-drought tree growth rates. The main abiotic factor related to resilience was precipitation, confirming that some tree species are better adapted to resist the effects of droughts. We found a temporal variation for all tree resilience indices (scaled to 100), with a decreasing resistance (-0.56 by decade) and resilience (-0.22 by decade), but with a higher recovery (+1.72 by decade) and relative resilience rate (+0.33 by decade). Our results emphasize the importance of time series of forest resilience, particularly by distinguishing the species-level response in the context of legacy of droughts, which are likely to become more frequent and intense under a changing climate., (© 2023 John Wiley & Sons Ltd.)

Agricultural managed aquifer recharge (Ag-MAR, on-farm recharge), where farmland is flooded with excess surface water to intentionally recharge groundwater, has received increasing attention by policy makers and researchers in recent years. However, there remain concerns about the potential for Ag-MAR to exacerbate nitrate (NO 3 - ) contamination of groundwater, and additional risks, such as greenhouse gas emissions and crop tolerance to prolonged flooding. Here, we conducted a large-scale, replicated winter groundwater recharge experiment to quantify the effect of Ag-MAR on soil N biogeochemical transformations, potential NO 3 - leaching to groundwater, soil physico-chemical conditions, and crop yield. The field experiment was conducted in two grapevine vineyards in the Central Valley of California, which were each flooded for 2 weeks and 4 weeks, respectively, with 1.31 and 1.32 m 3 m -2 of water. Hydrologic, geochemical, and microbial results indicate that NO 3 - leaching from the first 1 m of the vadose zone was the dominant N loss pathway during flooding. Based on pore water sample and N 2 O emission data, denitrification played a lesser role in decreasing NO 3 - in the root zone but prolonged anoxic conditions resulted in a significant 29 % yield decrease in the 4-week flooded vineyard. The results from this research, combined with data from previous studies, are summarized in a new conceptual model for integrated water-N dynamics under Ag-MAR. The proposed model can be used to determine best Ag-MAR management practices., Competing Interests: Declaration of competing interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper., (Copyright © 2022 The Authors. Published by Elsevier B.V. All rights reserved.)

Two primary concerns of dairies that store manure wastewater in anaerobic ponds are greenhouse gas (GHG) emissions and unpredictable nutrient availability after applying it to forage crops. Solid-liquid separation of dairy manure wastewater with chemical coagulants significantly reduces the fraction of organic matter stored in anaerobic conditions. However, the effects of coagulants on methane emissions from ponds and nutrient availability following field application are not well understood. In this experiment, several metal salts and organic polymers were used to coagulate dairy manure wastewater for separation into solid (floc) and liquid (effluent) fractions. The coagulants tested were ferric sulfate, ferric chloride, polyaluminum chloride, Superfloc C-569, and chitosan. An anaerobic incubation of manure effluent to simulate liquid manure storage and an aerobic incubation of manure floc-amended soil to simulate field application were conducted with analysis of GHGs and carbon and nitrogen transformations. The treatment of chemically separating organic matter from manure wastewater effectively eliminated methane emissions under anaerobic conditions in the laboratory. In the solid manure fraction, organic carbon was stabilized in the chemically separated flocs, and, apart from flocs produced with ferric iron, nitrogen mineralization was reduced as well. Carbon dioxide emissions were also reduced from the flocs applied to soil compared with untreated manure solids., (© 2021 The Authors. Journal of Environmental Quality © 2021 American Society of Agronomy, Crop Science Society of America, and Soil Science Society of America.)

Ammonia (NH 3 ) emissions from fertilized soils to the atmosphere and the subsequent deposition to land surface exert adverse effects on biogeochemical nitrogen (N) cycling. The region- and crop-specific emission factors (EFs) of N fertilizer for NH 3 are poorly developed and therefore the global estimate of soil NH 3 emissions from agricultural N fertilizer application is constrained. Here we quantified the region- and crop-specific NH 3 EFs of N fertilizer by compiling data from 324 worldwide manipulative studies and focused to map the global soil NH 3 emissions from agricultural N fertilizer application. Globally, the NH 3 EFs averaged 12.56% and 14.12% for synthetic N fertilizer and manure, respectively. Regionally, south-eastern Asia had the highest NH 3 EFs of synthetic N fertilizer (19.48%) and Europe had the lowest (6%), which might have been associated with the regional discrepancy in the form and rate of N fertilizer use and management practices in agricultural production. Global agricultural NH 3 emissions from the use of synthetic N fertilizer and manure in 2014 were estimated to be 12.32 and 3.79 Tg N/year, respectively. China (4.20 Tg N/year) followed by India (2.37 Tg N/year) and America (1.05 Tg N/year) together contributed to over 60% of the total global agricultural NH 3 emissions from the use of synthetic N fertilizer. For crop-specific emissions, the NH 3 EFs averaged 11.13%-13.95% for the three main staple crops (i.e., maize, wheat, and rice), together accounting for 72% of synthetic N fertilizer-induced NH 3 emissions from croplands in the world and 70% in China. The region- and crop-specific NH 3 EFs of N fertilizer established in this study offer references to update the default EF in the IPCC Tier 1 guideline. This work also provides an insight into the spatial variation of soil-derived NH 3 emissions from the use of synthetic N fertilizer in agriculture at the global and regional scales., (© 2020 John Wiley & Sons Ltd.)

Heavy metals are believed to impact soil processes by influencing microbial communities, nutrient cycling or exchanging for essential plant nutrients. Soil pH adjustment highly influences the bio-availability of nutrients and microbial processes. We examined the effect of soil pH manipulation and copper (Cu as CuCl 2 .2H 2 O) application on nitrogen (N) cycling and nitrous oxide (N 2 O) emissions from an acid soil. Increasing amounts of Cu (0, 250, 500 and 1000 mg kg -1 ) were added to an acidic soil (pH = 5.44) that was further amended with increasing amounts of dolomite [CaMg(CO 3 ) 2 ] to increase soil pH. Dolomite increased soil pH values, which reached a maximum without Cu application (-Cu) at day 42 of the experiment. The soil pH values decreased with increasing dose of Cu, and remained low as compared with both control and dolomite amended soil. Ammonium (NH 4 + -N) concentrations were higher in Cu contaminated soil as compared with the control and dolomite treated soil. Nitrate (NO 3 - -N) concentrations increased in dolomite treated soil when compared with the +Cu alone treatments and control. Microbial biomass carbon (MBC) and nitrogen (MBN) contents were higher in dolomite treated soil as compared with the +Cu treatments and control. The application of increasing amounts of Cu progressively decreased soil MBC and MBN. Nitrous oxide emissions were higher (p ≤ 0.01) in +Cu soil as compared with the control, and increased with increasing Cu concentration in soil. Application of dolomite highly suppressed soil N 2 O emissions in both +Cu and -Cu soils. The results indicate that the effects of heavy metal contamination (specifically Cu contamination) can increase N 2 O emissions, but this can be effectively mitigated through increasing soil pH, also decreasing potential toxic effects on soil microorganisms., (Copyright © 2019 Elsevier Ltd. All rights reserved.)

Rice is a staple food for nearly half of the world's population, but rice paddies constitute a major source of anthropogenic CH 4 emissions. Root exudates from growing rice plants are an important substrate for methane-producing microorganisms. Therefore, breeding efforts optimizing rice plant photosynthate allocation to grains, i.e., increasing harvest index (HI), are widely expected to reduce CH 4 emissions with higher yield. Here we show, by combining a series of experiments, meta-analyses and an expert survey, that the potential of CH 4 mitigation from rice paddies through HI improvement is in fact small. Whereas HI improvement reduced CH 4 emissions under continuously flooded (CF) irrigation, it did not affect CH 4 emissions in systems with intermittent irrigation (II). We estimate that future plant breeding efforts aimed at HI improvement to the theoretical maximum value will reduce CH 4 emissions in CF systems by 4.4%. However, CF systems currently make up only a small fraction of the total rice growing area (i.e., 27% of the Chinese rice paddy area). Thus, to achieve substantial CH 4 mitigation from rice agriculture, alternative plant breeding strategies may be needed, along with alternative management., (© 2018 John Wiley & Sons Ltd.)

Mercury (Hg) pollution is a concern to human and wildlife health worldwide, and management strategies that reduce Hg inputs to aquatic systems are of broad interest. Using a replicated field-scale study in California's Sacramento-San Joaquin Delta, we tested the effectiveness of chemically enhanced treatment wetlands (CETWs) under two coagulation treatments, polyaluminum chloride (Al treatment) and ferric sulfate (Fe treatment), in their initial removal and longer-term sequestration of Hg compared to untreated control wetlands. The primary mechanism for Hg removal by CETWs was the transfer of Hg from filtered forms to insoluble particulate forms and enhanced settling of particles. CETWs resulted in total Hg annual load removals of 63 ng m -2 yr -1 (71%) and 54 ng m -2 yr -1 (54%) for the Al and Fe treatments, respectively. Control wetlands removed significantly less at 13 ng m -2 yr -1 (14%). Load removals indicate that Fe treatment wetlands more effectively reduced filtered and total methylmercury (MeHg) exports, while Al treatment wetlands more effectively reduced particulate MeHg and total Hg exports. These differences in Hg species load reductions possibly indicate different mechanisms of Hg sequestration; current data suggest more effective floc formation and particle settling was likely responsible for the Al treatment behavior, while either preferential MeHg sequestration or methylation suppression was potentially responsible for Fe treatment behavior. Differences in Hg sequestration behavior post-coagulation between the flocs formed by different coagulants indicate the importance of in-situ studies and the need for careful selection of coagulant treatment depending on the Hg species requiring remediation., (Copyright © 2018 Elsevier Ltd. All rights reserved.)

Land surface subsidence is a concern in many deltas worldwide as it contributes to water quality degradation, loss of fertile land and increased potential for levee failure. As a possible solution to these concerns, on-site coagulation enhanced treatment wetlands (CETWs), coagulation water treatment followed by wetland passage serving as a settling basin, were implemented in a field-scale study located on a subsided island of the Sacramento-San Joaquin Delta in northern California under three treatments; coagulation with polyaluminum chloride (PAC), coagulation with ferric sulfate and an untreated control. Because CETWs offer a relatively novel solution for water quality improvement and subsidence reversal due to its low-infrastructure requirements and in-situ nature, effects from these systems remain uncharted and they may have adverse effects on plant biomass production that also contribute to sediment accretion. This study focuses on the effect CETWs had on the growth of Typha spp.; the dominant vegetation in the wetlands. Plant growth parameters and nutrient content were measured in conjunction with soil, pore water and surface water chemistry. Soil analysis indicated there was no intermixing of newly formed flocs and original soil material. Where there was significant deposition of floc, PAC treatment reduced phosphate concentrations and ferric sulfate treatment increased total Fe concentrations in surrounding water compared to the control. Results indicated coagulation treatments had no negative effects on Typha leaf nutrient content, Typha growth or allometric parameters. Additionally, no signs of plant toxicity such as necrosis, wilting or chlorosis were observed in any of the treatments. Overall, this study suggests that CETWs are viable treatment option for water quality improvement and sediment accretion while having no negative impact on the growth of Typha plants., (Copyright © 2018. Published by Elsevier B.V.)

Many deltas worldwide face subsidence issues due to increased anthropogenic activity. The Sacramento-San Joaquin delta similarly faces ongoing subsidence, more than 8 m in some areas, that increases levee failure risks and threatens the security of this water source for 25 million California residents and 1.2 million ha of agriculture. Rice ( L.) fields are an integral part of a proposed new strategy for managing subsidence because they have been shown to stop subsidence and provide an alternative crop for growers. Two important considerations for implementing rice fields are additional water requirement and the effect on water quality from mobilized dissolved organic carbon (DOC) and disinfection byproduct precursors. To understand constituent transport and potential management opportunities for rice farming, a plug flow reactor mass balance model was used to quantify surface and subsurface hydrologic pathways. Management of adjacent drainage ditch water levels under low and high scenarios were tested as a strategy to reduce seepage and water quality loads. Under high drains, groundwater met 10% of evapotranspiration (ET). Low drains resulted in a 100% increase in ET demand, which was met by surface water applied for irrigation. High drains reduced subsurface seepage by 95%. Subsurface DOC, trihalomethane, and total dissolved nitrogen loads were reduced 10-fold in high drains compared with low drains. Flow rate accounted for 74 to 90% of load variance and was the primary determinant of constituent loads. Thoughtful implementation of rice cultivation, with high water levels in adjacent drains, can be leveraged to reduce irrigation water demand and constituent load outputs., (Copyright © by the American Society of Agronomy, Crop Science Society of America, and Soil Science Society of America, Inc.)

Constructed wetlands are used worldwide to improve water quality while also providing critical wetland habitat. However, wetlands have the potential to negatively impact drinking water quality by exporting dissolved organic carbon (DOC) that upon disinfection can form disinfection byproducts (DBPs) like trihalomethanes (THMs) and haloacetic acids (HAAs). We used a replicated field-scale study located on organic rich soils in California's Sacramento-San Joaquin Delta to test whether constructed flow-through wetlands which receive water high in DOC that is treated with either iron- or aluminum-based coagulants can improve water quality with respect to DBP formation. Coagulation alone removed DOC (66-77%) and THM (67-70%) precursors, and was even more effective at removing HAA precursors (77-90%). Passage of water through the wetlands increased DOC concentrations (1.5-7.5mgL -1 ), particularly during the warmer summer months, thereby reversing some of the benefits from coagulant addition. Despite this addition, water exiting the wetlands treated with coagulants had lower DOC and DBP precursor concentrations relative to untreated source water. Benefits of the coagulation-wetland systems were greatest during the winter months (approx. 50-70% reduction in DOC and DBP precursor concentrations) when inflow water DOC concentrations were higher and wetland DOC production was lower. Optical properties suggest DOC in this system is predominantly comprised of high molecular weight, aromatic compounds, likely derived from degraded peat soils., (Published by Elsevier B.V.)

This study was designed to address a major source of uncertainty pertaining to coupled carbon-water cycles in montane forest ecosystems. The Sierra Nevada of California was used as a model system to investigate connections between the physiological performance of trees and landscape patterns of forest carbon and water use. The intrinsic water-use efficiency (iWUE)-an index of CO 2 fixed per unit of potential water lost via transpiration-of nine dominant species was determined in replicated transects along an ∼1,500-m elevation gradient, spanning a broad range of climatic conditions and soils derived from three different parent materials. Stable isotope ratios of carbon and oxygen measured at the leaf level were combined with field-based and remotely sensed metrics of stand productivity, revealing that variation in iWUE depends primarily on leaf traits (∼24% of the variability), followed by stand productivity (∼16% of the variability), climatic regime (∼13% of the variability), and soil development (∼12% of the variability). Significant interactions between species composition and soil properties proved useful to predict changes in forest carbon-water relations. On the basis of observed shifts in tree species composition, ongoing since the 1950s and intensified in recent years, an increase in water loss through transpiration (ranging from 10 to 60% depending on parent material) is now expected in mixed conifer forests throughout the region., Competing Interests: The authors declare no conflict of interest., (Copyright © 2018 the Author(s). Published by PNAS.)

Similar to plant growth, soil carbon (C) cycling is constrained by the availability of nitrogen (N) and phosphorus (P). We hypothesized that stoichiometric control over soil microbial C cycling may be shaped by functional guilds with distinct nutrient substrate preferences. Across a series of rice fields spanning 5-25% soil C (N:P from 1:12 to 1:70), C turnover was best correlated with P availability and increased with experimental N addition only in lower C (mineral) soils with N:P⩽16. Microbial community membership also varied with soil stoichiometry but not with N addition. Shotgun metagenome data revealed changes in community functions with increasing C turnover, including a shift from aromatic C to carbohydrate utilization accompanied by lower N uptake and P scavenging. Similar patterns of C, N and P acquisition, along with higher ribosomal RNA operon copy numbers, distinguished that microbial taxa positively correlated with C turnover. Considering such tradeoffs in genomic resource allocation patterns among taxa strengthened correlations between microbial community composition and C cycling, suggesting simplified guilds amenable to ecosystem modeling. Our results suggest that patterns of soil C turnover may reflect community-dependent metabolic shifts driven by resource allocation strategies, analogous to growth rate-stoichiometry coupling in animal and plant communities.

Breeding high-yielding rice cultivars through increasing biomass is a key strategy to meet rising global food demands. Yet, increasing rice growth can stimulate methane (CH 4 ) emissions, exacerbating global climate change, as rice cultivation is a major source of this powerful greenhouse gas. Here, we show in a series of experiments that high-yielding rice cultivars actually reduce CH 4 emissions from typical paddy soils. Averaged across 33 rice cultivars, a biomass increase of 10% resulted in a 10.3% decrease in CH 4 emissions in a soil with a high carbon (C) content. Compared to a low-yielding cultivar, a high-yielding cultivar significantly increased root porosity and the abundance of methane-consuming microorganisms, suggesting that the larger and more porous root systems of high-yielding cultivars facilitated CH 4 oxidation by promoting O 2 transport to soils. Our results were further supported by a meta-analysis, showing that high-yielding rice cultivars strongly decrease CH 4 emissions from paddy soils with high organic C contents. Based on our results, increasing rice biomass by 10% could reduce annual CH 4 emissions from Chinese rice agriculture by 7.1%. Our findings suggest that modern rice breeding strategies for high-yielding cultivars can substantially mitigate paddy CH 4 emission in China and other rice growing regions., (© 2017 John Wiley & Sons Ltd.)

Synthetic nitrogen (N) fertilizer formulations vary in their effects as substrates on nitrous oxide (NO) emissions. Mitigation of NO emissions can potentially be achieved through appropriate choice of N fertilizer sources combined with stabilizers. The effects of three N fertilizers and urease and nitrification inhibitors on NO emissions, crop N uptake, and yields were determined in a furrow-irrigated corn ( L.) system in Reiff loam soil in the Sacramento Valley of California for one growing season. Aqua ammonia (Aq. NH), urea ammonium nitrate (UAN), and calcium nitrate were sidedressed at the rate of 202 kg N ha. The control treatment received only starter fertilizer (20 kg N ha). Total seasonal emissions were in the order Aq. NH > UAN > calcium nitrate = control with 1.38, 0.97, 0.35, and 0.27 kg NO-N ha, respectively. A novel, positively charged form of dicyandiamide, KAS-771G77 (G77), was combined with Aq. NH and UAN to test the effectiveness of this nitrification inhibitor in reducing NO emissions. When combined with Aq. NH, G77 did not reduce the emissions, but G77 significantly lowered them in the UAN treatment. A similar reduction of NO emissions in the UAN treatment was achieved with the urease and nitrification inhibitor AgrotainPlus. Yields and N use efficiency did not differ among the fertilized treatments. Ammoniacal fertilizers had higher NO emissions than nitrate-based fertilizers, which could imply nitrification pathways as a source of NO emissions. The use of G77 or AgrotainPlus, when applied with UAN, was an effective NO mitigation practice., (Copyright © by the American Society of Agronomy, Crop Science Society of America, and Soil Science Society of America, Inc.)

The conversion from rice to vegetable production widely occurs in China. However, the effects of this conversion on N 2 O emission and the underlying mechanisms are not well understood. In the present study, 12 rice paddies (R) were selected and half of them converted to vegetable fields (V) with the following treatments: rice paddies without N-fertilizer (R-CK), rice paddies with conventional N-fertilizer (R-CN), converted vegetable fields without N-fertilizer (V-CK), and converted vegetable fields with conventional N-fertilizer (V-CN) in a randomized block design with 3 replicates. N 2 O emissions were measured with static chambers from December 2012 to December 2015. Within each V-CN plot, a root exclusion subplot was established to measure soil heterotrophic respiration (CO 2 effluxes), a proxy for soil organic matter mineralization. Conversion of rice paddies to vegetable production dramatically increased N 2 O emissions. The three-year cumulative N 2 O emissions were 0.59, 1.90, 55.50 and 160.14kg N ha -1 for R-CK, R-CN, V-CK and V-CN, respectively. The annual N 2 O emissions from vegetable fields ranged between 5.99 and 113.45kg N ha -1 yr -1 , with substantially higher emissions in the first year. N 2 O fluxes from V-CN were significantly and positively related to CO 2 fluxes and inorganic N concentrations. The linear relationship between natural logarithms of N 2 O and CO 2 fluxes was stronger and the regression coefficient higher in the first year, showing the dependence of N 2 O on soil organic matter mineralization. These results suggest that soil organic matter and N mineralization contributes significantly to N 2 O emission following conversion of rice paddies to vegetable production., (Copyright © 2017 Elsevier B.V. All rights reserved.)

Nitrogen (N) is the most limiting nutrient for coffee production in Colombia. An adequate supply is especially important during the vegetative period of growth, since any deficiency during this short period is known to have lasting effects on subsequent coffee bean production. Urea fertilizer is commonly applied on the soil surface since steep slopes hamper incorporation into soil, a practice which increases the risk of N volatilization. Little information is available on N recovery during early growth stages under different fertilizer application practices. The aim of this study was therefore to provide a comparison of 15 N uptake during the early vegetative growth stage under surface-applied and incorporation practices at two contrasting locations. The highest proportion of plant N derived from fertilizer (Ndff) occurred 60 days following application at the site with greater precipitation and soil organic matter, where surface application also increased the Ndff in roots and stems after 120 days. Although fertilizer N supplied approximately 20-29% of total plant N after 4 months, this fertilizer-derived N corresponded on average to only 5% of the total application, indicating that very little fertilizer (relative to how much is applied) reaches plants during this time. Apart from the difference in Ndff observed at the wetter site, there was no effect of application method on dry weight and macronutrient content in different plant components, root to shoot ratio, and leaf 13 C content. However, site effects were registered for most of these measurements, with the exception of total nutrient uptake. Similarly to Ndff trends, lower root/shoot ratio and higher concentrations of N, K, and Mg in aboveground biomass were found in the site with higher rainfall and soil organic matter, likely resulting from higher soil water and N availability. These findings provide new information useful as a direction for further research looking toward increasing NUE during the vegetative stage in Colombian coffee crops.

The process of composting is a source of greenhouse gases (GHG) that contribute to climate change. We monitored three field-scale green waste compost windrows over a one-year period to measure the seasonal variance of the GHG fluxes. The compost pile that experienced the wettest and coolest weather had the highest average CH 4 emission of 254±76gCday -1 dry weight (DW) Mg -1 and lowest average N 2 O emission of 152±21mgNday -1 DW Mg -1 compared to the other seasonal piles. The highest N 2 O emissions (342±41mgNday -1 DW Mg -1 ) came from the pile that underwent the driest and hottest weather. The compost windrow oxygen (O 2 ) concentration and moisture content were the most consistent factors predicting N 2 O and CH 4 emissions from all seasonal compost piles. Compared to N 2 O, CH 4 was a higher contributor to the overall global warming potential (GWP) expressed as CO 2 equivalents (CO 2 eq.). Therefore, CH 4 mitigation practices, such as increasing O 2 concentration in the compost windrows through moisture control, feedstock changes to increase porosity, and windrow turning, may reduce the overall GWP of composting. Based on the results of the present study, statewide total GHG emissions of green waste composting were estimated at 789,000Mg of CO 2 eq., representing 2.1% of total annual GHG emissions of the California agricultural sector and 0.18% of the total state emissions., (Copyright © 2016 Elsevier Ltd. All rights reserved.)

Many forest ecosystems have experienced recent declines in productivity; however, in some alpine regions, tree growth and forest expansion are increasing at marked rates. Dendrochronological analyses at the upper limit of alpine forests in the Tibetan Plateau show a steady increase in tree growth since the early 1900s, which intensified during the 1930s and 1960s, and have reached unprecedented levels since 1760. This recent growth acceleration was observed in small/young and large/old trees and coincided with the establishment of trees outside the forest range, reflecting a connection between the physiological performance of dominant species and shifts in forest distribution. Measurements of stable isotopes (carbon, oxygen, and nitrogen) in tree rings indicate that tree growth has been stimulated by the synergistic effect of rising atmospheric CO2 and a warming-induced increase in water and nutrient availability from thawing permafrost. These findings illustrate the importance of considering soil-plant-atmosphere interactions to understand current and anticipate future changes in productivity and distribution of forest ecosystems.

Direct land application as an alternative to green waste (GW) disposal in landfills or composting requires an understanding of its impacts on greenhouse gas (GHG) and volatile organic compound (VOC) emissions. We investigated the effects of two approaches of GW direct land application, surface application and soil incorporation, on carbon dioxide (CO2), nitrous oxide (N2O) and methane (CH4), and VOC emissions for a 12month period. Five treatments were applied in fall 2013 on fallow land under a Mediterranean climate in California: 30cm height GW on surface; 15cm height GW on surface; 15cm height GW tilled into soil; control+till; control+no till. In addition, a laboratory experiment was conducted to develop a mechanistic understanding of the influence of GW application on soil O2 consumption and GHG emission. The annual cumulative N2O, CO2 and VOC emissions ranged from 1.6 to 5.5kgN2O-Nha(-1), 5.3 to 40.6MgCO2-Cha(-1) and 0.6 to 9.9kgVOCha(-1), respectively, and were greatly reduced by GW soil incorporation compared to surface application. Application of GW quickly consumed soil O2 within one day in the lab incubation. These results indicate that to reduce GHG and VOC emissions of GW direct land application, GW incorporation into soil is recommended., (Copyright © 2016 Elsevier Ltd. All rights reserved.)

The presence of mercury (Hg), particularly methylmercury (MeHg), is a concern for both human and ecological health as MeHg is a neurotoxin and can bioaccumulate to lethal levels in upper trophic level organisms. Recent research has demonstrated that coagulation with metal-based salts can effectively remove both inorganic mercury (IHg) and MeHg from solution through association with dissolved organic matter (DOM) and subsequent flocculation and precipitation. In this study, we sought to further examine interactions between Hg and DOM and the resulting organo-metallic precipitate (floc) to assess if (1) newly added IHg could be removed to the same extent as ambient IHg or whether the association between IHg and DOM requires time, and (2) once formed, if the floc has the capacity to remove additional Hg from solution. Agricultural drainage water samples containing ambient concentrations of both DOM and IHg were spiked with a traceable amount of isotopically enriched IHg and dosed with ferric sulfate after 0, 1, 5, and 30 days. Both ambient and newly added IHg were removed within hours, with 69-79 % removed. To a separate sample set, isotopically enriched IHg was added to solution after floc had formed. Under those conditions, 81-95 % of newly added Hg was removed even at Hg concentrations 1000-fold higher than ambient levels. Results of this study indicate coagulation with ferric sulfate effectively removes both ambient and newly added IHg entering a system and suggests rapid association between IHg and DOM. This work also provides new information regarding the ability of floc to remove additional Hg from solution even after it has formed.

The influence of carbon dioxide (CO2) and soil fertility on the physiological performance of plants has been extensively studied, but their combined effect is notoriously difficult to predict. Using Coffea arabica as a model tree species, we observed an additive effect on growth, by which aboveground productivity was highest under elevated CO2 and ammonium fertilization, while nitrate fertilization favored greater belowground biomass allocation regardless of CO2 concentration. A pulse of labelled gases ((13)CO2 and (15)NH3) was administered to these trees as a means to determine the legacy effect of CO2 level and soil nitrogen form on foliar gas uptake and translocation. Surprisingly, trees with the largest aboveground biomass assimilated significantly less NH3 than the smaller trees. This was partly explained by declines in stomatal conductance in plants grown under elevated CO2. However, unlike the (13)CO2 pulse, assimilation and transport of the (15)NH3 pulse to shoots and roots varied as a function of interactions between stomatal conductance and direct plant response to the form of soil nitrogen, observed as differences in tissue nitrogen content and biomass allocation. Nitrogen form is therefore an intrinsic component of physiological responses to atmospheric change, including assimilation of gaseous nitrogen as influenced by plant growth history.

Recent observations across a 14-year restoration chronosequence have shown an unexpected accumulation of soil organic carbon in strip-mined areas of central Brazil. This was attributed to the rapid plant colonization that followed the incorporation of biosolids into exposed regoliths, but the specific mechanisms involved in the stabilization of carbon inputs from the vegetation remained unclear. Using isotopic and elemental analyses, we tested the hypothesis that plant-derived carbon accumulation was triggered by the formation of iron-coordinated complexes, stabilized into physically protected (occluded) soil fractions. Confirming this hypothesis, we identified a fast formation of microaggregates shortly after the application of iron-rich biosolids, which was characterized by a strong association between pyrophosphate-extractable iron and plant-derived organic matter. The formation of microaggregates preceded the development of macroaggregates, which drastically increased soil carbon content (-140 Mg C/ha) a few years after restoration. Consistent with previous theoretical work, iron-coordinated organic complexes served as nuclei for aggregate formation, reflecting the synergistic effect of biological, chemical, and physical mechanisms of carbon stabilization in developing soils. Nevertheless, iron was not the only factor affecting soil carbon content. The highest carbon accumulation was observed during the period of highest plant diversity (> 30 species; years 3-6), declining significantly with the exclusion of native species by invasive grasses (years 9-14). Furthermore, the increasing dominance of invasive grasses was associated with a steady decline in the concentration of soil nitrogen and phosphorus per unit of accumulated carbon. These results demonstrate the importance of interdependent ecological and biogeochemical processes, and the role of soil-plant interactions in determining the success of restoration efforts. In contrast with previous but unsuccessful attempts to restore mined areas through nutrient application alone, iron-mediated stabilization of vegetation inputs favored the regeneration of a barren stable state that had persisted for over five decades since disturbance. The effectiveness of coupled organic matter and iron "fertilization," combined with management of invasive species, has the possibility to enhance terrestrial carbon sequestration and accelerate the restoration of degraded lands, while addressing important challenges associated with urban waste disposal.

Mercury pollution is widespread globally, and strategies for managing mercury contamination in aquatic environments are necessary. We tested whether coagulation with metal-based salts could remove mercury from wetland surface waters and decrease mercury bioaccumulation in fish. In a complete randomized block design, we constructed nine experimental wetlands in California's Sacramento-San Joaquin Delta, stocked them with mosquitofish (Gambusia affinis), and then continuously applied agricultural drainage water that was either untreated (control), or treated with polyaluminum chloride or ferric sulfate coagulants. Total mercury and methylmercury concentrations in surface waters were decreased by 62% and 63% in polyaluminum chloride treated wetlands and 50% and 76% in ferric sulfate treated wetlands compared to control wetlands. Specifically, following coagulation, mercury was transferred from the filtered fraction of water into the particulate fraction of water which then settled within the wetland. Mosquitofish mercury concentrations were decreased by 35% in ferric sulfate treated wetlands compared to control wetlands. There was no reduction in mosquitofish mercury concentrations within the polyaluminum chloride treated wetlands, which may have been caused by production of bioavailable methylmercury within those wetlands. Coagulation may be an effective management strategy for reducing mercury contamination within wetlands, but further studies should explore potential effects on wetland ecosystems.

Around the world, peatland degradation and soil subsidence is occurring where these soils have been converted to agriculture. Since initial drainage in the mid-1800s, continuous farming of such soils in the California Sacramento-San Joaquin Delta (the Delta) has led to subsidence of up to 8 meters in places, primarily due to soil organic matter (SOM) oxidation and physical compaction. Rice (Oryza sativa) production has been proposed as an alternative cropping system to limit SOM oxidation. Preliminary research on these soils revealed high N uptake by rice in N fertilizer omission plots, which we hypothesized was the result of SOM oxidation releasing N. Testing this hypothesis, we developed a novel N budgeting approach to assess annual soil C and N loss based on plant N uptake and fallow season N mineralization. Through field experiments examining N dynamics during growing season and winter fallow periods, a complete annual N budget was developed. Soil C loss was calculated from SOM-N mineralization using the soil C:N ratio. Surface water and crop residue were negligible in the total N uptake budget (3 - 4 % combined). Shallow groundwater contributed 24 - 33 %, likely representing subsurface SOM-N mineralization. Assuming 6 and 25 kg N ha-1 from atmospheric deposition and biological N2 fixation, respectively, our results suggest 77 - 81 % of plant N uptake (129 - 149 kg N ha-1) was supplied by SOM mineralization. Considering a range of N uptake efficiency from 50 - 70 %, estimated net C loss ranged from 1149 - 2473 kg C ha-1. These findings suggest that rice systems, as currently managed, reduce the rate of C loss from organic delta soils relative to other agricultural practices.

The agriculturally productive San Joaquin Valley faces two severe hydrologic issues: persistent groundwater overdraft and flooding risks. Capturing flood flows for groundwater recharge could help address both of these issues, yet flood flow frequency, duration, and magnitude vary greatly as upstream reservoir releases are affected by snowpack, precipitation type, reservoir volume, and flood risks. This variability makes dedicated, engineered recharge approaches expensive. Our work evaluates leveraging private farmlands in the Kings River Basin to capture flood flows for direct and in lieu recharge, calculates on-farm infiltration rates, assesses logistics, and considers potential water quality issues. The Natural Resources Conservation Service (NRCS) soil series suggested that a cementing layer would hinder recharge. The standard practice of deep ripping fractured the layer, resulting in infiltration rates averaging 2.5 in d(-1) (6 cm d(-1)) throughout the farm. Based on these rates 10 acres are needed to infiltrate 1 cfs (100 m(3) h(-1)) of flood flows. Our conceptual model predicts that salinity and nitrate pulses flush initially to the groundwater but that groundwater quality improves in the long term due to pristine flood flows low in salts or nitrate. Flood flow capture, when integrated with irrigation, is more cost-effective than groundwater pumping.

Opencast mining causes severe impacts on natural environments, often resulting in permanent damage to soils and vegetation. In the present study we use a 14-year restoration chronosequence to investigate how resource input and spontaneous plant colonization promote the revegetation and reconstruction of mined soils in central Brazil. Using a multi-proxy approach, combining vegetation surveys with the analysis of plant and soil isotopic abundances (delta13C and delta15N) and chemical and physical fractionation of organic matter in soil profiles, we show that: (1) after several decades without vegetation cover, the input of nutrient-rich biosolids into exposed regoliths prompted the establishment of a diverse plant community (> 30 species); (2) the synergistic effect of resource input and plant colonization yielded unprecedented increases in soil carbon, accumulating as chemically stable compounds in occluded physical fractions and reaching much higher levels than observed in undisturbed ecosystems; and (3) invasive grasses progressively excluded native species, limiting nutrient availability, but contributing more than 65% of the total accumulated soil organic carbon. These results show that soil-plant feedbacks regulate the amount of available resources, determining successional trajectories and alternative stable equilibria in degraded areas undergoing restoration. External inputs promote plant colonization, soil formation, and carbon sequestration, at the cost of excluding native species. The introduction of native woody species would suppress invasive grasses and increase nutrient availability, bringing the system closer to its original state. However, it is difficult to predict whether soil carbon levels could be maintained without the exotic grass cover. We discuss theoretical and practical implications of these findings, describing how the combination of resource manipulation and management of invasive species could be used to optimize restoration strategies, counteracting soil degradation while maintaining species diversity.

Human-induced changes in atmospheric composition are expected to affect primary productivity across terrestrial biomes. Recent changes in productivity have been observed in many forest ecosystems, but low-latitude upper tree line forests remain to be investigated. Here, we use dendrochronological methods and isotopic analysis to examine changes in productivity, and their physiological basis, in Abies religiosa (Ar) and Pinus hartwegii (Ph) trees growing in high-elevation forests of central Mexico. Six sites were selected across a longitudinal transect (Transverse Volcanic Axis), from the Pacific Ocean toward the Gulf of Mexico, where mature dominant trees were sampled at altitudes ranging from 3200 to 4000 m asl. A total of 60 Ar and 84 Ph trees were analyzed to describe changes in growth (annual-resolution) and isotopic composition (decadal-resolution) since the early 1900s. Our results show an initial widespread increase in basal area increment (BAI) during the first half of the past century. However, BAI has decreased significantly since the 1950s with accentuated decline after the 1980s in both species and across sites. We found a consistent reduction in atmosphere to wood (13) C discrimination, resulting from increasing water use efficiency (20-60%), coinciding with rising atmospheric CO2 . Changes in (13) C discrimination were not followed, however, by shifts in tree ring δ(18) O, indicating site- and species-specific differences in water source or uptake strategy. Our results indicate that CO2 stimulation has not been enough to counteract warming-induced drought stress, but other stressors, such as progressive nutrient limitation, could also have contributed to growth decline. Future studies should explore the distinct role of resource limitation (water vs. nutrients) in modulating the response of high-elevation ecosystems to atmospheric change., (© 2013 Blackwell Publishing Ltd.)

Common management practices, such as the application of green waste compost, soil moisture manipulation, and nitrogen fertilization, affect nitrous oxide (NO) emissions from agricultural soils. To expand our understanding of how soils interact with these controls, we studied their effects in 10 agricultural soils. Application of compost slightly increased NO emissions in soils with low initial levels of inorganic N and low background emission. For soils in which compost caused a decrease in emission, this decrease was larger than any of the observed increases in the other soils. The five most important factors driving emission across all soils, in order of increasing importance, were native dissolved organic carbon (DOC), treatment-induced change in DOC, native inorganic N, change in pH, and soil iron (Fe). Notable was the prominence of Fe as a regulator of NO emission. In general, compost is a viable amendment, considering the agronomic benefits it provides against the risk of producing a small increase in NO emissions. However, if soil properties and conditions are taken into account, management can recognize the potential effect of compost and thereby reduce NO emissions from susceptible soils, particularly by avoiding application of compost under wet conditions and together with ammonium fertilizer., (Copyright © by the American Society of Agronomy, Crop Science Society of America, and Soil Science Society of America, Inc.)

A field experiment was conducted to evaluate the influences of long-term applications of organic amendments and chemical fertilizers on nitrous oxide (N2O) emissions from Mollisols in northeast China and to relate soil N2O fluxes to soil moisture and temperature. A closed-chamber method was used to determine soil N2O flux during the maize growing season in 2011. In the entire maize growing period, cumulative N2O emissions were significantly (all P<0.05) increased by 66, 86 and 83% under the applications of 4.5 Mg ha(-1) maize straw combined with NPK, 7.5 and 22.5 Mg ha(-1) pig manure combined with NPK, respectively, compared with the control (0.64±0.01 kg N2O-N ha(-1)), whereas NPK fertilizer alone and 2.25 Mg ha(-1) maize straw combined with NPK had no remarkable influences (P>0.05). Nonetheless, even increasing nitrogen inputs, the cumulative microbial N2O emission over 126 days had an upper threshold around 1.2 kg N2O-N ha(-1). Approximately 25-44% of N2O was emitted from the applied organic amendments, and the emission factor (EF) of applied organic amendments as N2O based on 126 days was between 0.07 and 1.52%, higher than NPK fertilizer-induced EF (0.03%). Soil temperature explained 38-96% of the seasonal variation in soil N2O fluxes using exponential models, with a Q10 of 2.01-3.48. Our results suggest that the influences of organic amendments on soil N2O emissions from Mollisols primarily vary with the type of the applied organic amendments, whereas great nitrogen inputs at maximum asymptotically double baseline cumulative emissions., (Copyright © 2013 Elsevier B.V. All rights reserved.)

The continuous increase of nitrous oxide (N2O) abundance in the atmosphere is a global concern. Multiple pathways of N2O production occur in soil, but their significance and dependence on oxygen (O2) availability and nitrogen (N) fertilizer source are poorly understood. We examined N2O and nitric oxide (NO) production under 21%, 3%, 1%, 0.5%, and 0% (vol/vol) O2 concentrations following urea or ammonium sulfate [(NH4)2SO4] additions in loam, clay loam, and sandy loam soils that also contained ample nitrate. The contribution of the ammonia (NH3) oxidation pathways (nitrifier nitrification, nitrifier denitrification, and nitrification-coupled denitrification) and heterotrophic denitrification (HD) to N2O production was determined in 36-h incubations in microcosms by (15)N-(18)O isotope and NH3 oxidation inhibition (by 0.01% acetylene) methods. Nitrous oxide and NO production via NH3 oxidation pathways increased as O2 concentrations decreased from 21% to 0.5%. At low (0.5% and 3%) O2 concentrations, nitrifier denitrification contributed between 34% and 66%, and HD between 34% and 50% of total N2O production. Heterotrophic denitrification was responsible for all N2O production at 0% O2. Nitrifier denitrification was the main source of N2O production from ammonical fertilizer under low O2 concentrations with urea producing more N2O than (NH4)2SO4 additions. These findings challenge established thought attributing N2O emissions from soils with high water content to HD due to presumably low O2 availability. Our results imply that management practices that increase soil aeration, e.g., reducing compaction and enhancing soil structure, together with careful selection of fertilizer sources and/or nitrification inhibitors, could decrease N2O production in agricultural soils.

In response to rising interest over the years, many experiments and several models have been devised to understand emission of nitrous oxide (N2O) from agricultural soils. Notably absent from almost all of this discussion is iron, even though its role in both chemical and biochemical reactions that generate N2O was recognized well before research on N2O emission began to accelerate. We revisited iron by exploring its importance alongside other soil properties commonly believed to control N2O production in agricultural systems. A set of soils from California's main agricultural regions was used to observe N2O emission under conditions representative of typical field scenarios. Results of multivariate analysis showed that in five of the twelve different conditions studied, iron ranked higher than any other intrinsic soil property in explaining observed emissions across soils. Upcoming studies stand to gain valuable information by considering iron among the drivers of N2O emission, expanding the current framework to include coupling between biotic and abiotic reactions.

Background: The analysis of tree-ring carbon isotope composition (δ(13)C) has been widely used to estimate spatio-temporal variations in intrinsic water use efficiency (iWUE) of tree species. Numerous studies have reported widespread increases in iWUE coinciding with rising atmospheric CO(2) over the past century. While this could represent a coherent global response, the fact that increases of similar magnitude were observed across biomes with no apparent effect on tree growth raises the question of whether iWUE calculations reflect actual physiological responses to elevated CO(2) levels., Methodology/results: Here we use Monte Carlo simulations to test if an artifact of calculation could explain observed increases in iWUE. We show that highly significant positive relationships between iWUE and CO(2) occur even when simulated data (randomized δ(13)C values spanning the observed range) are used in place of actual tree-ring δ(13)C measurements. From simulated data sets we calculated non-physiological changes in iWUE from 1900 to present and across a 4000 m altitudinal range. This generated results strikingly similar to those reported in recent studies encompassing 22 species from tropical, subtropical, temperate, boreal and mediterranean ecosystems. Only 6 of 49 surveyed case studies showed increases in iWUE significantly higher than predicted from random values., Conclusions/significance: Our results reveal that increases in iWUE estimated from tree-ring δ(13)C occur independently of changes in (13)C discrimination that characterize physiological responses to elevated CO(2). Due to a correlation with CO(2) concentration, which is used as an independent factor in the iWUE calculation, any tree-ring δ(13)C data set would inevitably generate increasing iWUE over time. Therefore, although consistent, previously reported trends in iWUE do not necessarily reflect a coherent global response to rising atmospheric CO(2). We discuss the significance of these findings and suggest ways to distinguish real from artificial responses in future studies.

The source of microbial C is thought to impact its stability in soil due to variations in cellular biochemistry. It has been hypothesised that a fungal-dominated community stabilises more C than a bacterial-dominated community, in part due to chemical recalcitrance of their non-living biomass, particularly cell wall components and pigments. We compared the turnover of (13)C-labelled (99.9 atom %) temperate and tropical microbial isolates [i.e. fungi, Gram-positive bacteria (including actinobacteria) and Gram-negative bacteria] in temperate (California) and tropical (Puerto Rico) forest soils. While significant differences in (13)C recovery and mean residence times occurred among some microbial additions, similar turnover rates were observed, and in general, results do not support the view that microbial biochemistry affects soil C maintenance. Different effects by microbial necromass additions in California and Puerto Rico suggest that ecosystem-specific effects may be as important to microbial C stabilisation as its macromolecular composition and recalcitrance., (© 2012 Blackwell Publishing Ltd/CNRS.)

Emissions of CH4, CO2, and N2O from conventional septic tank systems are known to occur, but there is a dearth of information as to the extent. Mass emission rates of CH4, CO2, and N2O, as measured with a modified flux chamber approach in eight septic tank systems, were determined to be 11, 33.3, and 0.005 g capita(-1) day(-1), respectively, in this research. Existing greenhouse gas (GHG) emission models based on BOD (biochemical oxygen demand) loading have estimated methane emissions to be as high as 27.1 g CH4 capita(-1) day(-1), more than twice the value measured in our study, and concluded that septic tanks are potentially significant sources of GHGs due to the large number of systems currently in use. Based on the measured CH4 emission value, a revised CH4 conversion factor of 0.22 (compared to 0.5) for use in the emissions models is suggested. Emission rates of CH4, CO2, and N2O were also determined from measurements of gas concentrations and flow rates in the septic vent system and were found to be 10.7, 335, and 0.2 g capita(-1)day(-1), respectively. The excellent agreement in the CH4 emission rates between the flux chamber and the vent values indicates the dominant CH4 source is the septic tank.

The presence of inorganic mercury (IHg) and methylmercury (MeHg) in surface waters is a health concern worldwide. This study assessed the removal potential use of metal-based coagulants as a means to remove both dissolved IHg and MeHg from natural waters and provides information regarding the importance of Hg associations with the dissolved organic matter (DOM) fraction and metal hydroxides. Previous research indicated coagulants were not effective at removing Hg from solution; however these studies used high concentrations of Hg and did not reflect naturally occurring concentrations of Hg. In this study, water collected from an agricultural drain in the Sacramento-San Joaquin Delta was filtered to isolate the dissolved organic matter (DOM) fraction. The DOM was then treated with a range of coagulant doses to determine the efficacy of removing all forms of Hg from solution. Three industrial-grade coagulants were tested: ferric chloride, ferric sulfate, and polyaluminum chloride. Coagulation removed up to 85% of DOM from solution. In the absence of DOM, all three coagulants released IHg into solution, however in the presence of DOM the coagulants removed up to 97% of IHg and 80% of MeHg. Results suggest that the removal of Hg is mediated by DOM-coagulant interactions. There was a preferential association of IHg with the more aromatic, higher molecular weight fraction of DOM but no such relationship was found for MeHg. This study offers new fundamental insights regarding large-scale removal of Hg at environmentally relevant regarding large-scale removal of Hg at environmentally relevant concentrations., (Copyright © 2010 Elsevier B.V. All rights reserved.)

Little information is known on what the magnitude of nitrogen (N) processed by ectomycorrhizal (ECM) fungal species in the field. In a common garden experiment performed in a northern California oak woodland, we investigated transfer of nitrogen applied as 15NH4 or 15NO3 from leaves to ectomycorrhizal roots of three oak species, Quercus agrifolia, Q. douglasii, and Q. garryana. Oak seedlings formed five common ectomycorrhizal morphotypes on root tips. Mycorrhizal tips were more enriched in 15N than fine roots. N transfer was greater to the less common morphotypes than to the more common types. 15N transfer from leaves to roots was greater when 15NO3(-), not [Formula: see text], was supplied. 15N transfer to roots was greater in seedlings of Q. agrifolia than in Q. douglasii and Q. garryana. Differential N transfer to ectomycorrhizal root tips suggests that ectomycorrhizal morphotypes can influence flows of N from leaves to roots and that mycorrhizal diversity may influence the total N requirement of plants.

Riparian ecosystems, through their unique position in the agricultural landscape and ability to influence nutrient cycles, can potentially reduce NO3 loading to surface and ground waters. The purpose of this study was to determine the fate of NO3 in shallow groundwater moving along a lateral flowpath from a grass seed cropping system through an undisturbed mixed-species herbaceous riparian area. Soil A (30-45 cm) and C horizon (135-150 cm) NO3, dissolved oxygen, and nitrous oxide concentrations were significantly higher in the cropping system than the adjacent riparian area. Nitrate concentrations in both horizons of the riparian soil were consistently at or below 0.05 mg N L(-1) while cropping system concentrations ranged from 1 to 12 mg N L(-1). Chloride data suggested that NO3 dilution occurred from recharge by precipitation. However, a sharp decrease in NO3/Cl ratios as water moved into the riparian area indicated that additional dilution of NO3 concentrations was unlikely. Riparian area A horizon soil water had higher dissolved organic carbon than the cropping system and when the riparian soil became saturated, available electron acceptors (O2, NO3) were rapidly reduced. Dissolved inorganic carbon was significantly higher in the riparian area than the cropping system for both horizons indicating high biological activity. Carbon limitation in the cropping system may have led to microbial respiration using primarily O2 and to a lesser degree NO3. Within 6 m of the riparian/cropping system transition, NO3 was virtually undetectable.

Nitrogen transfer among plants in a California oak woodland was examined in a pulse-labeling study using 15N. The study was designed to examine N movement among plants that were mycorrhizal with ectomycorrhizas (EM), arbuscular mycorrhizas (AM), or both. Isotopically enriched N (K15NO3-) was applied to gray pine (Pinus sabiniana) foliage (donor) and traced to neighboring gray pine, blue oak (Quercus douglasii), buckbrush (Ceanothus cuneatus) and herbaceous annuals (Cynosurus echinatus, Torilis arvensis and Trifolium hirtum). After 2 wk, needles of 15N-treated pines and foliage from nearby annuals were similarly enriched, but little 15N had appeared in nontreated (receiver) pine needles, oak leaves or buckbrush foliage. After 4 wk foliar and root samples from pine, oak, buckbrush and annuals were significantly 15N-enriched, regardless of the type of mycorrhizal association. The rate of transfer during the first and second 2-wk periods was similar, and suggests that 15N could continue to be mobilized over longer times.

The concept of a common mycorrhizal network implies that the arrangement of plants and mycorrhizal fungi in a community shares properties with other networks. A network is a system of nodes connected by links. Here we apply network theory to mycorrhizas to determine whether the architecture of a potential common mycorrhizal network is random or scale-free. We analyzed mycorrhizal data from an oak woodland from two perspectives: the phytocentric view using trees as nodes and fungi as links and the mycocentric view using fungi as nodes and trees as links. From the phytocentric perspective, the distribution of potential mycorrhizal links, as measured by the number of ectomycorrhizal morphotypes on trees of Quercus garryana, was random with a short tail, implying that all the individuals of this species are more or less equal in linking to fungi in a potential network. From the mycocentric perspective, however, the distribution of plant links to fungi was scale-free, suggesting that certain fungus species may act as hubs with frequent connections to the network. Parallels exist between social networks and mycorrhizas that suggest future lines of study on mycorrhizal networks.

Methylene ureas (MU) are slow-release nitrogen fertilizers degraded in soil by microbial enzymatic activity. Improved utilization of MU in agricultural production requires more knowledge about the organisms and enzymes responsible for its degradation. A Gram-negative, MU-degrading organism was isolated from a soil in Sacramento Valley, California. The bacterium was identified as Agrobacterium tumefaciens (recently also known as Rhizobium radiobacter) using both genotypic and phenotypic characterization. The pathogenic nature of the organism was confirmed by a bioassay on carrot disks. The MU-hydrolyzing enzyme (MUase) was intracellular and was induced by using MU as a sole source of nitrogen. The bacterial growth was optimized in NH4Cl, urea, or peptone, whereas the production and specific activity of MUase were maximized with either NH4Cl or urea as a nitrogen source. The result has a practical significance, demonstrating a potential to select for this plant pathogen in soils fertilized with MU.

The Willamette Valley of Oregon has extensive areas of poorly drained, commercial grass seed lands. Little is know about the ability of riparian areas in these settings to reduce nitrate in water draining from grass seed fields. We established two study sites with similar soils and hydrology but contrasting riparian vegetation along an intermittent stream that drains perennial ryegrass (Lolium perenne L.) fields in the Willamette Valley of western Oregon. We installed a series of nested piezometers along three transects at each site to examine NO3-N in shallow ground water in grass seed fields and riparian areas. Results showed that a noncultivated riparian zone comprised of grasses and herbaceous vegetation significantly reduced NO3-N concentrations of shallow ground water moving from grass seed fields. Darcy's law-based estimates of shallow ground water flow through riparian zone A/E horizons revealed that this water flowpath could account for only a very small percentage of the streamflow. Even though there is great potential for NO3-N to be reduced as water moves through the noncultivated riparian zone with grass-herbaceous vegetation, the potential was not fully realized because only a small proportion of the stream flow interacts with riparian zone soils. Consequently, effective NO3-N water quality management in poorly drained landscapes similar to the study watershed is primarily dependent on implementation of sound agricultural practices within grass seed fields and is less influenced by riparian zone vegetation. Wise fertilizer application rates and timing are key management tools to reduce export of NO3-N in stream waters.

Soil compaction is a side effect of forest reestablishment practices resulting from use of heavy equipment and site preparation. Soil compaction often alters soil properties resulting in changes in plant-available water. The use of pressure chamber methods to assess plant water stress has two drawbacks: (1) the measurements are not integrative; and (2) the method is difficult to apply extensively to establish seasonal soil water status. We evaluated leaf carbon isotopic composition (delta13C) as a means of assessing effects of soil compaction on water status and growth of young ponderosa pine (Pinus ponderosa var. ponderosa Dougl. ex Laws) stands across a range of soil textures. Leaf delta13C in cellulose and whole foliar tissue were highly correlated. Leaf delta13C in both whole tissue and cellulose (holocellulose) was up to 1.0 per thousand lower in trees growing in non-compacted (NC) loam or clay soils than in compacted (SC) loam or clay soils. Soil compaction had the opposite effect on leaf delta13C in trees growing on sandy loam soil, indicating that compaction increased water availability in this soil type. Tree growth response to compaction also varied with soil texture, with no effect, a negative effect and a positive effect as a result of compaction of loam, clay and sandy loam soils, respectively. There was a significant correlation between 13C signature and tree growth along the range of soil textures. Leaf delta13C trends were correlated with midday stem water potentials. We conclude that leaf delta13C can be used to measure retrospective water status and to assess the impact of site preparation on tree growth. The advantage of the leaf delta13C approach is that it provides an integrative assessment of past water status in different aged leaves.

We studied whole-tree C allocation with special emphasis on the quantification of C allocation to roots and root respiration. To document seasonal patterns of C allocation, 2-year-old hybrid poplar trees greater than 3 m tall were labeled with (14)CO(2) in a large Plexiglas chamber in the field, in July and September. Climate and CO(2) concentration were controlled to track ambient conditions during labeling. Individual tree canopy CO(2) assimilation averaged 3.8 micromol CO(2) m(-2) s(-1) (12.9 g C day(-1) tree(-1)) in July and 6.2 micromol CO(2) m(-2) s(-1) (9.8 g C day(-1) tree(-1)) in September. Aboveground dark respiration was 12% of net daytime C fixation in July and 15% in September. Specific activity of root-soil respiration peaked 2 days after labeling and stabilized to less than 5% of maximum 2 weeks later. Low specific activity of root-soil respiration and a labeled pool of root C demonstrated that current photosynthate was the primary source of C for root growth and maintenance during the growing season. Root respiration averaged 20% of total soil respiration in both July and September based on the proportion of labeled C respired to labeled C fixed. In July, 80% of the recovered (14)C was found above ground and closely resembled the weight distribution of the growing shoot. By September, 51% of the recovered (14)C was in the root system and closely resembled the weight distribution of different size classes of roots. The finding that the distribution of biomass and (14)C were similar verified that the C introduced during labeling followed normal seasonal translocation pathways. Results are compared to smaller scale labeling studies and the suitability of the approach for studying long-term C fluxes is discussed.