Benthic exchange and biogeochemical cycling in permeable sediments.

PubMed

Huettel, Markus; Berg, Peter; Kostka, Joel E

2014-01-01

The sandy sediments that blanket the inner shelf are situated in a zone where nutrient input from land and strong mixing produce maximum primary production and tight coupling between water column and sedimentary processes. The high permeability of the shelf sands renders them susceptible to pressure gradients generated by hydrodynamic and biological forces that modulate spatial and temporal patterns of water circulation through these sediments. The resulting dynamic three-dimensional patterns of particle and solute distribution generate a broad spectrum of biogeochemical reaction zones that facilitate effective decomposition of the pelagic and benthic primary production products. The intricate coupling between the water column and sediment makes it challenging to quantify the production and decomposition processes and the resultant fluxes in permeable shelf sands. Recent technical developments have led to insights into the high biogeochemical and biological activity of these permeable sediments and their role in the global cycles of matter.

The Good, the Bad and the Ugly - Interacting Physical, Biogeochemical and Biolological Controls of Nutrient Cycling at Ecohydrological Interfaces

NASA Astrophysics Data System (ADS)

Krause, S.; Baranov, V. A.; Lewandowski, J.; Blaen, P. J.; Romeijn, P.

2016-12-01

The interfaces between streams, lakes and their bed sediments have for a long time been in the research focus of ecohydrologists, aquatic ecologists and biogeochemists. While over the past decades, critical understanding has been gained of the spatial patterns and temporal dynamics in nutrient cycling at sediment-freshwater interfaces, important question remain as to the actual drivers (physical, biogeochemical and biological) of the often observed hot spots and hot moments of nutrient cycling at these highly reactive systems. This study reports on a combination of laboratory manipulation, artificial stream and field experiments from reach to river network scales to investigate the interplay of physical, biogeochemical and biological drivers of interface nutrient cycling under the impact of and resilience to global environmental change. Our results indicate that biogeochemical hotspots at sediment-freshwater interfaces were controlled not only by reactant mixing ratios and residence time distributions, but strongly affected by patterns in streambed physical properties and bioavailability of organic carbon. Lab incubation experiments revealed that geology, and in particular organic matter content strongly controlled the magnitude of enhanced streambed greenhouse gas production caused by increasing water temperatures. While these findings help to improve our understanding of physical and biogeochemical controls on nutrient cycling, we only start to understand to what degree biological factors can enhance these processes even further. We found that for instance chironomid or brittle star facilitated bioturbation in has the potential to substantially enhance freshwater or marine sediment pore-water flow and respiration. We revealed that ignorance of these important biologically controls on physical exchange fluxes can lead to critical underestimation of whole system respiration and its increase under global environmental change.

The impacts of climate change and human activities on biogeochemical cycles on the Qinghai-Tibetan Plateau.

PubMed

Chen, Huai; Zhu, Qiuan; Peng, Changhui; Wu, Ning; Wang, Yanfen; Fang, Xiuqing; Gao, Yongheng; Zhu, Dan; Yang, Gang; Tian, Jianqing; Kang, Xiaoming; Piao, Shilong; Ouyang, Hua; Xiang, Wenhua; Luo, Zhibin; Jiang, Hong; Song, Xingzhang; Zhang, Yao; Yu, Guirui; Zhao, Xinquan; Gong, Peng; Yao, Tandong; Wu, Jianghua

2013-10-01

With a pace of about twice the observed rate of global warming, the temperature on the Qinghai-Tibetan Plateau (Earth's 'third pole') has increased by 0.2 °C per decade over the past 50 years, which results in significant permafrost thawing and glacier retreat. Our review suggested that warming enhanced net primary production and soil respiration, decreased methane (CH(4)) emissions from wetlands and increased CH(4) consumption of meadows, but might increase CH(4) emissions from lakes. Warming-induced permafrost thawing and glaciers melting would also result in substantial emission of old carbon dioxide (CO(2)) and CH(4). Nitrous oxide (N(2)O) emission was not stimulated by warming itself, but might be slightly enhanced by wetting. However, there are many uncertainties in such biogeochemical cycles under climate change. Human activities (e.g. grazing, land cover changes) further modified the biogeochemical cycles and amplified such uncertainties on the plateau. If the projected warming and wetting continues, the future biogeochemical cycles will be more complicated. So facing research in this field is an ongoing challenge of integrating field observations with process-based ecosystem models to predict the impacts of future climate change and human activities at various temporal and spatial scales. To reduce the uncertainties and to improve the precision of the predictions of the impacts of climate change and human activities on biogeochemical cycles, efforts should focus on conducting more field observation studies, integrating data within improved models, and developing new knowledge about coupling among carbon, nitrogen, and phosphorus biogeochemical cycles as well as about the role of microbes in these cycles. © 2013 John Wiley & Sons Ltd.

Impacts of mesoscale eddies in the South China Sea on biogeochemical cycles

NASA Astrophysics Data System (ADS)

Guo, Mingxian; Chai, Fei; Xiu, Peng; Li, Shiyu; Rao, Shivanesh

2015-09-01

Biogeochemical cycles associated with mesoscale eddies in the South China Sea (SCS) were investigated. The study was based on a coupled physical-biogeochemical Pacific Ocean model (Regional Ocean Model System-Carbon, Silicate, and Nitrogen Ecosystem, ROMS-CoSiNE) simulation for the period from 1991 to 2008. A total of 568 mesoscale eddies with lifetime longer than 30 days were used in the analysis. Composite analysis revealed that the cyclonic eddies were associated with abundance of nutrients, phytoplankton, and zooplankton while the anticyclonic eddies depressed biogeochemical cycles, which are generally controlled by the eddy pumping mechanism. In addition, diatoms were dominant in phytoplankton species due to the abundance of silicate. Dipole structures of vertical fluxes with net upward motion in cyclonic eddies and net downward motion in anticyclonic eddies were revealed. During the lifetime of an eddy, the evolutions of physical, biological, and chemical structures were not linearly coupled at the eddy core where plankton grew, and composition of the community depended not only on the physical and chemical processes but also on the adjustments by the predator-prey relationship.

Geomorphic and substrate controls on spatial variability in river solute transport and biogeochemical cycling

NASA Astrophysics Data System (ADS)

Blaen, Phillip; Kurz, Marie; Knapp, Julia; Mendoza-Lera, Clara; Lee-Cullin, Joe; Klaar, Megan; Drummond, Jen; Jaeger, Anna; Zarnetske, Jay; Lewandowski, Joerg; Marti, Eugenia; Ward, Adam; Fleckenstein, Jan; Datry, Thibault; Larned, Scott; Krause, Stefan

2016-04-01

Nutrient concentrations in surface waters and groundwaters are increasing in many agricultural catchments worldwide as a result of anthropogenic activities. Increasing geomorphological heterogeneity in river channels may help to attenuate nutrient pollution by facilitating water exchange fluxes with the hyporheic zone; a site of intense microbial activity where biogeochemical transformation rates (e.g. denitrification) can be high. However, the controls on spatial variability in biogeochemical cycling, particularly at scales relevant for river managers, are not well understood. Here, we aimed to assess: 1) how differences in geomorphological heterogeneity control river solute transport and rates of biogeochemical cycling at sub-reach scales (102 m); and 2) the relative magnitude of these differences versus those relating to reach scale substrate variability (103 m). We used the reactive 'smart' tracer resazurin (Raz), a weakly fluorescent dye that transforms to highly fluorescent resorufin (Rru) under mildly reducing conditions, as a proxy to assess rates of biogeochemical cycling in a lowland river in southern England. Solute tracer tests were conducted in two reaches with contrasting substrates: one sand-dominated and the other gravel-dominated. Each reach was divided into sub-reaches that varied in geomorphic complexity (e.g. by the presence of pool-riffle sequences or the abundance of large woody debris). Slug injections of Raz and the conservative tracer fluorescein were conducted in each reach during baseflow conditions (Q ≈ 80 L/s) and breakthrough curves monitored using in-situ fluorometers. Preliminary results indicate overall Raz:Rru transformation rates in the gravel-dominated reach were more than 50% higher than those in the sand-dominated reach. However, high sub-reach variability in Raz:Rru transformation rates and conservative solute transport parameters suggests small-scale targeted management interventions to alter geomorphic heterogeneity may be

Towards coupled physical-biogeochemical models of the ocean carbon cycle

NASA Technical Reports Server (NTRS)

Rintoul, Stephen R.

1992-01-01

The purpose of this review is to discuss the critical gaps in our knowledge of ocean dynamics and biogeochemical cycles. It is assumed that the ultimate goal is the design of a model of the earth system that can predict the response to changes in the external forces driving climate.

Characterizing marine particles and their impact on biogeochemical cycles in the GEOTRACES program

NASA Astrophysics Data System (ADS)

Anderson, Robert F.; Hayes, Christopher T.

2015-04-01

Trace elements and their isotopes (TEIs) are of priority interest in several subdisciplines of oceanography. For example, the vital role of trace element micronutrients in regulating the growth of marine organisms, which, in turn, may influence the structure and composition of marine ecosystems, is now well established (Morel and Price, 2003; Twining and Baines, 2013). Natural distributions of some TEIs have been severely impacted by anthropogenic emissions, leading to substantial perturbations of natural ocean inventories. Pb and Hg, for example, (Lamborg et al., 2002; Schaule and Patterson, 1981), may represent a significant threat to human food supply. Furthermore, much of our knowledge of past variability in the ocean environment, including the ocean's role in climate change, has been developed using TEI proxies archived in marine substrates such as sediments, corals and microfossils. Research in each of these areas relies on a comprehensive knowledge of the distributions of TEIs in the ocean, and on the sensitivity of these distributions to changing environmental conditions. With numerous processes affecting the regional supply and removal of TEIs in the ocean, a comprehensive understanding of the marine biogeochemical cycles of TEIs can be attained only by a global, coordinated, international effort. GEOTRACES, an international program designed to study the marine biogeochemical cycles of trace elements and their isotopes (Anderson et al., 2014; Henderson et al., 2007), aims to achieve these goals.

Evaluating the role of sulfur and hyporheic exchange in biogeochemical cycling in riparian wetlands

NASA Astrophysics Data System (ADS)

Ng, G. H. C.; O'Hara, P. A.; Santelli, C. M.; Rosenfeld, C.; Yourd, A.

2017-12-01

Although the mixing of surface water and groundwater is well-recognized to support hotspots of redox activities such as denitrification, few hyporheic zone studies have examined sulfur reactions. Because sulfate concentrations in wetlands, lake beds, and stream beds are low compared to in marine settings, the hierarchical redox tower dictates that sulfate reduction should play a substantially lesser role in biogeochemical cycling than nitrate or iron reduction when these sediments become anoxic. However, recent experiments challenge the classically held redox sequence by revealing "cryptic" sulfur cycling that can support unexpectedly high sulfate reduction rates and could be driving iron and carbon cycling through coupled reactions. Sulfur biogeochemical processes remain poorly understood in field settings, where little is known about the impact of hydrologic fluxes. Our study examines how hyporheic flux can "kick" forward cryptic sulfur cycling and related iron and carbon reactions by perturbing geochemical gradients to which microbial communities respond. We evaluate field-scale cycling of iron, sulfur, and carbon through a combination of hydrologic monitoring, microbial and geochemical analyses, and reactive-transport modeling at a riparian wetland site in northeastern Minnesota that is impacted by mining practices. In particular, we assess how varying fluxes between high sulfate concentration surface water and lower sulfate concentration groundwater over a season could be (1) facilitating intensified sulfur cycling coupled to abiotic iron reduction and (2) altering methane release possibly through anaerobic methane oxidation. Our findings can help clarify the importance of sulfur in non-marine biogeochemical cycling and provide better understanding of how anthropogenic activities can impact critical freshwater systems.

INTERACTIVE EFFECTS OF OZONE DEPLETION AND CLIMATE CHANGE ON BIOGEOCHEMICAL CYCLES

EPA Science Inventory

The effects of ozone depletion on global biogeochemical cycles, via increased UV-B radiation at the Earth's surface, have continued to be documented over the past 4 years. In this report we also document various effects of UV-B that interact with global climate change because the...

Insight from Genomics on Biogeochemical Cycles in a Shallow-Sea Hydrothermal System

NASA Astrophysics Data System (ADS)

Lu, G. S.; Amend, J.

2015-12-01

Shallow-sea hydrothermal ecosystems are dynamic, high-energy systems influenced by sunlight and geothermal activity. They provide accessible opportunities for investigating thermophilic microbial biogeochemical cycles. In this study, we report biogeochemical data from a shallow-sea hydrothermal system offshore Paleochori Bay, Milos, Greece, which is characterized by a central vent covered by white microbial mats with hydrothermally influenced sediments extending into nearby sea grass area. Geochemical analysis and deep sequencing provide high-resolution information on the geochemical patterns, microbial diversity and metabolic potential in a two-meter transect. The venting fluid is elevated in temperature (~70oC), low in pH (~4), and enriched in reduced species. The geochemical pattern shows that the profile is affected by not only seawater dilution but also microbial regulation. The microbial community in the deepest section of vent core (10-12 cm) is largely dominated by thermophilic archaea, including a methanogen and a recently described Crenarcheon. Mid-core (6-8 cm), the microbial community in the venting area switches to the hydrogen utilizer Aquificae. Near the sediment-water interface, anaerobic Firmicutes and Actinobacteria dominate, both of which are commonly associated with subsurface and hydrothermal sites. All other samples are dominated by diverse Proteobacteria. The sulfate profile is strongly correlated with the population size of delta- and episilon-proteobactia. The dramatic decrease in concentrations of As and Mn in pore fluids as a function of distance from the vent suggests that in addition to seawater dilution, microorganisms are likely transforming these and other ions through a combination of detoxification and catabolism. In addition, high concentrations of dissolved Fe are only measurable in the shallow sea grass area, suggesting that iron-transforming microorganisms are controlling Fe mobility, and promoting biomineralization. Taken

Diel biogeochemical processes and their effect on the aqueous chemistry of streams: A review

USGS Publications Warehouse

Nimick, David A.; Gammons, Christopher H.; Parker, Stephen R.

2011-01-01

This review summarizes biogeochemical processes that operate on diel, or 24-h, time scales in streams and the changes in aqueous chemistry that are associated with these processes. Some biogeochemical processes, such as those producing diel cycles of dissolved O2 and pH, were the first to be studied, whereas processes producing diel concentration cycles of a broader spectrum of chemical species including dissolved gases, dissolved inorganic and organic carbon, trace elements, nutrients, stable isotopes, and suspended particles have received attention only more recently. Diel biogeochemical cycles are interrelated because the cyclical variations produced by one biogeochemical process commonly affect another. Thus, understanding biogeochemical cycling is essential not only for guiding collection and interpretation of water-quality data but also for geochemical and ecological studies of streams. Expanded knowledge of diel biogeochemical cycling will improve understanding of how natural aquatic environments function and thus lead to better predictions of how stream ecosystems might react to changing conditions of contaminant loading, eutrophication, climate change, drought, industrialization, development, and other factors.

Global Biogeochemical Cycle of Si: Its Coupling to the Perturbed C-N-P cycles in Industrial Time

NASA Astrophysics Data System (ADS)

Lerman, A.; Li, D. D.; MacKenzie, F. T.

2010-12-01

The importance of silicon (Si) in global biogeochemical cycles is demonstrated by its abundance in the land and aquatic biomass, where Si/C is 0.02 in land plants and 0.15 in marine organisms. Estimates show that Si-bioproduction accounts for ~1.5% of terrestrial primary production, and ~4.5% in the coastal ocean. Human land-use activities have substantially changed regional patterns of vegetation distribution, soil conditions, and nutrient fluxes via runoff to the coastal ocean. Anthropogenic chemical fertilization of the land has caused a significant increase in fluvial nitrogen (N) and phosphorus (P) transport, whereas land-use and vegetation mass changes have caused variations in the riverine Si input, all eventually affecting the cycling of nutrients in the marine environment. We developed a global biogeochemical model of the Si cycle as coupled to the global C-N-P cycle model, TOTEM II (Terrestrial-Ocean-aTmosphere-Ecosystem-Model). In the model analysis from year 1700, taken as the start of the Anthropocene, to 2050, the bioproduction of Si on land and in the ocean is coupled to the bioproduction of C, perturbed by the atmospheric CO2 rise, land-use changes, and chemical fertilization. Also, temperature rise affects the Si cycling on land through bioproduction rates, terrestrial organic matter remineralization, and weathering, thereby affecting its delivery to the coastal zone. The results show that biouptake and subsequent release of Si on land strongly affect the Si river flux to the coastal ocean. During the 350-year period, Si river discharge has increased by ~10% until ~1940, decreasing since then to below its 1700 value and continuing to drop, under the current IPCC IS92 projections of CO2, temperature and other forcings. From 1700 to ~1950, land-use changes, associated with slash and burn of large areas of high-productivity land, caused a decrease of global land vegetation. Dissolution of Si in soil humus and weathering of silicate minerals are the

Global changes in biogeochemical cycles in response to human activities

NASA Technical Reports Server (NTRS)

Moore, Berrien, III; Melillo, Jerry

1994-01-01

The main objective of our research was to characterize biogeochemical cycles at continental and global scales in both terrestrial and aquatic ecosystems. This characterization applied to both natural ecosystems and those disturbed by human activity. The primary elements of interest were carbon and nitrogen and the analysis sought to quantify standing stocks and dynamic cycling processes. The translocation of major nutrients from the terrestrial landscape to the atmosphere (via trace gases) and to fluvial systems (via leaching, erosional losses, and point source pollution) were of particular importance to this study. Our aim was to develop the first generation of Earth System Models. Our research was organized around the construction and testing of component biogeochemical models which treated terrestrial ecosystem processes, aquatic nutrient transport through drainage basins, and trace gas exchanges at the continental and global scale. A suite of three complementary models were defined within this construct. The models were organized to operate at a 1/2 degree latitude by longitude level of spatial resolution and to execute at a monthly time step. This discretization afforded us the opportunity to understand the dynamics of the biosphere down to subregional scales, while simultaneously placing these dynamics into a global context.

Microbial Selenite Reduction and the Selenium Biogeochemical Cycle

NASA Astrophysics Data System (ADS)

Stolz, J. F.; Wells, M.

2016-12-01

Selenium is an essential trace element utilized by many species in the three domains of life. In most Bacteria and Archaea, selenium is primarily assimilated to form selenocysteine, the 21st amino acid (Sec). Additionally selenium can be methylated, demethylated, or used as a terminal electron acceptor in dissimilatory selenate or selenite reduction. Although progress has been made on elucidating the synthesis of selenoproteins, less is known of their occurrence, diversity, and functionality, primarily due to poor genome annotation (e.g., failure to recognize UGA as a Sec and not a stop codon) and proteomics analysis (e.g., failure to detect Sec in LC/MS-MS). Furthermore important parts of the selenium biogeochemical cycle remain to be fully explored, in particular the reduction of Se(IV) to Se(O). We have examined the selenoproteome of a selenate respiring bacterium Sulfurospirillum barnesii strain SES-3, which reduces Se(VI) to Se(0) and the dissimilatory selenite reducing bacterium, Bacillus selenitireducens, strain MLS-10, which reduces Se(IV) to Se(0). Candidate selenoproteins including D-proline reductase, formate dehydrogenase, and methionine-S sulfoxide reductase have been identified in the genomes. A putative dissimilatory selenate reducase (Ser) was found in the genome of S. barnesii. More significant was the discovery of a candidate for the respiratory selenite reductase in B. selenitireducens as determined by in gel assays and LC/MS-MS. The latter has provided a hint at the potential diversity of DSiR bacteria and the development of molecular probes for investigating DSiR in the selenium biogeochemical cycle.

Biogeochemical cycling in the ocean. Part 1: Introduction to the effects of upwelling along the west coast of North America

NASA Technical Reports Server (NTRS)

Howe, John T.

1986-01-01

Coastal upwelling is examined as it relates to the cycling of chemical species in coastal waters along the west coast of North America. The temporal and spatial features of upwelling phenomena in the Eastern boundary regions of the North Pacific Ocean are presented and discussed in terms of upwelling episodes. Climate conditions affecting upwelling include: thermal effects, wind-induced shear stress which moves surface layers, and the curl of the wind stress vector which is thought to affect the extent and nature of upwelling and the formation of offshore convergent downwelling fronts. These effects and the interaction of sunlight and upwelled nutrients which result in a biological bloom in surface waters is modeled analytically. The roles of biological and chemical species, including the effects of predation, are discussed in that context, and relevant remote sensing and in situ observations are presented. Climatological, oceanographic, biological, physical, chemical events, and processes that pertain to biogeochemical cycling are presented and described by a set of partial differential equations. Simple preliminary results are obtained and are compared with data. Thus a fairly general framework has been laid where the many facets of biogeochemical cycling in coastal upwelled waters can be examined in their relationship to one another, and to the whole, to whatever level of detail or approximation is warranted or desired.

INTERACTIONS OF CHANGING CLIMATE AND ULTRAVIOLET RADIATION IN AQUATIC AND TERRESTRIAL BIOGEOCHEMICAL CYCLES

EPA Science Inventory

During the past decade interest has developed in the interactive effects of climate change and UV radiation on aquatic and terrestrial biogeochemical cycles. This talk used selected case studies to illustrate approaches that are being used to investigate these intriguing processe...

The Impacts of Climate-Induced Drought on Biogeochemical Cycles

NASA Astrophysics Data System (ADS)

Peng, C.

2014-12-01

Terrestrial ecosystems and, in particular, forests exert strong controls on the global biogeochemical cycles and influence regional hydrology and climatology directly through water and surface energy budgets. Recent studies indicated that forest mortality caused by rising temperature and drought from around the world have unexpectedly increased in the past decade and they collectively illustrate the vulnerability of many forested ecosystems to rapid increases in tree mortality due to warmer temperatures and more severe drought. Persistent changes in tree mortality rates can alter forest structure, composition, and ecosystem services (such as albedo and carbon sequestration). Quantifying potential impacts of tree mortality on ecosystem processes requires research into mortality effects on carbon, energy, and water budgets at both site and regional levels. Despite recent progress, the uncertainty around mortality responses still limits our ability to predict the likelihood and anticipate the impacts of tree die-off. Studies are needed that explore tree death physiology for a wide variety of functional types, connect patterns of mortality with climate events, and quantify the impacts on carbon, energy, and water flux. In this presentation, I will highlight recent research progress, and identify key research needs and future challenges to predict the consequence and impacts of drought-induced large-scale forest mortality on biogeochemical cycles. I will focus on three main forest ecosystems (tropic rainforest in Amazon, temperate forest in Western USA, and boreal forest in Canada) as detailed case studies.

Rhizosphere Processes Are Quantitatively Important Components of Terrestrial Biogeochemical Cycles: Data & Models

NASA Astrophysics Data System (ADS)

Finzi, A.

2016-12-01

The rhizosphere is a hot spot and hot moment for biogeochemical cycles. Microbial activity, extracellular enzyme activity and element cycles are greatly enhanced by root derived carbon inputs. As such the rhizosphere may be an important driver of ecosystem responses to global changes such as rising temperatures and atmospheric CO2 concentrations. Empirical research on the rhizosphere is extensive but extrapolation of rhizosphere processes to large spatial and temporal scales is largely uninterrogated. Using a combination of field studies, meta-analysis and numerical models we have found good reason to think that scaling is possible. In this talk I discuss the results of this research and focus on the results of a new modeling effort that explicitly links root distribution and architecture with a model of microbial physiology to assess the extent to which rhizosphere processes may affect ecosystem responses to global change. Results to date suggest that root inputs of C and possibly nutrients (ie, nitrogen) impact the fate of new C inputs to the soil (ie, accumulation or loss) in response to warming and enhanced productivity at elevated CO2. The model also provides qualitative guidance on incorporating the known effects of ectomycorrhizal fungi on decomposition and rates of soil C and N cycling.

Effects of stratospheric ozone depletion, solar UV radiation, and climate change on biogeochemical cycling: interactions and feedbacks

DOE PAGES

Erickson III, David J.; Sulzberger, Barbara; Zepp, Richard G.; ...

2014-11-07

Climate change modulates the effects of solar UV radiation on biogeochemical cycles in terrestrial and aquatic ecosystems, particularly for carbon cycling, resulting in UV-mediated positive or negative feedbacks on climate. Possible positive feedbacks discussed in this assessment include: (i) enhanced UV-induced mineralisation of above ground litter due to aridification; (ii) enhanced UV-induced mineralisation of photoreactive dissolved organic matter (DOM) in aquatic ecosystems due to changes in continental runoff and ice melting; (iii) reduced efficiency of the biological pump due to UV-induced bleaching of coloured dissolved organic matter (CDOM) in stratified aquatic ecosystems, where CDOM protects phytoplankton from the damaging solarmore » UV-B radiation. Mineralisation of organic matter results in the production and release of CO 2, whereas the biological pump is the main biological process for CO 2 removal by aquatic ecosystems. This research also assesses the interactive effects of solar UV radiation and climate change on the biogeochemical cycling of aerosols and trace gases other than CO 2, as well as of chemical and biological contaminants. Lastly,, interacting effects of solar UV radiation and climate change on biogeochemical cycles are particularly pronounced at terrestrial-aquatic interfaces.« less

Evidence of Microbial Regulation of Biogeochemical Cycles from a Study on Methane Flux and Land Use Change

PubMed Central

Nazaries, Loïc; Pan, Yao; Bodrossy, Levente; Baggs, Elizabeth M.; Millard, Peter; Murrell, J. Colin

2013-01-01

Microbes play an essential role in ecosystem functions, including carrying out biogeochemical cycles, but are currently considered a black box in predictive models and all global biodiversity debates. This is due to (i) perceived temporal and spatial variations in microbial communities and (ii) lack of ecological theory explaining how microbes regulate ecosystem functions. Providing evidence of the microbial regulation of biogeochemical cycles is key for predicting ecosystem functions, including greenhouse gas fluxes, under current and future climate scenarios. Using functional measures, stable-isotope probing, and molecular methods, we show that microbial (community diversity and function) response to land use change is stable over time. We investigated the change in net methane flux and associated microbial communities due to afforestation of bog, grassland, and moorland. Afforestation resulted in the stable and consistent enhancement in sink of atmospheric methane at all sites. This change in function was linked to a niche-specific separation of microbial communities (methanotrophs). The results suggest that ecological theories developed for macroecology may explain the microbial regulation of the methane cycle. Our findings provide support for the explicit consideration of microbial data in ecosystem/climate models to improve predictions of biogeochemical cycles. PMID:23624469

Biogeochemical Cycles of Carbon and Sulfur on Early Earth (and on Mars?)

NASA Technical Reports Server (NTRS)

DesMarais, D. J.

2004-01-01

The physical and chemical interactions between the atmosphere, hydrosphere, geosphere and biosphere can be examined for elements such as carbon (C) and sulfur (S) that have played central roles for both life and the environment. The compounds of C are highly important, not only as organic matter, but also as atmospheric greenhouse gases, pH buffers in seawater, oxidation-reduction buffers virtually everywhere, and key magmatic constituents affecting plutonism and volcanism. S assumes important roles as an oxidation-reduction partner with C and Fe in biological systems, as a key constituent in magmas and volcanic gases, and as a major influence upon pH in certain environments. These multiple roles of C and S interact across a network of elemental reservoirs interconnected by physical, chemical and biological processes. These networks are termed biogeochemical C and S cycles.

Long-Term Cultivation and Metagenomics Reveal Ecophysiology of Previously Uncultivated Thermophiles Involved in Biogeochemical Nitrogen Cycle

PubMed Central

Kato, Shingo; Sakai, Sanae; Hirai, Miho; Tasumi, Eiji; Nishizawa, Manabu; Suzuki, Katsuhiko; Takai, Ken

2018-01-01

Many thermophiles thriving in a natural high-temperature environment remain uncultivated, and their ecophysiological functions in the biogeochemical cycle remain unclear. In the present study, we performed long-term continuous cultivation at 65°C and 70°C using a microbial mat sample, collected from a subsurface geothermal stream, as the inoculum, and reconstructed the whole genome of the maintained populations using metagenomics. Some metagenome-assembled genomes (MAGs), affiliated into phylum-level bacterial and archaeal clades without cultivated representatives, contained genes involved in nitrogen metabolism including nitrification and denitrification. Our results show genetic components and their potential interactions for the biogeochemical nitrogen cycle in a subsurface geothermal environment. PMID:29459499

Global biogeochemical cycle of vanadium.

PubMed

Schlesinger, William H; Klein, Emily M; Vengosh, Avner

2017-12-26

Synthesizing published data, we provide a quantitative summary of the global biogeochemical cycle of vanadium (V), including both human-derived and natural fluxes. Through mining of V ores (130 × 10 9 g V/y) and extraction and combustion of fossil fuels (600 × 10 9 g V/y), humans are the predominant force in the geochemical cycle of V at Earth's surface. Human emissions of V to the atmosphere are now likely to exceed background emissions by as much as a factor of 1.7, and, presumably, we have altered the deposition of V from the atmosphere by a similar amount. Excessive V in air and water has potential, but poorly documented, consequences for human health. Much of the atmospheric flux probably derives from emissions from the combustion of fossil fuels, but the magnitude of this flux depends on the type of fuel, with relatively low emissions from coal and higher contributions from heavy crude oils, tar sands bitumen, and petroleum coke. Increasing interest in petroleum derived from unconventional deposits is likely to lead to greater emissions of V to the atmosphere in the near future. Our analysis further suggests that the flux of V in rivers has been incremented by about 15% from human activities. Overall, the budget of dissolved V in the oceans is remarkably well balanced-with about 40 × 10 9 g V/y to 50 × 10 9 g V/y inputs and outputs, and a mean residence time for dissolved V in seawater of about 130,000 y with respect to inputs from rivers.

Global biogeochemical cycle of vanadium

PubMed Central

Klein, Emily M.; Vengosh, Avner

2017-01-01

Synthesizing published data, we provide a quantitative summary of the global biogeochemical cycle of vanadium (V), including both human-derived and natural fluxes. Through mining of V ores (130 × 109 g V/y) and extraction and combustion of fossil fuels (600 × 109 g V/y), humans are the predominant force in the geochemical cycle of V at Earth’s surface. Human emissions of V to the atmosphere are now likely to exceed background emissions by as much as a factor of 1.7, and, presumably, we have altered the deposition of V from the atmosphere by a similar amount. Excessive V in air and water has potential, but poorly documented, consequences for human health. Much of the atmospheric flux probably derives from emissions from the combustion of fossil fuels, but the magnitude of this flux depends on the type of fuel, with relatively low emissions from coal and higher contributions from heavy crude oils, tar sands bitumen, and petroleum coke. Increasing interest in petroleum derived from unconventional deposits is likely to lead to greater emissions of V to the atmosphere in the near future. Our analysis further suggests that the flux of V in rivers has been incremented by about 15% from human activities. Overall, the budget of dissolved V in the oceans is remarkably well balanced—with about 40 × 109 g V/y to 50 × 109 g V/y inputs and outputs, and a mean residence time for dissolved V in seawater of about 130,000 y with respect to inputs from rivers. PMID:29229856

Ecohydrological Interfaces as Dynamic Hotspots of Biogeochemical Cycling

NASA Astrophysics Data System (ADS)

Krause, Stefan; Lewandowski, Joerg; Hannah, David; McDonald, Karlie; Folegot, Silvia; Baranov, Victor

2016-04-01

Ecohydrological interfaces, represent the boundaries between water-dependent ecosystems that can alter substantially the fluxes of energy and matter. There is still a critical gap of understanding the organisational principles of the drivers and controls of spatially and temporally variable ecohydrological interface functions. This knowledge gap limits our capacity to efficiently quantify, predict and manage the services provided by complex ecosystems. Many ecohydrological interfaces are characterized by step changes in microbial metabolic activity, steep redox gradients and often even thermodynamic phase shifts, for instance at the interfaces between atmosphere and water or soil matrix and macro-pores interfaces. This paper integrates investigations from point scale laboratory microcosm experiments with reach and subcatchment scale tracer experiments and numerical modeling studies to elaborate similarities in the drivers and controls that constitute the enhanced biogeochemical activity of different types of ecohydrologica interfaces across a range of spatial and temporal scales. We therefore combine smart metabolic activity tracers to quantify the impact of bioturbating benthic fauna onto ecosystem respiration and oxygen consumption and investigate at larger scale, how microbial metabolic activity and carbon turnover at the water-sediment interface are controlled by sediment physical and chemical properties as well as water temperatures. Numerical modeling confirmed that experimentally identified hotspots of streambed biogeochemical cycling were controlled by patterns of physical properties such as hydraulic conductivities or bioavailability of organic matter, impacting on residence time distributions and hence reaction times. In contrast to previous research, our investigations thus confirmed that small-scale variability of physical and chemical interface properties had a major impact on biogeochemical processing at the investigated ecohydrological interfaces

Ecohydrological Interfaces as Dynamic Hotspots of Biogeochemical Cycling

NASA Astrophysics Data System (ADS)

Krause, S.

2015-12-01

Ecohydrological interfaces, represent the boundaries between water-dependent ecosystems that can alter substantially the fluxes of energy and matter. There is still a critical gap of understanding the organisational principles of the drivers and controls of spatially and temporally variable ecohydrological interface functions. This knowledge gap limits our capacity to efficiently quantify, predict and manage the services provided by complex ecosystems. Many ecohydrological interfaces are characterized by step changes in microbial metabolic activity, steep redox gradients and often even thermodynamic phase shifts, for instance at the interfaces between atmosphere and water or soil matrix and macro-pores interfaces. This paper integrates investigations from point scale microcosm experiments with reach and subcatchment scale tracer experiments and numerical modeling studies to elaborate similarities in the drivers and controls that constitute the enhanced biogeochemical activity of different types of ecohydrologica interfaces across a range of spatial and temporal scales. We therefore combine smart metabolic activity tracers to quantify the impact of bioturbating benthic fauna onto ecosystem respiration and oxygen consumption and investigate at larger scale, how microbial metabolic activity and carbon turnover at the water-sediment interface are controlled by sediment physical and chemical properties as well as water temperatures. Numerical modeling confirmed that experimentally identified hotspots of streambed biogeochemical cycling were controlled by patterns of physical properties such as hydraulic conductivities or bioavailability of organic matter, impacting on residence time distributions and hence reaction times. In contrast to previous research, our investigations thus confirmed that small-scale variability of physical and chemical interface properties had a major impact on biogeochemical processing at the investigated ecohydrological interfaces. Our results

Effects of Stratospheric Ozone Depletion, Solar UV Radiation, and Climate Change on Biogeochemical Cycling: Interactions and Feedbacks

EPA Science Inventory

Climate change modulates the effects of solar UV radiation on biogeochemical cycles in terrestrial and aquatic ecosystems, particularly for carbon cycling, resulting in UV-mediated positive or negative feedbacks on climate. Possible positive feedbacks discussed in this assessment...

Biogeochemical cycling in terrestrial ecosystems - Modeling, measurement, and remote sensing

NASA Technical Reports Server (NTRS)

Peterson, D. L.; Matson, P. A.; Lawless, J. G.; Aber, J. D.; Vitousek, P. M.

1985-01-01

The use of modeling, remote sensing, and measurements to characterize the pathways and to measure the rate of biogeochemical cycling in forest ecosystems is described. The application of the process-level model to predict processes in intact forests and ecosystems response to disturbance is examined. The selection of research areas from contrasting climate regimes and sites having a fertility gradient in that regime is discussed, and the sites studied are listed. The use of remote sensing in determining leaf area index and canopy biochemistry is analyzed. Nitrous oxide emission is investigated by using a gas measurement instrument. Future research projects, which include studying the influence of changes on nutrient cycling in ecosystems and the effect of pollutants on the ecosystems, are discussed.

Effects of Solar UV Radiation and Climate Change on Biogeochemical Cycling: Interactions and Feedbacks

EPA Science Inventory

Solar UV radiation, climate and other drivers of global change are undergoing significant changes and models forecast that these changes will continue for the remainder of this century. Here we assess the effects of solar UV radiation on biogeochemical cycles and the interactions...

Interdisciplinary research in global biogeochemical cycling Nitrous oxide in terrestrial ecosystems

NASA Technical Reports Server (NTRS)

Norman, S. D.; Peterson, D. L.

1984-01-01

NASA has begun an interdisciplinary research program to investigate various aspects of Global Biology and Global Habitability. An important element selected for the study of global phenomena is related to biogeochemical cycling. The studies involve a collaboration with recognized scientists in the areas of plant physiology, microbiology, nutrient cycling theory, and related areas. Selected subjects of study include nitrogen cycling dynamics in terrestrial ecosystems with special attention to biosphere/atmosphere interactions, and an identification of sensitive response variables which can be used in ecosystem models based on parameters derived from remotely sensed variables. A description is provided of the progress and findings over the past two years. Attention is given to the characteristics of nitrous oxide emissions, the approach followed in the investigations, the selection of study sites, radiometric measurements, and research in Sequoia.

Terrestrial biogeochemical cycles: global interactions with the atmosphere and hydrology

NASA Astrophysics Data System (ADS)

Schimel, David S.; Kittel, Timothy G. F.; Parton, William J.

1991-08-01

Ecosystem scientists have developed a body of theory to predict the behaviour of biogeochemical cycles when exchanges with other ecosystems are small or prescribed. Recent environmental changes make it clear that linkages between ecosystems via atmospheric and hydrological transport have large effects on ecosystem dynamics when considered over time periods of a decade to a century, time scales relevant to contemporary humankind. Our ability to predict behaviour of ecosystems coupled by transport is limited by our ability (1) to extrapolate biotic function to large spatial scales and (2) to measure and model transport. We review developments in ecosystem theory, remote sensing, and geographical information systems (GIS) that support new efforts in spatial modeling. A paradigm has emerged to predict behaviour of ecosystems based on understanding responses to multiple resources (e.g., water, nutrients, light). Several ecosystem models couple primary production to decomposition and nutrient availability using the above paradigm. These models require a fairly small set of environmental variables to simulate spatial and temporal variation in rates of biogeochemical cycling. Simultaneously, techniques for inferring ecosystem behaviour from remotely measured canopy light interception are improving our ability to infer plant activity from satellite observations. Efforts have begun to couple models of transport in air and water to models of ecosystem function. Preliminary work indicates that coupling of transport and ecosystem processes alters the behaviour of earth system components (hydrology, terrestrial ecosystems, and the atmosphere) from that of an uncoupled mode.

Accounting for the biogeochemical cycle of nitrogen in input-output life cycle assessment.

PubMed

Singh, Shweta; Bakshi, Bhavik R

2013-08-20

Nitrogen is indispensable for sustaining human activities through its role in the production of food, animal feed, and synthetic chemicals. This has encouraged significant anthropogenic mobilization of reactive nitrogen and its emissions into the environment resulting in severe disruption of the nitrogen cycle. This paper incorporates the biogeochemical cycle of nitrogen into the 2002 input-output model of the U.S. economy. Due to the complexity of this cycle, this work proposes a unique classification of nitrogen flows to facilitate understanding of the interaction between economic activities and various flows in the nitrogen cycle. The classification scheme distinguishes between the mobilization of inert nitrogen into its reactive form, use of nitrogen in various products, and nitrogen losses to the environment. The resulting inventory and model of the US economy can help quantify the direct and indirect impacts or dependence of economic sectors on the nitrogen cycle. This paper emphasizes the need for methods to manage the N cycle that focus not just on N losses, which has been the norm until now, but also include other N flows for a more comprehensive view and balanced decisions. Insight into the N profile of various sectors of the 2002 U.S. economy is presented, and the inventory can also be used for LCA or Hybrid LCA of various products. The resulting model is incorporated in the approach of Ecologically-Based LCA and available online.

Assessing the impact of Narasin on biogeochemical N-cycling in unsaturated soil.

NASA Astrophysics Data System (ADS)

Devries, S. L.; Loving, M.; Logozzo, L. A.; Zhang, P.

2016-12-01

Agricultural soils are exposed to Narasin, an anti-coccidiodal drug, when poultry litter is applied as a nitrogen fertilizer. Though it has a relatively short half-life in soil, narasin may persist at concentrations ranging from pg·kg-1 to ng·kg-1. A recent study reported that that exposure in this range affect the composition of soil microbial communities, leading to delayed or modified rates of biogeochemical nitrogen redox reactions. The objective of this experiment was to conduct a comprehensive examination into the effects of 1-1000 ng kg-1 Narasin on the rates of nitrogen mineralization, nitrification, and denitrification as well as the associated impacts on soil N availability and N2O losses. Soils tested at 40%, 60%, and 80% WFPS showed that ultralow doses of narasin (1-1000 ng kg-1) can significantly alter one or more steps in the N cycle in ways that may impact N availability to crop plants and increase non-point source N pollution.

Quantifying the effects of mountain pine beetle infestation on water and biogeochemical cycles at multiple spatial and temporal scales

NASA Astrophysics Data System (ADS)

Brooks, P. D.; Harpold, A. A.; Somor, A. J.; Troch, P. A.; Gochis, D. J.; Ewers, B. E.; Pendall, E.; Biederman, J. A.; Reed, D.; Barnard, H. R.; Whitehouse, F.; Aston, T.; Borkhuu, B.

2010-12-01

Unprecedented levels of bark beetle infestation over the last decade have radically altered forest structure across millions of hectares of Western U.S. montane environments. The widespread extent of this disturbance presents a major challenge for governments and resource managers who lack a predictive understanding of how water and biogeochemical cycles will respond to this disturbance over various temporal and spatial scales. There is a widespread perception, largely based on hydrological responses to fire or logging, that a reduction in both transpiration and interception following tree death will increase soil water availability and catchment water yield. However, few studies have directly addressed the effects of insect-induced forest decline on water and biogeochemical cycling. We address this knowledge gap using observations and modeling at scales from 100 to 109 m2 across study sites in CO and WY that vary in the intensity and timing of beetle infestation and tree death. Our focus on multiple sites with different levels of impact allows us to address two broad, organizing questions: How do changes in vegetation structure associated with MPB alter the partitioning of energy and water? And How do these changes in energy and water availability affect local to regional scale water and biogeochemical cycles? This presentation will focus primarily on energy balance and water partitioning, providing context for ongoing biogeochemical work. During the growing season, stand-scale transpiration declines rapidly and soil moisture increases following infestation, consistent with streamflow data from regional catchments that shows an increase in baseflow following widespread attack. During the winter and spring, stand scale snow surveys and continuous snow depth sensors suggested that the variability in snow cover decreased as the severity of beetle impact increases, but there were no significant stand-scale differences in snow depth among levels of impact. This is due

Impact of sulfate pollution on anaerobic biogeochemical cycles in a wetland sediment.

PubMed

Baldwin, Darren S; Mitchell, Alison

2012-03-15

The impact of sulfate pollution is increasingly being seen as an issue in the management of inland aquatic ecosystems. In this study we use sediment slurry experiments to explore the addition of sulfate, with or without added carbon, on the anaerobic biogeochemical cycles in a wetland sediment that previously had not been exposed to high levels of sulfate. Specifically we looked at the cycling of S (sulfate, dissolved and particulate sulfide--the latter measured as acid volatile sulfide; AVS), C (carbon dioxide, bicarbonate, methane and the short chain volatile fatty acids formate, acetate, butyrate and propionate), N (dinitrogen, ammonium, nitrate and nitrite) and redox active metals (Fe(II) and Mn(II)). Sulfate had the largest effects on the cycling of S and C. All the added S at lower loadings were converted to AVS over the course of the experiment (30 days). At the highest loading (8 mmol) less than 50% of consumed S was converted to AVS, however this is believed to be a kinetic effect. Although sulfate reduction was occurring in sediments with added sulfate, dissolved sulfide concentrations remained low throughout the study. Sulfate addition affected methanogenesis. In the absence of added carbon, addition of sulfate, even at a loading of 1 mmol, resulted in a halving of methane formation. The initial rate of formation of methane was not affected by sulfate if additional carbon was added to the sediment. However, there was evidence for anaerobic methane oxidation in those sediments with added sulfate and carbon, but not in those sediments treated only with carbon. Surprisingly, sulfate addition had little apparent impact on N dynamics; previous studies have shown that sulfide can inhibit denitrification and stimulate dissimilatory nitrate reduction to ammonia. We propose that because most of the reduced sulfur was in particulate form, levels of dissolved sulfide were too low to interfere with the N cycle. Crown Copyright © 2011. Published by Elsevier Ltd. All

How life affects the geochemical cycle of carbon

NASA Technical Reports Server (NTRS)

Walker, James C. G.

1992-01-01

Developing a quantitative understanding of the biogeochemical cycles of carbon as they have worked throughout Earth history on various time scales, how they have been affected by biological evolution, and how changes in the carbon content of ocean and atmosphere may have affected climate and the evolution of life are the goals of the research. Theoretical simulations were developed that can be tuned to reproduce such data as exist and, once tuned, can be used to predict properties that have not yet been observed. This is an ongoing process, in which models and results are refined as new data and interpretations become available and as understanding of the global system improves. Results of the research are described in several papers which were published or submitted for publication. These papers are summarized. Future research plans are presented.

Biogeochemical cycling of permeable sediments in a shelf sea environment: Celtic Sea, a seasonal study.

NASA Astrophysics Data System (ADS)

Reynolds, S.; Klar, J. K.; Kitidis, V. A.; Chapman-Greig, L.; Panton, A.; Thompson, C.; Statham, P. J.; Fones, G. R.

2016-02-01

Shelf seas are globally important in contributing to the biogeochemical cycling of carbon and nutrients. Much of the benthic environment found in shelf seas comprise of relic permeable sands whereby advective pore-water flow processes govern the biogeochemical cycling within these sediments. To further elucidate our understanding of the biogeochemistry of these systems, flow-through reactors were employed during a field campaign as part of the UK led Shelf Sea Biogeochemistry Programme. Three cruises took place in the southern Celtic Sea in 2015 and were timed to sample pre-bloom, post-bloom and late summer conditions. Preliminary data show marked differences with the pre-bloom and late summer flow-through incubations when compared with the post-bloom. Pre-bloom and late summer oxygen consumption rates ranged between 0.18 mmol O2 m-3 d-1 and 0.15 mmol O2 m-3 d-1 respectively. However, post-bloom oxygen consumption rates were almost double at 0.29 mmol O2 m-3 d-1. Differences were also observed in the amount of iron (II) being released with no marked releases from the pre-bloom and late summer but with significant contributions of up to 140 nM during the post-bloom incubation. These initial findings demonstrate the seasonal variability and extent of the biogeochemical cycling of benthic permeable sediments. Additional measurements of inorganic nutrients, dissolved organic carbon and denitrification rates will contribute further to our understanding of sandy sediments in a shelf sea environment and their capacity to act as a carbon and nutrient source or sink.

SEASONAL VARIATION IN THE BIOGEOCHEMICAL CYCLING OF SESTON IN GRAND TRAVERSE BAY, LAKE MICHIGAN. (R825151)

EPA Science Inventory

This study describes the biogeochemical cycling of seston in Grand Traverse Bay, Lake Michigan. Seston was characterized by carbon and nitrogen elemental and isotopic abundances. Fluorescence, temperature, light transmittance, and concentrations of dissolved inorganic nitrogen we...

Influence of biological soil crusts at different successional stages in the implantation of biogeochemical cycles in arid and semiarid zones

NASA Astrophysics Data System (ADS)

Gil-Sotres, F.; Miralles, I.; Canton-Castilla, Y.; Domingo, F.; Leiros, M. C.; Trasar-Cepeda, C.

2012-04-01

Influence of biological soil crusts at different successional stages in the implantation of biogeochemical cycles in arid and semiarid zones I. Miralles1, F. Gil-Sotres2, Y. Cantón-Castilla3, F. Domingo1, M.C. Leirós2, C. Trasar-Cepeda4 1 Experimental Estation of Arid Zones (CSIC), E-04230 La Cañada de San Urbano, Almería, Spain. 2 Departamento Edafología y Química Agrícola, Grupo de Evaluación de la Calidad del Suelo, Unidad Asociada CSIC, Facultad de Farmacia, Universidad de Santiago de Compostela, E-15782 Santiago de Compostela, Spain. 3 University of Almería, Departamento de Edafología y Química Agrícola, E-04230-La Cañada de San Urbano, Almería, Spain. 4 Departamento Bioquímica del Suelo, IIAG-CSIC, Apartado 122, E-15708 Santiago de Compostela, Spain. Crusts (BSCs) are formed by a close association between soil particles and cyanobacteria, algae, lichens, bryophytes and microfungi in varying proportions. Their habitat is within or immediately on top of the uppermost millimetres of the soil and are the predominant surface cover in arid and semiarid zones. Among the diverse functions developed by BSCs in the ecosystem (hydrology, erosion, soil properties, etc.), one of the most important is its role in nutrient cycling. Within arid and semiarid environments, BSCs have been termed 'mantles of fertility' being considered hotspots of biogeochemical inputs, fixing C, N and P above- and below-ground. However, there are differences in N and C fixation rates between BSCs types. Early successional BSCs, dominated by cyanobacterial species, fix lower quantities of C and N than mature BSCs dominated by lichens. Although the positive effects of BSCs on biogeochemical soil cycles are widely accepted, no previous studies have evaluated the activities of the enzymes involved in C, N and P cycles of BSCs and how they are affected by the successional stage of the BSC. In this work, performed in the Tabernas desert (SE Spain), we studied the hydrolase enzymes

Biogeochemical Coupling between Ocean and Sea Ice

NASA Astrophysics Data System (ADS)

Wang, S.; Jeffery, N.; Maltrud, M. E.; Elliott, S.; Wolfe, J.

2016-12-01

Biogeochemical processes in ocean and sea ice are tightly coupled at high latitudes. Ongoing changes in Arctic and Antarctic sea ice domain likely influence the coupled system, not only through physical fields but also biogeochemical properties. Investigating the system and its changes requires representation of ocean and sea ice biogeochemical cycles, as well as their coupling in Earth System Models. Our work is based on ACME-HiLAT, a new offshoot of the Community Earth System Model (CESM), including a comprehensive representation of marine ecosystems in the form of the Biogeochemical Elemental Cycling Module (BEC). A full vertical column sea ice biogeochemical module has recently been incorporated into the sea ice component. We have further introduced code modifications to couple key growth-limiting nutrients (N, Si, Fe), dissolved and particulate organic matter, and phytoplankton classes that are important in polar regions between ocean and sea ice. The coupling of ocean and sea ice biology-chemistry will enable representation of key processes such as the release of important climate active constituents or seeding algae from melting sea ice into surface waters. Sensitivity tests suggest sea ice and ocean biogeochemical coupling influences phytoplankton competition, biological production, and the CO2 flux. Sea ice algal seeding plays an important role in determining phytoplankton composition of Arctic early spring blooms, since different groups show various responses to the seeding biomass. Iron coupling leads to increased phytoplankton biomass in the Southern Ocean, which also affects carbon uptake via the biological pump. The coupling of macronutrients and organic matter may have weaker influences on the marine ecosystem. Our developments will allow climate scientists to investigate the fully coupled responses of the sea ice-ocean BGC system to physical changes in polar climate.

Biogeochemical cycling at the aquatic-terrestrial interface is linked to parafluvial hyporheic zone inundation history

NASA Astrophysics Data System (ADS)

Goldman, Amy E.; Graham, Emily B.; Crump, Alex R.; Kennedy, David W.; Romero, Elvira B.; Anderson, Carolyn G.; Dana, Karl L.; Resch, Charles T.; Fredrickson, Jim K.; Stegen, James C.

2017-09-01

The parafluvial hyporheic zone combines the heightened biogeochemical and microbial interactions indicative of a hyporheic region with direct atmospheric/terrestrial inputs and the effects of wet-dry cycles. Therefore, understanding biogeochemical cycling and microbial interactions in this ecotone is fundamental to understanding biogeochemical cycling at the aquatic-terrestrial interface and to creating robust hydrobiogeochemical models of dynamic river corridors. We aimed to (i) characterize biogeochemical and microbial differences in the parafluvial hyporheic zone across a small spatial domain (6 lateral meters) that spans a breadth of inundation histories and (ii) examine how parafluvial hyporheic sediments respond to laboratory-simulated re-inundation. Surface sediment was collected at four elevations along transects perpendicular to flow of the Columbia River, eastern WA, USA. The sediments were inundated by the river 0, 13, 127, and 398 days prior to sampling. Spatial variation in environmental variables (organic matter, moisture, nitrate, glucose, % C, % N) and microbial communities (16S and internal transcribed spacer (ITS) rRNA gene sequencing, qPCR) were driven by differences in inundation history. Microbial respiration did not differ significantly across inundation histories prior to forced inundation in laboratory incubations. Forced inundation suppressed microbial respiration across all histories, but the degree of suppression was dramatically different between the sediments saturated and unsaturated at the time of sample collection, indicating a binary threshold response to re-inundation. We present a conceptual model in which irregular hydrologic fluctuations facilitate microbial communities adapted to local conditions and a relatively high flux of CO2. Upon rewetting, microbial communities are initially suppressed metabolically, which results in lower CO2 flux rates primarily due to suppression of fungal respiration. Following prolonged inundation

Biogeochemical cycling at the aquatic–terrestrial interface is linked to parafluvial hyporheic zone inundation history

DOE Office of Scientific and Technical Information (OSTI.GOV)

Goldman, Amy E.; Graham, Emily B.; Crump, Alex R.

The parafluvial hyporheic zone combines the heightened biogeochemical and microbial interactions indicative of a hyporheic region with direct atmospheric/terrestrial inputs and the effects of wet–dry cycles. Therefore, understanding biogeochemical cycling and microbial interactions in this ecotone is fundamental to understanding biogeochemical cycling at the aquatic–terrestrial interface and to creating robust hydrobiogeochemical models of dynamic river corridors. We aimed to (i) characterize biogeochemical and microbial differences in the parafluvial hyporheic zone across a small spatial domain (6 lateral meters) that spans a breadth of inundation histories and (ii) examine how parafluvial hyporheic sediments respond to laboratory-simulated re-inundation. Surface sediment was collected at fourmore » elevations along transects perpendicular to flow of the Columbia River, eastern WA, USA. The sediments were inundated by the river 0, 13, 127, and 398 days prior to sampling. Spatial variation in environmental variables (organic matter, moisture, nitrate, glucose, %C, %N) and microbial communities (16S and internal transcribed spacer (ITS) rRNA gene sequencing, qPCR) were driven by differences in inundation history. Microbial respiration did not differ significantly across inundation histories prior to forced inundation in laboratory incubations. Forced inundation suppressed microbial respiration across all histories, but the degree of suppression was dramatically different between the sediments saturated and unsaturated at the time of sample collection, indicating a binary threshold response to re-inundation. We present a conceptual model in which irregular hydrologic fluctuations facilitate microbial communities adapted to local conditions and a relatively high flux of CO 2. Upon rewetting, microbial communities are initially suppressed metabolically, which results in lower CO 2 flux rates primarily due to suppression of fungal respiration. Following

Biogeochemical cycling at the aquatic–terrestrial interface is linked to parafluvial hyporheic zone inundation history

DOE PAGES

Goldman, Amy E.; Graham, Emily B.; Crump, Alex R.; ...

2017-09-21

The parafluvial hyporheic zone combines the heightened biogeochemical and microbial interactions indicative of a hyporheic region with direct atmospheric/terrestrial inputs and the effects of wet–dry cycles. Therefore, understanding biogeochemical cycling and microbial interactions in this ecotone is fundamental to understanding biogeochemical cycling at the aquatic–terrestrial interface and to creating robust hydrobiogeochemical models of dynamic river corridors. We aimed to (i) characterize biogeochemical and microbial differences in the parafluvial hyporheic zone across a small spatial domain (6 lateral meters) that spans a breadth of inundation histories and (ii) examine how parafluvial hyporheic sediments respond to laboratory-simulated re-inundation. Surface sediment was collected at fourmore » elevations along transects perpendicular to flow of the Columbia River, eastern WA, USA. The sediments were inundated by the river 0, 13, 127, and 398 days prior to sampling. Spatial variation in environmental variables (organic matter, moisture, nitrate, glucose, %C, %N) and microbial communities (16S and internal transcribed spacer (ITS) rRNA gene sequencing, qPCR) were driven by differences in inundation history. Microbial respiration did not differ significantly across inundation histories prior to forced inundation in laboratory incubations. Forced inundation suppressed microbial respiration across all histories, but the degree of suppression was dramatically different between the sediments saturated and unsaturated at the time of sample collection, indicating a binary threshold response to re-inundation. We present a conceptual model in which irregular hydrologic fluctuations facilitate microbial communities adapted to local conditions and a relatively high flux of CO 2. Upon rewetting, microbial communities are initially suppressed metabolically, which results in lower CO 2 flux rates primarily due to suppression of fungal respiration. Following

Andreae is New Editor of Global Biogeochemical Cycles

NASA Astrophysics Data System (ADS)

Andreae, Meinrat O.

2004-10-01

As the incoming editor of Global Biogeochemical Cycles, I would like to introduce myself and my ideas for the journal to Eos readers and to current and potential GBC authors. I've had a somewhat ``roaming'' scientific evolution, coming from ``straight'' chemistry through hard-rock geochemistry to chemical oceanography, the field in which I did my Ph.D. I taught marine chemistry at Florida State University for a number of years, and developed an interest in ocean/atmosphere interactions and atmospheric chemistry. In 1987 I took on my present job at the Max Planck Institute for Chemistry, in Mainz, Germany, and, after leaving the seacoast, my interests shifted to interactions between the terrestrial biosphere and atmosphere, including the role of vegetation fires. My present focus is on the role of biogenic aerosols and biomass smoke in regulating cloud properties and influencing climate.

Numerical modeling of watershed-scale radiocesium transport coupled with biogeochemical cycling in forests

NASA Astrophysics Data System (ADS)

Mori, K.; Tada, K.; Tawara, Y.; Tosaka, H.; Ohno, K.; Asami, M.; Kosaka, K.

2015-12-01

Since the Fukushima Dai-ichi Nuclear Power Plant (FDNPP) accident, intensive monitoring and modeling works on radionuclide transfer in environment have been carried out. Although Cesium (Cs) concentration has been attenuating due to both physical and environmental half-life (i.e., wash-off by water and sediment), the attenuation rate depends clearly on the type of land use and land cover. In the Fukushima case, studying the migration in forest land use is important for predicting the long-term behavior of Cs because most of the contaminated region is covered by forests. Atmospheric fallout is characterized by complicated behavior in biogeochemical cycle in forests which can be described by biotic/abiotic interactions between many components. In developing conceptual and mathematical model on Cs transfer in forest ecosystem, defining the dominant components and their interactions are crucial issues (BIOMASS, 1997-2001). However, the modeling of fate and transport in geosphere after Cs exports from the forest ecosystem is often ignored. An integrated watershed modeling for simulating spatiotemporal redistribution of Cs that includes the entire region from source to mouth and surface to subsurface, has been recently developed. Since the deposited Cs can migrate due to water and sediment movement, the different species (i.e., dissolved and suspended) and their interactions are key issues in the modeling. However, the initial inventory as source-term was simplified to be homogeneous and time-independent, and biogeochemical cycle in forests was not explicitly considered. Consequently, it was difficult to evaluate the regionally-inherent characteristics which differ according to land uses, even if the model was well calibrated. In this study, we combine the different advantages in modeling of forest ecosystem and watershed. This enable to include more realistic Cs deposition and time series of inventory can be forced over the land surface. These processes are integrated

Abrupt shifts in ecosystem function and intensification of global biogeochemical cycle driven by hydroclimatic extremes

NASA Astrophysics Data System (ADS)

Ma, Xuanlong; Huete, Alfredo; Ponce-Campos, Guillermo; Zhang, Yongguang; Xie, Zunyi; Giovannini, Leandro; Cleverly, James; Eamus, Derek

2016-04-01

Amplification of the hydrologic cycle as a consequence of global warming is increasing the frequency, intensity, and spatial extent of extreme climate events globally. The potential influences resulting from amplification of the hydro-climatic cycle, coupled with an accelerating warming trend, pose great concerns on the sustainability of terrestrial ecosystems to sequester carbon, maintain biodiversity, provide ecosystem services, food security, and support human livelihood. Despite the great implications, the magnitude, direction, and carry-over effect of these extreme climate events on ecosystem function, remain largely uncertain. To address these pressing issues, we conducted an observational, interdisciplinary study using satellite retrievals of atmospheric CO2 and photosynthesis (chlorophyll fluorescence), and in-situ flux tower measures of ecosystem-atmosphere carbon exchange, to reveal the shifts in ecosystem function across extreme drought and wet periods. We further determine the factors that govern ecosystem sensitivity to hydroclimatic extremes. We focus on Australia but extended our analyses to other global dryland regions due to their significant role in global biogeochemical cycles. Our results revealed dramatic impacts of drought and wet hydroclimatic extremes on ecosystem function, with abrupt changes in vegetation productivity, carbon uptake, and water-use-efficiency between years. Drought resulted in widespread reductions or collapse in the normal patterns of vegetation growth seasonality such that in many cases there was no detectable phenological cycle during extreme drought years. We further identified a significant increasing trend (p < 0.001) in extreme wet year precipitation amounts over Australia and many other global regions, resulting in an increasing trend in magnitude of the episodic carbon sink pulses coupled to each La Niña-induced wet years. This finding is of global biogeochemical significance, with the consequence of amplifying

Drivers of Microbial Metabolic Activity, Biogeochemical Cycling and Associated Greenhouse Gas Production in Streambed Sediments

NASA Astrophysics Data System (ADS)

Comer-Warner, S.; Krause, S.; Gooddy, D.; Blaen, P.; Brekenfeld, N.; Wexler, S.; Kaiser, J.

2017-12-01

Hotspots of enhanced biogeochemical reactivity are produced where groundwater and surface water mixes in streambed sediments. This enhanced reactivity is due to elevated residence times and nutrient concentrations found in these areas, leading to increased rates of microbial metabolic activity. Streambed sediments, therefore, may be important in reducing catchment-wide nutrient concentrations through increased cycling. However, they also have the potential to produce high concentrations of greenhouse gases (CO2, CH4 and N2O), as end-products of respiration and intermediate products of denitrification. The hydrological and biogeochemical drivers of streambed C and N cycling, are still insufficiently understood. Here we present results from biogeochemical sampling and tracer experiments in an agricultural sandstone stream in the UK. Nutrient, DOC and greenhouse gas concentrations, as well as d13CCO2, were measured in the streambed sediment in multilevel piezometers, and nutrient concentrations, as well as d15NNO3 and d18ONO3, were measured in Diffusive Equilibrium in Thin-film Gels. Tracer experiments using both conservative (Fluorescein and NaCl) and smart (Resazurin-Resorufin) tracers were performed to determine in-stream metabolism, transient storage and solute transport times in sub-reaches of the stream. Our results show large differences in nutrient and greenhouse gas concentrations between sub-reaches dominated by gravel sediments and those dominated by sandy sediments, as well as seasonally. This suggests temperature, sediment type and residence time are key controls on streambed nutrient cycling and greenhouse gas production. The results of this study have important implications for future greenhouse gas estimates from streams and rivers, particularly as the contribution of sediment greenhouse gas production is recognised as increasingly significant.

Water table dynamics and biogeochemical cycling in a shallow, variably-saturated floodplain

DOE PAGES

Yabusaki, Steven B.; Wilkins, Michael J.; Fang, Yilin; ...

2017-02-20

Three-dimensional variably saturated flow and multicomponent biogeochemical reactive transport modeling, based on published and newly generated data, is used to better understand the interplay of hydrology, geochemistry, and biology controlling the cycling of carbon, nitrogen, oxygen, iron, sulfur, and uranium in a shallow floodplain. In this system, aerobic respiration generally maintains anoxic groundwater below an oxic vadose zone until seasonal snowmelt-driven water table peaking transports dissolved oxygen (DO) and nitrate from the vadose zone into the alluvial aquifer. The response to this perturbation is localized due to distinct physico-biogeochemical environments and relatively long time scales for transport through the floodplainmore » aquifer and vadose zone. Naturally reduced zones (NRZs) containing sediments higher in organic matter, iron sulfides, and non-crystalline U(IV) rapidly consume DO and nitrate to maintain anoxic conditions, yielding Fe(II) from FeS oxidative dissolution, nitrite from denitrification, and U(VI) from nitrite-promoted U(IV) oxidation. Redox cycling is a key factor for sustaining the observed aquifer behaviors despite continuous oxygen influx and the annual hydrologically induced oxidation event. Furthermore, depth-dependent activity of fermenters, aerobes, nitrate reducers, sulfate reducers, and chemolithoautotrophs (e.g., oxidizing Fe(II), S compounds, and ammonium) is linked to the presence of DO, which has higher concentrations near the water table.« less

Biogeochemical responses of the carbon cycle to natural and human perturbations: Past, present, and future

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ver, L.M.B.; Mackenzie, F.T.; Lerman, A.

In the past three centuries, human perturbations of the environment have affected the biogeochemical behavior of the global carbon cycle and that of the other three nutrient elements closely coupled to carbon: nitrogen, phosphorus, and sulfur. The partitioning of anthropogenic CO{sub 2} among its various sinks in the past, for the present, and for projections into the near future is controlled by the interactions of these four elemental cycles within the major environmental domains of the land, atmosphere, coastal oceanic zone, and open ocean. The authors analyze the past, present, and future behavior of the global carbon cycle using themore » Terrestrial-Ocean-aTmosphere Ecosystem Model (TOTEM), a unique process-based model of the four global coupled biogeochemical cycles of carbon, nitrogen, phosphorus, and sulfur. They find that during the past 300 yrs, anthropogenic CO{sub 2} was mainly stored in the atmosphere and in the open ocean. Human activities on land caused an enhanced loss of mass from the terrestrial organic matter reservoirs (phytomass and humus) mainly through deforestation and consequently increased humus remineralization, erosion, and transport to the coastal margins by rivers and runoff. Photosynthetic uptake by the terrestrial phytomass was enhanced owing to fertilization by increasing atmospheric CO{sub 2} concentrations and supported by nutrients remineralized from organic matter. TOTEM results indicate that through most of the past 300 yrs, the loss of C from deforestation and other land-use activities was greater than the gain from the enhanced photosynthetic uptake. Since pre-industrial time (since 1700), the net flux of CO{sub 2} from the coastal waters has decreased by 40%, from 0.20 Gt C/yr to 0.12 Gt C/yr. TOTEM analyses of atmospheric CO{sub 2} concentrations for the 21st century were based on the fossil-fuel emission projections of IPCC (business as usual scenario) and of the more restrictive UN 1997 Kyoto Protocol. By the mid-21st

Searching for biogeochemical hot spots in three dimensions: soil C and N cycling in hydropedologic settings in a northern hardwood forest

Treesearch

J.L. Morse; S.F. Werner; C.P. Gillin; C.L. Goodale; S.W. Bailey; K.J. McGuire; P.M. Groffman

2014-01-01

Understanding and predicting the extent, location, and function of biogeochemical hot spots at the watershed scale is a frontier in environmental science. We applied a hydropedologic approach to identify (1) biogeochemical differences among morphologically distinct hydropedologic settings and (2) hot spots of microbial carbon (C) and nitrogen (N) cycling activity in a...

The Seasonal Cycle of Carbon in the Southern Pacific Ocean Observed from Biogeochemical Profiling Floats

NASA Astrophysics Data System (ADS)

Sarmiento, J. L.; Gray, A. R.; Johnson, K. S.; Carter, B.; Riser, S.; Talley, L. D.; Williams, N. L.

2016-02-01

The Southern Ocean is thought to play an important role in the ocean-atmosphere exchange of carbon dioxide and the uptake of anthropogenic carbon dioxide. However, the total number of observations of the carbonate system in this region is small and heavily biased towards the summer. Here we present 1.5 years of biogeochemical measurements, including pH, oxygen, and nitrate, collected by 11 autonomous profiling floats deployed in the Pacific sector of the Southern Ocean in April 2014. These floats sampled a variety of oceanographic regimes ranging from the seasonally ice-covered zone to the subtropical gyre. Using an algorithm trained with bottle measurements, alkalinity is estimated from salinity, temperature, and oxygen and then used together with the measured pH to calculate total carbon dioxide and pCO2 in the upper 1500 dbar. The seasonal cycle in the biogeochemical quantities is examined, and the factors governing pCO2 in the surface waters are analyzed. The mechanisms driving the seasonal cycle of carbon are further investigated by computing budgets of heat, carbon, and nitrogen in the mixed layer. Comparing the different regimes sampled by the floats demonstrates the complex and variable nature of the carbon cycle in the Southern Ocean.

Biomass burning in the tropics: Impact on atmospheric chemistry and biogeochemical cycles

DOE Office of Scientific and Technical Information (OSTI.GOV)

Crutzen, P.J.; Andreae, M.O.

1990-12-21

Biomass burning is widespread, especially in the tropics. It serves to clear land for shifting cultivation, to convert forests to agricultural and pastoral lands, and to remove dry vegetation in order to promote agricultural productivity and the growth of higher yield grasses. Furthermore, much agricultural waste and fuel wood is being combusted, particularly in developing countries. Biomass containing 2 to 5 petagrams of carbon is burned annually (1 petagram = 10{sup 15} grams), producing large amounts of trace gases and aerosol particles that play important roles in atmospheric chemistry and climate. Emissions of carbon monoxide and methane by biomass burningmore » affect the oxidation efficiency of the atmosphere by reacting with hydroxyl radicals, and emissions of nitric oxide and hydrocarbons lead to high ozone concentrations in the tropics during the dry season. Large quantities of smoke particles are produced as well, and these can serve as cloud condensation nuclei. These particles may thus substantially influence cloud microphysical and optical properties, an effect that could have repercussions for the radiation budget and the hydrological cycle in the tropics. Widespread burning may also disturb biogeochemical cycles, especially that of nitrogen. About 50% of the nitrogen in the biomass fuel can be released as molecular nitrogen. This pyrodenitrification process causes a sizable loss of fixed nitrogen in tropical ecosystems, in the range of 10 to 20 teragrams per year (1 teragram = 10{sup 12} grams).« less

Redox chemistry in the phosphorus biogeochemical cycle

NASA Astrophysics Data System (ADS)

Pasek, Matthew A.; Sampson, Jacqueline M.; Atlas, Zachary

2014-10-01

The element phosphorus (P) controls growth in many ecosystems as the limiting nutrient, where it is broadly considered to reside as pentavalent P in phosphate minerals and organic esters. Exceptions to pentavalent P include phosphine-PH3-a trace atmospheric gas, and phosphite and hypophosphite, P anions that have been detected recently in lightning strikes, eutrophic lakes, geothermal springs, and termite hindguts. Reduced oxidation state P compounds include the phosphonates, characterized by C-P bonds, which bear up to 25% of total organic dissolved phosphorus. Reduced P compounds have been considered to be rare; however, the microbial ability to use reduced P compounds as sole P sources is ubiquitous. Here we show that between 10% and 20% of dissolved P bears a redox state of less than +5 in water samples from central Florida, on average, with some samples bearing almost as much reduced P as phosphate. If the quantity of reduced P observed in the water samples from Florida studied here is broadly characteristic of similar environments on the global scale, it accounts well for the concentration of atmospheric phosphine and provides a rationale for the ubiquity of phosphite utilization genes in nature. Phosphine is generated at a quantity consistent with thermodynamic equilibrium established by the disproportionation reaction of reduced P species. Comprising 10-20% of the total dissolved P inventory in Florida environments, reduced P compounds could hence be a critical part of the phosphorus biogeochemical cycle, and in turn may impact global carbon cycling and methanogenesis.

Light-Dependent Transcriptional Regulation of Genes of Biogeochemical Interest in the Diploid and Haploid Life Cycle Stages of Emiliania huxleyi▿ †

PubMed Central

Richier, Sophie; Kerros, Marie-Emmanuelle; de Vargas, Colomban; Haramaty, Liti; Falkowski, Paul G.; Gattuso, Jean-Pierre

2009-01-01

The expression of genes of biogeochemical interest in calcifying and noncalcifying life stages of the coccolithophore Emiliania huxleyi was investigated. Transcripts potentially involved in calcification were tested through a light-dark cycle. These transcripts were more abundant in calcifying cells and were upregulated in the light. Their application as potential candidates for in situ biogeochemical proxies is also suggested. PMID:19304825

Searching for biogeochemical hot spots in three dimensions: Soil C and N cycling in hydropedologic settings in a northern hardwood forest

NASA Astrophysics Data System (ADS)

Morse, J. L.; Werner, S. F.; Gillin, C. P.; Goodale, C. L.; Bailey, S. W.; McGuire, K. J.; Groffman, P. M.

2014-08-01

Understanding and predicting the extent, location, and function of biogeochemical hot spots at the watershed scale is a frontier in environmental science. We applied a hydropedologic approach to identify (1) biogeochemical differences among morphologically distinct hydropedologic settings and (2) hot spots of microbial carbon (C) and nitrogen (N) cycling activity in a northern hardwood forest in Hubbard Brook Experimental Forest, New Hampshire, USA. We assessed variables related to C and N cycling in spodic hydropedologic settings (typical podzols, bimodal podzols, and Bh podzols) and groundwater seeps during August 2010. We found that soil horizons (Oi/Oe, Oa/A, and B) differed significantly for most variables. B horizons (>10 cm) accounted for 71% (±11%) of C pools and 62% (±10%) of microbial biomass C in the sampled soil profile, whereas the surface horizons (Oi/Oe and Oa/A; 0-10 cm) were dominant zones for N-cycle-related variables. Watershed-wide estimates of C and N cycling were higher by 34 to 43% (±17-19%) when rates, horizon thickness, and areal extent of each hydropedologic setting were incorporated, versus conventionally calculated estimates for typical podzols that included only the top 10 cm of mineral soil. Despite the variation in profile development in typical, bimodal, and Bh podzols, we did not detect significant differences in C and N cycling among them. Across all soil horizons and hydropedologic settings, we found strong links between biogeochemical cycling and soil C, suggesting that the accumulation of C in soils may be a robust indicator of microbial C and N cycling capacity in the landscape.

Biogeochemical cycles and biodiversity as key drivers of ecosystem services provided by soils

NASA Astrophysics Data System (ADS)

Smith, P.; Cotrufo, M. F.; Rumpel, C.; Paustian, K.; Kuikman, P. J.; Elliott, J. A.; McDowell, R.; Griffiths, R. I.; Asakawa, S.; Bustamante, M.; House, J. I.; Sobocká, J.; Harper, R.; Pan, G.; West, P. C.; Gerber, J. S.; Clark, J. M.; Adhya, T.; Scholes, R. J.; Scholes, M. C.

2015-06-01

Soils play a pivotal role in major global biogeochemical cycles (carbon, nutrient and water), while hosting the largest diversity of organisms on land. Because of this, soils deliver fundamental ecosystem services, and management to change a soil process in support of one ecosystem service can either provide co-benefits to other services or can result in trade-offs. In this critical review, we report the state-of-the-art understanding concerning the biogeochemical cycles and biodiversity in soil, and relate these to the provisioning, regulating, supporting and cultural ecosystem services which they underpin. We then outline key knowledge gaps and research challenges, before providing recommendations for management activities to support the continued delivery of ecosystem services from soils. We conclude that although there are knowledge gaps that require further research, enough is known to start improving soils globally. The main challenge is in finding ways to share knowledge with soil managers and policy-makers, so that best-practice management can be implemented. A key element of this knowledge sharing must be in raising awareness of the multiple ecosystem services underpinned by soils, and the natural capital they provide. The International Year of Soils in 2015 presents the perfect opportunity to begin a step-change in how we harness scientific knowledge to bring about more sustainable use of soils for a secure global society.

The biogeochemical iron cycle and astrobiology

NASA Astrophysics Data System (ADS)

Schröder, Christian; Köhler, Inga; Muller, Francois L. L.; Chumakov, Aleksandr I.; Kupenko, Ilya; Rüffer, Rudolf; Kappler, Andreas

2016-12-01

Biogeochemistry investigates chemical cycles which influence or are influenced by biological activity. Astrobiology studies the origin, evolution and distribution of life in the universe. The biogeochemical Fe cycle has controlled major nutrient cycles such as the C cycle throughout geological time. Iron sulfide minerals may have provided energy and surfaces for the first pioneer organisms on Earth. Banded iron formations document the evolution of oxygenic photosynthesis. To assess the potential habitability of planets other than Earth one looks for water, an energy source and a C source. On Mars, for example, Fe minerals have provided evidence for the past presence of liquid water on its surface and would provide a viable energy source. Here we present Mössbauer spectroscopy investigations of Fe and C cycle interactions in both ancient and modern environments. Experiments to simulate the diagenesis of banded iron formations indicate that the formation of ferrous minerals depends on the amount of biomass buried with ferric precursors rather than on the atmospheric composition at the time of deposition. Mössbauer spectra further reveal the mutual stabilisation of Fe-organic matter complexes against mineral transformation and decay of organic matter into CO2. This corresponds to observations of a `rusty carbon sink' in modern sediments. The stabilisation of Fe-organic matter complexes may also aid transport of particulate Fe in the water column while having an adverse effect on the bioavailability of Fe. In the modern oxic ocean, Fe is insoluble and particulate Fe represents an important source. Collecting that particulate Fe yields small sample sizes that would pose a challenge for conventional Mössbauer experiments. We demonstrate that the unique properties of the beam used in synchrotron-based Mössbauer applications can be utilized for studying such samples effectively. Reactive Fe species often occur in amorphous or nanoparticulate form in the environment and

A generic biogeochemical module for Earth system models: Next Generation BioGeoChemical Module (NGBGC), version 1.0

NASA Astrophysics Data System (ADS)

Fang, Y.; Huang, M.; Liu, C.; Li, H.; Leung, L. R.

2013-11-01

Physical and biogeochemical processes regulate soil carbon dynamics and CO2 flux to and from the atmosphere, influencing global climate changes. Integration of these processes into Earth system models (e.g., community land models (CLMs)), however, currently faces three major challenges: (1) extensive efforts are required to modify modeling structures and to rewrite computer programs to incorporate new or updated processes as new knowledge is being generated, (2) computational cost is prohibitively expensive to simulate biogeochemical processes in land models due to large variations in the rates of biogeochemical processes, and (3) various mathematical representations of biogeochemical processes exist to incorporate different aspects of fundamental mechanisms, but systematic evaluation of the different mathematical representations is difficult, if not impossible. To address these challenges, we propose a new computational framework to easily incorporate physical and biogeochemical processes into land models. The new framework consists of a new biogeochemical module, Next Generation BioGeoChemical Module (NGBGC), version 1.0, with a generic algorithm and reaction database so that new and updated processes can be incorporated into land models without the need to manually set up the ordinary differential equations to be solved numerically. The reaction database consists of processes of nutrient flow through the terrestrial ecosystems in plants, litter, and soil. This framework facilitates effective comparison studies of biogeochemical cycles in an ecosystem using different conceptual models under the same land modeling framework. The approach was first implemented in CLM and benchmarked against simulations from the original CLM-CN code. A case study was then provided to demonstrate the advantages of using the new approach to incorporate a phosphorus cycle into CLM. To our knowledge, the phosphorus-incorporated CLM is a new model that can be used to simulate phosphorus

Global Biology Research Program: Biogeochemical Processes in Wetlands

NASA Technical Reports Server (NTRS)

Bartlett, D. S. (Editor)

1984-01-01

The results of a workshop examining potential NASA contributions to research on wetland processes as they relate to global biogeochemical cycles are summarized. A wetlands data base utilizing remotely sensed inventories, studies of wetland/atmosphere exchange processes, and the extrapolation of local measurements to global biogeochemical cycling processes were identified as possible areas for NASA support.

Implications of a More Comprehensive Nitrogen Cycle in a Global Biogeochemical Ocean Model

NASA Astrophysics Data System (ADS)

Six, K. D.; Ilyina, T.

2016-02-01

Nitrogen plays a crucial role for nearly all living organisms in the Earth system. Changes in the marine nitrogen cycle not only alter the marine biota, but will also have an impact on the marine carbon cycle and, in turn, on climate due to the close coupling of the carbon-nitrogen cycle. The understanding of processes and controls of the marine nitrogen cycle is therefore a prerequisite to reduce uncertainties in the prediction of future climate. Nevertheless, most ocean biogeochemical components of modern Earth system models have a rather simplistic representation of marine N-cycle mainly focusing on nitrate. Here we present results of the HAMburg Ocean Carbon Cycle model (HAMOCC) as part of the MPI-ESM which was extended by a prognostic representation of ammonium and nitrite to resolve important processes of the marine N-cycle such as nitrification and anaerobic ammonium oxidation (anammox). Additionally, we updated the production of nitrous oxide, an important greenhouse gas, allowing for two sources from oxidation of ammonium (nitrification) and from reduction of nitrite (nitrifier-denitrification) at low oxygen concentrations. Besides an extended model data comparison we discuss the following aspects of the N-cycle by model means: (1) contribution of anammox to the loss of fixed nitrogen, and (2) production and emission of marine nitrous oxide.

Iron chemistry of Hawaiian rainforest soil solution: Biogeochemical implications of multiple Fe redox cycles

NASA Astrophysics Data System (ADS)

Thompson, A.; Chorover, J.; Chadwick, O.

2003-12-01

Iron (Fe)-oxides are important sorbents for nutrients, pollutants and natural organic matter (NOM). When flucutations in soil oxygen status exist, Fe can cycle through reduced and oxidized forms and thus greatly affect the aqueous conc. of nutrients and metals. We are examining the influence of oscillating oxic/anoxic conditions on Fe-oxide formation and biogeochemical processes (microbial community composition, and carbon, nutrient and trace metal availability). Our work makes use of a natural rainfall gradient ranging from 2.2 to 4.2 m mean annual precipitation (MAP) on the island of Maui, Hawaii, USA. All sites developed on a 400ky basaltic lava flow and comprise soils under similar vegetation. Solid phase Fe concentration and oxidation state vary systematically across this rainfall gradient with a sharp decrease in pedogenic Fe between 2.8 m and 3.5 m MAP that corresponds with an Eh of 330 mV (1-yr ave.). Fe isotopic composition and Fe-oxide associated rare earth elements (REE) also suggest a shift from ligand-promoted to redutive Fe dissolution with increasing rainfall. To examine the effects of multiple Fe oxidation/reduction cycles, we constructed a set of redox-stat reactors that maintain Eh values within a set range by small Eh-triggered additions of oxygen. Triplicate soil slurry reactors are subjected to redox (Eh) oscillations such that Fe is repeatedly cycled from oxidized to reduced forms. During our current experiment, we measure pH and Eh dynamics and monitor the distribution of Fe(II) and Fe(III), major ion and anion concentrations, a range of trace metals including the REE, and total organic carbon (TOC) in three Stokes-effective particle size fractions (<0.45 mm, <0.1 mm, and <0.02 mm) by cascade centrifugation and a <3000 MW fraction isolated via ultra-filtration. Each sample is then sequentially extracted in dilute (0.5 M) HCl and acid-ammonium oxalate. Concurrently, CO2 release is measured and DNA fingerprinting is used to track changes in the

Phototrophic bacteria and their role in the biogeochemical sulfur cycle

NASA Technical Reports Server (NTRS)

Trueper, H. G.

1985-01-01

An essential step that cannot be bypassed in the biogeochemical cycle of sulfur today is dissimilatory sulfate reduction by anaerobic bacteria. The enormous amounts of sulfides produced by these are oxidized again either anaerobically by phototrophic bacteria or aerobically by thiobacilli and large chemotrophic bacteria (Beggiatoa, Thiovulum, etc.). Phototrophic bacteria use sulfide, sulfur, thiosulfate, and sulfite as electron donors for photosynthesis. The most obvious intermediate in their oxidative sulfur metabolism is a long chain polysulfide that appears as so called sulfur globules either inside (Chromatiaceae) or outside (Ectothiorhodospiraceae, Chlorobiaceae, and some of the Rhodospirillaceae) the cells. The assimilation of sulfur compounds in phototrophic bacteria is in principle identical with that of nonphototrophic bacteria. However, the Chlorobiaceae and some of the Chromatiaceae and Rhodospirillaceae, unable to reduce sulfate, rely upon reduced sulfur for biosynthetic purposes.

Using coral Ba/Ca records to investigate seasonal to decadal scale biogeochemical cycling in the surface and intermediate ocean.

NASA Astrophysics Data System (ADS)

LaVigne, M.; Cobb, K. M.; DeLong, K. L.; Freiberger, M. M.; Grottoli, A. G.; Hill, T. M.; Miller, H. R.; Nurhati, I. S.; Richey, J. N.; Serrato Marks, G.; Sherrell, R. M.

2016-12-01

Dissolved barium (BaSW), a bio-intermediate element, is linked to several biogeochemical processes such as the cycling and export of nutrients, organic carbon (Corg), and barite in surface and intermediate oceans. Dynamic BaSW cycling has been demonstrated in the water column on short timescales (days-weeks) while sedimentary records have documented geologic-scale changes in barite preservation driven by export production. Our understanding of how seasonal-decadal scale climate variability impacts these biogeochemical processes currently lacks robust records. Ba/Ca calibrations in surface and deep sea corals suggest barium is incorporated via cationic substitution in both aragonite and calcite. Here we demonstrate the utility of Ba/Ca for reconstructing biogeochemical variability using examples of surface and deep sea coral records. Century-long deep sea coral records from the California Current System (bamboo corals: 900-1500m) record interannual variations in Ba/Ca, likely reflecting changes in barite formation via bacterial Corg respiration or barite saturation state. A surface Porites coral Ba/Ca record from Christmas Island (central equatorial Pacific: 1978-1995) shows maxima during low productivity El Niño warm periods, suggesting that variations in BaSW are driven by biological removal via direct cellular uptake or indirectly via barite precipitation with the decomposition of large phytoplankton blooms at this location. Similarly, a sixteen-year long Siderastera siderea surface coral record from Dry Tortugas, FL (Gulf of Mexico: 1991-2007) shows seasonal Ba/Ca cycles that align with annual chlorophyll and δ13C. Taken together, these records demonstrate the linkages among Corg, nutrient cycling and BaSW in the surface and intermediate ocean on seasonal to decadal timescales. Multi-proxy paleoceanographic reconstructions including Ba/Ca have the potential to elucidate the mechanisms linking past climate, productivity, nutrients, and BaSW cycling in the past.

The Biogeochemical Role of Baleen Whales and Krill in Southern Ocean Nutrient Cycling

PubMed Central

Ratnarajah, Lavenia; Bowie, Andrew R.; Lannuzel, Delphine; Meiners, Klaus M.; Nicol, Stephen

2014-01-01

The availability of micronutrients is a key factor that affects primary productivity in High Nutrient Low Chlorophyll (HNLC) regions of the Southern Ocean. Nutrient supply is governed by a range of physical, chemical and biological processes, and there are significant feedbacks within the ecosystem. It has been suggested that baleen whales form a crucial part of biogeochemical cycling processes through the consumption of nutrient-rich krill and subsequent defecation, but data on their contribution are scarce. We analysed the concentration of iron, cadmium, manganese, cobalt, copper, zinc, phosphorus and carbon in baleen whale faeces and muscle, and krill tissue using inductively coupled plasma mass spectrometry. Metal concentrations in krill tissue were between 20 thousand and 4.8 million times higher than typical Southern Ocean HNLC seawater concentrations, while whale faecal matter was between 276 thousand and 10 million times higher. These findings suggest that krill act as a mechanism for concentrating and retaining elements in the surface layer, which are subsequently released back into the ocean, once eaten by whales, through defecation. Trace metal to carbon ratios were also higher in whale faeces compared to whale muscle indicating that whales are concentrating carbon and actively defecating trace elements. Consequently, recovery of the great whales may facilitate the recycling of nutrients via defecation, which may affect productivity in HNLC areas. PMID:25469984

The biogeochemical role of baleen whales and krill in Southern Ocean nutrient cycling.

PubMed

Ratnarajah, Lavenia; Bowie, Andrew R; Lannuzel, Delphine; Meiners, Klaus M; Nicol, Stephen

2014-01-01

The availability of micronutrients is a key factor that affects primary productivity in High Nutrient Low Chlorophyll (HNLC) regions of the Southern Ocean. Nutrient supply is governed by a range of physical, chemical and biological processes, and there are significant feedbacks within the ecosystem. It has been suggested that baleen whales form a crucial part of biogeochemical cycling processes through the consumption of nutrient-rich krill and subsequent defecation, but data on their contribution are scarce. We analysed the concentration of iron, cadmium, manganese, cobalt, copper, zinc, phosphorus and carbon in baleen whale faeces and muscle, and krill tissue using inductively coupled plasma mass spectrometry. Metal concentrations in krill tissue were between 20 thousand and 4.8 million times higher than typical Southern Ocean HNLC seawater concentrations, while whale faecal matter was between 276 thousand and 10 million times higher. These findings suggest that krill act as a mechanism for concentrating and retaining elements in the surface layer, which are subsequently released back into the ocean, once eaten by whales, through defecation. Trace metal to carbon ratios were also higher in whale faeces compared to whale muscle indicating that whales are concentrating carbon and actively defecating trace elements. Consequently, recovery of the great whales may facilitate the recycling of nutrients via defecation, which may affect productivity in HNLC areas.

Linking Nitrogen-Cycling Microbial Communities to Environmental Fluctuations and Biogeochemical Activity in a Large, Urban Estuary: the San Francisco Bay-Delta

NASA Astrophysics Data System (ADS)

Francis, C.

2015-12-01

Nitrogen (N) availability is an important factor controlling productivity and thus carbon cycling in estuaries. The fate of N in estuaries depends on the activities of the microbes that carry out the N-cycle, which in turn depend on factors such as organic matter availability, dissolved inorganic N, salinity, oxygen, and temperature. Key microbial N transformations include nitrification (the aerobic oxidation of ammonia to nitrite and nitrate) and denitrification (the anaerobic reduction of nitrate to dinitrogen gas). While denitrification leads to N loss, nitrification is the only link between reduced N (produced by decomposition) and oxidized N (substrates for N loss processes), and both processes are known to produce nitrous oxide (N2O), a potent greenhouse gas. Understanding controls of N-cycling in the San Francisco Bay-Delta (SFBD)—the largest estuary on the west coast of North America—is particularly important, as this urban estuary is massively polluted with N, even compared to classic "eutrophic" systems. Interestingly, the SFBD has been spared the detrimental consequences of nutrient enrichment, largely due to high suspended sediment concentrations (and thus low light penetration) throughout the water column, combined with high grazing pressure. However, the recent "clearing" of SFBD waters due to a sharp decrease in suspended sediments may significantly alter the ecology of the estuary, by increasing phytoplankton growth. Thus, the SFBD may be losing its historical resilience to eutrophication, and may soon be "high-nutrient, low-chlorophyll" no more. Elucidating the environmental factors affecting the community structure, activity, and functioning of N-cycling microbes in SFBD is crucial for determining how changes in turbidity and productivity will be propagated throughout the ecosystem. While substantial ecological research in the SFBD has focused on phytoplankton and food webs, bacterial and archaeal communities have received far less attention

Environmental Assessment for Potential Impacts of Ocean CO2 Storage on Marine Biogeochemical Cycles

NASA Astrophysics Data System (ADS)

Yamada, N.; Tsurushima, N.; Suzumura, M.; Shibamoto, Y.; Harada, K.

2008-12-01

Ocean CO2 storage that actively utilizes the ocean potential to dissolve extremely large amounts of CO2 is a useful option with the intent of diminishing atmospheric CO2 concentration. CO2 storage into sub-seabed geological formations is also considered as the option which has been already put to practical reconnaissance in some projects. Direct release of CO2 in the ocean storage and potential CO2 leakage from geological formations into the bottom water can alter carbonate system as well as pH of seawater. It is essential to examine to what direction and extent chemistry change of seawater induced by CO2 can affect the marine environments. Previous studies have shown direct and acute effects by increasing CO2 concentrations on physiology of marine organisms. It is also a serious concern that chemistry change can affect the rates of chemical, biochemical and microbial processes in seawater resulting in significant influences on marine biogeochemical cycles of the bioelements including carbon, nutrients and trace metals. We, AIST, have conducted a series of basic researches to assess the potential impacts of ocean CO2 storage on marine biogeochemical processes including CaCO3 dissolution, and bacterial and enzymatic decomposition of organic matter. By laboratory experiments using a special high pressure apparatus, the improved empirical equation was obtained for CaCO3 dissolution rate in the high CO2 concentrations. Based on the experimentally obtained kinetics with a numerical simulation for a practical scenario of oceanic CO2 sequestration where 50 Mton CO2 per year is continuously injected to 1,000-2,500 m depth within 100 x 333 km area for 30 years, we could illustrate precise 3-D maps for the predicted distributions of the saturation depth of CaCO3, in situ Ω value and CaCO3 dissolution rate in the western North Pacific. The result showed no significant change in the bathypelagic CaCO3 flux due to chemistry change induced by ocean CO2 sequestration. Both

Biogeochemical cycling in terrestrial ecosystems of the Caatinga Biome.

PubMed

Menezes, R S C; Sampaio, E V S B; Giongo, V; Pérez-Marin, A M

2012-08-01

The biogeochemical cycles of C, N, P and water, the impacts of land use in the stocks and flows of these elements and how they can affect the structure and functioning of Caatinga were reviewed. About half of this biome is still covered by native secondary vegetation. Soils are deficient in nutrients, especially N and P. Average concentrations of total soil P and C in the top layer (0-20 cm) are 196 mg kg(-1) and 9.3 g kg(-1), corresponding to C stocks around 23 Mg ha(-1). Aboveground biomass of native vegetation varies from 30 to 50 Mg ha(-1), and average root biomass from 3 to 12 Mg ha(-1). Average annual productivities and biomass accumulation in different land use systems vary from 1 to 7 Mg ha(-1) year(-1). Biological atmospheric N2 fixation is estimated to vary from 3 to 11 kg N ha(-1) year-1 and 21 to 26 kg N ha(-1) year(-1) in mature and secondary Caatinga, respectively. The main processes responsible for nutrient and water losses are fire, soil erosion, runoff and harvest of crops and animal products. Projected climate changes in the future point to higher temperatures and rainfall decreases. In face of the high intrinsic variability, actions to increase sustainability should improve resilience and stability of the ecosystems. Land use systems based on perennial species, as opposed to annual species, may be more stable and resilient, thus more adequate to face future potential increases in climate variability. Long-term studies to investigate the potential of the native biodiversity or adapted exotic species to design sustainable land use systems should be encouraged.

The role of experimental forests and ranges in the development of ecosystem science and biogeochemical cycling research

Treesearch

James M. Vose; Wayne T. Swank; Mary Beth Adams; Devendra Amatya; John Campbell; Sherri Johnson; Frederick J. Swanson; Randy Kolka; Ariel E. Lugo; Robert Musselman; Charles Rhoades

2014-01-01

Forest Service watershed-based Experimental Forests and Ranges (EFRs) have significantly advanced scientific knowledge on ecosystem structure and function through long-term monitoring and experimental research on hydrologic and biogeochemical cycling processes. Research conducted in the 1940s and 1950s began as “classic” paired watershed studies. The emergence of the...

Southern Ocean coccolithophore biogeography - controlling factors and implications for global biogeochemical cycles

NASA Astrophysics Data System (ADS)

Nissen, Cara; Vogt, Meike; Münnich, Matthias; Gruber, Nicolas

2017-04-01

Southern Ocean phytoplankton biogeography is important for the biogeochemical cycling of carbon, silicate, and the transport of macronutrients to lower latitudes. With the discovery of the "Great Calcite Belt" (GBC), revealing an unexpectedly high prevalence of calcifying phytoplankton in the subtropical frontal region between 40-55°S, the relative importance of Southern Ocean coccolithophores for phytoplankton biomass, net primary productivity and the carbon cycle need to be revisited. Using a regional high-resolution model with an embedded ecosystem module (ROMS-BEC) for the Southern Ocean (24-78°S) that has been extended to include an explicit representation of coccolithophores, we assess the environmental drivers of Southern Ocean coccolithophore biogeography over the course of the growing season. We thereby focus on biotic interactions and the relative importance of top-down (grazing) versus bottom-up factors (light, nutrient, temperature) controlling growth and abundance. In our simulation, coccolithophores are an important member of the Southern Ocean phytoplankton community, contributing 13% to annually integrated net primary productivity south of 30°S. We estimate the integrated annual calcification rate to account for 40% of the satellite derived global estimate. Modeled coccolithophore biomass is highest in February and March in a latitudinal band between 40-55°S, when diatoms become heavily silicate limited. This region is characterized by a number of divergent fronts with a low Si:Fe ratio of waters supplied to the mixed layer, supporting an increased growth of coccolithophores at the expense of diatoms. We find top down controls to be the major control on the relative abundance of diatoms and coccolithophores in the Southern Ocean. We perform iron and silicate fertilization experiments to assess the effects of changed nutrient availability on coccolithophore abundance in the GCB. We find that changes in nutrient stoichiometry significantly alter

Biogeochemical Cycling and Environmental Stability of Pu Relevant to Long-Term Stewardship of DOE Sites

DOE Office of Scientific and Technical Information (OSTI.GOV)

Santschi, Peter H.

2006-06-01

The overall objective of this proposed research is to understand the biogeochemical cycling of Pu in environments of interest to long-term DOE stewardship issues. Central to Pu cycling (transport initiation to immobilization) is the role of microorganisms. The hypothesis underlying this proposal is that microbial activity is the causative agent in initiating the mobilization of Pu in near-surface environments: through the transformation of Pu associated with solid phases, production of extracellular polymeric substances (EPS) carrier phases, and the creation of microenvironments. Also, microbial processes are central to the immobilization of Pu species, through the metabolism of organically complexed Pu speciesmore » and Pu associated with extracellular carrier phases and the creation of environments favorable for Pu transport retardation.« less

Modeling the Oxygen Cycle in the Equatorial Pacific: Regulation of Physical and Biogeochemical Processes

NASA Astrophysics Data System (ADS)

Wang, X.; Murtugudde, R. G.; Zhang, D.

2016-12-01

Photosynthesis and respiration are important processes in all ecosystems on the Earth, in which carbon and oxygen are the two main elements. However, the oxygen cycle has received much less attention (relative to the carbon cycle) despite its big role in the earth system. Oxygen is a sensitive indicator of physical and biogeochemical processes in the ocean thus a key parameter for understanding the ocean's ecosystem and biogeochemistry. The Oxygen-Minimum-Zone (OMZ), often seen below 200 m, is a profound feature in the world oceans. There has been evidence of OMZ expansion over the past few decades in the tropical oceans. Climate models project that there would be a continued decline in dissolved oxygen (DO) and an expansion of the tropical OMZs under future warming conditions, which is of great concern because of the implications for marine organisms. We employ a validated three-dimensional model that simulates physical transport (circulation and vertical mixing), biological processes (O2 production and consumption) and ocean-atmosphere O2 exchange to quantify various sources and sinks of DO over 1980-2015. We show how we use observational data to improve our model simulation. Then we assess the spatial and temporal variability in simulated DO in the tropical Pacific Ocean, and explore the impacts of physical and biogeochemical processes on the DO dynamics, with a focus on the MOZ. Our analyses indicate that DO in the OMZ has a positive relationship with the 13ºC isotherm depth and a negative relationship with the concentration of dissolved organic material.

An Isopycnal Box Model with predictive deep-ocean structure for biogeochemical cycling applications

NASA Astrophysics Data System (ADS)

Goodwin, Philip

2012-07-01

To simulate global ocean biogeochemical tracer budgets a model must accurately determine both the volume and surface origins of each water-mass. Water-mass volumes are dynamically linked to the ocean circulation in General Circulation Models, but at the cost of high computational load. In computationally efficient Box Models the water-mass volumes are simply prescribed and do not vary when the circulation transport rates or water mass densities are perturbed. A new computationally efficient Isopycnal Box Model is presented in which the sub-surface box volumes are internally calculated from the prescribed circulation using a diffusive conceptual model of the thermocline, in which upwelling of cold dense water is balanced by a downward diffusion of heat. The volumes of the sub-surface boxes are set so that the density stratification satisfies an assumed link between diapycnal diffusivity, κd, and buoyancy frequency, N: κd = c/(Nα), where c and α are user prescribed parameters. In contrast to conventional Box Models, the volumes of the sub-surface ocean boxes in the Isopycnal Box Model are dynamically linked to circulation, and automatically respond to circulation perturbations. This dynamical link allows an important facet of ocean biogeochemical cycling to be simulated in a highly computationally efficient model framework.

Biogeochemical cycles and biodiversity as key drivers of ecosystem services provided by soils

NASA Astrophysics Data System (ADS)

Smith, P.; Cotrufo, M. F.; Rumpel, C.; Paustian, K.; Kuikman, P. J.; Elliott, J. A.; McDowell, R.; Griffiths, R. I.; Asakawa, S.; Bustamante, M.; House, J. I.; Sobocká, J.; Harper, R.; Pan, G.; West, P. C.; Gerber, J. S.; Clark, J. M.; Adhya, T.; Scholes, R. J.; Scholes, M. C.

2015-11-01

Soils play a pivotal role in major global biogeochemical cycles (carbon, nutrient, and water), while hosting the largest diversity of organisms on land. Because of this, soils deliver fundamental ecosystem services, and management to change a soil process in support of one ecosystem service can either provide co-benefits to other services or result in trade-offs. In this critical review, we report the state-of-the-art understanding concerning the biogeochemical cycles and biodiversity in soil, and relate these to the provisioning, regulating, supporting, and cultural ecosystem services which they underpin. We then outline key knowledge gaps and research challenges, before providing recommendations for management activities to support the continued delivery of ecosystem services from soils. We conclude that, although soils are complex, there are still knowledge gaps, and fundamental research is still needed to better understand the relationships between different facets of soils and the array of ecosystem services they underpin, enough is known to implement best practices now. There is a tendency among soil scientists to dwell on the complexity and knowledge gaps rather than to focus on what we do know and how this knowledge can be put to use to improve the delivery of ecosystem services. A significant challenge is to find effective ways to share knowledge with soil managers and policy makers so that best management can be implemented. A key element of this knowledge exchange must be to raise awareness of the ecosystems services underpinned by soils and thus the natural capital they provide. We know enough to start moving in the right direction while we conduct research to fill in our knowledge gaps. The lasting legacy of the International Year of Soils in 2015 should be for soil scientists to work together with policy makers and land managers to put soils at the centre of environmental policy making and land management decisions.

Modeling Biogeochemical Cycling of Heavy Metals in Lake Coeur d'Alene Sediments

NASA Astrophysics Data System (ADS)

Sengor, S. S.; Spycher, N.; Belding, E.; Curthoys, K.; Ginn, T. R.

2005-12-01

Mining of precious metals since the late 1800's have left Lake Coeur d'Alene (LCdA) sediments heavily enriched with toxic metals, including Cd, Cu, Pb, and Zn. Indigenous microbes however are capable of catalyzing reactions that detoxify the benthic and aqueous lake environments, and thus constitute an important driving component in the biogeochemical cycles of these metals. Here we report on the development of a quantitative model of transport, fate, exposure and effects of toxic compounds on benthic microbial communities at LCdA. First, chemical data from the LCdA area have been compiled from multiple sources to investigate trends in chemical occurrence, as well as to define model boundary conditions. The model is structured as 1-D diffusive reactive transport model to simulate spatial and temporal distribution of metals through the benthic sediments. Inorganic reaction processes included in the model are aqueous speciation, surface complexation, mineral precipitation/dissolution and abiotic redox reactions. Simulations with and without surface complexation are carried out to evaluate the effect of sorption and the conservative behaviour of metals within the benthic sediments under abiotic and purely diffusive transport. The 1-D inorganic diffusive transport model is then coupled to a biotic reaction network including consortium biodegradation kinetics with multiple electron acceptors, product toxicity, and energy partitioning. Multiyear simulations are performed, with water column chemistry established as a boundary condition from extant data, to explore the role of biogeochemical dynamics on benthic fluxes of metals in the long term.

Development of Modal Aerosol Module in CAM5 for Biogeochemical Cycles

DOE Office of Scientific and Technical Information (OSTI.GOV)

Liu, Xiaohong

2017-11-18

This project aims at developing new capabilities for the Modal Aerosol Module in the DOE’s E3SM model with the applications to the global biogeochemical cycle. The impacts of the new developments on model simulations of clouds and climate will be examined. There are thee objectives for this project study: Implementing primary marine organic aerosols into the modal aerosol module (MAM) and investigate effects of primary marine organic aerosols on climate in E3SM; Implementing dust speciation in MAM and investigate the effect of dust species on mixed-phase clouds through indirect effects in E3SM; Writing papers documenting the new MAM developments (e.g.,more » MAM4 documentation paper, marine organic aerosol paper, dust speciation); These objectives will be accomplished in collaborations with Drs. Phil Rasch, Steve Ghan, and Susannah Burrows at Pacific Northwest National Laboratory.« less

The role of experimental forests and ranges in the development of ecosystem science and biogeochemical cycling research [Chapter 17

Treesearch

James M. Vose; Wayne T. Swank; Mary Beth Adams; Devendra Amatya; John Campbell; Sherri Johnson; Frederick J. Swanson; Randy Kolka; Ariel E. Lugo; Robert Musselman; Charles Rhoades

2014-01-01

Forest Service watershed-based Experimental Forests and Ranges (EFRs) have significantly advanced scientific knowledge on ecosystem structure and function through long-term monitoring and experimental research on hydrologic and biogeochemical cycling processes. Research conducted in the 1940s and 1950s began as “classic” paired watershed studies. The emergence of the...

Biogeochemical Cycles for Combining Chemical Knowledge and ESD Issues in Greek Secondary Schools Part II: Assessing the Impact of the Intervention

ERIC Educational Resources Information Center

Koutalidi, Sophia; Psallidas, Vassilis; Scoullos, Michael

2016-01-01

In searching for effective ways to combine science/chemical education with EE/ESD, new didactic materials were designed and produced focussing on biogeochemical cycles and their connection to sustainable development. The materials were experimentally applied in 16 Greek schools under the newly introduced compulsory "school project" which…

Divergence in plant and microbial allocation strategies explains continental patterns in microbial allocation and biogeochemical fluxes.

PubMed

Averill, Colin

2014-10-01

Allocation trade-offs shape ecological and biogeochemical phenomena at local to global scale. Plant allocation strategies drive major changes in ecosystem carbon cycling. Microbial allocation to enzymes that decompose carbon vs. organic nutrients may similarly affect ecosystem carbon cycling. Current solutions to this allocation problem prioritise stoichiometric tradeoffs implemented in plant ecology. These solutions may not maximise microbial growth and fitness under all conditions, because organic nutrients are also a significant carbon resource for microbes. I created multiple allocation frameworks and simulated microbial growth using a microbial explicit biogeochemical model. I demonstrate that prioritising stoichiometric trade-offs does not optimise microbial allocation, while exploiting organic nutrients as carbon resources does. Analysis of continental-scale enzyme data supports the allocation patterns predicted by this framework, and modelling suggests large deviations in soil C loss based on which strategy is implemented. Therefore, understanding microbial allocation strategies will likely improve our understanding of carbon cycling and climate. © 2014 John Wiley & Sons Ltd/CNRS.

Organochlorine compounds and the biogeochemical cycle of chlorine in soils: A review

NASA Astrophysics Data System (ADS)

Vodyanitskii, Yu. N.; Makarov, M. I.

2017-09-01

Chloride ions in soil may interact with soil organic matter and form organochlorine compounds in situ. The biotic chlorination of soil organic substances takes places under aerobic conditions with participation of H2O2 forming from peroxidases released by soil microorganisms (in particular, by microscopic fungi). The abiotic chlorination results also from the redox reactions with the participation of Fe3+/Fe2+ system, but it develops several times slower. Chlorination of soil organic substances is favored by Cl- coming to soil both from natural (salinized soil-forming rocks and groundwater, sea salt) and anthropogenic sources of chlorides, i.e., spills of saline water at oil production, road deicing chemicals, mineral fertilizers, etc. The study of the biogeochemical chlorine cycle should take into account the presence of organochlorine compounds in soils, in addition to transformation and migration of chloride ions.

A generic biogeochemical module for earth system models

NASA Astrophysics Data System (ADS)

Fang, Y.; Huang, M.; Liu, C.; Li, H.-Y.; Leung, L. R.

2013-06-01

Physical and biogeochemical processes regulate soil carbon dynamics and CO2 flux to and from the atmosphere, influencing global climate changes. Integration of these processes into earth system models (e.g. community land models - CLM), however, currently faces three major challenges: (1) extensive efforts are required to modify modeling structures and to rewrite computer programs to incorporate new or updated processes as new knowledge is being generated, (2) computational cost is prohibitively expensive to simulate biogeochemical processes in land models due to large variations in the rates of biogeochemical processes, and (3) various mathematical representations of biogeochemical processes exist to incorporate different aspects of fundamental mechanisms, but systematic evaluation of the different mathematical representations is difficult, if not impossible. To address these challenges, we propose a new computational framework to easily incorporate physical and biogeochemical processes into land models. The new framework consists of a new biogeochemical module with a generic algorithm and reaction database so that new and updated processes can be incorporated into land models without the need to manually set up the ordinary differential equations to be solved numerically. The reaction database consists of processes of nutrient flow through the terrestrial ecosystems in plants, litter and soil. This framework facilitates effective comparison studies of biogeochemical cycles in an ecosystem using different conceptual models under the same land modeling framework. The approach was first implemented in CLM and benchmarked against simulations from the original CLM-CN code. A case study was then provided to demonstrate the advantages of using the new approach to incorporate a phosphorus cycle into the CLM model. To our knowledge, the phosphorus-incorporated CLM is a new model that can be used to simulate phosphorus limitation on the productivity of terrestrial

Stream biogeochemical resilience in the age of Anthropocene

NASA Astrophysics Data System (ADS)

Dong, H.; Creed, I. F.

2017-12-01

Recent evidence indicates that biogeochemical cycles are being pushed beyond the tolerance limits of the earth system in the age of the Anthropocene placing terrestrial and aquatic ecosystems at risk. Here, we explored the question: Is there empirical evidence of global atmospheric changes driving losses in stream biogeochemical resilience towards a new normal? Stream biogeochemical resilience is the process of returning to equilibrium conditions after a disturbance and can be measured using three metrics: reactivity (the highest initial response after a disturbance), return rate (the rate of return to equilibrium condition after reactive changes), and variance of the stationary distribution (the signal to noise ratio). Multivariate autoregressive models were used to derive the three metrics for streams along a disturbance gradient - from natural systems where global drivers would dominate, to relatively managed or modified systems where global and local drivers would interact. We observed a loss of biogeochemical resilience in all streams. The key biogeochemical constituent(s) that may be driving loss of biogeochemical resilience were identified from the time series of the stream biogeochemical constituents. Non-stationary trends (detected by Mann-Kendall analysis) and stationary cycles (revealed through Morlet wavelet analysis) were removed, and the standard deviation (SD) of the remaining residuals were analyzed to determine if there was an increase in SD over time that would indicate a pending shift towards a new normal. We observed that nitrate-N and total phosphorus showed behaviours indicative of a pending shift in natural and managed forest systems, but not in agricultural systems. This study provides empirical support that stream ecosystems are showing signs of exceeding planetary boundary tolerance levels and shifting towards a "new normal" in response to global changes, which can be exacerbated by local management activities. Future work will consider

Microbial mediation of biogeochemical cycles revealed by simulation of global changes with soil transplant and cropping

PubMed Central

Zhao, Mengxin; Xue, Kai; Wang, Feng; Liu, Shanshan; Bai, Shijie; Sun, Bo; Zhou, Jizhong; Yang, Yunfeng

2014-01-01

Despite microbes' key roles in driving biogeochemical cycles, the mechanism of microbe-mediated feedbacks to global changes remains elusive. Recently, soil transplant has been successfully established as a proxy to simulate climate changes, as the current trend of global warming coherently causes range shifts toward higher latitudes. Four years after southward soil transplant over large transects in China, we found that microbial functional diversity was increased, in addition to concurrent changes in microbial biomass, soil nutrient content and functional processes involved in the nitrogen cycle. However, soil transplant effects could be overridden by maize cropping, which was attributed to a negative interaction. Strikingly, abundances of nitrogen and carbon cycle genes were increased by these field experiments simulating global change, coinciding with higher soil nitrification potential and carbon dioxide (CO2) efflux. Further investigation revealed strong correlations between carbon cycle genes and CO2 efflux in bare soil but not cropped soil, and between nitrogen cycle genes and nitrification. These findings suggest that changes of soil carbon and nitrogen cycles by soil transplant and cropping were predictable by measuring microbial functional potentials, contributing to a better mechanistic understanding of these soil functional processes and suggesting a potential to incorporate microbial communities in greenhouse gas emission modeling. PMID:24694714

Gene-centric approach to integrating environmental genomics and biogeochemical models.

PubMed

Reed, Daniel C; Algar, Christopher K; Huber, Julie A; Dick, Gregory J

2014-02-04

Rapid advances in molecular microbial ecology have yielded an unprecedented amount of data about the evolutionary relationships and functional traits of microbial communities that regulate global geochemical cycles. Biogeochemical models, however, are trailing in the wake of the environmental genomics revolution, and such models rarely incorporate explicit representations of bacteria and archaea, nor are they compatible with nucleic acid or protein sequence data. Here, we present a functional gene-based framework for describing microbial communities in biogeochemical models by incorporating genomics data to provide predictions that are readily testable. To demonstrate the approach in practice, nitrogen cycling in the Arabian Sea oxygen minimum zone (OMZ) was modeled to examine key questions about cryptic sulfur cycling and dinitrogen production pathways in OMZs. Simulations support previous assertions that denitrification dominates over anammox in the central Arabian Sea, which has important implications for the loss of fixed nitrogen from the oceans. Furthermore, cryptic sulfur cycling was shown to attenuate the secondary nitrite maximum often observed in OMZs owing to changes in the composition of the chemolithoautotrophic community and dominant metabolic pathways. Results underscore the need to explicitly integrate microbes into biogeochemical models rather than just the metabolisms they mediate. By directly linking geochemical dynamics to the genetic composition of microbial communities, the method provides a framework for achieving mechanistic insights into patterns and biogeochemical consequences of marine microbes. Such an approach is critical for informing our understanding of the key role microbes play in modulating Earth's biogeochemistry.

The biogeochemical heterogeneity of tropical forests.

PubMed

Townsend, Alan R; Asner, Gregory P; Cleveland, Cory C

2008-08-01

Tropical forests are renowned for their biological diversity, but also harbor variable combinations of soil age, chemistry and susceptibility to erosion or tectonic uplift. Here we contend that the combined effects of this biotic and abiotic diversity promote exceptional biogeochemical heterogeneity at multiple scales. At local levels, high plant diversity creates variation in chemical and structural traits that affect plant production, decomposition and nutrient cycling. At regional levels, myriad combinations of soil age, soil chemistry and landscape dynamics create variation and uncertainty in limiting nutrients that do not exist at higher latitudes. The effects of such heterogeneity are not well captured in large-scale estimates of tropical ecosystem function, but we suggest new developments in remote sensing can help bridge the gap.

Abiotic and biotic controls over biogeochemical cycles in drylands: Insights from climate change and nitrogen deposition experiments on the Colorado Plateau

NASA Astrophysics Data System (ADS)

Reed, S.; Ferrenberg, S.; Tucker, C.; Rutherford, W. A.; Wertin, T. M.; McHugh, T. A.; Morrissey, E.; Kuske, C.; Mueller, R.; Belnap, J.

2016-12-01

As for all ecosystems, biogeochemical cycling in drylands represents numerous intricate connections between biotic and abiotic controls. However, patterns of many fundamental ecosystem processes that generally hold across global gradients fall apart at the arid and semiarid end of the spectrum, and data point to an exceptionally strong role for abiotic controls in explaining these patterns. Further, there are multiple dryland characteristics - such as extreme aridity and high UV radiation, as well as specialized biological communities - which can point to a conclusion that "drylands are different". Indeed, drylands are often characterized by their harsh environment, by the diverse classes of biota representing a range of traits aimed at surviving such harsh conditions, and, more recently, by the suggestion of dramatic biotic responses to seemingly subtle changes in abiotic factors. In this talk, we will explore a range of biotic and abiotic controls over fundamental biogeochemical cycling in drylands using data from a suite of manipulation experiments on the Colorado Plateau, USA. We will present results from field treatments that speak to the effects of increasing temperature, altered precipitation regimes, increased nitrogen availability via deposition, and the effects of altered litterfall inputs. Biogeochemical processes we explore will include plant photosynthesis, soil photosynthesis and respiration (with a focus on biological soil crusts), litter decomposition, and nutrient cycling. In addition, we will assess how treatments alter dryland community composition, as well as the resultant feedbacks of community shifts to environmental change. Taken together we will use these diverse datasets to ask questions about what makes drylands different or, instead, if a holistic joining of biotic and abiotic perspectives suggests they are not so different after all. These data will not only lend insight into the partitioning of and balance between biotic and abiotic

Integrating Environmental Genomics and Biogeochemical Models: a Gene-centric Approach

NASA Astrophysics Data System (ADS)

Reed, D. C.; Algar, C. K.; Huber, J. A.; Dick, G.

2013-12-01

Rapid advances in molecular microbial ecology have yielded an unprecedented amount of data about the evolutionary relationships and functional traits of microbial communities that regulate global geochemical cycles. Biogeochemical models, however, are trailing in the wake of the environmental genomics revolution and such models rarely incorporate explicit representations of bacteria and archaea, nor are they compatible with nucleic acid or protein sequence data. Here, we present a functional gene-based framework for describing microbial communities in biogeochemical models that uses genomics data and provides predictions that are readily testable using cutting-edge molecular tools. To demonstrate the approach in practice, nitrogen cycling in the Arabian Sea oxygen minimum zone (OMZ) was modelled to examine key questions about cryptic sulphur cycling and dinitrogen production pathways in OMZs. By directly linking geochemical dynamics to the genetic composition of microbial communities, the method provides mechanistic insights into patterns and biogeochemical consequences of marine microbes. Such an approach is critical for informing our understanding of the key role microbes play in modulating Earth's biogeochemistry.

Assessment of diel chemical and isotopic techniques to investigate biogeochemical cycles in the upper Klamath River, Oregon, USA

USGS Publications Warehouse

Poulson, S.R.; Sullivan, A.B.

2009-01-01

The upper Klamath River experiences a cyanobacterial algal bloom and poor water quality during the summer. Diel chemical and isotopic techniques have been employed in order to investigate the rates of biogeochemical processes. Four diel measurements of field parameters (temperature, pH, dissolved oxygen concentrations, and alkalinity) and stable isotope compositions (dissolved oxygen-??18O and dissolved inorganic carbon-??13C) have been performed between June 2007 and August 2008. Significant diel variations of pH, dissolved oxygen (DO) concentration, and DO-??18O were observed, due to varying rates of primary productivity vs. respiration vs. gas exchange with air. Diel cycles are generally similar to those previously observed in river systems, although there are also differences compared to previous studies. In large part, these different diel signatures are the result of the low turbulence of the upper Klamath River. Observed changes in the diel signatures vs. sampling date reflect the evolution of the status of the algal bloom over the course of the summer. Results indicate the potential utility of applying diel chemical and stable isotope techniques to investigate the rates of biogeochemical cycles in slow-moving rivers, lakes, and reservoirs, but also illustrate the increased complexity of stable isotope dynamics in these low-turbulence systems compared to well-mixed aquatic systems. ?? 2009 Elsevier B.V.

A soil-landscape framework for understanding spatial and temporal variability in biogeochemical processes in catchments

NASA Astrophysics Data System (ADS)

McGuire, K. J.; Bailey, S. W.; Ross, D. S.

2017-12-01

Heterogeneity in biophysical properties within catchments challenges how we quantify and characterize biogeochemical processes and interpret catchment outputs. Interactions between the spatiotemporal variability of hydrological states and fluxes and soil development can spatially structure catchments, leading to a framework for understanding patterns in biogeochemical processes. In an upland, glaciated landscape at the Hubbard Brook Experimental Forest (HBEF) in New Hampshire, USA, we are embracing the structure and organization of soils to understand the spatial relations between runoff production zones, distinct soil-biogeochemical environments, and solute retention and release. This presentation will use observations from the HBEF to demonstrate that a soil-landscape framework is essential in understanding the spatial and temporal variability of biogeochemical processes in this catchment. Specific examples will include how laterally developed soils reveal the location of active runoff production zones and lead to gradients in primary mineral dissolution and the distribution of weathering products along hillslopes. Soil development patterns also highlight potential carbon and nitrogen cycling hotspots, differentiate acidic conditions, and affect the regulation of surface water quality. Overall, this work demonstrates the importance of understanding the landscape-level structural organization of soils in characterizing the variation and extent of biogeochemical processes that occur in catchments.

Archaea in metazoan diets: implications for food webs and biogeochemical cycling

PubMed Central

Thurber, Andrew R; Levin, Lisa A; Orphan, Victoria J; Marlow, Jeffrey J

2012-01-01

Although the importance of trophic linkages, including ‘top-down forcing', on energy flow and ecosystem productivity is recognized, the influence of metazoan grazing on Archaea and the biogeochemical processes that they mediate is unknown. Here, we test if: (1) Archaea provide a food source sufficient to allow metazoan fauna to complete their life cycle; (2) neutral lipid biomarkers (including crocetane) can be used to identify Archaea consumers; and (3) archaeal aggregates are a dietary source for methane seep metazoans. In the laboratory, we demonstrated that a dorvilleid polychaete, Ophryotrocha labronica, can complete its life cycle on two strains of Euryarchaeota with the same growth rate as when fed bacterial and eukaryotic food. Archaea were therefore confirmed as a digestible and nutritious food source sufficient to sustain metazoan populations. Both strains of Euryarchaeota used as food sources had unique lipids that were not incorporated into O. labronica tissues. At methane seeps, sulfate-reducing bacteria that form aggregations and live syntrophically with anaerobic-methane oxidizing Archaea contain isotopically and structurally unique fatty acids (FAs). These biomarkers were incorporated into tissues of an endolithofaunal dorvilleid polychaete species from Costa Rica (mean bulk δ13C=−92±4‰ polar lipids −116‰) documenting consumption of archaeal-bacterial aggregates. FA composition of additional soft-sediment methane seep species from Oregon and California provided evidence that consumption of archaeal-bacterial aggregates is widespread at methane seeps. This work is the first to show that Archaea are consumed by heterotrophic metazoans, a trophic process we coin as ‘archivory'. PMID:22402398

Archaea in metazoan diets: implications for food webs and biogeochemical cycling.

PubMed

Thurber, Andrew R; Levin, Lisa A; Orphan, Victoria J; Marlow, Jeffrey J

2012-08-01

Although the importance of trophic linkages, including 'top-down forcing', on energy flow and ecosystem productivity is recognized, the influence of metazoan grazing on Archaea and the biogeochemical processes that they mediate is unknown. Here, we test if: (1) Archaea provide a food source sufficient to allow metazoan fauna to complete their life cycle; (2) neutral lipid biomarkers (including crocetane) can be used to identify Archaea consumers; and (3) archaeal aggregates are a dietary source for methane seep metazoans. In the laboratory, we demonstrated that a dorvilleid polychaete, Ophryotrocha labronica, can complete its life cycle on two strains of Euryarchaeota with the same growth rate as when fed bacterial and eukaryotic food. Archaea were therefore confirmed as a digestible and nutritious food source sufficient to sustain metazoan populations. Both strains of Euryarchaeota used as food sources had unique lipids that were not incorporated into O. labronica tissues. At methane seeps, sulfate-reducing bacteria that form aggregations and live syntrophically with anaerobic-methane oxidizing Archaea contain isotopically and structurally unique fatty acids (FAs). These biomarkers were incorporated into tissues of an endolithofaunal dorvilleid polychaete species from Costa Rica (mean bulk δ(13)C=-92±4‰; polar lipids -116‰) documenting consumption of archaeal-bacterial aggregates. FA composition of additional soft-sediment methane seep species from Oregon and California provided evidence that consumption of archaeal-bacterial aggregates is widespread at methane seeps. This work is the first to show that Archaea are consumed by heterotrophic metazoans, a trophic process we coin as 'archivory'.

Biogeochemical Cycling of Methane in the Proterozoic and Its Role in the Carbon Isotope Budget

NASA Astrophysics Data System (ADS)

Schrag, D. P.; Laakso, T.

2016-12-01

Various studies have proposed that the biogeochemical cycle of methane has played an important role throughout Earth history, both in contributing to greenhouse stability of climate in the Archean and producing carbon isotope variations and climate fluctuations in the Proterozoic and Phanerozoic. Using a simple box model that couples the geochemical cycles on carbon, oxygen, hydrogen, iron, and sulfur, combined with recent studies of methane cycling in anoxic environments, we reexamine the role of methane in both the Archean and Proterozoic, focusing on methane's role in the carbon isotope budget. We find that methane plays a much more modest role at all times of relative anoxia in the deep ocean, which requires an alternative explanation for the carbon isotope record, in particular the "boring billion" during the Mesoproterozoic. In particular, the high burial efficiency driven by lower oxygen levels drives primary production to much lower levels than has been previously described, resulting in relatively little organic matter available for methanogenesis. In addition, the anoxia in deep water results in a reduced role for methanotrophy at these times, and therefore a change in the mechanisms for production of authigenic carbonate, which may have played a significant role in the carbon isotope budget.

Engineering Pseudomonas stutzeri as a biogeochemical biosensor

NASA Astrophysics Data System (ADS)

Boynton, L.; Cheng, H. Y.; Del Valle, I.; Masiello, C. A.; Silberg, J. J.

2016-12-01

Biogeochemical cycles are being drastically altered as a result of anthropogenic activities, such as the burning of fossil fuels and the industrial production of ammonia. We know microbes play a major part in these cycles, but the extent of their biogeochemical roles remains largely uncharacterized due to inadequacies with culturing and measurement. While metagenomics and other -omics methods offer ways to reconstruct microbial communities, these approaches can only give an indication of the functional roles of microbes in a community. These -omics approaches are rapidly being expanded to the point of outpacing our knowledge of functional genes, which highlights an inherent need for analytical methods that non-invasively monitor Earth's processes in real time. Here we aim to exploit synthetic biology methods in order to engineer a ubiquitous denitrifying microbe, Pseudomonas stutzeri that can act as a biosensor in soil and marine environments. By using an easily cultivated microbe that is also common in many environments, we hope to develop a tool that allows us to zoom in on specific aspects of the nitrogen cycle. In order to monitor processes occurring at the genetic level in environments that cannot be resolved with fluorescence-based methods, such as soils, we have developed a system that instead relies on gas production by engineered microbial biosensors. P. stutzeri has been successfully engineered to release a gas, methyl bromide, which can continuously and non-invasively be measured by GC-MS. Similar to using Green Fluorescent Protein, GFP, in the biological sciences, the gene controlling gas production can be linked to those involved in denitrification, thereby creating a quantifiable gas signal that is correlated with microbial activity in the soil. Synthetically engineered microbial biosensors could reveal key aspects of metabolism in soil systems and offer a tool for characterizing the scope and degree of microbial impact on major biogeochemical cycles.

Can neap-spring tidal cycles modulate biogeochemical fluxes in the abyssal near-seafloor water column?

NASA Astrophysics Data System (ADS)

Turnewitsch, Robert; Dale, Andrew; Lahajnar, Niko; Lampitt, Richard S.; Sakamoto, Kei

2017-05-01

Before particulate matter that settles as 'primary flux' from the interior ocean is deposited into deep-sea sediments it has to traverse the benthic boundary layer (BBL) that is likely to cover almost all parts of the seafloor in the deep seas. Fluid dynamics in the BBL differ vastly from fluid dynamics in the overlying water column and, consequently, have the potential to lead to quantitative and compositional changes between primary and depositional fluxes. Despite this potential and the likely global relevance very little is known about mechanistic and quantitative aspects of the controlling processes. Here, results are presented for a sediment-trap time-series study that was conducted on the Porcupine Abyssal Plain in the abyssal Northeast Atlantic, with traps deployed at 2, 40 and 569 m above bottom (mab). The two bottommost traps were situated within the BBL-affected part of the water column. The time series captured 3 neap and 4 spring tides and the arrival of fresh settling material originating from a surface-ocean bloom. In the trap-collected material, total particulate matter (TPM), particulate inorganic carbon (PIC), biogenic silica (BSi), particulate organic carbon (POC), particulate nitrogen (PN), total hydrolysable amino acids (AA), hexosamines (HA) and lithogenic material (LM) were determined. The biogeochemical results are presented within the context of time series of measured currents (at 15 mab) and turbidity (at 1 mab). The main outcome is evidence for an effect of neap/spring tidal oscillations on particulate-matter dynamics in BBL-affected waters in the deep sea. Based on the frequency-decomposed current measurements and numerical modelling of BBL fluid dynamics, it is concluded that the neap/spring tidal oscillations of particulate-matter dynamics are less likely due to temporally varying total free-stream current speeds and more likely due to temporally and vertically varying turbulence intensities that result from the temporally varying

Benthic contributions to Adriatic and Mediterranean biogeochemical cycles

NASA Astrophysics Data System (ADS)

Capet, Arthur; Lazzari, Paolo; Spagnoli, Federico; Bolzon, Giorgio; Solidoro, Cosimo

2017-04-01

The 3D biogeochemical BFM-OGSTM implementation currently exploited operationally in the Copernicus Marine Environment Monitoring Services Mediterranean Sea Monitoring and Forecasting Centre (CMEMS-Med-MFC; Lazzari et al., 2010) has been complemented with a benthic component. The approach followed that of (Capet et al 2016) and involved a vertically integrated benthic module accounting for the effect of environmental bottom conditions on diagenetic rates (aerobic mineralization, denitrification, nitrification) through transfer functions as well as the effect of waves and bottom currents on sediment deposition and resuspension. A balanced climatological year is simulated for various values of the resuspension parameters, using specifically calibrated transfer functions for the Adriatic Sea and generic formulations for the rest of the Mediterranean basin. The results serves the mapping of distinct provinces of the Adriatic Sea based on the benthic contributions biogeochemical budgets and the seasonal variability of benthic-pelagic fluxes. The differences with the non-benthic reference simulation are highlighted in details regarding the Adriatic, and more generally for the entire Mediterranean Sea. Lazzari, P., Teruzzi, A., Salon, S., Campagna, S., Calonaci, C., Colella, S., Tonani, M., Crise, A. (2010). Pre-operational short-term forecasts for Mediterranean Sea biogeochemistry. Ocean Science, 6(1), 25-39. Capet, A., Meysman, F. J., Akoumianaki, I., Soetaert, K., & Grégoire, M. (2016). Integrating sediment biogeochemistry into 3D oceanic models: A study of benthic-pelagic coupling in the Black Sea. Ocean Modelling, 101, 83-100.

Diel biogeochemical processes in terrestrial waters

USGS Publications Warehouse

Nimick, David A.; Gammons, Christopher H.

2011-01-01

Many biogeochemical processes in rivers and lakes respond to the solar photocycle and produce persistent patterns of measureable phenomena that exhibit a day–night, or 24-h, cycle. Despite a large body of recent literature, the mechanisms responsible for these diel fluctuations are widely debated, with a growing consensus that combinations of physical, chemical, and biological processes are involved. These processes include streamflow variation, photosynthesis and respiration, plant assimilation, and reactions involving photochemistry, adsorption and desorption, and mineral precipitation and dissolution. Diel changes in streamflow and water properties such as temperature, pH, and dissolved oxygen concentration have been widely recognized, and recently, diel studies have focused more widely by considering other constituents such as dissolved and particulate trace metals, metalloids, rare earth elements, mercury, organic matter, dissolved inorganic carbon (DIC), and nutrients. The details of many diel processes are being studied using stable isotopes, which also can exhibit diel cycles in response to microbial metabolism, photosynthesis and respiration, or changes in phase, speciation, or redox state. In addition, secondary effects that diel cycles might have, for example, on biota or in the hyporheic zone are beginning to be considered.This special issue is composed primarily of papers presented at the topical session “Diurnal Biogeochemical Processes in Rivers, Lakes, and Shallow Groundwater” held at the annual meeting of the Geological Society of America in October 2009 in Portland, Oregon. This session was organized because many of the growing number of diel studies have addressed just a small part of the full range of diel cycling phenomena found in rivers and lakes. This limited focus is understandable because (1) fundamental aspects of many diel processes are poorly understood and require detailed study, (2) the interests and expertise of individual

Depressional wetlands affect watershed hydrological, biogeochemical, and ecological functions.

PubMed

Evenson, Grey R; Golden, Heather E; Lane, Charles R; McLaughlin, Daniel L; D'Amico, Ellen

2018-06-01

Depressional wetlands of the extensive U.S. and Canadian Prairie Pothole Region afford numerous ecosystem processes that maintain healthy watershed functioning. However, these wetlands have been lost at a prodigious rate over past decades due to drainage for development, climate effects, and other causes. Options for management entities to protect the existing wetlands, and their functions, may focus on conserving wetlands based on spatial location vis-à-vis a floodplain or on size limitations (e.g., permitting smaller wetlands to be destroyed but not larger wetlands). Yet the effects of such management practices and the concomitant loss of depressional wetlands on watershed-scale hydrological, biogeochemical, and ecological functions are largely unknown. Using a hydrological model, we analyzed how different loss scenarios by wetland size and proximal location to the stream network affected watershed storage (i.e., inundation patterns and residence times), connectivity (i.e., streamflow contributing areas), and export (i.e., streamflow) in a large watershed in the Prairie Pothole Region of North Dakota, USA. Depressional wetlands store consequential amounts of precipitation and snowmelt. The loss of smaller depressional wetlands (<3.0 ha) substantially decreased landscape-scale inundation heterogeneity, total inundated area, and hydrological residence times. Larger wetlands act as hydrologic "gatekeepers," preventing surface runoff from reaching the stream network, and their modeled loss had a greater effect on streamflow due to changes in watershed connectivity and storage characteristics of larger wetlands. The wetland management scenario based on stream proximity (i.e., protecting wetlands 30 m and ~450 m from the stream) alone resulted in considerable landscape heterogeneity loss and decreased inundated area and residence times. With more snowmelt and precipitation available for runoff with wetland losses, contributing area increased across all loss scenarios

Simulating anchovy's full life cycle in the northern Aegean Sea (eastern Mediterranean): A coupled hydro-biogeochemical-IBM model

NASA Astrophysics Data System (ADS)

Politikos, D.; Somarakis, S.; Tsiaras, K. P.; Giannoulaki, M.; Petihakis, G.; Machias, A.; Triantafyllou, G.

2015-11-01

A 3-D full life cycle population model for the North Aegean Sea (NAS) anchovy stock is presented. The model is two-way coupled with a hydrodynamic-biogeochemical model (POM-ERSEM). The anchovy life span is divided into seven life stages/age classes. Embryos and early larvae are passive particles, but subsequent stages exhibit active horizontal movements based on specific rules. A bioenergetics model simulates the growth in both the larval and juvenile/adult stages, while the microzooplankton and mesozooplankton fields of the biogeochemical model provide the food for fish consumption. The super-individual approach is adopted for the representation of the anchovy population. A dynamic egg production module, with an energy allocation algorithm, is embedded in the bioenergetics equation and produces eggs based on a new conceptual model for anchovy vitellogenesis. A model simulation for the period 2003-2006 with realistic initial conditions reproduced well the magnitude of population biomass and daily egg production estimated from acoustic and daily egg production method (DEPM) surveys, carried out in the NAS during June 2003-2006. Model simulated adult and egg habitats were also in good agreement with observed spatial distributions of acoustic biomass and egg abundance in June. Sensitivity simulations were performed to investigate the effect of different formulations adopted for key processes, such as reproduction and movement. The effect of the anchovy population on plankton dynamics was also investigated, by comparing simulations adopting a two-way or a one-way coupling of the fish with the biogeochemical model.

A New Biogeochemical Computational Framework Integrated within the Community Land Model

NASA Astrophysics Data System (ADS)

Fang, Y.; Li, H.; Liu, C.; Huang, M.; Leung, L.

2012-12-01

Terrestrial biogeochemical processes, particularly carbon cycle dynamics, have been shown to significantly influence regional and global climate changes. Modeling terrestrial biogeochemical processes within the land component of Earth System Models such as the Community Land model (CLM), however, faces three major challenges: 1) extensive efforts in modifying modeling structures and rewriting computer programs to incorporate biogeochemical processes with increasing complexity, 2) expensive computational cost to solve the governing equations due to numerical stiffness inherited from large variations in the rates of biogeochemical processes, and 3) lack of an efficient framework to systematically evaluate various mathematical representations of biogeochemical processes. To address these challenges, we introduce a new computational framework to incorporate biogeochemical processes into CLM, which consists of a new biogeochemical module with a generic algorithm and reaction database. New and updated biogeochemical processes can be incorporated into CLM without significant code modification. To address the stiffness issue, algorithms and criteria will be developed to identify fast processes, which will be replaced with algebraic equations and decoupled from slow processes. This framework can serve as a generic and user-friendly platform to test out different mechanistic process representations and datasets and gain new insight on the behavior of the terrestrial ecosystems in response to climate change in a systematic way.

The Biogeochemical Role of Antarctic Krill and Baleen Whales in Southern Ocean Nutrient Cycling.

NASA Astrophysics Data System (ADS)

Ratnarajah, L.

2015-12-01

Iron limits primary productivity in large areas of the Southern Ocean. It has been suggested that baleen whales form a crucial part of biogeochemical cycling processes through the consumption of nutrient-rich krill and subsequent defecation, but evidence on their contribution is scarce. We analysed the concentration of iron in Antarctic krill and baleen whale faeces and muscle. Iron concentrations in Antarctic krill were over 1 million times higher, and whale faecal matter were almost 10 million times higher than typical Southern Ocean High Nutrient Low Chlorophyll seawater concentrations. This suggests that Antarctic krill act as a reservoir of in in Southern Ocean surface waters, and that baleen whales play an important role in converting this fixed iron into a liquid form in their faeces. We developed an exploratory model to examine potential contribution of blue, fin and humpback whales to the Southern Ocean iron cycle to explore the effect of the recovery of great whales to historical levels. Our results suggest that pre-exploitation populations of blue whales and, to a lesser extent fin and humpback whales, could have contributed to the more effective recycling of iron in surface waters, resulting in enhanced phytoplankton production. This enhanced primary productivity is estimated to be: 8.3 x 10-5 to 15 g C m-2 yr-1 (blue whales), 7 x 10-5 to 9 g C m-2 yr-1 (fin whales), and 10-5 to 1.7 g C m-2 yr-1 (humpback whales). To put these into perspective, current estimates of primary production in the Southern Ocean from remotely sensed ocean colour are in the order of 57 g C m-2 yr-1 (south of 50°). The high degree of uncertainty around the magnitude of these increases in primary productivity is mainly due to our limited quantitative understanding of key biogeochemical processes including iron content in krill, krill consumption rates by whales, persistence of iron in the photic zone, bioavailability of retained iron, and carbon-to-iron ratio of phytoplankton

Biogeochemical carbon coupling influences global precipitation in geoengineering experiments

NASA Astrophysics Data System (ADS)

Fyfe, J. C.; Cole, J. N. S.; Arora, V. K.; Scinocca, J. F.

2013-02-01