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Sample records for quantifying carbon fixation

  1. Improving Carbon Fixation Pathways

    PubMed Central

    Ducat, Daniel C.

    2012-01-01

    A recent resurgence in basic and applied research on photosynthesis has been driven in part by recognition that fulfilling future food and energy requirements will necessitate improvements in crop carbon-fixation efficiencies. Photosynthesis in traditional terrestrial crops is being reexamined in light of molecular strategies employed by photosynthetic microbes to enhance the activity of the Calvin cycle. Synthetic biology is well-situated to provide original approaches for compartmentalizing and enhancing photosynthetic reactions in a species independent manner. Furthermore, the elucidation of alternative carbon-fixation routes distinct from the Calvin cycle raises possibilities that alternative pathways and organisms can be utilized to fix atmospheric carbon dioxide into useful materials. PMID:22647231

  2. CARBON DIOXIDE FIXATION.

    SciTech Connect

    FUJITA,E.

    2000-01-12

    Solar carbon dioxide fixation offers the possibility of a renewable source of chemicals and fuels in the future. Its realization rests on future advances in the efficiency of solar energy collection and development of suitable catalysts for CO{sub 2} conversion. Recent achievements in the efficiency of solar energy conversion and in catalysis suggest that this approach holds a great deal of promise for contributing to future needs for fuels and chemicals.

  3. Low Carbon Costs of Nitrogen Fixation in Tropical Dry Forests

    NASA Astrophysics Data System (ADS)

    Gei, M. G.; Powers, J. S.

    2015-12-01

    Legume tree species with the ability to fix nitrogen (N) are highly diverse and widespread across tropical forests but in particular in the dry tropics. Their ecological success in lower latitudes has been called a "paradox": soil N in the tropics is thought to be high, while acquiring N through fixation incurs high energetic costs. However, the long held assumptions that N fixation is limited by photosynthate and that N fixation penalizes plant productivity have rarely been tested, particularly in legume tree species. We show results from three different experiments where we grew eleven species of tropical dry forest legumes. We quantified plant biomass and N fixation using nodulation and the 15N natural isotope abundance (Ndfa or nitrogen derived from fixation). These data show little evidence for costs of N fixation in seedlings grown under different soil fertility, light regimes, and with different microbial communities. Seedling productivity did not incur major costs because of N fixation: indeed, the average slope between Ndfa and biomass was positive (range in slopes: -0.03 to 0.3). Moreover, foliar N, which varied among species, was tightly constrained and not correlated with Ndfa. This finding implies that legume species have a target N that does not change depending on N acquisition strategies. The process of N fixation in tropical legumes may be more carbon efficient than previously thought. This view is more consistent with the hyperabundance of members of this family in tropical ecosystems.

  4. Quantifying the effect of fire disturbance on free-living nitrogen fixation in tropical ecosystems

    NASA Astrophysics Data System (ADS)

    De Oliveira Bomfim, B.; Silva, L. C. R.; Marimon-Junior, B. H.; Marimon, B.; Horwath, W. R.; Neves, L.

    2015-12-01

    Tropical forests and savannas are among the most important biomes on Earth, supporting more than half of all plant and animal species on the planet. Despite growing interest in biogeochemical processes that affect tropical forest dynamics, many, including biological nitrogen fixation (BNF), are still poorly understood. Free-living N-fixers are thought to play a key role in tropical ecosystems, alleviating N and P limitation, supporting above and below ground biomass production, as well as carbon storage in plants and soil, but this influence has yet to be quantified. Of particular interest, the spatial distribution and identity of free-living BNF under disturbance regimes that commonly lead to the conversion of forests to savannas is currently unknown. To address this critical gap in knowledge, we measured free-living BNF quantifying rates of N fixation under contrasting fire regimes in the Amazon-Cerrado transition of central Brazil. Samples were collected in 4 ha of floodable forests affected by fire and 1 ha of unburned (seasonally flooded) forest located at the Araguaia State Park, Mato Grosso State, Brazil. Free-living N-fixation rates were measured by both 15N2 (98 atom% 15N) and acethylene reduction assay (ARA). Samples were incubated in the field and left in the dark at room temperature for 12 hours. In the next few weeks we will quantify N fixation rates that will be presented in the upcoming AGU meeting.

  5. Ubiquitous Gammaproteobacteria dominate dark carbon fixation in coastal sediments

    PubMed Central

    Dyksma, Stefan; Bischof, Kerstin; Fuchs, Bernhard M.; Hoffmann, Katy; Meier, Dimitri; Meyerdierks, Anke; Pjevac, Petra; Probandt, David; Richter, Michael; Stepanauskas, Ramunas; Mußmann, Marc

    2015-01-01

    Marine sediments are the largest carbon sink on earth. Nearly half of dark carbon fixation in the oceans occurs in coastal sediments, but the microorganisms responsible are largely unknown. By integrating the 16S rRNA approach, single cell genomics, metagenomics and -transcriptomics with 14C-carbon assimilation experiments, we show that uncultured Gammaproteobacteria account for 70 to 86% of dark carbon fixation in coastal sediments. First, we surveyed the bacterial 16S rRNA gene diversity of 13 tidal and sublittoral sediments across Europe and Australia to identify ubiquitous core groups of Gammaproteobacteria mainly affiliating with sulfur-oxidizing bacteria. These also accounted for a substantial fraction of the microbial community in anoxic, 490 cm-deep subsurface sediments. We then quantified dark carbon fixation by scintillography of specific microbial populations extracted and flow-sorted from sediments that were short-term incubated with 14C-bicarbonate. We identified three distinct gammaproteobacterial clades covering diversity ranges on family to order level (the Acidiferrobacter-, JTB255- and SSr-clades) that made up more than 50% of dark carbon fixation in a tidal sediment. Consistent with these activity measurements, environmental transcripts of sulfur oxidation and carbon fixation genes mainly affiliated with those of sulfur-oxidizing Gammaproteobacteria. The co-localization of key genes of sulfur and hydrogen oxidation pathways and their expression in genomes of uncultured Gammaproteobacteria illustrates an unknown metabolic plasticity for sulfur oxidizers in marine sediments. Given their global distribution and high abundance, we propose that a stable assemblage of metabolically flexible Gammaproteobacteria drive important parts of marine carbon and sulfur cycles. PMID:26872043

  6. Ubiquitous Gammaproteobacteria dominate dark carbon fixation in coastal sediments.

    PubMed

    Dyksma, Stefan; Bischof, Kerstin; Fuchs, Bernhard M; Hoffmann, Katy; Meier, Dimitri; Meyerdierks, Anke; Pjevac, Petra; Probandt, David; Richter, Michael; Stepanauskas, Ramunas; Mußmann, Marc

    2016-08-01

    Marine sediments are the largest carbon sink on earth. Nearly half of dark carbon fixation in the oceans occurs in coastal sediments, but the microorganisms responsible are largely unknown. By integrating the 16S rRNA approach, single-cell genomics, metagenomics and transcriptomics with (14)C-carbon assimilation experiments, we show that uncultured Gammaproteobacteria account for 70-86% of dark carbon fixation in coastal sediments. First, we surveyed the bacterial 16S rRNA gene diversity of 13 tidal and sublittoral sediments across Europe and Australia to identify ubiquitous core groups of Gammaproteobacteria mainly affiliating with sulfur-oxidizing bacteria. These also accounted for a substantial fraction of the microbial community in anoxic, 490-cm-deep subsurface sediments. We then quantified dark carbon fixation by scintillography of specific microbial populations extracted and flow-sorted from sediments that were short-term incubated with (14)C-bicarbonate. We identified three distinct gammaproteobacterial clades covering diversity ranges on family to order level (the Acidiferrobacter, JTB255 and SSr clades) that made up >50% of dark carbon fixation in a tidal sediment. Consistent with these activity measurements, environmental transcripts of sulfur oxidation and carbon fixation genes mainly affiliated with those of sulfur-oxidizing Gammaproteobacteria. The co-localization of key genes of sulfur and hydrogen oxidation pathways and their expression in genomes of uncultured Gammaproteobacteria illustrates an unknown metabolic plasticity for sulfur oxidizers in marine sediments. Given their global distribution and high abundance, we propose that a stable assemblage of metabolically flexible Gammaproteobacteria drives important parts of marine carbon and sulfur cycles.

  7. Dark Carbon Fixation: An Important Process in Lake Sediments

    PubMed Central

    Santoro, Ana Lúcia; Bastviken, David; Gudasz, Cristian; Tranvik, Lars; Enrich-Prast, Alex

    2013-01-01

    Close to redox boundaries, dark carbon fixation by chemoautotrophic bacteria may be a large contributor to overall carbon fixation. Still, little is known about the relative importance of this process in lake systems, in spite the potentially high chemoautotrophic potential of lake sediments. We compared rates of dark carbon fixation, bacterial production and oxygen consumption in sediments from four Swedish boreal and seven tropical Brazilian lakes. Rates were highly variable and dark carbon fixation amounted up to 80% of the total heterotrophic bacterial production. The results indicate that non-photosynthetic carbon fixation can represent a substantial contribution to bacterial biomass production, especially in sediments with low organic matter content. PMID:23776549

  8. Enzyme Regulation& Catalysis in Carbon Fixation Metabolism

    SciTech Connect

    Miziorko, Henry M

    2004-12-14

    The overall long term goal of this program is the elucidation of molecular events in carbon assimilation. It has become axiomatic that control of flux through metabolic pathways is effectively imposed at irreversible reactions situated early in those pathways. The current focal point of this project is phosphoribulokinase (PRK), which catalyzes formation of the carbon dioxide acceptor, ribulose 1,5-bisphosphate. This reaction represents an early irreversible step unique to Calvin's reductive pentose phosphate pathway. Predictably, the PRK reaction represents an important control point in carbon fixation, regulated by a light dependent thiol/disulfide exchange in eukaryotes and by allosteric effectors in prokaryotes. Characterization of naturally occurring mutants as well as gene knockout experiments substantiate the importance of PRK to in vivo control of carbon assimilation in both prokaryotes and eukaryotes. Thus, given the potential impact of enhancement or inhibition of PRK activity on energy (biomass/biofuel) production, elucidation of the molecular events that account for PRK activity is a significant scientific goal.

  9. Community structure and soil pH determine chemoautotrophic carbon dioxide fixation in drained paddy soils.

    PubMed

    Long, Xi-En; Yao, Huaiying; Wang, Juan; Huang, Ying; Singh, Brajesh K; Zhu, Yong-Guan

    2015-06-16

    Previous studies suggested that microbial photosynthesis plays a potential role in paddy fields, but little is known about chemoautotrophic carbon fixers in drained paddy soils. We conducted a microcosm study using soil samples from five paddy fields to determine the environmental factors and quantify key functional microbial taxa involved in chemoautotrophic carbon fixation. We used stable isotope probing in combination with phospholipid fatty acid (PLFA) and molecular approaches. The amount of microbial (13)CO2 fixation was determined by quantification of (13)C-enriched fatty acid methyl esters and ranged from 21.28 to 72.48 ng of (13)C (g of dry soil)(-1), and the corresponding ratio (labeled PLFA-C:total PLFA-C) ranged from 0.06 to 0.49%. The amount of incorporationof (13)CO2 into PLFAs significantly increased with soil pH except at pH 7.8. PLFA and high-throughput sequencing results indicated a dominant role of Gram-negative bacteria or proteobacteria in (13)CO2 fixation. Correlation analysis indicated a significant association between microbial community structure and carbon fixation. We provide direct evidence of chemoautotrophic C fixation in soils with statistical evidence of microbial community structure regulation of inorganic carbon fixation in the paddy soil ecosystem.

  10. Beyond the Calvin cycle: autotrophic carbon fixation in the ocean.

    PubMed

    Hügler, Michael; Sievert, Stefan M

    2011-01-01

    Organisms capable of autotrophic metabolism assimilate inorganic carbon into organic carbon. They form an integral part of ecosystems by making an otherwise unavailable form of carbon available to other organisms, a central component of the global carbon cycle. For many years, the doctrine prevailed that the Calvin-Benson-Bassham (CBB) cycle is the only biochemical autotrophic CO2 fixation pathway of significance in the ocean. However, ecological, biochemical, and genomic studies carried out over the last decade have not only elucidated new pathways but also shown that autotrophic carbon fixation via pathways other than the CBB cycle can be significant. This has ramifications for our understanding of the carbon cycle and energy flow in the ocean. Here, we review the recent discoveries in the field of autotrophic carbon fixation, including the biochemistry and evolution of the different pathways, as well as their ecological relevance in various oceanic ecosystems.

  11. Chalcocite Oxidation and Coupled Carbon Dioxide Fixation by Thiobacillus ferrooxidans.

    PubMed

    Nielsen, A M; Beck, J V

    1972-03-10

    The reaction of cell suspensions of Thiobacillus ferrooxidans with pulverized chalcocite (Cu(2)S) in a Warburg manometric apparatus resulted in oxygen uptake accompanied by increased solubilization of copper and fixation of carbon dioxide. Since the only detectable oxidized products were cupric ions and the more oxidized form of the sulfide mineral, that is, digenite or covellite, the apparent source of energy for the carbon dioxide fixation was provided by the oxidation of the cuprous copper of the chalcocite.

  12. The emergence and early evolution of biological carbon-fixation.

    PubMed

    Braakman, Rogier; Smith, Eric

    2012-01-01

    The fixation of CO₂ into living matter sustains all life on Earth, and embeds the biosphere within geochemistry. The six known chemical pathways used by extant organisms for this function are recognized to have overlaps, but their evolution is incompletely understood. Here we reconstruct the complete early evolutionary history of biological carbon-fixation, relating all modern pathways to a single ancestral form. We find that innovations in carbon-fixation were the foundation for most major early divergences in the tree of life. These findings are based on a novel method that fully integrates metabolic and phylogenetic constraints. Comparing gene-profiles across the metabolic cores of deep-branching organisms and requiring that they are capable of synthesizing all their biomass components leads to the surprising conclusion that the most common form for deep-branching autotrophic carbon-fixation combines two disconnected sub-networks, each supplying carbon to distinct biomass components. One of these is a linear folate-based pathway of CO₂ reduction previously only recognized as a fixation route in the complete Wood-Ljungdahl pathway, but which more generally may exclude the final step of synthesizing acetyl-CoA. Using metabolic constraints we then reconstruct a "phylometabolic" tree with a high degree of parsimony that traces the evolution of complete carbon-fixation pathways, and has a clear structure down to the root. This tree requires few instances of lateral gene transfer or convergence, and instead suggests a simple evolutionary dynamic in which all divergences have primary environmental causes. Energy optimization and oxygen toxicity are the two strongest forces of selection. The root of this tree combines the reductive citric acid cycle and the Wood-Ljungdahl pathway into a single connected network. This linked network lacks the selective optimization of modern fixation pathways but its redundancy leads to a more robust topology, making it more

  13. Carbon fixation efficiency of plants influenced by sulfur dioxide.

    PubMed

    Chung, Chung-Yi; Chung, Pei-Ling; Liao, Shao-Wei

    2011-02-01

    In the land ecosystem, the forest can absorb the carbon dioxide (CO2) in the atmosphere and turn the CO2 into organic carbon to store it in the plant body. About 2×10(11) tons of CO2 changes through photosynthesis into organic matter by plant annually. In this research, ten kinds of woody plants were selected for assessing the carbon fixation ability influenced by sulfur dioxide (SO2). The tested trees were put into a fumigation chamber for 210 days in a 40-ppb SO2 environment. The results of this study showed that there was no clear symptom of tested trees under a 40-ppb SO2 environment. The tested trees could tolerate this polluted environment, but it will impact their CO2 absorption ability. The carbon fixation ability will reduce as the polluted period lengthens. The carbon fixation potential of tested trees ranged from 2.1 to 15.5 g·CO2/m2·d with an average of 7.7 g·CO2/m2·d. The changes in CO2 absorption volume for Messerschmidia argentea were more stable during the fumigation period with a variation of 102%. Among the tested trees, Diospyros morrisiana had the best carbon fixation potential of 9.19 g·CO2/m2·d and M. argentea had the least with 2.54 g·CO2/m2·d.

  14. Carbon dioxide fixation in green sulphur bacteria

    PubMed Central

    Sirevåg, Reidun; Ormerod, J. G.

    1970-01-01

    1. About one-third of the CO2 fixed during photosynthesis by washed suspensions of Chlorobium thiosulfatophilum strain 8346 gave rise to α-oxoglutarate and branched-chain oxo acids, mainly β-methyl-α-oxovalerate. Another one-third to one-half gave rise to a polyglucose. 2. The fixation of CO2 was inhibited by fluoroacetate, increasing concentrations up to 1mm stimulating the accumulation of α-oxoglutarate and causing a decrease in the formation of the branched-chain oxo acids and polyglucose. 3. Acetate was converted into the same products as was CO2. 4. Fluoroacetate (1mm) had a negligible effect on the formation of polyglucose from acetate and caused a slight inhibition of the formation of the branched-chain oxo acids and increased accumulation of α-oxoglutarate. 5. Iodoacetate (1mm) strongly inhibited polyglucose formation from acetate and caused accumulation of pyruvate. The formation of the branched-chain oxo acids from acetate was only slightly affected by this inhibitor. 6. Pyruvate can be metabolized by this organism in the presence of a suitable electron donor whether CO2 is present or not. In the absence of CO2 pyruvate is converted into polyglucose. 7. The accumulation of oxo acids during CO2 fixation is completely inhibited by NH4+ ions. The formation of the branched-chain oxo acids is considerably decreased by the presence of isoleucine, leucine or valine, or a mixture of these. 8. CO2 fixation in two other strains of Chlorobium appears to exhibit a similar pattern to that in C. thiosulfatophilum strain 8346. 9. It is concluded that in washed suspensions, CO2 is fixed mainly by a mechanism involving the reductive carboxylic acid cycle. Acetate, the product of the cycle, is converted into polyglucose via pyruvate synthase and a reversal of glycolysis or into branched-chain oxo acids by an unknown mechanism. PMID:5493862

  15. Carbon fixation by basalt-hosted microbial communities.

    PubMed

    Orcutt, Beth N; Sylvan, Jason B; Rogers, Daniel R; Delaney, Jennifer; Lee, Raymond W; Girguis, Peter R

    2015-01-01

    Oceanic crust is a massive potential habitat for microbial life on Earth, yet our understanding of this ecosystem is limited due to difficulty in access. In particular, measurements of rates of microbial activity are sparse. We used stable carbon isotope incubations of crustal samples, coupled with functional gene analyses, to examine the potential for carbon fixation on oceanic crust. Both seafloor-exposed and subseafloor basalts were recovered from different mid-ocean ridge and hot spot environments (i.e., the Juan de Fuca Ridge, the Mid-Atlantic Ridge, and the Loihi Seamount) and incubated with (13)C-labeled bicarbonate. Seafloor-exposed basalts revealed incorporation of (13)C-label into organic matter over time, though the degree of incorporation was heterogeneous. The incorporation of (13)C into biomass was inconclusive in subseafloor basalts. Translating these measurements into potential rates of carbon fixation indicated that 0.1-10 nmol C g(-1) rock d(-1) could be fixed by seafloor-exposed rocks. When scaled to the global production of oceanic crust, this suggests carbon fixation rates of 10(9)-10(12) g C year(-1), which matches earlier predictions based on thermodynamic calculations. Functional gene analyses indicate that the Calvin cycle is likely the dominant biochemical mechanism for carbon fixation in basalt-hosted biofilms, although the reductive acetyl-CoA pathway and reverse TCA cycle likely play some role in net carbon fixation. These results provide empirical evidence for autotrophy in oceanic crust, suggesting that basalt-hosted autotrophy could be a significant contributor of organic matter in this remote and vast environment.

  16. Carbon fixation by basalt-hosted microbial communities

    PubMed Central

    Orcutt, Beth N.; Sylvan, Jason B.; Rogers, Daniel R.; Delaney, Jennifer; Lee, Raymond W.; Girguis, Peter R.

    2015-01-01

    Oceanic crust is a massive potential habitat for microbial life on Earth, yet our understanding of this ecosystem is limited due to difficulty in access. In particular, measurements of rates of microbial activity are sparse. We used stable carbon isotope incubations of crustal samples, coupled with functional gene analyses, to examine the potential for carbon fixation on oceanic crust. Both seafloor-exposed and subseafloor basalts were recovered from different mid-ocean ridge and hot spot environments (i.e., the Juan de Fuca Ridge, the Mid-Atlantic Ridge, and the Loihi Seamount) and incubated with 13C-labeled bicarbonate. Seafloor-exposed basalts revealed incorporation of 13C-label into organic matter over time, though the degree of incorporation was heterogeneous. The incorporation of 13C into biomass was inconclusive in subseafloor basalts. Translating these measurements into potential rates of carbon fixation indicated that 0.1–10 nmol C g-1rock d-1 could be fixed by seafloor-exposed rocks. When scaled to the global production of oceanic crust, this suggests carbon fixation rates of 109–1012 g C year-1, which matches earlier predictions based on thermodynamic calculations. Functional gene analyses indicate that the Calvin cycle is likely the dominant biochemical mechanism for carbon fixation in basalt-hosted biofilms, although the reductive acetyl-CoA pathway and reverse TCA cycle likely play some role in net carbon fixation. These results provide empirical evidence for autotrophy in oceanic crust, suggesting that basalt-hosted autotrophy could be a significant contributor of organic matter in this remote and vast environment. PMID:26441854

  17. Design and analysis of synthetic carbon fixation pathways

    PubMed Central

    Bar-Even, Arren; Noor, Elad; Lewis, Nathan E.; Milo, Ron

    2010-01-01

    Carbon fixation is the process by which CO2 is incorporated into organic compounds. In modern agriculture in which water, light, and nutrients can be abundant, carbon fixation could become a significant growth-limiting factor. Hence, increasing the fixation rate is of major importance in the road toward sustainability in food and energy production. There have been recent attempts to improve the rate and specificity of Rubisco, the carboxylating enzyme operating in the Calvin–Benson cycle; however, they have achieved only limited success. Nature employs several alternative carbon fixation pathways, which prompted us to ask whether more efficient novel synthetic cycles could be devised. Using the entire repertoire of approximately 5,000 metabolic enzymes known to occur in nature, we computationally identified alternative carbon fixation pathways that combine existing metabolic building blocks from various organisms. We compared the natural and synthetic pathways based on physicochemical criteria that include kinetics, energetics, and topology. Our study suggests that some of the proposed synthetic pathways could have significant quantitative advantages over their natural counterparts, such as the overall kinetic rate. One such cycle, which is predicted to be two to three times faster than the Calvin–Benson cycle, employs the most effective carboxylating enzyme, phosphoenolpyruvate carboxylase, using the core of the naturally evolved C4 cycle. Although implementing such alternative cycles presents daunting challenges related to expression levels, activity, stability, localization, and regulation, we believe our findings suggest exciting avenues of exploration in the grand challenge of enhancing food and renewable fuel production via metabolic engineering and synthetic biology. PMID:20410460

  18. Malate synthesis by dark carbon dioxide fixation in leaves.

    PubMed

    Levi, C; Perchorowicz, J T; Gibbs, M

    1978-04-01

    The rates of dark CO(2) fixation and the label distribution in malate following dark (14)CO(2) fixation in a C-4 plant (maize), a C-3 plant (sunflower), and two Crassulacean acid metabolism plants (Bryophyllum calycinum and Kalanchoë diagremontianum leaves and plantlets) are compared. Within the first 30 minutes of dark (14)CO(2) fixation, leaves of maize, B. calycinum, and sunflower, and K. diagremontianum plantlets fix CO(2) at rates of 1.4, 3.4, 0.23, and 1.0 mumoles of CO(2)/mg of chlorophyll. hour, respectively. Net CO(2) fixation stops within 3 hours in maize and sunflower, but Crassulaceans continue fixing CO(2) for the duration of the 23-hour experiment.A bacterial procedure using Lactobacillus plantarum ATCC No. 8014 and one using malic enzyme to remove the beta-carboxyl (C(4)) from malate are compared. It is reported that highly purified malic enzyme and the bacterial method provide equivalent results. Less purified malic enzyme may overestimate the label in C(4) as much as 15 to 20%.The contribution of carbon atom 1 of malate is between 18 and 21% of the total carboxyl label after 1 minute of dark CO(2) fixation. Isotopic labeling in the two carboxyls approached unity with time. The rate of increase is greatest in sunflower leaves and Kalanchoë plantlets. In addition, Kalanchoë leaves fix (14)CO(2) more rapidly than Kalanchoë plantlets and the equilibration of the malate carboxyls occurs more slowly. The rates of fixation and the randomization are tissue-specific. The rate of fixation does not correlate with the rate of randomization of isotope in the malate carboxyls.

  19. Malate Synthesis by Dark Carbon Dioxide Fixation in Leaves 1

    PubMed Central

    Levi, Carolyn; Perchorowicz, John T.; Gibbs, Martin

    1978-01-01

    The rates of dark CO2 fixation and the label distribution in malate following dark 14CO2 fixation in a C-4 plant (maize), a C-3 plant (sunflower), and two Crassulacean acid metabolism plants (Bryophyllum calycinum and Kalanchoë diagremontianum leaves and plantlets) are compared. Within the first 30 minutes of dark 14CO2 fixation, leaves of maize, B. calycinum, and sunflower, and K. diagremontianum plantlets fix CO2 at rates of 1.4, 3.4, 0.23, and 1.0 μmoles of CO2/mg of chlorophyll· hour, respectively. Net CO2 fixation stops within 3 hours in maize and sunflower, but Crassulaceans continue fixing CO2 for the duration of the 23-hour experiment. A bacterial procedure using Lactobacillus plantarum ATCC No. 8014 and one using malic enzyme to remove the β-carboxyl (C4) from malate are compared. It is reported that highly purified malic enzyme and the bacterial method provide equivalent results. Less purified malic enzyme may overestimate the label in C4 as much as 15 to 20%. The contribution of carbon atom 1 of malate is between 18 and 21% of the total carboxyl label after 1 minute of dark CO2 fixation. Isotopic labeling in the two carboxyls approached unity with time. The rate of increase is greatest in sunflower leaves and Kalanchoë plantlets. In addition, Kalanchoë leaves fix 14CO2 more rapidly than Kalanchoë plantlets and the equilibration of the malate carboxyls occurs more slowly. The rates of fixation and the randomization are tissue-specific. The rate of fixation does not correlate with the rate of randomization of isotope in the malate carboxyls. PMID:16660319

  20. Carbon dioxide fixation by detached cereal caryopses

    SciTech Connect

    Watson, P.A.; Duffus, C.M. )

    1988-06-01

    Immature detached cereal caryposes from barley (Hordeum vulgare L. var distichum cv Midas) and wheat (Triticum aestivum L. cv Sicco) were shown to be capable of fixing externally supplied {sup 14}CO{sub 2} in the light or dark. Green cross cells and the testa contained the majority of the {sup 14}C-labeled material. Some {sup 14}C-labeled material was also found in the outer, or transparent, layer and in the endosperm/embryo fraction. More {sup 14}C was recovered from caryopses when they were incubated in {sup 14}CO{sub 2} without the transparent layer, thus suggesting that this layer is a barrier to the uptake of CO{sub 2}. In all cases, significant amounts of {sup 14}C-labeled material were found in caryopses after dark incubation with {sup 14}CO{sub 2}. Interestingly, CO{sub 2} fixation in the chlorophyll-less mutant Albino lemma was significantly greater in the light than in the dark. The results indicate that intact caryopses have the ability to translocate {sup 14}C-labeled assimilate derived from external CO{sub 2} to the endosperm/embryo. Carboxylating activity in the transparent layer appears to be confined to phosphoenolpyruvate carboxylase activity but that in the chloroplast-containing cross-cells may be accounted for by both ribulose-1,5-bisphosphate carboxylase-oxygenase and phosphoenolpyruvate carboxylase activity. Depending on a number of assumptions, the amount of CO{sub 2} fixed is sufficient to account for about 2% of the weight of starch found in the mature caryposis.

  1. Thermodynamic constraints shape the structure of carbon fixation pathways.

    PubMed

    Bar-Even, Arren; Flamholz, Avi; Noor, Elad; Milo, Ron

    2012-09-01

    Thermodynamics impose a major constraint on the structure of metabolic pathways. Here, we use carbon fixation pathways to demonstrate how thermodynamics shape the structure of pathways and determine the cellular resources they consume. We analyze the energetic profile of prototypical reactions and show that each reaction type displays a characteristic change in Gibbs energy. Specifically, although carbon fixation pathways display a considerable structural variability, they are all energetically constrained by two types of reactions: carboxylation and carboxyl reduction. In fact, all adenosine triphosphate (ATP) molecules consumed by carbon fixation pathways - with a single exception - are used, directly or indirectly, to power one of these unfavorable reactions. When an indirect coupling is employed, the energy released by ATP hydrolysis is used to establish another chemical bond with high energy of hydrolysis, e.g. a thioester. This bond is cleaved by a downstream enzyme to energize an unfavorable reaction. Notably, many pathways exhibit reduced ATP requirement as they couple unfavorable carboxylation or carboxyl reduction reactions to exergonic reactions other than ATP hydrolysis. In the most extreme example, the reductive acetyl coenzyme A (acetyl-CoA) pathway bypasses almost all ATP-consuming reactions. On the other hand, the reductive pentose phosphate pathway appears to be the least ATP-efficient because it is the only carbon fixation pathway that invests ATP in metabolic aims other than carboxylation and carboxyl reduction. Altogether, our analysis indicates that basic thermodynamic considerations accurately predict the resource investment required to support a metabolic pathway and further identifies biochemical mechanisms that can decrease this requirement.

  2. Carbon sequestration in soybean crop soils: the role of hydrogen-coupled CO2 fixation

    NASA Astrophysics Data System (ADS)

    Graham, A.; Layzell, D. B.; Scott, N. A.; Cen, Y.; Kyser, T. K.

    2011-12-01

    Conversion of native vegetation to agricultural land in order to support the world's growing population is a key factor contributing to global climate change. However, the extent to which agricultural activities contribute to greenhouse gas emissions compared to carbon storage is difficult to ascertain, especially for legume crops, such as soybeans. Soybean establishment often leads to an increase in N2O emissions because N-fixation leads to increased soil available N during decomposition of the low C:N legume biomass. However, soybean establishment may also reduce net greenhouse gas emissions by increasing soil fertility, plant growth, and soil carbon storage. The mechanism behind increased carbon storage, however, remains unclear. One explanation points to hydrogen coupled CO2 fixation; the process by which nitrogen fixation releases H2 into the soil system, thereby promoting chemoautotrophic carbon fixation by soil microbes. We used 13CO2 as a tracer to track the amount and fate of carbon fixed by hydrogen coupled CO2 fixation during one-year field and laboratory incubations. The objectives of the research are to 1) quantify rates of 13CO2 fixation in soil collected from a field used for long-term soybean production 2) examine the impact of H2 gas concentration on rates of 13CO2 fixation, and 3) measure changes in δ13C signature over time in 3 soil fractions: microbial biomass, light fraction, and acid stable fraction. If this newly-fixed carbon is incorporated into the acid-stable soil C fraction, it has a good chance of contributing to long-term soil C sequestration under soybean production. Soil was collected in the field both adjacent to root nodules (nodule soil) and >3cm away (root soil) and labelled with 13CO2 (1% v/v) in the presence and absence of H2 gas. After a two week labelling period, δ13C signatures already revealed differences in the four treatments of bulk soil: -17.1 for root, -17.6 for nodule, -14.2 for root + H2, and -6.1 for nodule + H2

  3. Quantifying uncertainty in future ocean carbon uptake

    NASA Astrophysics Data System (ADS)

    Dunne, John P.

    2016-10-01

    Attributing uncertainty in ocean carbon uptake between societal trajectory (scenarios), Earth System Model construction (structure), and inherent natural variation in climate (internal) is critical to make progress in identifying, understanding, and reducing those uncertainties. In the present issue of Global Biogeochemical Cycles, Lovenduski et al. (2016) disentangle these drivers of uncertainty in ocean carbon uptake over time and space and assess the resulting implications for the emergence timescales of structural and scenario uncertainty over internal variability. Such efforts are critical for establishing realizable and efficient monitoring goals and prioritizing areas of continued model development. Under recently proposed climate stabilization targets, such efforts to partition uncertainty also become increasingly critical to societal decision-making in the context of carbon stabilization.

  4. Abundance and Distribution of Diagnostic Carbon Fixation Genes in a Deep-Sea Hydrothermal Gradient Ecosystem

    NASA Astrophysics Data System (ADS)

    Blumenfeld, H. N.; Kelley, D. S.; Girguis, P. R.; Schrenk, M. O.

    2010-12-01

    hydrothermal chimneys. Ongoing analyses are aimed at quantifying the abundances of these diagnostic carbon fixation genes within the hydrothermal chimney gradients. These data are being compared to a broad array of contextual data to provide insight into the environmental and biological controls that may impact the distribution of the various carbon fixation pathways. Application of genomic approaches to the hydrothermal chimney ecosystem will provide insight into the microbial ecology of such structures and refine our ability to measure autotrophy in hydrothermal habitats sustained by chemical energy.

  5. Soil carbon sequestration: Quantifying this ecosystem service

    EPA Science Inventory

    Soils have a crucial role in supplying many goods and services that society depends upon on a daily basis. These include food and fiber production, water cleansing and supply, nutrient cycling, waste isolation and degradation. Soils also provide a significant amount of carbon s...

  6. Quantifying nitrogen-fixation in feather moss carpets of boreal forests.

    PubMed

    DeLuca, Thomas H; Zackrisson, Olle; Nilsson, Marie-Charlotte; Sellstedt, Anita

    2002-10-31

    Biological nitrogen (N) fixation is the primary source of N within natural ecosystems, yet the origin of boreal forest N has remained elusive. The boreal forests of Eurasia and North America lack any significant, widespread symbiotic N-fixing plants. With the exception of scattered stands of alder in early primary successional forests, N-fixation in boreal forests is considered to be extremely limited. Nitrogen-fixation in northern European boreal forests has been estimated at only 0.5 kg N ha(-1) yr(-1); however, organic N is accumulated in these ecosystems at a rate of 3 kg N ha(-1) yr(-1) (ref. 8). Our limited understanding of the origin of boreal N is unacceptable given the extent of the boreal forest region, but predictable given our imperfect knowledge of N-fixation. Herein we report on a N-fixing symbiosis between a cyanobacterium (Nostoc sp.) and the ubiquitous feather moss, Pleurozium schreberi (Bird) Mitt. that alone fixes between 1.5 and 2.0 kg N ha(-1) yr(-1) in mid- to late-successional forests of northern Scandinavia and Finland. Previous efforts have probably underestimated N-fixation potential in boreal forests.

  7. Quantifying the Carbon Intensity of Biomass Energy

    NASA Astrophysics Data System (ADS)

    Hodson, E. L.; Wise, M.; Clarke, L.; McJeon, H.; Mignone, B.

    2012-12-01

    Regulatory agencies at the national and regional level have recognized the importance of quantitative information about greenhouse gas emissions from biomass used in transportation fuels or in electricity generation. For example, in the recently enacted California Low-Carbon Fuel Standard, the California Air Resources Board conducted a comprehensive study to determine an appropriate methodology for setting carbon intensities for biomass-derived transportation fuels. Furthermore, the U.S. Environmental Protection Agency is currently conducting a multi-year review to develop a methodology for estimating biogenic carbon dioxide (CO2) emissions from stationary sources. Our study develops and explores a methodology to compute carbon emission intensities (CIs) per unit of biomass energy, which is a metric that could be used to inform future policy development exercises. To compute CIs for biomass, we use the Global Change Assessment Model (GCAM), which is an integrated assessment model that represents global energy, agriculture, land and physical climate systems with regional, sectoral, and technological detail. The GCAM land use and land cover component includes both managed and unmanaged land cover categories such as food crop production, forest products, and various non-commercial land uses, and it is subdivided into 151 global land regions (wiki.umd.edu/gcam), ten of which are located in the U.S. To illustrate a range of values for different biomass resources, we use GCAM to compute CIs for a variety of biomass crops grown in different land regions of the U.S. We investigate differences in emissions for biomass crops such as switchgrass, miscanthus and willow. Specifically, we use GCAM to compute global carbon emissions from the land use change caused by a marginal increase in the amount of biomass crop grown in a specific model region. Thus, we are able to explore how land use change emissions vary by the type and location of biomass crop grown in the U.S. Direct

  8. Carbon and nitrogen fixation differ between successional stages of biological soil crusts in the Colorado Plateau and Chihuahuan Desert

    USGS Publications Warehouse

    Housman, D.C.; Powers, H.H.; Collins, A.D.; Belnap, J.

    2006-01-01

    Biological soil crusts (cyanobacteria, mosses and lichens collectively) perform essential ecosystem services, including carbon (C) and nitrogen (N) fixation. Climate and land-use change are converting later successional soil crusts to early successional soil crusts with lower C and N fixation rates. To quantify the effect of such conversions on C and N dynamics in desert ecosystems we seasonally measured diurnal fixation rates in different biological soil crusts. We classified plots on the Colorado Plateau (Canyonlands) and Chihuahuan Desert (Jornada) as early (Microcoleus) or later successional (Nostoc/Scytonema or Placidium/Collema) and measured photosynthesis (Pn), nitrogenase activity (NA), and chlorophyll fluorescence (Fv/Fm) on metabolically active (moist) soil crusts. Later successional crusts typically had greater Pn, averaging 1.2-1.3-fold higher daily C fixation in Canyonlands and 2.4-2.8-fold higher in the Jornada. Later successional crusts also had greater NA, averaging 1.3-7.5-fold higher daily N fixation in Canyonlands and 1.3-25.0-fold higher in the Jornada. Mean daily Fv/Fm was also greater in later successional Canyonlands crusts during winter, and Jornada crusts during all seasons except summer. Together these findings indicate conversion of soil crusts back to early successional stages results in large reductions of C and N inputs into these ecosystems.

  9. Carbon fixation in oceanic crust: Does it happen, and is it important?

    NASA Astrophysics Data System (ADS)

    Orcutt, B.; Sylvan, J. B.; Rogers, D.; Lee, R.; Girguis, P. R.; Carr, S. A.; Jungbluth, S.; Rappe, M. S.

    2014-12-01

    The carbon sources supporting a deep biosphere in igneous oceanic crust, and furthermore the balance of heterotrophy and autotrophy, are poorly understood. When the large reservoir size of oceanic crust is considered, carbon transformations in this environment have the potential to significantly impact the global carbon cycle. Furthermore, igneous oceanic crust is the most massive potential habitat for life on Earth, so understanding the carbon sources for this potential biosphere are important for understanding life on Earth. Geochemical evidence suggests that warm and anoxic upper basement is net heterotrophic, but the balance of these processes in cooler and potentially oxic oceanic crust are poorly known. Here, we present data from stable carbon isotope tracer incubations to examine carbon fixation in basalts collected from the Loihi Seamount, the Juan de Fuca Ridge, and the western flank of the Mid-Atlantic Ridge, to provide a first order constraint on the rates of carbon fixation on basalts. These data will be compared to recently available assessments of carbon cycling rates in fluids from upper basement to synthesize our current state of understanding of the potential for carbon fixation and respiration in oceanic crust. Moreover, we will present new genomic data of carbon fixation genes observed in the basalt enrichments as well as from the subsurface of the Juan de Fuca Ridge flank, enabling identification of the microbes and metabolic pathways involved in carbon fixation in these systems.

  10. Temporal sequences quantify the contributions of individual fixations in complex perceptual matching tasks.

    PubMed

    Busey, Thomas; Yu, Chen; Wyatte, Dean; Vanderkolk, John

    2013-01-01

    Perceptual tasks such as object matching, mammogram interpretation, mental rotation, and satellite imagery change detection often require the assignment of correspondences to fuse information across views. We apply techniques developed for machine translation to the gaze data recorded from a complex perceptual matching task modeled after fingerprint examinations. The gaze data provide temporal sequences that the machine translation algorithm uses to estimate the subjects' assumptions of corresponding regions. Our results show that experts and novices have similar surface behavior, such as the number of fixations made or the duration of fixations. However, the approach applied to data from experts is able to identify more corresponding areas between two prints. The fixations that are associated with clusters that map with high probability to corresponding locations on the other print are likely to have greater utility in a visual matching task. These techniques address a fundamental problem in eye tracking research with perceptual matching tasks: Given that the eyes always point somewhere, which fixations are the most informative and therefore are likely to be relevant for the comparison task?

  11. Phytoplankton Productivity in an Arctic Fjord (West Greenland): Estimating Electron Requirements for Carbon Fixation and Oxygen Production

    PubMed Central

    Hancke, Kasper; Dalsgaard, Tage; Sejr, Mikael Kristian; Markager, Stiig; Glud, Ronnie Nøhr

    2015-01-01

    Accurate quantification of pelagic primary production is essential for quantifying the marine carbon turnover and the energy supply to the food web. Knowing the electron requirement (Κ) for carbon (C) fixation (ΚC) and oxygen (O2) production (ΚO2), variable fluorescence has the potential to quantify primary production in microalgae, and hereby increasing spatial and temporal resolution of measurements compared to traditional methods. Here we quantify ΚC and ΚO2 through measures of Pulse Amplitude Modulated (PAM) fluorometry, C fixation and O2 production in an Arctic fjord (Godthåbsfjorden, W Greenland). Through short- (2h) and long-term (24h) experiments, rates of electron transfer (ETRPSII), C fixation and/or O2 production were quantified and compared. Absolute rates of ETR were derived by accounting for Photosystem II light absorption and spectral light composition. Two-hour incubations revealed a linear relationship between ETRPSII and gross 14C fixation (R2 = 0.81) during light-limited photosynthesis, giving a ΚC of 7.6 ± 0.6 (mean ± S.E.) mol é (mol C)−1. Diel net rates also demonstrated a linear relationship between ETRPSII and C fixation giving a ΚC of 11.2 ± 1.3 mol é (mol C)−1 (R2 = 0.86). For net O2 production the electron requirement was lower than for net C fixation giving 6.5 ± 0.9 mol é (mol O2)−1 (R2 = 0.94). This, however, still is an electron requirement 1.6 times higher than the theoretical minimum for O2 production [i.e. 4 mol é (mol O2)−1]. The discrepancy is explained by respiratory activity and non-photochemical electron requirements and the variability is discussed. In conclusion, the bio-optical method and derived electron requirement support conversion of ETR to units of C or O2, paving the road for improved spatial and temporal resolution of primary production estimates. PMID:26218096

  12. Carbon dioxide fixation and lipid storage by Scenedesmus obtusiusculus.

    PubMed

    Toledo-Cervantes, Alma; Morales, Marcia; Novelo, Eberto; Revah, Sergio

    2013-02-01

    An indigenous microalga was isolated from the springs in Cuatro Ciénegas, México. It was morphologically identified as Scenedesmus obtusiusculus and cultivated in bubble-column photobioreactors in batch operation mode. This microalga grows at 10% of carbon dioxide (CO(2)) showing a maximum CO(2) fixation rate of 970gm(-3)d(-1). The microalga, without any nutrient limitation, contained 20% of nonpolar lipids with a biomass productivity of 500gm(-3)d(-1) and a maximum biomass concentration of around 6,000gm(-3) at 5% CO(2) and irradiance of 134μmolm(-2)s(-1). Furthermore, it was observed that the microalga stored 55.7% of nonpolar lipids when 5% CO(2) was fed at 0.8vvm and 54.7μmolm(-2)s(-1) under nitrogen starvation. The lipid profile included C16:0, C18:0, C18:1n9t, C18:1n9c, C18:3n6 with a productivity of 200g lipid m(-3)d(-1). Therefore, the microalga may have biotechnological potential producing lipids for biodiesel.

  13. A Simple Demonstration of Carbon Dioxide Fixation and Acid Production in CAM Plants

    ERIC Educational Resources Information Center

    Walker, John R. L.; McWha, James A.

    1976-01-01

    Described is an experiment investigating carbon dioxide fixation in the dark and the diurnal rhythm of acid production in plants exhibiting Crassulacean Acid Metabolism. Included are suggestions for four further investigations. (SL)

  14. Facile Carbon Fixation to Performic Acids by Water-Sealed Dielectric Barrier Discharge

    PubMed Central

    Kawasaki, Mitsuo; Morita, Tatsuo; Tachibana, Kunihide

    2015-01-01

    Carbon fixation refers to the conversion of carbon dioxide (CO2) to organic materials, as commonly performed in nature through photosynthesis by plants and other autotrophic organisms. The creation of artificial carbon fixation processes is one of the greatest challenges for chemistry to solve the critical environmental issue concerning the reduction of CO2 emissions. We have developed an electricity-driven facile CO2 fixation process that yields performic acid, HCO2OH, from CO2 and water at neutral pH by dielectric barrier discharge with an input electric power conversion efficiency of currently 0.2−0.4%. This method offers a promising future technology for artificial carbon fixation on its own, and may also be scaled up in combination with e.g., the post-combustion CO2 capture and storage technology. PMID:26439402

  15. A Sustainability Initiative to Quantify Carbon Sequestration by Campus Trees

    ERIC Educational Resources Information Center

    Cox, Helen M.

    2012-01-01

    Over 3,900 trees on a university campus were inventoried by an instructor-led team of geography undergraduates in order to quantify the carbon sequestration associated with biomass growth. The setting of the project is described, together with its logistics, methodology, outcomes, and benefits. This hands-on project provided a team of students…

  16. A method for quantifying bioavailable organic carbon in aquifer sediments

    USGS Publications Warehouse

    Rectanus, H.V.; Widdowson, M.; Novak, J.; Chapelle, F.

    2005-01-01

    The fact that naturally occurring microorganisms can biodegrade PCE and TCE allows the use of monitored natural attenuation (MNA) as a remediation strategy at chlorinated solvent-contaminated sites. Research at numerous chlorinated solvent sites indicates an active dechlorinating microbial population coupled with an ample supply of organic carbon are conditions needed to sustain reductive dechlorination. A series of extraction experiments was used to compare the ability of the different extractants to remove organic carbon from aquifer sediments. The different extractants included pyrophosphate, sodium hydroxide, and polished water. Pyrophosphate served as a mild extractant that minimally alters the organic structure of the extracted material. Three concentrations (0.1, 0.5, and 1%) of pyrophosphate extracted 18.8, 24.9, and 30.8% of sediment organic carbon, respectively. Under alkali conditions (0.5 N NaOH), which provided the harshest extractant, 30.7% of the sediment organic carbon was recovered. Amorphous organic carbon, measured by potassium persulfate oxidization, consisted of 44.6% of the sediment organic carbon and served as a baseline control for maximum carbon removal. Conversely, highly purified water provided a minimal extraction control and extracted 5.7% of the sediment organic carbon. The removal of organic carbon was quantified by aqueous TOC in the extract and residual sediment organic carbon content. Characterization of the organic carbon extracts by compositional analysis prior and after exposure to the mixed culture might indicate the type organic carbon and functional groups used and/or generated by the organisms. This is an abstract of a paper presented at the 8th International In Situ and On-Site Bioremediation Symposium (Baltimore, MD 6/6-9/2005).

  17. Carbon bio-fixation by photosynthesis of Thermosynechococcus sp. CL-1 and Nannochloropsis oculta.

    PubMed

    Hsueh, H T; Li, W J; Chen, H H; Chu, H

    2009-04-02

    There is a great potential to assimilate CO(2) and produce bio-energy from cellular component by utilizing carbon fixation of photosynthetic microorganisms. Two different types of photosynthetic microorganisms were used in the present study. The strain Thermosynechococcus sp. CL-1 (TCL-1) was previously isolated from a hot spring while Nannochloropsis sp.Oculta (NAO) from sea water. Two types of inorganic carbon were used (gaseous CO(2) and dissolved inorganic carbon, DIC) with nitrate as N source under different temperature conditions. The Monod model was used to relate its growth rate and DIC concentration. Additionally, lipid and carbohydrate of cell component, which can be used as bio-energy precursors, as function of CO(2) and DIC concentrations is quantified. The growth rate of TCL-1 decreased as CO(2) concentrations increased from 10% to 40% due to low pH inhibition with the maximum value 2.7 d(-1) at 10% CO(2). As for NAO, the maximum growth rate of about 1.6 d(-1) was obtained at 5% and 8% CO(2) (pH between 5.5 and 7 at 30 degrees C). Regarding the cultivation of TCL-1 under various DIC concentrations, the maximum growth rate of TCL-1 was 3.5 d(-1) at the initial DIC 94.3 mM, pH 9.5 and 50 degrees C. The carbohydrate content of TCL-1 increased from 2.1% to 33% as DIC concentration increased from 4.7 to 94.3 mM. However, the 33% carbohydrate content at 94.3 mM DIC was much less than 61% at 10% CO(2). That may be due to the fact that the cultivation at 94.3 mM DIC can not supply adequate amounts of DIC to produce carbohydrate under N-limiting conditions. Conversely, enough amounts of DIC supplied from washing flue gas for cultivating TCL-1 would provide a higher performance of carbon bio-fixation and carbohydrate production.

  18. Quantifying Belowground Carbon Allocation in the Northeastern United States

    NASA Astrophysics Data System (ADS)

    Silverberg, S. K.; Ollinger, S. V.; Smith, M.; Lloyd, K. L.

    2005-12-01

    Forest soils represent a substantial component of the terrestrial carbon cycle and are an important research area for a number of carbon cycle science initiatives. Whereas patterns of aboveground productivity have been relatively well measured and are increasingly included in regional-scale model analyses, belowground estimates are still highly uncertain and progress has been hampered by a variety of methodological difficulties. The lack of data poses a problem because belowground measurements are needed to create a complete carbon budget for terrestrial ecosystems at local, regional and global scales. Ecosystem carbon balances will help identify how and where carbon is being stored, as well as how that might change as forests grow, die back, or transition into different forest types as a result of climate changes. This study focuses on quantifying belowground carbon allocation in the Bartlett Experimental Forest (BEF) of the New Hampshire White Mountains, and examining the degree to which spatial patterns can be related to patterns of soil and canopy nitrogen status. The work is part of a landscape-scale North American Carbon Program (NACP) study currently taking place at the BEF. Belowground carbon allocation can be estimated by subtracting soil respiration from litter (leaf, branch) measurements. Litter and soil respiration are being measured at two scales within the study area. The first includes a 1km2 area around an eddy flux tower at BEF, and is part of the intensive NACP study. Additional plots are distributed throughout the broader landscape to capture a greater degree of variation in vegetation, soils and topography. The goals of the project are (1) to contribute the belowground carbon portion to the total ecosystem carbon budget of BEF, and (2) to extrapolate soil carbon from the plot level to landscape and regional scales using remote sensing of foliar N.

  19. In vivo implant fixation of carbon fiber-reinforced PEEK hip prostheses in an ovine model.

    PubMed

    Nakahara, Ichiro; Takao, Masaki; Bandoh, Shunichi; Bertollo, Nicky; Walsh, William R; Sugano, Nobuhiko

    2013-03-01

    Carbon fiber-reinforced polyetheretherketone (CFR/PEEK) is theoretically suitable as a material for use in hip prostheses, offering excellent biocompatibility, mechanical properties, and the absence of metal ions. To evaluate in vivo fixation methods of CFR/PEEK hip prostheses in bone, we examined radiographic and histological results for cementless or cemented CFR/PEEK hip prostheses in an ovine model with implantation up to 52 weeks. CFR/PEEK cups and stems with rough-textured surfaces plus hydroxyapatite (HA) coatings for cementless fixation and CFR/PEEK cups and stems without HA coating for cement fixation were manufactured based on ovine computed tomography (CT) data. Unilateral total hip arthroplasty was performed using cementless or cemented CFR/PEEK hip prostheses. Five cementless cups and stems and six cemented cups and stems were evaluated. On the femoral side, all cementless stems demonstrated bony ongrowth fixation and all cemented stems demonstrated stable fixation without any gaps at both the bone-cement and cement-stem interfaces. All cementless cases and four of the six cemented cases showed minimal stress shielding. On the acetabular side, two of the five cementless cups demonstrated bony ongrowth fixation. Our results suggest that both cementless and cemented CFR/PEEK stems work well for fixation. Cup fixation may be difficult for both cementless and cemented types in this ovine model, but bone ongrowth fixation on the cup was first seen in two cementless cases. Cementless fixation can be achieved using HA-coated CFR/PEEK implants, even under load-bearing conditions.

  20. A model for diurnal patterns of carbon fixation in a Precambrian microbial mat based on a modern analog

    NASA Technical Reports Server (NTRS)

    Rothschild, L. J.

    1991-01-01

    Microbial mat communities are one of the first and most prevalent biological communities known from the Precambrian fossil record. These fossil mat communities are found as laminated sedimentary rock structures called stromatolites. Using a modern microbial mat as an analog for Precambrian stromatolites, a study of carbon fixation during a diurnal cycle under ambient conditions was undertaken. The rate of carbon fixation depends primarily on the availability of light (consistent with photosynthetic carbon fixation) and inorganic carbon, and not nitrogen or phosphorus. Atmospheric PCO2 is thought to have decreased from 10 bars at 4 Ga (10(9) years before present) to approximately 10(-4) bars today, implying a change in the availability of inorganic carbon for carbon fixation. Experimental manipulation of levels of inorganic carbon to levels that may have been available to Precambrian mat communities resulted in increased levels of carbon fixation during daylight hours. Combining these data with models of daylength during the Precambrian, models are derived for diurnal patterns of photosynthetic carbon fixation in a Precambrian microbial mat community. The models suggest that, even in the face of shorter daylengths during the Precambrian, total daily carbon fixation has been declining over geological time, with most of the decrease having occurred during the Precambrian.

  1. A model for diurnal patterns of carbon fixation in a Precambrian microbial mat based on a modern analog.

    PubMed

    Rothschild, L J

    1991-01-01

    Microbial mat communities are one of the first and most prevalent biological communities known from the Precambrian fossil record. These fossil mat communities are found as laminated sedimentary rock structures called stromatolites. Using a modern microbial mat as an analog for Precambrian stromatolites, a study of carbon fixation during a diurnal cycle under ambient conditions was undertaken. The rate of carbon fixation depends primarily on the availability of light (consistent with photosynthetic carbon fixation) and inorganic carbon, and not nitrogen or phosphorus. Atmospheric PCO2 is thought to have decreased from 10 bars at 4 Ga (10(9) years before present) to approximately 10(-4) bars today, implying a change in the availability of inorganic carbon for carbon fixation. Experimental manipulation of levels of inorganic carbon to levels that may have been available to Precambrian mat communities resulted in increased levels of carbon fixation during daylight hours. Combining these data with models of daylength during the Precambrian, models are derived for diurnal patterns of photosynthetic carbon fixation in a Precambrian microbial mat community. The models suggest that, even in the face of shorter daylengths during the Precambrian, total daily carbon fixation has been declining over geological time, with most of the decrease having occurred during the Precambrian.

  2. Carbon dioxide fixation and respiration relationships observed during closure experiments in Biosphere 2

    NASA Astrophysics Data System (ADS)

    Nelson, Mark; Dempster, William; Allen, John P.

    Biosphere 2 enclosed several ecosystems - ones analogous to rainforest, tropical savannah, thornscrub, desert, marsh and coral reef - and a diverse agro-ecology, with dozens of food crops, in virtual material isolation from Earth's environment. This permits a detailed examination of fixation and respiration from the continuous record of carbon dioxide concentration from sensors inside the facility. Unlike the Earth, all the ecosystems were active during sunlight hours, while phyto and soil respiration dominated nighttime hours. This resulted in fluctuations of as much as 600-700 ppm CO2 daily during days of high sunlight input. We examine the relationships between daytime fixation as driven by photosynthesis to nighttime respiration and also fixation and respiration as related to carbon dioxide concentration. Since carbon dioxide concentrations varied from near Earth ambient levels to over 3000 ppm (during low-light winter months), the response of the plant communities and impact on phytorespiration and soil respiration may be of relevance to the global climate change research community. An investigation of these dynamics will also allow the testing of models predicting the response of community metabolism to variations in sunlight and degree of previous net carbon fixation.

  3. Evaluating agricultural and nonagricultural carbon fixation over India using remote sensing data

    NASA Astrophysics Data System (ADS)

    Hooda, Ramesh S.; Dye, D. G.; Shibasaki, Ryosuke

    2003-03-01

    NASA/NOAA Pathfinder AVHRR Land (PAL) 10 day composited NDVI data with a spatial resolution of 8 km was used to estimate carbon-fixation and biomass over Indian territory. The study area was classified into agricultural and non-agricultural based upon the NDVI-climatological modeling technique. The Production Efficiency Model (PEM), which decomposits productivity into independent parameters, was used to evaluate the Net Primary Productivity (NPP). The NDVI data for the three years was used to estimate fraction of PAR absorbed (fAPAR) based upon the relationship provided by SAIL model. Incident PAR (IPAR) data set for India was extracted from the monthly global IPAR data set already generated using UV reflectivity data. The IPAR data when combined with the fAPAR data provided absorbed PAR (APAR). APAR was converted to NPP using the mean PAR conversion efficiency values calculated based upon literature survey. The NPP was finally converted to biomass and carbon-fixation. It was observed that about 50 per cent of the carbon-fixation and consequently biomass production over India is through agricultural crops. This appears to be quite substantial compared to the global scenario. Annual variations in carbon-fixation have been explained by changing cropping seasons whereas the inter-annual variations by the anomalies in the monsoon in the region.

  4. Quantifying historical carbon and climate debts among nations

    NASA Astrophysics Data System (ADS)

    Matthews, H. Damon

    2016-01-01

    Contributions to historical climate change have varied substantially among nations. These differences reflect underlying inequalities in wealth and development, and pose a fundamental challenge to the implementation of a globally equitable climate mitigation strategy. This Letter presents a new way to quantify historical inequalities among nations using carbon and climate debts, defined as the amount by which national climate contributions have exceeded a hypothetical equal per-capita share over time. Considering only national CO2 emissions from fossil fuel combustion, accumulated carbon debts across all nations from 1990 to 2013 total 250 billion tonnes of CO2, representing 40% of cumulative world emissions since 1990. Expanding this to reflect the temperature response to a range of emissions, historical climate debts accrued between 1990 and 2010 total 0.11 °C, close to a third of observed warming over that period. Large fractions of this debt are carried by industrialized countries, but also by countries with high levels of deforestation and agriculture. These calculations could contribute to discussions of climate responsibility by providing a tangible way to quantify historical inequalities, which could then inform the funding of mitigation, adaptation and the costs of loss and damages in those countries that have contributed less to historical warming.

  5. Sulfur oxidizers dominate carbon fixation at a biogeochemical hot spot in the dark ocean

    PubMed Central

    Mattes, Timothy E; Nunn, Brook L; Marshall, Katharine T; Proskurowski, Giora; Kelley, Deborah S; Kawka, Orest E; Goodlett, David R; Hansell, Dennis A; Morris, Robert M

    2013-01-01

    Bacteria and archaea in the dark ocean (>200 m) comprise 0.3–1.3 billion tons of actively cycled marine carbon. Many of these microorganisms have the genetic potential to fix inorganic carbon (autotrophs) or assimilate single-carbon compounds (methylotrophs). We identified the functions of autotrophic and methylotrophic microorganisms in a vent plume at Axial Seamount, where hydrothermal activity provides a biogeochemical hot spot for carbon fixation in the dark ocean. Free-living members of the SUP05/Arctic96BD-19 clade of marine gamma-proteobacterial sulfur oxidizers (GSOs) are distributed throughout the northeastern Pacific Ocean and dominated hydrothermal plume waters at Axial Seamount. Marine GSOs expressed proteins for sulfur oxidation (adenosine phosphosulfate reductase, sox (sulfur oxidizing system), dissimilatory sulfite reductase and ATP sulfurylase), carbon fixation (ribulose-1,5-bisphosphate carboxylase oxygenase (RuBisCO)), aerobic respiration (cytochrome c oxidase) and nitrogen regulation (PII). Methylotrophs and iron oxidizers were also active in plume waters and expressed key proteins for methane oxidation and inorganic carbon fixation (particulate methane monooxygenase/methanol dehydrogenase and RuBisCO, respectively). Proteomic data suggest that free-living sulfur oxidizers and methylotrophs are among the dominant primary producers in vent plume waters in the northeastern Pacific Ocean. PMID:23842654

  6. Sulfur oxidizers dominate carbon fixation at a biogeochemical hot spot in the dark ocean.

    PubMed

    Mattes, Timothy E; Nunn, Brook L; Marshall, Katharine T; Proskurowski, Giora; Kelley, Deborah S; Kawka, Orest E; Goodlett, David R; Hansell, Dennis A; Morris, Robert M

    2013-12-01

    Bacteria and archaea in the dark ocean (>200 m) comprise 0.3-1.3 billion tons of actively cycled marine carbon. Many of these microorganisms have the genetic potential to fix inorganic carbon (autotrophs) or assimilate single-carbon compounds (methylotrophs). We identified the functions of autotrophic and methylotrophic microorganisms in a vent plume at Axial Seamount, where hydrothermal activity provides a biogeochemical hot spot for carbon fixation in the dark ocean. Free-living members of the SUP05/Arctic96BD-19 clade of marine gamma-proteobacterial sulfur oxidizers (GSOs) are distributed throughout the northeastern Pacific Ocean and dominated hydrothermal plume waters at Axial Seamount. Marine GSOs expressed proteins for sulfur oxidation (adenosine phosphosulfate reductase, sox (sulfur oxidizing system), dissimilatory sulfite reductase and ATP sulfurylase), carbon fixation (ribulose-1,5-bisphosphate carboxylase oxygenase (RuBisCO)), aerobic respiration (cytochrome c oxidase) and nitrogen regulation (PII). Methylotrophs and iron oxidizers were also active in plume waters and expressed key proteins for methane oxidation and inorganic carbon fixation (particulate methane monooxygenase/methanol dehydrogenase and RuBisCO, respectively). Proteomic data suggest that free-living sulfur oxidizers and methylotrophs are among the dominant primary producers in vent plume waters in the northeastern Pacific Ocean.

  7. Phosphoribulokinase mediates nitrogenase-induced carbon dioxide fixation gene repression in Rhodobacter sphaeroides

    PubMed Central

    Farmer, Ryan M.

    2015-01-01

    In many organisms there is a balance between carbon and nitrogen metabolism. These observations extend to the nitrogen-fixing, nonsulfur purple bacteria, which have the classic family of P(II) regulators that coordinate signals of carbon and nitrogen status to regulate nitrogen metabolism. Curiously, these organisms also possess a reverse mechanism to regulate carbon metabolism based on cellular nitrogen status. In this work, studies in Rhodobacter sphaeroides firmly established that the activity of the enzyme that catalyses nitrogen fixation, nitrogenase, induces a signal that leads to repression of genes encoding enzymes of the Calvin–Benson–Bassham (CBB) CO2 fixation pathway. Additionally, genetic and metabolomic experiments revealed that NADH-activated phosphoribulokinase is an intermediate in the signalling pathway. Thus, nitrogenase activity appears to be linked to cbb gene repression through phosphoribulokinase. PMID:26306848

  8. Metal-complex/semiconductor hybrids for carbon dioxide fixation

    NASA Astrophysics Data System (ADS)

    Maeda, Kazuhiko; Kuriki, Ryo; Sekizawa, Keita; Ishitani, Osamu

    2015-09-01

    A hybrid photocatalyst consisting of a catalytic Ru complex and polymeric carbon nitride (band gap, 2.7 eV) was capable of reducing CO2 into HCOOH with ~80% selectivity under visible light (λ > 420 nm) in the presence of a suitable electron donor. Introduction of mesoporosity into the graphitic carbon nitride structure to increase the specific surface area was essential to enhancing the activity. However, higher surface area (in other words, lower crystallinity) that originated from excessively introduced mesopores had a negative impact on activity. Promoting electron injection from carbon nitride to the catalytic Ru unit as well as strengthening the electronic interactions between the two units improved the activity. Under the optimal condition, a turnover number (TON, with respect to the Ru complex used) greater than 1000 and an apparent quantum yield of 5.7% (at 400 nm) were obtained, which are the greatest among heterogeneous photocatalysts for visible-light CO2 reduction ever reported.

  9. The effect of nutrients on carbon and nitrogen fixation by the UCYN-A-haptophyte symbiosis.

    PubMed

    Krupke, Andreas; Mohr, Wiebke; LaRoche, Julie; Fuchs, Bernhard M; Amann, Rudolf I; Kuypers, Marcel M M

    2015-07-01

    Symbiotic relationships between phytoplankton and N2-fixing microorganisms play a crucial role in marine ecosystems. The abundant and widespread unicellular cyanobacteria group A (UCYN-A) has recently been found to live symbiotically with a haptophyte. Here, we investigated the effect of nitrogen (N), phosphorus (P), iron (Fe) and Saharan dust additions on nitrogen (N2) fixation and primary production by the UCYN-A-haptophyte association in the subtropical eastern North Atlantic Ocean using nifH expression analysis and stable isotope incubations combined with single-cell measurements. N2 fixation by UCYN-A was stimulated by the addition of Fe and Saharan dust, although this was not reflected in the nifH expression. CO2 fixation by the haptophyte was stimulated by the addition of ammonium nitrate as well as Fe and Saharan dust. Intriguingly, the single-cell analysis using nanometer scale secondary ion mass spectrometry indicates that the increased CO2 fixation by the haptophyte in treatments without added fixed N is likely an indirect result of the positive effect of Fe and/or P on UCYN-A N2 fixation and the transfer of N2-derived N to the haptophyte. Our results reveal a direct linkage between the marine carbon and nitrogen cycles that is fuelled by the atmospheric deposition of dust. The comparison of single-cell rates suggests a tight coupling of nitrogen and carbon transfer that stays balanced even under changing nutrient regimes. However, it appears that the transfer of carbon from the haptophyte to UCYN-A requires a transfer of nitrogen from UCYN-A. This tight coupling indicates an obligate symbiosis of this globally important diazotrophic association.

  10. Effects of elevated carbon dioxide concentration on growth and N2 fixation of young Robinia pseudoacacia.

    PubMed

    Feng, Z; Dyckmans, J; Flessa, H

    2004-03-01

    Effects of elevated CO2 concentration ([CO2]) on carbon (C) and nitrogen (N) uptake and N source partitioning (N2 fixation versus mineral soil N uptake) of 1-year-old Robinia pseudoacacia were determined in a dual 13C and 15N continuous labeling experiment. Seedlings were grown for 16 weeks in ambient (350 ppm) or elevated [CO2] (700 ppm) with 15NH4 15NO3 as the only mineral nitrogen source. Elevated [CO2] increased the fraction of new C in total C, but it did not alter C partitioning among plant compartments. Elevated [CO2] also increased the fraction of new N in total N and this was coupled with a shift in N source partitioning toward N2 fixation. Soil N uptake was unaffected by elevated [CO2], whereas N2 fixation was markedly increased by the elevated [CO2] treatment, mainly because of increased specific fixation (mg N mg(-1) nodule). As a result of increased N2 fixation, the C/N ratio of tree biomass tended to decrease in the elevated [CO2] treatment. Partitioning of N uptake among plant compartments was unaffected by elevated [CO2]. Total dry mass of root nodules doubled in response to elevated [CO2], but this effect was not significant because of the great variability of root nodule formation. Our results show that, in the N2-fixing R. pseudoacacia, increased C uptake in response to increased [CO2] is matched by increased N2 fixation, indicating that enhanced growth in elevated [CO2] might not be restricted by N limitations.

  11. Carbon Fixation Driven by Molecular Hydrogen Results in Chemolithoautotrophically Enhanced Growth of Helicobacter pylori

    PubMed Central

    Kuhns, Lisa G.; Benoit, Stéphane L.; Bayyareddy, Krishnareddy; Johnson, Darryl; Orlando, Ron; Evans, Alexandra L.; Waldrop, Grover L.

    2016-01-01

    ABSTRACT A molecular hydrogen (H2)-stimulated, chemolithoautotrophic growth mode for the gastric pathogen Helicobacter pylori is reported. In a culture medium containing peptides and amino acids, H2-supplied cells consistently achieved 40 to 60% greater growth yield in 16 h and accumulated 3-fold more carbon from [14C]bicarbonate (on a per cell basis) in a 10-h period than cells without H2. Global proteomic comparisons of cells supplied with different atmospheric conditions revealed that addition of H2 led to increased amounts of hydrogenase and the biotin carboxylase subunit of acetyl coenzyme A (acetyl-CoA) carboxylase (ACC), as well as other proteins involved in various cellular functions, including amino acid metabolism, heme synthesis, or protein degradation. In agreement with this result, H2-supplied cells contained 3-fold more ACC activity than cells without H2. Other possible carbon dioxide (CO2) fixation enzymes were not up-expressed under the H2-containing atmosphere. As the gastric mucus is limited in carbon and energy sources and the bacterium lacks mucinase, this new growth mode may contribute to the persistence of the pathogen in vivo. This is the first time that chemolithoautotrophic growth is described for a pathogen. IMPORTANCE Many pathogens must survive within host areas that are poorly supplied with carbon and energy sources, and the gastric pathogen Helicobacter pylori resides almost exclusively in the nutritionally stringent mucus barrier of its host. Although this bacterium is already known to be highly adaptable to gastric niches, a new aspect of its metabolic flexibility, whereby molecular hydrogen use (energy) is coupled to carbon dioxide fixation (carbon acquisition) via a described carbon fixation enzyme, is shown here. This growth mode, which supplements heterotrophy, is termed chemolithoautotrophy and has not been previously reported for a pathogen. PMID:26929299

  12. The Pathway of Carbon Dioxide Fixation in Crassulacean Plants 1

    PubMed Central

    Cockburn, William; McAulay, Alec

    1975-01-01

    Combined gas chromatography-mass spectrometry of malic acid derivatives has been used to show unequivocally that malic acid, synthesized during active acid accumulation in the dark by Kalanchoë daigremontiana Hammet et Perrier in the presence of 13CO2 is produced by a pathway involving a single carboxylation. The significance of the finding that crassulacean malate synthesized in the dark and in the presence of 14CO2 often contains 66% of the total carboxyl label in carbon atom 4, which has previously been taken to indicate the operation of a double carboxylation pathway or has been dismissed as an artefact, is discussed. PMID:16659035

  13. Water Conservation in Kalanchoe blossfeldiana in Relation to Carbon Dioxide Dark Fixation

    PubMed Central

    Zabka, George G.; Chaturvedi, S. N.

    1975-01-01

    The succulent Kalanchoe blossfeldiana v. Poel. var Tom Thumb was treated on long and short photoperiods for 6 weeks during which short day plants developed thicker leaves, flowered prolifically, and exhibited extensive net dark fixation of carbon dioxide. In contrast, long day plants remained vegetative and did not develop thicker leaves or exhibit net carbon dioxide dark fixation. When examined after the photoperiodic state described, long day plants showed approximately three times more water loss over a 10-day period than short day plants. Water loss is similar during light and dark periods for short day plants but long day plants exhibited two times more water loss during the day than at night. The latter plants also lost three and one-half times more water during the light period than short day plants. The water conservation by short day plants is correlated with conditions of high carbon dioxide dark fixation and effects of its related Crassulacean acid metabolism on stomatal behavior. PMID:16659116

  14. Isocyanate- and phosgene-free routes to polyfunctional cyclic carbonates and green polyurethanes by fixation of carbon dioxide.

    PubMed

    Blattmann, Hannes; Fleischer, Maria; Bähr, Moritz; Mülhaupt, Rolf

    2014-07-01

    The catalytic chemical fixation of carbon dioxide by carbonation of oxiranes, oxetanes, and polyols represents a very versatile green chemistry route to environmentally benign di- and polyfunctional cyclic carbonates as intermediates for the formation of non-isocyanate poly-urethane (NIPU). Two synthetic pathways lead to NIPU thermoplastics and thermosets: i) polycondensation of diacarbamates or acyclic dicarbonates with diols or diamines, respectively, and ii) polyaddition by ring-opening polymerization of di- and polyfunctional cyclic carbonates with di- and polyamines. The absence of hazardous and highly moisture-sensitive isocyanates as intermediates eliminates the need for special safety precautions, drying and handling procedures. Incorporated into polymer backbones and side chains, carbonate groups enable facile tailoring of a great variety of urethane-functional polymers. As compared with conventional polyurethanes, ring-opening polymerization of polyfunctional cyclic carbonates affords polyhydroxyurethanes with unconventional architectures including NIPUs containing carbohydrate segments. NIPU/epoxy hybrid coatings can be applied on wet surfaces and exhibit improved adhesion, thermal stability and wear resistance. Combining chemical with biological carbon dioxide fixation affords 100% bio-based NIPUs derived from plant oils, terpenes, carbohydrates, and bio polyols. Biocompatible and biodegradable NIPU as well as NIPU biocomposites hold great promise for biomedical applications.

  15. Chemoautotrophic carbon fixation rates and active bacterial communities in intertidal marine sediments.

    PubMed

    Boschker, Henricus T S; Vasquez-Cardenas, Diana; Bolhuis, Henk; Moerdijk-Poortvliet, Tanja W C; Moodley, Leon

    2014-01-01

    Chemoautotrophy has been little studied in typical coastal marine sediments, but may be an important component of carbon recycling as intense anaerobic mineralization processes in these sediments lead to accumulation of high amounts of reduced compounds, such as sulfides and ammonium. We studied chemoautotrophy by measuring dark-fixation of 13C-bicarbonate into phospholipid derived fatty acid (PLFA) biomarkers at two coastal sediment sites with contrasting sulfur chemistry in the Eastern Scheldt estuary, The Netherlands. At one site where free sulfide accumulated in the pore water right to the top of the sediment, PLFA labeling was restricted to compounds typically found in sulfur and ammonium oxidizing bacteria. At the other site, with no detectable free sulfide in the pore water, a very different PLFA labeling pattern was found with high amounts of label in branched i- and a-PLFA besides the typical compounds for sulfur and ammonium oxidizing bacteria. This suggests that other types of chemoautotrophic bacteria were also active, most likely Deltaproteobacteria related to sulfate reducers. Maximum rates of chemoautotrophy were detected in first 1 to 2 centimeters of both sediments and chemosynthetic biomass production was high ranging from 3 to 36 mmol C m(-2) d(-1). Average dark carbon fixation to sediment oxygen uptake ratios were 0.22±0.07 mol C (mol O2)(-1), which is in the range of the maximum growth yields reported for sulfur oxidizing bacteria indicating highly efficient growth. Chemoautotrophic biomass production was similar to carbon mineralization rates in the top of the free sulfide site, suggesting that chemoautotrophic bacteria could play a crucial role in the microbial food web and labeling in eukaryotic poly-unsaturated PLFA was indeed detectable. Our study shows that dark carbon fixation by chemoautotrophic bacteria is a major process in the carbon cycle of coastal sediments, and should therefore receive more attention in future studies on

  16. Webinar Presentation: Particle-Resolved Simulations for Quantifying Black Carbon Climate Impact and Model Uncertainty

    EPA Pesticide Factsheets

    This presentation, Particle-Resolved Simulations for Quantifying Black Carbon Climate Impact and Model Uncertainty, was given at the STAR Black Carbon 2016 Webinar Series: Changing Chemistry over Time held on Oct. 31, 2016.

  17. Bioengineering of carbon fixation, biofuels, and biochemicals in cyanobacteria and plants.

    PubMed

    Rosgaard, Lisa; de Porcellinis, Alice Jara; Jacobsen, Jacob H; Frigaard, Niels-Ulrik; Sakuragi, Yumiko

    2012-11-30

    Development of sustainable energy is a pivotal step towards solutions for today's global challenges, including mitigating the progression of climate change and reducing dependence on fossil fuels. Biofuels derived from agricultural crops have already been commercialized. However the impacts on environmental sustainability and food supply have raised ethical questions about the current practices. Cyanobacteria have attracted interest as an alternative means for sustainable energy productions. Being aquatic photoautotrophs they can be cultivated in non-arable lands and do not compete for land for food production. Their rich genetic resources offer means to engineer metabolic pathways for synthesis of valuable bio-based products. Currently the major obstacle in industrial-scale exploitation of cyanobacteria as the economically sustainable production hosts is low yields. Much effort has been made to improve the carbon fixation and manipulating the carbon allocation in cyanobacteria and their evolutionary photosynthetic relatives, algae and plants. This review aims at providing an overview of the recent progress in the bioengineering of carbon fixation and allocation in cyanobacteria; wherever relevant, the progress made in plants and algae is also discussed as an inspiration for future application in cyanobacteria.

  18. N-nitrosamines formation from secondary amines by nitrogen fixation on the surface of activated carbon.

    PubMed

    Padhye, Lokesh P; Hertzberg, Benjamin; Yushin, Gleb; Huang, Ching-Hua

    2011-10-01

    Our previous study demonstrated that many commercial activated carbon (AC) particles may catalyze transformation of secondary amines to yield trace levels of N-nitrosamines under ambient aerobic conditions. Because of the widespread usage of AC materials in numerous analytical and environmental applications, it is imperative to understand the reaction mechanism responsible for formation of nitrosamine on the surface of ACs to minimize their occurrence in water treatment systems and during analytical methods employing ACs. The study results show that the AC-catalyzed nitrosamine formation requires both atmospheric oxygen and nitrogen. AC's surface reactive sites react with molecular oxygen to form reactive oxygen species (ROS), which facilitate fixation of molecular nitrogen on the carbon surfaces to generate reactive nitrogen species (RNS) likely nitrous oxide and hydroxylamine that can react with adsorbed amines to form nitrosamines. AC's properties play a crucial role as more nitrosamine formation is associated with carbon surfaces with higher surface area, more surface defects, reduced surface properties, higher O(2) uptake capacity, and higher carbonyl group content. This study is a first of its kind on the nitrosamine formation mechanism involving nitrogen fixation on AC surfaces, and the information will be useful for minimization of nitrosamines in AC-based processes.

  19. Irreversibly increased nitrogen fixation in Trichodesmium experimentally adapted to elevated carbon dioxide

    NASA Astrophysics Data System (ADS)

    Hutchins, David A.; Walworth, Nathan G.; Webb, Eric A.; Saito, Mak A.; Moran, Dawn; McIlvin, Matthew R.; Gale, Jasmine; Fu, Fei-Xue

    2015-09-01

    Nitrogen fixation rates of the globally distributed, biogeochemically important marine cyanobacterium Trichodesmium increase under high carbon dioxide (CO2) levels in short-term studies due to physiological plasticity. However, its long-term adaptive responses to ongoing anthropogenic CO2 increases are unknown. Here we show that experimental evolution under extended selection at projected future elevated CO2 levels results in irreversible, large increases in nitrogen fixation and growth rates, even after being moved back to lower present day CO2 levels for hundreds of generations. This represents an unprecedented microbial evolutionary response, as reproductive fitness increases acquired in the selection environment are maintained after returning to the ancestral environment. Constitutive rate increases are accompanied by irreversible shifts in diel nitrogen fixation patterns, and increased activity of a potentially regulatory DNA methyltransferase enzyme. High CO2-selected cell lines also exhibit increased phosphorus-limited growth rates, suggesting a potential advantage for this keystone organism in a more nutrient-limited, acidified future ocean.

  20. Irreversibly increased nitrogen fixation in Trichodesmium experimentally adapted to elevated carbon dioxide

    PubMed Central

    Hutchins, David A.; Walworth, Nathan G.; Webb, Eric A.; Saito, Mak A.; Moran, Dawn; McIlvin, Matthew R.; Gale, Jasmine; Fu, Fei-Xue

    2015-01-01

    Nitrogen fixation rates of the globally distributed, biogeochemically important marine cyanobacterium Trichodesmium increase under high carbon dioxide (CO2) levels in short-term studies due to physiological plasticity. However, its long-term adaptive responses to ongoing anthropogenic CO2 increases are unknown. Here we show that experimental evolution under extended selection at projected future elevated CO2 levels results in irreversible, large increases in nitrogen fixation and growth rates, even after being moved back to lower present day CO2 levels for hundreds of generations. This represents an unprecedented microbial evolutionary response, as reproductive fitness increases acquired in the selection environment are maintained after returning to the ancestral environment. Constitutive rate increases are accompanied by irreversible shifts in diel nitrogen fixation patterns, and increased activity of a potentially regulatory DNA methyltransferase enzyme. High CO2-selected cell lines also exhibit increased phosphorus-limited growth rates, suggesting a potential advantage for this keystone organism in a more nutrient-limited, acidified future ocean. PMID:26327191

  1. Assessment of carbon fibre composite fracture fixation plate using finite element analysis.

    PubMed

    Saidpour, Seyed H

    2006-07-01

    In the internal fixation of fractured bone by means of bone-plates fastened to the bone on its tensile surface, an on-going concern has been the excessive stress shielding of the bone by the excessively-stiff stainless-steel plate. The compressive stress shielding at the fracture-interface immediately after fracture-fixation delays callus formation and bone healing. Likewise, the tensile stress shielding in the layer of bone underneath the plate can cause osteoporosis and decrease in tensile strength of this layer. In this study a novel forearm internal fracture fixation plate made from short carbon fibre reinforced plastic (CFRP) was used in an attempt to address the problem. Accordingly, it has been possible to analyse the stress distribution in the composite plates using finite-element modelling. A three-dimensional, quarter-symmetric finite element model was generated for the plate system. The stress state in the underlying bone was examined for several loading conditions. Based on the analytical results the composite plate system is likely to reduce stress-shielding effects at the fracture site when subjected to bending and torsional loads. The design of the plate was further optimised by reducing the width around the innermost holes.

  2. Molecular Regulation of Photosynthetic Carbon Dioxide Fixation in Nonsulfur Purple Bacteria

    SciTech Connect

    Tabita, Fred Robert

    2015-12-01

    The overall objective of this project is to determine the mechanism by which a transcriptional activator protein affects CO2 fixation (cbb) gene expression in nonsulfur purple photosynthetic bacteria, with special emphasis to Rhodobacter sphaeroides and with comparison to Rhodopseudomonas palustris. These studies culminated in several publications which indicated that additional regulators interact with the master regulator CbbR in both R. sphaeroides and R. palustris. In addition, the interactive control of the carbon and nitrogen assimilatory pathways was studied and unique regulatory signals were discovered.

  3. High CO2 subsurface environment enriches for novel microbial lineages capable of autotrophic carbon fixation

    NASA Astrophysics Data System (ADS)

    Probst, A. J.; Jerett, J.; Castelle, C. J.; Thomas, B. C.; Sharon, I.; Brown, C. T.; Anantharaman, K.; Emerson, J. B.; Hernsdorf, A. W.; Amano, Y.; Suzuki, Y.; Tringe, S. G.; Woyke, T.; Banfield, J. F.

    2015-12-01

    Subsurface environments span the planet but remain little understood from the perspective of the capacity of the resident organisms to fix CO2. Here we investigated the autotrophic capacity of microbial communities in range of a high-CO2 subsurface environments via analysis of 250 near-complete microbial genomes (151 of them from distinct species) that represent the most abundant organisms over a subsurface depth transect. More than one third of the genomes belonged to the so-called candidate phyla radiation (CPR), which have limited metabolic capabilities. Approximately 30% of the community members are autotrophs that comprise 70% of the microbiome with metabolism likely supported by sulfur and nitrogen respiration. Of the carbon fixation pathways, the Calvin Benson Basham Cycle was most common, but the Wood-Ljungdhal pathway was present in the greatest phylogenetic diversity of organisms. Unexpectedly, one organism from a novel phylum sibling to the CPR is predicted to fix carbon by the reverse TCA cycle. The genome of the most abundant organism, an archaeon designated "Candidatus Altiarchaeum hamiconexum", was also found in subsurface samples from other continents including Europe and Asia. The archaeon was proven to be a carbon fixer using a novel reductive acetyl-CoA pathway. These results provide evidence that carbon dioxide is the major carbon source in these environments and suggest that autotrophy in the subsurface represents a substantial carbon dioxide sink affecting the global carbon cycle.

  4. Quantifying global soil carbon losses in response to warming.

    PubMed

    Crowther, T W; Todd-Brown, K E O; Rowe, C W; Wieder, W R; Carey, J C; Machmuller, M B; Snoek, B L; Fang, S; Zhou, G; Allison, S D; Blair, J M; Bridgham, S D; Burton, A J; Carrillo, Y; Reich, P B; Clark, J S; Classen, A T; Dijkstra, F A; Elberling, B; Emmett, B A; Estiarte, M; Frey, S D; Guo, J; Harte, J; Jiang, L; Johnson, B R; Kröel-Dulay, G; Larsen, K S; Laudon, H; Lavallee, J M; Luo, Y; Lupascu, M; Ma, L N; Marhan, S; Michelsen, A; Mohan, J; Niu, S; Pendall, E; Peñuelas, J; Pfeifer-Meister, L; Poll, C; Reinsch, S; Reynolds, L L; Schmidt, I K; Sistla, S; Sokol, N W; Templer, P H; Treseder, K K; Welker, J M; Bradford, M A

    2016-11-30

    The majority of the Earth's terrestrial carbon is stored in the soil. If anthropogenic warming stimulates the loss of this carbon to the atmosphere, it could drive further planetary warming. Despite evidence that warming enhances carbon fluxes to and from the soil, the net global balance between these responses remains uncertain. Here we present a comprehensive analysis of warming-induced changes in soil carbon stocks by assembling data from 49 field experiments located across North America, Europe and Asia. We find that the effects of warming are contingent on the size of the initial soil carbon stock, with considerable losses occurring in high-latitude areas. By extrapolating this empirical relationship to the global scale, we provide estimates of soil carbon sensitivity to warming that may help to constrain Earth system model projections. Our empirical relationship suggests that global soil carbon stocks in the upper soil horizons will fall by 30 ± 30 petagrams of carbon to 203 ± 161 petagrams of carbon under one degree of warming, depending on the rate at which the effects of warming are realized. Under the conservative assumption that the response of soil carbon to warming occurs within a year, a business-as-usual climate scenario would drive the loss of 55 ± 50 petagrams of carbon from the upper soil horizons by 2050. This value is around 12-17 per cent of the expected anthropogenic emissions over this period. Despite the considerable uncertainty in our estimates, the direction of the global soil carbon response is consistent across all scenarios. This provides strong empirical support for the idea that rising temperatures will stimulate the net loss of soil carbon to the atmosphere, driving a positive land carbon-climate feedback that could accelerate climate change.

  5. Quantifying global soil carbon losses in response to warming

    NASA Astrophysics Data System (ADS)

    Crowther, T. W.; Todd-Brown, K. E. O.; Rowe, C. W.; Wieder, W. R.; Carey, J. C.; Machmuller, M. B.; Snoek, B. L.; Fang, S.; Zhou, G.; Allison, S. D.; Blair, J. M.; Bridgham, S. D.; Burton, A. J.; Carrillo, Y.; Reich, P. B.; Clark, J. S.; Classen, A. T.; Dijkstra, F. A.; Elberling, B.; Emmett, B. A.; Estiarte, M.; Frey, S. D.; Guo, J.; Harte, J.; Jiang, L.; Johnson, B. R.; Kröel-Dulay, G.; Larsen, K. S.; Laudon, H.; Lavallee, J. M.; Luo, Y.; Lupascu, M.; Ma, L. N.; Marhan, S.; Michelsen, A.; Mohan, J.; Niu, S.; Pendall, E.; Peñuelas, J.; Pfeifer-Meister, L.; Poll, C.; Reinsch, S.; Reynolds, L. L.; Schmidt, I. K.; Sistla, S.; Sokol, N. W.; Templer, P. H.; Treseder, K. K.; Welker, J. M.; Bradford, M. A.

    2016-12-01

    The majority of the Earth’s terrestrial carbon is stored in the soil. If anthropogenic warming stimulates the loss of this carbon to the atmosphere, it could drive further planetary warming. Despite evidence that warming enhances carbon fluxes to and from the soil, the net global balance between these responses remains uncertain. Here we present a comprehensive analysis of warming-induced changes in soil carbon stocks by assembling data from 49 field experiments located across North America, Europe and Asia. We find that the effects of warming are contingent on the size of the initial soil carbon stock, with considerable losses occurring in high-latitude areas. By extrapolating this empirical relationship to the global scale, we provide estimates of soil carbon sensitivity to warming that may help to constrain Earth system model projections. Our empirical relationship suggests that global soil carbon stocks in the upper soil horizons will fall by 30 ± 30 petagrams of carbon to 203 ± 161 petagrams of carbon under one degree of warming, depending on the rate at which the effects of warming are realized. Under the conservative assumption that the response of soil carbon to warming occurs within a year, a business-as-usual climate scenario would drive the loss of 55 ± 50 petagrams of carbon from the upper soil horizons by 2050. This value is around 12-17 per cent of the expected anthropogenic emissions over this period. Despite the considerable uncertainty in our estimates, the direction of the global soil carbon response is consistent across all scenarios. This provides strong empirical support for the idea that rising temperatures will stimulate the net loss of soil carbon to the atmosphere, driving a positive land carbon-climate feedback that could accelerate climate change.

  6. A "footprint" of plant carbon fixation cycle functions during the development of a heterotrophic fungus.

    PubMed

    Lyu, Xueliang; Shen, Cuicui; Xie, Jiatao; Fu, Yanping; Jiang, Daohong; Hu, Zijin; Tang, Lihua; Tang, Liguang; Ding, Feng; Li, Kunfei; Wu, Song; Hu, Yanping; Luo, Lilian; Li, Yuanhao; Wang, Qihua; Li, Guoqing; Cheng, Jiasen

    2015-08-11

    Carbon fixation pathway of plants (CFPP) in photosynthesis converts solar energy to biomass, bio-products and biofuel. Intriguingly, a large number of heterotrophic fungi also possess enzymes functionally associated with CFPP, raising the questions about their roles in fungal development and in evolution. Here, we report on the presence of 17 CFPP associated enzymes (ten in Calvin-Benson-Basham reductive pentose phosphate pathway and seven in C4-dicarboxylic acid cycle) in the genome of Sclerotinia sclerotiorum, a heterotrophic phytopathogenic fungus, and only two unique enzymes: ribulose-1, 5-bisphosphate carboxylase-oxygenase (Rubisco) and phosphoribulokinase (PRK) were absent. This data suggested an incomplete CFPP-like pathway (CLP) in fungi. Functional profile analysis demonstrated that the activity of the incomplete CLP was dramatically regulated during different developmental stages of S. sclerotiorum. Subsequent experiments confirmed that many of them were essential to the virulence and/or sclerotial formation. Most of the CLP associated genes are conserved in fungi. Phylogenetic analysis showed that many of them have undergone gene duplication, gene acquisition or loss and functional diversification in evolutionary history. These findings showed an evolutionary links in the carbon fixation processes of autotrophs and heterotrophs and implicated the functions of related genes were in course of continuous change in different organisms in evolution.

  7. A simple, gravimetric method to quantify inorganic carbon in calcareous soils

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Total carbon (TC) in calcareous soils has two components: inorganic carbon (IC) as calcite and or dolomite and organic carbon (OC) in the soil organic matter. The IC must be measured and subtracted from TC to obtain OC. Our objective was to develop a simple gravimetric technique to quantify IC. Th...

  8. Carboxysomal carbonic anhydrases: Structure and role in microbial CO2 fixation

    SciTech Connect

    Cannon, Gordon C.; Heinhorst, Sabine; Kerfeld, Cheryl A.

    2010-06-23

    Cyanobacteria and some chemoautotrophic bacteria are able to grow in environments with limiting CO2 concentrations by employing a CO2-concentrating mechanism (CCM) that allows them to accumulate inorganic carbon in their cytoplasm to concentrations several orders of magnitude higher than that on the outside. The final step of this process takes place in polyhedral protein microcompartments known as carboxysomes, which contain the majority of the CO2-fixing enzyme, RubisCO. The efficiency of CO2 fixation by the sequestered RubisCO is enhanced by co-localization with a specialized carbonic anhydrase that catalyzes dehydration of the cytoplasmic bicarbonate and ensures saturation of RubisCO with its substrate, CO2. There are two genetically distinct carboxysome types that differ in their protein composition and in the carbonic anhydrase(s) they employ. Here we review the existing information concerning the genomics, structure and enzymology of these uniquely adapted carbonic anhydrases, which are of fundamental importance in the global carbon cycle.

  9. PH-NEUTRAL CONCRETE FOR ATTACHED MICROALGAE AND ENHANCED CARBON DIOXIDE FIXATION - PHASE I

    SciTech Connect

    Kerry M. Dooley; F. Carl Knopf; Robert P. Gambrell

    1999-05-31

    The novelty/innovation of the proposed work is as follows. Supercritical carbon dioxide (SC-CO {sub 2})-based extrusion and molding technology can be used to produce significantly improved (in terms of strength/unit weight, durability, hardness and chemical resistance) cement-based products. SC-CO{sub 2} can rapidly convert the calcium hydroxide in cured cement to calcium carbonate, which increases the density and unconfined compressive strength in the treated region. In cured concrete, this treated region is typically a several-mm thick layer (generally <{approx}5mm, unless treatment time is excessive). However, we have found that by treating the entire cement matrix with SC-CO{sub 2} as part of the curing process, we can carbonate it rapidly, regardless of the thickness. By ''rapidly'' we mean simultaneous carbonation/curing in < 5 ks even for large cement forms, compared to typical carbonation times of several days or even years at low pressures. Carbonation changes the pH in the treated region from {approx}13 to {approx}8, almost exactly compatible with seawater. Therefore the leaching rates from these cements is reduced. These cement improvements are directed to the development of strong but thin artificial reefs, to which can be attached microalgae used for the enhanced fixation of CO{sub 2}. It is shown below that attached microalgae, as algal beds or reefs, are more efficient for CO{sub 2} fixation by a factor of 20, compared to the open ocean on an area basis. We have performed preliminary tests of the pH-neutral cements of our invention for attachment of microalgae populations. We have found pH-neutral materials which attach microalgae readily. These include silica-enriched (pozzolanic) cements, blast-furnace slags and fly ash, which are also silica-rich. We have already developed technology to simultaneously foam, carbonate and cure the cements; this foaming process further increases cement surface areas for microalgae attachment, in some cases to >10 m

  10. CbbR, the Master Regulator for Microbial Carbon Dioxide Fixation

    PubMed Central

    Dangel, Andrew W.

    2015-01-01

    Biological carbon dioxide fixation is an essential and crucial process catalyzed by both prokaryotic and eukaryotic organisms to allow ubiquitous atmospheric CO2 to be reduced to usable forms of organic carbon. This process, especially the Calvin-Bassham-Benson (CBB) pathway of CO2 fixation, provides the bulk of organic carbon found on earth. The enzyme ribulose 1,5-bisphosphate (RuBP) carboxylase/oxygenase (RubisCO) performs the key and rate-limiting step whereby CO2 is reduced and incorporated into a precursor organic metabolite. This is a highly regulated process in diverse organisms, with the expression of genes that comprise the CBB pathway (the cbb genes), including RubisCO, specifically controlled by the master transcriptional regulator protein CbbR. Many organisms have two or more cbb operons that either are regulated by a single CbbR or employ a specific CbbR for each cbb operon. CbbR family members are versatile and accommodate and bind many different effector metabolites that influence CbbR's ability to control cbb transcription. Moreover, two members of the CbbR family are further posttranslationally modified via interactions with other transcriptional regulator proteins from two-component regulatory systems, thus augmenting CbbR-dependent control and optimizing expression of specific cbb operons. In addition to interactions with small effector metabolites and other regulator proteins, CbbR proteins may be selected that are constitutively active and, in some instances, elevate the level of cbb expression relative to wild-type CbbR. Optimizing CbbR-dependent control is an important consideration for potentially using microbes to convert CO2 to useful bioproducts. PMID:26324454

  11. CbbR, the Master Regulator for Microbial Carbon Dioxide Fixation.

    PubMed

    Dangel, Andrew W; Tabita, F Robert

    2015-11-01

    Biological carbon dioxide fixation is an essential and crucial process catalyzed by both prokaryotic and eukaryotic organisms to allow ubiquitous atmospheric CO2 to be reduced to usable forms of organic carbon. This process, especially the Calvin-Bassham-Benson (CBB) pathway of CO2 fixation, provides the bulk of organic carbon found on earth. The enzyme ribulose 1,5-bisphosphate (RuBP) carboxylase/oxygenase (RubisCO) performs the key and rate-limiting step whereby CO2 is reduced and incorporated into a precursor organic metabolite. This is a highly regulated process in diverse organisms, with the expression of genes that comprise the CBB pathway (the cbb genes), including RubisCO, specifically controlled by the master transcriptional regulator protein CbbR. Many organisms have two or more cbb operons that either are regulated by a single CbbR or employ a specific CbbR for each cbb operon. CbbR family members are versatile and accommodate and bind many different effector metabolites that influence CbbR's ability to control cbb transcription. Moreover, two members of the CbbR family are further posttranslationally modified via interactions with other transcriptional regulator proteins from two-component regulatory systems, thus augmenting CbbR-dependent control and optimizing expression of specific cbb operons. In addition to interactions with small effector metabolites and other regulator proteins, CbbR proteins may be selected that are constitutively active and, in some instances, elevate the level of cbb expression relative to wild-type CbbR. Optimizing CbbR-dependent control is an important consideration for potentially using microbes to convert CO2 to useful bioproducts.

  12. Fixation of carbon dioxide into dimethyl carbonate over titanium-based zeolitic thiophene-benzimidazolate framework

    EPA Science Inventory

    A titanium-based zeolitic thiophene-benzimidazolate framework has been designed for the direct synthesis of dimethyl carbonate (DMC) from methanol and carbon dioxide. The developed catalyst activates carbon dioxide and delivers over 16% yield of DMC without the use of any dehydra...

  13. Quantifying Energetics of Topological Frustration in Carbon Nanostructures

    SciTech Connect

    Bullard, Zachary; Costa Girao, Eduardo; Daniels, Colin; Sumpter, Bobby G; Meunier, V.

    2014-01-01

    We develop a graph theoretical formalism to account for the fact that sp2 carbon can become spin ordered or generate free radicals for purely topological reasons. The graph theory method is combined with open-density-functional theory calculations to establish the existence of a universal energy of frustration term that is shown to greatly improve the description of carbon nanostructure energetics using classical force-fields. The methodology is illustrated for a number of systems and, owing to the small computational overhead associated, is shown to be easily integratable into any modeling approach based on an adjacency matrix.

  14. Advances in spectroscopic methods for quantifying soil carbon

    USGS Publications Warehouse

    Reeves, James B.; McCarty, Gregory W.; Calderon, Francisco; Hively, W. Dean

    2012-01-01

    The current gold standard for soil carbon (C) determination is elemental C analysis using dry combustion. However, this method requires expensive consumables, is limited by the number of samples that can be processed (~100/d), and is restricted to the determination of total carbon. With increased interest in soil C sequestration, faster methods of analysis are needed, and there is growing interest in methods based on diffuse reflectance spectroscopy in the visible, near-infrared or mid-infrared spectral ranges. These spectral methods can decrease analytical requirements and speed sample processing, be applied to large landscape areas using remote sensing imagery, and be used to predict multiple analytes simultaneously. However, the methods require localized calibrations to establish the relationship between spectral data and reference analytical data, and also have additional, specific problems. For example, remote sensing is capable of scanning entire watersheds for soil carbon content but is limited to the surface layer of tilled soils and may require difficult and extensive field sampling to obtain proper localized calibration reference values. The objective of this chapter is to discuss the present state of spectroscopic methods for determination of soil carbon.

  15. How well can we quantify global black carbon radiative effects?

    NASA Astrophysics Data System (ADS)

    Stier, P.

    2012-12-01

    Atmospheric aerosols play an important role in the global climate system. Carbonaceous aerosols stand out through their potential to warm (through absorption and semi-direct effects) and cool (through scattering and indirect effects) climate, depending on their microphysical properties, regional distribution and their vertical profile. Current global aerosol models vary drastically in simulated abundance, transport and radiative properties of black carbon and show significant biases when compared to observations. At the same time, "host" models used for the calculation of black carbon radiative forcing show significant differences in components relevant for the assessment of forcing, such as clouds, surface albedos and radiative transfer schemes. This presentation will review the current state of the art in the global assessment of black carbon radiative effects from aerosol models and observationally based forcing calculations, with focus on uncertainties. Particular attention will be given to novel observational constraints arising from advances in measurement technologies and observational strategies as well as to uncertainties in the radiative forcing calculations, as highlighted in the direct forcing experiments of the recent Phase II of the AeroCom aerosol intercomparison project. The identified uncertainties in the process chain, from point of emission through microphysical transformation and transport to the actual radiative transfer, could serve as guidance for future measurement strategies as well as for model improvements aiming to reduce the remaining significant uncertainties in the black carbon radiative effects.

  16. Quantifying Carbonate and Serpentine Abundances through VSWIR Microspectroscopy

    NASA Astrophysics Data System (ADS)

    Leask, E.; Ehlmann, B. L.

    2015-12-01

    Visible and shortwave-infrared (VSWIR) reflectance spectroscopy has been used for large-scale mineral mapping on Earth and on Mars. A prototype instrument (UCIS—Ultra Compact Imaging Spectrometer), operating in microscopic mode, applies the same principles over an area the size of a traditional thin section (15-50 cm2), acquiring data over the 0.5-2.5 μm range at a spatial scale of 80 μm/pixel. This technique requires little to no sample preparation and is non-destructive, preserving rock texture. It can be used on future rovers/landers for in-situ petrology and in the lab to link spectral data acquired at large scale with rock mineralogy. We compare microscale mineral maps and abundance results from linear spectral unmixing to other techniques, including XRD, acid dissolution, and EDS/WDS mapping. Samples from the Semail Ophiolite (Oman) are used as an analogue for Martian carbonate and serpentine deposits to assess the capabilities of IR spectroscopy to discriminate carbonate from minerals with absorptions at similar wavelength positions, to determine carbonate composition and the composition of intermixed phases, and to determine their relative abundances. We find that UCIS infrared images can differentiate between carbonate phases not distinguished in XRD results. For example, in a magnesite vein sample, the bulk magnesite is spectrally distinct from another carbonate phase present only in cavities within the sample. Microprobe and EDS analyses of the sample confirm that calcite is present only as a coating within secondary porosity. Similar to SEM-EDS mapping at smaller scales, UCIS can identify rare phases contained within a few pixels (100s μm). For example, aluminum-bearing phyllosilicates in discrete clasts were found among more typical serpentine in a carbonate-cemented breccia. Signals from such rare phases are typically not detectable in XRD but are in spatially resolved microscale IR data. Collectively, data indicate that VSWIR microspectroscopy

  17. Predicting the Electron Requirement for Carbon Fixation in Seas and Oceans

    PubMed Central

    Lawrenz, Evelyn; Silsbe, Greg; Capuzzo, Elisa; Ylöstalo, Pasi; Forster, Rodney M.; Simis, Stefan G. H.; Prášil, Ondřej; Kromkamp, Jacco C.; Hickman, Anna E.; Moore, C. Mark; Forget, Marie-Hélèn; Geider, Richard J.; Suggett, David J.

    2013-01-01

    Marine phytoplankton account for about 50% of all global net primary productivity (NPP). Active fluorometry, mainly Fast Repetition Rate fluorometry (FRRf), has been advocated as means of providing high resolution estimates of NPP. However, not measuring CO2-fixation directly, FRRf instead provides photosynthetic quantum efficiency estimates from which electron transfer rates (ETR) and ultimately CO2-fixation rates can be derived. Consequently, conversions of ETRs to CO2-fixation requires knowledge of the electron requirement for carbon fixation (Φe,C, ETR/CO2 uptake rate) and its dependence on environmental gradients. Such knowledge is critical for large scale implementation of active fluorescence to better characterise CO2-uptake. Here we examine the variability of experimentally determined Φe,C values in relation to key environmental variables with the aim of developing new working algorithms for the calculation of Φe,C from environmental variables. Coincident FRRf and 14C-uptake and environmental data from 14 studies covering 12 marine regions were analysed via a meta-analytical, non-parametric, multivariate approach. Combining all studies, Φe,C varied between 1.15 and 54.2 mol e− (mol C)−1 with a mean of 10.9±6.91 mol e− mol C)−1. Although variability of Φe,C was related to environmental gradients at global scales, region-specific analyses provided far improved predictive capability. However, use of regional Φe,C algorithms requires objective means of defining regions of interest, which remains challenging. Considering individual studies and specific small-scale regions, temperature, nutrient and light availability were correlated with Φe,C albeit to varying degrees and depending on the study/region and the composition of the extant phytoplankton community. At the level of large biogeographic regions and distinct water masses, Φe,C was related to nutrient availability, chlorophyll, as well as temperature and/or salinity in most regions, while

  18. Predicting the electron requirement for carbon fixation in seas and oceans.

    PubMed

    Lawrenz, Evelyn; Silsbe, Greg; Capuzzo, Elisa; Ylöstalo, Pasi; Forster, Rodney M; Simis, Stefan G H; Prášil, Ondřej; Kromkamp, Jacco C; Hickman, Anna E; Moore, C Mark; Forget, Marie-Hélèn; Geider, Richard J; Suggett, David J

    2013-01-01

    Marine phytoplankton account for about 50% of all global net primary productivity (NPP). Active fluorometry, mainly Fast Repetition Rate fluorometry (FRRf), has been advocated as means of providing high resolution estimates of NPP. However, not measuring CO2-fixation directly, FRRf instead provides photosynthetic quantum efficiency estimates from which electron transfer rates (ETR) and ultimately CO2-fixation rates can be derived. Consequently, conversions of ETRs to CO2-fixation requires knowledge of the electron requirement for carbon fixation (Φe,C, ETR/CO2 uptake rate) and its dependence on environmental gradients. Such knowledge is critical for large scale implementation of active fluorescence to better characterise CO2-uptake. Here we examine the variability of experimentally determined Φe,C values in relation to key environmental variables with the aim of developing new working algorithms for the calculation of Φe,C from environmental variables. Coincident FRRf and (14)C-uptake and environmental data from 14 studies covering 12 marine regions were analysed via a meta-analytical, non-parametric, multivariate approach. Combining all studies, Φe,C varied between 1.15 and 54.2 mol e(-) (mol C)(-1) with a mean of 10.9 ± 6.91 mol e(-) mol C)(-1). Although variability of Φe,C was related to environmental gradients at global scales, region-specific analyses provided far improved predictive capability. However, use of regional Φ e,C algorithms requires objective means of defining regions of interest, which remains challenging. Considering individual studies and specific small-scale regions, temperature, nutrient and light availability were correlated with Φ e,C albeit to varying degrees and depending on the study/region and the composition of the extant phytoplankton community. At the level of large biogeographic regions and distinct water masses, Φ e,C was related to nutrient availability, chlorophyll, as well as temperature and/or salinity in most regions

  19. Carbon dioxide fixation by Metallosphaera yellowstonensis and acidothermophilic iron-oxidizing microbial communities from Yellowstone National Park

    SciTech Connect

    Jennings, Ryan; Whitmore, Laura M.; Moran, James J.; Kreuzer, Helen W.; Inskeep, William P.

    2014-05-01

    The fixation of inorganic carbon (as carbon dioxide) has been documented in all three domains of life and results in the biosynthesis of a diverse suite of organic compounds that support the growth of heterotrophic organisms. The primary aim of this study was to assess the importance of carbon dioxide fixation in high-temperature Fe(III)-oxide mat communities and in pure cultures of one of the dominant Fe(II)-oxidizing organisms (Metallosphaera yellowstonensis strain MK1) present in situ. Protein-encoding genes of the complete 3-hydroxypropionate/4-hydroxybutyrate (3-HP/4-HB) carbon fixation pathway were identified in pure-cultures of M. yellowstonensis strain MK1. Metagenome sequencing from the same environments also revealed genes for the 3-HP/4-HB pathway belonging to M. yellowstonensis populations, as well as genes for a complete reductive TCA cycle from Hydrogenobaculum spp. (Aquificales). Stable isotope (13CO2) labeling was used to measure the fixation of CO2 by M. yellowstonensis strain MK1, and in ex situ assays containing live Fe(III)-oxide microbial mats. Results showed that M. yellowstonensis strain MK1 fixes CO2 via the 3-HP/4-HB pathway with a fractionation factor of ~ 2.5 ‰. Direct analysis of the 13C composition of dissolved inorganic C (DIC), dissolved organic C (DOC), landscape C and microbial mat C showed that mat C is comprised of both DIC and non-DIC sources. The estimated contribution of DIC carbon to biomass C (> ~ 35%) is reasonably consistent with the relative abundance of known chemolithoautotrophs and corresponding CO2 fixation pathways detected in metagenome sequence. The significance of DIC as a major source of carbon for Fe-oxide mat communities provides a foundation for examining microbial interactions in these systems that are dependent on the activity of autotrophic organisms such as Hydrogenobaculum and Metallosphaera spp.

  20. Quantifying organic carbon fluxes in eroding hillslopes through MIR spectroscopy

    NASA Astrophysics Data System (ADS)

    Lever, R.; Sanderman, J.; Berhe, A.

    2013-12-01

    Erosion is a ubiquitous and important global process that redistributes approximately 75 Gt of soil annually and has been shown to serve as a significant terrestrial carbon (C) sink. The role of soil erosion in redistribution of carbon and other essential elements has not been adequately investigated in much of the current literature. Additionally, fire plays a significant role in controlling the dynamics of bulk C and different organic carbon (OC) fraction dynamics in the soil system. Here we use mid-infrared (MIR) spectroscopy, in combination with partial least squares regression (PLSR) to predict how fire affects distribution of OC into different fractions in different landform positions of an area affected by the Gondola fire in South Lake Tahoe, CA. The Gondola fire is a unique site, with pre- and post-wildfire sampling points on both the hillslope and in the corresponding depositional area. The MIR/PLSR analysis illustrates how fire and erosion can act to change C and OC fractions within an eroding hillslope.

  1. Assaying the catalytic potential of transition metal sulfides for abiotic carbon fixation

    NASA Astrophysics Data System (ADS)

    Cody, G. D.; Boctor, N. Z.; Brandes, J. A.; Filley, T. R.; Hazen, R. M.; Yoder, H. S.

    2004-05-01

    A suite of nickel, cobalt, iron, copper, and zinc containing sulfides are assayed for the promotion of a model carbon fixation reaction with relevance to local reducing environments of the early Earth. The assay tests the promotion of hydrocarboxylation (the Koch reaction) wherein a carboxylic acid is synthesized via carbonyl insertion at a metal-sulfide-bound alkyl group. The experimental conditions are chosen for optimal assay, i.e., high reactant concentrations and pressures (200 MPa) to enhance chemisorption, and high temperature (250°C) to enhance reaction kinetics. All of the metal sulfides studied, with the exception CuS, promote hydrocarboxylation. Two other significant reactions involve the catalytic reduction of CO to form a surface-bound methyl group, detected after nucleophilic attack by nonane thiol to form methyl nonyl sulfide, and the formation of dinonyl sulfide via a similar reaction. Estimation of the catalytic turnover frequencies for each of the metal sulfides with respect to each of the primary reactions reveals that NiS, Ni 3S 2, and CoS perform comparably to commonly employed industrial catalysts. A positive correlation between the yield of primary product to NiS and Ni 3S 2 surface areas provides strong evidence that the reactions are surface catalytic in these cases. The sulfides FeS and Fe (1-x)S are unique in that they exhibit evidence of extensive dissolution, thus, complicating interpretation regarding heterogeneous vs. homogeneous catalysis. With the exception of CuS, each of the metal sulfides promotes reactions that mimic key intermediate steps manifest in the mechanistic details of an important autotrophic enzyme, acetyl-CoA synthase. The relatively high temperatures chosen for assaying purposes, however, are incompatible with the accumulation of thioesters. The results of this study support the hypothesis that transition metal sulfides may have provided useful catalytic functionality for geochemical carbon fixation in a prebiotic

  2. Heterocystous Cyanobacteria in Microbialites Play an Important Role in N2 Fixation and Carbonate Mineral Precipitation

    NASA Astrophysics Data System (ADS)

    Alcantara-Hernandez, R. J.

    2015-12-01

    Lake Alchichica is a maars type crater-lake located in Central Mexico (pH > 8.9, EC ~13.39 mS cm-1). This limnological system harbors two types of microbialites that can be found around the entire perimeter of the lake (Fig. 1). These structures are representative examples of complex and diverse microbiological assemblages, where microbial activity promotes lithification by trapping, binding and/or precipitating detrital or chemical sediments. Previous studies determined that the microbialites of Lake Alchichica fix N2 to thrive under the N-limiting conditions of the lake, and that these nitrogenase activity peaks are related to heterocystous cyanobacteria that couple photosynthesis to N2 fixation during daylight periods. Heterocystous cyanobacteria (Nostocales) together with Oscillatoriales (non-heterocystous filamentous cyanobacteria) and other cyanobacterial groups have been described as the most abundant cyanobacteria in Alchichica microbialites, and in lithifying mats. Our results suggest that heterocystous cyanobacteria play an important role not only by fixing N2 for biomass construction, but also because their heterocysts host in their external cell membranes main sites for carbonate mineral precipitation including calcium carbonates and siderite. Previous research has shown that the heterocyst is the specialized site for cellular respiration associated to the pH decrease of vegetative/photosynthetic cells, contributing thus to the precipitation of carbonates and the accretion of the organosedimentary structure

  3. Soil Carbon-Fixation Rates and Associated Bacterial Diversity and Abundance in Three Natural Ecosystems.

    PubMed

    Lynn, Tin Mar; Ge, Tida; Yuan, Hongzhao; Wei, Xiaomeng; Wu, Xiaohong; Xiao, Keqing; Kumaresan, Deepak; Yu, San San; Wu, Jinshui; Whiteley, Andrew S

    2017-04-01

    CO2 assimilation by autotrophic microbes is an important process in soil carbon cycling, and our understanding of the community composition of autotrophs in natural soils and their role in carbon sequestration of these soils is still limited. Here, we investigated the autotrophic C incorporation in soils from three natural ecosystems, i.e., wetland (WL), grassland (GR), and forest (FO) based on the incorporation of labeled C into the microbial biomass. Microbial assimilation of (14)C ((14)C-MBC) differed among the soils from three ecosystems, accounting for 14.2-20.2% of (14)C-labeled soil organic carbon ((14)C-SOC). We observed a positive correlation between the cbbL (ribulose-1,5-bisphosphate carboxylase/oxygenase (RubisCO) large-subunit gene) abundance, (14)C-SOC level, and (14)C-MBC concentration confirming the role of autotrophic bacteria in soil carbon sequestration. Distinct cbbL-bearing bacterial communities were present in each soil type; form IA and form IC RubisCO-bearing bacteria were most abundant in WL, followed by GR soils, with sequences from FO soils exclusively derived from the form IC clade. Phylogenetically, the diversity of CO2-fixing autotrophs and CO oxidizers differed significantly with soil type, whereas cbbL-bearing bacterial communities were similar when assessed using coxL. We demonstrate that local edaphic factors such as pH and salinity affect the C-fixation rate as well as cbbL and coxL gene abundance and diversity. Such insights into the effect of soil type on the autotrophic bacterial capacity and subsequent carbon cycling of natural ecosystems will provide information to enhance the sustainable management of these important natural ecosystems.

  4. Advances in spectroscopic methods for quantifying soil carbon

    USGS Publications Warehouse

    Liebig, Mark; Franzluebbers, Alan J.; Follett, Ronald F.; Hively, W. Dean; Reeves, James B.; McCarty, Gregory W.; Calderon, Francisco

    2012-01-01

    The gold standard for soil C determination is combustion. However, this method requires expensive consumables, is limited to the determination of the total carbon and in the number of samples which can be processed (~100/d). With increased interest in soil C sequestration, faster methods are needed. Thus, interest in methods based on diffuse reflectance spectroscopy in the visible, near-infrared or mid-infrared ranges using either proximal or remote sensing. These methods have the ability to analyze more samples (2 to 3X/d) or huge areas (imagery) and do multiple analytes simultaneously, but require calibrations relating spectral and reference data and have specific problems, i.e., remote sensing is capable of scanning entire watersheds, thus reducing the sampling needed, but is limiting to the surface layer of tilled soils and by difficulty in obtaining proper calibration reference values. The objective of this discussion is the present state of spectroscopic methods for soil C determination.

  5. Quantifying carbon budgets of conifer Mediterranean forest ecosystems, Turkey.

    PubMed

    Evrendilek, Fatih; Berberoglu, Suha; Taskinsu-Meydan, Sibel; Yilmaz, Erhan

    2006-08-01

    Aboveground biomass, aboveground litterfall, and leaf litter decomposition of five indigenous tree stands (pure stands of Pinus brutia, Pinus nigra, Cedrus libani, Juniperus excelsa, and a mixed stand of Abies cilicica, P. nigra, and C. libani) were measured in an eastern Mediterranean evergreen needleleaf forest of Turkey. Measurements were converted to regional scale estimates of carbon (C) stocks and fluxes of forest ecosystems, based on general non-site-specific allometric relationships. Mean C stock of the conifer forests was estimated as 97.8 +/- 79 Mg C ha(-1) consisting of 83.0 +/- 67 Mg C ha(-1) in the aboveground and 14.8 +/- 12 Mg C ha(-1) in the belowground biomass. The forest stands had mean soil organic carbon (SOC) and nitrogen (SON) stocks of 172.0 +/- 25.7 Mg C ha(-1) and 9.2 +/- 1.2 Mg N ha(-1), respectively. Mean total monthly litterfall was 376.2 +/- 191.3 kg C ha(-1), ranging from 641 +/- 385 kg C ha(-1) for Pinus brutia to 286 +/- 82 kg C ha(-1) for Cedrus libani. Decomposition rate constants (k) for pine needles were 0.0016 for Cedrus libani, 0.0009 for Pinus nigra, 0.0006 for the mixed stand, and 0.0005 day(-1) for Pinus brutia and Juniperus excelsa. Estimation of components of the C budgets revealed that the forest ecosystems were net C sinks, with a mean sequestration rate of 2.0 +/- 1.1 Mg C ha(-1) yr(-1) ranging from 3.2 +/- 2 Mg C ha(-1) for Pinus brutia to 1.6 +/- 0.6 Mg C ha(-1) for Cedrus libani. Mean net ecosystem productivity (NEP) resulted in sequestration of 98.4 +/- 54.1 Gg CO2 yr(-1) from the atmosphere when extrapolated for the entire study area of 134.2 km2 (Gg = 10(9) g). The quantitative C data from the study revealed the significance of the conifer Mediterranean forests as C sinks.

  6. Constraint-Based Modeling of Carbon Fixation and the Energetics of Electron Transfer in Geobacter metallireducens

    SciTech Connect

    Feist, AM; Nagarajan, H; Rotaru, AE; Tremblay, PL; Zhang, T; Nevin, KP; Lovley, DR; Zengler, K

    2014-04-24

    Geobacter species are of great interest for environmental and biotechnology applications as they can carry out direct electron transfer to insoluble metals or other microorganisms and have the ability to assimilate inorganic carbon. Here, we report on the capability and key enabling metabolic machinery of Geobacter metallireducens GS-15 to carry out CO2 fixation and direct electron transfer to iron. An updated metabolic reconstruction was generated, growth screens on targeted conditions of interest were performed, and constraint-based analysis was utilized to characterize and evaluate critical pathways and reactions in G. metallireducens. The novel capability of G. metallireducens to grow autotrophically with formate and Fe(III) was predicted and subsequently validated in vivo. Additionally, the energetic cost of transferring electrons to an external electron acceptor was determined through analysis of growth experiments carried out using three different electron acceptors (Fe(III), nitrate, and fumarate) by systematically isolating and examining different parts of the electron transport chain. The updated reconstruction will serve as a knowledgebase for understanding and engineering Geobacter and similar species. Author Summary The ability of microorganisms to exchange electrons directly with their environment has large implications for our knowledge of industrial and environmental processes. For decades, it has been known that microbes can use electrodes as electron acceptors in microbial fuel cell settings. Geobacter metallireducens has been one of the model organisms for characterizing microbe-electrode interactions as well as environmental processes such as bioremediation. Here, we significantly expand the knowledge of metabolism and energetics of this model organism by employing constraint-based metabolic modeling. Through this analysis, we build the metabolic pathways necessary for carbon fixation, a desirable property for industrial chemical production. We

  7. Identification of missing genes and enzymes for autotrophic carbon fixation in crenarchaeota.

    PubMed

    Ramos-Vera, W Hugo; Weiss, Michael; Strittmatter, Eric; Kockelkorn, Daniel; Fuchs, Georg

    2011-03-01

    Two autotrophic carbon fixation cycles have been identified in Crenarchaeota. The dicarboxylate/4-hydroxybutyrate cycle functions in anaerobic or microaerobic autotrophic members of the Thermoproteales and Desulfurococcales. The 3-hydroxypropionate/4-hydroxybutyrate cycle occurs in aerobic autotrophic Sulfolobales; a similar cycle may operate in autotrophic aerobic marine Crenarchaeota. Both cycles form succinyl-coenzyme A (CoA) from acetyl-CoA and two molecules of inorganic carbon, but they use different means. Both cycles have in common the (re)generation of acetyl-CoA from succinyl-CoA via identical intermediates. Here, we identified several missing enzymes/genes involved in the seven-step conversion of succinyl-CoA to two molecules of acetyl-CoA in Thermoproteus neutrophilus (Thermoproteales), Ignicoccus hospitalis (Desulfurococcales), and Metallosphaera sedula (Sulfolobales). The identified enzymes/genes include succinyl-CoA reductase, succinic semialdehyde reductase, 4-hydroxybutyrate-CoA ligase, bifunctional crotonyl-CoA hydratase/(S)-3-hydroxybutyryl-CoA dehydrogenase, and beta-ketothiolase. 4-Hydroxybutyryl-CoA dehydratase, which catalyzes a mechanistically intriguing elimination of water, is well conserved and rightly can be considered the key enzyme of these two cycles. In contrast, several of the other enzymes evolved from quite different sources, making functional predictions based solely on genome interpretation difficult, if not questionable.

  8. (13)C-Labeling the carbon-fixation pathway of a highly efficient artificial photosynthetic system.

    PubMed

    Liu, Chong; Nangle, Shannon N; Colón, Brendan C; Silver, Pamela A; Nocera, Daniel G

    2017-03-15

    Interfacing the CO2-fixing microorganism, Ralstonia eutropha, to the energy derived from hydrogen produced by water splitting is a viable approach to achieving renewable CO2 reduction at high efficiencies. We employ (13)C-labeling to report on the nature of CO2 reduction in the inorganic water splitting|R. eutropha hybrid system. Accumulated biomass in a reactor under a (13)C-enriched CO2 atmosphere may be sampled at different time points during CO2 reduction. Converting the sampled biomass into gaseous CO2 allows the (13)C/(12)C ratio to be determined by gas chromatography-mass spectrometry. After 2 hours of inoculation and the initiation of water splitting, the microbes adapted and began to convert CO2 into biomass. The observed time evolution of the (13)C/(12)C ratio in accumulated biomass is consistent with a Monod model for carbon fixation. Carbon dioxide produced by catabolism was found to be minimal. This rapid response of the bacteria to a hydrogen input and to subsequent CO2 reduction at high efficiency are beneficial to achieving artificial photosynthesis for the storage of renewable energy.

  9. Quantifying Forest Carbon and Structure with Terrestrial LiDAR

    NASA Astrophysics Data System (ADS)

    Stovall, A. E.; Shugart, H. H., Jr.

    2014-12-01

    Current rising atmospheric CO2 concentrations are a major concern with significant global ramifications, however, of the carbon (C) fluxes that are known to occur on Earth, the terrestrial sink has the greatest amount of uncertainty. Improved monitoring of forest cover and change is required for reducing emissions from deforestation and forest degradation (REDD). We determine C storage from volume measurements with a high-precision Terrestrial Laser Scanner (TLS), substantially improving current standard ground validation techniques. This technology is utilized on several 30 m x 30 m plots in a Virginia temperate forest. Aboveground C is calculated on each of the study sites with commonly used allometric equations to offer a realistic comparison of field-based estimations to TLS-derived methods. The TLS and aerial LiDAR point cloud data are compared via the development of canopy height models at the plot scale. The novel method of point cloud voxelization is applied to our TLS data in order to produce detailed volumetric calculations in these complex forest ecosystems. Statistical output from the TLS data allows us to resolve and compare forest structure on scales from the individual plot to the entire forest landscape. The estimates produced from this research will be used to inform more widely available remote sensing datasets provided by NASA's Landsat satellites, significantly reducing the uncertainty of the terrestrial C cycle in temperate forests. Preliminary findings corroborate previous research, suggesting the potential for highly detailed monitoring of forest C storage as defined by the REDD initiative and analysis of complex ecosystem structure.

  10. High cell-specific rates of nitrogen and carbon fixation by the cyanobacterium Aphanizomenon sp. at low temperatures in the Baltic Sea.

    PubMed

    Svedén, Jennie B; Adam, Birgit; Walve, Jakob; Nahar, Nurun; Musat, Niculina; Lavik, Gaute; Whitehouse, Martin J; Kuypers, Marcel M M; Ploug, Helle

    2015-12-01

    Aphanizomenon is a widespread genus of nitrogen (N2)-fixing cyanobacteria in lakes and estuaries, accounting for a large fraction of the summer N2-fixation in the Baltic Sea. However, information about its cell-specific carbon (C)- and N2-fixation rates in the early growth season has not previously been reported. We combined various methods to study N2-fixation, photosynthesis and respiration in field-sampled Baltic Sea Aphanizomenon sp. during early summer at 10°C. Stable isotope incubations at in situ light intensities during 24 h combined with cell-specific secondary ion mass spectrometry showed an average net N2-fixation rate of 55 fmol N cell(-1) day(-1). Dark net N2-fixation rates over a course of 12 h were 20% of those measured in light. C-fixation, but not N2-fixation, was inhibited by high ambient light intensities during daytime. Consequently, the C:N fixation ratio varied substantially over the diel cycle. C- and N2-fixation rates were comparable to those reported for Aphanizomenon sp. in August at 19°C, using the same methods. High respiration rates (23% of gross photosynthesis) were measured with (14)C-incubations and O2-microsensors, and presumably reflect the energy needed for high N2-fixation rates. Hence, Aphanizomenon sp. is an important contributor to N2-fixation at low in situ temperatures in the early growth season.

  11. Light Modulates the Biosynthesis and Organization of Cyanobacterial Carbon Fixation Machinery through Photosynthetic Electron Flow1[OPEN

    PubMed Central

    Sun, Yaqi; Casella, Selene

    2016-01-01

    Cyanobacteria have evolved effective adaptive mechanisms to improve photosynthesis and CO2 fixation. The central CO2-fixing machinery is the carboxysome, which is composed of an icosahedral proteinaceous shell encapsulating the key carbon fixation enzyme, Rubisco, in the interior. Controlled biosynthesis and ordered organization of carboxysomes are vital to the CO2-fixing activity of cyanobacterial cells. However, little is known about how carboxysome biosynthesis and spatial positioning are physiologically regulated to adjust to dynamic changes in the environment. Here, we used fluorescence tagging and live-cell confocal fluorescence imaging to explore the biosynthesis and subcellular localization of β-carboxysomes within a model cyanobacterium, Synechococcus elongatus PCC7942, in response to light variation. We demonstrated that β-carboxysome biosynthesis is accelerated in response to increasing light intensity, thereby enhancing the carbon fixation activity of the cell. Inhibition of photosynthetic electron flow impairs the accumulation of carboxysomes, indicating a close coordination between β-carboxysome biogenesis and photosynthetic electron transport. Likewise, the spatial organization of carboxysomes in the cell correlates with the redox state of photosynthetic electron transport chain. This study provides essential knowledge for us to modulate the β-carboxysome biosynthesis and function in cyanobacteria. In translational terms, the knowledge is instrumental for design and synthetic engineering of functional carboxysomes into higher plants to improve photosynthesis performance and CO2 fixation. PMID:26956667

  12. Constraint-based modeling of carbon fixation and the energetics of electron transfer in Geobacter metallireducens.

    PubMed

    Feist, Adam M; Nagarajan, Harish; Rotaru, Amelia-Elena; Tremblay, Pier-Luc; Zhang, Tian; Nevin, Kelly P; Lovley, Derek R; Zengler, Karsten

    2014-04-01

    Geobacter species are of great interest for environmental and biotechnology applications as they can carry out direct electron transfer to insoluble metals or other microorganisms and have the ability to assimilate inorganic carbon. Here, we report on the capability and key enabling metabolic machinery of Geobacter metallireducens GS-15 to carry out CO2 fixation and direct electron transfer to iron. An updated metabolic reconstruction was generated, growth screens on targeted conditions of interest were performed, and constraint-based analysis was utilized to characterize and evaluate critical pathways and reactions in G. metallireducens. The novel capability of G. metallireducens to grow autotrophically with formate and Fe(III) was predicted and subsequently validated in vivo. Additionally, the energetic cost of transferring electrons to an external electron acceptor was determined through analysis of growth experiments carried out using three different electron acceptors (Fe(III), nitrate, and fumarate) by systematically isolating and examining different parts of the electron transport chain. The updated reconstruction will serve as a knowledgebase for understanding and engineering Geobacter and similar species.

  13. Constraint-Based Modeling of Carbon Fixation and the Energetics of Electron Transfer in Geobacter metallireducens

    PubMed Central

    Feist, Adam M.; Nagarajan, Harish; Rotaru, Amelia-Elena; Tremblay, Pier-Luc; Zhang, Tian; Nevin, Kelly P.; Lovley, Derek R.; Zengler, Karsten

    2014-01-01

    Geobacter species are of great interest for environmental and biotechnology applications as they can carry out direct electron transfer to insoluble metals or other microorganisms and have the ability to assimilate inorganic carbon. Here, we report on the capability and key enabling metabolic machinery of Geobacter metallireducens GS-15 to carry out CO2 fixation and direct electron transfer to iron. An updated metabolic reconstruction was generated, growth screens on targeted conditions of interest were performed, and constraint-based analysis was utilized to characterize and evaluate critical pathways and reactions in G. metallireducens. The novel capability of G. metallireducens to grow autotrophically with formate and Fe(III) was predicted and subsequently validated in vivo. Additionally, the energetic cost of transferring electrons to an external electron acceptor was determined through analysis of growth experiments carried out using three different electron acceptors (Fe(III), nitrate, and fumarate) by systematically isolating and examining different parts of the electron transport chain. The updated reconstruction will serve as a knowledgebase for understanding and engineering Geobacter and similar species. PMID:24762737

  14. Carbon dioxide fixation by Metallosphaera yellowstonensis and acidothermophilic iron-oxidizing microbial communities from Yellowstone National Park.

    PubMed

    Jennings, Ryan M; Whitmore, Laura M; Moran, James J; Kreuzer, Helen W; Inskeep, William P

    2014-05-01

    The fixation of inorganic carbon has been documented in all three domains of life and results in the biosynthesis of diverse organic compounds that support heterotrophic organisms. The primary aim of this study was to assess carbon dioxide fixation in high-temperature Fe(III)-oxide mat communities and in pure cultures of a dominant Fe(II)-oxidizing organism (Metallosphaera yellowstonensis strain MK1) originally isolated from these environments. Protein-encoding genes of the complete 3-hydroxypropionate/4-hydroxybutyrate (3-HP/4-HB) carbon dioxide fixation pathway were identified in M. yellowstonensis strain MK1. Highly similar M. yellowstonensis genes for this pathway were identified in metagenomes of replicate Fe(III)-oxide mats, as were genes for the reductive tricarboxylic acid cycle from Hydrogenobaculum spp. (Aquificales). Stable-isotope ((13)CO2) labeling demonstrated CO2 fixation by M. yellowstonensis strain MK1 and in ex situ assays containing live Fe(III)-oxide microbial mats. The results showed that strain MK1 fixes CO2 with a fractionation factor of ∼2.5‰. Analysis of the (13)C composition of dissolved inorganic C (DIC), dissolved organic C (DOC), landscape C, and microbial mat C showed that mat C is from both DIC and non-DIC sources. An isotopic mixing model showed that biomass C contains a minimum of 42% C of DIC origin, depending on the fraction of landscape C that is present. The significance of DIC as a major carbon source for Fe(III)-oxide mat communities provides a foundation for examining microbial interactions that are dependent on the activity of autotrophic organisms (i.e., Hydrogenobaculum and Metallosphaera spp.) in simplified natural communities.

  15. Carbon Dioxide Fixation by Metallosphaera yellowstonensis and Acidothermophilic Iron-Oxidizing Microbial Communities from Yellowstone National Park

    PubMed Central

    Jennings, Ryan M.; Whitmore, Laura M.; Moran, James J.

    2014-01-01

    The fixation of inorganic carbon has been documented in all three domains of life and results in the biosynthesis of diverse organic compounds that support heterotrophic organisms. The primary aim of this study was to assess carbon dioxide fixation in high-temperature Fe(III)-oxide mat communities and in pure cultures of a dominant Fe(II)-oxidizing organism (Metallosphaera yellowstonensis strain MK1) originally isolated from these environments. Protein-encoding genes of the complete 3-hydroxypropionate/4-hydroxybutyrate (3-HP/4-HB) carbon dioxide fixation pathway were identified in M. yellowstonensis strain MK1. Highly similar M. yellowstonensis genes for this pathway were identified in metagenomes of replicate Fe(III)-oxide mats, as were genes for the reductive tricarboxylic acid cycle from Hydrogenobaculum spp. (Aquificales). Stable-isotope (13CO2) labeling demonstrated CO2 fixation by M. yellowstonensis strain MK1 and in ex situ assays containing live Fe(III)-oxide microbial mats. The results showed that strain MK1 fixes CO2 with a fractionation factor of ∼2.5‰. Analysis of the 13C composition of dissolved inorganic C (DIC), dissolved organic C (DOC), landscape C, and microbial mat C showed that mat C is from both DIC and non-DIC sources. An isotopic mixing model showed that biomass C contains a minimum of 42% C of DIC origin, depending on the fraction of landscape C that is present. The significance of DIC as a major carbon source for Fe(III)-oxide mat communities provides a foundation for examining microbial interactions that are dependent on the activity of autotrophic organisms (i.e., Hydrogenobaculum and Metallosphaera spp.) in simplified natural communities. PMID:24532073

  16. Toward quantifying the deep Atlantic carbon storage increase during the last glaciation

    NASA Astrophysics Data System (ADS)

    Yu, J.; Menviel, L.; Jin, Z.

    2014-12-01

    Ice core records show that atmospheric CO2 concentrations during peak glacial time were ~30% lower than the levels during interglacial periods. The terrestrial biosphere carbon stock was likely reduced during glacials. Increased carbon storage in the deep ocean is thought to play an important role in lowering glacial atmospheric CO2. However, it has been challenging to quantify carbon storage changes in the deep ocean using existing proxy data. Here, we present deepwater carbonate ion reconstructions for a few locations in the deep Atlantic. These data allow us to estimate the minimum carbon storage increase in the deep Atlantic Ocean during the last glaciation. Our results show that, despite its relative small volume, the deep Atlantic Ocean may contribute significantly to atmospheric CO2 variations at major climate transitions. Furthermore, our results suggest a strong coupling of ocean circulation and carbon cycle in the deep Atlantic during the last glaciation.

  17. Quantifying terrestrial ecosystem carbon dynamics in the Jinsha watershed, Upper Yangtze, China from 1975 to 2000

    USGS Publications Warehouse

    Zhao, Shuqing

    2010-01-01

    Quantifying the spatial and temporal dynamics of carbon stocks in terrestrial ecosystems and carbon fluxes between the terrestrial biosphere and the atmosphere is critical to our understanding of regional patterns of carbon budgets. Here we use the General Ensemble biogeochemical Modeling System to simulate the terrestrial ecosystem carbon dynamics in the Jinsha watershed of China’s upper Yangtze basin from 1975 to 2000, based on unique combinations of spatial and temporal dynamics of major driving forces, such as climate, soil properties, nitrogen deposition, and land use and land cover changes. Our analysis demonstrates that the Jinsha watershed ecosystems acted as a carbon sink during the period of 1975–2000, with an average rate of 0.36 Mg/ha/yr, primarily resulting from regional climate variation and local land use and land cover change. Vegetation biomass accumulation accounted for 90.6% of the sink, while soil organic carbon loss before 1992 led to a lower net gain of carbon in the watershed, and after that soils became a small sink. Ecosystem carbon sink/source patterns showed a high degree of spatial heterogeneity. Carbon sinks were associated with forest areas without disturbances, whereas carbon sources were primarily caused by stand-replacing disturbances. It is critical to adequately represent the detailed fast-changing dynamics of land use activities in regional biogeochemical models to determine the spatial and temporal evolution of regional carbon sink/source patterns.

  18. Immobilization of D-ribulose-1,5-bisphosphate carboxylase/oxygenase: a step toward carbon dioxide fixation bioprocess.

    PubMed

    Chakrabarti, Subhra; Bhattacharya, Sumana; Bhattacharya, Sanjoy K

    2003-03-20

    Immobilization of D-ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) from spinach leaves is described. This enzyme enables the fixation of carbon dioxide on a five-carbon sugar D-ribulose-1,5-bisphosphate (RuBP). Two different immobilization methods were employed: dicyclohexylcarbodiimide coupling on nylon membrane matrix and dimethylpimelimidate immobilization on protein A agarose. The reusability of immobilized enzymes, coupling efficiency, and temperature-activity relationship of soluble and immobilized Rubisco are presented. The immobilization imparted greater thermal and storage stability. The thermal deactivation rates of the immobilized enzymes were considerably lower than those of the soluble enzyme.

  19. Development of a Rapid Assessment Method for Quantifying Carbon Sequestration on Reclaimed Coal Mine Sites

    NASA Astrophysics Data System (ADS)

    Maharaj, S.; Barton, C. D.; Karathanasis, A. D.

    2005-12-01

    Projected climate change resulting from elevated atmospheric carbon dioxide has given rise to various strategies designed to sequester carbon in various terrestrial ecosystems. Reclaimed coal mine soils present one such potential carbon sink where traditional reclamation objectives can complement carbon sequestration. However, quantifying new carbon (carbon that has been added to soil through recent biological processes) on reclaimed mine soils have proven to be difficult due to carbonates and coal particles present in the reclaimed coal mine spoils. Visible coal particles can be removed, but the microscopic coal dust particles remain. Additionally, with the advent of carbon trading on the stock market, rapid quantification of newly sequestered carbon has proven to be elusive. The focus of this project is to assess the potential of thermogravimetric analysis as a rapid, simple and direct method for differentiating and quantifying new carbon from old carbon (carbon of geologic origin) on reclaimed coal mine sites and provide a standard procedure for determining carbon sequestered in soil sinks. Thermogravimetry is a physico-chemical technique where the weight change is measured and recorded during the incremental heating of the soil sample over a temperature range of 25 to 1000 ° C. Grass litter and limestone were used as representative organic and inorganic carbon fractions, while coal was used to differentiate the old and new carbon within the organic fraction. Recoveries of mixtures at the 95 % confidence interval were found to be 94.49 ± 4.23 % (coal) , 93.67 ± 2.11 % (litter) , and 108.88 ± 2.88 % (limestone) respectively. Each of the above components appeared as distinct separate peaks on the thermograph, with litter appearing between 260 to 390 ° C, coal 425 to 480 ° C, and limestone 640 to 740 ° C. Overlapping peaks for the organic carbon represented by the grass litter may be indicative of cellulose and lignin fractions. Ongoing work in this area is

  20. Oxygen-18 incorporation into malic acid during nocturnal carbon dioxide fixation in crassulacean acid metabolism plants: a new approach to estimating in vivo carbonic anhydrase activity

    SciTech Connect

    Holtum, J.A.M.; Summons, R.; Roeske, C.A.; Comins, H.N.; O'Leary, M.H.

    1984-01-01

    Crassulacean acid metabolism (CAM) plants fix carbon dioxide at night by the carboxylation of phosphoenolpyruvate. If CO2 fixation is conducted with TC YO2, then in the absence of carbonic anhydrase, the malate formed by dark CO2 fixation should also contain high levels of carbon-13 and oxygen-18. Conversely, if carbonic anhydrase is present and highly active, oxygen exchange between CO2 and cellular H2O will occur more rapidly than carboxylation, and the ( TC) malate formed will contain little or no oxygen-18 above the natural abundance level. The presence of oxygen-18 in these molecules can be detected either by nuclear magnetic resonance or by mass spectrometry. Studies of phosphoenolpyruvate carboxylase in the presence and absence of carbonic anhydrase in vitro confirm the validity of the method. When CAM plants are studied by this method, we find that most species show incorporation of a significant amount of oxygen-18. Comparison of these results with results of isotope fractionation and gas exchange studies permits calculation of the in vivo activity of carbonic anhydrase toward HCO3 compared with that of phosphoenolpyruvate carboxylase. The ratio (carbonic anhydrase activity/phosphoenolpyruvate carboxylase activity) is species dependent and varies from a low of about 7 for Ananas comosus to values near 20 for Hoya carnosa and Bryophyllum pinnatum, 40 for Kalanchoee daigremontiana, and 100 or greater for Bryophyllum tubiflorum, Kalanchoee serrata, and Kalanchoae tomentosa. Carbonic anhydrase activity increases relative to phosphoenolpyruvate carboxylase activity at higher temperature. 37 references, 2 figures, 8 tables.

  1. The reallocation of carbon in P deficient lupins affects biological nitrogen fixation.

    PubMed

    Kleinert, Aleysia; Venter, Mauritz; Kossmann, Jens; Valentine, Alexander

    2014-11-01

    It is not known how phosphate (P) deficiency affects the allocation of carbon (C) to biological nitrogen fixation (BNF) in legumes. The alteration of the respiratory and photosynthetic C costs of BNF was investigated under P deficiency. Although BNF can impose considerable sink stimulation on host respiratory and photosynthetic C, it is not known how the change in the C and energy allocation during P deficiency may affect BNF. Nodulated Lupinus luteus plants were grown in sand culture, using a modified Long Ashton nutrient solution containing no nitrogen (N) for ca. four weeks, after which one set was exposed to a P-deficient nutrient medium, while the other set continued growing on a P-sufficient nutrient medium. Phosphorus stress was measured at 20 days after onset of P-starvation. During P stress the decline in nodular P levels was associated with lower BNF and nodule growth. There was also a shift in the balance of photosynthetic and respiratory C toward a loss of C during P stress. Below-ground respiration declined under limiting P conditions. However, during this decline there was also a shift in the proportion of respiratory energy from maintenance toward growth respiration. Under P stress, there was an increased allocation of C toward root growth, thereby decreasing the amount of C available for maintenance respiration. It is therefore possible that the decline in BNF under P deficiency may be due to this change in resource allocation away from respiration associated with direct nutrient uptake, but rather toward a long term nutrient acquisition strategy of increased root growth.

  2. Quantifying carbon footprint reduction opportunities for U.S. households and communities.

    PubMed

    Jones, Christopher M; Kammen, Daniel M

    2011-05-01

    Carbon management is of increasing interest to individuals, households, and communities. In order to effectively assess and manage their climate impacts, individuals need information on the financial and greenhouse gas benefits of effective mitigation opportunities. We use consumption-based life cycle accounting techniques to quantify the carbon footprints of typical U.S. households in 28 cities for 6 household sizes and 12 income brackets. The model includes emissions embodied in transportation, energy, water, waste, food, goods, and services. We further quantify greenhouse gas and financial savings from 13 potential mitigation actions across all household types. The model suggests that the size and composition of carbon footprints vary dramatically between geographic regions and within regions based on basic demographic characteristics. Despite these differences, large cash-positive carbon footprint reductions are evident across all household types and locations; however, realizing this potential may require tailoring policies and programs to different population segments with very different carbon footprint profiles. The results of this model have been incorporated into an open access online carbon footprint management tool designed to enable behavior change at the household level through personalized feedback.

  3. Diurnal variation in the coupling of photosynthetic electron transport and carbon fixation in iron-limited phytoplankton in the NE subarctic Pacific

    NASA Astrophysics Data System (ADS)

    Schuback, Nina; Flecken, Mirkko; Maldonado, Maria T.; Tortell, Philippe D.

    2016-02-01

    Active chlorophyll a fluorescence approaches, including fast repetition rate fluorometry (FRRF), have the potential to provide estimates of phytoplankton primary productivity at an unprecedented spatial and temporal resolution. FRRF-derived productivity rates are based on estimates of charge separation in reaction center II (ETRRCII), which must be converted into ecologically relevant units of carbon fixation. Understanding sources of variability in the coupling of ETRRCII and carbon fixation provides physiological insight into phytoplankton photosynthesis and is critical for the application of FRRF as a primary productivity measurement tool. In the present study, we simultaneously measured phytoplankton carbon fixation and ETRRCII in the iron-limited NE subarctic Pacific over the course of a diurnal cycle. We show that rates of ETRRCII are closely tied to the diurnal cycle in light availability, whereas rates of carbon fixation appear to be influenced by endogenous changes in metabolic energy allocation under iron-limited conditions. Unsynchronized diurnal oscillations of the two rates led to 3.5-fold changes in the conversion factor between ETRRCII and carbon fixation (Kc / nPSII). Consequently, diurnal variability in phytoplankton carbon fixation cannot be adequately captured with FRRF approaches if a constant conversion factor is applied. Utilizing several auxiliary photophysiological measurements, we observed that a high conversion factor is associated with conditions of excess light and correlates with the increased expression of non-photochemical quenching (NPQ) in the pigment antenna, as derived from FRRF measurements. The observed correlation between NPQ and Kc / nPSII requires further validation but has the potential to improve estimates of phytoplankton carbon fixation rates from FRRF measurements alone.

  4. Diurnal variation in the coupling of photosynthetic electron transport and carbon fixation in iron-limited phytoplankton in the NE subarctic Pacific

    NASA Astrophysics Data System (ADS)

    Schuback, N.; Flecken, M.; Maldonado, M. T.; Tortell, P. D.

    2015-10-01

    Active chlorophyll a fluorescence approaches, including fast repetition rate fluorometry (FRRF), have the potential to provide estimates of phytoplankton primary productivity at unprecedented spatial and temporal resolution. FRRF-derived productivity rates are based on estimates of charge separation at PSII (ETRRCII), which must be converted into ecologically relevant units of carbon fixation. Understanding sources of variability in the coupling of ETRRCII and carbon fixation provides physiological insight into phytoplankton photosynthesis, and is critical for the application of FRRF as a primary productivity measurement tool. In the present study, we simultaneously measured phytoplankton carbon fixation and ETRRCII in the iron-limited NE subarctic Pacific, over the course of a diurnal cycle. We show that rates of ETRRCII are closely tied to the diurnal cycle in light availability, whereas rates of carbon fixation appear to be influenced by endogenous changes in metabolic energy allocation under iron-limited conditions. Unsynchronized diurnal oscillations of the two rates led to 3.5 fold changes in the conversion factor coupling ETRRCII and carbon fixation (Φe:C / nPSII). Consequently, diurnal variability in phytoplankton carbon fixation cannot be adequately captured with FRRF approaches if a constant conversion factor is applied. Utilizing several auxiliary photophysiological measurements, we observed that a high conversion factor is associated with conditions of excess light, and correlates with the expression of non-photochemical quenching (NPQ) in the pigment antenna, as derived from FRRF measurements. The observed correlation between NPQ and the conversion factor Φe:C / nPSII has the potential to improve estimates of phytoplankton carbon fixation rates from FRRF measurements alone.

  5. Quantifying peat carbon accumulation in Alaska using a process-based biogeochemistry model

    NASA Astrophysics Data System (ADS)

    Wang, Sirui; Zhuang, Qianlai; Yu, Zicheng; Bridgham, Scott; Keller, Jason K.

    2016-08-01

    This study uses an integrated modeling framework that couples the dynamics of hydrology, soil thermal regime, and ecosystem carbon and nitrogen to quantify the long-term peat carbon accumulation in Alaska during the Holocene. Modeled hydrology, soil thermal regime, carbon pools and fluxes, and methane emissions are evaluated using observation data at several peatland sites in Minnesota, Alaska, and Canada. The model is then applied for a 10,000 year (15 ka to 5 ka; 1 ka = 1000 cal years before present) simulation at four peatland sites. We find that model simulations match the observed carbon accumulation rates at fen sites during the Holocene (R2 = 0.88, 0.87, 0.38, and -0.05 using comparisons in 500 year bins). The simulated (2.04 m) and observed peat depths (on average 1.98 m) were also compared well (R2 = 0.91). The early Holocene carbon accumulation rates, especially during the Holocene thermal maximum (HTM) (35.9 g C m- 2 yr- 1), are estimated up to 6 times higher than the rest of the Holocene (6.5 g C m- 2 yr- 1). Our analysis suggests that high summer temperature and the lengthened growing season resulted from the elevated insolation seasonality, along with wetter-than-before conditions might be major factors causing the rapid carbon accumulation in Alaska during the HTM. Our sensitivity tests indicate that, apart from climate, initial water table depth and vegetation canopy are major drivers to the estimated peat carbon accumulation. When the modeling framework is evaluated for various peatland types in the Arctic, it can quantify peatland carbon accumulation at regional scales.

  6. An Ancient Pathway Combining Carbon Dioxide Fixation with the Generation and Utilization of a Sodium Ion Gradient for ATP Synthesis

    PubMed Central

    Poehlein, Anja; Schmidt, Silke; Kaster, Anne-Kristin; Goenrich, Meike; Vollmers, John; Thürmer, Andrea; Bertsch, Johannes; Schuchmann, Kai; Voigt, Birgit; Hecker, Michael; Daniel, Rolf; Thauer, Rudolf K.; Gottschalk, Gerhard; Müller, Volker

    2012-01-01

    Synthesis of acetate from carbon dioxide and molecular hydrogen is considered to be the first carbon assimilation pathway on earth. It combines carbon dioxide fixation into acetyl-CoA with the production of ATP via an energized cell membrane. How the pathway is coupled with the net synthesis of ATP has been an enigma. The anaerobic, acetogenic bacterium Acetobacterium woodii uses an ancient version of this pathway without cytochromes and quinones. It generates a sodium ion potential across the cell membrane by the sodium-motive ferredoxin:NAD oxidoreductase (Rnf). The genome sequence of A. woodii solves the enigma: it uncovers Rnf as the only ion-motive enzyme coupled to the pathway and unravels a metabolism designed to produce reduced ferredoxin and overcome energetic barriers by virtue of electron-bifurcating, soluble enzymes. PMID:22479398

  7. Biomass production, nutrient cycling, and carbon fixation by Salicornia brachiata Roxb.: A promising halophyte for coastal saline soil rehabilitation.

    PubMed

    Rathore, Aditya P; Chaudhary, Doongar R; Jha, Bhavanath

    2016-08-02

    In order to increase our understanding of the interaction of soil-halophyte (Salicornia brachiata) relations and phytoremediation, we investigated the aboveground biomass, carbon fixation, and nutrient composition (N, P, K, Na, Ca, and Mg) of S. brachiata using six sampling sites with varying characteristics over one growing season in intertidal marshes. Simultaneously, soil characteristics and nutrient concentrations were also estimated. There was a significant variation in soil characteristics and nutrient contents spatially (except pH) as well as temporally. Nutrient contents in aboveground biomass of S. brachiata were also significantly differed spatially (except C and Cl) as well as temporally. Aboveground biomass of S. brachiata ranged from 2.51 to 6.07 t/ha at maturity and it was positively correlated with soil electrical conductivity and available Na, whereas negatively with soil pH. The K/Na ratio in plant was below one, showing tolerance to salinity. The aboveground C fixation values ranged from 0.77 to 1.93 C t/ha at all six sampling sites. This study provides new understandings into nutrient cycling-C fixation potential of highly salt-tolerant halophyte S. brachiata growing on intertidal soils of India. S. brachiata have a potential for amelioration of the salinity due to higher Na bioaccumulation factor.

  8. Engineering the Cyanobacterial Carbon Concentrating Mechanism for Enhanced CO2 Capture and Fixation

    SciTech Connect

    Sandh, Gustaf; Cai, Fei; Shih, Patrick; Kinney, James; Axen, Seth; Salmeen, Annette; Zarzycki, Jan; Sutter, Markus; Kerfeld, Cheryl

    2011-06-02

    In cyanobacteria CO2 fixation is localized in a special proteinaceous organelle, the carboxysome. The CO2 fixation enzymes are encapsulated by a selectively permeable protein shell. By structurally and functionally characterizing subunits of the carboxysome shell and the encapsulated proteins, we hope to understand what regulates the shape, assembly and permeability of the shell, as well as the targeting mechanism and organization of the encapsulated proteins. This knowledge will be used to enhance CO2 fixation in both cyanobacteria and plants through synthetic biology. The same strategy can also serve as a template for the production of modular synthetic bacterial organelles. Our research is conducted using a variety of techniques such as genomic sequencing and analysis, transcriptional regulation, DNA synthesis, synthetic biology, protein crystallization, Small Angle X-ray Scattering (SAXS), protein-protein interaction assays and phenotypic characterization using various types of cellular imaging, e.g. fluorescence microscopy, Transmission Electron Microscopy (TEM), and Soft X-ray Tomography (SXT).

  9. Quantifying seasonal precipitation using high-resolution carbon isotope analyses in evergreen wood

    NASA Astrophysics Data System (ADS)

    Schubert, Brian A.; Jahren, A. Hope

    2011-11-01

    High-resolution natural abundance stable carbon isotope analyses across annual growth rings in evergreen trees reveal a cyclic increase and decrease in the measured carbon isotopic composition (δ 13C), but the causes of this pattern are poorly understood. We compiled new and published high-resolution δ 13C data from across annual growth rings of 33 modern evergreen trees from 10 genera and 15 globally distributed sites to quantify the parameters that affect the observed δ 13C pattern. Across a broad range of latitude, temperature, and precipitation regimes, we found that the average, measured seasonal change in δ 13C (Δδ 13C meas, ‰) within tree rings of evergreen species reflects changes in the carbon isotopic composition of atmospheric carbon dioxide (Δδ 13C CO2) and changes in seasonal precipitation (Δ P) according to the following equation: Δδ 13C meas = Δδ 13C CO2 - 0.82(Δ P) + 0.73; R2 = 0.96. Seasonal changes in temperature, pCO 2, and light levels were not found to significantly affect Δδ 13C meas. We propose that this relationship can be used to quantify seasonal patterns in paleoprecipitation from intra-ring profiles of δ 13C measured from non-permineralized, fossil wood.

  10. Quantifying regional changes in terrestrial carbon storage by extrapolation from local ecosystem models

    SciTech Connect

    King, A W

    1991-12-31

    A general procedure for quantifying regional carbon dynamics by spatial extrapolation of local ecosystem models is presented Monte Carlo simulation to calculate the expected value of one or more local models, explicitly integrating the spatial heterogeneity of variables that influence ecosystem carbon flux and storage. These variables are described by empirically derived probability distributions that are input to the Monte Carlo process. The procedure provides large-scale regional estimates based explicitly on information and understanding acquired at smaller and more accessible scales.Results are presented from an earlier application to seasonal atmosphere-biosphere CO{sub 2} exchange for circumpolar ``subarctic`` latitudes (64{degree}N-90{degree}N). Results suggest that, under certain climatic conditions, these high northern ecosystems could collectively release 0.2 Gt of carbon per year to the atmosphere. I interpret these results with respect to questions about global biospheric sinks for atmospheric CO{sub 2} .

  11. Using Carbon Isotopes in Cenozoic Soil Carbonates to Quantify Primary Productivity from Mid-Latitude Regions

    NASA Astrophysics Data System (ADS)

    Caves, J. K.; Kramer, S. H.; Ibarra, D. E.; Chamberlain, C. P.

    2015-12-01

    The carbon isotope composition of pedogenic carbonates (δ13Ccarb) from paleosols has been extensively used as a proxy to estimate atmospheric pCO2 over the Phanerozoic. However, a number of other factors - including the concentration of plant-respired CO2 and the isotopic composition of both atmospheric and plant-respired carbon - influence the δ13C of pedogenic carbonates. For example, δ13Ccarb records from the mid-latitudes in central Asia and western North America show increasing trends in δ13Ccarb despite decreasing pCO2 during the late Cenozoic, which suggests that other factors play an important role in determining the isotopic composition of pedogenic carbonates. Instead, we suggest that these records are primarily recording changes in primary productivity rather than changes in atmospheric pCO2 and therefore propose a novel use of paleosol carbonate records to understand paleo-ecosystem dynamics. Here, we compile existing paleosol carbonate records, and present three new records from Wyoming, to estimate soil respiration and primary productivity in western North America during the Paleogene and early Neogene. We observe both an overall increase in δ13Ccarb after the early Eocene, and spatially heterogeneous δ13Ccarb values across western US basins. We combine this δ13Ccarb data with compilations of atmospheric pCO2 to estimate soil respiration and plant productivity. The long-term increase in δ13Ccarb indicates a decrease in plant productivity as conditions became more arid across much of the western US, congruent with both records of regional uplift and of global cooling. Furthermore, significant spatial heterogeneity in δ13Ccarb indicates that regional factors, such as the presence of paleolakes and/or local paleotopography may have provided a second-order control on local and regional productivity. Thus, our results provide a first-order estimate linking changes in primary productivity with regional tectonics and global climatic change.

  12. Simulating interactive effects of symbiotic nitrogen fixation, carbon dioxide elevation, and climatic change on legume growth.

    PubMed

    Yu, Mei; Gao, Q; Shaffer, M J

    2002-01-01

    The underlying mechanisms of interaction between the symbiotic nitrogen-fixation process and main physiological processes, such as assimilation, nutrient allocation, and structural growth, as well as effects of nitrogen fixation on plant responses to global change, are important and still open to more investigation. Appropriate models have not been adequately developed. A dynamic ecophysiological model was developed in this study for a legume plant [Glycine max (L.) Merr.] growing in northern China. The model synthesized symbiotic nitrogen fixation and the main physiological processes under variable atmospheric CO2 concentration and climatic conditions, and emphasized the interactive effects of these processes on seasonal biomass dynamics of the plant. Experimental measurements of ecophysiological quantities obtained in a CO2 enrichment experiment on soybean plants, were used to parameterize and validate the model. The results indicated that the model simulated the experiments with reasonable accuracy. The R2 values between simulations and observations are 0.94, 0.95, and 0.86 for total biomass, green biomass, and nodule biomass, respectively. The simulations for various combinations of atmospheric CO2 concentration, precipitation, and temperature, with or without nitrogen fixation, showed that increasing atmospheric CO2 concentration, precipitation, and efficiency of nitrogen fixation all have positive effects on biomass accumulation. On the other hand, an increased temperature induced lower rates of biomass accumulation under semi-arid conditions. In general, factors with positive effects on plant growth tended to promote each other in the simulation range, except the relationship between CO2 concentration and climatic factors. Because of the enhanced water use efficiency with a higher CO2 concentration, more significant effects of CO2 concentration were associated with a worse (dryer and warmer in this study) climate.

  13. Evidence of carbon fixation pathway in a bacterium from candidate phylum SBR1093 revealed with genomic analysis.

    PubMed

    Wang, Zhiping; Guo, Feng; Liu, Lili; Zhang, Tong

    2014-01-01

    Autotrophic CO2 fixation is the most important biotransformation process in the biosphere. Research focusing on the diversity and distribution of relevant autotrophs is significant to our comprehension of the biosphere. In this study, a draft genome of a bacterium from candidate phylum SBR1093 was reconstructed with the metagenome of an industrial activated sludge. Based on comparative genomics, this autotrophy may occur via a newly discovered carbon fixation path, the hydroxypropionate-hydroxybutyrate (HPHB) cycle, which was demonstrated in a previous work to be uniquely possessed by some genera from Archaea. This bacterium possesses all of the thirteen enzymes required for the HPHB cycle; these enzymes share 30∼50% identity with those in the autotrophic species of Archaea that undergo the HPHB cycle and 30∼80% identity with the corresponding enzymes of the mixotrophic species within Bradyrhizobiaceae. Thus, this bacterium might have an autotrophic growth mode in certain conditions. A phylogenetic analysis based on the 16S rRNA gene reveals that the phylotypes within candidate phylum SBR1093 are primarily clustered into 5 clades with a shallow branching pattern. This bacterium is clustered with phylotypes from organically contaminated environments, implying a demand for organics in heterotrophic metabolism. Considering the types of regulators, such as FnR, Fur, and ArsR, this bacterium might be a facultative aerobic mixotroph with potential multi-antibiotic and heavy metal resistances. This is the first report on Bacteria that may perform potential carbon fixation via the HPHB cycle, thus may expand our knowledge of the distribution and importance of the HPHB cycle in the biosphere.

  14. Evidence of Carbon Fixation Pathway in a Bacterium from Candidate Phylum SBR1093 Revealed with Genomic Analysis

    PubMed Central

    Wang, Zhiping; Guo, Feng; Liu, Lili; Zhang, Tong

    2014-01-01

    Autotrophic CO2 fixation is the most important biotransformation process in the biosphere. Research focusing on the diversity and distribution of relevant autotrophs is significant to our comprehension of the biosphere. In this study, a draft genome of a bacterium from candidate phylum SBR1093 was reconstructed with the metagenome of an industrial activated sludge. Based on comparative genomics, this autotrophy may occur via a newly discovered carbon fixation path, the hydroxypropionate-hydroxybutyrate (HPHB) cycle, which was demonstrated in a previous work to be uniquely possessed by some genera from Archaea. This bacterium possesses all of the thirteen enzymes required for the HPHB cycle; these enzymes share 30∼50% identity with those in the autotrophic species of Archaea that undergo the HPHB cycle and 30∼80% identity with the corresponding enzymes of the mixotrophic species within Bradyrhizobiaceae. Thus, this bacterium might have an autotrophic growth mode in certain conditions. A phylogenetic analysis based on the 16S rRNA gene reveals that the phylotypes within candidate phylum SBR1093 are primarily clustered into 5 clades with a shallow branching pattern. This bacterium is clustered with phylotypes from organically contaminated environments, implying a demand for organics in heterotrophic metabolism. Considering the types of regulators, such as FnR, Fur, and ArsR, this bacterium might be a facultative aerobic mixotroph with potential multi-antibiotic and heavy metal resistances. This is the first report on Bacteria that may perform potential carbon fixation via the HPHB cycle, thus may expand our knowledge of the distribution and importance of the HPHB cycle in the biosphere. PMID:25310003

  15. A “footprint” of plant carbon fixation cycle functions during the development of a heterotrophic fungus

    PubMed Central

    Lyu, Xueliang; Shen, Cuicui; Xie, Jiatao; Fu, Yanping; Jiang, Daohong; Hu, Zijin; Tang, Lihua; Tang, Liguang; Ding, Feng; Li, Kunfei; Wu, Song; Hu, Yanping; Luo, Lilian; Li, Yuanhao; Wang, Qihua; Li, Guoqing; Cheng, Jiasen

    2015-01-01

    Carbon fixation pathway of plants (CFPP) in photosynthesis converts solar energy to biomass, bio-products and biofuel. Intriguingly, a large number of heterotrophic fungi also possess enzymes functionally associated with CFPP, raising the questions about their roles in fungal development and in evolution. Here, we report on the presence of 17 CFPP associated enzymes (ten in Calvin-Benson-Basham reductive pentose phosphate pathway and seven in C4-dicarboxylic acid cycle) in the genome of Sclerotinia sclerotiorum, a heterotrophic phytopathogenic fungus, and only two unique enzymes: ribulose-1, 5-bisphosphate carboxylase-oxygenase (Rubisco) and phosphoribulokinase (PRK) were absent. This data suggested an incomplete CFPP-like pathway (CLP) in fungi. Functional profile analysis demonstrated that the activity of the incomplete CLP was dramatically regulated during different developmental stages of S. sclerotiorum. Subsequent experiments confirmed that many of them were essential to the virulence and/or sclerotial formation. Most of the CLP associated genes are conserved in fungi. Phylogenetic analysis showed that many of them have undergone gene duplication, gene acquisition or loss and functional diversification in evolutionary history. These findings showed an evolutionary links in the carbon fixation processes of autotrophs and heterotrophs and implicated the functions of related genes were in course of continuous change in different organisms in evolution. PMID:26263551

  16. CO2 Fixation, Lipid Production, and Power Generation by a Novel Air-Lift-Type Microbial Carbon Capture Cell System.

    PubMed

    Hu, Xia; Liu, Baojun; Zhou, Jiti; Jin, Ruofei; Qiao, Sen; Liu, Guangfei

    2015-09-01

    An air-lift-type microbial carbon capture cell (ALMCC) was constructed for the first time by using an air-lift-type photobioreactor as the cathode chamber. The performance of ALMCC in fixing high concentration of CO2, producing energy (power and biodiesel), and removing COD together with nutrients was investigated and compared with the traditional microbial carbon capture cell (MCC) and air-lift-type photobioreactor (ALP). The ALMCC system produced a maximum power density of 972.5 mW·m(-3) and removed 86.69% of COD, 70.52% of ammonium nitrogen, and 69.24% of phosphorus, which indicate that ALMCC performed better than MCC in terms of power generation and wastewater treatment efficiency. Besides, ALMCC demonstrated 9.98- and 1.88-fold increases over ALP and MCC in the CO2 fixation rate, respectively. Similarly, the ALMCC significantly presented a higher lipid productivity compared to those control reactors. More importantly, the preliminary analysis of energy balance suggested that the net energy of the ALMCC system was significantly superior to other systems and could theoretically produce enough energy to cover its consumption. In this work, the established ALMCC system simultaneously achieved the high level of CO2 fixation, energy recycle, and municipal wastewater treatment effectively and efficiently.

  17. Autotrophic carbon dioxide fixation via the Calvin-Benson-Bassham cycle by the denitrifying methanotroph "Candidatus Methylomirabilis oxyfera".

    PubMed

    Rasigraf, Olivia; Kool, Dorien M; Jetten, Mike S M; Sinninghe Damsté, Jaap S; Ettwig, Katharina F

    2014-04-01

    Methane is an important greenhouse gas and the most abundant hydrocarbon in the Earth's atmosphere. Methanotrophic microorganisms can use methane as their sole energy source and play a crucial role in the mitigation of methane emissions in the environment. "Candidatus Methylomirabilis oxyfera" is a recently described intra-aerobic methanotroph that is assumed to use nitric oxide to generate internal oxygen to oxidize methane via the conventional aerobic pathway, including the monooxygenase reaction. Previous genome analysis has suggested that, like the verrucomicrobial methanotrophs, "Ca. Methylomirabilis oxyfera" encodes and transcribes genes for the Calvin-Benson-Bassham (CBB) cycle for carbon assimilation. Here we provide multiple independent lines of evidence for autotrophic carbon dioxide fixation by "Ca. Methylomirabilis oxyfera" via the CBB cycle. The activity of ribulose-1,5-bisphosphate carboxylase/oxygenase (RubisCO), a key enzyme of the CBB cycle, in cell extracts from an "Ca. Methylomirabilis oxyfera" enrichment culture was shown to account for up to 10% of the total methane oxidation activity. Labeling studies with whole cells in batch incubations supplied with either (13)CH4 or [(13)C]bicarbonate revealed that "Ca. Methylomirabilis oxyfera" biomass and lipids became significantly more enriched in (13)C after incubation with (13)C-labeled bicarbonate (and unlabeled methane) than after incubation with (13)C-labeled methane (and unlabeled bicarbonate), providing evidence for autotrophic carbon dioxide fixation. Besides this experimental approach, detailed genomic and transcriptomic analysis demonstrated an operational CBB cycle in "Ca. Methylomirabilis oxyfera." Altogether, these results show that the CBB cycle is active and plays a major role in carbon assimilation by "Ca. Methylomirabilis oxyfera" bacteria. Our results suggest that autotrophy might be more widespread among methanotrophs than was previously assumed and implies that a methanotrophic

  18. Widespread Occurrence of Two Carbon Fixation Pathways in Tubeworm Endosymbionts: Lessons from Hydrothermal Vent Associated Tubeworms from the Mediterranean Sea

    PubMed Central

    Thiel, Vera; Hügler, Michael; Blümel, Martina; Baumann, Heike I.; Gärtner, Andrea; Schmaljohann, Rolf; Strauss, Harald; Garbe-Schönberg, Dieter; Petersen, Sven; Cowart, Dominique A.; Fisher, Charles R.; Imhoff, Johannes F.

    2012-01-01

    Vestimentiferan tubeworms (siboglinid polychetes) of the genus Lamellibrachia are common members of cold seep faunal communities and have also been found at sedimented hydrothermal vent sites in the Pacific. As they lack a digestive system, they are nourished by chemoautotrophic bacterial endosymbionts growing in a specialized tissue called the trophosome. Here we present the results of investigations of tubeworms and endosymbionts from a shallow hydrothermal vent field in the Western Mediterranean Sea. The tubeworms, which are the first reported vent-associated tubeworms outside the Pacific, are identified as Lamellibrachia anaximandri using mitochondrial ribosomal and cytochrome oxidase I (COI) gene sequences. They harbor a single gammaproteobacterial endosymbiont. Carbon isotopic data, as well as the analysis of genes involved in carbon and sulfur metabolism indicate a sulfide-oxidizing chemoautotrophic endosymbiont. The detection of a hydrogenase gene fragment suggests the potential for hydrogen oxidation as alternative energy source. Surprisingly, the endosymbiont harbors genes for two different carbon fixation pathways, the Calvin-Benson-Bassham (CBB) cycle as well as the reductive tricarboxylic acid (rTCA) cycle, as has been reported for the endosymbiont of the vent tubeworm Riftia pachyptila. In addition to RubisCO genes we detected ATP citrate lyase (ACL – the key enzyme of the rTCA cycle) type II gene sequences using newly designed primer sets. Comparative investigations with additional tubeworm species (Lamellibrachia luymesi, Lamellibrachia sp. 1, Lamellibrachia sp. 2, Escarpia laminata, Seepiophila jonesi) from multiple cold seep sites in the Gulf of Mexico revealed the presence of acl genes in these species as well. Thus, our study suggests that the presence of two different carbon fixation pathways, the CBB cycle and the rTCA cycle, is not restricted to the Riftia endosymbiont, but rather might be common in vestimentiferan tubeworm endosymbionts

  19. [Quantifying soil autotrophic microbes-assimilated carbon input into soil organic carbon pools following continuous 14C labeling].

    PubMed

    Shi, Ran; Chen, Xiao-Juan; Wu, Xiao-Hong; Jian, Yan; Yuan, Hong-Zhao; Ge, Ti-Da; Sui, Fang-Gong; Tong, Cheng-Li; Wu, Jin-Shui

    2013-07-01

    Soil autotrophic microbe has been found numerous and widespread. However, roles of microbial autotrophic processes and the mechanisms of that in the soil carbon sequestration remain poorly understood. Here, we used soils incubated for 110 days in a closed, continuously labeled 14C-CO2 atmosphere to measure the amount of labeled C incorporated into the microbial biomass. The allocation of 14C-labeled assimilated carbon in variable soil C pools such as dissolved organic C (DOC) and microbial biomass C (MBC) were also examined over the 14C labeling span. The results showed that significant amounts of 14C-SOC were measured in paddy soils, which ranged from 69.06-133.81 mg x kg(-1), accounting for 0.58% to 0.92% of the total soil organic carbon (SOC). The amounts of 14C in the dissolved organic C (14C-DOC) and in the microbial biomass C (14C-MBC) were dependent on the soils, ranged from 2.54 to 8.10 mg x kg(-1), 19.50 to 49.16 mg x kg(-1), respectively. There was a significantly positive linear relationship between concentrations of 14C-SOC and 14C-MBC (R2 = 0.957**, P < 0.01). The 14C-DOC and 14C-MBC as proportions of total DOC, MBC, were 5.65%-24.91% and 4.23%-20.02%, respectively. Moreover, the distribution and transformation of microbes-assimilated-derived C had a greater influence on the dynamics of DOC and MBC than that on the dynamics of SOC. These data provide new insights into the importance of microorganisms in the fixation of atmospheric CO2 and of the potentially significant contributions made by microbial autotrophy to terrestrial C cycling.

  20. A computational study on the chemical fixation of carbon dioxide with epoxide catalyzed by LiBr salt.

    PubMed

    Ren, Ying; Guo, Cai-Hong; Jia, Jian-Feng; Wu, Hai-Shun

    2011-03-24

    The chemical fixation of carbon dioxide with 2,3-epoxypropyl phenyl ether catalyzed by LiBr salt to produce a five-membered cyclic carbonate, 4-(phenoxymethyl)-1,3-dioxolan-2-one, has been extensively investigated at the B3LYP density functional level of theory. The solvent effects have been studied by means of a PCM model. All possible pathways are examined, and their corresponding energetics are demonstrated. Our results reveal that the overall reaction comprises three main steps: epoxide ring-opening, carbon dioxide insertion, and ring-closure of cyclic carbonate, none of which contains significantly large barriers. On the basis of the computed free energies of activation, the rate-determining step can be the ring-opening of epoxide or the ring-closure of cyclic carbonate with variation in the reaction conditions in N-methylpyrrolidinone (NMP) solvent. Our calculations indicate that path 2 is more favorable than path 1 in the gas phase, while both of them exist possibly in NMP solvent. The overall reaction is exothermic. Furthermore, the free energy profiles of all reaction pathways along the minima energy path in the gas phase and in NMP solvent were obtained and compared. It is shown that NMP solvent does not change the general trends for the reaction potential energy surfaces.

  1. Quantifying the Carbon Abundances in the Secondary Stars of SS Cygni, RU Pegasi, and GK Persei

    NASA Astrophysics Data System (ADS)

    Harrison, Thomas E.; Hamilton, Ryan T.

    2015-11-01

    We use a modified version of MOOG to generate large grids of synthetic spectra in an attempt to derive quantitative abundances for three CVs (GK Per, RU Peg, and SS Cyg) by comparing the models to moderate resolution (R ˜ 25,000) K-band spectra obtained with NIRSPEC on Keck. For each of the three systems we find solar, or slightly sub-solar values for [Fe/H], but significant deficits of carbon: for SS Cyg we find [C/Fe] = -0.50, for RU Peg [C/Fe] = -0.75, and for GK Per [C/Fe] = -1.00. We show that it is possible to use lower resolution (R ˜ 2000) spectra to quantify carbon deficits. We examine realistic veiling scenarios and find that emission from H i or CO cannot reproduce the observations.

  2. Quantifying and modelling the carbon sequestration capacity of seagrass meadows--a critical assessment.

    PubMed

    Macreadie, P I; Baird, M E; Trevathan-Tackett, S M; Larkum, A W D; Ralph, P J

    2014-06-30

    Seagrasses are among the planet's most effective natural ecosystems for sequestering (capturing and storing) carbon (C); but if degraded, they could leak stored C into the atmosphere and accelerate global warming. Quantifying and modelling the C sequestration capacity is therefore critical for successfully managing seagrass ecosystems to maintain their substantial abatement potential. At present, there is no mechanism to support carbon financing linked to seagrass. For seagrasses to be recognised by the IPCC and the voluntary C market, standard stock assessment methodologies and inventories of seagrass C stocks are required. Developing accurate C budgets for seagrass meadows is indeed complex; we discuss these complexities, and, in addition, we review techniques and methodologies that will aid development of C budgets. We also consider a simple process-based data assimilation model for predicting how seagrasses will respond to future change, accompanied by a practical list of research priorities.

  3. QUANTIFYING THE CARBON ABUNDANCES IN THE SECONDARY STARS OF SS CYGNI, RU PEGASI, AND GK PERSEI

    SciTech Connect

    Harrison, Thomas E.; Hamilton, Ryan T. E-mail: rthamilton@sofia.usra.edu

    2015-11-15

    We use a modified version of MOOG to generate large grids of synthetic spectra in an attempt to derive quantitative abundances for three CVs (GK Per, RU Peg, and SS Cyg) by comparing the models to moderate resolution (R ∼ 25,000) K-band spectra obtained with NIRSPEC on Keck. For each of the three systems we find solar, or slightly sub-solar values for [Fe/H], but significant deficits of carbon: for SS Cyg we find [C/Fe] = −0.50, for RU Peg [C/Fe] = −0.75, and for GK Per [C/Fe] = −1.00. We show that it is possible to use lower resolution (R ∼ 2000) spectra to quantify carbon deficits. We examine realistic veiling scenarios and find that emission from H i or CO cannot reproduce the observations.

  4. Integration of Metagenomic and Stable Carbon Isotope Evidence Reveals the Extent and Mechanisms of Carbon Dioxide Fixation in High-Temperature Microbial Communities.

    PubMed

    Jennings, Ryan de Montmollin; Moran, James J; Jay, Zackary J; Beam, Jacob P; Whitmore, Laura M; Kozubal, Mark A; Kreuzer, Helen W; Inskeep, William P

    2017-01-01

    Although the biological fixation of CO2 by chemolithoautotrophs provides a diverse suite of organic compounds utilized by chemoorganoheterotrophs as a carbon and energy source, the relative amounts of autotrophic C in chemotrophic microbial communities are not well-established. The extent and mechanisms of CO2 fixation were evaluated across a comprehensive set of high-temperature, chemotrophic microbial communities in Yellowstone National Park by combining metagenomic and stable (13)C isotope analyses. Fifteen geothermal sites representing three distinct habitat types (iron-oxide mats, anoxic sulfur sediments, and filamentous "streamer" communities) were investigated. Genes of the 3-hydroxypropionate/4-hydroxybutyrate, dicarboxylate/4-hydroxybutyrate, and reverse tricarboxylic acid CO2 fixation pathways were identified in assembled genome sequence corresponding to the predominant Crenarchaeota and Aquificales observed across this habitat range. Stable (13)C analyses of dissolved inorganic and organic C (DIC, DOC), and possible landscape C sources were used to interpret the (13)C content of microbial community samples. Isotope mixing models showed that the minimum fractions of autotrophic C in microbial biomass were >50% in the majority of communities analyzed. The significance of CO2 as a C source in these communities provides a foundation for understanding community assembly and succession, and metabolic linkages among early-branching thermophilic autotrophs and heterotrophs.

  5. Integration of Metagenomic and Stable Carbon Isotope Evidence Reveals the Extent and Mechanisms of Carbon Dioxide Fixation in High-Temperature Microbial Communities

    PubMed Central

    Jennings, Ryan de Montmollin; Moran, James J.; Jay, Zackary J.; Beam, Jacob P.; Whitmore, Laura M.; Kozubal, Mark A.; Kreuzer, Helen W.; Inskeep, William P.

    2017-01-01

    Although the biological fixation of CO2 by chemolithoautotrophs provides a diverse suite of organic compounds utilized by chemoorganoheterotrophs as a carbon and energy source, the relative amounts of autotrophic C in chemotrophic microbial communities are not well-established. The extent and mechanisms of CO2 fixation were evaluated across a comprehensive set of high-temperature, chemotrophic microbial communities in Yellowstone National Park by combining metagenomic and stable 13C isotope analyses. Fifteen geothermal sites representing three distinct habitat types (iron-oxide mats, anoxic sulfur sediments, and filamentous “streamer” communities) were investigated. Genes of the 3-hydroxypropionate/4-hydroxybutyrate, dicarboxylate/4-hydroxybutyrate, and reverse tricarboxylic acid CO2 fixation pathways were identified in assembled genome sequence corresponding to the predominant Crenarchaeota and Aquificales observed across this habitat range. Stable 13C analyses of dissolved inorganic and organic C (DIC, DOC), and possible landscape C sources were used to interpret the 13C content of microbial community samples. Isotope mixing models showed that the minimum fractions of autotrophic C in microbial biomass were >50% in the majority of communities analyzed. The significance of CO2 as a C source in these communities provides a foundation for understanding community assembly and succession, and metabolic linkages among early-branching thermophilic autotrophs and heterotrophs. PMID:28217111

  6. Titanium-based zeolitic imidazolate framework for chemical fixation of carbon dioxide

    EPA Science Inventory

    A titanium-based zeolitic imidazolate framework (Ti-ZIF) with high surface area and porous morphology was synthesized and itsefficacy was demonstrated in the synthesis of cyclic carbonates from epoxides and carbon dioxide.

  7. Activity of carbon dioxide fixation by anthers and leaves of cereal grains

    SciTech Connect

    Kirichenko, E.B.; Chernyad'ev, I.I.; Doman, N.G.; Talibullina, K.K.; Voronkova, T.V.

    1986-05-01

    This paper gives a comparative evaluation of the photosynthetic activity of anthers and flag leaves in winter wheat, rye, and triticale. The content of chlorophylls in anthers and leaves was determined. The activity of /sup 14/CO/sub 2/ fixation by anthers and leaf disks was determined by the radiometric method in a chamber floating on mercury under standard exposure conditions (0.1% concentration of /sup 14/CO/sub 2/, illumination of 15,000 1x, temperature of 23 C). Analyses were conducted in three replications and the results of typical biological experiments are cited. Data show that chlorophyll is actively synthesized in the anthers of cereal grains.

  8. Inorganic carbon fixation by sulfate-reducing bacteria in the Black Sea water column.

    PubMed

    Neretin, Lev N; Abed, Raeid M M; Schippers, Axel; Schubert, Carsten J; Kohls, Katharina; Kuypers, Marcel M M

    2007-12-01

    The Black Sea is the largest anoxic water basin on Earth and its stratified water column comprises an upper oxic, middle suboxic and a lower permanently anoxic, sulfidic zone. The abundance of sulfate-reducing bacteria (SRB) in water samples was determined by quantifying the copy number of the dsrA gene coding for the alpha subunit of the dissimilatory (bi)sulfite reductase using real-time polymerase chain reaction. The dsrA gene was detected throughout the whole suboxic and anoxic zones. The maximum dsrA copy numbers were 5 x 10(2) and 6.3 x 10(2) copies ml(-1) at 95 m in the suboxic and at 150 m in the upper anoxic zone, respectively. The proportion of SRB to total Bacteria was 0.1% in the oxic, 0.8-1.9% in the suboxic and 1.2-4.7% in the anoxic zone. A phylogenetic analysis of 16S rDNA clones showed that most clones from the anoxic zone formed a coherent cluster within the Desulfonema-Desulfosarcina group. A similar depth profile as for dsrA copy numbers was obtained for the concentration of non-isoprenoidal dialkyl glycerol diethers (DGDs), which are most likely SRB-specific lipid biomarkers. Three different DGDs were found to be major components of the total lipid fractions from the anoxic zone. The DGDs were depleted in (13)C relative to the delta(13)C values of dissolved CO(2) (delta(13)C(CO2)) by 14-19 per thousand. Their delta(13)C values [delta(13)C(DGD(II-III))] co-varied with depth showing the least (13)C-depleted values in the top of the sulfidic, anoxic zone and the most (13)C-depleted values in the deep anoxic waters at 1500 m. This co-variation provides evidence for CO(2) incorporation by the DGD(II-III)-producing SRB, while the 1:2 relationship between delta(13)C(CO2) and delta(13)C(DGD(II-III)) indicates the use of an additional organic carbon source.

  9. Impact of ultraviolet-B radiation on photosystem II activity and its relationship to the inhibition of carbon fixation rates for antarctic ice algae communities

    SciTech Connect

    Schofield, O.; Prezelin, B.B.; Kroon, B.M.A.

    1995-10-01

    One goal of the Icecolors 1993 study was to determine whether or not photosystem II (PSII) was a major target site for photoinhibition by ultraviolet-B radiation (Q{sub UVB}, 280-320 nm) in natural communities. Second, the degree to which Q{sub UVB} inhibition of PSII could account for Q{sub UVB} effects on whole cell rates of carbon fixation in phytoplankton was assessed. On 1 October, 1993, at Palmer Station (Antarctica), dense samples of a frazil ice algal community were collected and maintained outdoors in the presence or absence of Q{sub UVB} and/or ultraviolet-A (Q{sub UVA}, 320-400 nm) radiation. The time of day course of UV inhibition of primary production was tracted. Over the day, {phi}{sub IIe}{degrees} declined due to increasing time-integrated dose exposure of Q{sub UVB}. The Q{sub UVB}-driven inhibition of {phi}{sub IIe}{degrees} increased from 4% in the early morning hours to a maximum of 23% at the end of the day. The Q{sub UVB} photoinhibition of PSII quantum yield did not recover by 6 h after sunset. In contrast, photoinhibition by Q{sub UVA} and photosynthetically available radiation (Q{sub PAR}, 400-700 nm) recovered during the late afternoon. Fluorescence-based estimates of carbon fixation rates were linearly correlated with measured carbon fixation. Fluorescence overestimated the observed Q{sub UVB} inhibition in measured carbon fixation rates. Researchers should be cautious in using fluorescence measurements to infer ultraviolet inhibition for rates of carbon fixation until there is a greater understanding of the coupling of carbon metabolism to PSII activity for natural populations. Despite these current limitations, fluorescence-based technologies represent powerful tools for studying the impact of the ozone hole on natural populations on spatial/temporal scales not possible using conventional productivity techniques. 55 refs., 11 figs., 2 tabs.

  10. Recent advances in carbon dioxide capture, fixation, and activation by using N-heterocyclic carbenes.

    PubMed

    Yang, Longhua; Wang, Hongming

    2014-04-01

    In the last two decades, CO2 emission has caused a lot of environmental problems. To mitigate the concentration of CO2 in the atmosphere, various strategies have been implemented, one of which is the use of N-heterocyclic carbenes (NHCs) and related complexes to accomplish the capture, fixation, and activation of CO2 effectively. In this review, we summarize CO2 capture, fixation, and activation by utilizing NHCs and related complexes; homogeneous reactions and their reaction mechanisms are discussed. Free NHCs and NHC salts can capture CO2 in both direct and indirect ways to form imidazolium carboxylates, and they can also catalyze the reaction of aromatic aldehydes with CO2 to form carboxylic acids and derivatives. Moreover, associated with transition metals (TMs), NHCs can form NHC-TM complexes to transform CO2 into industrial acid or esters. Non-metal-NHC complexes can also catalyze the reactions of silicon and boron complexes with CO2 . In addition, catalytic cycloaddition of epoxides with CO2 is another effective function of NHC complexes, and NHC ionic liquids perform excellently in this aspect.

  11. Quantifying carbon dioxide and methane emissions and carbon dynamics from flooded boreal forest soil.

    PubMed

    Oelbermann, Maren; Schiff, Sherry L

    2008-01-01

    The boreal forest is subject to natural and anthropogenic disturbances, but the production of greenhouse gases as a result of flooding for hydroelectric power generation has received little attention. It was hypothesized that flooded soil would result in greater CO(2) and CH(4) emissions and carbon (C) fractionation compared with non-flooded soil. To evaluate this hypothesis, soil C and nitrogen (N) dynamics, CO(2) and CH(4) mean production rates, and (13)C fractionation in laboratory incubations at 14 and 21 degrees C under non-flooded and flooded conditions and its effect on labile and recalcitrant C sources were determined. A ferro-humic Podzol was collected at three different sites at the Experimental Lakes Area, Canada, with a high (19,834 g C m(-2)), medium (18,066 g C m(-2)), and low (11,060 g C m(-2)) soil organic C (SOC) stock. Soil organic C and total N stocks (g m(-2)) and concentrations (g kg(-1)) were significantly different (p < 0.05) among soil horizons within each of the three sites. Stable isotope analysis showed a significant enrichment in delta(13)C and delta(15)N with depth and an enrichment in delta(13)C and delta(15)N with decreasing SOC and N concentration. The mean CO(2) and CH(4) production rates were greatest in soil horizons with the highest SOC stock and were significantly higher at 21 degrees C and in flooded treatments. The delta(13)C of the evolved CO(2) (delta(13)C-CO(2)) became significantly enriched with time during decomposition, and the greatest degree of fractionation occurred in the organic Litter, Fungal, and Humic forest soil horizons and in soil with a high SOC stock compared with the mineral horizon and soil with a lower SOC stock. The delta(13)C-CO(2) was significantly depleted in flooded treatments compared with non-flooded treatments.

  12. Hybrid Amine-Functionalized Graphene Oxide as a Robust Bifunctional Catalyst for Atmospheric Pressure Fixation of Carbon Dioxide using Cyclic Carbonates.

    PubMed

    Saptal, Vitthal B; Sasaki, Takehiko; Harada, Kei; Nishio-Hamane, Daisuke; Bhanage, Bhalchandra M

    2016-03-21

    An environmentally-benign carbocatalyst based on amine-functionalized graphene oxide (AP-GO) was synthesized and characterized. This catalyst shows superior activity for the chemical fixation of CO2 into cyclic carbonates at the atmospheric pressure. The developed carbocatalyst exhibits superior activity owing to its large surface area with abundant hydrogen bonding donor (HBD) capability and the presence of well-defined amine functional groups. The presence of various HBD and amine functional groups on the graphene oxide (GO) surface yields a synergistic effect for the activation of starting materials. Additionally, this catalyst shows high catalytic activity to synthesize carbonates at 70 °C and at 1 MPa CO2 pressure. The developed AP-GO could be easily recovered and used repetitively in up to seven recycle runs with unchanged catalyst activity.

  13. Establishment of microbial eukaryotic enrichment cultures from a chemically stratified antarctic lake and assessment of carbon fixation potential.

    PubMed

    Dolhi, Jenna M; Ketchum, Nicholas; Morgan-Kiss, Rachael M

    2012-04-20

    phototrophic and mixotrophic protists from Lake Bonney. Sampling depths in the water column were chosen based on the location of primary production maxima and protist phylogenetic diversity (4, 11), as well as variability in major abiotic factors affecting protist trophic modes: shallow sampling depths are limited for major nutrients, while deeper sampling depths are limited by light availability. In addition, lake water samples were supplemented with multiple types of growth media to promote the growth of a variety of phototrophic organisms. RubisCO catalyzes the rate limiting step in the Calvin Benson Bassham (CBB) cycle, the major pathway by which autotrophic organisms fix inorganic carbon and provide organic carbon for higher trophic levels in aquatic and terrestrial food webs (12). In this study, we applied a radioisotope assay modified for filtered samples (13) to monitor maximum carboxylase activity as a proxy for carbon fixation potential and metabolic versatility in the Lake Bonney enrichment cultures.

  14. Quantifying thermal constraints on carbon and water fluxes in a mixed-conifer sky island ecosystem

    NASA Astrophysics Data System (ADS)

    Braun, Z.; Minor, R. L.; Potts, D. L.; Barron-Gafford, G. A.

    2012-12-01

    Western North American forests represent a potential, yet uncertain, sink for atmospheric carbon. Revealing how predicted climatic conditions of warmer temperatures and longer inter-storm periods of moisture stress might influence the carbon status of these forests requires a fuller understanding of plant functional responses to abiotic stress. While data related to snow dominated montane ecosystems has become more readily available to parameterize ecosystem function models, there is a paucity of data available for Madrean sky island mixed-conifer forests, which receive about one third of their precipitation from the North American Monsoon. Thus, we quantified ecophysiological responses to moisture and temperature stress in a Madrean mixed-conifer forest near Tucson, Arizona, within the footprint of the Mt. Bigelow Eddy Covariance Tower. In measuring a series of key parameters indicative of carbon and water fluxes within the dominant species across pre-monsoon and monsoon conditions, we were able to develop a broader understanding of what abiotic drivers are most restrictive to plant performance in this ecosystem. Within Pinus ponderosa (Ponderosa Pine), Pseudotsuga menziesii (Douglas Fir), and Pinus strobiformis (Southwestern White Pine) we quantified: (i) the optimal temperature (Topt) for maximum photosynthesis (Amax), (ii) the range of temperatures over which photosynthesis was at least 50% of Amax (Ω50), and (iii) each conifer's water use efficiency (WUE) to relate to the balance between carbon uptake and water loss in this high elevation semiarid ecosystem. Our findings support the prediction that photosynthesis decreases under high temperatures (>30°C) among the three species we measured, regardless of soil moisture status. However, monsoon moisture reduced sensitivity to temperature extremes and fluctuations (Ω50), which substantially magnified total photosynthetic productivity. In particular, wet conditions enhanced Amax the most dramatically for P

  15. Quantifying voids effecting delamination in carbon/epoxy composites: static and fatigue fracture behavior

    NASA Astrophysics Data System (ADS)

    Hakim, I.; May, D.; Abo Ras, M.; Meyendorf, N.; Donaldson, S.

    2016-04-01

    On the present work, samples of carbon fiber/epoxy composites with different void levels were fabricated using hand layup vacuum bagging process by varying the pressure. Thermal nondestructive methods: thermal conductivity measurement, pulse thermography, pulse phase thermography and lock-in-thermography, and mechanical testing: modes I and II interlaminar fracture toughness were conducted. Comparing the parameters resulted from the thermal nondestructive testing revealed that voids lead to reductions in thermal properties in all directions of composites. The results of mode I and mode II interlaminar fracture toughness showed that voids lead to reductions in interlaminar fracture toughness. The parameters resulted from thermal nondestructive testing were correlated to the results of mode I and mode II interlaminar fracture toughness and voids were quantified.

  16. Carbon dioxide fixation by microalgae photosynthesis using actual flue gas discharged from a boiler

    SciTech Connect

    Matsumoto, Hiroyo; Shioji, Norio; Hamasaki, Akihiro

    1995-12-31

    To mitigate CO{sub 2} discharged from thermal power plants, studies on CO{sub 2} fixation by the photosynthesis of microalgae using actual exhaust gas have been carried out. The results are as follows: (1) A method is proposed for evaluating the maximum photosynthesis rate in the raceway cultivator using only the algal physical properties; (2) Outdoor cultivation tests taking actual flue gas were performed with no trouble or break throughout 1 yr using the strain collected in the test; (3) The produced microalgae is effective as solid fuel; and (4) The feasibility studies of this system were performed. The system required large land area, but the area is smaller than that required for other biomass systems, such as tree farms.

  17. Quantifying Alumina Nanoparticle Dispersion in Hybrid Carbon Fiber Composites Using Photoluminescent Spectroscopy.

    PubMed

    Hanhan, Imad; Selimov, Alex; Carolan, Declan; Taylor, Ambrose C; Raghavan, Seetha

    2017-02-01

    Composites modified with nanoparticles are of interest to many researchers due to the large surface-area-to-volume ratio of nano-scale fillers. One challenge with nanoscale materials that has received significant attention is the dispersion of nanoparticles in a matrix material. A random distribution of particles often ensures good material properties, especially as it relates to the thermal and mechanical performance of composites. Typical methods to quantify particle dispersion in a matrix material include optical, scanning electron, and transmission electron microscopy. These utilize images and a variety of analysis methods to describe particle dispersion. This work describes how photoluminescent spectroscopy can serve as an additional technique capable of quickly and comprehensively quantifying particle dispersion of photoluminescent particles in a hybrid composite. High resolution 2D photoluminescent maps were conducted on the front and back surfaces of a hybrid carbon fiber reinforced polymer containing varying contents of alumina nanoparticles. The photoluminescent maps were analyzed for the intensity of the alumina R1 fluorescence peak, and therefore yielded alumina particle dispersion based on changes in intensity from the embedded nanoparticles. A method for quantifying particle sedimentation is also proposed that compares the photoluminescent data of the front and back surfaces of each hybrid composite and assigns a single numerical value to the degree of sedimentation in each specimen. The methods described in this work have the potential to aid in the manufacturing processes of hybrid composites by providing on-site quality control options, capable of quickly and noninvasively providing feedback on nanoparticle dispersion and sedimentation.

  18. Quantifying above- and belowground biomass carbon loss with forest conversion in tropical lowlands of Sumatra (Indonesia).

    PubMed

    Kotowska, Martyna M; Leuschner, Christoph; Triadiati, Triadiati; Meriem, Selis; Hertel, Dietrich

    2015-10-01

    Natural forests in South-East Asia have been extensively converted into other land-use systems in the past decades and still show high deforestation rates. Historically, lowland forests have been converted into rubber forests, but more recently, the dominant conversion is into oil palm plantations. While it is expected that the large-scale conversion has strong effects on the carbon cycle, detailed studies quantifying carbon pools and total net primary production (NPPtotal ) in above- and belowground tree biomass in land-use systems replacing rainforest (incl. oil palm plantations) are rare so far. We measured above- and belowground carbon pools in tree biomass together with NPPtotal in natural old-growth forests, 'jungle rubber' agroforests under natural tree cover, and rubber and oil palm monocultures in Sumatra. In total, 32 stands (eight plot replicates per land-use system) were studied in two different regions. Total tree biomass in the natural forest (mean: 384 Mg ha(-1) ) was more than two times higher than in jungle rubber stands (147 Mg ha(-1) ) and >four times higher than in monoculture rubber and oil palm plantations (78 and 50 Mg ha(-1) ). NPPtotal was higher in the natural forest (24 Mg ha(-1)  yr(-1) ) than in the rubber systems (20 and 15 Mg ha(-1)  yr(-1) ), but was highest in the oil palm system (33 Mg ha(-1)  yr(-1) ) due to very high fruit production (15-20 Mg ha(-1)  yr(-1) ). NPPtotal was dominated in all systems by aboveground production, but belowground productivity was significantly higher in the natural forest and jungle rubber than in plantations. We conclude that conversion of natural lowland forest into different agricultural systems leads to a strong reduction not only in the biomass carbon pool (up to 166 Mg C ha(-1) ) but also in carbon sequestration as carbon residence time (i.e. biomass-C:NPP-C) was 3-10 times higher in the natural forest than in rubber and oil palm plantations.

  19. Origin and mechanism of crassulacean acid metabolism in orchids as implied by comparative transcriptomics and genomics of the carbon fixation pathway.

    PubMed

    Zhang, Liangsheng; Chen, Fei; Zhang, Guo-Qiang; Zhang, Yong-Qiang; Niu, Shance; Xiong, Jin-Song; Lin, Zhenguo; Cheng, Zong-Ming Max; Liu, Zhong-Jian

    2016-04-01

    Crassulacean acid metabolism (CAM) is a CO2 fixation pathway that maximizes water-use efficiency (WUE), compared with the C3/C4 CO2 pathway, which permits CAM plants to adapt to arid environments. The CAM pathway provides excellent opportunities to genetically design plants, especially bioenergy crops, with a high WUE and better photosynthetic performance than C3/C4 in arid environments. The information available on the origin and evolution of CAM is scant, however. Here, we analyzed transcriptomes from 13 orchid species and two existing orchid genomes, covering CAM and C3 plants, with an emphasis on comparing 13 gene families involved in the complete carbon fixation pathway. The dosage of the core photosynthesis-related genes plays no substantial role in the evolution of CAM in orchids; however, CAM may have evolved primarily by changes at the transcription level of key carbon fixation pathway genes. We proposed that in both dark and light, CO2 is primarily fixed and then released through two metabolic pathways via known genes, such as PPC1, PPDK and PPCK. This study reports a comprehensive comparison of carbon fixation pathway genes across different photosynthetic plants, and reveals the importance of the level of expression of key genes in the origin and evolution of CAM.

  20. Dissolved inorganic carbon uptake in Thiomicrospira crunogena XCL-2 is Δp- and ATP-sensitive and enhances RubisCO-mediated carbon fixation.

    PubMed

    Menning, Kristy J; Menon, Balaraj B; Fox, Gordon; Scott, Kathleen M

    2016-03-01

    The gammaproteobacterium Thiomicrospira crunogena XCL-2 is an aerobic sulfur-oxidizing hydrothermal vent chemolithoautotroph that has a CO2 concentrating mechanism (CCM), which generates intracellular dissolved inorganic carbon (DIC) concentrations much higher than extracellular, thereby providing substrate for carbon fixation at sufficient rate. This CCM presumably requires at least one active DIC transporter to generate the elevated intracellular concentrations of DIC measured in this organism. In this study, the half-saturation constant (K CO2) for purified carboxysomal RubisCO was measured (276 ± 18 µM) which was much greater than the K CO2 of whole cells (1.03 µM), highlighting the degree to which the CCM facilitates CO2 fixation under low CO2 conditions. To clarify the bioenergetics powering active DIC uptake, cells were incubated in the presence of inhibitors targeting ATP synthesis (DCCD) or proton potential (CCCP). Incubations with each of these inhibitors resulted in diminished intracellular ATP, DIC, and fixed carbon, despite an absence of an inhibitory effect on proton potential in the DCCD-incubated cells. Electron transport complexes NADH dehydrogenase and the bc 1 complex were found to be insensitive to DCCD, suggesting that ATP synthase was the primary target of DCCD. Given the correlation of DIC uptake to the intracellular ATP concentration, the ABC transporter genes were targeted by qRT-PCR, but were not upregulated under low-DIC conditions. As the T. crunogena genome does not include orthologs of any genes encoding known DIC uptake systems, these data suggest that a novel, yet to be identified, ATP- and proton potential-dependent DIC transporter is active in this bacterium. This transporter serves to facilitate growth by T. crunogena and other Thiomicrospiras in the many habitats where they are found.

  1. Significance of non-sinking particulate organic carbon and dark CO2 fixation to heterotrophic carbon demand in the mesopelagic northeast Atlantic

    NASA Astrophysics Data System (ADS)

    Baltar, Federico; Arístegui, Javier; Sintes, Eva; Gasol, Josep M.; Reinthaler, Thomas; Herndl, Gerhard J.

    2010-05-01

    It is generally assumed that sinking particulate organic carbon (POC) constitutes the main source of organic carbon supply to the deep ocean's food webs. However, a major discrepancy between the rates of sinking POC supply (collected with sediment traps) and the prokaryotic organic carbon demand (the total amount of carbon required to sustain the heterotrophic metabolism of the prokaryotes; i.e., production plus respiration, PCD) of deep-water communities has been consistently reported for the dark realm of the global ocean. While the amount of sinking POC flux declines exponentially with depth, the concentration of suspended, buoyant non-sinking POC (nsPOC; obtained with oceanographic bottles) exhibits only small variations with depth in the (sub)tropical Northeast Atlantic. Based on available data for the North Atlantic we show here that the sinking POC flux would contribute only 4-12% of the PCD in the mesopelagic realm (depending on the primary production rate in surface waters). The amount of nsPOC potentially available to heterotrophic prokaryotes in the mesopelagic realm can be partly replenished by dark dissolved inorganic carbon fixation contributing between 12% to 72% to the PCD daily. Taken together, there is evidence that the mesopelagic microheterotrophic biota is more dependent on the nsPOC pool than on the sinking POC supply. Hence, the enigmatic major mismatch between the organic carbon demand of the deep-water heterotrophic microbiota and the POC supply rates might be substantially smaller by including the potentially available nsPOC and its autochthonous production in oceanic carbon cycling models.

  2. Tracing and quantifying magmatic carbon discharge in cold groundwaters: Lessons learned from Mammoth Mountain, USA

    USGS Publications Warehouse

    Evans, William C.; Sorey, M.L.; Cook, A.C.; Kennedy, B.M.; Shuster, D.L.; Colvard, E.M.; White, L.D.; Huebner, M.A.

    2002-01-01

    A major campaign to quantify the magmatic carbon discharge in cold groundwaters around Mammoth Mountain volcano in eastern California was carried out from 1996 to 1999. The total water flow from all sampled cold springs was ??? 1.8 ?? 107 m3/yr draining an area that receives an estimated 2.5 ?? 107 m3/yr of recharge, suggesting that sample coverage of the groundwater system was essentially complete. Some of the waters contain magmatic helium with 3He/4He ratios as high as 4.5 times the atmospheric ratio, and a magmatic component in the dissolved inorganic carbon (DIC) can be identified in virtually every feature sampled. Many waters have a 14C of 0-5 pmC, a ??13C near -5???, and contain high concentrations (20-50 mmol/1) of CO2(aq); but are otherwise dilute (specific conductance = 100-300 ??S/cm) with low pH values between 5 and 6. Such waters have previously escaped notice at Mammoth Mountain, and possibly at many other volcanoes, because CO2 is rapidly lost to the air as the water flows away from the springs, leaving neutral pH waters containing only 1-3 mmol/1 HCO-3. The total discharge of magmatic carbon in the cold groundwater system at Mammoth Mountain is ~ 20 000 t/yr (as CO2), ranging seasonally from about 30 to 90 t/day. Several types of evidence show that this high discharge of magmatic DIC arose in part because of shallow dike intrusion in 1989, but also demonstrate that a long-term discharge possibly half this magnitude (~ 10 000 t/yr) predated that intrusion. To sustain a 10 000 t/yr DIC discharge would require a magma intrusion rate of 0.057 km3 per century, assuming complete degassing of magma with 0.65 wt% CO2 and a density of 2.7 t/m3. The geochemical data also identify a small ( < 1 t/day) discharge of magmatic DIC that can be traced to the Inyo Domes area north of Mammoth Mountain and outside the associated Long Valley caldera. This research, along with recent studies at Lassen Peak and other western USA volcanoes, suggests that the amount of

  3. Carbonate sediment production in the equatorial continental shelf of South America: Quantifying Halimeda incrassata (Chlorophyta) contributions

    NASA Astrophysics Data System (ADS)

    Carneiro, Pedro Bastos de Macêdo; Morais, Jader Onofre de

    2016-12-01

    The middle and outer continental shelves of eastern equatorial South America (ESA) are characterized by intense production of carbonate sediments. Qualitative analyses of sediment deposits suggest that the calcareous green alga Halimeda incrassata is among the top CaCO3 producers. Nevertheless, no study so far has quantified its real contributions. To better understand the sediment dynamic in this area, we measured biomass, growth rates and calcium carbonate production by this alga. The species exhibited high growth rates (3.38 segments.individual-1.day-1), coverage (174 individuals.m-2) and biomass (214.02 g.m-2). Substitution of segments may allow a sedimentation rate of 1.53 mm.yr-1 and a complete turnover of the population every 60.2 days. The rapid growth indicates that this alga can produce as much CaCO3 (1.19 kg CaCO3.m-2.year-1) as other tropical organisms, such as corals and rhodoliths. In a conservative estimate, 773.500 tonnes of CaCO3 are produced per year in a 5000 km2 area off the northern coast of Brazil. Sedimentation rate seems to be higher than that promoted by continental inputs in middle and outer continental shelf. On the other hand, population turnover is twice as slow as in other H. incrassata assemblages, suggesting that South American populations are sensible to physical disturbances. New studies are necessary to accurately estimate H. incrassata coverage along the Brazilian coast and to integrate data on other CaCO3 producers, such as foraminifera and coralline algae. This would allow a better understanding of the role of South American continental shelf on the global carbon budget. Furthermore, analysis on the health of these organisms is urgent, since a decline in their populations could negatively affect ecosystems functioning and services.

  4. Autotrophy as a predominant mode of carbon fixation in anaerobic methane-oxidizing microbial communities.

    PubMed

    Kellermann, Matthias Y; Wegener, Gunter; Elvert, Marcus; Yoshinaga, Marcos Yukio; Lin, Yu-Shih; Holler, Thomas; Mollar, Xavier Prieto; Knittel, Katrin; Hinrichs, Kai-Uwe

    2012-11-20

    The methane-rich, hydrothermally heated sediments of the Guaymas Basin are inhabited by thermophilic microorganisms, including anaerobic methane-oxidizing archaea (mainly ANME-1) and sulfate-reducing bacteria (e.g., HotSeep-1 cluster). We studied the microbial carbon flow in ANME-1/ HotSeep-1 enrichments in stable-isotope-probing experiments with and without methane. The relative incorporation of (13)C from either dissolved inorganic carbon or methane into lipids revealed that methane-oxidizing archaea assimilated primarily inorganic carbon. This assimilation is strongly accelerated in the presence of methane. Experiments with simultaneous amendments of both (13)C-labeled dissolved inorganic carbon and deuterated water provided further insights into production rates of individual lipids derived from members of the methane-oxidizing community as well as their carbon sources used for lipid biosynthesis. In the presence of methane, all prominent lipids carried a dual isotopic signal indicative of their origin from primarily autotrophic microbes. In the absence of methane, archaeal lipid production ceased and bacterial lipid production dropped by 90%; the lipids produced by the residual fraction of the metabolically active bacterial community predominantly carried a heterotrophic signal. Collectively our results strongly suggest that the studied ANME-1 archaea oxidize methane but assimilate inorganic carbon and should thus be classified as methane-oxidizing chemoorganoautotrophs.

  5. Quantifying the effect size of changing environmental controls on carbon release from permafrost-affected soils

    NASA Astrophysics Data System (ADS)

    Schaedel, C.; Bader, M. K. F.; Schuur, E. A. G.; Bracho, R. G.; Capek, P.; De Baets, S. L.; Diakova, K.; Ernakovich, J. G.; Hartley, I. P.; Iversen, C. M.; Kane, E. S.; Knoblauch, C.; Lupascu, M.; Natali, S.; Norby, R. J.; O'Donnell, J. A.; Roy Chowdhury, T.; Santruckova, H.; Shaver, G. R.; Sloan, V. L.; Treat, C. C.; Waldrop, M. P.

    2014-12-01

    High-latitude surface air temperatures are rising twice as fast as the global mean, causing permafrost to thaw and thereby exposing large quantities of previously frozen organic carbon (C) to microbial decomposition. Increasing temperatures in high latitude ecosystems not only increase C emissions from previously frozen C in permafrost but also indirectly affect the C cycle through changes in regional and local hydrology. Warmer temperatures increase thawing of ice-rich permafrost, causing land surface subsidence where soils become waterlogged, anoxic conditions prevail and C is released in form of anaerobic CO2 and CH4. Although substrate quality, physical protection, and nutrient availability affect C decomposition, increasing temperatures and changes in surface and sub-surface hydrology are likely the dominant factors affecting the rate and form of C release from permafrost; however, their effect size on C release is poorly quantified. We have compiled a database of 24 incubation studies with soils from active layer and permafrost from across the entire permafrost zone to quantify a) the effect size of increasing temperatures and b) the changes from aerobic to anaerobic environmental soil conditions on C release. Results from two different meta-analyses show that a 10°C increase in temperature increased C release by a factor of two in boreal forest, peatland and tundra ecosystems. Under aerobic incubation conditions, soils released on average three times more C than under anaerobic conditions with large variation among the different ecosystems. While peatlands showed similar amounts of C release under aerobic and anaerobic soil conditions, tundra and boreal forest ecosystems released up to 8 times more C under anoxic conditions. This pan-arctic synthesis shows that boreal forest and tundra soils will have a larger impact on climate change when newly thawed permafrost C decomposes in an aerobic environment compared to an anaerobic environment even when

  6. Regulation of photosynthetic carbon fixation on the ocean margins. Final report

    SciTech Connect

    Paul, J.H.

    1997-06-01

    The US Department of Energy is concerned with the fate of energy-related materials, including carbon dioxide, in the marine environment. Using laboratory studies, as well as field studies, an attempt was made to understand the molecular regulation of photosynthetic carbon reduction. The objectives were: to determine the mechanism of regulation of ribulose-1,5-bisphosphate carboxylase/oxygenase (RuBPCase) in phytoplankton in response to changes in light fields; and to determine regulation of (RuBPCase) in response to light under nutrient deprivation.

  7. Potential role of multiple carbon fixation pathways during lipid accumulation in Phaeodactylum tricornutum

    PubMed Central

    2012-01-01

    Background Phaeodactylum tricornutum is a unicellular diatom in the class Bacillariophyceae. The full genome has been sequenced (<30 Mb), and approximately 20 to 30% triacylglyceride (TAG) accumulation on a dry cell basis has been reported under different growth conditions. To elucidate P. tricornutum gene expression profiles during nutrient-deprivation and lipid-accumulation, cell cultures were grown with a nitrate to phosphate ratio of 20:1 (N:P) and whole-genome transcripts were monitored over time via RNA-sequence determination. Results The specific Nile Red (NR) fluorescence (NR fluorescence per cell) increased over time; however, the increase in NR fluorescence was initiated before external nitrate was completely exhausted. Exogenous phosphate was depleted before nitrate, and these results indicated that the depletion of exogenous phosphate might be an early trigger for lipid accumulation that is magnified upon nitrate depletion. As expected, many of the genes associated with nitrate and phosphate utilization were up-expressed. The diatom-specific cyclins cyc7 and cyc10 were down-expressed during the nutrient-deplete state, and cyclin B1 was up-expressed during lipid-accumulation after growth cessation. While many of the genes associated with the C3 pathway for photosynthetic carbon reduction were not significantly altered, genes involved in a putative C4 pathway for photosynthetic carbon assimilation were up-expressed as the cells depleted nitrate, phosphate, and exogenous dissolved inorganic carbon (DIC) levels. P. tricornutum has multiple, putative carbonic anhydrases, but only two were significantly up-expressed (2-fold and 4-fold) at the last time point when exogenous DIC levels had increased after the cessation of growth. Alternative pathways that could utilize HCO3- were also suggested by the gene expression profiles (e.g., putative propionyl-CoA and methylmalonyl-CoA decarboxylases). Conclusions The results indicate that P. tricornutum continued

  8. Nitrogen-Dependent Carbon Fixation by Picoplankton In Culture and in the Mississippi River

    SciTech Connect

    Aubrey Smith; Marguerite W. Coomes; Thomas E. Smith

    2005-04-30

    The pepc gene, which encodes phosphoenolpyruvate carboxylase (PEPC), of the marine cyanobacterium Synechococcus PCC 7002, was isolated and sequenced. PEPC is an anaplerotic enzyme, but it may also contribute to overall CO2 fixation through β-carboxylation reactions. A consensus sequence generated by aligning the pepc genes of Anabaena variabilis, Anacystis nidulans and Synechocystis PCC 6803 was used to design two sets of primers that were used to amplify segments of Synechococcus PCC 7002 pepc. In order to isolate the gene, the sequence of the PCR product was used to search for the pepc nucleotide sequence from the publicly available genome of Synechococcus PCC 7002. At the time, the genome for this organism had not been completed although sequences of a significant number of its fragments are available in public databases. Thus, the major challenge was to find the pepc gene among those fragments and to complete gaps as necessary. Even though the search did not yield the complete gene, PCR primers were designed to amplify a DNA fragment using a high fidelity thermostable DNA polymerase. An open reading frame (ORF) consisting of 2988 base pairs coding for 995 amino acids was found in the 3066 bp PCR product. The pepc gene had a GC content of 52% and the deduced protein had a calculated molecular mass of 114,049 Da. The amino acid sequence was closely related to that of PEPC from other cyanobacteria, exhibiting 59-61% identity. The sequence differed significantly from plant and E. coli PEPC with only 30% homology. However, comparing the Synechococcus PCC 7002 sequence to the recently resolved E. coli PEPC revealed that most of the essential domains and amino acids involved in PEPC activity were shared by both proteins. The recombinant Synechococcus PCC 7002 PEPC was expressed in E. coli.

  9. Soybean Photosynthetic Rate and Carbon Fixation at Early and Late Planting Dates

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Early planting (late April to early May) is recommended for increasing soybean yield but a full understanding of the physiological response is lacking. This study was conducted to determine whether carbon dioxide exchange rate (CER) could explain this yield difference. A study with five (2007) and s...

  10. Quantifying the impacts of land use change on soil organic carbon losses in tropical peatlands

    NASA Astrophysics Data System (ADS)

    Farmer, J.; Smith, J.; Smith, P.; Matthews, R.

    2012-04-01

    The challenge of collecting field measurements of soil carbon dioxide (CO2) efflux and soil carbon (C) in tropical peatlands creates an opportunity for the use of SOC models for predicting local and regional impacts of land use and climate change on these soils, offering a way of translating this limited data into tangible results. Previously, no soil C model existed for use in non-steady state sites such as those found on tropical peats- in particular peat swamp forests which accumulate C, and oil palm plantations which are grown for 20-25 years between re-plantings. A simple, user friendly model has been created for use by scientists, policy makers and plantation managers. This model uses only limited inputs to predict the changes to soil C from land use and climate change. The model runs on the assumption that plant inputs can be related to yield, and that this can be used to derive the decomposition of SOM. It uses a simple decomposition response to determine the changes to the soil C. The model can run in a basic form if data is very limited, or a more complex form with modifiers for temperature, pH, salinity and soil moisture if this data is available. Using measured CO2 efflux and soil C values from peat cores, combined with literature values, we demonstrate the efficacy of the model, showing how we have identified and addressed some of the issues related to modelling soil C losses from tropical peat soils under land use change. Key challenges addressed included quantifying the effects of drainage when peat swamp forests are converted to oil palm plantations, and comparing field results between sites because in oil palm plantations the original soil conditions prior to conversion from peat swamp forest were largely unknown.

  11. Improving high carbon dioxide tolerance and carbon dioxide fixation capability of Chlorella sp. by adaptive laboratory evolution.

    PubMed

    Li, Dengjin; Wang, Liang; Zhao, Quanyu; Wei, Wei; Sun, Yuhan

    2015-06-01

    CO2 capture by microalgae is a promising method to reduce greenhouse gas emissions. It is critical to construct a highly efficient way to obtain a microalgal strain tolerant to high CO2 concentrations with high CO2 fixation capability. In this study, two evolved Chlorella sp. strains, AE10 and AE20 were obtained after 31 cycles of adaptive laboratory evolution (ALE) under 10% and 20% CO2, respectively. Both of them grew rapidly in 30% CO2 and the maximal biomass concentration of AE10 was 3.68±0.08g/L, which was 1.22 and 2.94 times to those of AE20 and original strain, respectively. The chlorophyll contents of AE10 and AE20 were significantly higher than those of the original one under 1-30% CO2. The influences of ALE process on biochemical compositions of Chlorella cells were also investigated. This study proved that ALE was an effective approach to improve high CO2 tolerance of Chlorella sp.

  12. Stable carbon isotopes in dissolved inorganic carbon: extraction and implications for quantifying the contributions from silicate and carbonate weathering in the Krishna River system during peak discharge.

    PubMed

    Laskar, Amzad H; Gandhi, Naveen; Thirumalai, Kaustubh; Yadava, Madhusudan G; Ramesh, Rengaswamy; Mahajan, Ramakant R; Kumar, Dharmendra

    2014-06-01

    We present a comparative study of two offline methods, a newly developed method and an existing one, for the measurement of the stable carbon isotopic composition (δ(13)C) of dissolved inorganic carbon (DIC; δ(13)CDIC) in natural waters. The measured δ(13)CDIC values of different water samples, prepared from laboratory Na2CO3, ground and oceanic waters, and a laboratory carbonate isotope standard, are found to be accurate and reproducible to within 0.5 ‰\\ (1σ). The extraction of CO2 from water samples by these methods does not require pre-treatment or sample poisoning and can be applied to a variety of natural waters to address carbon cycling in the hydrosphere. In addition, we present a simple method (based on a two-end-member mixing model) to estimate the silicate-weathering contribution to DIC in a river system by using the concentration of DIC and its δ(13)C. This approach is tested with data from the Krishna River system as a case study, thereby quantifying the contribution of silicate and carbonate weathering to DIC, particularly during peak discharge.

  13. Quantifying Soil Organic Carbon Redistribution after Forest Fire using Thermal Analyses, Valles Caldera, New Mexico

    NASA Astrophysics Data System (ADS)

    Kuklewicz, K. B.; Rasmussen, C.

    2014-12-01

    The frequency and severity of wildfire in western conifer forests is expected to increase with continued climate change induced warming and drying. The effects of wildfire on carbon cycle processes, and particularly surface soil organic matter composition and post fire erosive redistribution is poorly understood. The recent Thompson Ridge wildfire event in 2013 in the Valles Caldera, part of the Jemez-Catalina Critical Zone Observatory, provides the opportunity to track post-fire changes in surface soil organic matter composition over time relative to pre-fire conditions. Here we applied thermal analyses to quantify changes in surface soil organic matter composition, with a focus on charred materials, across a range of hillslope and convergent landscape positions. It was hypothesized that the fraction of charred material would increase post-burn in all surface soils, with a subsequent decline in hillslope positions and a gain in convergent positions as surface material was eroded and deposited in water gathering portions of the landscape. Our results confirmed that charcoal increased directly after the fire in all samples, but a clear signal of erosive redistribution was not observed, suggesting that the movement of charcoal throughout a landscape is more complex than the simple hypothesis put forward here. Future work will expand the spatial distribution of samples in a systematic fashion that better captures variation in topography and erosive versus depositional areas of the landscape.

  14. Scatter in Carbon/Silicon Carbide (C/SiC) Composites Quantified

    NASA Technical Reports Server (NTRS)

    Murthy, Pappu L. N.; Gyekenyesi, John P.; Mital, Subodh K.

    2004-01-01

    Carbon-fiber-reinforced silicon carbide matrix (C/SiC) composites processed by chemical vapor infiltration are candidate materials for aerospace thermal structures. Carbon fibers can retain properties at very high temperatures, but they are known to have poor oxidation resistance in adverse, high-temperature environments. Nevertheless, the combination of CVI-SiC matrix with higher stiffness and oxidation resistance, the interfacial coating, and additional surface-seal coating provides the necessary protection to the carbon fibers, and makes the material viable for high-temperature space applications operating under harsh environments. Furthermore, C/SiC composites, like other ceramic matrix composites (CMCs), exhibit graceful non-catastrophic failure because of various inherent energy dissipating mechanisms. The material exhibits nonlinearity in deformation even at very low stress levels. This is the result of the severe matrix microcracking present in the as processed composite because of large differences between the coefficients of thermal expansion of the fiber and the matrix. Utilization of these advanced composites in next generation space vehicles will require innovative structural configurations, updated materials, and refined analyses. Structural safety issues for these vehicles are in direct competition with performance and cost. One would have to quantify the uncertainties associated with the design using formal probabilistic methods. Specifically four fundamental aspects on which analyses are based-- (1) loading conditions, (2) material behavior, (3) geometrical configurations, and (4) structural connections between the composite components and baseline structure--are stochastic in nature. A direct way to formally account for uncertainties is to develop probabilistic structural analysis methods where all participating variables are described by appropriate probability density functions. The present work, however, focuses on analyzing the stochastic

  15. Quantifying and Mapping the Supply of and Demand for Carbon Storage and Sequestration Service from Urban Trees.

    PubMed

    Zhao, Chang; Sander, Heather A

    2015-01-01

    Studies that assess the distribution of benefits provided by ecosystem services across urban areas are increasingly common. Nevertheless, current knowledge of both the supply and demand sides of ecosystem services remains limited, leaving a gap in our understanding of balance between ecosystem service supply and demand that restricts our ability to assess and manage these services. The present study seeks to fill this gap by developing and applying an integrated approach to quantifying the supply and demand of a key ecosystem service, carbon storage and sequestration, at the local level. This approach follows three basic steps: (1) quantifying and mapping service supply based upon Light Detection and Ranging (LiDAR) processing and allometric models, (2) quantifying and mapping demand for carbon sequestration using an indicator based on local anthropogenic CO2 emissions, and (3) mapping a supply-to-demand ratio. We illustrate this approach using a portion of the Twin Cities Metropolitan Area of Minnesota, USA. Our results indicate that 1735.69 million kg carbon are stored by urban trees in our study area. Annually, 33.43 million kg carbon are sequestered by trees, whereas 3087.60 million kg carbon are emitted by human sources. Thus, carbon sequestration service provided by urban trees in the study location play a minor role in combating climate change, offsetting approximately 1% of local anthropogenic carbon emissions per year, although avoided emissions via storage in trees are substantial. Our supply-to-demand ratio map provides insight into the balance between carbon sequestration supply in urban trees and demand for such sequestration at the local level, pinpointing critical locations where higher levels of supply and demand exist. Such a ratio map could help planners and policy makers to assess and manage the supply of and demand for carbon sequestration.

  16. Quantifying and Mapping the Supply of and Demand for Carbon Storage and Sequestration Service from Urban Trees

    PubMed Central

    Zhao, Chang; Sander, Heather A.

    2015-01-01

    Studies that assess the distribution of benefits provided by ecosystem services across urban areas are increasingly common. Nevertheless, current knowledge of both the supply and demand sides of ecosystem services remains limited, leaving a gap in our understanding of balance between ecosystem service supply and demand that restricts our ability to assess and manage these services. The present study seeks to fill this gap by developing and applying an integrated approach to quantifying the supply and demand of a key ecosystem service, carbon storage and sequestration, at the local level. This approach follows three basic steps: (1) quantifying and mapping service supply based upon Light Detection and Ranging (LiDAR) processing and allometric models, (2) quantifying and mapping demand for carbon sequestration using an indicator based on local anthropogenic CO2 emissions, and (3) mapping a supply-to-demand ratio. We illustrate this approach using a portion of the Twin Cities Metropolitan Area of Minnesota, USA. Our results indicate that 1735.69 million kg carbon are stored by urban trees in our study area. Annually, 33.43 million kg carbon are sequestered by trees, whereas 3087.60 million kg carbon are emitted by human sources. Thus, carbon sequestration service provided by urban trees in the study location play a minor role in combating climate change, offsetting approximately 1% of local anthropogenic carbon emissions per year, although avoided emissions via storage in trees are substantial. Our supply-to-demand ratio map provides insight into the balance between carbon sequestration supply in urban trees and demand for such sequestration at the local level, pinpointing critical locations where higher levels of supply and demand exist. Such a ratio map could help planners and policy makers to assess and manage the supply of and demand for carbon sequestration. PMID:26317530

  17. Thermodynamics and high-pressure kinetics of a fast carbon dioxide fixation reaction by a (2,6-pyridinedicarboxamidato-hydroxo)nickel(II) complex.

    PubMed

    Troeppner, O; Huang, D; Holm, R H; Ivanović-Burmazović, I

    2014-04-14

    The previously reported carbon dioxide fixation reaction by the planar terminal hydroxide complex [Ni(pyN2(Me2))(OH)](1-) in DMF has been further characterized by determination of the equilibrium constants K(eq)²⁹⁸ = 2.4 ± 0.2 × 10(5) M(-1) and K(eq)²²³ = 1.3 ± 0.1 × 10(7) M(-1), as well as the volume of activation for the CO2 binding (ΔV(on)(≠223) = -21 ± 3 cm(3) mol(-1)) and back decarboxylation (ΔV(off)(≠223) = -13 ± 1 cm(3) mol(-1)) by high-pressure kinetics. The data are consistent with an earlier DFT computation, including the probable nature of the transition state, and support designating the reaction as one of the most completely investigated carbon dioxide fixation reactions of any type.

  18. Preparation of three-dimensional braided carbon fiber-reinforced PEEK composites for potential load-bearing bone fixations. Part I. Mechanical properties and cytocompatibility.

    PubMed

    Luo, Honglin; Xiong, Guangyao; Yang, Zhiwei; Raman, Sudha R; Li, Qiuping; Ma, Chunying; Li, Deying; Wang, Zheren; Wan, Yizao

    2014-01-01

    In this study, we focused on fabrication and characterization of three-dimensional carbon fiber-reinforced polyetheretherketone (C3-D/PEEK) composites for orthopedic applications. We found that pre-heating of 3-D fabrics before hot-pressing could eliminate pores in the composites prepared by 3-D co-braiding and hot-pressing techniques. The manufacturing process and the processing variables were studied and optimum parameters were obtained. Moreover, the carbon fibers were surface treated by the anodic oxidization and its effect on mechanical properties of the composites was determined. Preliminary cell studies with mouse osteoblast cells were also performed to examine the cytocompatibility of the composites. Feasibility of the C3-D/PEEK composites as load-bearing bone fixation materials was evaluated. Results suggest that the C3-D/PEEK composites show good promising as load-bearing bone fixations.

  19. Assessing methanotrophy and carbon fixation for biofuel production by Methanosarcina acetivorans

    SciTech Connect

    Nazem-Bokaee, Hadi; Gopalakrishnan, Saratram; Ferry, James G.; Wood, Thomas K.; Maranas, Costas D.

    2016-01-17

    Methanosarcina acetivorans is a model archaeon with renewed interest due to its unique reversible methane production pathways. However, the mechanism and relevant pathways implicated in (co)utilizing novel carbon substrates in this organism are still not fully understood. This paper provides a comprehensive inventory of thermodynamically feasible routes for anaerobic methane oxidation, co-reactant utilization, and maximum carbon yields of major biofuel candidates by M. acetivorans. Here, an updated genome-scale metabolic model of M. acetivorans is introduced (iMAC868 containing 868 genes, 845 reactions, and 718 metabolites) by integrating information from two previously reconstructed metabolic models (i.e., iVS941 and iMB745), modifying 17 reactions, adding 24 new reactions, and revising 64 gene-proteinreaction associations based on newly available information. The new model establishes improved predictions of growth yields on native substrates and is capable of correctly predicting the knockout outcomes for 27 out of 28 gene deletion mutants. By tracing a bifurcated electron flow mechanism, the iMAC868 model predicts thermodynamically feasible (co)utilization pathway of methane and bicarbonate using various terminal electron acceptors through the reversal of the aceticlastic pathway. In conclusion, this effort paves the way in informing the search for thermodynamically feasible ways of (co)utilizing novel carbon substrates in the domain Archaea.

  20. Assessing methanotrophy and carbon fixation for biofuel production by Methanosarcina acetivorans

    DOE PAGES

    Nazem-Bokaee, Hadi; Gopalakrishnan, Saratram; Ferry, James G.; ...

    2016-01-17

    Methanosarcina acetivorans is a model archaeon with renewed interest due to its unique reversible methane production pathways. However, the mechanism and relevant pathways implicated in (co)utilizing novel carbon substrates in this organism are still not fully understood. This paper provides a comprehensive inventory of thermodynamically feasible routes for anaerobic methane oxidation, co-reactant utilization, and maximum carbon yields of major biofuel candidates by M. acetivorans. Here, an updated genome-scale metabolic model of M. acetivorans is introduced (iMAC868 containing 868 genes, 845 reactions, and 718 metabolites) by integrating information from two previously reconstructed metabolic models (i.e., iVS941 and iMB745), modifying 17 reactions,more » adding 24 new reactions, and revising 64 gene-proteinreaction associations based on newly available information. The new model establishes improved predictions of growth yields on native substrates and is capable of correctly predicting the knockout outcomes for 27 out of 28 gene deletion mutants. By tracing a bifurcated electron flow mechanism, the iMAC868 model predicts thermodynamically feasible (co)utilization pathway of methane and bicarbonate using various terminal electron acceptors through the reversal of the aceticlastic pathway. In conclusion, this effort paves the way in informing the search for thermodynamically feasible ways of (co)utilizing novel carbon substrates in the domain Archaea.« less

  1. Quantifying and Monetizing Potential Climate Change Policy Impacts on Terrestrial Ecosystem Carbon Storage and Wildfires in the United States

    EPA Science Inventory

    This paper quantifies and monetizes climate change impacts on carbon stored in terrestrial vegetation and wildfire incidence in the contiguous United States to assess the benefits of alternative mitigation policies. The MC-1 dynamic global vegetation model was used to develop int...

  2. Improved analysis of C4 and C3 photosynthesis via refined in vitro assays of their carbon fixation biochemistry

    PubMed Central

    Sharwood, Robert E.; Sonawane, Balasaheb V.; Ghannoum, Oula; Whitney, Spencer M.

    2016-01-01

    Plants operating C3 and C4 photosynthetic pathways exhibit differences in leaf anatomy and photosynthetic carbon fixation biochemistry. Fully understanding this underpinning biochemical variation is requisite to identifying solutions for improving photosynthetic efficiency and growth. Here we refine assay methods for accurately measuring the carboxylase and decarboxylase activities in C3 and C4 plant soluble protein. We show that differences in plant extract preparation and assay conditions are required to measure NADP-malic enzyme and phosphoenolpyruvate carboxylase (pH 8, Mg2+, 22 °C) and phosphoenolpyruvate carboxykinase (pH 7, >2mM Mn2+, no Mg2+) maximal activities accurately. We validate how the omission of MgCl2 during leaf protein extraction, lengthy (>1min) centrifugation times, and the use of non-pure ribulose-1,5-bisphosphate (RuBP) significantly underestimate Rubisco activation status. We show how Rubisco activation status varies with leaf ontogeny and is generally lower in mature C4 monocot leaves (45–60% activation) relative to C3 monocots (55–90% activation). Consistent with their >3-fold lower Rubisco contents, full Rubisco activation in soluble protein from C4 leaves (<5min) was faster than in C3 plant samples (<10min), with addition of Rubisco activase not required for full activation. We conclude that Rubisco inactivation in illuminated leaves primarily stems from RuBP binding to non-carbamylated enzyme, a state readily reversible by dilution during cellular protein extraction. PMID:27122573

  3. Urea Uptake and Carbon Fixation by Marine Pelagic Bacteria and Archaea during the Arctic Summer and Winter Seasons

    PubMed Central

    Connelly, Tara L.; Baer, Steven E.; Cooper, Joshua T.; Bronk, Deborah A.

    2014-01-01

    How Arctic climate change might translate into alterations of biogeochemical cycles of carbon (C) and nitrogen (N) with respect to inorganic and organic N utilization is not well understood. This study combined 15N uptake rate measurements for ammonium, nitrate, and urea with 15N- and 13C-based DNA stable-isotope probing (SIP). The objective was to identify active bacterial and archeal plankton and their role in N and C uptake during the Arctic summer and winter seasons. We hypothesized that bacteria and archaea would successfully compete for nitrate and urea during the Arctic winter but not during the summer, when phytoplankton dominate the uptake of these nitrogen sources. Samples were collected at a coastal station near Barrow, AK, during August and January. During both seasons, ammonium uptake rates were greater than those for nitrate or urea, and nitrate uptake rates remained lower than those for ammonium or urea. SIP experiments indicated a strong seasonal shift of bacterial and archaeal N utilization from ammonium during the summer to urea during the winter but did not support a similar seasonal pattern of nitrate utilization. Analysis of 16S rRNA gene sequences obtained from each SIP fraction implicated marine group I Crenarchaeota (MGIC) as well as Betaproteobacteria, Firmicutes, SAR11, and SAR324 in N uptake from urea during the winter. Similarly, 13C SIP data suggested dark carbon fixation for MGIC, as well as for several proteobacterial lineages and the Firmicutes. These data are consistent with urea-fueled nitrification by polar archaea and bacteria, which may be advantageous under dark conditions. PMID:25063662

  4. Urea uptake and carbon fixation by marine pelagic bacteria and archaea during the Arctic summer and winter seasons.

    PubMed

    Connelly, Tara L; Baer, Steven E; Cooper, Joshua T; Bronk, Deborah A; Wawrik, Boris

    2014-10-01

    How Arctic climate change might translate into alterations of biogeochemical cycles of carbon (C) and nitrogen (N) with respect to inorganic and organic N utilization is not well understood. This study combined 15N uptake rate measurements for ammonium, nitrate, and urea with 15N- and 13C-based DNA stable-isotope probing (SIP). The objective was to identify active bacterial and archeal plankton and their role in N and C uptake during the Arctic summer and winter seasons. We hypothesized that bacteria and archaea would successfully compete for nitrate and urea during the Arctic winter but not during the summer, when phytoplankton dominate the uptake of these nitrogen sources. Samples were collected at a coastal station near Barrow, AK, during August and January. During both seasons, ammonium uptake rates were greater than those for nitrate or urea, and nitrate uptake rates remained lower than those for ammonium or urea. SIP experiments indicated a strong seasonal shift of bacterial and archaeal N utilization from ammonium during the summer to urea during the winter but did not support a similar seasonal pattern of nitrate utilization. Analysis of 16S rRNA gene sequences obtained from each SIP fraction implicated marine group I Crenarchaeota (MGIC) as well as Betaproteobacteria, Firmicutes, SAR11, and SAR324 in N uptake from urea during the winter. Similarly, 13C SIP data suggested dark carbon fixation for MGIC, as well as for several proteobacterial lineages and the Firmicutes. These data are consistent with urea-fueled nitrification by polar archaea and bacteria, which may be advantageous under dark conditions.

  5. Transition Organometallic Heterobimettalic Microns-Carbon Dioxide and Microns-Format Complexes in Homogeneous Carbon Dioxide Fixation

    DTIC Science & Technology

    1992-08-12

    optimizing and combining these ligand reactions into a reaction cycle or a catalytic system. Our approach exploits bimetallic complexation of carbon ... dioxide and uses a third metal system as the reductant (e.g., catalytic hydrosilation). These bimetallic CO2 adducts feature synergistic CO2 binding

  6. Prokaryotic Responses to Ammonium and Organic Carbon Reveal Alternative CO2 Fixation Pathways and Importance of Alkaline Phosphatase in the Mesopelagic North Atlantic

    PubMed Central

    Baltar, Federico; Lundin, Daniel; Palovaara, Joakim; Lekunberri, Itziar; Reinthaler, Thomas; Herndl, Gerhard J.; Pinhassi, Jarone

    2016-01-01

    To decipher the response of mesopelagic prokaryotic communities to input of nutrients, we tracked changes in prokaryotic abundance, extracellular enzymatic activities, heterotrophic production, dark dissolved inorganic carbon (DIC) fixation, community composition (16S rRNA sequencing) and community gene expression (metatranscriptomics) in 3 microcosm experiments with water from the mesopelagic North Atlantic. Responses in 3 different treatments amended with thiosulfate, ammonium or organic matter (i.e., pyruvate plus acetate) were compared to unamended controls. The strongest stimulation was found in the organic matter enrichments, where all measured rates increased >10-fold. Strikingly, in the organic matter treatment, the dark DIC fixation rates—assumed to be related to autotrophic metabolisms—were equally stimulated as all the other heterotrophic-related parameters. This increase in DIC fixation rates was paralleled by an up-regulation of genes involved in DIC assimilation via anaplerotic pathways. Alkaline phosphatase was the metabolic rate most strongly stimulated and its activity seemed to be related to cross-activation by nonpartner histidine kinases, and/or the activation of genes involved in the regulation of elemental balance during catabolic processes. These findings suggest that episodic events such as strong sedimentation of organic matter into the mesopelagic might trigger rapid increases of originally rare members of the prokaryotic community, enhancing heterotrophic and autotrophic carbon uptake rates, ultimately affecting carbon cycling. Our experiments highlight a number of fairly unstudied microbial processes of potential importance in mesopelagic waters that require future attention. PMID:27818655

  7. CO2 fixation by anaerobic non-photosynthetic mixotrophy for improved carbon conversion

    PubMed Central

    Jones, Shawn W.; Fast, Alan G.; Carlson, Ellinor D.; Wiedel, Carrissa A.; Au, Jennifer; Antoniewicz, Maciek R.; Papoutsakis, Eleftherios T.; Tracy, Bryan P.

    2016-01-01

    Maximizing the conversion of biogenic carbon feedstocks into chemicals and fuels is essential for fermentation processes as feedstock costs and processing is commonly the greatest operating expense. Unfortunately, for most fermentations, over one-third of sugar carbon is lost to CO2 due to the decarboxylation of pyruvate to acetyl-CoA and limitations in the reducing power of the bio-feedstock. Here we show that anaerobic, non-photosynthetic mixotrophy, defined as the concurrent utilization of organic (for example, sugars) and inorganic (for example, CO2) substrates in a single organism, can overcome these constraints to increase product yields and reduce overall CO2 emissions. As a proof-of-concept, Clostridium ljungdahlii was engineered to produce acetone and achieved a mass yield 138% of the previous theoretical maximum using a high cell density continuous fermentation process. In addition, when enough reductant (that is, H2) is provided, the fermentation emits no CO2. Finally, we show that mixotrophy is a general trait among acetogens. PMID:27687501

  8. Critical Involvement of Environmental Carbon Dioxide Fixation to Drive Wax Ester Fermentation in Euglena

    PubMed Central

    Nishio, Kazuki; Nakazawa, Masami; Nakamoto, Masatoshi; Okazawa, Atsushi; Kanaya, Shigehiko; Arita, Masanori

    2016-01-01

    Accumulation profiles of wax esters in Euglena gracilis Z were studied under several environmental conditions. The highest amount of total wax esters accumulated under hypoxia in the dark, and C28 (myristyl-myristate, C14:0-C14:0) was prevalent among all conditions investigated. The wax ester production was almost completely suppressed under anoxia in the light, and supplying exogenous inorganic carbon sources restored wax ester fermentation, indicating the need for external carbon sources for the wax ester fermentation. 13C-labeling experiments revealed specific isotopic enrichment in the odd-numbered fatty acids derived from wax esters, indicating that the exogenously-supplied CO2 was incorporated into wax esters via the propionyl-CoA pathway through the reverse tricarboxylic acid (TCA) cycle. The addition of 3-mercaptopicolinic acid, a phosphoenolpyruvate carboxykinase (PEPCK) inhibitor, significantly affected the incorporation of 13C into citrate and malate as the biosynthetic intermediates of the odd-numbered fatty acids, suggesting the involvement of PEPCK reaction to drive wax ester fermentation. Additionally, the 13C-enrichment pattern of succinate suggested that the CO2 assimilation might proceed through alternative pathways in addition to the PEPCK reaction. The current results indicate that the mechanisms of anoxic CO2 assimilation are an important target to reinforce wax ester fermentation in Euglena. PMID:27669566

  9. Multigene manipulation of photosynthetic carbon assimilation increases CO2 fixation and biomass yield in tobacco

    PubMed Central

    Simkin, Andrew J.; McAusland, Lorna; Headland, Lauren R.; Lawson, Tracy; Raines, Christine A.

    2015-01-01

    Over the next 40 years it has been estimated that a 50% increase in the yield of grain crops such as wheat and rice will be required to meet the food and fuel demands of the increasing world population. Transgenic tobacco plants have been generated with altered combinations of sedoheptulose-1,7-bisphosphatase, fructose-1,6-bisphosphate aldolase, and the cyanobacterial putative-inorganic carbon transporter B, ictB, of which have all been identified as targets to improve photosynthesis based on empirical studies. It is shown here that increasing the levels of the three proteins individually significantly increases the rate of photosynthetic carbon assimilation, leaf area, and biomass yield. Furthermore, the daily integrated measurements of photosynthesis showed that mature plants fixed between 12–19% more CO2 than the equivalent wild-type plants. Further enhancement of photosynthesis and yield was observed when sedoheptulose-1,7-bisphosphatase, fructose-1,6-bisphosphate aldolase, and ictB were over-expressed together in the same plant. These results demonstrate the potential for the manipulation of photosynthesis, using multigene-stacking approaches, to increase crop yields. PMID:25956882

  10. Enhancing Carbon Fixation by Metabolic Engineering: A Model System of Complex Network Modulation

    SciTech Connect

    Dr. Gregory Stephanopoulos

    2008-04-10

    In the first two years of this research we focused on the development of a DNA microarray for transcriptional studies in the photosynthetic organism Synechocystis and the elucidation of the metabolic pathway for biopolymer synthesis in this organism. In addition we also advanced the molecular biological tools for metabolic engineering of biopolymer synthesis in Synechocystis and initiated a series of physiological studies for the elucidation of the carbon fixing pathways and basic central carbon metabolism of these organisms. During the last two-year period we focused our attention on the continuation and completion of the last task, namely, the development of tools for basic investigations of the physiology of these cells through, primarily, the determination of their metabolic fluxes. The reason for this decision lies in the importance of fluxes as key indicators of physiology and the high level of information content they carry in terms of identifying rate limiting steps in a metabolic pathway. While flux determination is a well-advanced subject for heterotrophic organisms, for the case of autotrophic bacteria, like Synechocystis, some special challenges had to be overcome. These challenges stem mostly from the fact that if one uses {sup 13}C labeled CO{sub 2} for flux determination, the {sup 13}C label will mark, at steady state, all carbon atoms of all cellular metabolites, thus eliminating the necessary differentiation required for flux determination. This peculiarity of autotrophic organisms makes it imperative to carry out flux determination under transient conditions, something that had not been accomplished before. We are pleased to report that we have solved this problem and we are now able to determine fluxes in photosynthetic organisms from stable isotope labeling experiments followed by measurements of label enrichment in cellular metabolites using Gas Chromatography-Mass Spectrometry. We have conducted extensive simulations to test the method and

  11. Metabolome-mediated biocryomorphic evolution promotes carbon fixation in Greenlandic cryoconite holes.

    PubMed

    Cook, Joseph M; Edwards, Arwyn; Bulling, Mark; Mur, Luis A J; Cook, Sophie; Gokul, Jarishma K; Cameron, Karen A; Sweet, Michael; Irvine-Fynn, Tristram D L

    2016-12-01

    Microbial photoautotrophs on glaciers engineer the formation of granular microbial-mineral aggregates termed cryoconite which accelerate ice melt, creating quasi-cylindrical pits called 'cryoconite holes'. These act as biogeochemical reactors on the ice surface and provide habitats for remarkably active and diverse microbiota. Evolution of cryoconite holes towards an equilibrium depth is well known, yet interactions between microbial activity and hole morphology are currently weakly addressed. Here, we experimentally perturbed the depths and diameters of cryoconite holes on the Greenland Ice Sheet. Cryoconite holes responded by sensitively adjusting their shapes in three dimensions ('biocryomorphic evolution') thus maintaining favourable conditions for net autotrophy at the hole floors. Non-targeted metabolomics reveals concomitant shifts in cyclic AMP and fucose metabolism consistent with phototaxis and extracellular polymer synthesis indicating metabolomic-level granular changes in response to perturbation. We present a conceptual model explaining this process and suggest that it results in remarkably robust net autotrophy on the Greenland Ice Sheet. We also describe observations of cryoconite migrating away from shade, implying a degree of self-regulation of carbon budgets over mesoscales. Since cryoconite is a microbe-mineral aggregate, it appears that microbial processes themselves form and maintain stable autotrophic habitats on the surface of the Greenland ice sheet.

  12. Design of Zeolitic Imidazolate Framework Derived Nitrogen-Doped Nanoporous Carbons Containing Metal Species for Carbon Dioxide Fixation Reactions.

    PubMed

    Toyao, Takashi; Fujiwaki, Mika; Miyahara, Kenta; Kim, Tae-Ho; Horiuchi, Yu; Matsuoka, Masaya

    2015-11-01

    Various N-doped nanoporous carbons containing metal species were prepared by direct thermal conversion of zeolitic imidazolate frameworks (ZIFs; ZIF-7, -8, -9, and -67) at different temperatures (600, 800, and 1000 °C). These materials were utilized as bifunctional acid-base catalysts to promote the reaction of CO2 with epoxides to form cyclic carbonates under 0.6 MPa of CO2 at 80 °C. The catalyst generated by thermal conversion of ZIF-9 at 600 °C (C600-ZIF-9) was found to exhibit a higher catalytic activity than the other ZIFs, other conventional catalysts, and other metal-organic framework catalysts. The results of various characterization techniques including elemental analysis, X-ray diffraction, X-ray photoelectron spectroscopy, X-ray absorption spectroscopy, and transmission electron microscopy show that C600-ZIF-9 contains partly oxidized Co nanoparticles and N species. Temperature-programmed desorption measurements by using CO2 and NH3 as probe molecules revealed that C600-ZIF-9 has both Lewis acid and Lewis base catalytic sites. Finally, the substrate scope was extended to seven other kinds of epoxides.

  13. Quantifying Soil Carbon Change from Wildfires in Peatland Ecosystems of the Eastern United States Using Repeat LiDAR

    NASA Astrophysics Data System (ADS)

    Reddy, A.; Hawbaker, T. J.; Zhu, Z.; Ward, S.; Wurster, F.; Newcomb, D.

    2013-12-01

    Wildfires are an increasing concern in peatland ecosystems along the coastal plains of the Eastern US. Human- and climate-induced changes to the ecosystems' hydrology can leave the soils, heavy with organic matter, susceptible to combustion in wildfires. This results in large losses of carbon that took many years to accumulate. However, accurately quantifying carbon losses in peatlands from wildfires is challenging because field data collection over extensive areas is difficult. For this study, our first objective was to evaluate the use of pre- and post-fire LiDAR data to quantify changes in surface elevations and soil carbon stocks for the 2011 Lateral West fire, which occurred in the Great Dismal Swamp National Wildlife Refuge (GDSNWR), Virginia, USA. Our second objective was to use a Monte Carlo approach to estimate how the vertical error in LiDAR points affected our calculation of soil carbon emissions. Bare-earth LiDAR points from 2010 and 2012 were obtained for GDSNWR with densities of 2 pulses/m2 and vertical elevation RMSE of 9 and 7 cm, respectively. Monte Carlo replicates were used to perturb individual bare-earth LiDAR points and generate probability distributions of elevation change within 10 m grid cells. Change in soil carbon were calculated within the Monte Carlo replicates by multiplying the LiDAR-derived volume of soil loss by depth-specific published values of soil bulk density, organic matter content, and carbon content. The 5th, 50th and 95th percentiles of the elevation and carbon change distributions were outputted as raster layers. Loss in soil volume ranged from 10,820,000 to 13,190,000 m3 based on vertical error. Carbon loss within the entire area burned by the Lateral West fire perimeter (32.1 km2), based on the 5th, 50th and 95th percentiles was 0.64, 0.96, and 1.33 Tg C, respectively. Our study demonstrated a method to use LiDAR data to quantify carbon loss following fires in peatland ecosystems and incorporate elevation errors to

  14. Temporal Shift of Circadian-Mediated Gene Expression and Carbon Fixation Contributes to Biomass Heterosis in Maize Hybrids

    PubMed Central

    Song, Qingxin; Juenger, Thomas E.

    2016-01-01

    Heterosis has been widely used in agriculture, but the molecular mechanism for this remains largely elusive. In Arabidopsis hybrids and allopolyploids, increased photosynthetic and metabolic activities are linked to altered expression of circadian clock regulators, including CIRCADIAN CLOCK ASSOCIATED1 (CCA1). It is unknown whether a similar mechanism mediates heterosis in maize hybrids. Here we report that higher levels of carbon fixation and starch accumulation in the maize hybrids are associated with altered temporal gene expression. Two maize CCA1 homologs, ZmCCA1a and ZmCCA1b, are diurnally up-regulated in the hybrids. Expressing ZmCCA1 complements the cca1 mutant phenotype in Arabidopsis, and overexpressing ZmCCA1b disrupts circadian rhythms and biomass heterosis. Furthermore, overexpressing ZmCCA1b in maize reduced chlorophyll content and plant height. Reduced height stems from reduced node elongation but not total node number in both greenhouse and field conditions. Phenotypes are less severe in the field than in the greenhouse, suggesting that enhanced light and/or metabolic activities in the field can compensate for altered circadian regulation in growth vigor. Chromatin immunoprecipitation-sequencing (ChIP-seq) analysis reveals a temporal shift of ZmCCA1-binding targets to the early morning in the hybrids, suggesting that activation of morning-phased genes in the hybrids promotes photosynthesis and growth vigor. This temporal shift of ZmCCA1-binding targets correlated with nonadditive and additive gene expression in early and late stages of seedling development. These results could guide breeding better hybrid crops to meet the growing demand in food and bioenergy. PMID:27467757

  15. Temporal Shift of Circadian-Mediated Gene Expression and Carbon Fixation Contributes to Biomass Heterosis in Maize Hybrids.

    PubMed

    Ko, Dae Kwan; Rohozinski, Dominica; Song, Qingxin; Taylor, Samuel H; Juenger, Thomas E; Harmon, Frank G; Chen, Z Jeffrey

    2016-07-01

    Heterosis has been widely used in agriculture, but the molecular mechanism for this remains largely elusive. In Arabidopsis hybrids and allopolyploids, increased photosynthetic and metabolic activities are linked to altered expression of circadian clock regulators, including CIRCADIAN CLOCK ASSOCIATED1 (CCA1). It is unknown whether a similar mechanism mediates heterosis in maize hybrids. Here we report that higher levels of carbon fixation and starch accumulation in the maize hybrids are associated with altered temporal gene expression. Two maize CCA1 homologs, ZmCCA1a and ZmCCA1b, are diurnally up-regulated in the hybrids. Expressing ZmCCA1 complements the cca1 mutant phenotype in Arabidopsis, and overexpressing ZmCCA1b disrupts circadian rhythms and biomass heterosis. Furthermore, overexpressing ZmCCA1b in maize reduced chlorophyll content and plant height. Reduced height stems from reduced node elongation but not total node number in both greenhouse and field conditions. Phenotypes are less severe in the field than in the greenhouse, suggesting that enhanced light and/or metabolic activities in the field can compensate for altered circadian regulation in growth vigor. Chromatin immunoprecipitation-sequencing (ChIP-seq) analysis reveals a temporal shift of ZmCCA1-binding targets to the early morning in the hybrids, suggesting that activation of morning-phased genes in the hybrids promotes photosynthesis and growth vigor. This temporal shift of ZmCCA1-binding targets correlated with nonadditive and additive gene expression in early and late stages of seedling development. These results could guide breeding better hybrid crops to meet the growing demand in food and bioenergy.

  16. Diurnal variations in pathways of photosynthetic carbon fixation in a freshwater cyanobacterium

    NASA Astrophysics Data System (ADS)

    Labiosa, R. G.; Arrigo, K. R.; Grossman, A.; Reddy, T. E.; Shrager, J.

    2003-04-01

    Understanding phytoplankton photosynthesis is critical to several fields including ecology and global biogeochemistry. The efficiency with which phytoplankton fix carbon depends upon the ambient light field, which is in turn dependent upon sun angle and the depth of mixing in the water column. In this pilot project, Synechocystis PCC 6803 was chosen as a model organism with which to study the molecular and physiological responses of phytoplankton to diurnal changes in light levels. Advantages of using this organism include that its genome has been sequenced, allowing the use of microarray technology, that it is readily grown as single colonies on plates and in liquid cultures, and that it is easy to manipulate genetically (generate and complement mutants). Axenic cultures of Synechocystis were grown under precisely controlled conditions in a "cyclodyne", a chemostat in which the light intensity cycles to mimic diurnal changes in light level, where the light consisted of sinusoidal daylight (400 μ mol photons m-2 s-1 at noon) followed by 12 hours of darkness for several weeks. After one week to allow the cells to acclimate to the light conditions, the cultures were sampled and extracted for RNA analysis every two hours over the course of several days. At these time points, absorption spectra, light scattering and chlorophyll a concentrations were determined. Initial results from Northern Blot hybridizations (examining RNA levels for individual genes) indicate that, the transcripts encoding photosynthetic proteins (i.e., PsbA2, PsaA and CpcB, in photosystem II, photosystem I, and phycobilisomes, respectively) are highest during the light. Initial results show that in the middle of the night, the psbA2 transcripts are 2-fold less while the psaA and cpcB are greater than 4-fold less than in the middle of the day. For the most part, the transcripts encoding photosynthetic proteins track the light cycle, although with different trends at daybreak and after night falls

  17. Quantifying immediate radiative forcing by black carbon and organic matter with the Specific Forcing Pulse

    NASA Astrophysics Data System (ADS)

    Bond, T. C.; Zarzycki, C.; Flanner, M. G.; Koch, D. M.

    2011-02-01

    Climatic effects of short-lived climate forcers (SLCFs) differ from those of long-lived greenhouse gases, because they occur rapidly after emission and because they depend upon the region of emission. The distinctive temporal and spatial nature of these impacts is not captured by measures that rely on global averages or long time integrations. Here, we propose a simple measure, the Specific Forcing Pulse (SFP), to quantify climate warming or cooling by these pollutants, where we define "immediate" as occurring primarily within the first year after emission. SFP is the amount of energy added to or removed from a receptor region in the Earth-atmosphere system by a chemical species, per mass of emission in a source region. We limit the application of SFP to species that remain in the atmosphere for less than one year. Metrics used in policy discussions, such as total forcing or global warming potential, are easily derived from SFP. However, SFP conveys purely physical information without incurring the policy implications of choosing a time horizon for the global warming potential. Using one model (Community Atmosphere Model, or CAM), we calculate values of SFP for black carbon (BC) and organic matter (OM) emitted from 23 source-region combinations. Global SFP for both atmosphere and cryosphere impacts is divided among receptor latitudes. SFP is usually greater for open-burning emissions than for energy-related (fossil-fuel and biofuel) emissions because of the timing of emission. Global SFP for BC varies by about 45% for energy-related emissions from different regions. This variation would be larger except for compensating effects. When emitted aerosol has larger cryosphere forcing, it often has lower atmosphere forcing because of less deep convection and a shorter atmospheric lifetime. A single model result is insufficient to capture uncertainty. We develop a best estimate and uncertainties for SFP by combining forcing results from 12 additional models. We outline a

  18. Quantifying sources, transport, deposition, and radiative forcing of black carbon over the Himalayas and Tibetan Plateau

    SciTech Connect

    Zhang, Rudong; Wang, Hailong; Qian, Yun; Rasch, Philip J.; Easter, Richard C.; Ma, Po-Lun; Singh, Balwinder; Huang, Jianping; Fu, Qiang

    2015-01-01

    Black carbon (BC)particles over the Himalayas and Tibetan Plateau (HTP), both airborne and those deposited on snow, have been shown to affect snowmelt and glacier retreat. Since BC over the HTP may originate from a variety of geographical regions and emission sectors, it is essential to quantify the source-receptor relationships of BC in order to understand the contributions of natural and anthropogenic emissions and provide guidance for potential mitigation actions. In this study, we use the Community Atmosphere Model version 5 (CAM5) with a newly developed source tagging technique, nudged towards the MERRA meteorological reanalysis, to characterize the fate of BC particles emitted from various geographical regions and sectors. Evaluated against observations over the HTP and surrounding regions, the model simulation shows a good agreement in the seasonal variation of the near-surface airborne BC concentrations, providing confidence to use this modeling framework for characterizing BC source- receptor relationships. Our analysis shows that the relative contributions from different geographical regions and source sectors depend on seasons and the locations in the HTP. The largest contribution to annual mean BC burden and surface deposition in the entire HTP region is from biofuel and biomass (BB) emissions in South Asia, followed by fossil fuel (FF) emissions from South Asia, then FF from East Asia. The same roles hold for all the seasonal means except for the summer when East Asia FF becomes more important. For finer receptor regions of interest, South Asia BB and FF have the largest impact on BC in Himalayas and Central Tibetan Plateau, while East Asia FF and BB contribute the most to Northeast Plateau in all seasons and Southeast Plateau in the summer. Central Asia and Middle East FF emissions have relatively more important contributions to BC reaching Northwest Plateau, especially in the summer. Although the HTP local emissions only contribute about 10% of BC in

  19. Quantifying sources, transport, deposition, and radiative forcing of black carbon over the Himalayas and Tibetan Plateau

    DOE PAGES

    Zhang, R.; Wang, H.; Qian, Y.; ...

    2015-06-08

    Black carbon (BC) particles over the Himalayas and Tibetan Plateau (HTP), both airborne and those deposited on snow, have been shown to affect snowmelt and glacier retreat. Since BC over the HTP may originate from a variety of geographical regions and emission sectors, it is essential to quantify the source–receptor relationships of BC in order to understand the contributions of natural and anthropogenic emissions and provide guidance for potential mitigation actions. In this study, we use the Community Atmosphere Model version 5 (CAM5) with a newly developed source-tagging technique, nudged towards the MERRA meteorological reanalysis, to characterize the fate ofmore » BC particles emitted from various geographical regions and sectors. Evaluated against observations over the HTP and surrounding regions, the model simulation shows a good agreement in the seasonal variation in the near-surface airborne BC concentrations, providing confidence to use this modeling framework for characterizing BC source–receptor relationships. Our analysis shows that the relative contributions from different geographical regions and source sectors depend on season and location in the HTP. The largest contribution to annual mean BC burden and surface deposition in the entire HTP region is from biofuel and biomass (BB) emissions in South Asia, followed by fossil fuel (FF) emissions from South Asia, then FF from East Asia. The same roles hold for all the seasonal means except for the summer, when East Asia FF becomes more important. For finer receptor regions of interest, South Asia BB and FF have the largest impact on BC in the Himalayas and central Tibetan Plateau, while East Asia FF and BB contribute the most to the northeast plateau in all seasons and southeast plateau in the summer. Central Asia and Middle East FF emissions have relatively more important contributions to BC reaching the northwest plateau, especially in the summer. Although local emissions only contribute about

  20. Quantifying sources, transport, deposition, and radiative forcing of black carbon over the Himalayas and Tibetan Plateau

    NASA Astrophysics Data System (ADS)

    Zhang, R.; Wang, H.; Qian, Y.; Rasch, P. J.; Easter, R. C.; Ma, P.-L.; Singh, B.; Huang, J.; Fu, Q.

    2015-06-01

    Black carbon (BC) particles over the Himalayas and Tibetan Plateau (HTP), both airborne and those deposited on snow, have been shown to affect snowmelt and glacier retreat. Since BC over the HTP may originate from a variety of geographical regions and emission sectors, it is essential to quantify the source-receptor relationships of BC in order to understand the contributions of natural and anthropogenic emissions and provide guidance for potential mitigation actions. In this study, we use the Community Atmosphere Model version 5 (CAM5) with a newly developed source-tagging technique, nudged towards the MERRA meteorological reanalysis, to characterize the fate of BC particles emitted from various geographical regions and sectors. Evaluated against observations over the HTP and surrounding regions, the model simulation shows a good agreement in the seasonal variation in the near-surface airborne BC concentrations, providing confidence to use this modeling framework for characterizing BC source-receptor relationships. Our analysis shows that the relative contributions from different geographical regions and source sectors depend on season and location in the HTP. The largest contribution to annual mean BC burden and surface deposition in the entire HTP region is from biofuel and biomass (BB) emissions in South Asia, followed by fossil fuel (FF) emissions from South Asia, then FF from East Asia. The same roles hold for all the seasonal means except for the summer, when East Asia FF becomes more important. For finer receptor regions of interest, South Asia BB and FF have the largest impact on BC in the Himalayas and central Tibetan Plateau, while East Asia FF and BB contribute the most to the northeast plateau in all seasons and southeast plateau in the summer. Central Asia and Middle East FF emissions have relatively more important contributions to BC reaching the northwest plateau, especially in the summer. Although local emissions only contribute about 10% of BC in

  1. Quantifying the amount of root-derived carbon retained in soil at 4 temperate deciduous forests

    NASA Astrophysics Data System (ADS)

    Matamala, R.; Jastrow, J. D.; McFarlane, K. J.; Guilderson, T. P.; Hanson, P. J.

    2013-12-01

    Soil organic matter (SOM) represents the largest reservoir of carbon (C) in terrestrial ecosystems. The contributions of root-litter sources to SOM are high but they are not well understood. In this study, our objectives were to quantify the transfer of root-derived materials into soil and to study how climate and edaphic factors affect root decomposition and root-derived C retention in soils. We established 14C-enriched root-litter manipulations at four sites representing the climatic extent of Eastern deciduous forest. These sites span a range of soil types and mean annual temperature and precipitation. We followed root decomposition and incorporation of root-derived C into soil for four years. Our results show that root mass in root decomposition bags decreased over time; the average percent root mass decomposed in Y1 was 27% of the initial mass, 42% in Y2 and 56% in Y3. Data for Y4 will also be available at the poster. Root decay constants were significantly affected by climate and edaphic factors. Soils in root incubation bags showed 14C enrichment after only one month, suggesting that root C was quickly transferred to SOM, perhaps mostly as microbial residues. After the first month, soil 14C enrichment exhibited cyclic dynamics that varied by site, which were likely related to site differences in microbial activity and edaphic factors affecting SOM stabilization. After 3 years, the average root-derived C retained in the soil varied depending on site and ranged from 5% to 25% of total root decomposition inputs. The two sites with the highest soil C concentrations were also the sites that retained the most root-derived C, at about 23% of the total inputs. At the warmest site, root retention was slightly lower than at the colder sites, but higher than the colder site with sandy soils, which only retained about 4% of the root decomposition C inputs. Data from Y4 will be available at the poster. Overall, we found that retention of root-derived materials accounted

  2. Smaller Fixation Target Size Is Associated with More Stable Fixation and Less Variance in Threshold Sensitivity

    PubMed Central

    Okano, Kana; Koshiji, Risako; Funaki, Wakana; Shoji, Nobuyuki

    2016-01-01

    The aims of this randomized observational case control study were to quantify fixation behavior during standard automated perimetry (SAP) with different fixation targets and to evaluate the relationship between fixation behavior and threshold variability at each test point in healthy young participants experienced with perimetry. SAP was performed on the right eyes of 29 participants using the Octopus 900 perimeter, program 32, dynamic strategy. The fixation targets of Point, Cross, and Ring were used for SAP. Fixation behavior was recorded using a wearable eye-tracking glass. All participants underwent SAP twice with each fixation target in a random fashion. Fixation behavior was quantified by calculating the bivariate contour ellipse area (BCEA) and the frequency of deviation from the fixation target. The BCEAs (deg2) of Point, Cross, and Ring targets were 1.11, 1.46, and 2.02, respectively. In all cases, BCEA increased significantly with increasing fixation target size (p < 0.05). The logarithmic value of BCEA demonstrated the same tendency (p < 0.05). A positive correlation was identified between fixation behavior and threshold variability for the Point and Cross targets (ρ = 0.413–0.534, p < 0.05). Fixation behavior increased with increasing fixation target size. Moreover, a larger fixation behavior tended to be associated with a higher threshold variability. A small fixation target is recommended during the visual field test. PMID:27829030

  3. 14C Fixation by Leaves and Leaf Cell Protoplasts of the Submerged Aquatic Angiosperm Potamogeton lucens: Carbon Dioxide or Bicarbonate? 1

    PubMed Central

    Staal, Marten; Elzenga, J. Theo M.; Prins, Hidde B. A.

    1989-01-01

    Protoplasts were isolated from leaves of the aquatic angiosperm Potamogeton lucens L. The leaves utilize bicarbonate as a carbon source for photosynthesis, and show polarity; that is, acidification of the periplasmic space of the lower, and alkalinization of the space near the upper leaf side. At present there are two models under consideration for this photosynthetic bicarbonate utilization process: conversion of bicarbonate into free carbon dioxide as a result of acidification and, second, a bicarbonate-proton symport across the plasma membrane. Carbon fixation of protoplasts was studied at different pH values and compared with that in leaf strips. Using the isotopic disequilibrium technique, it was established that carbon dioxide and not bicarbonate was the form in which DIC actually crossed the plasma membrane. It is concluded that there is probably no true bicarbonate transport system at the plasma membrane of these cells and that bicarbonate utilization in this species apparently rests on the conversion of bicarbonate into carbon dioxide. Experiments with acetazolamide, an inhibitor of periplasmic carbonic anhydrase, and direct measurements of carbonic anhydrase activity in intact leaves indicate that in this species the role of this enzyme for periplasmic conversion of bicarbonate into carbon dioxide is insignificant. PMID:16666848

  4. sup 14 C fixation by leaves and leaf cell protoplasts of the submerged aquatic angiosperm Potamogeton lucens: Carbon dioxide or bicarbonate

    SciTech Connect

    Staal, M.; Elzenga, J.T.M.; Prins, H.B.A. )

    1989-07-01

    Protoplasts were isolated from leaves of the aquatic angiosperm Potamogeton lucens L. The leaves utilize bicarbonate as a carbon source for photosynthesis, and show polarity; that is acidification of the periplasmic space of the lower, and alkalinization of the space near the upper leaf side. At present there are two models under consideration for this photosynthetic bicarbonate utilization process: conversion of bicarbonate into free carbon dioxide as a result of acidification and, second, a bicarbonate-proton symport across the plasma membrane. Carbon fixation of protoplasts was studied at different pH values and compared with that in leaf strips. Using the isotopic disequilibrium technique, it was established that carbon dioxide and not bicarbonate was the form in which DIC actually crossed the plasma membrane. It is concluded that there is probably no true bicarbonate transport system at the plasma membrane of these cells and that bicarbonate utilization in this species apparently rests on the conversion of bicarbonate into carbon dioxide. Experiments with acetazolamide, an inhibitor of periplasmic carbonic anhydrase, and direct measurements of carbonic anhydrase activity in intact leaves indicate that in this species the role of this enzyme for periplasmic conversion of bicarbonate into carbon dioxide is insignificant.

  5. Quantifying the pluri-centennial soil organic carbon pool using Rock-Eval pyrolysis

    NASA Astrophysics Data System (ADS)

    Cécillon, Lauric; Baudin, François; Chenu, Claire; Christensen, Bent T.; Houot, Sabine; Kätterer, Thomas; Lutfalla, Suzanne; Macdonald, Andy; van Oort, Folkert; Plante, Alain F.; Savignac, Florence; Soucémarianadin, Laure; Barré, Pierre

    2016-04-01

    amount (5 to 95%) of CH, CO and CO2 gas had evolved during the RE6 pyrolysis and oxidation steps. These RE6 predictors were used in a random forest (RF) multivariate regression model to predict the proportion of the pluri-centennial SOC pool. Our RE6-RF model showed an excellent predictive performance: out-of-bag R²=0.93, out-of-bag error=6% of total SOC (n=86); validation R²=0.96, prediction error=5% of total SOC (n=20). We then applied our RE6-RF model on 50 cropland and forest topsoils (0-30cm) with contrasting geo-pedology (region of Grignon, FR). Despite its wide heterogeneity, this new sample set was within the prediction range of our RE6-RF model. The RE6-RF predicted proportion of the pluri-centennial SOC pool was consistently higher in cropland than in forest soils (p<0.001), while its concentration (gC.kg-1soil) was not affected by land-use. Conversely, the concentration of the pluri-centennial SOC pool was markedly dependent on soil type (p=0.01) and parent material (p=0.001), indicating a clear geochemical control on the pluri-centennial soil organic carbon reservoir. Our study positions RE6 pyrolysis as a meaningful tool to quantify the pluri-centennial SOC pool, with the ability of detecting its landscape-scale heterogeneities.

  6. Comparative Shotgun Proteomic Analysis of Wastewater-Cultured Microalgae: Nitrogen Sensing and Carbon Fixation for Growth and Nutrient Removal in Chlamydomonas reinhardtii.

    PubMed

    Patel, Anil K; Huang, Eric L; Low-Décarie, Etienne; Lefsrud, Mark G

    2015-08-07

    Chlamydomonas reinhardtii was batch-cultured for 12 days under continuous illumination to investigate nitrogen uptake and metabolic responses to wastewater processing. Our approach compared two conditions: (1) artificial wastewater containing nitrate and ammonia and (2) nutrient-sufficient control containing nitrate as sole form of nitrogen. Treatments did not differ in final biomass; however, comparison of group proteomes revealed significant differences. Label-free shotgun proteomic analysis identified 2358 proteins, of which 92 were significantly differentially abundant. Wastewater cells showed higher relative abundances of photosynthetic antenna proteins, enzymes related to carbon fixation, and biosynthesis of amino acids and secondary metabolites. Control cells showed higher abundances of enzymes and proteins related to nitrogen metabolism and assimilation, synthesis and utilization of starch, amino acid recycling, evidence of oxidative stress, and little lipid biosynthesis. This study of the eukaryotic microalgal proteome response to nitrogen source, availability, and switching highlights tightly controlled pathways essential to the maintenance of culture health and productivity in concert with light absorption and carbon assimilation. Enriched pathways in artificial wastewater, notably, photosynthetic carbon fixation and biosynthesis of plant hormones, and those in nitrate only control, most notably, nitrogen, amino acid, and starch metabolism, represent potential targets for genetic improvement requiring targeted elucidation.

  7. Quantifying the Indirect Effect of Sulfate Aerosol on Climate Change Through the Carbon Cycle

    NASA Astrophysics Data System (ADS)

    Cadule, P.; Friedlingstein, P.; Bopp, L.; Piao, S.; Ciais, P.

    2008-12-01

    Elevated atmospheric concentrations of greenhouse gases will continue to warm the Earth's climate in the coming century. Coupled climate-carbon models have demonstrated a significant climate-induced reduction of natural carbon sinks, which acts as a positive feedback on the atmospheric CO2 concentration (between +20 and +220 ppm in 2100, for the SRES A2 emission scenario). Sulfate aerosols are known to affect climate through a radiative direct effect and a series of indirect effects involving the atmospheric water cycle. However, the effects of sulfate aerosols and non-CO2 greenhouse gases were neglected in these coupled climate-carbon cycle models. Here we performed new coupled climate-carbon simulations wherein the evolution of sulfate aerosols and non-CO2 greenhouse gases were explicitly represented. We show a hitherto undocumented indirect effect of aerosols on climate, via the carbon cycle. While sulfate aerosols cool the climate by 0.79°C globally, this cooling reduces land carbon sinks, leaving additional CO2 in the atmosphere. At mid-to-high northern latitudes, the aerosol-induced cooling is responsible for a decline in photosynthesis and land carbon uptake (-63 PgC by 2100). On the other hand, a variety of processes yields increased tropical carbon uptake (+28 PgC) in response to aerosol induced cooling, which is insufficient to balance the decline in the northern hemisphere. Overall, including non- CO2 greenhouse gases and sulfate aerosols, in coupled simulations, doubles the additional quantity of CO2 accumulating in the atmosphere due to climate change. Our results demonstrate that any climate mitigation policy that aims to reduce warming via sulfate aerosols must also account for their indirect warming effect, which arises from interactions between climate and the carbon cycle.

  8. Crop produciton and soil carbon: Using satellites to quantify cropping systems

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Utilization of remote sensing data from satellite platforms for multiple purposes was a hallmark of Paul Doraiswamy’s career. These efforts entailed the application of various satellite systems, e.g., Landsat, MODIS, AVRIS, to various areas around the world to quantify different components of croppi...

  9. Quantifying the effects of CO2-fertilized vegetation on future global climate and carbon dynamics

    NASA Astrophysics Data System (ADS)

    Thompson, Starley L.; Govindasamy, Bala; Mirin, Art; Caldeira, Ken; Delire, Christine; Milovich, Jose; Wickett, Mike; Erickson, David

    2004-12-01

    Climate and the global carbon cycle are a tightly coupled system where changes in climate affect exchange of atmospheric CO2 with the land biosphere and the ocean, and vice-versa. In particular, the response of the land biosphere to the ongoing increase in atmospheric CO2 is not well understood. To evaluate the approximate upper and lower limits of land carbon uptake, we perform simulations using a comprehensive climate-carbon model. In one case the land biosphere is vigorously fertilized by added CO2 and sequesters carbon throughout the 21st century. In a second case, CO2 fertilization saturates in year 2000; here the land becomes an additional source of CO2 by 2050. The predicted atmospheric CO2 concentration at year 2100 differs by 40% between the two cases. We show that current uncertainties preclude determination of whether the land biosphere will amplify or damp atmospheric CO2 increases by the end of the century.

  10. Quantifying and characterizing dissolved carbon and nitrogen leaching from litter: a comparison of methods

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Litter decomposition has a fundamental role in ecosystem functioning. It recycles energy, carbon and nutrients, supporting ecosystem productivity and soil organic matter formation. Litter decomposition occurs through leaching, fragmentation, and catabolism. Leaching is, arguably, the least studie...

  11. Carbon storage in Organic Soils (COrS): Quantifying past variations in carbon accumulation in peatlands of South Wales, UK.

    NASA Astrophysics Data System (ADS)

    Carless, Donna; Kulessa, Bernd; Street-Perrott, Alayne; Davies, Siwan; Sinnadurai, Paul

    2014-05-01

    Globally, peatlands comprise a vital terrestrial carbon sink, currently estimated to be around 500 PgC (Yu et al., 2011, Gorham, 1991). Within the UK, peatlands represent the single most important terrestrial carbon store (IUCN, 2011). In particular, blanket and raised bogs account for around 23,000 square kilometres or 9.5 percent of the UK land area, with current estimates indicating that they store approximately 3.2 PgC (IUCN, 2011). Recent studies suggest that carbon-sequestration rates have been highly variable during the Holocene (Frolking & Roulet, 2007). Reconstructing these past fluctuations is essential to assess how peatlands will respond to future climate change, particularly the possibility that large amounts of respired below-ground carbon will be released as a result of enhanced rates of decomposition, causing positive climate feedback. Quantitative estimates of past variations in carbon accumulation provide valuable insights into the factors controlling carbon budgets. Recent developments have illustrated how ground-penetrating radar (GPR) can improve constraints on peat thickness (Holden et al., 2002, Warner et al., 1990), facilitating site-specific peat-volume estimates for carbon quantification. We shall present initial results from the COrS project, which brings together a novel combination of geophysical and proxy techniques to reconstruct variations in long-term carbon accumulation in 6 ombrotrophic peat bogs, located across the Brecon Beacons National Park (BBNP), South Wales, UK (51°55'30" N, 3°29'18" W). Detailed GPR surveys are being used to provide comprehensive estimates of total peat extent and thickness at these sites. Combined with surface-elevation data from LiDAR imagery, 3D models are being created, from which total peat-volume estimates will be extracted. Carbon-accumulation rates will be inferred from these bog-volume estimates, coupled with total organic carbon (TOC) measurements and high-resolution radiocarbon dating. In

  12. Conversion of 4-Hydroxybutyrate to Acetyl Coenzyme A and Its Anapleurosis in the Metallosphaera sedula 3-Hydroxypropionate/4-Hydroxybutyrate Carbon Fixation Pathway

    SciTech Connect

    Hawkins, AB; Adams, MWW; Kelly, RM

    2014-03-25

    The extremely thermoacidophilic archaeon Metallosphaera sedula (optimum growth temperature, 73 degrees C, pH 2.0) grows chemolithoautotrophically on metal sulfides or molecular hydrogen by employing the 3-hydroxypropionate/4-hydroxybutyrate (3HP/4HB) carbon fixation cycle. This cycle adds two CO2 molecules to acetyl coenzyme A (acetyl-CoA) to generate 4HB, which is then rearranged and cleaved to form two acetyl-CoA molecules. Previous metabolic flux analysis showed that two-thirds of central carbon precursor molecules are derived from succinyl-CoA, which is oxidized to malate and oxaloacetate. The remaining one-third is apparently derived from acetyl-CoA. As such, the steps beyond succinyl-CoA are essential for completing the carbon fixation cycle and for anapleurosis of acetyl-CoA. Here, the final four enzymes of the 3HP/4HB cycle, 4-hydroxybutyrate-CoA ligase (AMP forming) (Msed_0406), 4-hydroxybutyryl-CoA dehydratase (Msed_1321), crotonyl-CoA hydratase/(S)-3-hydroxybutyryl-CoA dehydrogenase (Msed_0399), and acetoacetyl-CoA beta-ketothiolase (Msed_0656), were produced recombinantly in Escherichia coli, combined in vitro, and shown to convert 4HB to acetyl-CoA. Metabolic pathways connecting CO2 fixation and central metabolism were examined using a gas-intensive bioreactor system in which M. sedula was grown under autotrophic (CO2-limited) and heterotrophic conditions. Transcriptomic analysis revealed the importance of the 3HP/4HB pathway in supplying acetyl-CoA to anabolic pathways generating intermediates in M. sedula metabolism. The results indicated that flux between the succinate and acetyl-CoA branches in the 3HP/4HB pathway is governed by 4-hydroxybutyrate-CoA ligase, possibly regulated posttranslationally by the protein acetyltransferase (Pat)/Sir2-dependent system. Taken together, this work confirms the final four steps of the 3HP/4HB pathway, thereby providing the framework for examining connections between CO2 fixation and central metabolism in M. sedula.

  13. Conversion of 4-Hydroxybutyrate to Acetyl Coenzyme A and Its Anapleurosis in the Metallosphaera sedula 3-Hydroxypropionate/4-Hydroxybutyrate Carbon Fixation Pathway

    PubMed Central

    Hawkins, Aaron B.; Adams, Michael W. W.

    2014-01-01

    The extremely thermoacidophilic archaeon Metallosphaera sedula (optimum growth temperature, 73°C, pH 2.0) grows chemolithoautotrophically on metal sulfides or molecular hydrogen by employing the 3-hydroxypropionate/4-hydroxybutyrate (3HP/4HB) carbon fixation cycle. This cycle adds two CO2 molecules to acetyl coenzyme A (acetyl-CoA) to generate 4HB, which is then rearranged and cleaved to form two acetyl-CoA molecules. Previous metabolic flux analysis showed that two-thirds of central carbon precursor molecules are derived from succinyl-CoA, which is oxidized to malate and oxaloacetate. The remaining one-third is apparently derived from acetyl-CoA. As such, the steps beyond succinyl-CoA are essential for completing the carbon fixation cycle and for anapleurosis of acetyl-CoA. Here, the final four enzymes of the 3HP/4HB cycle, 4-hydroxybutyrate-CoA ligase (AMP forming) (Msed_0406), 4-hydroxybutyryl-CoA dehydratase (Msed_1321), crotonyl-CoA hydratase/(S)-3-hydroxybutyryl-CoA dehydrogenase (Msed_0399), and acetoacetyl-CoA β-ketothiolase (Msed_0656), were produced recombinantly in Escherichia coli, combined in vitro, and shown to convert 4HB to acetyl-CoA. Metabolic pathways connecting CO2 fixation and central metabolism were examined using a gas-intensive bioreactor system in which M. sedula was grown under autotrophic (CO2-limited) and heterotrophic conditions. Transcriptomic analysis revealed the importance of the 3HP/4HB pathway in supplying acetyl-CoA to anabolic pathways generating intermediates in M. sedula metabolism. The results indicated that flux between the succinate and acetyl-CoA branches in the 3HP/4HB pathway is governed by 4-hydroxybutyrate-CoA ligase, possibly regulated posttranslationally by the protein acetyltransferase (Pat)/Sir2-dependent system. Taken together, this work confirms the final four steps of the 3HP/4HB pathway, thereby providing the framework for examining connections between CO2 fixation and central metabolism in M. sedula. PMID

  14. [Potential Carbon Fixation Capability of Non-photosynthetic Microbial Community at Different Depth of the South China Sea and Its Response to Different Electron Donors].

    PubMed

    Fang, Feng; Wang, Lei; Xi, Xue-fei; Hu, Jia-jun; Fu, Xiao-hua; Lu, Bing; Xu, Dian-sheng

    2015-05-01

    The seawater samples collected from many different areas with different depth in the South China Sea were cultivated using different electron donors respectively. And the variation in the potential carbon fixation capability ( PCFC ) of non-photosynthetic microbial community (NPMC) in seawater with different depth was determined after a cycle of cultivation through the statistic analysis. In addition, the cause for the variation was clarified through analyzing key gene abundance regarding CO2 fixation and characteristics of seawater with different depth. The result showed that the PCFCs of NPMC in seawater with different depth were generally low and had no significant difference when using NaNO2 as the electron donor. The PCFC of NPMC in surface seawater was higher than that in deep seawater when using H2 as the electron donor, on the contrary, the PCFC of NPMC in deep seawater was higher than that in surface seawater when using Na2S2O3 as the electron donor. The abundance of the main CO2 fixation gene cbbL in surface seawater was higher than that in deep seawater while the cbbM gene abundance in deep seawater was higher than that in surface seawater. Most hydrogen-oxidizing bacteria had the cbbL gene, and most sulfur bacteria had the cbbM gene. The tendency of seawater cbbL/cbbM gene abundance with the change of depth revealed that there were different kinds of bacteria accounting for the majority in NPMC fixing CO2 at different depth of ocean, which led to different response of PCFC of NPMC at different depth of the sea to different electron donors. The distributions of dissolved oxygen and inorganic carbon concentration with the change of the depth of the sea might be an important reason leading to the difference of NPMC structure and even the difference of PCFC at different depth of the sea.

  15. Quantifying Sources and Fluxes of Aquatic Carbon in U.S. Streams and Reservoirs Using Spatially Referenced Regression Models

    NASA Astrophysics Data System (ADS)

    Boyer, E. W.; Smith, R. A.; Alexander, R. B.; Schwarz, G. E.

    2004-12-01

    Organic carbon (OC) is a critical water quality characteristic in riverine systems that is an important component of the aquatic carbon cycle and energy balance. Examples of processes controlled by OC interactions are complexation of trace metals; enhancement of the solubility of hydrophobic organic contaminants; formation of trihalomethanes in drinking water; and absorption of visible and UV radiation. Organic carbon also can have indirect effects on water quality by influencing internal processes of aquatic ecosystems (e.g. photosynthesis and autotrophic and heterotrophic activity). The importance of organic matter dynamics on water quality has been recognized, but challenges remain in quantitatively addressing OC processes over broad spatial scales in a hydrological context. In this study, we apply spatially referenced watershed models (SPARROW) to statistically estimate long-term mean-annual rates of dissolved- and total- organic carbon export in streams and reservoirs across the conterminous United States. We make use of a GIS framework for the analysis, describing sources, transport, and transformations of organic matter from spatial databases providing characterizations of climate, land use, primary productivity, topography, soils, and geology. This approach is useful because it illustrates spatial patterns of organic carbon fluxes in streamflow, highlighting hot spots (e.g., organic-rich environments in the southeastern coastal plain). Further, our simulations provide estimates of the relative contributions to streams from allochthonous and autochthonous sources. We quantify surface water fluxes of OC with estimates of uncertainty in relation to the overall US carbon budget; our simulations highlight that aquatic sources and sinks of OC may be a more significant component of regional carbon cycling than was previously thought. Further, we are using our simulations to explore the potential role of climate and other changes in the terrestrial environment on

  16. Induction of Photosynthetic Carbon Fixation in Anoxia Relies on Hydrogenase Activity and Proton-Gradient Regulation-Like1-Mediated Cyclic Electron Flow in Chlamydomonas reinhardtii1

    PubMed Central

    Bailleul, Benjamin; Berne, Nicolas

    2015-01-01

    The model green microalga Chlamydomonas reinhardtii is frequently subject to periods of dark and anoxia in its natural environment. Here, by resorting to mutants defective in the maturation of the chloroplastic oxygen-sensitive hydrogenases or in Proton-Gradient Regulation-Like1 (PGRL1)-dependent cyclic electron flow around photosystem I (PSI-CEF), we demonstrate the sequential contribution of these alternative electron flows (AEFs) in the reactivation of photosynthetic carbon fixation during a shift from dark anoxia to light. At light onset, hydrogenase activity sustains a linear electron flow from photosystem II, which is followed by a transient PSI-CEF in the wild type. By promoting ATP synthesis without net generation of photosynthetic reductants, the two AEF are critical for restoration of the capacity for carbon dioxide fixation in the light. Our data also suggest that the decrease in hydrogen evolution with time of illumination might be due to competition for reduced ferredoxins between ferredoxin-NADP+ oxidoreductase and hydrogenases, rather than due to the sensitivity of hydrogenase activity to oxygen. Finally, the absence of the two alternative pathways in a double mutant pgrl1 hydrogenase maturation factor G-2 is detrimental for photosynthesis and growth and cannot be compensated by any other AEF or anoxic metabolic responses. This highlights the role of hydrogenase activity and PSI-CEF in the ecological success of microalgae in low-oxygen environments. PMID:25931521

  17. Quantifying the Contribution of Lubrication Oil Carbon to Particulate Emissions from a Diesel Engine

    SciTech Connect

    Buchholz, B A; Dibble, R W; Rich, D; Cheng, A S

    2003-01-31

    The contribution of lubrication oil to particulate matter (PM) emissions from a Cummins B5.9 Diesel engine was measured using accelerator mass spectrometry to trace carbon isotope concentrations. The engine operated at fixed medium load (285 N-m (210 ft.lbs.) at 1600 rpm) used 100% biodiesel fuel (8100) with a contemporary carbon-14 ({sup 14}C) concentration of 103 amol {sup 14}C mg C. The {sup 14}C concentration of the exhaust CO{sub 2} and PM were 102 and 99 amol {sup 14}C/mg C, respectively. The decrease in {sup 14}C content in the CO, and PM are due to the consumption of lubrication oil which is {sup 14}C-free. Approximately 4% of the carbon in PM came from lubrication oil under these operating conditions.

  18. Quantifying the chemical composition of soil organic carbon with solid-state 13C NMR

    NASA Astrophysics Data System (ADS)

    Baldock, J. A.; Sanderman, J.

    2011-12-01

    The vulnerability of soil organic carbon (SOC) to biological decomposition and mineralisation to CO2 is defined at least partially by its chemical composition. Highly aromatic charcoal-like SOC components are more stable to biological decomposition than other forms of carbon including cellulose. Solid-state 13C NMR has gained wide acceptance as a method capable of defining SOC chemical composition and mathematical fitting processes have been developed to estimate biochemical composition. Obtaining accurate estimates depends on an ability to quantitatively detect all carbon present in a sample. Often little attention has been paid to defining the proportion of organic carbon present in a soil that is observable in solid-state 13C NMR analyses of soil samples. However, if such data is to be used to inform carbon cycling studies, it is critical that quantitative assessments of SOC observability be undertaken. For example, it is now well established that a significant discrimination exists against the detection of the low proton content polyaromatic structures typical of charcoal using cross polarisation 13C NMR analyses. Such discrimination does not exist where direct polarisation analyses are completed. In this study, the chemical composition of SOC as defined by cross polarisation and direct polarisation13C NMR analyses will be compared for Australian soils collected from under a diverse range of agricultural managements and climatic conditions. Results indicate that where significant charcoal C contents exist, it is highly under-represented in the acquired CP spectra. For some soils, a discrimination against alkyl carbon was also evident. The ability to derive correction factors to compensate for such discriminations will be assessed and presented.

  19. Northern Latitude Afforestation: Quantifying Trade Offs Between Carbon Sequestration and Solar Forcing

    NASA Astrophysics Data System (ADS)

    Mykleby, P.; Snyder, P. K.; Twine, T. E.

    2012-12-01

    The planting of trees and forests has long been accepted as a practical and efficient method to sequester carbon dioxide from the atmosphere. Drastic measures are now needed to ensure that atmospheric levels of carbon dioxide (CO2) do not continue to rise and cause further planetary warming. However, recent studies have identified unintended biophysical feedbacks associated with land cover changes, especially in higher northern latitudes. The changes in surface reflectivity that occur when converting a lighter, more reflective surface, such as a grassland or bare soil, into a darker conifer forest, can result in surface warming due to the forest absorbing more shortwave radiation. This warming counteracts the cooling effect resulting from a reduction in atmospheric CO2 with increased vegetation productivity. This effect is further exacerbated in the higher northern latitudes where snow cover is prevalent during the long winter; the planting of trees can significantly decrease the reflectivity compared with white snow. The goal of this study is to determine whether the amount of carbon sequestered exceeds the carbon equivalent of the radiative forcing due to the change in surface reflectivity. Factors determining the net effect of these two competing forces are the local climate, the age of the forest, the amount of fractional cover and tree spacing within the forest, and the species of the forest. Previous modeling studies have attempted to determine the magnitude of these effects, but these studies have used coarse resolution climate models and unrealistic forest structure and dynamics. This study attempts to resolve these previous inaccuracies by incorporating a higher resolution model and more accurate representation of carbon dynamics in northern latitude forests. Here we present simulation results from the IBIS model, a dynamic global vegetation model, used to simulate the potential planting of large-area tree plantations in the northern United States and

  20. New rht-Type Metal-Organic Frameworks Decorated with Acylamide Groups for Efficient Carbon Dioxide Capture and Chemical Fixation from Raw Power Plant Flue Gas.

    PubMed

    Guo, Xiangyang; Zhou, Zhen; Chen, Cong; Bai, Junfeng; He, Cheng; Duan, Chunying

    2016-11-23

    The combination of carbon dioxide capture and chemical fixation in a one-pot process is attractive for both chemists and governments. The cycloaddition of carbon dioxide with epoxides to produce cyclic carbonates is an atomic economical reaction without any side products. By incorporating acylamide to enhance the binding affinity toward CO2, new rht-type metal-organic frameworks (MOFs) with (3, 28) and (3, 24) connected units were constructed. Zn-NTTA with two types of dinuclear paddlewheel building blocks-{Zn2(OOC(-))4} and {Zn2(OOC(-))3}. The high uptake of CO2 (115.6 cm(3)·g(-1)) and selectivity over N2 (30:1) at 273 K indicated that these MOFs are excellent candidates for postcombustion CO2 isolation and capture. The MOFs feature high catalytic activity, rapid dynamics of transformation and excellent stability with turnover number (TON) values up to 110 000 per paddlewheel unit after 5 × 6 rounds of recyclability, demonstrating that they are promising heterogeneous catalysts for CO2 cyclo-addition to value-added cyclic carbonates. The cycloaddition of epoxides with wet gases demonstrated that the catalyst activity was not affected by moisture, and the indices of the PXRD patterns of the bulk samples filtered from the catalytic reaction revealed that the crystallinities were maintained. The combination of the selective capture and catalytic transformation in one-pot enables the use of a negative-cost feedstock-raw power plant flue gas without any separation and purification-revealing the broad prospects of such MOFs for practical CO2 fixation in industry.

  1. QUANTIFYING THE ORGANIC CARBON HELD IN FORESTED SOILS OF THE UNITED STATES AND PUERTO RICO

    EPA Science Inventory

    It is well known that soils are an important global reservoir of organic carbon (C). In fact, it has been estimated that at 1500 Pg (1Pg = 1015 g) world soils hold approximately three times the amount of C held in vegetation (~560 Pg) and two times that in the atmosphere (~735 P...

  2. Quantifying the effects of CO2-fertilized vegetation on future global climate and carbon dynamics

    SciTech Connect

    Thompson, S L; Govindasamy, B; Mirin, A; Caldeira, K; Delire, C; Milovich, J; Wickett, M; Erickson, D

    2004-10-13

    Climate and the global carbon cycle are a tightly coupled system where changes in climate affect exchange of atmospheric CO{sup 2} with the land biosphere and the ocean, and vice-versa. In particular, the response of the land biosphere to the ongoing increase in atmospheric CO{sup 2} is not well understood. To evaluate the approximate upper and lower limits of land carbon uptake, we perform simulations using a comprehensive climate-carbon model. In one case the land biosphere is vigorously fertilized by added CO{sup 2} and sequesters carbon throughout the 21st century. In a second case, CO{sup 2} fertilization saturates in year 2000; here the land becomes an additional source of CO{sup 2} by 2050. The predicted atmospheric CO{sup 2} concentration at year 2100 differs by 40% between the two cases. We show that current uncertainties preclude determination of whether the land biosphere will amplify or damp atmospheric CO{sup 2} increases by the end of the century.

  3. The Role of Meteorological Forecasting in Quantifying the Carbon Emissions Associated with Highly Intermittent Renewable Portfolios

    NASA Astrophysics Data System (ADS)

    Hart, E.; Jacobson, M. Z.

    2010-12-01

    A new model is proposed for carbon emissions assessments of systems with very high penetrations of intermittent renewables. Our approach combines a deterministic portfolio planning module with a Monte Carlo simulation of system operation that determines the conventional dispatchable generating capacity required to meet a reliability constraint. Least-cost scheduling optimizations utilize day-ahead wind speed, irradiance, and load forecasts, while real-time dispatch relies on simple statistical models of forecast errors that maintain historical geographical and temporal correlations. The model includes treatments of intermittent generators including wind, centralized solar thermal, and rooftop photovoltaics, as well as conventional generators including natural gas, hydroelectric, and geothermal plants. Results are presented from a model run of the years 2005 and 2006 with wind speed data from the Western Wind Resources Database (WWRD), irradiance data from the 1991-2005 National Solar Radiation Database (NSRDB), hydroelectric discharge data from California Department of Water Resources (DWR), and load data from the California ISO. The resulting portfolio is capable of meeting the California ISO load over the simulation period with an 80% reduction in electric power sector carbon emissions, while also meeting a loss of load expectation of 1 day in 10 years. With this portfolio, over 99% of the annual load can be met with non-carbon-based generation and all of the instantaneous demand can be met with non-carbon-based sources in 97% of the hours in the Monte Carlo simulation. The results suggest that further reductions in carbon emissions may be achieved with emerging technologies that can reliably provide large capacities without necessarily providing positive net annual energy generation. These technologies may include demand response, vehicle-to-grid systems, and large-scale energy storage.

  4. Carbon dioxide fixation and photoevolution of hydrogen and oxygen in a mutant of Chlamydomonas lacking Photosystem I

    SciTech Connect

    Greenbaum, E.; Lee, J.W.; Tevault, C.V.

    1995-09-01

    Sustained photoassimilation of atmospheric CO{sub 2} and simultaneous photoevolution of molecular hydrogen and oxygen has been observed in a Photosystem I deficient mutant B4 of Chlamydomonas reinhardtii that contains only Photosystem II. The data indicate that Photosystem II alone is capable of spanning the potential difference between water oxidation/oxygen evolution and ferredoxin reduction. The rates of both CO{sub 2} fixation and hydrogen and oxygen evolution are similar in the mutant to that of the wild-type C. reinhardtii 137c containing both photosystems. The wild-type had stable photosynthetic activity, measured as CO{sub 2} fixation, under both air and anaerobic conditions, while the mutant was stable only under anaerobic conditions. The results are discussed in terms of the fundamental mechanisms and energetics of photosynthesis and possible implications for the evolution of oxygenic photosynthesis.

  5. Quantifying the impact of legal culture and institution on carbon emissions

    NASA Astrophysics Data System (ADS)

    Li, Q.; Wang, B.; Yu, C.; Deng, H.; Cai, W.; Wang, C.

    2015-12-01

    Anthropogenic carbon emissions has been believed to trigger more than half of the global warming over the past half a century. Climate change analysis based on human activities should not neglect the driving force of human society. Different countries or regions have different legal culture traditions and legal systems that can greatly influence regional carbon emissions. This will lead to differences in implementation way and implementation intensity of the law and policies. Without understanding the social and legal background, it is not enough to understand how the climate change rules work and what the effects enforce. Using the panel data of 71 countries from 1996-2010, this study analyzes the effects of macro channels influencing mitigation policies, which contains rules and regulations including value, religion, genealogy of law, public participation, regulatory, government effectiveness, corruption, rule of law, etc. The results show that the interaction between legal variables and economic variables is very important for carbon emissions reduction. The law affects the carbon emissions by adjusting the economic and other related variables, and vice verse, economic and other variables will also impact the level of the rule of law. The study also reveals that developing national economy is most countries' urgent current task, and there are not sound strategies or strong enforcement to guarantee the achievement of the emissions reduction commitment. It is not enough to make justice dominant by cultivating a fair attitude. Practical measures and institutional means for social justice must be promoted. These results will give insight to policy makers in creating feasible and practical climate polices.

  6. Importance of In Situ Data in Reducing Uncertainty when Quantifying the African Carbon Budget

    NASA Astrophysics Data System (ADS)

    Ardö, J.

    2015-12-01

    Scarcity of in situ measurements of greenhouse gas (GHG) fluxes hamper calibration and validation of continental assessments of carbon budgets in Africa. It limits essential studies of ecosystem functioning and ecosystem processes. Wide reported ranges of estimated African net primary production (NPP) and gross primary production (GPP) is a function of the uncertainty originating from this scarcity of data. GPP estimates, based on vegetation models and remote sensing based models, range from ~17 to ~40 Pg C yr-1 and NPP estimates roughly range from ~7 to ~20 Pg C yr-1 for continental Africa. Differences in modeled carbon use efficiency (i.e. the NPP/GPP ratio) further enhance the uncertainty caused by low spatial resolution driver data sets when deriving NPP from GPP. Current substantial uncertainty in vegetation productivity estimates for Africa (both magnitudes and carbon use efficiency) may be reduced by increased abundance and availability of in situ collected field data including meteorology, radiation, spectral properties, GHG fluxes as well as long term ecological field experiments. Current measurements of GHGs fluxes in Africa are sparse and not well coordinated. The European Fluxes Database Cluster includes ~24 sites with flux data, most of them with a small amount of data in short time series. Large biomes such as the evergreen broad leafed forest are no well represented whereas savannas are slightly better represented. USA for example, with 171 flux site listed in FLUXNET has a flux site density of 17 sites per million km2, whereas Africa has density of 0.8 sites per million km2. Increased collection of data on fluxes of GHGs, ecosystem properties and processes, both through advanced micro meteorological and through cost effective straightforward field experiments can contribute to reduce the uncertainty in quantification of the African carbon budget. Adaptation of crucial resource production systems such as agriculture, pastoralism and forestry, to

  7. Combined geochemical and electrochemical methodology to quantify corrosion of carbon steel by bacterial activity.

    PubMed

    Schütz, Marta K; Moreira, Rebeca; Bildstein, Olivier; Lartigue, Jean-Eric; Schlegel, Michel L; Tribollet, Bernard; Vivier, Vincent; Libert, Marie

    2014-06-01

    The availability of respiratory substrates, such as H2 and Fe(II,III) solid corrosion products within nuclear waste repository, will sustain the activities of hydrogen-oxidizing bacteria (HOB) and iron-reducing bacteria (IRB). This may have a direct effect on the rate of carbon steel corrosion. This study investigates the effects of Shewanella oneidensis (an HOB and IRB model organism) on the corrosion rate by looking at carbon steel dissolution in the presence of H2 as the sole electron donor. Bacterial effect is evaluated by means of geochemical and electrochemical techniques. Both showed that the corrosion rate is enhanced by a factor of 2-3 in the presence of bacteria. The geochemical experiments indicated that the composition and crystallinity of the solid corrosion products (magnetite and vivianite) are modified by bacteria. Moreover, the electrochemical experiments evidenced that the bacterial activity can be stimulated when H2 is generated in a small confinement volume. In this case, a higher corrosion rate and mineralization (vivianite) on the carbon steel surface were observed. The results suggest that the mechanism likely to influence the corrosion rate is the bioreduction of Fe(III) from magnetite coupled to the H2 oxidation.

  8. QUANTIFYING FOREST ABOVEGROUND CARBON POOLS AND FLUXES USING MULTI-TEMPORAL LIDAR A report on field monitoring, remote sensing MMV, GIS integration, and modeling results for forestry field validation test to quantify aboveground tree biomass and carbon

    SciTech Connect

    Lee Spangler; Lee A. Vierling; Eva K. Stand; Andrew T. Hudak; Jan U.H. Eitel; Sebastian Martinuzzi

    2012-04-01

    Sound policy recommendations relating to the role of forest management in mitigating atmospheric carbon dioxide (CO{sub 2}) depend upon establishing accurate methodologies for quantifying forest carbon pools for large tracts of land that can be dynamically updated over time. Light Detection and Ranging (LiDAR) remote sensing is a promising technology for achieving accurate estimates of aboveground biomass and thereby carbon pools; however, not much is known about the accuracy of estimating biomass change and carbon flux from repeat LiDAR acquisitions containing different data sampling characteristics. In this study, discrete return airborne LiDAR data was collected in 2003 and 2009 across {approx}20,000 hectares (ha) of an actively managed, mixed conifer forest landscape in northern Idaho, USA. Forest inventory plots, established via a random stratified sampling design, were established and sampled in 2003 and 2009. The Random Forest machine learning algorithm was used to establish statistical relationships between inventory data and forest structural metrics derived from the LiDAR acquisitions. Aboveground biomass maps were created for the study area based on statistical relationships developed at the plot level. Over this 6-year period, we found that the mean increase in biomass due to forest growth across the non-harvested portions of the study area was 4.8 metric ton/hectare (Mg/ha). In these non-harvested areas, we found a significant difference in biomass increase among forest successional stages, with a higher biomass increase in mature and old forest compared to stand initiation and young forest. Approximately 20% of the landscape had been disturbed by harvest activities during the six-year time period, representing a biomass loss of >70 Mg/ha in these areas. During the study period, these harvest activities outweighed growth at the landscape scale, resulting in an overall loss in aboveground carbon at this site. The 30-fold increase in sampling density

  9. Quantifying the resilience of carbon dynamics in semi-arid biomes in the Southwestern U.S. to drought

    NASA Astrophysics Data System (ADS)

    Litvak, M. E.; Krofcheck, D. J.; Maurer, G.

    2015-12-01

    Semi-arid biomes in many parts of the Southwestern U.S. have experienced a range of precipitation over the last decade, ranging from wetter than average years 2006-2010 (relative to the 40-year PRISM mean), extreme drought years (2010-2011) and slightly dry-average precipitation years (2013-2015). While annual carbon uptake in semi-arid biomes of the Southwestern US is relatively low, compared to more temperate ecosystems, collectively these biomes store a significant amount of carbon on a regional scale. It is therefore of great interest to understand what impact this range in precipitation variability has on inter- and intra- annual variability in regional carbon dynamics. We use an 9 year record from 2007-2015 of continuous measurements of net ecosystem exchange of carbon (NEE) and its components (gross primary productivity (GPP) and ecosystem respiration (Re), made across a network of flux towers along an elevation/aridity gradient in New Mexico, the New Mexico Elevation Gradient (NMEG), to quantify biome-specific responses of carbon dynamics to climate variability over this time period. Biomes include a desert grassland, creosote shrubland, juniper savanna, piñon-juniper woodland, and ponderosa pine and subalpine mixed conifer forests. We compared daily, seasonal and annual NEP, GPP and Re means between pre-drought (2007-2010), drought (2011-2012), and post-drought years (2013-2015). All biomes sequestered less carbon in the drought years, compared to the pre-drought years (~30-40, 270 and 60 g C/m2 less in low and middle elevation biomes, ponderosa pine, and mixed conifer forest, respectively), as GPP in all biomes was more sensitive to the drought than Re. In the post-drought years, GPP was still only 80-90% what it was in the pre-drought years. Re, however, in all biomes except for the creosote shrubland, was 5-15% higher in the post-drought years compared to pre-drought. As a result, carbon sequestration in these biomes was 20-75% lower in the post

  10. Quantifying Carbon-Climate Processes at the Regional Scale Using Atmospheric Carbonyl Sulfide

    SciTech Connect

    Campbell, Elliott; Berry, Joe; Torn, Margaret; David, Billesbach; Seibt, Ulrike

    2013-10-08

    Atmospheric carbonyl sulfide (COS) analysis has the potentially transformative capability for partitioning the regional carbon flux into respiration and photosynthesis components. This emerging approach is based on the observation that continental atmospheric CO2 gradients are dominated by net ecosystem fluxes while continental atmospheric COS gradients are dominated by photosynthesis-related plant uptake. Regional flux partitioning represents a critical knowledge gap due to a lack of robust methods for regional-scale flux partitioning and large uncertainties in forecasting carbon-climate feedbacks. Our completed project characterized the relationship between COS and CO2 surface fluxes using a novel measurement and modeling system in a winter wheat field at the U.S. Department of Energy?s Atmospheric and Radiation Measurement program Central Facility (DOE-ARM CF). The scope of this project included canopy flux measurements, soil flux measurements, regional atmospheric modeling, and analysis of COS and CO2 airborne observations at SGP. Three critical discoveries emerged from this investigation: (1) the new measurement system provided the first field evidence of a robust relationship between COS leaf fluxes and GPP; (2) a previously unknown seasonal soil source of COS was observed and characterized; (3) the regional atmospheric analysis of airborne measurements provided the first COS-based constraints on GPP parameterizations used in earth systems models. Dissemination of these results includes three publications [Billesbach et al., In Press; Campbell et al., In Preparation; Seibt et al., In Review], three presentations at the AGU Fall Meeting (2012), and four invited presentations to department seminars. We have leveraged this foundational project to continue our work on understanding carbon cycle processes at large scales through one funded project (DOE Lab Fee, 2012-2015) and one proposal that is under review (DOE/NASA/USDA/NOAA, 2014-2016).

  11. Optimizing the weight loss-on-ignition methodology to quantify organic and carbonate carbon of sediments from diverse sources.

    PubMed

    Wang, Qingren; Li, Yuncong; Wang, Y

    2011-03-01

    The sequential weight loss-on-ignition (WLOI) method for determination of organic and carbonate or inorganic carbon (C) content was evaluated on sediments from diverse sources with a great range of C contents. The sediments were collected from canal, wetland, river, estuary, lake, and marine sites. The organic and inorganic C contents of these samples ranged from 1 to 430 g kg( -1) and from 4 to 97 g kg( -1), respectively. Combinations of the combustion time and temperature and optimal weight ranges of representative samples were tested, and comparisons of the WLOI method with other methods, including dry combustion and wet combustion, were made. These methods were (1) use of the carbon-nitrogen-sulfur (CNS) autoanalyzer with normal and reduced temperatures for total and organic C, (2) thermogravimetry for both organic and inorganic C, (3) use of the CNS autoanalyzer after removal of inorganic (carbonate) C by fumigating samples with concentrated HCl for organic C, (4) Walkley-Black wet combustion method for organic C, and (5) pressure-calcimeter associated with subtraction method (total C minus inorganic C) for organic C determinations. The results of analyzing samples of sediments of diverse origins showed that the optimal combination of temperature and time of WLOI depended mostly on the sources of the analyzed sediment. The WLOI analysis of sediment samples for organic C from wetlands, canal, estuary, or river sites needed a relatively low temperature but that of sediment samples from lake and marine sites required a relatively high temperature. Overall, to obtain reliable analysis results of samples from widely varied sediment sources except marine sediments, 500°C for 12 h was optimal for organic C content determination, and 800°C for yet another 12 h was optimal for inorganic C content determination. The temperature could even be reduced to 475°C if only wetland and stream sediments were included, but for marine sediments, 550°C for 12 h was

  12. Quantifying soil carbon accumulation in Alaskan terrestrial ecosystems during the last 15 000 years

    NASA Astrophysics Data System (ADS)

    Wang, Sirui; Zhuang, Qianlai; Yu, Zicheng

    2016-11-01

    Northern high latitudes contain large amounts of soil organic carbon (SOC), of which Alaskan terrestrial ecosystems account for a substantial proportion. In this study, the SOC accumulation in Alaskan terrestrial ecosystems over the last 15 000 years was simulated using a process-based biogeochemistry model for both peatland and non-peatland ecosystems. Comparable with the previous estimates of 25-70 Pg C in peatland and 13-22 Pg C in non-peatland soils within 1 m depth in Alaska using peat-core data, our model estimated a total SOC of 36-63 Pg C at present, including 27-48 Pg C in peatland soils and 9-15 Pg C in non-peatland soils. Current vegetation stored 2.5-3.7 Pg C in Alaska, with 0.3-0.6 Pg C in peatlands and 2.2-3.1 Pg C in non-peatlands. The simulated average rate of peat C accumulation was 2.3 Tg C yr-1, with a peak value of 5.1 Tg C yr-1 during the Holocene Thermal Maximum (HTM) in the early Holocene, 4-fold higher than the average rate of 1.4 Tg C yr-1 over the rest of the Holocene. The SOC accumulation slowed down, or even ceased, during the neoglacial climate cooling after the mid-Holocene, but increased again in the 20th century. The model-estimated peat depths ranged from 1.1 to 2.7 m, similar to the field-based estimate of 2.29 m for the region. We found that the changes in vegetation and their distributions were the main factors in determining the spatial variations of SOC accumulation during different time periods. Warmer summer temperature and stronger radiation seasonality, along with higher precipitation in the HTM and the 20th century, might have resulted in the extensive peatland expansion and carbon accumulation.

  13. Quantifying the erosion effect on current carbon budget of European agricultural soils at high spatial resolution.

    PubMed

    Lugato, Emanuele; Paustian, Keith; Panagos, Panos; Jones, Arwyn; Borrelli, Pasquale

    2016-05-01

    The idea of offsetting anthropogenic CO2 emissions by increasing global soil organic carbon (SOC), as recently proposed by French authorities ahead of COP21 in the 'four per mil' initiative, is notable. However, a high uncertainty still exits on land C balance components. In particular, the role of erosion in the global C cycle is not totally disentangled, leading to disagreement whether this process induces lands to be a source or sink of CO2. To investigate this issue, we coupled soil erosion into a biogeochemistry model, running at 1 km(2) resolution across the agricultural soils of the European Union (EU). Based on data-driven assumptions, the simulation took into account also soil deposition within grid cells and the potential C export to riverine systems, in a way to be conservative in a mass balance. We estimated that 143 of 187 Mha have C erosion rates <0.05 Mg C ha(-1) yr(-1), although some hot-spot areas showed eroded SOC >0.45 Mg C ha(-1) yr(-1). In comparison with a baseline without erosion, the model suggested an erosion-induced sink of atmospheric C consistent with previous empirical-based studies. Integrating all C fluxes for the EU agricultural soils, we estimated a net C loss or gain of -2.28 and +0.79 Tg yr(-1) of CO2 eq, respectively, depending on the value for the short-term enhancement of soil C mineralization due to soil disruption and displacement/transport with erosion. We concluded that erosion fluxes were in the same order of current carbon gains from improved management. Even if erosion could potentially induce a sink for atmospheric CO2, strong agricultural policies are needed to prevent or reduce soil erosion, in order to maintain soil health and productivity.

  14. Using chemical and isotopic data to quantify ionic trapping of injected carbon dioxide in oil field brines.

    PubMed

    Raistrick, Mark; Mayer, Bernhard; Shevalier, Maurice; Perez, Renee J; Hutcheon, Ian; Perkins, Ernie; Gunter, Bill

    2006-11-01

    Injection of carbon dioxide into depleted oil fields or deep saline aquifers represents one of the most promising means of long-term storage of this greenhouse gas. While the ultimate goal of CO2 injection in the subsurface is mineral storage of CO2 as carbonates, short-term (<50 year) storage of injected CO2 is most likely to be accomplished by ionic trapping of CO2 as bicarbonate ions (HCO3-) and hydrogeological trapping of molecular CO2. Here, we demonstrate a technique for quantifying ionic trapping of injected CO2 as HCO3- using geochemical data collected prior to and during 40 months of CO2 injection into a hydrocarbon reservoir at the International Energy Agency (IEA) Weyburn CO2 Monitoring and Storage Project, Saskatchewan, Canada. As a result of injection of CO2 with a low carbon isotope ratio (delta13C value), fluid and gas samples from four selected production wells showed an increase in HCO3- concentration and a decrease in delta13C values of HCO3- and CO2 over the observation period. Isotope and mass balance calculations indicate that, after 40 months of injection, approximately 80% of the HCO3- in the reservoir brines sampled from the four wells formed via dissolution and dissociation of injected CO2. This chemical and isotopic technique should be applicable to CO2 injection and storage in oil fields and in deep saline aquifers, provided there is sufficient carbon isotopic distinction between injected CO2 and baseline aquifer HCO3- and CO2.

  15. A framework to quantify the determinants of canopy photosynthesis and carbon uptake using time series of chlorophyll fluorescence

    NASA Astrophysics Data System (ADS)

    Kellner, J. R.; Cushman, K. C.; Kendrick, J. A.; Silva, C. E.; Wiseman, S. M.; Yang, X.

    2015-12-01

    Uncertainty over the sign and magnitude of environmental forcing agents on fluxes of tropical forest carbon could be reduced with measurements of canopy photosynthesis. But no existing method can quantify photosynthesis within individual plants at scales larger than a few cm. Portable leaf chambers can determine leaf-level gas exchange, and eddy-covariance instruments infer the net ecosystem-atmosphere carbon flux. These endpoints represent an axis of granularity and extent. Single leaf measurements are finely grained, but necessarily limited in extent, and gas exchange for whole landscapes cannot resolve the performance or contributions of individual plants. This limits the ability of scientists to test mechanistic demographic and physiological hypotheses about the drivers of photosynthesis in ecosystems, and therefore to understand the determinants of carbon fluxes between tropical ecosystems and the atmosphere. Here I describe a framework to overcome these challenges using a program of drone-enabled remote sensing measurements of solar-induced fluorescence (SIF) coupled with ground-based physiological studies to understand the determinants of photosynthesis within leaves, individual organisms and large landscapes. The Brown Platform for Autonomous Remote Sensing (BPAR) is a suite of sensors carried by a gas-powered helicopter drone. By conducting frequent, low-altitude flights BPAR can produce VNIR imaging spectroscopy time series with measurements separated by minutes to hours at ground sample distances of 1 cm. The talk will focus on how measurements of SIF at these spatial and temporal scales can be coupled with models to infer the rate of electron transport and carbon assimilation.

  16. Quantifying UK emissions of carbon dioxide using an integrative measurement strategy

    NASA Astrophysics Data System (ADS)

    Gonzi, S.; Palmer, P.

    2015-12-01

    The main objective of the Greenhouse gAs Uk and Global Emissions (GAUGE) programme is to quantify the magnitude and uncertainty of CO2, CH4 and N2O fluxes from the UK. GAUGE builds on the tall tower network established by the UK Government to estimate fluxes from England, Northern Ireland, Scotland, and Wales. The GAUGE measurement programme includes two additional tall tower sites (one in North Yorkshire and one downwind of London); regular measurements of CO2 and CH4 isotopologues; instrumentation installed on a ferry that travels daily along the eastern coast of the UK from Scotland to Belgium; a research aircraft that has been deployed on a campaign basis; and a high-density network over East Anglia that is primarily focused on the agricultural sector. We have also included satellite observations from the Japanese Greenhouse gases Observing SATellite (GOSAT) through ongoing activities within the UK National Centre for Earth Observation. In this presentation, we will present new CO2 flux estimates for the UK inferred from GAUGE measurements using a nested, high-resolution (25 km) version of the GEOS-Chem atmospheric transport model and an ensemble Kalman filter. We will present our current best estimate for CO2 fluxes and a preliminary assessment of the efficacy of individual GAUGE data sources to spatially resolve CO2 flux estimates over the UK. We will also discuss how flux estimates inferred from the different models used within GAUGE can help to assess the role of transport model error and to determine an ensemble CO2 flux estimate for the UK.

  17. Lidar based vegetation height models to quantify carbon stocks in Galveston saltmarshes

    NASA Astrophysics Data System (ADS)

    Kulawardhana, R. W.; Popescu, S. C.; Feagin, R. A.

    2012-12-01

    Concern over global climate change has stimulated much interest in identifying existing and potential carbon sinks. Wetland ecosystems are highly recognized for their high productivity and thus as major terrestrial carbon (C) sinks. The rapid decline in the extent and health of these wetland ecosystems has created a need for non-destructive methods for the study of their C dynamics. However, these biomass estimates are mostly based on vegetation structural properties, particularly based on vegetation height models. Hence, for better quantification of vegetation biomass and C estimates, the accuracy of vegetation height models derived using lidar data is of paramount importance. Yet, unlike in woody vegetation dominated ecosystems, the use of lidar in saltmarshes is limited due to several reasons: 1) relatively dense vegetation cover limits laser penetration affecting the accuracy of terrain and thus vegetation height estimates; and 2) relatively shorter vegetation demands high point density data with high vertical accuracy to capture relatively smaller differences between terrain and vegetation canopy surfaces. Thus, the use of lidar data to characterize saltmarsh vegetation community demands appropriate methodologies. Our overall objective in this study was to develop a methodology for deriving salt marsh vegetation height models using airborne lidar data. More specific objectives involved: (1) understanding the interaction between discrete-return airborne lidar data and marsh vegetation; (2) finding appropriate grid sizes for deriving terrain and vegetation height models; and (3) analyze lidar-derived surface accuracies by comparing estimates to field measurements. In this study, we used 1m point spacing airborne lidar data from Federal Emergency Management Agency (FEMA) program to derive vegetation height models (VHM) for Spartina alterniflora saltmarshes in Galveston, Texas. We first derived digital terrain models (DEMs) and verified their vertical accuracy

  18. Quantifying soil carbon accumulation in Alaskan terrestrial ecosystems during the last 15 000 years

    DOE PAGES

    Wang, Sirui; Zhuang, Qianlai; Yu, Zicheng

    2016-11-25

    Northern high latitudes contain large amounts of soil organic carbon (SOC), of which Alaskan terrestrial ecosystems account for a substantial proportion. In this study, the SOC accumulation in Alaskan terrestrial ecosystems over the last 15 000 years was simulated using a process-based biogeochemistry model for both peatland and non-peatland ecosystems. Comparable with the previous estimates of 25–70 Pg C in peatland and 13–22 Pg C in non-peatland soils within 1 m depth in Alaska using peat-core data, our model estimated a total SOC of 36–63 Pg C at present, including 27–48 Pg C in peatland soils and 9–15 Pg C in non-peatland soils. Current vegetation stored 2.5–3.7 Pg C in Alaska, with 0.3–0.6 Pg C in peatlandsmore » and 2.2–3.1 Pg C in non-peatlands. The simulated average rate of peat C accumulation was 2.3 Tg C yr−1, with a peak value of 5.1 Tg C yr−1 during the Holocene Thermal Maximum (HTM) in the early Holocene, 4-fold higher than the average rate of 1.4 Tg C yr−1 over the rest of the Holocene. The SOC accumulation slowed down, or even ceased, during the neoglacial climate cooling after the mid-Holocene, but increased again in the 20th century. The model-estimated peat depths ranged from 1.1 to 2.7 m, similar to the field-based estimate of 2.29 m for the region. We found that the changes in vegetation and their distributions were the main factors in determining the spatial variations of SOC accumulation during different time periods. Warmer summer temperature and stronger radiation seasonality, along with higher precipitation in the HTM and the 20th century, might have resulted in the extensive peatland expansion and carbon accumulation.« less

  19. A conceptual framework to quantify the influence of convective boundary layer development on carbon dioxide mixing ratios

    NASA Astrophysics Data System (ADS)

    Pino, D.; Vilà-Guerau de Arellano, J.; Peters, W.; Schroter, J.; van Heerwaarden, C. C.; Krol, M.

    2011-12-01

    Interpretation of observed diurnal carbon dioxide (CO2) mixing ratios near the surface requires knowledge of the local dynamics of the planetary boundary layer. In this paper, we quantify the relationship between the boundary layer dynamics and the CO2 budget in convective conditions through a newly derived set of analytical equations. From these equations, we are able to quantify how uncertainties in boundary layer dynamical variables or in the morning CO2 distribution in the mixed-layer or in the free atmosphere influence the bulk CO2 mixing ratio. We find that the largest uncertainty incurred on the mid-day CO2 mixing ratio comes from the prescribed early morning CO2 mixing ratios in the stable boundary layer, and in the free atmosphere. Errors in these values influence CO2 mixing ratios inversely proportional to the boundary layer depth (h), just like uncertainties in the assumed initial boundary layer depth and surface CO2 flux. The influence of uncertainties in the boundary layer depth itself are one order of magnitude smaller. If we "invert" the problem and calculate CO2 surface exchange from observed or simulated CO2 mixing ratios, the sensitivities to errors in boundary layer dynamics also invert: they become linearly proportional to the boundary layer depth. We demonstrate these relations for a typical well characterized situation at the Cabauw tower in the Netherlands, and conclude that knowledge of the temperature and carbon dioxide vertical profiles in the early morning are of vital importance to correctly interpret observed CO2 mixing ratios during midday.

  20. The Majority of Free-Living Autotrophic Bacteria use the Reductive TCA Cycle for Carbon Fixation at Deep-Sea Hydrothermal Vents

    NASA Astrophysics Data System (ADS)

    Campbell, B. J.; Cary, C.

    2003-12-01

    Deep-sea hydrothermal vents support large micro and macroscopic communities, without the input of photosynthesis. Autotrophic production at these vents is based on hydrothermal vent fluid chemistry. Primary production has been thought to occur mainly via hydrogen sulfide oxidation through the Calvin-Benson pathway, as measured by the presence of Rubisco in endosymbionts of several invertebrate hosts. Recently, we characterized two fosmids from a large insert library of the epsilon Proteobacterial episymbionts of Alvinella pompejana. Both contained sequences encoding ATP citrate lyase, a key enzyme in the reverse TCA cycle, an alternate carbon dioxide fixation pathway. Previous investigators have demonstrated the dominance of the epsilon subdivision in the free-living bacterial communities at hydrothermal vents. Based on these results, our working hypothesis is: The rTCA cycle is the dominant pathway for carbon fixation in the free-living bacterial communities at hydrothermal vents. A selection of free-living bacterial communities from various geographic locations (9N, East Pacific Rise and Guaymas Basin) were screened for the presence, diversity and expression (via RT-PCR) of Rubisco (forms I and II) and ATP citrate lyase. Our results indicate that the ATP citrate lyase gene is diverse and is consistently expressed in several types of vent communities. The two forms of Rubisco are not consistently present or expressed in the same environments. These results indicate that chemoautotrophic production in the free-living bacterial communities at deep-sea hydrothermal vents is dominated by bacteria that utilize the rTCA cycle, and parallels the phylogenetic dominance of members of the epsilon subdivision of Proteobacteria.

  1. De Novo Transcriptome Analysis of an Aerial Microalga Trentepohlia jolithus: Pathway Description and Gene Discovery for Carbon Fixation and Carotenoid Biosynthesis

    PubMed Central

    Li, Qianqian; Liu, Jianguo; Zhang, Litao; Liu, Qian

    2014-01-01

    Background Algae in the order Trentepohliales have a broad geographic distribution and are generally characterized by the presence of abundant β-carotene. The many monographs published to date have mainly focused on their morphology, taxonomy, phylogeny, distribution and reproduction; molecular studies of this order are still rare. High-throughput RNA sequencing (RNA-Seq) technology provides a powerful and efficient method for transcript analysis and gene discovery in Trentepohlia jolithus. Methods/Principal Findings Illumina HiSeq 2000 sequencing generated 55,007,830 Illumina PE raw reads, which were assembled into 41,328 assembled unigenes. Based on NR annotation, 53.28% of the unigenes (22,018) could be assigned to gene ontology classes with 54 subcategories and 161,451 functional terms. A total of 26,217 (63.44%) assembled unigenes were mapped to 128 KEGG pathways. Furthermore, a set of 5,798 SSRs in 5,206 unigenes and 131,478 putative SNPs were identified. Moreover, the fact that all of the C4 photosynthesis genes exist in T. jolithus suggests a complex carbon acquisition and fixation system. Similarities and differences between T. jolithus and other algae in carotenoid biosynthesis are also described in depth. Conclusions/Significance This is the first broad transcriptome survey for T. jolithus, increasing the amount of molecular data available for the class Ulvophyceae. As well as providing resources for functional genomics studies, the functional genes and putative pathways identified here will contribute to a better understanding of carbon fixation and fatty acid and carotenoid biosynthesis in T. jolithus. PMID:25254555

  2. Preferential remineralization of dissolved organic phosphorus and non-Redfield DOM dynamics in the global ocean: Impacts on marine productivity, nitrogen fixation, and carbon export

    NASA Astrophysics Data System (ADS)

    Letscher, Robert T.; Moore, J. Keith

    2015-03-01

    Selective removal of nitrogen (N) and phosphorus (P) from the marine dissolved organic matter (DOM) pool has been reported in several regional studies. Because DOM is an important advective/mixing pathway of carbon (C) export from the ocean surface layer and its non-Redfieldian stoichiometry would affect estimates of marine export production per unit N and P, we investigated the stoichiometry of marine DOM and its remineralization globally using a compiled DOM data set. Marine DOM is enriched in C and N compared to Redfield stoichiometry, averaging 317:39:1 and 810:48:1 for C:N:P within the degradable and total bulk pools, respectively. Dissolved organic phosphorus (DOP) is found to be preferentially remineralized about twice as rapidly with respect to the enriched C:N stoichiometry of marine DOM. Biogeochemical simulations with the Biogeochemical Elemental Cycling model using Redfield and variable DOM stoichiometry corroborate the need for non-Redfield dynamics to match the observed DOM stoichiometry. From our model simulations, preferential DOP remineralization is found to increase the strength of the biological pump by ~9% versus the case of Redfield DOM cycling. Global net primary productivity increases ~10% including an increase in marine nitrogen fixation of ~26% when preferential DOP remineralization and direct utilization of DOP by phytoplankton are included. The largest increases in marine nitrogen fixation, net primary productivity, and carbon export are observed within the western subtropical gyres, suggesting the lateral transfer of P in the form of DOP from the productive eastern and poleward gyre margins may be important for sustaining these processes downstream in the subtropical gyres.

  3. Quantifying understorey vegetation in the US Lake States: a proposed framework to inform regional forest carbon stocks

    USGS Publications Warehouse

    Russell, Matthew B.; D'Amato, Anthony W.; Schulz, Bethany K.; Woodall, Christopher W.; Domke, Grant M.; Bradford, John B.

    2014-01-01

    The contribution of understorey vegetation (UVEG) to forest ecosystem biomass and carbon (C) across diverse forest types has, to date, eluded quantification at regional and national scales. Efforts to quantify UVEG C have been limited to field-intensive studies or broad-scale modelling approaches lacking field measurements. Although large-scale inventories of UVEG C are not common, species- and community-level inventories of vegetation structure are available and may prove useful in quantifying UVEG C stocks. This analysis developed a general framework for estimating UVEG C stocks by employing per cent cover estimates of UVEG from a region-wide forest inventory coupled with an estimate of maximum UVEG C across the US Lake States (i.e. Michigan, Minnesota and Wisconsin). Estimates of UVEG C stocks from this approach reasonably align with expected C stocks in the study region, ranging from 0.86 ± 0.06 Mg ha-1 in red pine-dominated to 1.59 ± 0.06 Mg ha-1 for aspen/birch-dominated forest types. Although the data employed here were originally collected to assess broad-scale forest structure and diversity, this study proposes a framework for using UVEG inventories as a foundation for estimating C stocks in an often overlooked, yet important ecosystem C pool.

  4. Toward Quantifying the Electrostatic Transduction Mechanism in Carbon Nanotube Biomolecular Sensors

    NASA Astrophysics Data System (ADS)

    Lerner, Mitchell; Kybert, Nicholas; Mendoza, Ryan; Dailey, Jennifer; Johnson, A. T. Charlie

    2013-03-01

    Despite the great promise of carbon nanotube field-effect transistors (CNT FETs) for applications in chemical and biochemical detection, a quantitative understanding of sensor responses is lacking. To explore the role of electrostatics in sensor transduction, experiments were conducted with a set of similar compounds designed to adsorb onto the CNT FET via a pyrene linker group and take on a set of known charge states under ambient conditions. Acidic and basic species were observed to induce threshold voltage shifts of opposite sign, consistent with gating of the CNT FET by local charges due to protonation or deprotonation of the pyrene compounds by interfacial water. The magnitude of the gate voltage shift was controlled by the distance between the charged group and the CNT. Additionally, functionalization with an uncharged pyrene compound showed a threshold shift ascribed to its molecular dipole moment. This work illustrates a method for producing CNT FETs with controlled values of the turnoff gate voltage, and more generally, these results will inform the development of quantitative models for the response of CNT FET chemical and biochemical sensors. As an example, the results of an experiment detecting biomarkers of Lyme disease will be discussed in the context of this model.

  5. Quantifying component diversities along temporal and geographic gradients in Cenozoic circumalpine carbonates

    NASA Astrophysics Data System (ADS)

    Nebelsick, James; Bassi, Davide; Nitsch, Florian; Grun, Tobias

    2016-04-01

    This study explores the component relationships within indurated carbonates which can dominate sedimentary sequence. The data for the analysis is gained by point counting of numerous thin sections. Resolution of component identification is dependent on various factors including the presence and recognition of taxon specific character in the two dimensions available in thin sections; the microtaphofacies of the environment of deposition and component architectures determine fragmentation, abrasion, encrustation and bioerosion rates as well as diagenetic pathways. The highest taxonomic resolution is reached by coralline algae and larger foraminifera which are indentified using characters derived from thin sections. Multivariate analysis (MDS, Cluster analysis) is used to component distributions within and between facies as well as localities. Component relationships, in part directly deduced within encrustation sequences, are explored using bivariate analysis. Studied thin sections originate from detailed studies of localities both north (Southern Germany, Austria) and south (Northern Italy, Slovenia) and of the Alps. Detailed facies analysis, itself often based on statistical analysis of components, show variations in environmental factors at different scales including local shelf gradients and terrigenous influx, regional paleogeographic developments within the Mediterranean Tethys and Paratethys as well as global climatic change during the Oligocene and crossing into the Miocene. The localities differ in the diversity and abundance of a wide variety of components including coralline algae, smaller and larger benthic foraminifera, corals, bryozoans, barnacles and echinoderms among others. Generic and species identification of both coralline algae and larger foraminiferal taxa allow taxonomic gradients to be established.

  6. Quantifying tropical peatland dissolved organic carbon (DOC) using UV-visible spectroscopy.

    PubMed

    Cook, Sarah; Peacock, Mike; Evans, Chris D; Page, Susan E; Whelan, Mick J; Gauci, Vincent; Kho, Lip Khoon

    2017-02-27

    UV-visible spectroscopy has been shown to be a useful technique for determining dissolved organic carbon (DOC) concentrations. However, at present we are unaware of any studies in the literature that have investigated the suitability of this approach for tropical DOC water samples from any tropical peatlands, although some work has been performed in other tropical environments. We used water samples from two oil palm estates in Sarawak, Malaysia to: i) investigate the suitability of both single and two-wavelength proxies for tropical DOC determination; ii) develop a calibration dataset and set of parameters to calculate DOC concentrations indirectly; iii) provide tropical researchers with guidance on the best spectrophotometric approaches to use in future analyses of DOC. Both single and two-wavelength model approaches performed well with no one model significantly outperforming the other. The predictive ability of the models suggests that UV-visible spectroscopy is both a viable and low cost method for rapidly analyzing DOC in water samples immediately post-collection, which can be important when working at remote field sites with access to only basic laboratory facilities.

  7. Quantifying the sampling error in tree census measurements by volunteers and its effect on carbon stock estimates.

    PubMed

    Butt, Nathalie; Slade, Eleanor; Thompson, Jill; Malhi, Yadvinder; Riutta, Terhi

    2013-06-01

    A typical way to quantify aboveground carbon in forests is to measure tree diameters and use species-specific allometric equations to estimate biomass and carbon stocks. Using "citizen scientists" to collect data that are usually time-consuming and labor-intensive can play a valuable role in ecological research. However, data validation, such as establishing the sampling error in volunteer measurements, is a crucial, but little studied, part of utilizing citizen science data. The aims of this study were to (1) evaluate the quality of tree diameter and height measurements carried out by volunteers compared to expert scientists and (2) estimate how sensitive carbon stock estimates are to these measurement sampling errors. Using all diameter data measured with a diameter tape, the volunteer mean sampling error (difference between repeated measurements of the same stem) was 9.9 mm, and the expert sampling error was 1.8 mm. Excluding those sampling errors > 1 cm, the mean sampling errors were 2.3 mm (volunteers) and 1.4 mm (experts) (this excluded 14% [volunteer] and 3% [expert] of the data). The sampling error in diameter measurements had a small effect on the biomass estimates of the plots: a volunteer (expert) diameter sampling error of 2.3 mm (1.4 mm) translated into 1.7% (0.9%) change in the biomass estimates calculated from species-specific allometric equations based upon diameter. Height sampling error had a dependent relationship with tree height. Including height measurements in biomass calculations compounded the sampling error markedly; the impact of volunteer sampling error on biomass estimates was +/- 15%, and the expert range was +/- 9%. Using dendrometer bands, used to measure growth rates, we calculated that the volunteer (vs. expert) sampling error was 0.6 mm (vs. 0.3 mm), which is equivalent to a difference in carbon storage of +/- 0.011 kg C/yr (vs. +/- 0.002 kg C/yr) per stem. Using a citizen science model for monitoring carbon stocks not only has

  8. Quantifying the effects of harvesting on carbon fluxes and stocks in northern temperate forests

    NASA Astrophysics Data System (ADS)

    Wang, W.; Xiao, J.; Ollinger, S. V.; Desai, A. R.; Chen, J.; Noormets, A.

    2014-12-01

    Harvest disturbance has substantial impacts on forest carbon (C) fluxes and stocks. The quantification of these effects is essential for the better understanding of forest C dynamics and informing forest management in the context of global change. We used a process-based forest ecosystem model, PnET-CN, to evaluate how, and by what mechanisms, clear-cuts alter ecosystem C fluxes, aboveground C stocks (AGC), and leaf area index (LAI) in northern temperate forests. We compared C fluxes and stocks predicted by the model and observed at two chronosequences of eddy covariance flux sites for deciduous broadleaf forests (DBF) and evergreen needleleaf forests (ENF) in the Upper Midwest region of northern Wisconsin and Michigan, USA. The average normalized root mean square error (NRMSE) and the Willmott index of agreement (d) for carbon fluxes, LAI, and AGC in the two chronosequences were 20% and 0.90, respectively. Simulated gross primary productivity (GPP) increased with stand age, reaching a maximum (1200-1500 g C m-2 yr-1) at 11-30 years of age, and leveled off thereafter (900-1000 g C m-2 yr-1). Simulated ecosystem respiration (ER) for both plant functional types (PFTs) was initially as high as 700-1000 g C m-2 yr-1 in the first or second year after harvesting, decreased with age (400-800 g C m-2 yr-1) before canopy closure at 10-25 years of age, and increased to 800-900 g C m-2 yr-1 with stand development after canopy recovery. Simulated net ecosystem productivity (NEP) for both PFTs was initially negative, with net C losses of 400-700 g C m-2 yr-1 for 6-17 years after clear-cuts, reaching peak values of 400-600 g C m-2 yr-1 at 14-29 years of age, and eventually stabilizing in mature forests (> 60 years old), with a weak C sink (100-200 g C m-2 yr-1). The decline of NEP with age was caused by the relative flattening of GPP and gradual increase of ER. ENF recovered more slowly from a net C source to a net sink, and lost more C than DBF. This suggests that in general

  9. Evaluation of Three Field-Based Methods for Quantifying Soil Carbon

    PubMed Central

    Izaurralde, Roberto C.; Rice, Charles W.; Wielopolski, Lucian; Ebinger, Michael H.; Reeves, James B.; Thomson, Allison M.; Francis, Barry; Mitra, Sudeep; Rappaport, Aaron G.; Etchevers, Jorge D.; Sayre, Kenneth D.; Govaerts, Bram; McCarty, Gregory W.

    2013-01-01

    Three advanced technologies to measure soil carbon (C) density (g C m−2) are deployed in the field and the results compared against those obtained by the dry combustion (DC) method. The advanced methods are: a) Laser Induced Breakdown Spectroscopy (LIBS), b) Diffuse Reflectance Fourier Transform Infrared Spectroscopy (DRIFTS), and c) Inelastic Neutron Scattering (INS). The measurements and soil samples were acquired at Beltsville, MD, USA and at Centro International para el Mejoramiento del Maíz y el Trigo (CIMMYT) at El Batán, Mexico. At Beltsville, soil samples were extracted at three depth intervals (0–5, 5–15, and 15–30 cm) and processed for analysis in the field with the LIBS and DRIFTS instruments. The INS instrument determined soil C density to a depth of 30 cm via scanning and stationary measurements. Subsequently, soil core samples were analyzed in the laboratory for soil bulk density (kg m−3), C concentration (g kg−1) by DC, and results reported as soil C density (kg m−2). Results from each technique were derived independently and contributed to a blind test against results from the reference (DC) method. A similar procedure was employed at CIMMYT in Mexico employing but only with the LIBS and DRIFTS instruments. Following conversion to common units, we found that the LIBS, DRIFTS, and INS results can be compared directly with those obtained by the DC method. The first two methods and the standard DC require soil sampling and need soil bulk density information to convert soil C concentrations to soil C densities while the INS method does not require soil sampling. We conclude that, in comparison with the DC method, the three instruments (a) showed acceptable performances although further work is needed to improve calibration techniques and (b) demonstrated their portability and their capacity to perform under field conditions. PMID:23383225

  10. Evaluation of Three Field-Based Methods for Quantifying Soil Carbon

    SciTech Connect

    Izaurralde, Roberto C.; Rice, Charles W.; Wielopolski, Lucien; Ebinger, Michael H.; Reeves, James B.; Thomson, Allison M.; Harris, Ron; Francis, Barry; Mitra, S.; Rappaport, Aaron; Etchevers, Jorge; Sayre, Ken D.; Govaerts, Bram; McCarty, G. W.

    2013-01-31

    Three advanced technologies to measure soil carbon (C) density (g C m22) are deployed in the field and the results compared against those obtained by the dry combustion (DC) method. The advanced methods are: a) Laser Induced Breakdown Spectroscopy (LIBS), b) Diffuse Reflectance Fourier Transform Infrared Spectroscopy (DRIFTS), and c) Inelastic Neutron Scattering (INS). The measurements and soil samples were acquired at Beltsville, MD, USA and at Centro International para el Mejoramiento del Maiz y el Trigo (CIMMYT) at El Bata´n, Mexico. At Beltsville, soil samples were extracted at three depth intervals (0–5, 5–15, and 15–30 cm) and processed for analysis in the field with the LIBS and DRIFTS instruments. The INS instrument determined soil C density to a depth of 30 cm via scanning and stationary measurements. Subsequently, soil core samples were analyzed in the laboratory for soil bulk density (kg m23), C concentration (g kg21) by DC, and results reported as soil C density (kg m22). Results from each technique were derived independently and contributed to a blind test against results from the reference (DC) method. A similar procedure was employed at CIMMYT in Mexico employing but only with the LIBS and DRIFTS instruments. Following conversion to common units, we found that the LIBS, DRIFTS, and INS results can be compared directly with those obtained by the DC method. The first two methods and the standard DC require soil sampling and need soil bulk density information to convert soil C concentrations to soil C densities while the INS method does not require soil sampling. We conclude that, in comparison with the DC method, the three instruments (a) showed acceptable performances although further work is needed to improve calibration techniques and (b) demonstrated their portability and their capacity to perform under field conditions.

  11. Evaluation of three field-based methods for quantifying soil carbon.

    PubMed

    Izaurralde, Roberto C; Rice, Charles W; Wielopolski, Lucian; Ebinger, Michael H; Reeves, James B; Thomson, Allison M; Harris, Ronny; Francis, Barry; Mitra, Sudeep; Rappaport, Aaron G; Etchevers, Jorge D; Sayre, Kenneth D; Govaerts, Bram; McCarty, Gregory W

    2013-01-01

    Three advanced technologies to measure soil carbon (C) density (g C m(-2)) are deployed in the field and the results compared against those obtained by the dry combustion (DC) method. The advanced methods are: a) Laser Induced Breakdown Spectroscopy (LIBS), b) Diffuse Reflectance Fourier Transform Infrared Spectroscopy (DRIFTS), and c) Inelastic Neutron Scattering (INS). The measurements and soil samples were acquired at Beltsville, MD, USA and at Centro International para el Mejoramiento del Maíz y el Trigo (CIMMYT) at El Batán, Mexico. At Beltsville, soil samples were extracted at three depth intervals (0-5, 5-15, and 15-30 cm) and processed for analysis in the field with the LIBS and DRIFTS instruments. The INS instrument determined soil C density to a depth of 30 cm via scanning and stationary measurements. Subsequently, soil core samples were analyzed in the laboratory for soil bulk density (kg m(-3)), C concentration (g kg(-1)) by DC, and results reported as soil C density (kg m(-2)). Results from each technique were derived independently and contributed to a blind test against results from the reference (DC) method. A similar procedure was employed at CIMMYT in Mexico employing but only with the LIBS and DRIFTS instruments. Following conversion to common units, we found that the LIBS, DRIFTS, and INS results can be compared directly with those obtained by the DC method. The first two methods and the standard DC require soil sampling and need soil bulk density information to convert soil C concentrations to soil C densities while the INS method does not require soil sampling. We conclude that, in comparison with the DC method, the three instruments (a) showed acceptable performances although further work is needed to improve calibration techniques and (b) demonstrated their portability and their capacity to perform under field conditions.

  12. Quantifying Grassland-to-Woodland Transitions and the Implications for Carbon and Nitrogen Dynamics in the Southwest United States

    NASA Technical Reports Server (NTRS)

    Wessman, Carol A.; Archer, Steven R.; Asner, Gregory P.; Bateson, C. Ann

    2004-01-01

    Replacement of grasslands and savannas by shrublands and woodlands has been widely reported in tropical, temperate and high-latitude rangelands worldwide (Archer 1994). These changes in vegetation structure may reflect historical shifts in climate and land use; and are likely to influence biodiversity, productivity, above- and below ground carbon and nitrogen sequestration and biophysical aspects of land surface-atmosphere interactions. The goal of our proposed research is to investigate how changes in the relative abundance of herbaceous and woody vegetation affect carbon and nitrogen dynamics across heterogeneous savannas and shrub/woodlands. By linking actual land-cover composition (derived through spectral mixture analysis of AVIRIS, TM, and AVHRR imagery) with a process-based ecosystem model, we will generate explicit predictions of the C and N storage in plants and soils resulting from changes in vegetation structure. Our specific objectives will be to (1) continue development and test applications of spectral mixture analysis across grassland-to-woodland transitions; (2) quantify temporal changes in plant and soil C and N storage and turnover for remote sensing and process model parameterization and verification; and (3) couple landscape fraction maps to an ecosystem simulation model to observe biogeochemical dynamics under changing landscape structure and climatological forcings.

  13. Quantifying Black Carbon emissions in high northern latitudes using an Atmospheric Bayesian Inversion

    NASA Astrophysics Data System (ADS)

    Evangeliou, Nikolaos; Thompson, Rona; Stohl, Andreas; Shevchenko, Vladimir P.

    2016-04-01

    Black carbon (BC) is the main light absorbing aerosol species and it has important impacts on air quality, weather and climate. The major source of BC is incomplete combustion of fossil fuels and the burning of biomass or bio-fuels (soot). Therefore, to understand to what extent BC affects climate change and pollutant dynamics, accurate knowledge of the emissions, distribution and variation of BC is required. Most commonly, BC emission inventory datasets are built by "bottom up" approaches based on activity data and emissions factors, but these methods are considered to have large uncertainty (Cao et al, 2006). In this study, we have used a Bayesian Inversion to estimate spatially resolved BC emissions. Emissions are estimated monthly for 2014 and over the domain from 180°W to 180°E and 50°N to 90°N. Atmospheric transport is modeled using the Lagrangian Particle Dispersion Model, FLEXPART (Stohl et al., 1998; 2005), and the inversion framework, FLEXINVERT, developed by Thompson and Stohl, (2014). The study domain is of particular interest concerning the identification and estimation of BC sources. In contrast to Europe and North America, where BC sources are comparatively well documented as a result of intense monitoring, only one station recording BC concentrations exists in the whole of Siberia. In addition, emissions from gas flaring by the oil industry have been geographically misplaced in most emission inventories and may be an important source of BC at high latitudes since a significant proportion of the total gas flared occurs at these high latitudes (Stohl et al., 2013). Our results show large differences with the existing BC inventories, whereas the estimated fluxes improve modeled BC concentrations with respect to observations. References Cao, G. et al. Atmos. Environ., 40, 6516-6527, 2006. Stohl, A. et al. Atmos. Environ., 32(24), 4245-4264, 1998. Stohl, A. et al. Atmos. Chem. Phys., 5(9), 2461-2474, 2005. Stohl, A. et al. Atmos. Chem. Phys., 13

  14. Integration of metagenomic and stable carbon isotope evidence reveals the extent and mechanisms of carbon dioxide fixation in high-temperature microbial communities

    DOE PAGES

    Jennings, Ryan de Montmollin; Moran, James J.; Jay, Zackary J.; ...

    2017-02-03

    Biological fixation of CO2 is the primary mechanism of C reduction in natural systems, and provides a diverse suite of organic compounds utilized by chemoorganoheterotrophs. The extent and mechanisms of CO2 fixation were evaluated across a comprehensive set of high-temperature, chemotrophic microbial communities in Yellowstone National Park by combining metagenomic and stable 13C isotope analyses. Fifteen geothermal sites representing three distinct habitat types (iron-oxide mats, anoxic sulfur sediments, and filamentous ‘streamer’ communities) were investigated. Genes of the 3-hydroxypropionate/4-hydroxybutyrate, dicarboxylate/4-hydroxybutyrate, and reverse tricarboxylic acid CO2 fixation pathways were identified in assembled genome sequence corresponding to the predominant Crenarchaeota and Aquificales observedmore » across this habitat range. Stable 13C analyses of dissolved inorganic and organic C (DIC, DOC), and possible landscape C sources were used to interpret the 13C content of microbial community samples. Isotope mixing models showed that the minimum amounts of autotrophic C in microbial biomass were > 50 % in the majority of communities analyzed, but were also dependent on the amounts of heterotrophy and/or accumulation of landscape C. Furthermore, the significance of CO2 as a C source in these communities provides a foundation for understanding metabolic linkages among autotrophs and heterotrophs, community assembly and succession, and the likely coevolution of deeply-branching thermophiles.« less

  15. Quantifying pyroconvective injection heights using observations of fire energy: sensitivity of spaceborne observations of carbon monoxide

    NASA Astrophysics Data System (ADS)

    Gonzi, S.; Palmer, P. I.; Paugam, R.; Wooster, M.; Deeter, M. N.

    2015-04-01

    We use observations of active fire area and fire radiative power (FRP) from the NASA Moderate Resolution Imaging Spectroradiometers (MODIS), together with a parameterized plume rise model, to estimate biomass burning injection heights during 2006. We use these injection heights in the GEOS-Chem (Goddard Earth Observing System Chemistry) atmospheric chemistry transport model to vertically distribute biomass burning emissions of carbon monoxide (CO) and to study the resulting atmospheric distribution. For 2006, we use over half a million FRP and fire area observations as input to the plume rise model. We find that convective heat fluxes and active fire area typically lie in the range of 1-100 kW m-2 and 0.001-100 ha, respectively, although in rare circumstances the convective heat flux can exceed 500 kW m-2. The resulting injection heights have a skewed probability distribution with approximately 80% of the injections remaining within the local boundary layer (BL), with occasional injection height exceeding 8 km. We do not find a strong correlation between the FRP-inferred surface convective heat flux and the resulting injection height, with environmental conditions often acting as a barrier to rapid vertical mixing even where the convective heat flux and active fire area are large. We also do not find a robust relationship between the underlying burnt vegetation type and the injection height. We find that CO columns calculated using the MODIS-inferred injection height (MODIS-INJ) are typically -9 to +6% different to the control calculation in which emissions are emitted into the BL, with differences typically largest over the point of emission. After applying MOPITT (Measurement of Pollution in the Troposphere) v5 scene-dependent averaging kernels we find that we are much less sensitive to our choice of injection height profile. The differences between the MOPITT and the model CO columns (max bias ~ 50%), due largely to uncertainties in emission inventories, are

  16. Enantioselective small molecule synthesis by carbon dioxide fixation using a dual Brønsted acid/base organocatalyst.

    PubMed

    Vara, Brandon A; Struble, Thomas J; Wang, Weiwei; Dobish, Mark C; Johnston, Jeffrey N

    2015-06-17

    Carbon dioxide exhibits many of the qualities of an ideal reagent: it is nontoxic, plentiful, and inexpensive. Unlike other gaseous reagents, however, it has found limited use in enantioselective synthesis. Moreover, unprecedented is a tool that merges one of the simplest biological approaches to catalysis-Brønsted acid/base activation-with this abundant reagent. We describe a metal-free small molecule catalyst that achieves the three component reaction between a homoallylic alcohol, carbon dioxide, and an electrophilic source of iodine. Cyclic carbonates are formed enantioselectively.

  17. Methanotrophy induces nitrogen fixation during peatland development.

    PubMed

    Larmola, Tuula; Leppänen, Sanna M; Tuittila, Eeva-Stiina; Aarva, Maija; Merilä, Päivi; Fritze, Hannu; Tiirola, Marja

    2014-01-14

    Nitrogen (N) accumulation rates in peatland ecosystems indicate significant biological atmospheric N2 fixation associated with Sphagnum mosses. Here, we show that the linkage between methanotrophic carbon cycling and N2 fixation may constitute an important mechanism in the rapid accumulation of N during the primary succession of peatlands. In our experimental stable isotope enrichment study, previously overlooked methane-induced N2 fixation explained more than one-third of the new N input in the younger peatland stages, where the highest N2 fixation rates and highest methane oxidation activities co-occurred in the water-submerged moss vegetation.

  18. Methanotrophy induces nitrogen fixation during peatland development

    PubMed Central

    Larmola, Tuula; Leppänen, Sanna M.; Tuittila, Eeva-Stiina; Aarva, Maija; Merilä, Päivi; Fritze, Hannu; Tiirola, Marja

    2014-01-01

    Nitrogen (N) accumulation rates in peatland ecosystems indicate significant biological atmospheric N2 fixation associated with Sphagnum mosses. Here, we show that the linkage between methanotrophic carbon cycling and N2 fixation may constitute an important mechanism in the rapid accumulation of N during the primary succession of peatlands. In our experimental stable isotope enrichment study, previously overlooked methane-induced N2 fixation explained more than one-third of the new N input in the younger peatland stages, where the highest N2 fixation rates and highest methane oxidation activities co-occurred in the water-submerged moss vegetation. PMID:24379382

  19. Zonal and meridional patterns of phytoplankton biomass and carbon fixation in the Equatorial Pacific Ocean, between 110°W and 140°W

    NASA Astrophysics Data System (ADS)

    Balch, W. M.; Poulton, A. J.; Drapeau, D. T.; Bowler, B. C.; Windecker, L. A.; Booth, E. S.

    2011-03-01

    Primary production (P prim) and calcification (C calc) were measured in the eastern and central Equatorial Pacific during December 2004 and September 2005, between 110°W and 140°W. The design of the field sampling allowed partitioning of P prim and total chlorophyll a (B) between large (>3 μm) and small (0.45-3 μm) phytoplankton cells. The station locations allowed discrimination of meridional and zonal patterns. The cruises coincided with a warm El Niño Southern Oscillation (ENSO) phase and ENSO-neutral phase, respectively, which proved to be the major factors relating to the patterns of productivity. Production and biomass of large phytoplankton generally covaried with that of small cells; large cells typically accounted for 20-30% of B and 20% of P prim. Elevated biomass and primary production of all size fractions were highest along the equator as well as at the convergence zone between the North Equatorial Counter Current and the South Equatorial Current. C calc by >0.4 μm cells was 2-3% of P prim by the same size fraction, for both cruises. Biomass-normalized P prim values were, on average, slightly higher during the warm-phase ENSO period, inconsistent with a "bottom-up" control mechanism (such as nutrient supply). Another source of variability along the equator was Tropical Instability Waves (TIWs). Zonal variance in integrated phytoplankton biomass (along the equator, between 110° and 140°) was almost the same as the meridional variance across it (between 4° N and 4° S). However, the zonal variance in integrated P prim was half the variance observed meridionally. The variance in integrated C calc along the equator was half that seen meridionally during the warm ENSO phase cruise whereas during the ENSO-neutral period, it was identical. No relation could be observed between the patterns of integrated carbon fixation (P prim or C calc) and integrated nutrients (nitrate, ammonium, silicate or dissolved iron). This suggests that the factors

  20. A conceptual framework to quantify the influence of convective boundary layer development on carbon dioxide mixing ratios

    NASA Astrophysics Data System (ADS)

    Pino, D.; Vilà-Guerau de Arellano, J.; Peters, W.; Schröter, J.; van Heerwaarden, C. C.; Krol, M. C.

    2012-03-01

    Interpretation of observed diurnal carbon dioxide (CO2) mixing ratios near the surface requires knowledge of the local dynamics of the planetary boundary layer. In this paper, we study the relationship between the boundary layer dynamics and the CO2 budget in convective conditions through a newly derived set of analytical equations. From these equations, we are able to quantify how uncertainties in boundary layer dynamical variables or in the morning CO2 distribution in the mixed-layer or in the free atmosphere (FA) influence the bulk CO2 mixing ratio. We find that the largest uncertainty incurred on the mid-day CO2 mixing ratio comes from the prescribed early morning CO2 mixing ratios in the stable boundary layer, and in the free atmosphere. Errors in these values influence CO2 mixing ratios inversely proportional to the boundary layer depth (h), just like uncertainties in the assumed initial boundary layer depth and surface CO2 flux. The influence of uncertainties in the boundary layer depth itself is one order of magnitude smaller. If we "invert" the problem and calculate CO2 surface exchange from observed or simulated CO2 mixing ratios, the sensitivities to errors in boundary layer dynamics also invert: they become linearly proportional to the boundary layer depth. We demonstrate these relations for a typical well characterized situation at the Cabauw site in The Netherlands, and conclude that knowledge of the temperature and carbon dioxide profiles of the atmosphere in the early morning are of vital importance to correctly interpret observed CO2 mixing ratios during midday.

  1. A Novel Framework for Quantifying past Methane Recycling by Sphagnum-Methanotroph Symbiosis Using Carbon and Hydrogen Isotope Ratios of Leaf Wax Biomarkers

    NASA Technical Reports Server (NTRS)

    Nichols, Jonathan E.; Isles, Peter D. F.; Peteet, Dorothy M.

    2014-01-01

    The concentration of atmospheric methane is strongly linked to variations in Earth's climate. Currently, we can directly reconstruct the total atmospheric concentration of methane, but not individual terms of the methane cycle. Northern wetlands, dominated by Sphagnum, are an important contributor of atmospheric methane, and we seek to understand the methane cycle in these systems. We present a novel method for quantifying the proportion of carbon Sphagnum assimilates from its methanotrophic symbionts using stable isotope ratios of leaf-wax biomarkers. Carbon isotope ratios of Sphagnum compounds are determined by two competing influences, water content and the isotope ratio of source carbon. We disentangled these effects using a combined hydrogen and carbon isotope approach. We constrained Sphagnum water content using the contrast between the hydrogen isotope ratios of Sphagnum and vascular plant biomarkers. We then used Sphagnum water content to calculate the carbon isotope ratio of Sphagnum's carbon pool. Using a mass balance equation, we calculated the proportion of recycled methane contributed to the Sphagnum carbon pool, 'PRM.' We quantified PRM in peat monoliths from three microhabitats in the Mer Bleue peatland complex. Modern studies have shown that water table depth and vegetation have strong influences on the peatland methane cycle on instrumental time scales. With this new approach, delta C-13 of Sphagnum compounds are now a useful tool for investigating the relationships among hydrology, vegetation, and methanotrophy in Sphagnum peatlands over the time scales of entire peatland sediment records, vital to our understanding of the global carbon cycle through the Late Glacial and Holocene.

  2. A novel framework for quantifying past methane recycling by Sphagnum-methanotroph symbiosis using carbon and hydrogen isotope ratios of leaf wax biomarkers

    NASA Astrophysics Data System (ADS)

    Nichols, Jonathan E.; Isles, Peter D. F.; Peteet, Dorothy M.

    2014-05-01

    concentration of atmospheric methane is strongly linked to variations in Earth's climate. Currently, we can directly reconstruct the total atmospheric concentration of methane, but not individual terms of the methane cycle. Northern wetlands, dominated by Sphagnum, are an important contributor of atmospheric methane, and we seek to understand the methane cycle in these systems. We present a novel method for quantifying the proportion of carbon Sphagnum assimilates from its methanotrophic symbionts using stable isotope ratios of leaf-wax biomarkers. Carbon isotope ratios of Sphagnum compounds are determined by two competing influences, water content and the isotope ratio of source carbon. We disentangled these effects using a combined hydrogen and carbon isotope approach. We constrained Sphagnum water content using the contrast between the hydrogen isotope ratios of Sphagnum and vascular plant biomarkers. We then used Sphagnum water content to calculate the carbon isotope ratio of Sphagnum's carbon pool. Using a mass balance equation, we calculated the proportion of recycled methane contributed to the Sphagnum carbon pool, "PRM." We quantified PRM in peat monoliths from three microhabitats in the Mer Bleue peatland complex. Modern studies have shown that water table depth and vegetation have strong influences on the peatland methane cycle on instrumental time scales. With this new approach, δ13C of Sphagnum compounds are now a useful tool for investigating the relationships among hydrology, vegetation, and methanotrophy in Sphagnum peatlands over the time scales of entire peatland sediment records, vital to our understanding of the global carbon cycle through the Late Glacial and Holocene.

  3. Models to quantify excretion of dry matter, nitrogen, phosphorus and carbon in growing pigs fed regional diets.

    PubMed

    Jørgensen, Henry; Prapaspongsa, Trakarn; Vu, Van Thi Khanh; Poulsen, Hanne Damgaard

    2013-11-09

    Modern pig production contributes to many environmental problems that relate to manure, especially in areas with highly intensive production systems and in regions like Asia where the regulative control is not effective. Therefore, the objective of this study was to use three different pig diets varying in dietary protein, fibre and fat as representative for Danish (DK), Thai (TH) and Vietnamese (VN) pig production to develop and evaluate different approaches to predict/calculate excretion from growing pigs in comparison with the experimentally determined values.Nine female growing pigs were used in a digestibility and balance experiment. Excretion of dry matter (DM), nitrogen (N), phosphorus (P) and carbon (C) of the experimental diets were determined.Due to the highest dietary fibre content, VN had the lowest digestibility of N, P and C (73, 49, and 73%, respectively) compared with the DK and TH pig diets. From the known diet composition using standard table values on chemical and nutrient digestibly, high accuracy (bias) and low variation was found and the results could be used for prediction on chemical composition and excretion in faeces and urine in growing pigs. Calculation based on standard values regarding nutrient retention in the pig body as used in the Danish manure normative system (DMNS) showed likewise to be quite useful for quantifying the total excretion of N and P.Overall, the results demonstrate that simple models that require cheap and normally available information on dietary nutrients can give useful information on nutrient excretion in growing pigs.

  4. Quantifying folic acid-functionalized multi-walled carbon nanotubes bound to colorectal cancer cells for improved photothermal ablation

    NASA Astrophysics Data System (ADS)

    Graham, Elizabeth G.; MacNeill, Christopher M.; Levi-Polyachenko, Nicole H.

    2013-05-01

    Peritoneal metastases of colorectal cancer are a significant challenge in the field of medicine today due to poor results of systemic chemotherapy caused by the poor diffusion of drugs across the blood-peritoneal barrier. Multi-walled carbon nanotubes (MWNTs) are a biocompatible nanomaterial that strongly absorb near-infrared light to locally heat the surrounding area. Colorectal cancer is known to overexpress folate receptor; therefore, folic acid (FA) was covalently attached to MWNTs to target colorectal cancer cells. Results from real-time polymerase chain reaction found differing expression of folate receptor-α in two colorectal cancer cell lines, RKO and HCT116, as well as a healthy epithelial cell line, HEPM. A spectrophotometric method was developed to quantify the mass of MWNTs bound to cells, and it was determined that FA-targeted MWNTs resulted in a 400-500 % greater affinity for colorectal cancer cells than untargeted MWNTs. The non-cancerous cell line, HEPM, had higher non-specific MWNT interaction and similar MWNT-FA affinity. Stimulated by 1,064 nm light, FA-functionalized MWNTs caused a 50-60 % decrease in colorectal cancer cell viability compared to a 4-10 % decrease caused by untargeted MWNTs. Our results indicate that FA-targeted MWNTs may increase the therapeutic index of MWNT-induced photothermal therapy.

  5. Using polyacrylate-coated SPME fibers to quantify sorption of polar and ionic organic contaminants to dissolved organic carbon.

    PubMed

    Haftka, Joris J-H; Scherpenisse, Peter; Jonker, Michiel T O; Hermens, Joop L M

    2013-05-07

    A passive sampling method using polyacrylate-coated solid-phase microextraction (SPME) fibers was applied to determine sorption of polar and ionic organic contaminants to dissolved organic carbon (DOC). The tested contaminants included pharmaceuticals, industrial chemicals, hormones, and pesticides and represented neutral, anionic, and cationic structures. Prior to the passive sampler application, sorption of the chemicals to the fibers was characterized. This was needed in order to accurately translate concentrations measured in fibers to freely dissolved aqueous concentrations during the sorption tests with DOC. Sorption isotherms of neutral compounds to the fiber were linear, whereas isotherms of basic chemicals covered a nonlinear and a linear range. Sorption of acidic and basic compounds to the fiber was pH-dependent and was dominated by sorption of the neutral sorbate species. Fiber- and DOC-water partition coefficients of neutral compounds were both linearly related to octanol-water partition coefficients (log Kow). The results of this study show that polyacrylate fibers can be used to quantify sorption to DOC of neutral and ionic contaminants, having multiple functional groups and spanning a wide hydrophobicity range (log Kow = 2.5-7.5).

  6. Models to quantify excretion of dry matter, nitrogen, phosphorus and carbon in growing pigs fed regional diets

    PubMed Central

    2013-01-01

    Modern pig production contributes to many environmental problems that relate to manure, especially in areas with highly intensive production systems and in regions like Asia where the regulative control is not effective. Therefore, the objective of this study was to use three different pig diets varying in dietary protein, fibre and fat as representative for Danish (DK), Thai (TH) and Vietnamese (VN) pig production to develop and evaluate different approaches to predict/calculate excretion from growing pigs in comparison with the experimentally determined values. Nine female growing pigs were used in a digestibility and balance experiment. Excretion of dry matter (DM), nitrogen (N), phosphorus (P) and carbon (C) of the experimental diets were determined. Due to the highest dietary fibre content, VN had the lowest digestibility of N, P and C (73, 49, and 73%, respectively) compared with the DK and TH pig diets. From the known diet composition using standard table values on chemical and nutrient digestibly, high accuracy (bias) and low variation was found and the results could be used for prediction on chemical composition and excretion in faeces and urine in growing pigs. Calculation based on standard values regarding nutrient retention in the pig body as used in the Danish manure normative system (DMNS) showed likewise to be quite useful for quantifying the total excretion of N and P. Overall, the results demonstrate that simple models that require cheap and normally available information on dietary nutrients can give useful information on nutrient excretion in growing pigs. PMID:24206677

  7. Porous polymers bearing functional quaternary ammonium salts as efficient solid catalysts for the fixation of CO2 into cyclic carbonates

    NASA Astrophysics Data System (ADS)

    Cai, Sheng; Zhu, Dongliang; Zou, Yan; Zhao, Jing

    2016-07-01

    A series of porous polymers bearing functional quaternary ammonium salts were solvothermally synthesized through the free radical copolymerization of divinylbenzene (DVB) and functionalized quaternary ammonium salts. The obtained polymers feature highly cross-linked matrices, large surface areas, and abundant halogen anions. These polymers were evaluated as heterogeneous catalysts for the synthesis of cyclic carbonates from epoxides and CO2 in the absence of co-catalysts and solvents. The results revealed that the synergistic effect between the functional hydroxyl groups and the halide anion Br- afforded excellent catalytic activity to cyclic carbonates. In addition, the catalyst can be easily recovered and reused for at least five cycles without significant loss in activity.

  8. Quantifying the physiology of structurally complex arctic vegetation and implications for carbon cycling in a shrubbier tundra

    NASA Astrophysics Data System (ADS)

    Formica, A. F.; Griffin, K. L.; Boelman, N.

    2013-12-01

    The arctic is undergoing a warming trend that is more extreme compared to lower latitudes. As one major consequence, repeat aerial photographs reveal that in recent decades woody deciduous shrubs have increased in dominance in valley bottoms and riparian areas of northern Alaska. Advancing shrub canopies are growing taller and more structurally complex, presumably increasing self-shading and reducing light availability with canopy depth. According to canopy optimization theory, plants will preferentially allocate nutrient resources to sun-exposed canopy leaves to enhance photosynthetic efficiency in order to take advantage of greater light availability. While canopy optimization has been studied in other, mainly forested ecosystems, this theory has yet to be tested in the arctic tundra. We made a series of measurements on canopy leaves located in high to low light environments, from three common woody deciduous shrubs on the North Slope of Alaska: dwarf birch (Betula nana), tealeaf willow (Salix pulchra), and feltleaf willow (Salix alaxensis). For each selected leaf, we measured the canopy leaf area index at its canopy position in order to quantify the amount of light intercepted by the leaf surface, and in situ chlorophyll fluorescence to evaluate its photosynthetic efficiency through calculation of leaf maximum electron transport rate. The same leaves were then removed and measured for leaf area, dry mass, and carbon to nitrogen ratio. Our data show trends that are consistent with the development of canopy optimization. Leaf nitrogen decreases significantly from the upper to lower terciles of leaf area index values (56% in Salix alaxensis, 41% in Salix pulchra, 46% in Betula nana). Similarly, there were significant reductions in the leaf maximum electron transport rate for two species (44% in Salix alaxensis, 40% Betula nana). These findings suggest that structurally complex arctic shrubs may be redistributing leaf nitrogen to more exposed parts of the canopy

  9. High-Gravity Carbonation Process for Enhancing CO2 Fixation and Utilization Exemplified by the Steelmaking Industry.

    PubMed

    Pan, Shu-Yuan; Chen, Yi-Hung; Chen, Chun-Da; Shen, Ai-Lin; Lin, Michael; Chiang, Pen-Chi

    2015-10-20

    The high-gravity carbonation process for CO2 mineralization and product utilization as a green cement was evaluated using field operation data from the steelmaking industry. The effect of key operating factors, including rotation speed, liquid-to-solid ratio, gas flow rate, and slurry flow rate, on CO2 removal efficiency was studied. The results indicated that a maximal CO2 removal of 97.3% was achieved using basic oxygen furnace slag at a gas-to-slurry ratio of 40, with a capture capacity of 165 kg of CO2 per day. In addition, the product with different carbonation conversions (i.e., 0%, 17%, and 48%) was used as supplementary cementitious materials in blended cement at various substitution ratios (i.e., 0%, 10%, and 20%). The performance of the blended cement mortar, including physicochemical properties, morphology, mineralogy, compressive strength, and autoclave soundness, was evaluated. The results indicated that the mortar with a high carbonation conversion of slag exhibited a higher mechanical strength in the early stage than pure portland cement mortar, suggesting its suitability for use as a high early strength cement. It also possessed superior soundness compared to the mortar using fresh slag. Furthermore, the optimal operating conditions of the high-gravity carbonation were determined by response surface models for maximizing CO2 removal efficiency and minimizing energy consumption.

  10. Diversity of freshwater Epsilonproteobacteria and dark inorganic carbon fixation in the sulphidic redoxcline of a meromictic karstic lake.

    PubMed

    Noguerola, Imma; Picazo, Antonio; Llirós, Marc; Camacho, Antonio; Borrego, Carles M

    2015-07-01

    Sulfidic redoxclines are a suitable niche for the growth and activity of different chemo- and photolithotrophic sulphide-oxidizing microbial groups such as the Epsilonproteobacteria and the green sulfur bacteria (GSB). We have investigated the diversity, abundance and contribution to inorganic carbon uptake of Epsilonproteobacteria in a meromictic basin of Lake Banyoles. CARD-FISH counts revealed that Epsilonproteobacteria were prevalent at the redoxcline in winter (maximum abundance of 2 × 10(6) cells mL(-1), ≈60% of total cells) but they were nearly absent in summer, when GSB bloomed. This seasonal trend was supported by 16S rRNA gene pyrotag datasets, which revealed that the epsilonproteobacterial community was mainly composed of a member of the genus Arcobacter. In situ incubations using NaH(14)CO3 and MAR-CARD-FISH observations showed that this population assimilated CO2 in the dark, likely being mainly responsible for the autotrophic activity at the redoxcline in winter. Clone libraries targeting the aclB gene provided additional evidence of the potential capacity of these epsilonproteobacteria to fix carbon via rTCA cycle. Our data reinforce the key role of Epsilonproteobacteria in linking carbon and sulphur cycles, extend their influence to freshwater karstic lakes and raise questions about the actual contribution of chemolithotrophy at their redoxcline and euxinic water compartments.

  11. Comparative Proteomic and Physiological Analysis Reveals the Variation Mechanisms of Leaf Coloration and Carbon Fixation in a Xantha Mutant of Ginkgo biloba L.

    PubMed

    Liu, Xinliang; Yu, Wanwen; Wang, Guibin; Cao, Fuliang; Cai, Jinfeng; Wang, Huanli

    2016-10-27

    Yellow-green leaf mutants are common in higher plants, and these non-lethal chlorophyll-deficient mutants are ideal materials for research on photosynthesis and plant development. A novel xantha mutant of Ginkgo biloba displaying yellow-colour leaves (YL) and green-colour leaves (GL) was identified in this study. The chlorophyll content of YL was remarkably lower than that in GL. The chloroplast ultrastructure revealed that YL had less dense thylakoid lamellae, a looser structure and fewer starch grains than GL. Analysis of the photosynthetic characteristics revealed that YL had decreased photosynthetic activity with significantly high nonphotochemical quenching. To explain these phenomena, we analysed the proteomic differences in leaves and chloroplasts between YL and GL of ginkgo using two-dimensional gel electrophoresis (2-DE) coupled with MALDI-TOF/TOF MS. In total, 89 differential proteins were successfully identified, 82 of which were assigned functions in nine metabolic pathways and cellular processes. Among them, proteins involved in photosynthesis, carbon fixation in photosynthetic organisms, carbohydrate/energy metabolism, amino acid metabolism, and protein metabolism were greatly enriched, indicating a good correlation between differentially accumulated proteins and physiological changes in leaves. The identifications of these differentially accumulated proteins indicates the presence of a specific different metabolic network in YL and suggests that YL possess slower chloroplast development, weaker photosynthesis, and a less abundant energy supply than GL. These studies provide insights into the mechanism of molecular regulation of leaf colour variation in YL mutants.

  12. Comparative Proteomic and Physiological Analysis Reveals the Variation Mechanisms of Leaf Coloration and Carbon Fixation in a Xantha Mutant of Ginkgo biloba L.

    PubMed Central

    Liu, Xinliang; Yu, Wanwen; Wang, Guibin; Cao, Fuliang; Cai, Jinfeng; Wang, Huanli

    2016-01-01

    Yellow-green leaf mutants are common in higher plants, and these non-lethal chlorophyll-deficient mutants are ideal materials for research on photosynthesis and plant development. A novel xantha mutant of Ginkgo biloba displaying yellow-colour leaves (YL) and green-colour leaves (GL) was identified in this study. The chlorophyll content of YL was remarkably lower than that in GL. The chloroplast ultrastructure revealed that YL had less dense thylakoid lamellae, a looser structure and fewer starch grains than GL. Analysis of the photosynthetic characteristics revealed that YL had decreased photosynthetic activity with significantly high nonphotochemical quenching. To explain these phenomena, we analysed the proteomic differences in leaves and chloroplasts between YL and GL of ginkgo using two-dimensional gel electrophoresis (2-DE) coupled with MALDI-TOF/TOF MS. In total, 89 differential proteins were successfully identified, 82 of which were assigned functions in nine metabolic pathways and cellular processes. Among them, proteins involved in photosynthesis, carbon fixation in photosynthetic organisms, carbohydrate/energy metabolism, amino acid metabolism, and protein metabolism were greatly enriched, indicating a good correlation between differentially accumulated proteins and physiological changes in leaves. The identifications of these differentially accumulated proteins indicates the presence of a specific different metabolic network in YL and suggests that YL possess slower chloroplast development, weaker photosynthesis, and a less abundant energy supply than GL. These studies provide insights into the mechanism of molecular regulation of leaf colour variation in YL mutants. PMID:27801782

  13. Icecolors`93: Biological weighting function for the ultraviolet inhibition of carbon fixation in a natural antarctic phytoplankton community

    SciTech Connect

    Boucher, N.; Prezelin, B.B.; Evens, T.

    1994-12-31

    The goals of the Icecolors 1993 expedition were (1) to develop a space/time climatology of incident and penetrating spectral irradiance for the southern oceans, (2) to quantify the ultraviolet (UV) dependency of primary production for pelagic and substrate-associated antarctic phytoplankton communities, and (3) to determine the UV inhibition effects on key target sites. The study was conducted at Palmer Station, Antarctica, prior to the opening of the ozone `hole` and during the onset of depletion of ozone, the most severe ever recorded over the Antarctic Peninsula. This paper discusses results from an experiment designed to estimate a biological weight function for primary production inhibition in Antarctic phytoplankton under natural irradiance. The newly derived function is presented and it is shown that the sensitivity of in situ phytoplankton to ambient UV-B at the end of winter was greater than that measured under artificial light conditions for temperate marine phytoplankton and terrestrial plants. 18 refs., 3 figs.

  14. Quantifying the Contribution of Entire Free-Living Nematode Communities to Carbon Mineralization under Contrasting C and N Availability.

    PubMed

    Gebremikael, Mesfin Tsegaye; Steel, Hanne; Bert, Wim; Maenhout, Peter; Sleutel, Steven; De Neve, Stefaan

    2015-01-01

    To understand the roles of nematodes in organic matter (OM) decomposition, experimental setups should include the entire nematode community, the native soil microflora, and their food sources. Yet, published studies are often based on either simplified experimental setups, using only a few selected species of nematode and their respective prey, despite the multitude of species present in natural soil, or on indirect estimation of the mineralization process using O2 consumption and the fresh weight of nematodes. We set up a six-month incubation experiment to quantify the contribution of the entire free living nematode community to carbon (C) mineralization under realistic conditions. The following treatments were compared with and without grass-clover amendment: defaunated soil reinoculated with the entire free living nematode communities (+Nem) and defaunated soil that was not reinoculated (-Nem). We also included untreated fresh soil as a control (CTR). Nematode abundances and diversity in +Nem was comparable to the CTR showing the success of the reinoculation. No significant differences in C mineralization were found between +Nem and -Nem treatments of the amended and unamended samples at the end of incubation. Other related parameters such as microbial biomass C and enzymatic activities did not show significant differences between +Nem and -Nem treatments in both amended and unamended samples. These findings show that the collective contribution of the entire nematode community to C mineralization is small. Previous reports in literature based on simplified experimental setups and indirect estimations are contrasting with the findings of the current study and further investigations are needed to elucidate the extent and the mechanisms of nematode involvement in C mineralization.

  15. Soil temperature and water content drive microbial carbon fixation in grassland of permafrost area on the Tibetan plateau

    NASA Astrophysics Data System (ADS)

    Kong, W.; Guo, G.; Liu, J.

    2014-12-01

    Soil microbial communities underpin terrestrial biogeochemical cycles and are greatly influenced by global warming and global-warming-induced dryness. However, the response of soil microbial community function to global change remains largely uncertain, particularly in the ecologically vulnerable Tibetan plateau permafrost area with large carbon storage. With the concept of space for time substitution, we investigated the responses of soil CO2-fixing microbial community and its enzyme activity to climate change along an elevation gradient (4400-5100 m) of alpine grassland on the central Tibetan plateau. The elevation gradient in a south-facing hill slope leads to variation in climate and soil physicochemical parameters. The autotrophic microbial communities were characterized by quantitative PCR (qPCR), terminal restriction fragment length polymorphism analysis (T-RFLP) and cloning/sequencing targeting the CO2-fixing gene (RubisCO). The results demonstrated that the autotrophic microbial community abundance, structure and its enzyme activity were mainly driven by soil temperature and water content. Soil temperature increase and water decrease dramatically reduced the abundance of the outnumbered form IC RubisCO-containing microbes, and significantly changed the structure of form IC, IAB and ID RubisCO-containing microbial community. Structural equation model revealed that the RubisCO enzyme was directly derived from RubisCO-containing microbes and its activity was significantly reduced by soil temperature increase and water content decrease. Thus our results provide a novel positive feedback loop of climate warming and warming-induced dryness by that soil microbial carbon fixing potential will reduce by 3.77%-8.86% with the soil temperature increase of 1.94oC and water content decrease of 60%-70%. This positive feedback could be capable of amplifying the climate change given the significant contribution of soil microbial CO2-fixing up to 4.9% of total soil organic

  16. Inorganic carbon fixation by chemosynthetic ectosymbionts and nutritional transfers to the hydrothermal vent host-shrimp Rimicaris exoculata

    PubMed Central

    Ponsard, Julie; Cambon-Bonavita, Marie-Anne; Zbinden, Magali; Lepoint, Gilles; Joassin, André; Corbari, Laure; Shillito, Bruce; Durand, Lucile; Cueff-Gauchard, Valérie; Compère, Philippe

    2013-01-01

    The shrimp Rimicaris exoculata dominates several hydrothermal vent ecosystems of the Mid-Atlantic Ridge and is thought to be a primary consumer harbouring a chemoautotrophic bacterial community in its gill chamber. The aim of the present study was to test current hypotheses concerning the epibiont's chemoautotrophy, and the mutualistic character of this association. In-vivo experiments were carried out in a pressurised aquarium with isotope-labelled inorganic carbon (NaH13CO3 and NaH14CO3) in the presence of two different electron donors (Na2S2O3 and Fe2+) and with radiolabelled organic compounds (14C-acetate and 3H-lysine) chosen as potential bacterial substrates and/or metabolic by-products in experiments mimicking transfer of small biomolecules from epibionts to host. The bacterial epibionts were found to assimilate inorganic carbon by chemoautotrophy, but many of them (thick filaments of epsilonproteobacteria) appeared versatile and able to switch between electron donors, including organic compounds (heterotrophic acetate and lysine uptake). At least some of them (thin filamentous gammaproteobacteria) also seem capable of internal energy storage that could supply chemosynthetic metabolism for hours under conditions of electron donor deprivation. As direct nutritional transfer from bacteria to host was detected, the association appears as true mutualism. Import of soluble bacterial products occurs by permeation across the gill chamber integument, rather than via the digestive tract. This first demonstration of such capabilities in a decapod crustacean supports the previously discarded hypothesis of transtegumental absorption of dissolved organic matter or carbon as a common nutritional pathway. PMID:22914596

  17. Latarjet Fixation

    PubMed Central

    Alvi, Hasham M.; Monroe, Emily J.; Muriuki, Muturi; Verma, Rajat N.; Marra, Guido; Saltzman, Matthew D.

    2016-01-01

    Background: Attritional bone loss in patients with recurrent anterior instability has successfully been treated with a bone block procedure such as the Latarjet. It has not been previously demonstrated whether cortical or cancellous screws are superior when used for this procedure. Purpose: To assess the strength of stainless steel cortical screws versus stainless steel cannulated cancellous screws in the Latarjet procedure. Study Design: Controlled laboratory study. Methods: Ten fresh-frozen matched-pair shoulder specimens were randomized into 2 separate fixation groups: (1) 3.5-mm stainless steel cortical screws and (2) 4.0-mm stainless steel partially threaded cannulated cancellous screws. Shoulder specimens were dissected free of all soft tissue and a 25% glenoid defect was created. The coracoid process was osteomized, placed at the site of the glenoid defect, and fixed in place with 2 parallel screws. Results: All 10 specimens failed by screw cutout. Nine of 10 specimens failed by progressive displacement with an increased number of cycles. One specimen in the 4.0-mm screw group failed by catastrophic failure on initiation of the testing protocol. The 3.5-mm screws had a mean of 274 cycles (SD, ±171 cycles; range, 10-443 cycles) to failure. The 4.0-mm screws had a mean of 135 cycles (SD, ±141 cycles; range, 0-284 cycles) to failure. There was no statistically significant difference between the 2 types of screws for cycles required to cause failure (P = .144). Conclusion: There was no statistically significant difference in energy or cycles to failure when comparing the stainless steel cortical screws versus partially threaded cannulated cancellous screws. Clinical Relevance: Latarjet may be performed using cortical or cancellous screws without a clear advantage of either option. PMID:27158630

  18. Synthesis of [11C]Bexarotene by Cu-Mediated [11C]Carbon Dioxide Fixation and Preliminary PET Imaging

    PubMed Central

    2014-01-01

    Bexarotene (Targretin) is a retinoid X receptor (RXR) agonist that has applications for treatment of T cell lymphoma and proposed mechanisms of action in Alzheimer’s disease that have been the subject of recent controversy. Carbon-11 labeled bexarotene ([11C-carbonyl]4-[1-(3,5,5,8,8-pentamethyltetralin-2-yl)ethenyl]benzoic acid) was synthesized using a Cu-mediated cross-coupling reaction employing an arylboronate precursor 1 and [11C]carbon dioxide under atmospheric pressure in 15 ± 2% uncorrected radiochemical yield (n = 3), based on [11C]CO2. Judicious choice of solvents, catalysts, and additives, as well as precursor concentration and purity of [11C]CO2, enabled the preparation of this 11C-labeled carboxylic acid. Formulated [11C]bexarotene was isolated (>37 mCi) with >99% radiochemical purity in 32 min. Preliminary positron emission tomography–magnetic resonance imaging revealed rapid brain uptake in nonhuman primate in the first 75 s following intravenous administration of the radiotracer (specific activity >0.3 Ci/μmol at time of injection), followed by slow clearance (Δ = −43%) over 60 min. Modest uptake (SUVmax = 0.8) was observed in whole brain and regions with high RXR expression. PMID:24944741

  19. A model of biogeochemical cycles of carbon, nitrogen and phosphorus including symbiotic nitrogen fixation and phosphatase production.

    NASA Astrophysics Data System (ADS)

    Wang, Y.; Houlton, B.; Field, C. B.

    2006-12-01

    Global climate models have not yet considered the effects of nutrient cycles and limitation when forecasting carbon uptake by the terrestrial biosphere into the future. Using the principle of resource optimization, we here develop a new theory by which C, N and P cycles interact. Our model is able to replicate the observed responses of net primary production to nutrient additions in N-limited, N and P co-limited, and P-limited environments. Our framework identifies a new pathway by which N2 fixers can alter P availability: by investing in N-rich phosphorus liberation enzymes (phosphatases), fixers can greatly accelerate soil P availability and its cycling rates. This is critical for the successive invasion and establishment of N2 fixers into an N limited environment. We conclude that our model can be used to examine nutrient limitation broadly, and thus offers promise for coupling the biogeochemical system of C, N, and P to broader climate-system models.

  20. Autotrophic methanotrophy in verrucomicrobia: Methylacidiphilum fumariolicum SolV uses the Calvin-Benson-Bassham cycle for carbon dioxide fixation.

    PubMed

    Khadem, Ahmad F; Pol, Arjan; Wieczorek, Adam; Mohammadi, Seyed S; Francoijs, Kees-Jan; Stunnenberg, Henk G; Jetten, Mike S M; Op den Camp, Huub J M

    2011-09-01

    Genome data of the extreme acidophilic verrucomicrobial methanotroph Methylacidiphilum fumariolicumstrain SolV indicated the ability of autotrophic growth. This was further validated by transcriptome analysis, which showed that all genes required for a functional Calvin-Benson-Bassham (CBB) cycle were transcribed. Experiments with (13)CH(4) or (13)CO(2) in batch and chemostat cultures demonstrated that CO(2) is the sole carbon source for growth of strain SolV. In the presence of CH(4), CO(2) concentrations in the headspace below 1% (vol/vol) were growth limiting, and no growth was observed when CO(2)concentrations were below 0.3% (vol/vol). The activity of the key enzyme of the CBB cycle, ribulose-1,5-bisphosphate carboxylase/oxygenase (RuBisCO), measured with a (13)C stable-isotope method was about 70 nmol CO(2) fixed · min(-1)· mg of protein(-1). An immune reaction with antibody against the large subunit of RuBisCO on Western blots was found only in the supernatant fractions of cell extracts. The apparent native mass of the RuBisCO complex in strain SolV was about 482 kDa, probably consisting of 8 large (53-kDa) and 8 small (16-kDa) subunits. Based on phylogenetic analysis of the corresponding RuBisCO gene, we postulate that RuBisCO of the verrucomicrobial methanotrophs represents a new type of form I RuBisCO.

  1. A model of biogeochemical cycles of carbon, nitrogen, and phosphorus including symbiotic nitrogen fixation and phosphatase production

    NASA Astrophysics Data System (ADS)

    Wang, Y.-P.; Houlton, B. Z.; Field, C. B.

    2007-03-01

    Global climate models have not yet considered the effects of nutrient cycles and limitation when forecasting carbon uptake by the terrestrial biosphere into the future. Using the principle of resource optimization, we here develop a new theory by which C, N, and P cycles interact. Our model is able to replicate the observed responses of net primary production to nutrient additions in N-limited, N- and P-colimited, and P-limited terrestrial environments. Our framework identifies a new pathway by which N2 fixers can alter P availability: By investing in N-rich, phosphorus liberation enzymes (phosphatases), fixers can greatly accelerate soil P availability and P cycling rates. This interaction is critical for the successful invasion and establishment of N2 fixers in an N-limited environment. We conclude that our model can be used to examine nutrient limitation broadly, and thus offers promise for coupling the biogeochemical system of C, N, and P to broader climate-system models.

  2. Integrated carbon dioxide/sludge gasification using waste heat from hot slags: syngas production and sulfur dioxide fixation.

    PubMed

    Sun, Yongqi; Zhang, Zuotai; Liu, Lili; Wang, Xidong

    2015-04-01

    The integrated CO2/sludge gasification using the waste heat in hot slags, was explored with the aim of syngas production, waste heat recovery and sewage sludge disposal. The results demonstrated that hot slags presented multiple roles on sludge gasification, i.e., not only a good heat carrier (500-950 °C) but also an effective desulfurizer (800-900 °C). The total gas yields increased from 0.022 kg/kgsludge at 500 °C to 0.422 kg/kgsludge at 900 °C; meanwhile, the SO2 concentration at 900 °C remarkably reduced from 164 ppm to 114 ppm by blast furnace slags (BFS) and 93 ppm by steel slags (SS), respectively. A three-stage reaction was clarified including volatile release, char transformation and fixed carbon using Gaussian fittings and the kinetic model was analyzed. Accordingly, a decline process using the integrated method was designed and the optimum slag/sludge ratio was deduced. These deciphered results appealed potential ways of reasonable disposal of sewage sludge and efficient recovery of waste heat from hot slags.

  3. Abnormal Fixational Eye Movements in Amblyopia

    PubMed Central

    Shaikh, Aasef G.; Otero-Millan, Jorge; Kumar, Priyanka; Ghasia, Fatema F.

    2016-01-01

    Purpose Fixational saccades shift the foveal image to counteract visual fading related to neural adaptation. Drifts are slow eye movements between two adjacent fixational saccades. We quantified fixational saccades and asked whether their changes could be attributed to pathologic drifts seen in amblyopia, one of the most common causes of blindness in childhood. Methods Thirty-six pediatric subjects with varying severity of amblyopia and eleven healthy age-matched controls held their gaze on a visual target. Eye movements were measured with high-resolution video-oculography during fellow eye-viewing and amblyopic eye-viewing conditions. Fixational saccades and drifts were analyzed in the amblyopic and fellow eye and compared with controls. Results We found an increase in the amplitude with decreased frequency of fixational saccades in children with amblyopia. These alterations in fixational eye movements correlated with the severity of their amblyopia. There was also an increase in eye position variance during drifts in amblyopes. There was no correlation between the eye position variance or the eye velocity during ocular drifts and the amplitude of subsequent fixational saccade. Our findings suggest that abnormalities in fixational saccades in amblyopia are independent of the ocular drift. Discussion This investigation of amblyopia in pediatric age group quantitatively characterizes the fixation instability. Impaired properties of fixational saccades could be the consequence of abnormal processing and reorganization of the visual system in amblyopia. Paucity in the visual feedback during amblyopic eye-viewing condition can attribute to the increased eye position variance and drift velocity. PMID:26930079

  4. Phytoplankton carbon fixation gene (RuBisCO) transcripts and air-sea CO2 flux in the Mississippi River plume

    SciTech Connect

    John, David E.; Wang, Zhaohui A.; Liu, Xuewu; Byrne, Robert H.; Corredor, Jorge E.; López, José M.; Cabrera, Alvaro; Bronk, Deborah A.; Tabita, F. Robert; Paul, John H.

    2007-08-30

    River plumes deliver large quantities of nutrients to oligotrophic oceans, often resulting in significant CO2 drawdown. To determine the relationship between expression of the major gene in carbon fixation (large subunit of ribulose-1,5-bisphosphate carboxylase/oxygenase, RuBisCO) and CO2 dynamics, we evaluated rbcL mRNA abundance using novel quantitative PCR assays, phytoplankton cell analyses, photophysiological parameters, and pCO2 in and around the Mississippi River plume (MRP) in the Gulf of Mexico. Lower salinity (30–32) stations were dominated by rbcL mRNA concentrations from heterokonts, such as diatoms and pelagophytes, which were at least an order of magnitude greater than haptophytes, alpha-Synechococcus or high-light Prochlorococcus. However, rbcL transcript abundances were similar among these groups at oligotrophic stations (salinity 34–36). Diatom cell counts and heterokont rbcL RNA showed a strong negative correlation to seawater pCO2. While Prochlorococcus cells did not exhibit a large difference between low and high pCO2 water, Prochlorococcus rbcL RNA concentrations had a strong positive correlation to pCO2, suggesting a very low level of RuBisCO RNA transcription among Prochlorococcus in the plume waters, possibly due to their relatively poor carbon concentrating mechanisms (CCMs). These results provide molecular evidence that diatom/pelagophyte productivity is largely responsible for the large CO2 drawdown occurring in the MRP, based on the co-occurrence of elevated RuBisCO gene transcript concentrations from this group and reduced seawater pCO2 levels. This may partly be due to efficient CCMs that enable heterokont eukaryotes such as diatoms to continue fixing CO2 in the face of strong CO2 drawdown. Finally, our work represents the first attempt to relate in situ microbial gene expression to contemporaneous CO2 flux

  5. Nitrogen fixation by marine cyanobacteria.

    PubMed

    Zehr, Jonathan P

    2011-04-01

    Discrepancies between estimates of oceanic N(2) fixation and nitrogen (N) losses through denitrification have focused research on identifying N(2)-fixing cyanobacteria and quantifying cyanobacterial N(2) fixation. Previously unrecognized cultivated and uncultivated unicellular cyanobacteria have been discovered that are widely distributed, and some have very unusual properties. Uncultivated unicellular N(2)-fixing cyanobacteria (UCYN-A) lack major metabolic pathways including the tricarboxylic acid cycle and oxygen-evolving photosystem II. Genomes of the oceanic N(2)-fixing cyanobacteria are highly conserved at the DNA level, and genetic diversity is maintained by genome rearrangements. The major cyanobacterial groups have different physiological and ecological constraints that result in highly variable geographic distributions, with implications for the marine N-cycle budget.

  6. Quantifying the role of fire in the Earth system - Part 2: Impact on the net carbon balance of global terrestrial ecosystems for the 20th century

    SciTech Connect

    Li, Fang; Bond-Lamberty, Benjamin; Levis, Samuel

    2014-03-07

    Fire is the primary terrestrial ecosystem disturbance agent on a global scale. It affects carbon balance of global terrestrial ecosystems by emitting carbon to atmosphere directly and immediately from biomass burning (i.e., fire direct effect), and by changing net ecosystem productivity and land-use carbon loss in post-fire regions due to biomass burning and fire-induced vegetation mortality (i.e., fire indirect effect). Here, we provide the first quantitative assessment about the impact of fire on the net carbon balance of global terrestrial ecosystems for the 20th century, and investigate the roles of fire direct and indirect effects. This study is done by quantifying the difference between the 20th century fire-on and fire-off simulations with NCAR community land model CLM4.5 as the model platform. Results show that fire decreases net carbon gain of the global terrestrial ecosystems by 1.0 Pg C yr-1 average across the 20th century, as a results of fire direct effect (1.9 Pg C yr-1) partly offset by indirect effect (-0.9 Pg C yr-1). Fire generally decreases the average carbon gains of terrestrial ecosystems in post-fire regions, which are significant over tropical savannas and part of forests in North America and the east of Asia. The general decrease of carbon gains in post-fire regions is because fire direct and indirect effects have similar spatial patterns and the former (to decrease carbon gain) is generally stronger. Moreover, the effect of fire on net carbon balance significantly declines prior to ~1970 with trend of 8 Tg C yr-1 due to increasing fire indirect effect and increases afterward with trend of 18 Tg C yr-1 due to increasing fire direct effect.

  7. Improving estimates of surface carbon fluxes to support emissions monitoring, reporting and verification at local and regional scales: quantifying uncertainty and the effects of spatial scaling.

    NASA Astrophysics Data System (ADS)

    Gately, C.; Hutyra, L.; Wofsy, S.; Nehrkorn, T.; Sue Wing, I.

    2015-12-01

    Current approaches to quantifying surface-atmosphere fluxes of carbon often combine inventories of fossil fuel carbon emissions (ffCO2) and biosphere flux estimates with atmospheric measurements to drive forward and inverse-atmospheric modeling at high spatial and temporal resolutions (1km grids, hourly time steps have become common). Given that over 70% of total ffCO2 emissions are attributable to urban areas, accurate estimates of ffCO2 at urban scales are critical to support emissions mitigation policies at state and local levels. A successful regional or national carbon monitoring system requires a careful quantification of the uncertainties associated with estimates of both ffCO2 and biogenic carbon fluxes. Errors in the spatial distribution of ffCO2 priors used to inform atmospheric transport models can bias posterior flux estimates, and potentially provide misleading information to decision makers on the impact of policies. Most current ffCO2 priors are either too coarsely resolved in time and space, or suffer from poorly quantified errors in spatial distributions at local scales. Accurately downscaling aggregate activity data requires a careful understanding of the potentially non-linear relationships between source processes and spatial proxies. We report on ongoing work to develop an integrated, high-resolution carbon monitoring system for the Northeastern U.S., and discuss insights into the impact of spatial scaling on model uncertainty. We use a newly developed dataset of hourly surface carbon fluxes for all human and biogenic sources at 1km grid resolution for the years 2013 and 2014. To attain these spatial and temporal resolutions, ffCO2 flux estimates were subject to varying degrees of aggregation and/or downscaling depending on the native source data for each sector. We will discuss several important examples of how the choice of scaling variables and priors influences the spatial distribution CO2 and CH4 retrievals.

  8. Quantifying soil carbon loss and uncertainty from a peatland wildfire using multi-temporal LiDAR

    USGS Publications Warehouse

    Reddy, Ashwan D.; Hawbaker, Todd J.; Wurster, F.; Zhu, Zhiliang; Ward, S.; Newcomb, Doug; Murray, R.

    2015-01-01

    Peatlands are a major reservoir of global soil carbon, yet account for just 3% of global land cover. Human impacts like draining can hinder the ability of peatlands to sequester carbon and expose their soils to fire under dry conditions. Estimating soil carbon loss from peat fires can be challenging due to uncertainty about pre-fire surface elevations. This study uses multi-temporal LiDAR to obtain pre- and post-fire elevations and estimate soil carbon loss caused by the 2011 Lateral West fire in the Great Dismal Swamp National Wildlife Refuge, VA, USA. We also determine how LiDAR elevation error affects uncertainty in our carbon loss estimate by randomly perturbing the LiDAR point elevations and recalculating elevation change and carbon loss, iterating this process 1000 times. We calculated a total loss using LiDAR of 1.10 Tg C across the 25 km2 burned area. The fire burned an average of 47 cm deep, equivalent to 44 kg C/m2, a value larger than the 1997 Indonesian peat fires (29 kg C/m2). Carbon loss via the First-Order Fire Effects Model (FOFEM) was estimated to be 0.06 Tg C. Propagating the LiDAR elevation error to the carbon loss estimates, we calculated a standard deviation of 0.00009 Tg C, equivalent to 0.008% of total carbon loss. We conclude that LiDAR elevation error is not a significant contributor to uncertainty in soil carbon loss under severe fire conditions with substantial peat consumption. However, uncertainties may be more substantial when soil elevation loss is of a similar or smaller magnitude than the reported LiDAR error.

  9. Dinitrogen fixation in aphotic oxygenated marine environments

    PubMed Central

    Rahav, Eyal; Bar-Zeev, Edo; Ohayon, Sarah; Elifantz, Hila; Belkin, Natalia; Herut, Barak; Mulholland, Margaret R.; Berman-Frank, Ilana

    2013-01-01

    We measured N2 fixation rates from oceanic zones that have traditionally been ignored as sources of biological N2 fixation; the aphotic, fully oxygenated, nitrate (NO−3)-rich, waters of the oligotrophic Levantine Basin (LB) and the Gulf of Aqaba (GA). N2 fixation rates measured from pelagic aphotic waters to depths up to 720 m, during the mixed and stratified periods, ranged from 0.01 nmol N L−1 d−1 to 0.38 nmol N L−1 d−1. N2 fixation rates correlated significantly with bacterial productivity and heterotrophic diazotrophs were identified from aphotic as well as photic depths. Dissolved free amino acid amendments to whole water from the GA enhanced bacterial productivity by 2–3.5 fold and N2 fixation rates by ~2-fold in samples collected from aphotic depths while in amendments to water from photic depths bacterial productivity increased 2–6 fold while N2 fixation rates increased by a factor of 2 to 4 illustrating that both BP and heterotrophic N2 fixation were carbon limited. Experimental manipulations of aphotic waters from the LB demonstrated a significant positive correlation between transparent exopolymeric particle (TEP) concentrations and N2 fixation rates. This suggests that sinking organic material and high carbon (C): nitrogen (N) micro-environments (such as TEP-based aggregates or marine snow) could support high heterotrophic N2 fixation rates in oxygenated surface waters and in the aphotic zones. Indeed, our calculations show that aphotic N2 fixation accounted for 37 to 75% of the total daily integrated N2 fixation rates at both locations in the Mediterranean and Red Seas with rates equal or greater to those measured from the photic layers. Moreover, our results indicate that that while N2 fixation may be limited in the surface waters, aphotic, pelagic N2 fixation may contribute significantly to new N inputs in other oligotrophic basins, yet it is currently not included in regional or global N budgets. PMID:23986748

  10. Quantifying and understanding carbon storage and sequestration within the Eastern Arc Mountains of Tanzania, a tropical biodiversity hotspot

    PubMed Central

    Phillips, Oliver L; Platts, Philip J; Balmford, Andrew; Burgess, Neil D; Lovett, Jon C; Ahrends, Antje; Bayliss, Julian; Doggart, Nike; Doody, Kathryn; Fanning, Eibleis; Green, Jonathan MH; Hall, Jaclyn; Howell, Kim L; Marchant, Rob; Marshall, Andrew R; Mbilinyi, Boniface; Munishi, Pantaleon KT; Owen, Nisha; Swetnam, Ruth D; Topp-Jorgensen, Elmer J; Lewis, Simon L

    2014-01-01

    Background The carbon stored in vegetation varies across tropical landscapes due to a complex mix of climatic and edaphic variables, as well as direct human interventions such as deforestation and forest degradation. Mapping and monitoring this variation is essential if policy developments such as REDD+ (Reducing Emissions from Deforestation and Forest Degradation) are to be known to have succeeded or failed. Results We produce a map of carbon storage across the watershed of the Tanzanian Eastern Arc Mountains (33.9 million ha) using 1,611 forest inventory plots, and correlations with associated climate, soil and disturbance data. As expected, tropical forest stores more carbon per hectare (182 Mg C ha-1) than woody savanna (51 Mg C ha-1). However, woody savanna is the largest aggregate carbon store, with 0.49 Pg C over 9.6 million ha. We estimate the whole landscape stores 1.3 Pg C, significantly higher than most previous estimates for the region. The 95% Confidence Interval for this method (0.9 to 3.2 Pg C) is larger than simpler look-up table methods (1.5 to 1.6 Pg C), suggesting simpler methods may underestimate uncertainty. Using a small number of inventory plots with two censuses (n = 43) to assess changes in carbon storage, and applying the same mapping procedures, we found that carbon storage in the tree-dominated ecosystems has decreased, though not significantly, at a mean rate of 1.47 Mg C ha-1 yr-1 (c. 2% of the stocks of carbon per year). Conclusions The most influential variables on carbon storage in the region are anthropogenic, particularly historical logging, as noted by the largest coefficient of explanatory variable on the response variable. Of the non-anthropogenic factors, a negative correlation with air temperature and a positive correlation with water availability dominate, having smaller p-values than historical logging but also smaller influence. High carbon storage is typically found far from the commercial capital, in locations

  11. Application of a satellite-based terrestrial carbon flux model for quantifying recent climate and fire disturbance impacts on northern ecosystem productivity

    NASA Astrophysics Data System (ADS)

    Yi, Y.; Kimball, J. S.; Jones, L. A.; Reichle, R. H.; Nemani, R. R.

    2012-12-01

    Quantifying variability and underlying environmental constraints on carbon (CO2) sequestration in northern (≥ 45 °N) ecosystems is important for improving predictions of future climate change. We applied a satellite-based terrestrial carbon flux model for daily estimation of net ecosystem CO2 exchange (NEE) and component carbon fluxes across a pan-boreal/Arctic domain. The model includes a light use efficiency algorithm for estimating vegetation gross primary production (GPP) using operational satellite NDVI records, while ecosystem respiration is derived using a three-pool soil decomposition model adapted to utilize potential inputs from satellite microwave retrieved soil moisture and temperature as primary environmental constraints to soil respiration. Initial validation against tower eddy-covariance measurement based carbon fluxes for northern tower sites showed favorable results for GPP (R ≥ 0.7, RMSE < 2.5 g C/m2/day), and overall consistency for NEE (R > 0.5) at predominantly undisturbed sites. However, the terrestrial carbon uptake during the peak growing season was generally underestimated by the model especially for deciduous broadleaf forests, mainly due to under prediction of GPP over dense canopy areas and model steady-state assumptions of dynamic equilibrium between vegetation productivity and respiration processes. A model framework integrating satellite-based burned area products and vegetation indices was then developed to represent non-steady-state fire disturbance and recovery effects and the simulations largely tracked NEE recovery indicated by tower CO2 flux measurements over three boreal fire chronosequence networks. The regional simulations indicated that large drought and fire events were generally associated with large GPP reductions and net ecosystem carbon losses, though NEE was generally less sensitive to fire disturbance due to similar behavior in GPP and respiration components. These results are being used to inform development of

  12. Mouse tissue fixation.

    PubMed

    Cardiff, Robert D; Miller, Claramae H; Munn, Robert J

    2014-05-01

    One of the primary goals of fixation is to stop postmortem changes that degrade the tissue and allow optimal preservation of morphologic and cytological detail as well as nucleic acid integrity. Following death, tissues soon undergo autolysis, and if organisms from the gastrointestinal, urinary, or respiratory tracts are present, their colonization can soon cause putrefaction. Time is of the essence because warmer temperatures accelerate both types of degradation. Placing the tissue into a fixative stops the postmortem changes. Fixatives have their effect on tissue by cross-linking, coagulation, or a combination of both. This article outlines the basic tissue fixation procedure and offers guidance on choosing an appropriate fixative, the timing and duration of fixation, sample storage, and quality issues.

  13. The marginal effects of the price for carbon dioxide: quantifying the effects on the market for electric generation in Florida

    SciTech Connect

    Kury, Theodore J.; Harrington, Julie

    2010-05-15

    Greater emphasis on public policy aimed at internalizing the societal cost of carbon dioxide emissions leads to more questions about the economic impacts of that policy. In cooperation with the State of Florida's Department of Environmental Protection, the authors have constructed a model to simulate the dispatch of electric generating units to serve electric load in the state - and obtained some counterintuitive results. (author)

  14. Methane emissions among individual dairy cows during milking quantified by eructation peaks or ratio with carbon dioxide.

    PubMed

    Bell, M J; Saunders, N; Wilcox, R H; Homer, E M; Goodman, J R; Craigon, J; Garnsworthy, P C

    2014-10-01

    The aims of this study were to compare methods for examining measurements of CH₄ and CO₂ emissions of dairy cows during milking and to assess repeatability and variation of CH₄ emissions among individual dairy cows. Measurements of CH₄ and CO₂ emissions from 36 cows were collected in 3 consecutive feeding periods. In the first period, cows were fed a commercial partial mixed ration (PMR) containing 69% forage. In the second and third periods, the same 36 cows were fed a high-forage PMR ration containing 75% forage, with either a high grass silage or high maize silage content. Emissions of CH₄ during each milking were examined using 2 methods. First, peaks in CH₄ concentration due to eructations during milking were quantified. Second, ratios of CH₄ and CO₂ average concentrations during milking were calculated. A linear mixed model was used to assess differences between PMR. Variation in CH₄ emissions was observed among cows after adjusting for effects of lactation number, week of lactation, diet, individual cow, and feeding period, with coefficients of variation estimated from variance components ranging from 11 to 14% across diets and methods of quantifying emissions. No significant difference was detected between the 3 PMR in CH₄ emissions estimated by either method. Emissions of CH₄ calculated from eructation peaks or as CH₄ to CO₂ ratio were positively associated with forage dry matter intake. Ranking of cows according to CH₄ emissions on different diets was correlated for both methods, although rank correlations and repeatability were greater for CH₄ concentration from eructation peaks than for CH₄-to-CO₂ ratio. We conclude that quantifying enteric CH₄ emissions either using eructation peaks in concentration or as CH₄-to-CO₂ ratio can provide highly repeatable phenotypes for ranking cows on CH₄ output.

  15. Methanotrophy Induces Nitrogen Fixation in Boreal Mosses

    NASA Astrophysics Data System (ADS)

    Tiirola, M. A.

    2014-12-01

    Many methanotrophic bacterial groups fix nitrogen in laboratory conditions. Furthermore, nitrogen (N) is a limiting nutrient in many environments where methane concentrations are highest. Despite these facts, methane-induced N fixation has previously been overlooked, possibly due to methodological problems. To study the possible link between methanotrophy and diazotrophy in terrestrial and aquatic habitats, we measured the co-occurrence of these two processes in boreal forest, peatland and stream mosses using a stable isotope labeling approach (15 N2 and 13 CH4 double labeling) and sequencing of the nifH gene marker. N fixation associated with forest mosses was dependent on the annual N deposition, whereas methane stimulate N fixation neither in high (>3 kg N ha -1 yr -1) nor low deposition areas, which was in accordance with the nifH gene sequencing showing that forest mosses (Pleurozium schreberi and Hylocomium splendens ) carried mainly cyanobacterial N fixers. On the other extreme, in stream mosses (Fontinalis sp.) methane was actively oxidized throughout the year, whereas N fixation showed seasonal fluctuation. The co-occurrence of the two processes in single cell level was proven by co-localizing both N and methane-carbon fixation with the secondary ion mass spectrometry (SIMS) approach. Methanotrophy and diazotrophy was also studied in peatlands of different primary successional stages in the land-uplift coast of Bothnian Bay, in the Siikajoki chronosequence, where N accumulation rates in peat profiles indicate significant N fixation. Based on experimental evidence it was counted that methane-induced N fixation explained over one-third of the new N input in the younger peatland successional stages, where the highest N fixation rates and highest methane oxidation activities co-occurred in the water-submerged Sphagnum moss vegetation. The linkage between methanotrophic carbon cycling and N fixation may therefore constitute an important mechanism in the rapid

  16. Rate my data: quantifying the value of ecological data for the development of models of the terrestrial carbon cycle.

    PubMed

    Keenan, Trevor F; Davidson, Eric A; Munger, J William; Richardson, Andrew D

    2013-01-01

    Primarily driven by concern about rising levels of atmospheric CO2, ecologists and earth system scientists are collecting vast amounts of data related to the carbon cycle. These measurements are generally time consuming and expensive to make, and, unfortunately, we live in an era where research funding is increasingly hard to come by. Thus, important questions are: "Which data streams provide the most valuable information?" and "How much data do we need?" These questions are relevant not only for model developers, who need observational data to improve, constrain, and test their models, but also for experimentalists and those designing ecological observation networks. Here we address these questions using a model-data fusion approach. We constrain a process-oriented, forest ecosystem C cycle model with 17 different data streams from the Harvard Forest (Massachusetts, USA). We iteratively rank each data source according to its contribution to reducing model uncertainty. Results show the importance of some measurements commonly unavailable to carbon-cycle modelers, such as estimates of turnover times from different carbon pools. Surprisingly, many data sources are relatively redundant in the presence of others and do not lead to a significant improvement in model performance. A few select data sources lead to the largest reduction in parameter-based model uncertainty. Projections of future carbon cycling were poorly constrained when only hourly net-ecosystem-exchange measurements were used to inform the model. They were well constrained, however, with only 5 of the 17 data streams, even though many individual parameters are not constrained. The approach taken here should stimulate further cooperation between modelers and measurement teams and may be useful in the context of setting research priorities and allocating research funds.

  17. Application of nitrogen and carbon stable isotopes (δ(15)N and δ(13)C) to quantify food chain length and trophic structure.

    PubMed

    Perkins, Matthew J; McDonald, Robbie A; van Veen, F J Frank; Kelly, Simon D; Rees, Gareth; Bearhop, Stuart

    2014-01-01

    Increasingly, stable isotope ratios of nitrogen (δ(15)N) and carbon (δ(13)C) are used to quantify trophic structure, though relatively few studies have tested accuracy of isotopic structural measures. For laboratory-raised and wild-collected plant-invertebrate food chains spanning four trophic levels we estimated nitrogen range (NR) using δ(15)N, and carbon range (CR) using δ(13)C, which are used to quantify food chain length and breadth of trophic resources respectively. Across a range of known food chain lengths we examined how NR and CR changed within and between food chains. Our isotopic estimates of structure are robust because they were calculated using resampling procedures that propagate variance in sample means through to quantified uncertainty in final estimates. To identify origins of uncertainty in estimates of NR and CR, we additionally examined variation in discrimination (which is change in δ(15)N or δ(13)C from source to consumer) between trophic levels and among food chains. δ(15)N discrimination showed significant enrichment, while variation in enrichment was species and system specific, ranged broadly (1.4‰ to 3.3‰), and importantly, propagated variation to subsequent estimates of NR. However, NR proved robust to such variation and distinguished food chain length well, though some overlap between longer food chains infers a need for awareness of such limitations. δ(13)C discrimination was inconsistent; generally no change or small significant enrichment was observed. Consequently, estimates of CR changed little with increasing food chain length, showing the potential utility of δ(13)C as a tracer of energy pathways. This study serves as a robust test of isotopic quantification of food chain structure, and given global estimates of aquatic food chains approximate four trophic levels while many food chains include invertebrates, our use of four trophic level plant-invertebrate food chains makes our findings relevant for a majority of

  18. Quantifying early 17th century changes in Chesapeake Bay estuarine carbon dynamics from James River, VA oyster geochemistry

    NASA Astrophysics Data System (ADS)

    Grimm, B. L.; Spero, H. J.; Harding, J. M.

    2012-12-01

    The first successful European colonization of North America occurred in 1607 following the arrival of English settlers at Jamestown, Virginia. Within a few decades, land use changes and clear-cutting farming practices dramatically altered the terrestrial landscape and removed the overlying canopy and stabilizing root network of the previously-dominant hardwood forests. The Eastern oyster, Crassostrea virginica, has inhabited the Chesapeake Bay since the end of the last deglaciation. During the start of the Jamestown Colony, an extensive drought (1606-1612) shifted James River salinity zones upriver, expanding the available oyster habitat to the vicinity of Jamestown. This allowed the colonists to collect and eat oysters from areas near the colony down to the river's entry into the bay, and later discard the shells in wells and trash pits that have recently been excavated. The oysters' calcium carbonate shells discovered in these deposits act as multi-year stationary recorders preserving the local environmental chemistry throughout their life until collection. Here we present δ13C, δ18O, and radiocarbon data from historical oyster shell hinge transects that encompass the time period between ~1609 and the early 1700s. Samples include shells from the 1609 Jamestown freshwater well and five additional sites, as well as modern shells collected in 2006. Because shell δ13C and radiocarbon (14C) reflect James River δ13CDIC, it is possible to document carbon source changes during this period of land use change. Our preliminary data suggest a decrease in ambient δ13CDIC of approximately 2‰ between just prior to 1609 conditions and the modern estuary. This is most likely due to an increase in isotopically light organic carbon loading into the river as water moves more rapidly through the terrestrial system. Radiocarbon reservoir ages will also be presented to better constrain carbon flow through the system during this period of disturbance. δ18O measurements from the

  19. Quantifying the Carbon Balance of Forest Restoration and Wildfire under Projected Climate in the Fire-Prone Southwestern US

    PubMed Central

    2017-01-01

    Climate projections for the southwestern US suggest a warmer, drier future and have the potential to impact forest carbon (C) sequestration and post-fire C recovery. Restoring forest structure and surface fire regimes initially decreases total ecosystem carbon (TEC), but can stabilize the remaining C by moderating wildfire behavior. Previous research has demonstrated that fire maintained forests can store more C over time than fire suppressed forests in the presence of wildfire. However, because the climate future is uncertain, I sought to determine the efficacy of forest management to moderate fire behavior and its effect on forest C dynamics under current and projected climate. I used the LANDIS-II model to simulate carbon dynamics under early (2010–2019), mid (2050–2059), and late (2090–2099) century climate projections for a ponderosa pine (Pinus ponderosa) dominated landscape in northern Arizona. I ran 100-year simulations with two different treatments (control, thin and burn) and a 1 in 50 chance of wildfire occurring. I found that control TEC had a consistent decline throughout the simulation period, regardless of climate. Thin and burn TEC increased following treatment implementation and showed more differentiation than the control in response to climate, with late-century climate having the lowest TEC. Treatment efficacy, as measured by mean fire severity, was not impacted by climate. Fire effects were evident in the cumulative net ecosystem exchange (NEE) for the different treatments. Over the simulation period, 32.8–48.9% of the control landscape was either C neutral or a C source to the atmosphere and greater than 90% of the thin and burn landscape was a moderate C sink. These results suggest that in southwestern ponderosa pine, restoring forest structure and surface fire regimes provides a reasonable hedge against the uncertainty of future climate change for maintaining the forest C sink. PMID:28046079

  20. Towards a more comprehensive modelling framework to quantify vertical and lateral carbon fluxes in the agricultural soils of the EU

    NASA Astrophysics Data System (ADS)

    Lugato, Emanuele; Paustian, Keith; Panagos, Panos; Jones, Arwyn; Borrelli, Pasquale

    2016-04-01

    Under the international protocols aiming at reducing the climate change impact, the land use sector is, likely, one of most complex to be accounted for greenhouse gas (GHG) emission and removal. This is related to its fragmentation and the complex biogeochemical feedbacks interacting with the human activity. Among those feedbacks, the role of erosion in the global carbon (C) cycle is not totally disentangled, leading to disagreement whether this process induces lands to be a source or sink of CO2. To investigate this issue, we coupled soil erosion into a biogeochemistry model, running at 1 km2 resolution across the agricultural soils of the European Union (EU). Based on data-driven assumptions, the simulation took into account also soil deposition within grid cells and the potential C export to riverine systems, in a way to be conservative in a mass balance. We estimated that 143 out of 187 Mha have C erosion rates <0.05 Mg C ha-1 yr-1, although some hot-spot areas showed eroded soil organic C >0.45 Mg C ha-1 yr-1. Exploring different assumptions on short-term enhancement C mineralization during soil displacement/transport, enrichment factor of eroded C and sub-soil organic C composition, we estimated an average net CO2 flux ranging from -2.28 (source) to +3.73 (sink) Tg yr-1 of CO2eq, in comparison with a baseline without erosion. Moreover, the erosion-induced sink of atmospheric carbon was comprised between 0 to 50% of the carbon transported by erosion and varied markedly across the EU. While we first integrated most of all relevant processes and C fluxes in a comprehensive model framework, additional experimental data need to be collected for representing specific processes in a more mechanistic way.

  1. A comparison of two methods for quantifying soil organic carbon of alpine grasslands on the Tibetan Plateau.

    PubMed

    Chen, Litong; Flynn, Dan F B; Jing, Xin; Kühn, Peter; Scholten, Thomas; He, Jin-Sheng

    2015-01-01

    As CO2 concentrations continue to rise and drive global climate change, much effort has been put into estimating soil carbon (C) stocks and dynamics over time. However, the inconsistent methods employed by researchers hamper the comparability of such works, creating a pressing need to standardize the methods for soil organic C (SOC) quantification by the various methods. Here, we collected 712 soil samples from 36 sites of alpine grasslands on the Tibetan Plateau covering different soil depths and vegetation and soil types. We used an elemental analyzer for soil total C (STC) and an inorganic carbon analyzer for soil inorganic C (SIC), and then defined the difference between STC and SIC as SOCCNS. In addition, we employed the modified Walkley-Black (MWB) method, hereafter SOCMWB. Our results showed that there was a strong correlation between SOCCNS and SOCMWB across the data set, given the application of a correction factor of 1.103. Soil depth and soil type significantly influenced on the recovery, defined as the ratio of SOCMWB to SOCCNS, and the recovery was closely associated with soil carbonate content and pH value as well. The differences of recovery between alpine meadow and steppe were largely driven by soil pH. In addition, statistically, a relatively strong correlation between SOCCNS and STC was also found, suggesting that it is feasible to estimate SOCCNS stocks through the STC data across the Tibetan grasslands. Therefore, our results suggest that in order to accurately estimate the absolute SOC stocks and its change in the Tibetan alpine grasslands, adequate correction of the modified WB measurements is essential with correct consideration of the effects of soil types, vegetation, soil pH and soil depth.

  2. Quantifying the Carbon Balance of Forest Restoration and Wildfire under Projected Climate in the Fire-Prone Southwestern US.

    PubMed

    Hurteau, Matthew D

    2017-01-01

    Climate projections for the southwestern US suggest a warmer, drier future and have the potential to impact forest carbon (C) sequestration and post-fire C recovery. Restoring forest structure and surface fire regimes initially decreases total ecosystem carbon (TEC), but can stabilize the remaining C by moderating wildfire behavior. Previous research has demonstrated that fire maintained forests can store more C over time than fire suppressed forests in the presence of wildfire. However, because the climate future is uncertain, I sought to determine the efficacy of forest management to moderate fire behavior and its effect on forest C dynamics under current and projected climate. I used the LANDIS-II model to simulate carbon dynamics under early (2010-2019), mid (2050-2059), and late (2090-2099) century climate projections for a ponderosa pine (Pinus ponderosa) dominated landscape in northern Arizona. I ran 100-year simulations with two different treatments (control, thin and burn) and a 1 in 50 chance of wildfire occurring. I found that control TEC had a consistent decline throughout the simulation period, regardless of climate. Thin and burn TEC increased following treatment implementation and showed more differentiation than the control in response to climate, with late-century climate having the lowest TEC. Treatment efficacy, as measured by mean fire severity, was not impacted by climate. Fire effects were evident in the cumulative net ecosystem exchange (NEE) for the different treatments. Over the simulation period, 32.8-48.9% of the control landscape was either C neutral or a C source to the atmosphere and greater than 90% of the thin and burn landscape was a moderate C sink. These results suggest that in southwestern ponderosa pine, restoring forest structure and surface fire regimes provides a reasonable hedge against the uncertainty of future climate change for maintaining the forest C sink.

  3. Quantifying the energetics and length scales of carbon segregation to α-Fe symmetric tilt grain boundaries using atomistic simulations

    NASA Astrophysics Data System (ADS)

    Rhodes, N. R.; Tschopp, M. A.; Solanki, K. N.

    2013-04-01

    Segregation of impurities to grain boundaries (GBs) plays an important role in both the stability and macroscopic behavior of polycrystalline materials. The research objective in this work is to better characterize the energetics and length scales involved with the process of solute and impurity segregation to GBs. Molecular statics simulations are used to calculate the segregation energies for carbon within multiple substitutional and interstitial GB sites over a database of 125 symmetric tilt GBs in Fe. The simulation results show that there are two energetically favorable GB segregation processes: (1) an octahedral C atom in the lattice segregating to an interstitial GB site and (2) an octahedral C atom and a vacancy in the lattice segregating to a grain boundary substitutional site. In both cases, lower segregation energies than appear in the bulk lattice were calculated. Moreover, based on segregation energies approaching bulk values, the length scale of interaction is larger for interstitial C than for substitutional C in the GB (≈5 Å compared to ≈3 Å from center of the GB). A subsequent data reduction and statistical representation of this dataset provides critical information about the mean segregation energy and the associated energy distributions for carbon atoms as a function of distance from the grain boundary, which quantitatively informs higher scale models with energetics and length scales necessary for capturing the segregation behavior of alloying elements and impurities in Fe. The significance of this research is the development of a methodology capable of ascertaining segregation energies over a wide range of GB character (typical of that observed in polycrystalline materials), which herein has been applied to carbon segregation to substitutional and interstitial sites in a specific class of GBs in α-Fe.

  4. Measuring carbon and N2 fixation in field populations of colonial and free-living unicellular cyanobacteria using nanometer-scale secondary ion mass spectrometry(1).

    PubMed

    Foster, Rachel A; Sztejrenszus, Saar; Kuypers, Marcel M M

    2013-06-01

    Unicellular cyanobacteria are now recognized as important to the marine N and C cycles in open ocean gyres, yet there are few direct in situ measurements of their activities. Using a high-resolution nanometer scale secondary ion mass spectrometer (nanoSIMS), single cell N2 and C fixation rates were estimated for unicellular cyanobacteria resembling N2 fixer Crocosphaera watsonii. Crocosphaera watsonii-like cells were observed in the subtropical North Pacific gyre (22°45' N, 158°0' W) as 2 different phenotypes: colonial and free-living. Colonies containing 3-242 cells per colony were observed and cell density in colonies increased with incubation time. Estimated C fixation rates were similarly high in both phenotypes and unexpectedly for unicellular cyanobacteria 85% of the colonial cells incubated during midday were also enriched in (15) N above natural abundance. Highest (15) N enrichment and N2 fixation rates were found in cells incubated overnight where up to 64% of the total daily fixed N in the upper surface waters was attributed to both phenotypes. The colonial cells retained newly fixed C in a sulfur-rich matrix surrounding the cells and often cells of both phenotypes possessed areas (<1 nm) of enriched (15) N and (13) C resembling storage granules. The nanoSIMS imaging of the colonial cells also showed evidence for a division of N2 and C fixation activity across the colony where few individual cells (<34%) in a given colony were enriched in both (15) N and (13) C above the colony average. Our results provide new insights into the ecophysiology of unicellular cyanobacteria.

  5. Guide to radiation fixatives

    SciTech Connect

    Tawil, J.J.; Bold, F.C.

    1983-11-01

    This report identifies and then characterizes a variety of substances available in the market place for potential effectiveness as a fixative on radiologically contaminated surfaces. The substances include both generic chemicals and proprietary products. In selecting a fixative for a particular application, several attributes of the fixative may be relevant to the choice. These attributes include: toxicity, durability, and cleanliness and removability. In addition to the attributes of the fixative, one should also take into account certain characteristics of the site to be treated. These characteristics relate to climate, nature of the surface, use to which the treated surface will be put, subsequent cleanup operations, and type of neighboring surfaces. Finally, costs and potential environmental effects may influence the decision. A variety of fixatives are evaluated with respect to these various attributes and summarized in a reference table.

  6. Cell fixatives for immunostaining.

    PubMed

    Jamur, Maria Célia; Oliver, Constance

    2010-01-01

    Fixation is one of the most critical steps in immunostaining. The object of fixation is to achieve good morphological preservation, while at the same time preserving antigenicity. Tissue blocks, sections, cell cultures or smears are usually immersed in a fixative solution, while in other situations, whole body perfusion of experimental animals is preferable. Fixation can be accomplished by either chemical or physical methods. The chemical methods include cross-linking agents such as formaldehyde, glutaraldehyde and succinimide esters as well as solvents such as acetone and methanol, which precipitate proteins. Of the physical methods, freezing tissue and air drying are most widely used. This chapter deals with the chemical fixation methods most commonly used for light microscopy.

  7. Quantifying diagenetic and stratigraphic controls on fracture intensity in platform carbonates: An example from the Sierra Madre Oriental, northeast Mexico

    NASA Astrophysics Data System (ADS)

    Ortega, Orlando J.; Gale, Julia F. W.; Marrett, Randall

    2010-12-01

    Normalized fracture intensity measured along 1D scanlines was used to compare fracture intensity for different sedimentary facies, stratigraphic position, bed thickness and degree of dolomitization in carbonate beds of the Cupido and Tamaulipas formations, northeast Mexico. We calculated the fracture intensity for individual beds, for single and combined fracture sets, and the statistical significance of relationships using bivariate weighted regressions and multivariate methods. Results suggest that the degree of dolomitization is positively correlated with fracture intensity and has the strongest correlation, followed by the position of the bed in the stratigraphic cycle and the mud content. Dolomite content, normalized position in the parasequence, environment of deposition, and mud content show a significant degree of correlation among themselves and should be considered dependent variables for statistical purposes. Geological observations suggest that dolomite precipitation and fracturing occurred, at least in part, synchronously in these rocks. A fracture-intensity distribution model integrating sequence-stratigraphic and diagenetic history is proposed for the Cupido and Tamaulipas formations with potential use in similar carbonate successions. Our analysis does not support the classic bed-thickness-fracture-spacing relationship.

  8. A combined methodology using electrical resistivity tomography, ordinary kriging and porosimetry for quantifying total C trapped in carbonate formations associated with natural analogues for CO2 leakage

    NASA Astrophysics Data System (ADS)

    Prado-Pérez, A. J.; Aracil, E.; Pérez del Villar, L.

    2014-06-01

    Currently, carbon deep geological storage is one of the most accepted methods for CO2 sequestration, being the long-term behaviour assessment of these artificial systems absolutely essential to guarantee the safety of the CO2 storage. In this sense, hydrogeochemical modelling is being used for evaluating any artificial CO2 deep geological storage as a potential CO2 sinkhole and to assess the leakage processes that are usually associated with these engineered systems. Carbonate precipitation, as travertines or speleothems, is a common feature in the CO2 leakage scenarios and, therefore, is of the utmost importance to quantify the total C content trapped as a stable mineral phase in these carbonate formations. A methodology combining three classical techniques such as: electrical resistivity tomography, geostatistical analysis and mercury porosimetry is described in this work, which was developed for calculating the total amount of C trapped as CaCO3 associated with the CO2 leakages in Alicún de las Torres natural analogue (Granada, Spain). The proposed methodology has allowed estimating the amount of C trapped as calcite, as more than 1.7 Mt. This last parameter, focussed on an artificial CO2 deep geological storage, is essential for hydrogeochemical modellers when evaluating whether CO2 storages constitute or not CO2 sinkholes. This finding is extremely important when assessing the long-term behaviour and safety of any artificial CO2 deep geological storage.

  9. High-Resolution Three-Dimensional Structural Data Quantify the Impact of Photoinhibition on Long-Term Carbon Gain in Wheat Canopies in the Field1[OPEN

    PubMed Central

    Burgess, Alexandra J.; Retkute, Renata; Pound, Michael P.; Foulkes, John; Preston, Simon P.; Jensen, Oliver E.; Pridmore, Tony P.; Murchie, Erik H.

    2015-01-01

    Photoinhibition reduces photosynthetic productivity; however, it is difficult to quantify accurately in complex canopies partly because of a lack of high-resolution structural data on plant canopy architecture, which determines complex fluctuations of light in space and time. Here, we evaluate the effects of photoinhibition on long-term carbon gain (over 1 d) in three different wheat (Triticum aestivum) lines, which are architecturally diverse. We use a unique method for accurate digital three-dimensional reconstruction of canopies growing in the field. The reconstruction method captures unique architectural differences between lines, such as leaf angle, curvature, and leaf density, thus providing a sensitive method of evaluating the productivity of actual canopy structures that previously were difficult or impossible to obtain. We show that complex data on light distribution can be automatically obtained without conventional manual measurements. We use a mathematical model of photosynthesis parameterized by field data consisting of chlorophyll fluorescence, light response curves of carbon dioxide assimilation, and manual confirmation of canopy architecture and light attenuation. Model simulations show that photoinhibition alone can result in substantial reduction in carbon gain, but this is highly dependent on exact canopy architecture and the diurnal dynamics of photoinhibition. The use of such highly realistic canopy reconstructions also allows us to conclude that even a moderate change in leaf angle in upper layers of the wheat canopy led to a large increase in the number of leaves in a severely light-limited state. PMID:26282240

  10. Quantifying Carbon Consequences of Recent Land Management and Disturbances in the Greater Yellowstone Ecosystems (GYE) by linking inventory data, remote sensing and carbon modeling

    NASA Astrophysics Data System (ADS)

    Zhao, F.; Huang, C.; Healey, S. P.; McCarter, J. B.; Garrard, C.; Zhu, Z.

    2015-12-01

    Natural disturbances and land management directly change C stored in biomass and soil pools, and can have indirect impacts on long-term C balance. The Greater Yellowstone Ecosystem (GYE), located in Central Rocky Mountains of United States, is of different land ownerships within similar environmental settings, making it an ideal site to examine the impacts of management and disturbances on regional carbon dynamics. Recent advances in the remote sensing of vegetation condition and change, along with new techniques linking remote sensing with inventory records, have allowed investigations that are much more tightly constrained to actual landscape environment, instead of hypothetical or generalized conditions. These new capabilities are built into the Forest Carbon Management Framework (ForCaMF), which is being used by the National Forest System to not only model, but to monitor across very specific management units, the impact of different kinds of disturbance on carbon storage. In this study, we used the ForCaMF approach to evaluate carbon effects of natural disturbances (e.g. wildfire) and land management (e.g. harvests) in GYE National Parks, Wilderness Area and National Forests. As might be expected, wildfire has been the dominant disturbance factor in the carbon cycle of GYE's administratively protected areas since the mid-1980s, while harvests have dominated storage trends on the managed land in the region's National Forests. Moving beyond this monitoring result but maintaining the same fidelity to historical vegetation patterns, we are also able to simulate alternative disturbance scenarios to provide landscape-specific insights to forest managers. We can estimate likely carbon storage impacts in GYE protected areas, for example, if more active fire suppression had been pursued since the mid-1980s. Likewise, we can identify differences in current carbon storage on managed lands if high harvest rates during the same period had been moderated. We discuss

  11. Bone Plug Versus Suture-Only Fixation of Meniscal Grafts

    PubMed Central

    Wang, Hongsheng; Gee, Albert O.; Hutchinson, Ian D.; Stoner, Kirsten; Warren, Russell F.; Chen, Tony O.; Maher, Suzanne A.

    2014-01-01

    Background Meniscus allograft transplantation (MAT) is primarily undertaken to relieve the symptoms associated with meniscal deficiencies. However, its ability to restore normal knee joint contact mechanics under physiological loads is still unclear. Purpose To quantify the dynamic contact mechanics associated with 2 commonly used fixation techniques in MAT of the medial compartment: transosseous suture fixation via bone plugs and suture-only fixation at the horns. Study Design Controlled laboratory study. Methods Physiological loads to mimic gait were applied across 7 human cadaveric knees on a simulator. A sensor placed on the medial tibial plateau recorded dynamic contact stresses under the following conditions: (1) intact meniscus, (2) MAT using transosseous suture fixation via bone plugs at the anterior and posterior horns, (3) MAT using suture-only fixation, and (4) total medial meniscectomy. A “remove-replace” procedure was performed to place the same autograft for both MAT conditions to minimize the variability in graft size, geometry, and material property and to isolate the effects of the fixation technique. Contact stress, contact area, and weighted center of contact stress (WCoCS) were quantified on the medial plateau throughout the stance phase. Results Knee joint contact mechanics were sensitive to the meniscal condition primarily during the first half of the gait cycle. After meniscectomy, the mean peak contact stress increased from 4.2 ± 1.2 MPa to 6.2 ± 1.0 MPa (P = .04), and the mean contact area decreased from 546 ± 132 mm2 to 192 ± 122 mm2 (P = .01) compared with the intact meniscus during early stance (14% of the gait cycle). After MAT, the mean contact stress significantly decreased with bone plug fixation (5.0 ± 0.7 MPa) but not with suture-only fixation (5.9 ± 0.7 MPa). Both fixation techniques partially restored the contact area, but bone plug fixation restored it closer to the intact condition. The location of WCoCS in the

  12. Quantifying uncertainties influencing the long-term impacts of oil prices on energy markets and carbon emissions

    NASA Astrophysics Data System (ADS)

    McCollum, David L.; Jewell, Jessica; Krey, Volker; Bazilian, Morgan; Fay, Marianne; Riahi, Keywan

    2016-07-01

    Oil prices have fluctuated remarkably in recent years. Previous studies have analysed the impacts of future oil prices on the energy system and greenhouse gas emissions, but none have quantitatively assessed how the broader, energy-system-wide impacts of diverging oil price futures depend on a suite of critical uncertainties. Here we use the MESSAGE integrated assessment model to study several factors potentially influencing this interaction, thereby shedding light on which future unknowns hold the most importance. We find that sustained low or high oil prices could have a major impact on the global energy system over the next several decades; and depending on how the fuel substitution dynamics play out, the carbon dioxide consequences could be significant (for example, between 5 and 20% of the budget for staying below the internationally agreed 2 ∘C target). Whether or not oil and gas prices decouple going forward is found to be the biggest uncertainty.

  13. Quantifying uncertainty of past pCO2 determined from changes in C3 plant carbon isotope fractionation

    NASA Astrophysics Data System (ADS)

    Cui, Ying; Schubert, Brian A.

    2016-01-01

    Knowledge of the past concentrations of atmospheric CO2 level (pCO2) is critical to understanding climate sensitivity to changing pCO2. Towards this, a new proxy for pCO2 has been developed based on changes in carbon isotope fractionation (Δ13C) in C3 land plants. The accuracy of this approach has been validated against ice-core pCO2 records, suggesting the potential to apply this proxy to other geological periods; however, no thorough uncertainty assessment of the proxy has been conducted. Here, we first analyze the uncertainty in the model-curve fit through the experimental data using a bootstrap approach. Then, errors of the five input parameters for the proxy are evaluated using sensitivity analysis; these include the carbon isotope composition of atmospheric CO2 (δ13CCO2) and that of the plant material (δ13Corg) for two time periods, a reference time (t = 0) and the time period of interest (t), and the value of pCO2 at time t = 0. We then propagated the errors on the reconstructed pCO2 using a Monte Carlo random sampling approach that combined the uncertainties of the curve fitting and the five inputs for a scenario in which the reference time was the Holocene with a target period for the reconstructed pCO2 during the Cenozoic. We find that the error in the reconstructed pCO2(t) increases with increasing pCO2(t), yet remains <122% (positive error) and <40% (negative error) for pCO2(t) < 1000 ppmv. The error assessment suggests that it can be used with confidence for much of the Cenozoic and perhaps the majority of the last 400 million years, which is characterized by pCO2 levels generally less than 1000 ppmv. Towards this, an application of this uncertainty analysis is presented for the Paleogene (52-63 Ma) using published data. The resulting pCO2(t) levels calculated using this method average 470 +288/-147 ppmv (1σ, n = 75), and overlap with previous pCO2(t) estimates determined for this time period using stomata, liverwort, and paleosol proxies. The

  14. Quantifying the effect of nitrogen-induced physiological and structural changes on poplar growth using a carbon-balance model.

    PubMed

    Coll, Lluís; Schneider, Robert; Berninger, Frank; Domenicano, Susy; Messier, Christian

    2011-04-01

    We evaluate the importance of changes in photosynthetic capacity, respiration rates, root shoot ratio, pipe model parameters and specific leaf area in the early-growth response of hybrid poplar to nitrogen availability. Juvenile growth simulations for trees with three different levels of leaf nitrogen concentration (N(leaf)) (low (1.2%), medium (2.4%) and high (3.6%)) were conducted with the carbon-balance model CROBAS. Five-year growth simulations showed the diameter and height of poplar trees to be, respectively, four and three times larger in plants with 2.4% N(leaf) compared with those with 1.2% N(leaf). Increasing N(leaf) from 2.4 to 3.6% resulted in 34 and 16% higher diameter and height growth of trees. According to the model, changes in the photosynthetic capacity accounted for most of the differences in growth between trees with different levels of N(leaf); the other parameters were much less influential. This suggests that in fast-growing early-successional broadleaved species such as poplars, physiological rather than allocational and morphological traits predominate in determining growth, at least under non-limiting light conditions.

  15. Quantifying resilience

    USGS Publications Warehouse

    Allen, Craig R.; Angeler, David G.

    2016-01-01

    Several frameworks to operationalize resilience have been proposed. A decade ago, a special feature focused on quantifying resilience was published in the journal Ecosystems (Carpenter, Westley & Turner 2005). The approach there was towards identifying surrogates of resilience, but few of the papers proposed quantifiable metrics. Consequently, many ecological resilience frameworks remain vague and difficult to quantify, a problem that this special feature aims to address. However, considerable progress has been made during the last decade (e.g. Pope, Allen & Angeler 2014). Although some argue that resilience is best kept as an unquantifiable, vague concept (Quinlan et al. 2016), to be useful for managers, there must be concrete guidance regarding how and what to manage and how to measure success (Garmestani, Allen & Benson 2013; Spears et al. 2015). Ideas such as ‘resilience thinking’ have utility in helping stakeholders conceptualize their systems, but provide little guidance on how to make resilience useful for ecosystem management, other than suggesting an ambiguous, Goldilocks approach of being just right (e.g. diverse, but not too diverse; connected, but not too connected). Here, we clarify some prominent resilience terms and concepts, introduce and synthesize the papers in this special feature on quantifying resilience and identify core unanswered questions related to resilience.

  16. Quantifying the impacts of piñon mortality on ecosystem-scale carbon and water cycling: a twinned flux tower approach

    NASA Astrophysics Data System (ADS)

    Fox, A. M.; Litvak, M. E.; McDowell, N.; Rahn, T.; Ryan, M. G.

    2010-12-01

    Piñon-juniper (PJ) woodlands, which occupy 24 million ha throughout the Southwest, proved to be extremely vulnerable to an extended drought that began in 1999, leading to an abrupt die-off of 40 to 95% of piñon pine (Pinus edulis) and 2-25% of juniper (Juniperus monosperma) in less than 3 years. Climate predictions for the region suggest such droughts are likely to become more frequent and widespread in the future, extending northwards. Such large-scale change in vegetation has the potential to trigger rapid changes in ecosystem carbon dynamics and the local and regional hydrologic cycle. We are using a twinned ecosystem-scale manipulation study to quantify the transient dynamics of carbon and water flux responses to piñon mortality. A combination of eddy covariance, soil respiration and moisture, sap flow and biomass carbon pool measurements are being made at an undisturbed PJ woodland (control) site and at a manipulation site within 2 miles of the control where all piñon trees greater than 7 cm diameter at breast height within the 4 ha flux footprint were killed in September 2009 using girdling and herbicide injection following 6 months of background measurements. We hypothesis that piñon mortality alters the local scale carbon cycle by shifting a large stock of carbon from productive biomass to detritus, leading to an initial decrease in net primary production and an increase in ecosystem respiration and net carbon flux to the atmosphere. However, reduced competition for water in these water-limited ecosystems and increased light availability may lead to compensatory growth in surviving small piñon, juniper and understory vegetation, offsetting or exceeding the expected reduction in NPP from piñon mortality. Because litter and coarse woody debris are slow to decompose in semiarid environments we hypothesize that the manipulation site will continue to be net carbon sources even after NPP recovers. Our general hypothesis for the local scale water cycle is

  17. The Path of Carbon in Photosynthesis XIII. pH Effects in C{sup 14}O{sub 2} Fixation by Scenedesmus

    DOE R&D Accomplishments Database

    Ouellet, C.; Benson, A. A.

    1951-10-23

    The rates of photosynthesis and dark fixation of C{sup 14}O{sub 2} in Scenedesmus have been compared in dilute phosphate buffers of 1.6 to 11.4 pH; determination of C{sup 14} incorporation into the various products shows enhancement of uptake in an acid medium into sucrose, polysaccharides, alanine and serine, in an alkaline medium into malic asparctic acids. kinetic experiments at extreme pH values suggest that several paths are available for CO{sub 2} assimilation. A tentative correlation of the results with the pH optima of some enzymes and resultant effects upon concentrations of intermediates is presented.

  18. The halo fixator.

    PubMed

    Bono, Christopher M

    2007-12-01

    The halo fixator may be used for the definitive treatment of cervical spine trauma, preoperative reduction in the patient with spinal deformity, and adjunctive postoperative stabilization following cervical spine surgery. Halo fixation decreases cervical motion by 30% to 96%. Absolute contraindications include cranial fracture, infection, and severe soft-tissue injury at the proposed pin sites. Relative contraindications include severe chest trauma, obesity, advanced age, and a barrel-shaped chest. In children, a computed tomography scan of the head should be obtained before pin placement to determine cranial bone thickness. Complications of halo fixation include pin loosening, pin site infection, and skin breakdown. A concerning rate of life-threatening complications, such as respiratory distress, has been reported in elderly patients. Despite a paucity of contemporary data, recent retrospective studies have demonstrated acceptable results for halo fixation in managing some upper and lower cervical spine injuries.

  19. Photographic fixative poisoning

    MedlinePlus

    Photographic fixatives are chemicals used to develop photographs. This article discusses poisoning from swallowing such chemicals. This article is for information only. DO NOT use it to treat or manage an ...

  20. A sustainable on-line CapLC method for quantifying antifouling agents like irgarol-1051 and diuron in water samples: Estimation of the carbon footprint.

    PubMed

    Pla-Tolós, J; Serra-Mora, P; Hakobyan, L; Molins-Legua, C; Moliner-Martinez, Y; Campins-Falcó, P

    2016-11-01

    In this work, in-tube solid phase microextraction (in-tube SPME) coupled to capillary LC (CapLC) with diode array detection has been reported, for on-line extraction and enrichment of booster biocides (irgarol-1051 and diuron) included in Water Frame Directive 2013/39/UE (WFD). The analytical performance has been successfully demonstrated. Furthermore, in the present work, the environmental friendliness of the procedure has been quantified by means of the implementation of the carbon footprint calculation of the analytical procedure and the comparison with other methodologies previously reported. Under the optimum conditions, the method presents good linearity over the range assayed, 0.05-10μg/L for irgarol-1051 and 0.7-10μg/L for diuron. The LODs were 0.015μg/L and 0.2μg/L for irgarol-1051 and diuron, respectively. Precision was also satisfactory (relative standard deviation, RSD<3.5%). The proposed methodology was applied to monitor water samples, taking into account the EQS standards for these compounds. The carbon footprint values for the proposed procedure consolidate the operational efficiency (analytical and environmental performance) of in-tube SPME-CapLC-DAD, in general, and in particular for determining irgarol-1051 and diuron in water samples.

  1. Quantifying biomass consumption and carbon release from the California Rim fire by integrating airborne LiDAR and Landsat OLI data

    PubMed Central

    Saatchi, Sassan; Casas, Angeles; Koltunov, Alexander; Ustin, Susan; Ramirez, Carlos; Garcia‐Gutierrez, Jorge; Balzter, Heiko

    2017-01-01

    Abstract Quantifying biomass consumption and carbon release is critical to understanding the role of fires in the carbon cycle and air quality. We present a methodology to estimate the biomass consumed and the carbon released by the California Rim fire by integrating postfire airborne LiDAR and multitemporal Landsat Operational Land Imager (OLI) imagery. First, a support vector regression (SVR) model was trained to estimate the aboveground biomass (AGB) from LiDAR‐derived metrics over the unburned area. The selected model estimated AGB with an R 2 of 0.82 and RMSE of 59.98 Mg/ha. Second, LiDAR‐based biomass estimates were extrapolated to the entire area before and after the fire, using Landsat OLI reflectance bands, Normalized Difference Infrared Index, and the elevation derived from LiDAR data. The extrapolation was performed using SVR models that resulted in R 2 of 0.73 and 0.79 and RMSE of 87.18 (Mg/ha) and 75.43 (Mg/ha) for the postfire and prefire images, respectively. After removing bias from the AGB extrapolations using a linear relationship between estimated and observed values, we estimated the biomass consumption from postfire LiDAR and prefire Landsat maps to be 6.58 ± 0.03 Tg (1012 g), which translate into 12.06 ± 0.06 Tg CO2e released to the atmosphere, equivalent to the annual emissions of 2.57 million cars.

  2. Quantifying entanglement

    NASA Astrophysics Data System (ADS)

    Thapliyal, Ashish Vachaspati

    Entanglement is an essential element of quantum mechanics. The aim of this work is to explore various properties of entanglement from the viewpoints of both physics and information science, thus providing a unique picture of entanglement from an interdisciplinary point of view. The focus of this work is on quantifying entanglement as a resource. We start with bipartite states, proposing a new measure of bipartite entanglement called entanglement of assistance, showing that bound entangled states of rank two cannot exist, exploring the number of members required in the ensemble achieving the entanglement of formation and the possibility of bound entangled states that are negative under partial transposition (NPT bound entangled states). For multipartite states we introduce the notions of reducibilities and equivalences under entanglement non-increasing operations and we study the relations between various reducibilities and equivalences such as exact and asymptotic LOCC, asymptotic LOCCq, cLOCC, LOc, etc. We use this new language to attempt to quantify entanglement for multiple parties. We introduce the idea of entanglement span and minimal entanglement generating set and entanglement coefficients associated with it which are the entanglement measures, thus proposing a multicomponent measure of entanglement for three or more parties. We show that the class of Schmidt decomposable states have only GHZM or Cat-like entanglement. Further we introduce the class of multiseparable states for quantification of their entanglement and prove that they are equivalent to the Schmidt decomposable states, and thus have only Cat-like entanglement. We further explore the conditions under which LOCO equivalences are possible for multipartite isentropic states. We define Cat-distillability, EPRB-distillability and distillability for multipartite mixed states and show that distillability implies EPRB-distillability. Further we show that all non-factorizable pure states are Cat

  3. Major contribution of autotrophy to microbial carbon cycling in the deep North Atlantic’s interior

    NASA Astrophysics Data System (ADS)

    Reinthaler, Thomas; van Aken, Hendrik M.; Herndl, Gerhard J.

    2010-08-01

    Current estimates point to a mismatch of particulate organic carbon supply derived from the surface ocean and the microbial organic carbon demand in the meso- and bathypelagic realm. Based on recent findings that chemoautotrophic Crenarchaeota are abundant in the mesopelagic zone, we quantified dissolved inorganic carbon (DIC) fixation in the meso- and bathypelagic North Atlantic and compared it with heterotrophic microbial activity. Measuring 14C-bicarbonate fixation and 3H-leucine incorporation revealed that microbial DIC fixation is substantial in the mesopelagic water masses, ranging from 0.1 to 56.7 μmol C m -3 d -1, and is within the same order of magnitude as heterotrophic microbial activity. Integrated over the dark ocean's water column, DIC fixation ranged from 1-2.5 mmol C m -2 d -1, indicating that chemoautotrophy in the dark ocean represents a significant source of autochthonously produced 'new organic carbon' in the ocean's interior amounting to about 15-53% of the phytoplankton export production. Hence, chemoautotrophic DIC fixation in the oxygenated meso- and bathypelagic water column of the North Atlantic might substantially contribute to the organic carbon demand of the deep-water microbial food web.

  4. A batch study on the bio-fixation of carbon dioxide in the absorbed solution from a chemical wet scrubber by hot spring and marine algae.

    PubMed

    Hsueh, H T; Chu, H; Yu, S T

    2007-01-01

    Carbon dioxide mass transfer is a key factor in cultivating micro-algae except for the light limitation of photosynthesis. It is a novel idea to enhance mass transfer with the cyclic procedure of absorbing CO(2) with a high performance alkaline abosorber such as a packed tower and regenerating the alkaline solution with algal photosynthesis. Hence, the algae with high affinity for alkaline condition must be purified. In this study, a hot spring alga (HSA) was purified from an alkaline hot spring (pH 9.3, 62 degrees C) in Taiwan and grows well over pH 11.5 and 50 degrees C. For performance of HSA, CO(2) removal efficiencies in the packed tower increase about 5-fold in a suitable growth condition compared to that without adding any potassium hydroxide. But ammonia solution was not a good choice for this system with regard to carbon dioxide removal efficiency because of its toxicity on HSA. In addition, HSA also exhibits a high growth rate under the controlled pHs from 7 to 11. Besides, a well mass balance of carbon and nitrogen made sure that less other byproducts formed in the procedure of carboxylation. For analysis of some metals in HSA, such as Mg, Mn, Fe, Zn, related to the photosynthesis increased by a rising cultivated pH and revealed that those metals might be accumulated under alkaline conditions but the growth rate was still limited by the ratio of bicarbonate (useful carbon source) and carbonate. Meanwhile, Nannochlopsis oculta (NAO) was also tested under different additional carbon sources. The results revealed that solutions of sodium/potassium carbonate are better carbon sources than ammonia carbonate/bicarbonate for the growth of NAO. However, pH 9.6 of growth limitation based on sodium was lower than one of HSA. The integrated system is, therefore, more feasible to treat CO(2) in the flue gases using the algae with higher alkaline affinity such as HSA in small volume bioreactors.

  5. The Fixation of Nitrogen.

    ERIC Educational Resources Information Center

    Andrew, S. P. S.

    1978-01-01

    Discusses the fixation of atmospheric nitrogen in the form of ammonia as one of the foundations of modern chemical industry. The article describes ammonia production and synthesis, purifying the hydrogen-nitrogen mix, nitric acid production, and its commericial plant. (HM)

  6. CO(2) fixation through hydrogenation by chemical or enzymatic methods.

    PubMed

    Beller, Matthias; Bornscheuer, Uwe T

    2014-04-25

    Two birds with one stone: The simulaneous fixation of the greenhouse gas carbon dioxide and storage of the alternative fuel hydrogen can be accomplished with the formation of formic acid. In principle, this is now possible either with an enzymatic system based on a newly discovered bacterial hydrogen-dependent carbon dioxide reductase or by using organometallic catalysts at room temperature and ambient pressure.

  7. Successional changes in soil nitrogen availability, non-symbiotic nitrogen fixation and carbon/nitrogen ratios in southern Chilean forest ecosystems.

    PubMed

    Pérez, Cecilia A; Carmona, Martín R; Aravena, Juan C; Armesto, Juan J

    2004-08-01

    Vast areas of southern Chile are now covered by second-growth forests because of fire and logging. To study successional patterns after moderate-intensity, anthropogenic fire disturbance, we assessed differences in soil properties and N fluxes across a chronosequence of seven successional stands (2-130 years old). We examined current predictions of successional theory concerning changes in the N cycle in forest ecosystems. Seasonal fluctuations of net N mineralization (N(min)) in surface soil and N availability (N(a); N(a)=NH4+-N+NO3--N) in upper and deep soil horizons were positively correlated with monthly precipitation. In accordance with theoretical predictions, stand age was positively, but weakly related to both N(a) ( r(2)=0.282, P<0.001) and total N (N(tot); r(2)=0.192, P<0.01), and negatively related to soil C/N ratios ( r(2)=0.187, P<0.01) in surface soils. A weak linear increase in soil N(min) (upper plus deep soil horizons) was found across the chronosequence ( r(2)=0.124, P<0.022). N(min) occurred at modest rates in early successional stands, suggesting that soil disturbance did not impair microbial processes. The relationship between N fixation (N(fix)) in the litter layer and stand age best fitted a quadratic model ( r(2)=0.228, P<0.01). In contrast to documented successional trends for most temperate, tropical and Mediterranean forests, non-symbiotic N(fix) in the litter layer is a steady N input to unpolluted southern temperate forests during mid and late succession, which may compensate for hydrological losses of organic N from old-growth ecosystems.

  8. Asymmetric self-assembly with atmospheric CO2 fixation of a pentanuclear carbonate NiI) complex based on dissimilar building blocks.

    PubMed

    Fondo, Matilde; García-Deibe, Ana M; Ocampo, Noelia; Sanmartín, Jesús; Bermejo, Manuel R

    2007-01-28

    Formation in basic solution of an asymmetric pentanuclear carbonate Ni(II) complex with a compartmental ligand involves atmospheric CO(2) uptake, either by reaction of two slightly different dinuclear precursors that yield its di- and trinuclear "building blocks", or directly, by spontaneous self-organization of metal and ligand starting reactants.

  9. Synthetic biology for CO2 fixation.

    PubMed

    Gong, Fuyu; Cai, Zhen; Li, Yin

    2016-11-01

    Recycling of carbon dioxide (CO2) into fuels and chemicals is a potential approach to reduce CO2 emission and fossil-fuel consumption. Autotrophic microbes can utilize energy from light, hydrogen, or sulfur to assimilate atmospheric CO2 into organic compounds at ambient temperature and pressure. This provides a feasible way for biological production of fuels and chemicals from CO2 under normal conditions. Recently great progress has been made in this research area, and dozens of CO2-derived fuels and chemicals have been reported to be synthesized by autotrophic microbes. This is accompanied by investigations into natural CO2-fixation pathways and the rapid development of new technologies in synthetic biology. This review first summarizes the six natural CO2-fixation pathways reported to date, followed by an overview of recent progress in the design and engineering of CO2-fixation pathways as well as energy supply patterns using the concept and tools of synthetic biology. Finally, we will discuss future prospects in biological fixation of CO2.

  10. Novel posterior fixation keratoprosthesis

    NASA Astrophysics Data System (ADS)

    Lacombe, Emmanuel

    1992-08-01

    The keratoprosthesis is the last solution for corneally blind patients that cannot benefit from corneal transplants. Keratoprostheses that have been designed to be affixed anteriorly usually necessitate multi-step surgical procedures and are continuously subjected to the extrusion forces generated by the positive intraocular pressure; therefore, clinical results in patients prove inconsistent. We proposed a novel keratoprosthesis concept that utilizes posterior corneal fixation which `a priori' minimizes the risk of aqueous leakage and expulsion. This prosthesis is implanted in a single procedure thereby reducing the number of surgical complications normally associated with anterior fixation devices. In addition, its novel design makes this keratoprosthesis implantable in phakic eyes. With an average follow-up of 13 months (range 3 to 25 months), our results on 21 cases are encouraging. Half of the keratoprostheses were implanted in severe burn cases, with the remainder in cases of pseudo- pemphigus. Good visual results and cosmetic appearance were obtained in 14 of 21 eyes.

  11. Biological Nitrogen Fixation In Tropical Dry Forests Of Costa Rica

    NASA Astrophysics Data System (ADS)

    Gei, M. G.; Powers, J. S.

    2012-12-01

    Evidence suggests that tropical dry forests (TDF) are not nitrogen (N) deficient. This evidence includes: high losses of gaseous nitrogen during the rainy season, high ecosystem soil N stocks and high N concentrations in leaves and litterfall. Its been commonly hypothesized that biological nitrogen fixation is responsible for the high availability of N in tropical soils. However, the magnitude of this flux has rarely if ever been measured in tropical dry forests. Because of the high cost of fixing N and the ubiquity of N fixing legume trees in the TDF, at the individual tree level symbiotic fixation should be a strategy down-regulated by the plant. Our main goal was to determine the rates of and controls over symbiotic N fixation. We hypothesized that legume tree species employ a facultative strategy of nitrogen fixation and that this process responds to changes in light availability, soil moisture and nutrient supply. We tested this hypothesis both on naturally established trees in a forest and under controlled conditions in a shade house by estimating the quantities of N fixed annually using the 15N natural abundance method, counting nodules, and quantifying (field) or manipulating (shade house) the variation in important environmental variables (soil nutrients, soil moisture, and light). We found that in both in our shade house experiment and in the forest, nodulation varied among different legume species. For both settings, the 15N natural abundance approach successfully detected differences in nitrogen fixation among species. The legume species that we studied were able to regulate fixation depending on the environmental conditions. They showed to have different strategies of nitrogen fixation that follow a gradient of facultative to obligate fixation. Our data suggest that there exists a continuum of nitrogen fixation strategies among species. Any efforts to define tropical legume trees as a functional group need to incorporate this variation.

  12. Understanding Nitrogen Fixation

    SciTech Connect

    Paul J. Chirik

    2012-05-25

    synthesis of ammonia, NH{sub 3}, from its elements, H{sub 2} and N{sub 2}, via the venerable Haber-Bosch process is one of the most significant technological achievements of the past century. Our research program seeks to discover new transition metal reagents and catalysts to disrupt the strong N {triple_bond} N bond in N{sub 2} and create new, fundamental chemical linkages for the construction of molecules with application as fuels, fertilizers and fine chemicals. With DOE support, our group has discovered a mild method for ammonia synthesis in solution as well as new methods for the construction of nitrogen-carbon bonds directly from N{sub 2}. Ideally these achievements will evolve into more efficient nitrogen fixation schemes that circumvent the high energy demands of industrial ammonia synthesis. Industrially, atmospheric nitrogen enters the synthetic cycle by the well-established Haber-Bosch process whereby N{sub 2} is hydrogenated to ammonia at high temperature and pressure. The commercialization of this reaction represents one of the greatest technological achievements of the 20th century as Haber-Bosch ammonia is responsible for supporting approximately 50% of the world's population and serves as the source of half of the nitrogen in the human body. The extreme reaction conditions required for an economical process have significant energy consequences, consuming 1% of the world's energy supply mostly in the form of pollution-intensive coal. Moreover, industrial H{sub 2} synthesis via the water gas shift reaction and the steam reforming of methane is fossil fuel intensive and produces CO{sub 2} as a byproduct. New synthetic methods that promote this thermodynamically favored transformation ({Delta}G{sup o} = -4.1 kcal/mol) under milder conditions or completely obviate it are therefore desirable. Most nitrogen-containing organic molecules are derived from ammonia (and hence rely on the Haber-Bosch and H{sub 2} synthesis processes) and direct synthesis from

  13. Quantifying the transient carbon dynamics of ecosystem scale carbon cycle responses to piñon pine mortality using a large-scale experimental manipulation, remote sensing and model-data fusion

    NASA Astrophysics Data System (ADS)

    Litvak, M. E.; Hilton, T. W.; Krofcheck, D. J.; Fox, A. M.; Robinson, E.; McDowell, N. G.; Rahn, T.; Sinsabaugh, R.

    2012-12-01

    The southwestern United States experienced an extended drought from 1999-2002 which led to widespread coniferous tree mortality throughout New Mexico, Arizona, Utah and Colorado. Piñon-juniper (PJ) woodlands, which occupy 24 million ha throughout the Southwest, proved to be extremely vulnerable to this drought, experiencing 40 to 95% mortality of piñon pine (Pinus edulis) and 2-25% mortality of juniper (Juniperus monosperma) in less than 3 years (Breshears et al., 2005). Understanding the response trajectories of these woodlands is crucial given that climate projections for the region suggest that episodic droughts, such as the one correlated with these recent conifer mortality, are likely to increase in frequency and severity and to expand northward. We are using a combination of eddy covariance, soil respiration, sap flow and biomass carbon pool measurements made at: (i) an undisturbed PJ woodland (control) in central New Mexico and at a manipulation site within 2 miles of the control where all piñon trees greater than 7 cm diameter at breast height within the 4 ha flux footprint were girdled (decreasing LAI by ~ 1/3) to quantify the response of ecosystem carbon and water dynamics in PJ woodlands to widespread piñon mortality. As expected, piñon mortality triggered an abrupt shift in carbon stocks from productive biomass to detritus, leading to a 25% decrease in gross primary production, and >50% decrease in net ecosystem production in the two years following mortality. Because litter and course woody debris are slow to decompose in these semiarid environments, ecosystem respiration initially decreased following mortality, and only increased two years post mortality following a large monsoon precipitation event. In the three years following mortality, reduced competition for water in these water limited ecosystems and increased light availability has triggered compensatory growth in understory vegetation observed in both remote sensing and ground

  14. Quantifying the impact of daily and seasonal variation in sap pH on xylem dissolved inorganic carbon estimates in plum trees.

    PubMed

    Erda, F G; Bloemen, J; Steppe, K

    2014-01-01

    In studies on internal CO2 transport, average xylem sap pH (pH(x)) is one of the factors used for calculation of the concentration of dissolved inorganic carbon in the xylem sap ([CO2 *]). Lack of detailed pH(x) measurements at high temporal resolution could be a potential source of error when evaluating [CO2*] dynamics. In this experiment, we performed continuous measurements of CO2 concentration ([CO2]) and stem temperature (T(stem)), complemented with pH(x) measurements at 30-min intervals during the day at various stages of the growing season (Day of the Year (DOY): 86 (late winter), 128 (mid-spring) and 155 (early summer)) on a plum tree (Prunus domestica L. cv. Reine Claude d'Oullins). We used the recorded pH(x) to calculate [CO2*] based on T(stem) and the corresponding measured [CO2]. No statistically significant difference was found between mean [CO2*] calculated with instantaneous pH(x) and daily average pH(x). However, using an average pH(x) value from a different part of the growing season than the measurements of [CO2] and T(stem) to estimate [CO2*] led to a statistically significant error. The error varied between 3.25 ± 0.01% under-estimation and 3.97 ± 0.01% over-estimation, relative to the true [CO2*] data. Measured pH(x) did not show a significant daily variation, unlike [CO2], which increased during the day and declined at night. As the growing season progressed, daily average [CO2] (3.4%, 5.3%, 7.4%) increased and average pH(x) (5.43, 5.29, 5.20) decreased. Increase in [CO2] will increase its solubility in xylem sap according to Henry's law, and the dissociation of [CO2*] will negatively affect pH(x). Our results are the first quantifying the error in [CO2*] due to the interaction between [CO2] and pH(x) on a seasonal time scale. We found significant changes in pH(x) across the growing season, but overall the effect on the calculation of [CO2*] remained within an error range of 4%. However, it is possible that the error could be more

  15. Using (137)Cs to quantify the redistribution of soil organic carbon and total N affected by intensive soil erosion in the headwaters of the Yangtze River, China.

    PubMed

    Guoxiao, Wei; Yibo, Wang; Yan Lin, Wang

    2008-12-01

    Characteristics of soil organic carbon (SOC) and total nitrogen (total N) are important for determining the overall quality of soils. Studies on spatial and temporal variation in SOC and total N are of great importance because of global environmental concerns. Soil erosion is one of the major processes affecting the redistribution of SOC and total N in the test fields. To characterize the distribution and dynamics of SOC and N in the intensively eroded soil of the headwaters of the Yangtze River, China, we measured profiles of soil organic C, total N stocks, and (137)Cs in a control plot and a treatment plot. The amounts of SOC, (137)Cs of sampling soil profiles increased in the following order, lower>middle>upper portions on the control plot, and the amounts of total N of sampling soil profile increase in the following order: upper>middle>lower on the control plot. Intensive soil erosion resulted in a significant decrease of SOC amounts by 34.9%, 28.3% and 52.6% for 0-30cm soil layer at upper, middle and lower portions and (137)Cs inventory decreased by 68%, 11% and 85% at upper, middle and lower portions, respectively. On the treatment plot total N decreased by 50.2% and 14.6% at the upper and middle portions and increased by 48.9% at the lower portion. Coefficients of variation (CVs) of SOC decreased by 31%, 37% and 30% in the upper, middle and lower slope portions, respectively. Similar to the variational trend of SOC, CVs of (137)Cs decreased by 19.2%, 0.5% and 36.5%; and total N decreased by 45.7%, 65.1% and 19% in the upper, middle and lower slope portions, respectively. The results showed that (137)Cs, SOC and total N moved on the sloping land almost in the same physical mechanism during the soil erosion procedure, indicating that fallout of (137)Cs could be used directly for quantifying dynamic SOC and total N redistribution as the soil was affected by intensive soil erosion.

  16. Unsaturated C3,5,7,9-Monocarboxylic Acids by Aqueous, One-Pot Carbon Fixation: Possible Relevance for the Origin of Life

    NASA Astrophysics Data System (ADS)

    Scheidler, Christopher; Sobotta, Jessica; Eisenreich, Wolfgang; Wächtershäuser, Günter; Huber, Claudia

    2016-06-01

    All scientific approaches to the origin of life share a common problem: a chemical path to lipids as main constituents of extant cellular enclosures. Here we show by isotope-controlled experiments that unsaturated C3,5,7,9-monocarboxylic acids form by one-pot reaction of acetylene (C2H2) and carbon monoxide (CO) in contact with nickel sulfide (NiS) in hot aqueous medium. The primary products are toto-olefinic monocarboxylic acids with CO-derived COOH groups undergoing subsequent stepwise hydrogenation with CO as reductant. In the resulting unsaturated monocarboxylic acids the double bonds are mainly centrally located with mainly trans-configuration. The reaction conditions are compatible with an origin of life in volcanic-hydrothermal sub-seafloor flow ducts.

  17. Unsaturated C3,5,7,9-Monocarboxylic Acids by Aqueous, One-Pot Carbon Fixation: Possible Relevance for the Origin of Life

    PubMed Central

    Scheidler, Christopher; Sobotta, Jessica; Eisenreich, Wolfgang; Wächtershäuser, Günter; Huber, Claudia

    2016-01-01

    All scientific approaches to the origin of life share a common problem: a chemical path to lipids as main constituents of extant cellular enclosures. Here we show by isotope-controlled experiments that unsaturated C3,5,7,9-monocarboxylic acids form by one-pot reaction of acetylene (C2H2) and carbon monoxide (CO) in contact with nickel sulfide (NiS) in hot aqueous medium. The primary products are toto-olefinic monocarboxylic acids with CO-derived COOH groups undergoing subsequent stepwise hydrogenation with CO as reductant. In the resulting unsaturated monocarboxylic acids the double bonds are mainly centrally located with mainly trans-configuration. The reaction conditions are compatible with an origin of life in volcanic-hydrothermal sub-seafloor flow ducts. PMID:27283227

  18. Unsaturated C3,5,7,9-Monocarboxylic Acids by Aqueous, One-Pot Carbon Fixation: Possible Relevance for the Origin of Life.

    PubMed

    Scheidler, Christopher; Sobotta, Jessica; Eisenreich, Wolfgang; Wächtershäuser, Günter; Huber, Claudia

    2016-06-10

    All scientific approaches to the origin of life share a common problem: a chemical path to lipids as main constituents of extant cellular enclosures. Here we show by isotope-controlled experiments that unsaturated C3,5,7,9-monocarboxylic acids form by one-pot reaction of acetylene (C2H2) and carbon monoxide (CO) in contact with nickel sulfide (NiS) in hot aqueous medium. The primary products are toto-olefinic monocarboxylic acids with CO-derived COOH groups undergoing subsequent stepwise hydrogenation with CO as reductant. In the resulting unsaturated monocarboxylic acids the double bonds are mainly centrally located with mainly trans-configuration. The reaction conditions are compatible with an origin of life in volcanic-hydrothermal sub-seafloor flow ducts.

  19. Ultrastructural analysis of adult mouse neocortex comparing aldehyde perfusion with cryo fixation

    PubMed Central

    Korogod, Natalya; Petersen, Carl CH; Knott, Graham W

    2015-01-01

    Analysis of brain ultrastructure using electron microscopy typically relies on chemical fixation. However, this is known to cause significant tissue distortion including a reduction in the extracellular space. Cryo fixation is thought to give a truer representation of biological structures, and here we use rapid, high-pressure freezing on adult mouse neocortex to quantify the extent to which these two fixation methods differ in terms of their preservation of the different cellular compartments, and the arrangement of membranes at the synapse and around blood vessels. As well as preserving a physiological extracellular space, cryo fixation reveals larger numbers of docked synaptic vesicles, a smaller glial volume, and a less intimate glial coverage of synapses and blood vessels compared to chemical fixation. The ultrastructure of mouse neocortex therefore differs significantly comparing cryo and chemical fixation conditions. DOI: http://dx.doi.org/10.7554/eLife.05793.001 PMID:26259873

  20. Histomorphometric comparison after fixation with formaldehyde or glyoxal

    PubMed Central

    Wang, YN; Lee, K; Pai, S; Ledoux, WR

    2014-01-01

    Formaldehyde has long been the fixative of choice for histological examination of tissue. The use of alternatives to formaldehyde has grown, however, owing to the serious hazards associated with its use. Companies have striven to maintain the morphological characteristics of formaldehyde-fixed tissue when developing alternatives. Glyoxal-based fixatives now are among the most popular formaldehyde alternatives. Although there are many studies that compare staining quality and immunoreactivity, there have been no studies that quantify possible structural differences. Histomorphometric analysis commonly is used to evaluate diseased tissue. We compared fixation with formaldehyde and glyoxal with regard to the histomorphological properties of plantar foot tissue using a combination of stereological methods and quantitative morphology. We measured skin thickness, interdigitation index, elastic septa thickness, and adipocyte area and diameter. No significant differences were observed between formaldehyde and glyoxal fixation for any feature measured. The glyoxal-based fixative used therefore is a suitable fixative for structural evaluation of plantar soft tissue. Measurements obtained from the glyoxal-fixed tissue can be combined with data obtained from formalin-fixed for analysis. PMID:20854226

  1. The impact of simulated chronic nitrogen deposition on the biomass and N₂-fixation activity of two boreal feather moss-cyanobacteria associations.

    PubMed

    Gundale, Michael J; Bach, Lisbet H; Nordin, Annika

    2013-01-01

    Bryophytes achieve substantial biomass and play several key functional roles in boreal forests that can influence how carbon (C) and nitrogen (N) cycling respond to atmospheric deposition of reactive nitrogen (Nr). They associate with cyanobacteria that fix atmospheric N₂, and downregulation of this process may offset anthropogenic Nr inputs to boreal systems. Bryophytes also promote soil C accumulation by thermally insulating soils, and changes in their biomass influence soil C dynamics. Using a unique large-scale (0.1 ha forested plots), long-term experiment (16 years) in northern Sweden where we simulated anthropogenic Nr deposition, we measured the biomass and N₂-fixation response of two bryophyte species, the feather mosses Hylocomium splendens and Pleurozium schreberi. Our data show that the biomass declined for both species; however, N₂-fixation rates per unit mass and per unit area declined only for H. splendens. The low and high treatments resulted in a 29% and 54% reduction in total feather moss biomass, and a 58% and 97% reduction in total N₂-fixation rate per unit area, respectively. These results help to quantify the sensitivity of feather moss biomass and N₂ fixation to chronic Nr deposition, which is relevant for modelling ecosystem C and N balances in boreal ecosystems.

  2. Nitrogen fixation apparatus

    DOEpatents

    Chen, Hao-Lin

    1984-01-01

    A method and apparatus for achieving nitrogen fixation includes a volumetric electric discharge chamber. The volumetric discharge chamber provides an even distribution of an electron beam, and enables the chamber to be maintained at a controlled energy to pressure (E/p) ratio. An E/p ratio of from 5 to 15 kV/atm of O.sub.2 /cm promotes the formation of vibrationally excited N.sub.2. Atomic oxygen interacts with vibrationally excited N.sub.2 at a much quicker rate than unexcited N.sub.2, greatly improving the rate at which NO is formed.

  3. Biological N Fixation Rates in a Tropical Dry Forest Ecosystem

    NASA Astrophysics Data System (ADS)

    Santiago, L. S.; Dawson, T. E.

    2005-12-01

    Because tropical legumes are usually the dominant family in forests of the Neotropics and Africa, they represent the greatest potential terrestrial cover of N-fixing species globally. Tropical dry forests therefore may have the greatest rates of biological N-fixation of any ecosystem type. Our objective was to determine the number of legume species that fix N along a successional gradient (10, 20, and 30 years) using a combination of nodule excavation, nodule incubations, and N isotopic composition of foliage. We also quantified non-symbiotic N-fixation by free-living fixers in litter and soil. We found that 21 out of 23 legume species were nodulated. Calculations of percent N from fixation, based on N isotopic composition, ranged from 1-78 percent for individual species. At the stand level, estimates of symbiotic N-fixation was 13.9, 23.1, and 27.8 kg N/ha/yr in 10, 20, and 30 year old forest, respectively. Total non-symbiotic N-fixation, based on acetylne reduction incubations of leaf litter, fine woody debris and surface soil, was 7.5 kg N/ha/yr during the dry season and 17.1 kg N/ha/yr during the wet season. Total ecosystem estimates were 38.5, 47.7, and 52.4 kg N/ha/yr in 10, 20, and 30 year old forest, respectively. Overall, we found that non-symbiotic N-fixation was a greater proportion of total biological N-fixation than has been reported in other tropical dry forests and savanas, but our total biological N-fixation values were similar.

  4. Conversion from temporary external fixation to definitive fixation: shaft fractures.

    PubMed

    Dougherty, Paul J; Silverton, Craig; Yeni, Yener; Tashman, Scott; Weir, Robb

    2006-01-01

    Temporary external fixation is the most common method of initial stabilization of diaphyseal fractures in forward surgical hospitals. Once the patient arrives at a stable environment, usually the United States, the fracture is managed with intramedullary nailing, small-pin external fixation, or a modified external fixator. Future research should be directed toward improving methods of care. It is not precisely known when is the best time to convert to definitive fixation without increasing the risk of infection. The risk factors leading to infection and nonunion are not well-established, making that determination even more difficult. Clinical studies of a suitable size should provide insight into these problems. Although temporary external fixation is commonly used, an optimal construct has not been determined. Data from studies of in vivo fracture-site motion after application of the temporary external fixator should be compared with biomechanical testing of similar constructs. These data could be used to recommend optimal temporary external fixation constructs of tibia, femur, and humerus fractures using currently available devices as well as to provide groundwork for the next generation of fixators.

  5. Quantifying the Impact of Mountain Pine Beetle Disturbances on Forest Carbon Pools and Fluxes in the Western US using the NCAR Community Land Model

    NASA Astrophysics Data System (ADS)

    Edburg, S. L.; Hicke, J. A.; Lawrence, D. M.; Thornton, P. E.

    2009-12-01

    Forest disturbances, such as fire, insects, and land-use change, significantly alter carbon budgets by changing carbon pools and fluxes. The mountain pine beetle (MPB) kills millions of hectares of trees in the western US, similar to the area killed by fire. Mountain pine beetles kill host trees by consuming the inner bark tissue, and require host tree death for reproduction. Despite being a significant disturbance to forested ecosystems, insects such as MPB are typically not represented in biogeochemical models, thus little is known about their impact on the carbon cycle. We investigate the role of past MPB outbreaks on carbon cycling in the western US using the NCAR Community Land Model with Carbon and Nitrogen cycles (CLM-CN). CLM-CN serves as the land model to the Community Climate System Model (CCSM), providing exchanges of energy, momentum, water, carbon, and nitrogen between the land and atmosphere. We run CLM-CN over the western US extending to eastern Colorado with a spatial resolution of 0.5° and a half hour time step. The model is first spun-up with repeated NCEP forcing (1948-1972) until carbon stocks and fluxes reach equilibrium (~ 3000 years), and then run from 1850 to 2004 with NCEP forcing and a dynamic plant functional type (PFT) database. Carbon stocks from this simulation are compared with stocks from the Forest Inventory Analysis (FIA) program. We prescribe MPB mortality area, once per year, in CLM-CN using USFS Aerial Detection Surveys (ADS) from the last few decades. We simulate carbon impacts of tree mortality by MPB within a model grid cell by moving carbon from live vegetative pools (leaf, stem, and roots) to dead pools (woody debris, litter, and dead roots). We compare carbon pools and fluxes for two simulations, one without MPB outbreaks and one with MPB outbreaks.

  6. Dinitrogen fixation and dissolved organic nitrogen fueled primary production and particulate export during the VAHINE mesocosm experiment (New Caledonia lagoon)

    NASA Astrophysics Data System (ADS)

    Berthelot, H.; Moutin, T.; L'Helguen, S.; Leblanc, K.; Hélias, S.; Grosso, O.; Leblond, N.; Charrière, B.; Bonnet, S.

    2015-07-01

    In the oligotrophic ocean characterized by nitrate (NO3-) depletion in surface waters, dinitrogen (N2) fixation and dissolved organic nitrogen (DON) can represent significant nitrogen (N) sources for the ecosystem. In this study, we deployed large in situ mesocosms in New Caledonia in order to investigate (1) the contribution of N2 fixation and DON use to primary production (PP) and particle export and (2) the fate of the freshly produced particulate organic N (PON), i.e., whether it is preferentially accumulated and recycled in the water column or exported out of the system. The mesocosms were fertilized with phosphate (PO43-) in order to prevent phosphorus (P) limitation and promote N2 fixation. The diazotrophic community was dominated by diatom-diazotroph associations (DDAs) during the first part of the experiment for 10 days (P1) followed by the unicellular N2-fixing cyanobacteria UCYN-C for the last 9 days (P2) of the experiment. N2 fixation rates averaged 9.8 ± 4.0 and 27.7 ± 8.6 nmol L-1 d-1 during P1 and P2, respectively. NO3- concentrations (< 0.04 μmol L-1) in the mesocosms were a negligible source of N, indicating that N2 fixation was the main driver of new production throughout the experiment. The contribution of N2 fixation to PP was not significantly different (p > 0.05) during P1 (9.0 ± 3.3 %) and P2 (12.6 ± 6.1 %). However, the e ratio that quantifies the efficiency of a system to export particulate organic carbon (POCexport) compared to PP (e ratio = POCexport/PP) was significantly higher (p < 0.05) during P2 (39.7 ± 24.9 %) than during P1 (23.9 ± 20.2 %), indicating that the production sustained by UCYN-C was more efficient at promoting C export than the production sustained by DDAs. During P1, PON was stable and the total amount of N provided by N2 fixation (0.10 ± 0.02 μmol L-1) was not significantly different (p > 0.05) from the total amount of PON exported (0.10 ± 0.04 μmol L-1), suggesting a rapid and probably direct export of the

  7. Dinitrogen fixation and dissolved organic nitrogen fueled primary production and particulate export during the VAHINE mesocosms experiment (New Caledonia lagoon)

    NASA Astrophysics Data System (ADS)

    Berthelot, H.; Moutin, T.; L'Helguen, S.; Leblanc, K.; Hélias, S.; Grosso, O.; Leblond, N.; Charrière, B.; Bonnet, S.

    2015-03-01

    In the oligotrophic ocean characterized by nitrate (NO3-) depletion in surface waters, dinitrogen (N2) fixation and dissolved organic nitrogen (DON) can represent significant nitrogen (N) sources for the ecosystem. Here we deployed in New Caledonia large in situ mesocosms in order to investigate (1) the contribution of N2 fixation and DON use to primary production (PP) and particle export and (2) the fate of the freshly produced particulate organic N (PON) i.e. whether it is preferentially accumulated and recycled in the water column or exported out of the system. The mesocosms were fertilized with phosphate (P) in order to prevent P-limitation and promote N2 fixation. The diazotrophic community was dominated by diatoms-diazotrophs associations (DDAs) during the first part of the experiment for 10 days (P1) followed by the unicellular N2-fixing cyanobacteria UCYN-C the 9 last days (P2) of the experiment. N2 fixation rates averaged 9.8 ± 4.0 and 27.7 ± 8.6 nM d-1 during P1 and P2, respectively. NO3- concentrations (< 40 nM) in the mesocosms were a negligible source of N indicating that N2 fixation was the main driver of new production all along the experiment. The contribution of v fixation to PP was not significantly different (p > 0.05) during P1 (9.0 ± 3.3%) and P2 (12.6 ± 6.1%). However, the e ratio that quantifies the efficiency of a system to export particulate organic carbon (POCexport) compared to PP (e ratio = POCexport/PP) was significantly higher (p < 0.05) during P2 (39.7 ± 24.9%) than during P1 (23.9 ± 20.2%) indicating that the production sustained by UCYN-C was more efficient at promoting C export than the production sustained by DDAs. During P1, PON was stable and the total amount of N provided by N2 fixation (0.10 ± 0.02 μM) was not significantly different (p > 0.05) from the total amount of PON exported (0.10 ± 0.04 μM), suggesting a rapid and probably direct export of the recently fixed N2 by the DDAs. During P2, both PON concentrations

  8. The Sequoia circular fixator for limb lengthening.

    PubMed

    Hardy, J M; Tadlaoui, A; Wirotius, J M; Saleh, M

    1991-10-01

    With the Sequoia fixator, lengthenings can be achieved based on the clinical facts of the case. The device is a modular apparatus that can perform corrections in several planes, and, if necessary, in a septic environment. In our opinion, a "lengthener surgeon" is one who can foresee problems and take appropriate steps to prevent them. Likewise, the surgeon must act as the coordinator of an entire team. A successful lengthening is 5% surgery and 95% postoperative nursing and physiotherapy care. In the future, a number of changes will simplify postoperative management: 1. Composite carbon rings will make the frames radiolucent and one third lighter than those made of stainless steel. Automatic tensioners will help maintain steady tension on the wires. 2. Digital analysis of the callus will provide norms of consolidation, allowing faster fixator removal and conversion to an orthosis. 3. Incorporating the foot in the frame to overcome equinus will eliminate the need for tenotomy. We believe that monolateral and ring fixators can work together in certain locations. That is why we proposed, at the 18th Societé Internationale de Chirurgie Orthopédique et Traumatologique meeting, a combined monolateral-ring construct that can be used for lengthening throughout the proximal femoral metaphysis.

  9. Eighth international congress on nitrogen fixation

    SciTech Connect

    Not Available

    1990-01-01

    This volume contains the proceedings of the Eighth International Congress on Nitrogen Fixation held May 20--26, 1990 in Knoxville, Tennessee. The volume contains abstracts of individual presentations. Sessions were entitled Recent Advances in the Chemistry of Nitrogen Fixation, Plant-microbe Interactions, Limiting Factors of Nitrogen Fixation, Nitrogen Fixation and the Environment, Bacterial Systems, Nitrogen Fixation in Agriculture and Industry, Plant Function, and Nitrogen Fixation and Evolution.

  10. Molybdenum limitation of asymbiotic nitrogen fixation in tropical forest soils

    NASA Astrophysics Data System (ADS)

    Barron, Alexander R.; Wurzburger, Nina; Bellenger, Jean Phillipe; Wright, S. Joseph; Kraepiel, Anne M. L.; Hedin, Lars O.

    2009-01-01

    Nitrogen fixation, the biological conversion of di-nitrogen to plant-available ammonium, is the primary natural input of nitrogen to ecosystems, and influences plant growth and carbon exchange at local to global scales. The role of this process in tropical forests is of particular concern, as these ecosystems harbour abundant nitrogen-fixing organisms and represent one third of terrestrial primary production. Here we show that the micronutrient molybdenum, a cofactor in the nitrogen-fixing enzyme nitrogenase, limits nitrogen fixation by free-living heterotrophic bacteria in soils of lowland Panamanian forests. We measured the fixation response to long-term nutrient manipulations in intact forests, and to short-term manipulations in soil microcosms. Nitrogen fixation increased sharply in treatments of molybdenum alone, in micronutrient treatments that included molybdenum by design and in treatments with commercial phosphorus fertilizer, in which molybdenum was a `hidden' contaminant. Fixation did not respond to additions of phosphorus that were not contaminated by molybdenum. Our findings show that molybdenum alone can limit asymbiotic nitrogen fixation in tropical forests and raise new questions about the role of molybdenum and phosphorus in the tropical nitrogen cycle. We suggest that molybdenum limitation may be common in highly weathered acidic soils, and may constrain the ability of some forests to acquire new nitrogen in response to CO2 fertilization.

  11. A unifying framework for dinitrogen fixation in the terrestrial biosphere.

    PubMed

    Houlton, Benjamin Z; Wang, Ying-Ping; Vitousek, Peter M; Field, Christopher B

    2008-07-17

    Dinitrogen (N(2)) fixation is widely recognized as an important process in controlling ecosystem responses to global environmental change, both today and in the past; however, significant discrepancies exist between theory and observations of patterns of N(2) fixation across major sectors of the land biosphere. A question remains as to why symbiotic N(2)-fixing plants are more abundant in vast areas of the tropics than in many of the mature forests that seem to be nitrogen-limited in the temperate and boreal zones. Here we present a unifying framework for terrestrial N(2) fixation that can explain the geographic occurrence of N(2) fixers across diverse biomes and at the global scale. By examining trade-offs inherent in plant carbon, nitrogen and phosphorus capture, we find a clear advantage to symbiotic N(2) fixers in phosphorus-limited tropical savannas and lowland tropical forests. The ability of N(2) fixers to invest nitrogen into phosphorus acquisition seems vital to sustained N(2) fixation in phosphorus-limited tropical ecosystems. In contrast, modern-day temperatures seem to constrain N(2) fixation rates and N(2)-fixing species from mature forests in the high latitudes. We propose that an analysis that couples biogeochemical cycling and biophysical mechanisms is sufficient to explain the principal geographical patterns of symbiotic N(2) fixation on land, thus providing a basis for predicting the response of nutrient-limited ecosystems to climate change and increasing atmospheric CO(2).

  12. Variation in moss-associated nitrogen fixation in boreal forest stands.

    PubMed

    Markham, John H

    2009-08-01

    Traditionally it has been thought that most boreal forest communities lack a significant input of biologically fixed nitrogen. Recent discoveries of nitrogen fixation by cyanobacteria associated with mosses have resulted in a re-evaluation of this view. While it is recognized that rates of nitrogen fixation in mosses can be highly variable, there is little understanding as to why this occurs. I monitored nitrogen fixation, using acetylene reduction, in wet lowland and dry upland boreal forest communities, in central Canada, over a growing season. At the peak of nitrogen fixation in mid summer, Sphagnum capillifolium had an 11 times higher rate of fixation than Pleurozium schreberi. Variation in canopy openness and precipitation had no effect on rates of fixation over the growing season. In P. schreberi fixation rates did not vary between sites. Temperature had a positive effect on fixation rates in both S. capillifolium and P. schreberi, but the effect was 4 times more pronounced in S. capillifolium. Seasonal rates of nitrogen fixation were estimated at 193 mg N m(-2) for S. capillifolium and 23 mg N m(-2) for P. schreberi. With moderate increases in climate warming, predicted increases in nitrogen fixation in S. capillifolium are sufficient to raise its decomposition rate. Increased temperatures may therefore act synergistically to change boreal systems from a sink to a source of carbon.

  13. Nitrogen fixation on early Mars and other terrestrial planets: experimental demonstration of abiotic fixation reactions to nitrite and nitrate.

    PubMed

    Summers, David P; Khare, Bishun

    2007-04-01

    Understanding the abiotic fixation of nitrogen is critical to understanding planetary evolution and the potential origin of life on terrestrial planets. Nitrogen, an essential biochemical element, is certainly necessary for life as we know it to arise. The loss of atmospheric nitrogen can result in an incapacity to sustain liquid water and impact planetary habitability and hydrological processes that shape the surface. However, our current understanding of how such fixation may occur is almost entirely theoretical. This work experimentally examines the chemistry, in both gas and aqueous phases, that would occur from the formation of NO and CO by the shock heating of a model carbon dioxide/nitrogen atmosphere such as is currently thought to exist on early terrestrial planets. The results show that two pathways exist for the abiotic fixation of nitrogen from the atmosphere into the crust: one via HNO and another via NO(2). Fixation via HNO, which requires liquid water, could represent fixation on a planet with liquid water (and hence would also be a source of nitrogen for the origin of life). The pathway via NO(2) does not require liquid water and shows that fixation could occur even when liquid water has been lost from a planet's surface (for example, continuing to remove nitrogen through NO(2) reaction with ice, adsorbed water, etc.).

  14. Quantifying Net Carbon Exchanges Between the Atmosphere and Terrestrial Biosphere in the Arctic: What Have We Learned through Decade Regional Modeling Studies?

    NASA Astrophysics Data System (ADS)

    Zhuang, Q.

    2014-12-01

    Observed Arctic warming has been projected to continue in this century. Permafrost degradation is thus expected to continue, exposing large amounts of carbon for decomposition. Dynamics of Arctic landscape and hydrology are complicated due to changing climate and thawing permafrost, affecting the carbon biogeochemical cycling in the region. Further, human activities together with changing climate transform the regional land use and land cover, including wildfires, logging, and agricultural land conversion. This presentation will review the effects of factors, controls, and processes as well as landscape types (e.g., forests vs. lakes) on carbon biogeochemistry based on regional modeling studies and observations. Specific effects on carbon dynamics to be discussed will include: 1) thawing permafrost; 2) fire disturbances; 2) atmospheric carbon dioxide; 3) inorganic and organic nitrogen uptake by plants; 4) priming; 5) aerobic and anaerobic organic matter decomposition; and 6) various complexities of microbial physiology of soils. Partitioning the contribution of these processes to regional carbon dynamics shall help us improve the terrestrial biogeochemistry models, an important component of Earth System Models that are used to project our future climate.

  15. Phase-contrast Hounsfield units of fixated and non-fixated soft-tissue samples

    SciTech Connect

    Willner, Marian; Fior, Gabriel; Marschner, Mathias; Birnbacher, Lorenz; Schock, Jonathan; Braun, Christian; Fingerle, Alexander A.; Noël, Peter B.; Rummeny, Ernst J.; Pfeiffer, Franz; Herzen, Julia; Rozhkova, Elena A.

    2015-08-31

    X-ray phase-contrast imaging is a novel technology that achieves high soft-tissue contrast. Although its clinical impact is still under investigation, the technique may potentially improve clinical diagnostics. In conventional attenuation-based X-ray computed tomography, radiological diagnostics are quantified by Hounsfield units. Corresponding Hounsfield units for phase-contrast imaging have been recently introduced, enabling a setup-independent comparison and standardized interpretation of imaging results. Thus far, the experimental values of few tissue types have been reported; these values have been determined from fixated tissue samples. This study presents phase-contrast Hounsfield units for various types of non-fixated human soft tissues. A large variety of tissue specimens ranging from adipose, muscle and connective tissues to liver, kidney and pancreas tissues were imaged by a grating interferometer with a rotating-anode X-ray tube and a photon-counting detector. In addition, we investigated the effects of formalin fixation on the quantitative phase-contrast imaging results.

  16. Phase-contrast Hounsfield units of fixated and non-fixated soft-tissue samples

    DOE PAGES

    Willner, Marian; Fior, Gabriel; Marschner, Mathias; ...

    2015-08-31

    X-ray phase-contrast imaging is a novel technology that achieves high soft-tissue contrast. Although its clinical impact is still under investigation, the technique may potentially improve clinical diagnostics. In conventional attenuation-based X-ray computed tomography, radiological diagnostics are quantified by Hounsfield units. Corresponding Hounsfield units for phase-contrast imaging have been recently introduced, enabling a setup-independent comparison and standardized interpretation of imaging results. Thus far, the experimental values of few tissue types have been reported; these values have been determined from fixated tissue samples. This study presents phase-contrast Hounsfield units for various types of non-fixated human soft tissues. A large variety of tissuemore » specimens ranging from adipose, muscle and connective tissues to liver, kidney and pancreas tissues were imaged by a grating interferometer with a rotating-anode X-ray tube and a photon-counting detector. In addition, we investigated the effects of formalin fixation on the quantitative phase-contrast imaging results.« less

  17. Quantifying the vulnerability of carbon stocks and fluxes in six semi-arid biomes in the Southwestern US to the severe 2011-2013 drought (Invited)

    NASA Astrophysics Data System (ADS)

    Litvak, M. E.; Krofcheck, D.; Hilton, T. W.; Fox, A. M.

    2013-12-01

    The magnitude of carbon fluxes through arid and semi-arid ecosystems is considered modest, but integrated over the ~40% of the global land surface covered by these ecosystems, the total carbon stored is almost twice that in temperate forest ecosystems. Climatic extremes are typical in the Southwestern U.S, and the frequency of extreme temperature and precipitation events (both drought and large storms) in this region is predicted to increase in the next century. Understanding how resilient carbon pools and fluxes in these biomes are to climate extremes constitutes a large uncertainty in our ability to understand regional carbon balance. We use a 7 year record (2007-2013) of continuous measurements of net ecosystem exchange of carbon (NEE) and its components (gross primary productivity (GPP) and ecosystem respiration (Re) made over the New Mexico Elevation Gradient (NMEG) network of flux tower sites (desert grassland, creosote shrubland, juniper savanna, piñon-juniper woodland, ponderosa pine and subalpine mixed conifer) to test hypotheses about the biome-specific sensitivity of carbon cycling to both drought and temperature extremes. In particular, we focus on the functional responses in these biomes to the extended drought in this region from 2011-2013, which has triggered extensive mortality in many biomes. We used time series of climatic variables, radiation absorbed by vegetation, sap flux, soil moisture storage, and remotely sensed structural and functional data, including rates of mortality, to compare the biome-specific mechanisms behind these responses. We also produce biome-specific functional response surfaces of productivity and respiration to VPD, temperature and soil water availability. Decreases in annual NEP from the relatively wet year of 2010 to the severe drought year 2011 ranged from 60-165 g C m-2 y-1 across the gradient, due more to decreases in GPP than Re. We observed the greatest sensitivity to both temperature and precipitation extremes in

  18. Neuronal control of fixation and fixational eye movements

    PubMed Central

    2017-01-01

    Ocular fixation is a dynamic process that is actively controlled by many of the same brain structures involved in the control of eye movements, including the superior colliculus, cerebellum and reticular formation. In this article, we review several aspects of this active control. First, the decision to move the eyes not only depends on target-related signals from the peripheral visual field, but also on signals from the currently fixated target at the fovea, and involves mechanisms that are shared between saccades and smooth pursuit. Second, eye position during fixation is actively controlled and depends on bilateral activity in the superior colliculi and medio-posterior cerebellum; disruption of activity in these circuits causes systematic deviations in eye position during both fixation and smooth pursuit eye movements. Third, the eyes are not completely still during fixation but make continuous miniature movements, including ocular drift and microsaccades, which are controlled by the same neuronal mechanisms that generate larger saccades. Finally, fixational eye movements have large effects on visual perception. Ocular drift transforms the visual input in ways that increase spatial acuity; microsaccades not only improve vision by relocating the fovea but also cause momentary changes in vision analogous to those caused by larger saccades. This article is part of the themed issue ‘Movement suppression: brain mechanisms for stopping and stillness’. PMID:28242738

  19. Carbon dioxide fixation by artificial photosynthesis

    SciTech Connect

    Ibusuki, Takashi; Koike, Kazuhide; Ishitani, Osamu

    1993-12-31

    Green plants can absorb atmospheric CO{sub 2} and transform it to sugars, carbohydrates through their photosynthetic systems, but they become the source of CO{sub 2} when they are dead. This is the reason why artificial leaves which can be alive forever should be developed to meet with global warming due to the increase of CO{sub 2} concentration. The goal of artificial photosynthesis is not to construct the same system as the photosynthetic one, but to mimic the ability of green plants to utilize solar energy to make high energy chemicals. Needless to say, the artificial photosynthetic system is desired to be as simple as possible and to be as efficient as possible. From the knowledge on photosynthesis and the results of previous investigations, the critical components of artificial photosynthetic system are understood as follows: (1) light harvesting chromophore, (2) a center for electron transfer and charge separation, (3) catalytic sites for converting small molecules like water and CO{sub 2} (mutilelectron reactions) which are schematically described.

  20. Internal fixation: a historical review.

    PubMed

    Greenhagen, Robert M; Johnson, Adam R; Joseph, Alison

    2011-08-01

    Internal fixation has become a pillar of surgical specialties, yet the evolution of these devices has been relatively short. The first known description of medical management of a fracture was found in the Edwin Smith Papyrus of Ancient Egypt (circa 2600 bc). The first description of internal fixation in the medical literature was in the 18th century. The advancement of techniques and technology over the last 150 years has helped to preserve both life and function. The pace of advancement continues to accelerate as surgeons continue to seek new technology for osseous fixation. The authors present a thorough review of the history of internal fixation and the transformation into a multibillion dollar industry.

  1. Molecular Biology of Nitrogen Fixation

    ERIC Educational Resources Information Center

    Shanmugam, K. T.; Valentine, Raymond C.

    1975-01-01

    Reports that as a result of our increasing knowledge of the molecular biology of nitrogen fixation it might eventually be possible to increase the biological production of nitrogenous fertilizer from atmospheric nitrogen. (GS)

  2. The pathologist's guide to fixatives.

    PubMed

    Qidwai, Kiran; Afkhami, Michelle; Day, Christina E

    2014-01-01

    Proper tissue fixation is essential to ensure the highest level of specimen evaluation. Pathologists and laboratory staff are frequently consulted by clinical counterparts regarding what fixative should be used for different tissues or to enable a diagnosis of a specific condition. It is vital for the patient that the pathologist provides accurate information to ensure proper fixation. Frequently, once a tissue has been fixed inadequately or inappropriately, remedial changes may no longer be possible. Most often formalin is an adequate choice, if not the optimal one; however, there are certain situations when placing the tissue in formalin may limit the ability to reach a definitive diagnosis. It is imperative for pathologists to have the knowledge to communicate which fixative is optimal. Furthermore, as we move into a world of personalized medicine, where ancillary testing has both diagnostic and specific therapeutic implications, knowledge about how different fixatives affect immunohistochemistry, cytogenetics, and molecular studies becomes even more significant. This chapter provides practical information regarding common fixatives, their mechanism of action and optimal uses.

  3. Assessing N2 fixation in estuarine mangrove soils

    NASA Astrophysics Data System (ADS)

    Shiau, Yo-Jin; Lin, Ming-Fen; Tan, Chen-Chung; Tian, Guanglong; Chiu, Chih-Yu

    2017-04-01

    Nitrogen (N) limited mangrove forest may have a high potential for microbial N2 fixation. Previous research has focused on soil nitrogenase activity in pristine mangrove forests with little anthropogenic impact. This research was designed to evaluate the magnitude of nitrogenase activity of mangrove soils in a high anthropogenic N-loading environment and the way in which soil N2 fixation in mangrove forest may be related to organic carbon and salinity. The test involved an acetylene reduction method under controlled laboratory conditions. The mangrove forests with high anthropogenic N loading may have high nitrogenase activity in the soils. The diazotrophs in these mangrove soils were mostly heterotrophs and the sulfate-reducing bacteria were the major N2-fixing bacteria. The nitrogenase activity was little affected by the soil salinity, which suggests that these groups of N2 fixation bacteria adapted well to saline conditions in the estuary.

  4. Biomechanics of external fixation and limb lengthening.

    PubMed

    Younger, Alastair S E; Morrison, James; MacKenzie, William G

    2004-09-01

    Surgeons who use external fixators for foot and ankle conditions need to understand the biomechanical principles to ensure good outcomes. Fixators can be used for fracture fixation, correction of contractures, distraction osteogenesis, and distraction arthroplasty. A two-ring fixator with wire fixation remains the gold standard with which all other frames are compared. Small changes in mechanical characteristics can have major implications on new bone or cartilage formation.

  5. Quantifying manganese and nitrogen cycle coupling in manganese-rich, organic carbon-starved marine sediments: Examples from the Clarion-Clipperton fracture zone

    NASA Astrophysics Data System (ADS)

    Mogollón, José M.; Mewes, Konstantin; Kasten, Sabine

    2016-07-01

    Extensive deep-sea sedimentary areas are characterized by low organic carbon contents and thus harbor suboxic sedimentary environments where secondary (autotrophic) redox cycling becomes important for microbial metabolic processes. Simulation results for three stations in the Eastern Equatorial Pacific with low organic carbon content (<0.5 dry wt %) and low sedimentation rates (10-1-100 mm ky-1) show that ammonium generated during organic matter degradation may act as a reducing agent for manganese oxides below the oxic zone. Likewise, at these sedimentary depths, dissolved reduced manganese may act as a reducing agent for oxidized nitrogen species. These manganese-coupled transformations provide a suboxic conversion pathway of ammonium and nitrate to dinitrogen. These manganese-nitrogen interactions further explain the presence and production of dissolved reduced manganese (up to tens of μM concentration) in sediments with high nitrate (>20 μM) concentrations.

  6. Quantifying in situ transformation rates of chlorinated ethenes by combining compound-specific stable isotope analysis, groundwater dating, and carbon isotope mass balances.

    PubMed

    Aeppli, Christoph; Hofstetter, Thomas B; Amaral, Helena I F; Kipfer, Rolf; Schwarzenbach, René P; Berg, Michael

    2010-05-15

    We determined in situ reductive transformation rates of tetrachloroethene (PCE) in a contaminated aquifer by combining compound-specific carbon stable isotope analysis (CSIA) of the contaminants with tracer-based ((3)H-(3)He) groundwater dating. With increasing distance from the source, PCE was gradually transformed to trichloroethene (TCE), cis-dichloroethene (cDCE), and vinyl chloride (VC). Using the in situ determined carbon isotopic enrichment factor of -3.3 +/- 1.2 per thousand allowed for quantification of the PCE-to-TCE transformation based on isotopic (delta(13)C) shifts. By combining these estimates of the extent of PCE transformation with measured groundwater residence times (between 16 and 36 years) we calculated half-lives of 2.8 +/- 0.8 years (k = 0.27 +/- 0.09 yr(-1)) for the PCE-to-TCE transformation. Carbon isotope mass balances including the chloroethenes PCE, TCE, cDCE, and VC (delta(13)C(Sigma(CEs))) enabled an assessment of complete PCE dechlorination to nonchlorinated products. Shifts of delta(13)C(Sigma(CEs)) at the fringe of the plume of more than 25 per thousand pointed to dechlorination beyond VC of up to 55 +/- 17% of the chloroethene mass. Calculated rates for this multistep dechlorination were highly variable throughout the aquifer (k = 0.4 +/- 0.4 yr(-1)), suggesting that PCE reduction to nonchlorinated products occurred only in locally restricted zones of the investigated site.

  7. Quantifying the Observability of CO2 Flux Uncertainty in Atmospheric CO2 Records Using Products from Nasa's Carbon Monitoring Flux Pilot Project

    NASA Technical Reports Server (NTRS)

    Ott, Lesley; Pawson, Steven; Collatz, Jim; Watson, Gregg; Menemenlis, Dimitris; Brix, Holger; Rousseaux, Cecile; Bowman, Kevin; Bowman, Kevin; Liu, Junjie; Eldering, Annmarie; Gunson, Michael; Kawa, Stephan R.

    2014-01-01

    NASAs Carbon Monitoring System (CMS) Flux Pilot Project (FPP) was designed to better understand contemporary carbon fluxes by bringing together state-of-the art models with remote sensing datasets. Here we report on simulations using NASAs Goddard Earth Observing System Model, version 5 (GEOS-5) which was used to evaluate the consistency of two different sets of observationally constrained land and ocean fluxes with atmospheric CO2 records. Despite the strong data constraint, the average difference in annual terrestrial biosphere flux between the two land (NASA Ames CASA and CASA-GFED) models is 1.7 Pg C for 2009-2010. Ocean models (NOBM and ECCO2-Darwin) differ by 35 in their global estimates of carbon flux with particularly strong disagreement in high latitudes. Based upon combinations of terrestrial and ocean fluxes, GEOS-5 reasonably simulated the seasonal cycle observed at northern hemisphere surface sites and by the Greenhouse gases Observing SATellite (GOSAT) while the model struggled to simulate the seasonal cycle at southern hemisphere surface locations. Though GEOS-5 was able to reasonably reproduce the patterns of XCO2 observed by GOSAT, it struggled to reproduce these aspects of AIRS observations. Despite large differences between land and ocean flux estimates, resulting differences in atmospheric mixing ratio were small, typically less than 5 ppmv at the surface and 3 ppmv in the XCO2 column. A statistical analysis based on the variability of observations shows that flux differences of these magnitudes are difficult to distinguish from natural variability, regardless of measurement platform.

  8. Quantifying the effect of nighttime interactions between roots and canopy physiology and their control of water and carbon cycling on feedbacks between soil moisture and terrestrial climatology under variable environmental conditions

    SciTech Connect

    Domec, Jean-Christophe; Palmroth, Sari; Oren, Ram; Swenson, Jennifer; King, John S.; Noormets, Asko

    2016-04-01

    The primary objective of this project is to characterize and quantify how the temporal variability of hydraulic redistribution (HR) and its physiological regulation in unmanaged and complex forests is affecting current water and carbon exchange and predict how future climate scenarios will affect these relationships and potentially feed back to the climate. Specifically, a detailed study of ecosystem water uptake and carbon exchange in relation to root functioning was proposed in order to quantify the mechanisms controlling temporal variability of soil moisture dynamic and HR in three active AmeriFlux sites, and to use published data of two other inactive AmeriFlux sites. Furthermore, data collected by our research group at the Duke Free Air CO2 enrichment (FACE) site was also being utilized to further improve our ability to forecast future environmental impacts of elevated CO2 concentration on soil moisture dynamic and its effect on carbon sequestration and terrestrial climatology. The overarching objective being to forecast, using a soil:plant:atmosphere model coupled with a biosphere:atmosphere model, the impact of root functioning on land surface climatology. By comparing unmanaged sites to plantations, we also proposed to determine the effect of land use change on terrestrial carbon sequestration and climatology through its effect on soil moisture dynamic and HR. Our simulations of HR by roots indicated that in some systems HR is an important mechanism that buffers soil water deficit, affects energy and carbon cycling; thus having significant implications for seasonal climate. HR maintained roots alive and below 70% loss of conductivity and our simulations also showed that the increased vapor pressure deficit at night under future conditions was sufficient to drive significant nighttime transpiration at all sites, which reduced HR. This predicted reduction in HR under future climate conditions played an important regulatory role in land atmosphere interactions

  9. Influence of Target Parameters on Fixation Stability in Normal and Strabismic Monkeys

    PubMed Central

    Pirdankar, Onkar H.; Das, Vallabh E.

    2016-01-01

    Purpose The purpose of this study was to assess the effect of fixation target parameters on fixation instability in strabismic monkeys. Methods One normal and three exotropic monkeys were presented with four differently shaped fixation targets, with three diameters, during monocular or binocular viewing. Fixation targets were white on a black background or vice versa. Binocular eye movements were recorded using the magnetic search coil technique and fixation stability quantified by calculating the bivariate contour ellipse area (BCEA). Results Fixation instability was greater in all the strabismic monkeys compared with the normal monkey. During monocular viewing, strabismic monkeys showed significantly greater instability in the covered eye compared to the fixating eye. Multifactorial ANOVA suggested statistically significant target parameter influences, although effect sizes were small. Thus, a disk-shaped target resulted in greater instability than other target shapes in the viewing eyes of the normal monkey and two of three strabismic monkeys. A similar target-shape effect was also observed in the covered eye. Least instability was elicited with a 0.5° target in the normal monkey and a 1.0° target in the strabismic monkeys, both in the viewing and the covered eye. Target/background polarity effects were idiosyncratic. In strabismic monkeys, stability of the fixating eye during binocular viewing was not different from the stability of the same eye during monocular viewing. Conclusions Abnormal drifts and nystagmus contribute to increased fixation instability in strabismic monkeys. Target parameters (shape and size) that influence fixation stability in a normal animal also affected fixation stability in our sample of strabismic monkeys. PMID:26968739

  10. Global metabolic rewiring for improved CO2 fixation and chemical production in cyanobacteria

    NASA Astrophysics Data System (ADS)

    Kanno, Masahiro; Carroll, Austin L.; Atsumi, Shota

    2017-03-01

    Cyanobacteria have attracted much attention as hosts to recycle CO2 into valuable chemicals. Although cyanobacteria have been engineered to produce various compounds, production efficiencies are too low for commercialization. Here we engineer the carbon metabolism of Synechococcus elongatus PCC 7942 to improve glucose utilization, enhance CO2 fixation and increase chemical production. We introduce modifications in glycolytic pathways and the Calvin Benson cycle to increase carbon flux and redirect it towards carbon fixation. The engineered strain efficiently uses both CO2 and glucose, and produces 12.6 g l-1 of 2,3-butanediol with a rate of 1.1 g l-1 d-1 under continuous light conditions. Removal of native regulation enables carbon fixation and 2,3-butanediol production in the absence of light. This represents a significant step towards industrial viability and an excellent example of carbon metabolism plasticity.

  11. Nitrogen fixation in boreal peatlands: the effects of increased N deposition on N2-fixation

    NASA Astrophysics Data System (ADS)

    Popma, J. M.; Wieder, R.; Lamers, L.; Vile, M. A.

    2013-12-01

    Boreal peatlands are of great importance to global carbon and nitrogen cycling. While covering only 3-4 % of the terrestrial surface, they account for 25-30 % of the world's soil C and 9-15 % of the world's soil N. In Western Canada atmospheric dry deposition rates are extremely low: approximately 1 kg N ha-1 yr-1. Though these systems have been functioning as net sinks over the past 11,000 years, natural and anthropogenic disturbances might compromise the historical balance of C and N. Biological N2-fixation has recently been shown to represent a very significant input of N into these systems, contributing to 62% of total N in Western Canada. Interactions between N deposition and biological N2-fixation are as yet, unknown, but the impact of elevated deposition of N-compounds from increased industrial expansion of oil sands mining to peatlands, is concerning. Given that nitrogenase, the enzyme responsible for catalyzing N2-fixation, is energetically costly when active, enhanced inputs of atmospheric N deposition could be a major determinant for enzyme activity and rates of biological N input to these bogs. Understanding interactions between N deposition and N2 fixation in boreal peatlands can aid in predicting the consequences of increased N deposition and setting critical loads. We conducted a field-fertilization experiment in a poor fen in Alberta, Canada, to determine the effects of enhanced N deposition on a dominant fen species Sphagnum angustifolium. The experiment consisted of seven N treatments: Control, 0, 5, 10, 15, 20 and 25 kg N ha-1 y1, n=3. N2-fixation was measured during summer 2012 and 2013 using the acetylene reduction assay (ARA). ARA rates were converted to rates of N2-fixation by calibrating ARA with paired 15N2-incubations. In both 2012 and 2013, with increasing N deposition from 0 kg N ha-1 yr-1 to 25 kg N ha-1 yr-1, rates of N2 fixation decreased, with highest rates in the 0 kg N ha-1 yr-1 treatment mosses (54.2 × 1.40; 48.58 × 7.12 kg N ha

  12. Carbon isotope discrimination in leaves of the broad-leaved paperbark tree, Melaleuca quinquenervia, as a tool for quantifying past tropical and subtropical rainfall.

    PubMed

    Tibby, John; Barr, Cameron; McInerney, Francesca A; Henderson, Andrew C G; Leng, Melanie J; Greenway, Margaret; Marshall, Jonathan C; McGregor, Glenn B; Tyler, Jonathan J; McNeil, Vivienne

    2016-10-01

    Quantitative reconstructions of terrestrial climate are highly sought after but rare, particularly in Australia. Carbon isotope discrimination in plant leaves (Δleaf ) is an established indicator of past hydroclimate because the fractionation of carbon isotopes during photosynthesis is strongly influenced by water stress. Leaves of the evergreen tree Melaleuca quinquenervia have been recovered from the sediments of some perched lakes on North Stradbroke and Fraser Islands, south-east Queensland, eastern Australia. Here, we examine the potential for using M. quinquenervia ∆leaf as a tracer of past rainfall by analysing carbon isotope ratios (δ(13) C) of modern leaves. We firstly assess Δleaf variation at the leaf and stand scale and find no systematic pattern within leaves or between leaves due to their position on the tree. We then examine the relationships between climate and Δleaf for a 11-year time series of leaves collected in a litter tray. M. quinquenervia retains its leaves for 1-4 years; thus, cumulative average climate data are used. There is a significant relationship between annual mean ∆leaf and mean annual rainfall of the hydrological year for 1-4 years (i.e. 365-1460 days) prior to leaf fall (r(2)  = 0.64, P = 0.003, n = 11). This relationship is marginally improved by accounting for the effect of pCO2 on discrimination (r(2)  = 0.67, P = 0.002, n = 11). The correlation between rainfall and Δleaf , and the natural distribution of Melaleuca quinquenervia around wetlands of eastern Australia, Papua New Guinea and New Caledonia offers significant potential to infer past rainfall on a wide range of spatial and temporal scales.

  13. CO2 Isotopes and Elemental Carbon Measurements in air Samples at Canadian Baseline Stations: Can Human Impacts on Atmospheric CO2 be Detected and Quantified via an Integrated Approach?

    NASA Astrophysics Data System (ADS)

    Huang, L.; Zhang, W.; Sharma, S.; Chan, D.; Ishizawa, M.; Worthy, D.; Tans, P.; Sweeney, C.; Brook, J.; Chan, T.; Leaitch, R.

    2009-05-01

    Detecting and quantifying human induced CO2 and other air pollutants are important in air quality as well as in carbon cycle related climate research, particularly for addressing the issue of the continued increase of atmospheric CO2. It is known that isotope compositions are widely used as tracers in source identifications and attributions for atmospheric CO2. Due to a long life time (about 200 years) of CO2 and its exchanges with natural systems, the signal of human induced CO2 and its carbon isotopic compositions in the atmosphere is small. It is very challenging to quantify its impact within an accepted range of uncertainty at global/regional scales. Thus, the requirements for the precision and accuracy in CO2 and related tracers measurements, including its stable isotope, are very rigid. At the same time, measuring multi- species together with CO2, has been strongly recommended by the global carbon cycle research community. Elemental carbon or black carbon (EC or BC) in fine carbonaceous particulate matter (PM2.5μm) is an important air pollutant as well as a key player in climate change. Similar to CO2, EC is also called as greenhouse aerosol, absorbing light and warming the atmosphere. Since it is coemitted with CO2 from fossil fuel combustions and biomass burning, tracking the spatial and temporal distributions of EC may provide valuable insight to those emission sources/transport mechanisms. Having a short atmospheric life time (7-10 days), the atmospheric EC is sensitive to the emission strength of those related sources (i.e., fossil fuel combustions and biomass burning). Thus, with a combination of EC with CO2 and its isotope measurements, it is expected to provide independent constraints for detecting and quantifying the human induced CO2 at regional scales. In this talk, an integrated data set of CO2 concentration, CO2 isotopes (with a focus on δ13C) and EC measurements in fine PM at Canadian baseline sites will be presented. Those measurements have

  14. CO2 uptake and fixation by endosymbiotic chemoautotrophs from the bivalve Solemya velum.

    PubMed

    Scott, Kathleen M; Cavanaugh, Colleen M

    2007-02-01

    Chemoautotrophic symbioses, in which endosymbiotic bacteria are the major source of organic carbon for the host, are found in marine habitats where sulfide and oxygen coexist. The purpose of this study was to determine the influence of pH, alternate sulfur sources, and electron acceptors on carbon fixation and to investigate which form(s) of inorganic carbon is taken up and fixed by the gamma-proteobacterial endosymbionts of the protobranch bivalve Solemya velum. Symbiont-enriched suspensions were generated by homogenization of S. velum gills, followed by velocity centrifugation to pellet the symbiont cells. Carbon fixation was measured by incubating the cells with (14)C-labeled dissolved inorganic carbon. When oxygen was present, both sulfide and thiosulfate stimulated carbon fixation; however, elevated levels of either sulfide (>0.5 mM) or oxygen (1 mM) were inhibitory. In the absence of oxygen, nitrate did not enhance carbon fixation rates when sulfide was present. Symbionts fixed carbon most rapidly between pH 7.5 and 8.5. Under optimal pH, sulfide, and oxygen conditions, symbiont carbon fixation rates correlated with the concentrations of extracellular CO(2) and not with HCO(3)(-) concentrations. The half-saturation constant for carbon fixation with respect to extracellular dissolved CO(2) was 28 +/- 3 microM, and the average maximal velocity was 50.8 +/- 7.1 micromol min(-1) g of protein(-1). The reliance of S. velum symbionts on extracellular CO(2) is consistent with their intracellular lifestyle, since HCO(3)(-) utilization would require protein-mediated transport across the bacteriocyte membrane, perisymbiont vacuole membrane, and symbiont outer and inner membranes. The use of CO(2) may be a general trait shared with many symbioses with an intracellular chemoautotrophic partner.

  15. Phenotypic plasticity and its genetic regulation for yield, nitrogen fixation and δ13C in chickpea crops under varying water regimes.

    PubMed

    Sadras, Victor O; Lake, Lachlan; Li, Yongle; Farquharson, Elizabeth A; Sutton, Tim

    2016-07-01

    We measured yield components, nitrogen fixation, soil nitrogen uptake and carbon isotope composition (δ(13)C) in a collection of chickpea genotypes grown in environments where water availability was the main source of yield variation. We aimed to quantify the phenotypic plasticity of these traits using variance ratios, and to explore their genetic basis using FST genome scan. Fifty-five genes in three genomic regions were found to be under selection for plasticity of yield; 54 genes in four genomic regions for the plasticity of seeds per m(2); 48 genes in four genomic regions for the plasticity of δ(13)C; 54 genes in two genomic regions for plasticity of flowering time; 48 genes in five genomic regions for plasticity of nitrogen fixation and 49 genes in three genomic regions for plasticity of nitrogen uptake from soil. Plasticity of yield was related to plasticity of nitrogen uptake from soil, and unrelated to plasticity of nitrogen fixation, highlighting the need for closer attention to nitrogen uptake in legumes. Whereas the theoretical link between δ(13)C and transpiration efficiency is strong, the actual link with yield is erratic due to trade-offs and scaling issues. Genes associated with plasticity of δ(13)C were identified that may help to untangle the δ(13)C-yield relationship. Combining a plasticity perspective to deal with complex G×E interactions with FST genome scan may help understand and improve both crop adaptation to stress and yield potential.

  16. The importance of nodule CO2 fixation for the efficiency of symbiotic nitrogen fixation in pea at vegetative growth and during pod formation

    PubMed Central

    Fischinger, Stephanie Anastasia; Schulze, Joachim

    2010-01-01

    Nodule CO2 fixation is of pivotal importance for N2 fixation. The process provides malate for bacteroids and oxaloacetate for nitrogen assimilation. The hypothesis of the present paper was that grain legume nodules would adapt to higher plant N demand and more restricted carbon availability at pod formation through increased nodule CO2 fixation and a more efficient N2 fixation. Growth, N2 fixation, and nodule composition during vegetative growth and at pod formation were studied in pea plants (Pisum sativum L.). In parallel experiments, 15N2 and 13CO2 uptake, as well as nodule hydrogen and CO2 release, was measured. Plants at pod formation showed higher growth rates and N2 fixation per plant when compared with vegetative growth. The specific activity of active nodules was about 25% higher at pod formation. The higher nodule activity was accompanied by higher amino acid concentration in nodules and xylem sap with a higher share of asparagine. Nodule 13CO2 fixation was increased at pod formation, both per plant and per 15N2 fixed unit. However, malate concentration in nodules was only 40% of that during vegetative growth and succinate was no longer detectable. The data indicate that increased N2 fixation at pod formation is connected with strongly increased nodule CO2 fixation. While the sugar concentration in nodules at pod formation was not altered, the concentration of organic acids, namely malate and succinate, was significantly lower. It is concluded that strategies to improve the capability of nodules to fix CO2 and form organic acids might prolong intensive N2 fixation into the later stages of pod formation and pod filling in grain legumes. PMID:20363863

  17. Submersible UV-Vis Spectroscopy for Quantifying Streamwater Organic Carbon Dynamics: Implementation and Challenges before and after Forest Harvest in a Headwater Stream

    PubMed Central

    Jollymore, Ashlee; Johnson, Mark S.; Hawthorne, Iain

    2012-01-01

    Organic material, including total and dissolved organic carbon (DOC), is ubiquitous within aquatic ecosystems, playing a variety of important and diverse biogeochemical and ecological roles. Determining how land-use changes affect DOC concentrations and bioavailability within aquatic ecosystems is an important means of evaluating the effects on ecological productivity and biogeochemical cycling. This paper presents a methodology case study looking at the deployment of a submersible UV-Vis absorbance spectrophotometer (UV-Vis spectro∷lyzer model, s∷can, Vienna, Austria) to determine stream organic carbon dynamics within a headwater catchment located near Campbell River (British Columbia, Canada). Field-based absorbance measurements of DOC were made before and after forest harvest, highlighting the advantages of high temporal resolution compared to traditional grab sampling and laboratory measurements. Details of remote deployment are described. High-frequency DOC data is explored by resampling the 30 min time series with a range of resampling time intervals (from daily to weekly time steps). DOC export was calculated for three months from the post-harvest data and resampled time series, showing that sampling frequency has a profound effect on total DOC export. DOC exports derived from weekly measurements were found to underestimate export by as much as 30% compared to DOC export calculated from high-frequency data. Additionally, the importance of the ability to remotely monitor the system through a recently deployed wireless connection is emphasized by examining causes of prior data losses, and how such losses may be prevented through the ability to react when environmental or power disturbances cause system interruption and data loss. PMID:22666002

  18. Submersible UV-Vis spectroscopy for quantifying streamwater organic carbon dynamics: implementation and challenges before and after forest harvest in a headwater stream.

    PubMed

    Jollymore, Ashlee; Johnson, Mark S; Hawthorne, Iain

    2012-01-01

    Organic material, including total and dissolved organic carbon (DOC), is ubiquitous within aquatic ecosystems, playing a variety of important and diverse biogeochemical and ecological roles. Determining how land-use changes affect DOC concentrations and bioavailability within aquatic ecosystems is an important means of evaluating the effects on ecological productivity and biogeochemical cycling. This paper presents a methodology case study looking at the deployment of a submersible UV-Vis absorbance spectrophotometer (UV-Vis spectro::lyzer model, s::can, Vienna, Austria) to determine stream organic carbon dynamics within a headwater catchment located near Campbell River (British Columbia, Canada). Field-based absorbance measurements of DOC were made before and after forest harvest, highlighting the advantages of high temporal resolution compared to traditional grab sampling and laboratory measurements. Details of remote deployment are described. High-frequency DOC data is explored by resampling the 30 min time series with a range of resampling time intervals (from daily to weekly time steps). DOC export was calculated for three months from the post-harvest data and resampled time series, showing that sampling frequency has a profound effect on total DOC export. DOC exports derived from weekly measurements were found to underestimate export by as much as 30% compared to DOC export calculated from high-frequency data. Additionally, the importance of the ability to remotely monitor the system through a recently deployed wireless connection is emphasized by examining causes of prior data losses, and how such losses may be prevented through the ability to react when environmental or power disturbances cause system interruption and data loss.

  19. Recent Advances in Quantifying Hydrological Processes Linking Water, Carbon, and Energy Exports into Coastal Margins Along the Arctic Land-Sea Boundary

    NASA Astrophysics Data System (ADS)

    Rawlins, M. A.

    2014-12-01

    The high northern latitudes have experienced rapid warming in recent decades with projections of larger increases likely by the end of this century. Warming permafrost and an acceleration of the arctic freshwater cycle are among the myriad interconnected changes taking place that have the potential to impact ecosystems throughout the pan-Arctic. The Arctic Ocean receives a disproportionately large amount of global freshwater runoff and as such near-shore coastal margins along the arctic land-sea boundary are strongly influenced by riverine freshwater discharge. Alterations in hydrological flows driven by a changing climate and other perturbations, therefore, are likely to impact the biology and biogeochemistry of arctic coastal margins. Advances have been made in the quantification of water, carbon, and materials transports with recent studies documenting significant changes in exports of quantities such as dissolved organic carbon from large rivers, linked in turn to changes in landscape characteristics and hydrological flow rates. Here key measured data sets, derived empirical relationships, and the resulting pan-Arctic estimates for several constituents are described for the major arctic rivers and full pan-Arctic basin. Complementary estimates from a process-based model are presented, illustrating the potential for leveraging measured data to derive more accurate flows at basin and continental scales. A series of retrospective model simulations point to an increasing influence of river-borne heat transport on ice melt in coastal margins. Case studies of large freshwater anomalies provide a framework for understanding connections between river discharge and the biology and biogeochemistry of arctic coastal margins.

  20. N2 fixation in eddies of the eastern tropical South Pacific Ocean

    NASA Astrophysics Data System (ADS)

    Löscher, C. R.; Bourbonnais, A.; Dekaezemacker, J.; Charoenpong, C. N.; Altabet, M. A.; Bange, H. W.; Czeschel, R.; Hoffmann, C.; Schmitz, R. A.

    2015-11-01

    Mesoscale eddies play a major role in controlling ocean biogeochemistry. By impacting nutrient availability and water column ventilation, they are of critical importance for oceanic primary production. In the eastern tropical South Pacific Ocean off Peru, where a large and persistent oxygen deficient zone is present, mesoscale processes have been reported to occur frequently. However, investigations on their biological activity are mostly based on model simulations, and direct measurements of carbon and dinitrogen (N2) fixation are scarce. We examined an open ocean cyclonic eddy and two anticyclonic mode water eddies: a coastal one and an open ocean one in the waters off Peru along a section at 16° S in austral summer 2012. Molecular data and bioassay incubations point towards a difference between the active diazotrophic communities present in the cyclonic eddy and the anticyclonic mode water eddies. In the cyclonic eddy, highest rates of N2 fixation were measured in surface waters but no N2 fixation signal was detected at intermediate water depths. In contrast, both anticyclonic mode water eddies showed pronounced maxima in N2 fixation below the euphotic zone as evidenced by rate measurements and geochemical data. N2 fixation and carbon (C) fixation were higher in the young coastal mode water eddy compared to the older offshore mode water eddy. A co-occurrence between N2 fixation and biogenic N2, an indicator for N loss, indicated a link between N loss and N2 fixation in the mode water eddies, which was not observed for the cyclonic eddy. The comparison of two consecutive surveys of the coastal mode water eddy in November and December 2012 revealed also a reduction of N2 and C fixation at intermediate depths along with a reduction in chlorophyll by half, mirroring an aging effect in this eddy. Our data indicate an important role for anticyclonic mode water eddies in stimulating N2 fixation and thus supplying N offshore.

  1. N2 fixation in eddies of the eastern tropical South Pacific Ocean

    NASA Astrophysics Data System (ADS)

    Loscher, Carolin R.; Bourbonnais, Annie; Dekaezemacker, Julien; Charoenpong, Chawalit N.; Altabet, Mark A.; Bange, Hermann W.; Czeschel, Rena; Hoffmann, Chris; Schmitz, Ruth

    2016-05-01

    Mesoscale eddies play a major role in controlling ocean biogeochemistry. By impacting nutrient availability and water column ventilation, they are of critical importance for oceanic primary production. In the eastern tropical South Pacific Ocean off Peru, where a large and persistent oxygen-deficient zone is present, mesoscale processes have been reported to occur frequently. However, investigations into their biological activity are mostly based on model simulations, and direct measurements of carbon and dinitrogen (N2) fixation are scarce.We examined an open-ocean cyclonic eddy and two anticyclonic mode water eddies: a coastal one and an open-ocean one in the waters off Peru along a section at 16° S in austral summer 2012. Molecular data and bioassay incubations point towards a difference between the active diazotrophic communities present in the cyclonic eddy and the anticyclonic mode water eddies.In the cyclonic eddy, highest rates of N2 fixation were measured in surface waters but no N2 fixation signal was detected at intermediate water depths. In contrast, both anticyclonic mode water eddies showed pronounced maxima in N2 fixation below the euphotic zone as evidenced by rate measurements and geochemical data. N2 fixation and carbon (C) fixation were higher in the young coastal mode water eddy compared to the older offshore mode water eddy. A co-occurrence between N2 fixation and biogenic N2, an indicator for N loss, indicated a link between N loss and N2 fixation in the mode water eddies, which was not observed for the cyclonic eddy. The comparison of two consecutive surveys of the coastal mode water eddy in November 2012 and December 2012 also revealed a reduction in N2 and C fixation at intermediate depths along with a reduction in chlorophyll by half, mirroring an aging effect in this eddy. Our data indicate an important role for anticyclonic mode water eddies in stimulating N2 fixation and thus supplying N offshore.

  2. An OSSE to Quantify the Impact of S5 Spaceborne Carbon Monoxide Total Column Measurements on Air Pollution Analysis and Forecast over Europe

    NASA Astrophysics Data System (ADS)

    Abida, R.; Attié, J. L.; El Amraoui, L.; Ricaud, P.; Eskes, H.; Kujanpää, J.; Segers, A.

    2014-12-01

    In the framework of ISOTROP project (Impact of Spaceborne Observations on Tropospheric Composition Analysis and Forecast) aiming to assess the impact of sentinel 4 (GEO) and 5 (LEO) measurements of O3, CO, NO2 and HCHO to better constrain pollutant concentrations and precursor emissions that influence air quality. A Regional-scale Observing System Simulattion Experiment (OSSE ) has been conducted over Europe to determine the impact of S5-precursor carbon monoxide total column future observations on tropospheric composition forecasting and analysis. This OSSE study involves two independant CTM models which is a considerable advantage for the study, since it guarantees that the OSSE results will not be overly optimistic results and the OSSE will more realistically simulate an assimilation of real observations. The nature run which consitute the true composition atmospheric state is simulated by LOTOS-EUROS model combined with the global TM5 chemistry-transport model. The synthetic S5-p CO total column measurements and their error characterisitcs are derived from the nature run data and generated by KNMI and FMI teams using a state-of-the-art retrieval algorithm involved in TROPOMI development. The control run in which we assimilate the CO measurements is MOCAGE model. Interestingly, the OSSE results show substantial benefit from CO data assimilation especially in the boundary layer on both the forecast and analysis, and demenstrated that a high-spatial resolution and high-quality measurements of S5 CO total column could potentially constrain the concentration in the atmospheric boundar layer.

  3. Regional in-situ optical water quality sensor network quantifies influence of land use and seasonality on storm event nitrate and dissolved organic carbon loading

    NASA Astrophysics Data System (ADS)

    Vaughan, M.; Schroth, A. W.; Bowden, W. B.; Shanley, J. B.; Vermilyea, A.; Sleeper, R.; Gold, A.; Pradhanang, S. M.; Addy, K.; Inamdar, S. P.; Levia, D. F., Jr.; Rowland, R. D.; Winters, C. G.

    2015-12-01

    High frequency optical water quality sensors were used to determine the influence of land use and seasonality on storm nutrient loads at nine stream sites in the North East Water Resources Network (NEWRnet). S::can spectrolysersTM were used to measure UV-Visible absorbance spectra at sub-hourly intervals in streams with primarily forested, urban, and agricultural watersheds. Calibrations for nitrate (NO3) and dissolved organic carbon (DOC) concentrations were developed for in-situ spectrophotometer measurements using multivariate statistical techniques applied to absorbance spectra and laboratory measurements. Calibrations were evaluated for predictive power and compared to assess applicability across multiple land uses and geographical areas. Calibrations were applied to sub-hourly absorbance spectra to determine NO3 and DOC loads for all storms in 2014 and 2015 for which data were available. Hydrographs were partitioned into direct runoff and baseflow components using a digital filter technique. In addition, the amount of biodegradable DOC (BDOC) was determined for a subset of samples and related to spectrophotometer measurements to determine influences of land use on BDOC content during storms. Comparing NO3 and DOC export per watershed area to storm runoff shows that storm severity, storm frequency, and land use have strong influences on regional NO3 and DOC storm export. This study highlights the value of high frequency continuous stream monitoring for land use and watershed management, particularly in the context of storm event loading.

  4. Levels of Daily Light Doses Under Changed Day-Night Cycles Regulate Temporal Segregation of Photosynthesis and N2 Fixation in the Cyanobacterium Trichodesmium erythraeum IMS101

    PubMed Central

    Cai, Xiaoni; Gao, Kunshan

    2015-01-01

    While the diazotrophic cyanobacterium Trichodesmium is known to display inverse diurnal performances of photosynthesis and N2 fixation, such a phenomenon has not been well documented under different day-night (L-D) cycles and different levels of light dose exposed to the cells. Here, we show differences in growth, N2 fixation and photosynthetic carbon fixation as well as photochemical performances of Trichodesmium IMS101 grown under 12L:12D, 8L:16D and 16L:8D L-D cycles at 70 μmol photons m-2 s-1 PAR (LL) and 350 μmol photons m-2 s-1 PAR (HL). The specific growth rate was the highest under LL and the lowest under HL under 16L:8D, and it increased under LL and decreased under HL with increased levels of daytime light doses exposed under the different light regimes, respectively. N2 fixation and photosynthetic carbon fixation were affected differentially by changes in the day-night regimes, with the former increasing directly under LL with increased daytime light doses and decreased under HL over growth-saturating light levels. Temporal segregation of N2 fixation from photosynthetic carbon fixation was evidenced under all day-night regimes, showing a time lag between the peak in N2 fixation and dip in carbon fixation. Elongation of light period led to higher N2 fixation rate under LL than under HL, while shortening the light exposure to 8 h delayed the N2 fixation peaking time (at the end of light period) and extended it to night period. Photosynthetic carbon fixation rates and transfer of light photons were always higher under HL than LL, regardless of the day-night cycles. Conclusively, diel performance of N2 fixation possesses functional plasticity, which was regulated by levels of light energy supplies either via changing light levels or length of light exposure. PMID:26258473

  5. Mini external fixation in the hand.

    PubMed

    Ugwonali, Obinwanne Fidelis C; Jupiter, Jesse B

    2006-09-01

    External fixation is an effective means of addressing several pathologies of the hand. The advantages of its use include the ability to achieve stable fixation, minimize soft tissue trauma at the site of injury, and allow wound care and mobilization of adjacent joints. External fixators can be constructed from material readily available in the operating room or obtained from a commercial source. Sufficient rigidity can be achieved by any of these means. Improper placement, although achieving rigid fixation, may compromise motion and overall function if basic principles of external fixation are not followed or if the anatomy of the hand is not taken into consideration. The objective of this article is to describe the technique of application of mini external fixation, emphasizing the basic principles of external fixation as they relate to the specific anatomy of the hand. In addition to fracture fixation, various other uses are described including distraction lengthening, arthrodesis, treatment of nonunion, and infection.

  6. Missing nitrogen fixation in the Benguela region

    NASA Astrophysics Data System (ADS)

    Wasmund, Norbert; Struck, Ulrich; Hansen, Anja; Flohr, Anita; Nausch, Günther; Grüttmüller, Annett; Voss, Maren

    2015-12-01

    Opposing opinions on the importance of nitrogen fixation in the northern Benguela upwelling region provoked us to investigate the magnitude of nitrogen fixation in front of northern Namibia and southern Angola. Measurements of nitrogen fixation rates using the 15N method at 66 stations during seven cruises from 2008 to 2014 showed that, in general, the 15N content in the biomass did not increase after tracer incubation with 15N2, indicating that no nitrogen fixation occurred. Correspondingly, the filamentous nitrogen-fixing cyanobacterium Trichodesmium was almost not present. The abundant picocyanobacteria did obviously not perform nitrogen fixation to a significant degree. The artificial improvement of conditions for nitrogen fixation in mesocosm experiments, including phosphate and iron additions and a warmer temperature, failed to induce nitrogen fixation. A plausible explanation of these findings is a lack of conditioned cells for nitrogen fixation in the Benguela region.

  7. Complement fixation test to C. burnetii

    MedlinePlus

    ... ency/article/003520.htm Complement fixation test to C burnetii To use the sharing features on this ... JavaScript. The complement fixation test to Coxiella burnetii ( C burnetti ) is a blood test that checks for ...

  8. Quantifying sediment source contributions in coastal catchments impacted by the Fukushima nuclear accident with carbon and nitrogen elemental concentrations and stable isotope ratios

    NASA Astrophysics Data System (ADS)

    Laceby, J. Patrick; Huon Huon, Sylvain; Onda, Yuichi; Evrard, Olivier

    2016-04-01

    The Fukushima Dai-ichi Nuclear Power Plant accidental release of radioactive contaminants resulted in the significant fallout of radiocesium over several coastal catchments in the Fukushima Prefecture. Radiocesium, considered to be the greatest risk to the short and long term health of the local community, is rapidly bound to fine soil particles and thus is mobilized and transported during soil erosion and runoff processes. As there has been a broad-scale decontamination of rice paddy fields and rural residential areas in the contaminated region, one important long term question is whether there is, or may be, a downstream transfer of radiocesium from forests that covered over 65% of the most contaminated region. Accordingly, carbon and nitrogen elemental concentrations and stable isotope ratios are used to determine the relative contributions of forests and rice paddies to transported sediment in three contaminated coastal catchments. Samples were taken from the three main identified sources: cultivated soils (rice paddies and fields, n=30), forest soils (n=45), and subsoils (channel bank and decontaminated soils, n = 25). Lag deposit sediment samples were obtained from five sampling campaigns that targeted the main hydrological events from October 2011 to October 2014. In total, 86 samples of deposited sediment were analyzed for particulate organic matter elemental concentrations and isotope ratios, 24 from the Mano catchment, 44 from the Niida catchment, and 18 from the Ota catchment. Mann-Whitney U-tests were used to examine the source discrimination potential of this tracing suite and select the appropriate tracers for modelling. The discriminant tracers were modelled with a concentration-dependent distribution mixing model. Preliminary results indicate that cultivated sources (predominantly rice paddies) contribute disproportionately more sediment per unit area than forested regions in these contaminated catchments. Future research will examine if there are

  9. Quantifying sources of black carbon in western North America using observationally based analysis and an emission tagging technique in the Community Atmosphere Model

    DOE PAGES

    Zhang, R.; Wang, H.; Hegg, D. A.; ...

    2015-11-18

    The Community Atmosphere Model (CAM5), equipped with a technique to tag black carbon (BC) emissions by source regions and types, has been employed to establish source–receptor relationships for atmospheric BC and its deposition to snow over western North America. The CAM5 simulation was conducted with meteorological fields constrained by reanalysis for year 2013 when measurements of BC in both near-surface air and snow are available for model evaluation. We find that CAM5 has a significant low bias in predicted mixing ratios of BC in snow but only a small low bias in predicted atmospheric concentrations over northwestern USA and westernmore » Canada. Even with a strong low bias in snow mixing ratios, radiative transfer calculations show that the BC-in-snow darkening effect is substantially larger than the BC dimming effect at the surface by atmospheric BC. Local sources contribute more to near-surface atmospheric BC and to deposition than distant sources, while the latter are more important in the middle and upper troposphere where wet removal is relatively weak. Fossil fuel (FF) is the dominant source type for total column BC burden over the two regions. FF is also the dominant local source type for BC column burden, deposition, and near-surface BC, while for all distant source regions combined the contribution of biomass/biofuel (BB) is larger than FF. An observationally based positive matrix factorization (PMF) analysis of the snow-impurity chemistry is conducted to quantitatively evaluate the CAM5 BC source-type attribution. While CAM5 is qualitatively consistent with the PMF analysis with respect to partitioning of BC originating from BB and FF emissions, it significantly underestimates the relative contribution of BB. In addition to a possible low bias in BB emissions used in the simulation, the model is likely missing a significant source of snow darkening from local soil found in the observations.« less

  10. Approaches to Quantify Potential Contaminant Transport in the Lower Carbonate Aquifer from Underground Nuclear Testing at Yucca Flat, Nevada National Security Site, Nye County, Nevada - 12434

    SciTech Connect

    Andrews, Robert W.; Birdie, Tiraz; Wilborn, Bill; Mukhopadhyay, Bimal

    2012-07-01

    Quantitative modeling of the potential for contaminant transport from sources associated with underground nuclear testing at Yucca Flat is an important part of the strategy to develop closure plans for the residual contamination. At Yucca Flat, the most significant groundwater resource that could potentially be impacted is the Lower Carbonate Aquifer (LCA), a regionally extensive aquifer that supplies a significant portion of the water demand at the Nevada National Security Site, formerly the Nevada Test Site. Developing and testing reasonable models of groundwater flow in this aquifer is an important precursor to performing subsequent contaminant transport modeling used to forecast contaminant boundaries at Yucca Flat that are used to identify potential use restriction and regulatory boundaries. A model of groundwater flow in the LCA at Yucca Flat has been developed. Uncertainty in this model, as well as other transport and source uncertainties, is being evaluated as part of the Underground Testing Area closure process. Several alternative flow models of the LCA in the Yucca Flat/Climax Mine CAU have been developed. These flow models are used in conjunction with contaminant transport models and source term models and models of contaminant transport from underground nuclear tests conducted in the overlying unsaturated and saturated alluvial and volcanic tuff rocks to evaluate possible contaminant migration in the LCA for the next 1,000 years. Assuming the flow and transport models are found adequate by NNSA/NSO and NDEP, the models will undergo a peer review. If the model is approved by NNSA/NSO and NDEP, it will be used to identify use restriction and regulatory boundaries at the start of the Corrective Action Decision Document Corrective Action Plan (CADD/CAP) phase of the Corrective Action Strategy. These initial boundaries may be revised at the time of the Closure Report phase of the Corrective Action Strategy. (authors)

  11. Heterotrophic organisms dominate nitrogen fixation in the South Pacific Gyre.

    PubMed

    Halm, Hannah; Lam, Phyllis; Ferdelman, Timothy G; Lavik, Gaute; Dittmar, Thorsten; LaRoche, Julie; D'Hondt, Steven; Kuypers, Marcel M M

    2012-06-01

    Oceanic subtropical gyres are considered biological deserts because of the extremely low availability of nutrients and thus minimum productivities. The major source of nutrient nitrogen in these ecosystems is N(2)-fixation. The South Pacific Gyre (SPG) is the largest ocean gyre in the world, but measurements of N(2)-fixation therein, or identification of microorganisms involved, are scarce. In the 2006/2007 austral summer, we investigated nitrogen and carbon assimilation at 11 stations throughout the SPG. In the ultra-oligotrophic waters of the SPG, the chlorophyll maxima reached as deep as 200 m. Surface primary production seemed limited by nitrogen, as dissolved inorganic carbon uptake was stimulated upon additions of (15)N-labeled ammonium and leucine in our incubation experiments. N(2)-fixation was detectable throughout the upper 200 m at most stations, with rates ranging from 0.001 to 0.19 nM N h(-1). N(2)-fixation in the SPG may account for the production of 8-20% of global oceanic new nitrogen. Interestingly, comparable (15)N(2)-fixation rates were measured under light and dark conditions. Meanwhile, phylogenetic analyses for the functional gene biomarker nifH and its transcripts could not detect any common photoautotrophic diazotrophs, such as, Trichodesmium, but a prevalence of γ-proteobacteria and the unicellular photoheterotrophic Group A cyanobacteria. The dominance of these likely heterotrophic diazotrophs was further verified by quantitative PCR. Hence, our combined results show that the ultra-oligotrophic SPG harbors a hitherto unknown heterotrophic diazotrophic community, clearly distinct from other oceanic gyres previously visited.

  12. Changes in North Atlantic nitrogen fixation controlled by ocean circulation.

    PubMed

    Straub, Marietta; Sigman, Daniel M; Ren, Haojia; Martínez-García, Alfredo; Meckler, A Nele; Hain, Mathis P; Haug, Gerald H

    2013-09-12

    In the ocean, the chemical forms of nitrogen that are readily available for biological use (known collectively as 'fixed' nitrogen) fuel the global phytoplankton productivity that exports carbon to the deep ocean. Accordingly, variation in the oceanic fixed nitrogen reservoir has been proposed as a cause of glacial-interglacial changes in atmospheric carbon dioxide concentration. Marine nitrogen fixation, which produces most of the ocean's fixed nitrogen, is thought to be affected by multiple factors, including ocean temperature and the availability of iron and phosphorus. Here we reconstruct changes in North Atlantic nitrogen fixation over the past 160,000 years from the shell-bound nitrogen isotope ratio ((15)N/(14)N) of planktonic foraminifera in Caribbean Sea sediments. The observed changes cannot be explained by reconstructed changes in temperature, the supply of (iron-bearing) dust or water column denitrification. We identify a strong, roughly 23,000-year cycle in nitrogen fixation and suggest that it is a response to orbitally driven changes in equatorial Atlantic upwelling, which imports 'excess' phosphorus (phosphorus in stoichiometric excess of fixed nitrogen) into the tropical North Atlantic surface. In addition, we find that nitrogen fixation was reduced during glacial stages 6 and 4, when North Atlantic Deep Water had shoaled to become glacial North Atlantic intermediate water, which isolated the Atlantic thermocline from excess phosphorus-rich mid-depth waters that today enter from the Southern Ocean. Although modern studies have yielded diverse views of the controls on nitrogen fixation, our palaeobiogeochemical data suggest that excess phosphorus is the master variable in the North Atlantic Ocean and indicate that the variations in its supply over the most recent glacial cycle were dominated by the response of regional ocean circulation to the orbital cycles.

  13. Transit Fixatives: An Innovative Study

    PubMed Central

    A, Ravi Prakash; G, Sreenath; JK, Sonia Bai; NDVN, Shyam

    2015-01-01

    Background: Universally accepted fixative is 10% formalin which has been used for preserving the tissues and their architecture. In certain conditions, formalin might not be readily available for immediate fixation. We here by explore more economical, eco-friendly and easily available solutions that can be used as transit media/ transporting media for tissue specimens. Materials and Methods: The study included commonly available solutions like Spirit, Saline, Betadine solution, Hydrogen peroxide (H2O2), Local anesthesia (L.A), Rose water, Coconut oil, Coconut water, Ice cold water, Honey and Milk while keeping formalin as control. The fresh tissue sample was cut into multiple bits and placed in different containers for a period of 8 hours before transferring to formalin solution. Conclusion: Transit fixatives are very important in certain situations where formalin is not readily available. These fixatives can be used to fix the tissues for a period of at least 8 hours without causing any damage or distortion before they are fixed in formalin solution. PMID:25954725

  14. 21 CFR 886.1290 - Fixation device.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... DEVICES OPHTHALMIC DEVICES Diagnostic Devices § 886.1290 Fixation device. (a) Identification. A fixation device is an AC-powered device intended for use as a fixation target for the patient during ophthalmological examination. The patient directs his or her gaze so that the visual image of the object falls...

  15. 21 CFR 886.1290 - Fixation device.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... DEVICES OPHTHALMIC DEVICES Diagnostic Devices § 886.1290 Fixation device. (a) Identification. A fixation device is an AC-powered device intended for use as a fixation target for the patient during ophthalmological examination. The patient directs his or her gaze so that the visual image of the object falls...

  16. 21 CFR 886.1290 - Fixation device.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... DEVICES OPHTHALMIC DEVICES Diagnostic Devices § 886.1290 Fixation device. (a) Identification. A fixation device is an AC-powered device intended for use as a fixation target for the patient during ophthalmological examination. The patient directs his or her gaze so that the visual image of the object falls...

  17. 21 CFR 886.1290 - Fixation device.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... DEVICES OPHTHALMIC DEVICES Diagnostic Devices § 886.1290 Fixation device. (a) Identification. A fixation device is an AC-powered device intended for use as a fixation target for the patient during ophthalmological examination. The patient directs his or her gaze so that the visual image of the object falls...

  18. 21 CFR 886.1290 - Fixation device.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... DEVICES OPHTHALMIC DEVICES Diagnostic Devices § 886.1290 Fixation device. (a) Identification. A fixation device is an AC-powered device intended for use as a fixation target for the patient during ophthalmological examination. The patient directs his or her gaze so that the visual image of the object falls...

  19. Binocular Fixation Disparity in Single Word Displays

    ERIC Educational Resources Information Center

    Paterson, Kevin B.; Jordan, Timothy R.; Kurtev, Stoyan

    2009-01-01

    It has been claimed that the recognition of words displayed in isolation is affected by the precise location at which they are fixated. However, this putative role for fixation location has yet to be reconciled with the finding from reading research that binocular fixations are often misaligned and, therefore, more than 1 location in a word is…

  20. Tissue fixation and the effect of molecular fixatives on downstream staining procedures.

    PubMed

    Howat, William J; Wilson, Beverley A

    2014-11-01

    It is impossible to underplay the importance of fixation in histopathology. Whether the scientist is interested in the extraction of information on lipids, proteins, RNA or DNA, fixation is critical to this extraction. This review aims to give a brief overview of the current "state of play" in fixation and focus on the effect fixation, and particularly the effect of the newer brand of "molecular fixatives" have on morphology, histochemistry, immunohistochemistry and RNA/DNA analysis. A methodology incorporating the creation of a fixation tissue microarray for the study of the effect of fixation on histochemistry is detailed.

  1. Monoaxial external fixation of the calcaneus: An anatomical study assessing the safety of monoaxial pin insertion.

    PubMed

    Thomson, Callum M; Esparon, Tom; Rea, Paul M; Jamal, Bilal

    2016-10-01

    The use of external fixation for intra-articular calcaneal fractures is increasing in popularity. Studies have shown fine wire and monoaxial external fixation to be a viable surgical alternative to more invasive methods of open reduction and internal fixation of the calcaneus. However, there is an absence of literature that quantifies the risk of pin insertion for monoaxial fixation. This study aimed to determine the safety of inserting monoaxial pins within the calcaneus to house the Orthofix Calcaneal Mini-Fixator. Five formalin embalmed cadaveric ankle and lower leg specimens were inserted with six monoaxial pins. Careful dissection then revealed the presence of the tendons of peroneus longus and brevis, the sural nerve and the small saphenous vein in relation to these pins. Measurements from each pin to each of these structures were made as the structures transected lines drawn from each pin to two palpable bony landmarks: the inferior tip of the lateral malleolus and the posterosuperior calcaneus. In doing this, the risk posed by each pin could be evaluated. We found that two particular pins, those used to hold the articular surface of the subtalar joint in a reduced position, posed a larger risk of injury to surrounding structures than the remaining pins. These findings therefore suggest that monoaxial fixation of the calcaneus using a six pin approach is a relatively safe method of rectifying calcaneal fractures and thus may serve as a welcome alternative to other methods of calcaneal fixation.

  2. Art Expertise Reduces Influence of Visual Salience on Fixation in Viewing Abstract-Paintings

    PubMed Central

    Koide, Naoko; Kubo, Takatomi; Nishida, Satoshi; Shibata, Tomohiro; Ikeda, Kazushi

    2015-01-01

    When viewing a painting, artists perceive more information from the painting on the basis of their experience and knowledge than art novices do. This difference can be reflected in eye scan paths during viewing of paintings. Distributions of scan paths of artists are different from those of novices even when the paintings contain no figurative object (i.e. abstract paintings). There are two possible explanations for this difference of scan paths. One is that artists have high sensitivity to high-level features such as textures and composition of colors and therefore their fixations are more driven by such features compared with novices. The other is that fixations of artists are more attracted by salient features than those of novices and the fixations are driven by low-level features. To test these, we measured eye fixations of artists and novices during the free viewing of various abstract paintings and compared the distribution of their fixations for each painting with a topological attentional map that quantifies the conspicuity of low-level features in the painting (i.e. saliency map). We found that the fixation distribution of artists was more distinguishable from the saliency map than that of novices. This difference indicates that fixations of artists are less driven by low-level features than those of novices. Our result suggests that artists may extract visual information from paintings based on high-level features. This ability of artists may be associated with artists’ deep aesthetic appreciation of paintings. PMID:25658327

  3. Biotic nitrogen fixation in the bryosphere is inhibited more by drought than warming.

    PubMed

    Whiteley, Jonathan A; Gonzalez, Andrew

    2016-08-01

    The boreal forest is of particular interest to climate change research due to its large circumpolar distribution and accumulated soil carbon pool. Carbon uptake in this ecosystem is nitrogen (N)-limited, therefore factors affecting carbon or nitrogen dynamics in the boreal forest can have consequences for global climate. We used a 2-year field experiment to investigate the response of biotic nitrogen fixation by cyanobacteria associated with boreal forest bryophytes, in a factorial experiment combining simulated climate change with habitat fragmentation treatments. We simulated climate change conditions using open-top greenhouse chambers in the field, which increased mean and maximum temperatures, and created a precipitation gradient from ambient levels in the center to extreme drought conditions at the periphery of the chamber. The dry patches near the chamber walls exhibited almost no N-fixation, despite having similar densities of cyanobacteria (predominantly Stigonema sp.) as other patches. Rates of N-fixation were best explained by a model containing moisture, fragmentation, cyanobacteria density and time; warming was not a significant variable affecting N-fixation. There was no significant interaction between warming and fragmentation. These results suggest that cyanobacteria responded physiologically to drought by reducing N-fixation activity long before any changes in density. Ecosystem processes, such as N-fixation, can respond in the short term to environmental change much more rapidly than changes in the underlying community structure. Such rapid physiological responses may occur faster than demographic insurance effects of biodiversity.

  4. Mechanical Comparison of Headless Screw Fixation and Locking Plate Fixation for Talar Neck Fractures.

    PubMed

    Karakasli, Ahmet; Hapa, Onur; Erduran, Mehmet; Dincer, Cemal; Cecen, Berivan; Havitcioglu, Hasan

    2015-01-01

    For talar neck fractures, open reduction and internal fixation have been thought to facilitate revascularization and prevent osteonecrosis. Newer screw systems allow for placement of cannulated headless screws, which provide compression by virtue of a variable pitch thread. The present study compared the biomechanical fixation strength of cannulated headless variable-pitch screw fixation and locking plate fixation. A reproducible talar neck fracture was created in 14 fresh cadaver talar necks. Talar head fixation was then performed using 2 cannulated headless variable-pitch 4-mm/5-mm diameter (4/5) screws (Acutrak; Acumed, Hillsboro, OR) and locking plate fixation. Headless variable-pitch screw fixation had lower failure displacement than did locking plate fixation. No statistically significant differences were found in failure stiffness, yield stiffness (p = .655), yield load (p = .142), or ultimate load between the 2 fixation techniques. Cannulated headless variable-pitch screw fixation resulted in better failure displacement than locking plate fixation in a cadaveric talus model and could be considered a viable option for talus fracture fixation. Headless, fully threaded, variable-pitch screw fixation has inherent advantages compared with locking plate fixation, because it might cause less damage to the articular surface and can compress the fracture for improved reduction. Additionally, plate fixation can increase the risk of avascular necrosis owing to the wider incision and dissection of soft tissues.

  5. Effect of induced aniseikonia on fixation performance.

    PubMed

    Remole, A

    1988-01-01

    The purpose of the study was to determine to what extent induced aniseikonia affects fixation performance. Aniseikonia was induced in the vertical meridian only, whereas fixation alignment was monitored in the horizontal meridian. A previously developed technique based on the dependency of border enhancement bandwidth on fixation eccentricity was used to monitor deviations from central fixation during fusion. Stress on the fusion mechanism was supplied by controlled increments of forced horizontal vergence. It was found that deviation from central fixation in the horizontal meridian generally increases with increasing amounts of vertical aniseikonia. The effect is particularly pronounced for small amounts of aniseikonia.

  6. Diesel Emissions Quantifier (DEQ)

    EPA Pesticide Factsheets

    .The Diesel Emissions Quantifier (Quantifier) is an interactive tool to estimate emission reductions and cost effectiveness. Publications EPA-420-F-13-008a (420f13008a), EPA-420-B-10-035 (420b10023), EPA-420-B-10-034 (420b10034)

  7. The decomposition of vegetation and soil in marginal peat-forming landscapes: climate simulations to quantify gaseous and dissolved carbon fluxes and the effects on peat accumulation and drinking water treatment

    NASA Astrophysics Data System (ADS)

    Ritson, J.; Bell, M.; Clark, J. M.; Graham, N.; Templeton, M.; Brazier, R.; Verhoef, A.; Freeman, C.

    2013-12-01

    Peatlands in the UK represent a large proportion of the soil carbon store, however there is concern that some systems may be switching from sinks to sources of carbon. The accumulation of organic material in peatlands results from the slow rates of decomposition typically occurring in these regions. Climate change may lead to faster decomposition which, if not matched by an equivalent increase in net primary productivity and litter fall, may tip the balance between source and sink. Recent trends have seen a greater flux of dissolved organic matter (DOM) from peatlands to surface waters and a change in DOM character, presenting challenges to water treatment, for example in terms of increased production of disinfectant by-products (DBPs). Peat systems border a large proportion of reservoirs in the UK so uncertainty regarding DOM quantity and quality is a concern for water utilities. This study considered five peatland vegetation types (Sphagnum spp., Calluna vulgaris, Molinea caerulea, peat soil and mixed litter) collected from the Exmoor National Park, UK where it is hypothesised that peat formation may be strongly affected by future changes to climate. A factorial experiment design to simulate climate was used, considering vegetation type, temperature and rainfall amount using a current baseline and predictions from the UKCP09 model. Gaseous fluxes of carbon were monitored over a two month period to quantify the effect on carbon mineralisation rates while 13C NMR analysis was employed to track which classes of compounds decayed preferentially. The DOM collected was characterised using UV and fluorescence techniques before being subject to standard drinking water treatment processes (coagulation/flocculation followed by chlorination). The effect of the experimental factors on DOM amenability to removal and propensity to form DBPs was then considered, with both trihalomethane (THM) and haloacetonitrile (HAN) DBP classes monitored. Initial results have shown a

  8. Tailor's bunion. Is fixation necessary?

    PubMed

    Pontious, J; Brook, J W; Hillstrom, H J

    1996-02-01

    Tailor's bunion or bunionette are terms that describe a pathologic enlargement occurring laterally on the fifth metatarsophalangeal joint. Regardless of the etiology that precipitates the deformity, the resulting abnormal protrusion of soft tissue or bone can result in pain for the patient. Symptoms can range from mild discomfort to severe, debilitating pain. The patient may present with pain dorsolaterally, laterally, or plantarly. The symptoms are mechanically induced, and are often associated with hyperkeratotic lesions and adventitious bursae. Patients complain most often that they cannot find comfortable shoes. The authors compare the effectiveness of fixated versus nonfixated distal osteotomies of the fifth metatarsal for the correction of tailor's bunion. This study shows that fixation can help control postoperative dorsal displacement of the fifth metatarsal capital fragment (p < 0.0001) and produce less shortening of the metatarsal resulting in fewer complications.

  9. Fixation strategies for retinal immunohistochemistry.

    PubMed

    Stradleigh, Tyler W; Ishida, Andrew T

    2015-09-01

    Immunohistochemical and ex vivo anatomical studies have provided many glimpses of the variety, distribution, and signaling components of vertebrate retinal neurons. The beauty of numerous images published to date, and the qualitative and quantitative information they provide, indicate that these approaches are fundamentally useful. However, obtaining these images entailed tissue handling and exposure to chemical solutions that differ from normal extracellular fluid in composition, temperature, and osmolarity. Because the differences are large enough to alter intercellular and intracellular signaling in neurons, and because retinae are susceptible to crush, shear, and fray, it is natural to wonder if immunohistochemical and anatomical methods disturb or damage the cells they are designed to examine. Tissue fixation is typically incorporated to guard against this damage and is therefore critically important to the quality and significance of the harvested data. Here, we describe mechanisms of fixation; advantages and disadvantages of using formaldehyde and glutaraldehyde as fixatives during immunohistochemistry; and modifications of widely used protocols that have recently been found to improve cell shape preservation and immunostaining patterns, especially in proximal retinal neurons.

  10. Fixation Strategies For Retinal Immunohistochemistry

    PubMed Central

    Stradleigh, Tyler W.; Ishida, Andrew T.

    2015-01-01

    Immunohistochemical and ex vivo anatomical studies have provided many glimpses of the variety, distribution, and signaling components of vertebrate retinal neurons. The beauty of numerous images published to date, and the qualitative and quantitative information they provide, indicate that these approaches are fundamentally useful. However, obtaining these images entailed tissue handling and exposure to chemical solutions that differ from normal extracellular fluid in composition, temperature, and osmolarity. Because the differences are large enough to alter intercellular and intracellular signaling in neurons, and because retinae are susceptible to crush, shear, and fray, it is natural to wonder if immunohistochemical and anatomical methods disturb or damage the cells they are designed to examine. Tissue fixation is typically incorporated to guard against this damage and is therefore critically important to the quality and significance of the harvested data. Here, we describe mechanisms of fixation; advantages and disadvantages of using formaldehyde and glutaraldehyde as fixatives during immunohistochemistry; and modifications of widely used protocols that have recently been found to improve cell shape preservation and immunostaining patterns, especially in proximal retinal neurons. PMID:25892361

  11. Comparison of the biomechanics and histology of two soft-tissue fixators composed of bioabsorbable copolymers.

    PubMed

    Powers, D L; Sonawala, M; Woolf, S K; An, Y H; Hawkins, R; Pietrzak, W S

    2001-01-01

    The purpose of this study was to assess the dynamic in vitro and in vivo characteristics of two different bioabsorbable copolymer soft-tissue fixation devices and to determine their efficacy in reattaching soft tissue to bone. Suretac fixators (Smith & Nephew/Acufex MicroSurgical Inc., Northwood, MA), made of polyglyconate (2:1 glycolic acid:trimethylene carbonate), and Pop Rivets (Arthrotek, Warsaw, IN), made of LactoSorb (82% poly L-lactic acid, 18% polyglycolic acid), were anchored into synthetic bone, and their pull-out strengths were evaluated. The devices were also evaluated with the use of an in vivo goat model in which the medial collateral ligament (MCL) was elevated from the tibia and directly reattached. In the in vitro biomechanical study, the Suretac fixators had negligible strength remaining by four weeks, whereas the Pop Rivets retained 50% of their strength at 4 weeks, 20% at 8 weeks, and negligible strength at 12 weeks. The in vivo strength of MCL repairs affected by each implant was not statistically different at any of the time points. Histologically, both implants were absorbed by 52 weeks, and there was no appreciable adverse tissue response. In conclusion, both copolymer fixators were found to be biocompatible. The Pop Rivet fixators demonstrated in vivo performance comparable to the Suretac fixators, although the Pop Rivets retained strength longer in vitro. Our results suggest that both devices provide adequate strength of fixation before degrading to allow the healing soft tissues to reach or surpass their native strength.

  12. 11CO2 fixation: a renaissance in PET radiochemistry.

    PubMed

    Rotstein, Benjamin H; Liang, Steven H; Holland, Jason P; Collier, Thomas Lee; Hooker, Jacob M; Wilson, Alan A; Vasdev, Neil

    2013-06-25

    Carbon-11 labelled carbon dioxide is the cyclotron-generated feedstock reagent for most positron emission tomography (PET) tracers using this radionuclide. Most carbon-11 labels, however, are installed using derivative reagents generated from [(11)C]CO2. In recent years, [(11)C]CO2 has seen a revival in applications for the direct incorporation of carbon-11 into functional groups such as ureas, carbamates, oxazolidinones, carboxylic acids, esters, and amides. This review summarizes classical [(11)C]CO2 fixation strategies using organometallic reagents and then focuses on newly developed methods that employ strong organic bases to reversibly capture [(11)C]CO2 into solution, thereby enabling highly functionalized labelled compounds to be prepared. Labelled compounds and radiopharmaceuticals that have been translated to the clinic are highlighted.

  13. Array tomography: rodent brain fixation and embedding.

    PubMed

    Micheva, Kristina D; O'Rourke, Nancy; Busse, Brad; Smith, Stephen J

    2010-11-01

    Array tomography is a volumetric microscopy method based on physical serial sectioning. Ultrathin sections of a plastic-embedded tissue are cut using an ultramicrotome, bonded in an ordered array to a glass coverslip, stained as desired, and imaged. The resulting two-dimensional image tiles can then be reconstructed computationally into three-dimensional volume images for visualization and quantitative analysis. The minimal thickness of individual sections permits high-quality rapid staining and imaging, whereas the array format allows reliable and convenient section handling, staining, and automated imaging. Also, the physical stability of the arrays permits images to be acquired and registered from repeated cycles of staining, imaging, and stain elution, as well as from imaging using multiple modalities (e.g., fluorescence and electron microscopy). Array tomography makes it possible to visualize and quantify previously inaccessible features of tissue structure and molecular architecture. However, careful preparation of the tissue is essential for successful array tomography; these steps can be time-consuming and require some practice to perfect. This protocol describes the fixation and processing required to prepare tissues for immunofluorescence array tomography.

  14. Efficiency of CO2 fixation by microalgae in a closed raceway pond.

    PubMed

    Li, Shuwen; Luo, Shengjun; Guo, Rongbo

    2013-05-01

    Microalgae contain about 50% of carbon, which means that a total of 1.83 ton of CO2 is needed to produce 1 ton of microalgae. The cost of CO2 supply for microalgal large scale cultivation should be considered and the low CO2 fixation efficiency by microalgae will lead to much more expenditure of CO2. In this study, a closed raceway pond was constructed by covering a normal open raceway pond with a specially designed transparent cover, which directly touched the surface of microalgal culture media. This cover prevented supplied CO2 escaping into atmosphere and thus increased the retention time of CO2. The CO2 gas-liquid mass transfer and CO2 fixation efficiency by microalgae in the closed raceway pond were investigated, and the model of CO2 fixation by microalgae was developed. Through the model, the CO2 fixation efficiency increased to 95% under intermittent gas sparging.

  15. Overcoming fixation with repeated memory suppression.

    PubMed

    Angello, Genna; Storm, Benjamin C; Smith, Steven M

    2015-01-01

    Fixation (blocks to memories or ideas) can be alleviated not only by encouraging productive work towards a solution, but, as the present experiments show, by reducing counterproductive work. Two experiments examined relief from fixation in a word-fragment completion task. Blockers, orthographically similar negative primes (e.g., ANALOGY), blocked solutions to word fragments (e.g., A_L_ _GY) in both experiments. After priming, but before the fragment completion test, participants repeatedly suppressed half of the blockers using the Think/No-Think paradigm, which results in memory inhibition. Inhibiting blockers did not alleviate fixation in Experiment 1 when conscious recollection of negative primes was not encouraged on the fragment completion test. In Experiment 2, however, when participants were encouraged to remember negative primes at fragment completion, relief from fixation was observed. Repeated suppression may nullify fixation effects, and promote creative thinking, particularly when fixation is caused by conscious recollection of counterproductive information.

  16. Photosynthetic CO/sub 2/ fixation in guard cells (GC). [Vicia

    SciTech Connect

    Gotow, K.; Taylor, S.; Zeiger, E.

    1987-04-01

    Recent studies indicate that carbon metabolism in GC is modulated by light quality. The fate of /sup 14/CO/sub 2/ supplied to highly purified Vicia GC protoplasts irradiated with red light was investigated. The suspension was stirred at 25/sup 0/C and dark-adapted for 5 min. After 5 min. in red light, 4.8 uCi of NaH/sup 14/CO/sub 3/ was added (final concentration: 100 uM). Metabolism was quenched after 30 s with boiling ethanol. Anionic compounds were separated by 2D PC and TLC, and quantified. Rates of CO/sub 2/ fixation were 5- to 8-fold higher in the light. In the dark, malate and aspartate had 90% of the total label; in the light, 3-PGA, sugar monophosphates (SMP) and sugar diophosphates (SDP) had up to 60% of the label. Phosphates treatment and rechromatography of labelled SDP showed the presence of ribulose, a specific PCRP metabolite. In time-course experiments, labelled 3-PGA was detected within 5 s. With time, the percentage of label in 3-PGA decreased and that in SMP increased. The authors conclude that 3-PGA is a primary carboxylation product of the PCRP in GC and that the activity of the PCRP and PEP-carboxylase is metabolically regulated.

  17. Nitrogen fixation method and apparatus

    DOEpatents

    Chen, Hao-Lin

    1983-01-01

    A method and apparatus for achieving nitrogen fixation includes a volumetric electric discharge chamber. The volumetric discharge chamber provides an even distribution of an electron beam, and enables the chamber to be maintained at a controlled energy to pressure (E/p) ratio. An E/p ratio of from 5 to 15 kV/atm of O.sub.2 /cm promotes the formation of vibrationally excited N.sub.2. Atomic oxygen interacts with vibrationally excited N.sub.2 at a much quicker rate than unexcited N.sub.2, greatly improving the rate at which NO is formed.

  18. Nitrogen fixation method and apparatus

    DOEpatents

    Chen, H.L.

    1983-08-16

    A method and apparatus for achieving nitrogen fixation includes a volumetric electric discharge chamber. The volumetric discharge chamber provides an even distribution of an electron beam, and enables the chamber to be maintained at a controlled energy to pressure (E/p) ratio. An E/p ratio of from 5 to 15 kV/atm of O[sub 2]/cm promotes the formation of vibrationally excited N[sub 2]. Atomic oxygen interacts with vibrationally excited N[sub 2] at a much quicker rate than unexcited N[sub 2], greatly improving the rate at which NO is formed. 1 fig.

  19. Image recorder with microwave fixation

    SciTech Connect

    Hosono, N.; Isaka, K.

    1984-11-13

    The present invention is directed to improvement in an image recorder for recording developed images or toner images by microwave fixation. According to the invention there is used a novel thermoplastic developer comprising of two components. The first component contains a dielectric material which is able to absorb microwave and generate heat by dielectric loss. The second component contains magnetic loss exothermic material. The microwave absorbing power of the first component is improved by heating the first component with heat generated from the second component.

  20. Do Fixation Cues Ensure Fixation Accuracy in Split-Fovea Studies of Word Recognition?

    ERIC Educational Resources Information Center

    Jordan, Timothy R.; Paterson, Kevin B.; Kurtev, Stoyan; Xu, Mengyun

    2009-01-01

    Many studies have claimed that hemispheric processing is split precisely at the foveal midline and so place great emphasis on the precise location at which words are fixated. These claims are based on experiments in which a variety of fixation procedures were used to ensure fixation accuracy but the effectiveness of these procedures is unclear. We…

  1. The Path of Carbon in Photosynthesis

    DOE R&D Accomplishments Database

    Calvin, M.; Benson, A. A.

    1948-03-08

    The dark fixation of carbon dioxide by green algae has been investigated and found to be closely related to photosynthesis fixation. By illumination in the absence of carbon dioxide followed by treatment with radioactive carbon dioxide in the dark, the amount fixed has been increased ten to twenty fold. This rate of maximum fixation approaches photosynthesis maximum rates. The majority of the radioactive products formed under these conditions have been identified and isolated and the distribution of labeled carbon determined. From these results a tentative scheme for the mechanism of photosynthesis is set forth.

  2. Quantifying Faculty Workloads.

    ERIC Educational Resources Information Center

    Archer, J. Andrew

    Teaching load depends on many variables, however most colleges define it strictly in terms of contact or credit hours. The failure to give weight to variables such as number of preparations, number of students served, committee and other noninstructional assignments is usually due to the lack of a formula that will quantify the effects of these…

  3. Catalysis: Quantifying charge transfer

    NASA Astrophysics Data System (ADS)

    James, Trevor E.; Campbell, Charles T.

    2016-02-01

    Improving the design of catalytic materials for clean energy production requires a better understanding of their electronic properties, which remains experimentally challenging. Researchers now quantify the number of electrons transferred from metal nanoparticles to an oxide support as a function of particle size.

  4. Establishment of a Meso-network of Eddy Covariance Towers to Quantify Carbon, Water and Heat Fluxes Along a Permafrost and Climate Gradient in the Taiga Plains, Northwest Territories, Canada

    NASA Astrophysics Data System (ADS)

    Sonnentag, O.; Helbig, M.; Detto, M.; Wischnewski, K.; Chasmer, L.; Marsh, P.; Quinton, W. L.

    2013-12-01

    Recent research suggests an increase in active-layer depth in the continuous permafrost zone and degradation of the sporadic and discontinuous permafrost zones into seasonally frozen ground. Increasing active-layer depth and continued permafrost degradation will have far-reaching consequences for northern ecosystems with net feedbacks of unknown magnitude and direction to the climate system by altered regional hydrology and topography, vegetation composition and structure, land surface properties, and carbon dioxide (CO2) and methane (CH4) sink-source strengths. Several important questions are currently unanswered: 1) What is the net effect of permafrost thawing-induced biophysical and biogeochemical feedbacks to the climate system? 2) How do these two different types of feedback differ between the sporadic, discontinuous and continuous permafrost zones? 3) Is the decrease (increase) in net CO2 (CH4) exchange measured over mostly tundra sites in the continuous permafrost zone generalizable to forested landscapes in the sporadic, discontinuous and continuous permafrost zones? To address these questions we initiated a meso-network of eddy covariance towers to quantify carbon (CO2, CH4), water and heat fluxes along a permafrost and climate gradient in the Taiga Plains, Northwest Territories, Canada including the following four sites from south to north (Fort Simpson - Norman Wells - Inuvik): Scotty Creek (boreal forest-peatland landscape with sporadic/discontinuous permafrost; fully operational since May 2013), Norman Wells (boreal forest with discontinuous/continuous permafrost; to be established in 2014), Havikpak Creek (boreal forest with continuous permafrost; partly operational since April 2013) and Trail Valley Creek (tundra with continuous permafrost; partly operational since April 2013). At all sites the eddy covariance measurements are or will be complemented by repeated surveys of surface and frost table topography and vegetation, by land cover-type specific

  5. Biochemical Approaches to Improved Nitrogen Fixation

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Improving symbiotic nitrogen fixation by legumes has emerged again as an important topic on the world scene due to the energy crisis and lack of access to nitrogen fertilizer in developing countries. We have taken a biochemical genomics approach to improving symbiotic nitrogen fixation in legumes. L...

  6. Do fixation cues ensure fixation accuracy in split-fovea studies of word recognition?

    PubMed

    Jordan, Timothy R; Paterson, Kevin B; Kurtev, Stoyan; Xu, Mengyun

    2009-07-01

    Many studies have claimed that hemispheric processing is split precisely at the foveal midline and so place great emphasis on the precise location at which words are fixated. These claims are based on experiments in which a variety of fixation procedures were used to ensure fixation accuracy but the effectiveness of these procedures is unclear. We investigated this issue using procedures matched to the original studies and an eye-tracker to monitor the locations actually fixated. Four common types of fixation cues were used: cross, two vertical gapped lines, two vertical gapped lines plus a secondary task in which a digit was presented at the designated fixation point, and a dot. Accurate fixations occurred on <35% of trials for all fixation conditions. Moreover, despite the usefulness often attributed to a secondary task, no increase in fixation accuracy was produced in this condition. The indications are that split-fovea theory should not assume that fixation of specified locations occurs in experiments without appropriate eye-tracking control or, indeed, that consistent fixation of specified locations is plausible under normal conditions of word recognition.

  7. Eighth international congress on nitrogen fixation. Final program

    SciTech Connect

    Not Available

    1990-12-31

    This volume contains the proceedings of the Eighth International Congress on Nitrogen Fixation held May 20--26, 1990 in Knoxville, Tennessee. The volume contains abstracts of individual presentations. Sessions were entitled Recent Advances in the Chemistry of Nitrogen Fixation, Plant-microbe Interactions, Limiting Factors of Nitrogen Fixation, Nitrogen Fixation and the Environment, Bacterial Systems, Nitrogen Fixation in Agriculture and Industry, Plant Function, and Nitrogen Fixation and Evolution.

  8. Symbiotic Nitrogen Fixation and the Challenges to Its Extension to Nonlegumes

    PubMed Central

    Mus, Florence; Crook, Matthew B.; Garcia, Kevin; Garcia Costas, Amaya; Geddes, Barney A.; Kouri, Evangelia D.; Paramasivan, Ponraj; Ryu, Min-Hyung; Oldroyd, Giles E. D.; Poole, Philip S.; Udvardi, Michael K.; Voigt, Christopher A.

    2016-01-01

    Access to fixed or available forms of nitrogen limits the productivity of crop plants and thus food production. Nitrogenous fertilizer production currently represents a significant expense for the efficient growth of various crops in the developed world. There are significant potential gains to be had from reducing dependence on nitrogenous fertilizers in agriculture in the developed world and in developing countries, and there is significant interest in research on biological nitrogen fixation and prospects for increasing its importance in an agricultural setting. Biological nitrogen fixation is the conversion of atmospheric N2 to NH3, a form that can be used by plants. However, the process is restricted to bacteria and archaea and does not occur in eukaryotes. Symbiotic nitrogen fixation is part of a mutualistic relationship in which plants provide a niche and fixed carbon to bacteria in exchange for fixed nitrogen. This process is restricted mainly to legumes in agricultural systems, and there is considerable interest in exploring whether similar symbioses can be developed in nonlegumes, which produce the bulk of human food. We are at a juncture at which the fundamental understanding of biological nitrogen fixation has matured to a level that we can think about engineering symbiotic relationships using synthetic biology approaches. This minireview highlights the fundamental advances in our understanding of biological nitrogen fixation in the context of a blueprint for expanding symbiotic nitrogen fixation to a greater diversity of crop plants through synthetic biology. PMID:27084023

  9. Contribution of mono and polysaccharides to heterotrophic N2 fixation at the eastern Mediterranean coastline.

    PubMed

    Rahav, E; Giannetto, M J; Bar-Zeev, E

    2016-06-16

    N2 fixation should be a critical process in the nitrogen-poor surface water of the eastern Mediterranean Sea. Despite favorable conditions, diazotroph abundance and N2 fixation rates remains low for reasons yet explained. The main goal of this study was to investigate the limiting nutrients for diazotrophy in this oligotrophic environment. Hence, we conducted dedicated bottle-microcosms with eastern Mediterranean Sea water that were supplemented with mono and polysaccharides as well as inorganic nitrogen and phosphorous. Our results indicate that the diazotrophic community expressing nifH was primarily represented by heterotrophic Proteobacteria. N2 fixation and heterotrophic bacterial activity increased up-to tenfold following two days of dark incubations, once seawater was supplemented with organic carbon substrate in the form of glucose (monosaccharides) or gum-xanthan (polysaccharide surrogate). Furthermore, our results point that carbon-rich polysaccharides, such as transparent exopolymer particles, enhance heterotrophic N2 fixation, by forming microenvironments of intense metabolic activity, high carbon: nitrogen ratio, and possibly low O2 levels. The conclusions of this study indicate that diazotrophs in the eastern Mediterranean coast are primarily limited by organic carbon substrates, as possibly in many other marine regions.

  10. Contribution of mono and polysaccharides to heterotrophic N2 fixation at the eastern Mediterranean coastline

    PubMed Central

    Rahav, E.; Giannetto, M. J.; Bar-Zeev, E.

    2016-01-01

    N2 fixation should be a critical process in the nitrogen-poor surface water of the eastern Mediterranean Sea. Despite favorable conditions, diazotroph abundance and N2 fixation rates remains low for reasons yet explained. The main goal of this study was to investigate the limiting nutrients for diazotrophy in this oligotrophic environment. Hence, we conducted dedicated bottle-microcosms with eastern Mediterranean Sea water that were supplemented with mono and polysaccharides as well as inorganic nitrogen and phosphorous. Our results indicate that the diazotrophic community expressing nifH was primarily represented by heterotrophic Proteobacteria. N2 fixation and heterotrophic bacterial activity increased up-to tenfold following two days of dark incubations, once seawater was supplemented with organic carbon substrate in the form of glucose (monosaccharides) or gum-xanthan (polysaccharide surrogate). Furthermore, our results point that carbon-rich polysaccharides, such as transparent exopolymer particles, enhance heterotrophic N2 fixation, by forming microenvironments of intense metabolic activity, high carbon: nitrogen ratio, and possibly low O2 levels. The conclusions of this study indicate that diazotrophs in the eastern Mediterranean coast are primarily limited by organic carbon substrates, as possibly in many other marine regions. PMID:27306501

  11. Quantifying Ubiquitin Signaling

    PubMed Central

    Ordureau, Alban; Münch, Christian; Harper, J. Wade

    2015-01-01

    Ubiquitin (UB)-driven signaling systems permeate biology, and are often integrated with other types of post-translational modifications (PTMs), most notably phosphorylation. Flux through such pathways is typically dictated by the fractional stoichiometry of distinct regulatory modifications and protein assemblies as well as the spatial organization of pathway components. Yet, we rarely understand the dynamics and stoichiometry of rate-limiting intermediates along a reaction trajectory. Here, we review how quantitative proteomic tools and enrichment strategies are being used to quantify UB-dependent signaling systems, and to integrate UB signaling with regulatory phosphorylation events. A key regulatory feature of ubiquitylation is that the identity of UB chain linkage types can control downstream processes. We also describe how proteomic and enzymological tools can be used to identify and quantify UB chain synthesis and linkage preferences. The emergence of sophisticated quantitative proteomic approaches will set a new standard for elucidating biochemical mechanisms of UB-driven signaling systems. PMID:26000850

  12. How to quantify ripple

    NASA Astrophysics Data System (ADS)

    Geib, H.; Kuehne, C.; Morgenbrod, E.

    In the present attempt to render the small area errors in large telescope mirror manufacture, known as 'ripple', numerically quantifiable, two-dimensional regularity is omitted, yielding greater clarity and comparability of results. In the measurement of the interference fringe, the central fringe is photometered in equidistant steps. Application of Fourier analysis to the average value obtained is followed by a power spectrum calculation. The test method is evaluated through the numerical examination of a ripple structure of known size and period length.

  13. Quantifying concordance in cosmology

    NASA Astrophysics Data System (ADS)

    Seehars, Sebastian; Grandis, Sebastian; Amara, Adam; Refregier, Alexandre

    2016-05-01

    Quantifying the concordance between different cosmological experiments is important for testing the validity of theoretical models and systematics in the observations. In earlier work, we thus proposed the Surprise, a concordance measure derived from the relative entropy between posterior distributions. We revisit the properties of the Surprise and describe how it provides a general, versatile, and robust measure for the agreement between data sets. We also compare it to other measures of concordance that have been proposed for cosmology. As an application, we extend our earlier analysis and use the Surprise to quantify the agreement between WMAP 9, Planck 13, and Planck 15 constraints on the Λ CDM model. Using a principle component analysis in parameter space, we find that the large Surprise between WMAP 9 and Planck 13 (S =17.6 bits, implying a deviation from consistency at 99.8% confidence) is due to a shift along a direction that is dominated by the amplitude of the power spectrum. The Planck 15 constraints deviate from the Planck 13 results (S =56.3 bits), primarily due to a shift in the same direction. The Surprise between WMAP and Planck consequently disappears when moving to Planck 15 (S =-5.1 bits). This means that, unlike Planck 13, Planck 15 is not in tension with WMAP 9. These results illustrate the advantages of the relative entropy and the Surprise for quantifying the disagreement between cosmological experiments and more generally as an information metric for cosmology.

  14. Global N2 fixation and its response to global climate change and increasing CO2 level

    NASA Astrophysics Data System (ADS)

    Wang, Y.; Houlton, B. Z.; Field, C. B.; Vitousek, P. M.

    2007-12-01

    Biological nitrogen fixation is the largest nitrogen input to many natural terrestrial ecosystems, particularly tropical ecosystems, thereby influencing primary production, CO2 uptake, and responses to climate change. However, our understanding of biological nitrogen fixation is still very limited, and the dominant plant family capable of fixing N2 symbiotically, the Leguminasae, exhibits considerable geographic variation in the terrestrial biosphere. Based on the principles of resource optimization, we developed a new model to constrain our understanding of the geographic distribution of N fixation globally. Our model treats N fixation according to the C cost of fixing N, coupled with the N cost associated with acquiring P from the soil for plant growth. The model was used to estimate the rate of global symbiotic N2 fixation and the response of symbiotic N2 fixers to changes in climate and rising atmospheric CO2. We shall discuss global N limitation of terrestrial carbon uptake and its implications for climate-carbon cycle feedbacks from present to year 2100.

  15. Oxygen-Poor Microzones as Potential Sites of Microbial N2 Fixation in Nitrogen-Depleted Aerobic Marine Waters

    PubMed Central

    Paerl, Hans W.; Prufert, Leslie E.

    1987-01-01

    The nitrogen-deficient coastal waters of North Carolina contain suspended bacteria potentially able to fix N2. Bioassays aimed at identifying environmental factors controlling the development and proliferation of N2 fixation showed that dissolved organic carbon (as simple sugars and sugar alcohols) and particulate organic carbon (derived from Spartina alterniflora) additions elicited and enhanced N2 fixation (nitrogenase activity) in these waters. Nitrogenase activity occurred in samples containing flocculent, mucilage-covered bacterial aggregates. Cyanobacterium-bacterium aggregates also revealed N2 fixation. In all cases bacterial N2 fixation occurred in association with surficial microenvironments or microzones. Since nitrogenase is oxygen labile, we hypothesized that the aggregates themselves protected their constituent microbes from O2. Microelectrode O2 profiles revealed that aggregates had lower internal O2 tensions than surrounding waters. Tetrazolium salt (2,3,5-triphenyl-3-tetrazolium chloride) reduction revealed that patchy zones existed both within microbes and extracellularly in the mucilage surrounding microbes where free O2 was excluded. Triphenyltetrazolium chloride reduction also strongly inhibited nitrogenase activity. These findings suggest that N2 fixation is mediated by the availability of the appropriate types of reduced microzones. Organic carbon enrichment appears to serve as an energy and structural source for aggregate formation, both of which were required for eliciting N2 fixation responses of these waters. Images PMID:16347337

  16. Kennedy Space Center Fixation Tube (KFT)

    NASA Technical Reports Server (NTRS)

    Richards, Stephanie E.; Levine, Howard G.; Romero, Vergel

    2016-01-01

    Experiments performed on the International Space Station (ISS) frequently require the experimental organisms to be preserved until they can be returned to earth for analysis in the appropriate laboratory facility. The Kennedy Fixation Tube (KFT) was developed to allow astronauts to apply fixative, chemical compounds that are often toxic, to biological samples without the use of a glovebox while maintaining three levels of containment (Fig. 1). KFTs have been used over 200 times on-orbit with no leaks of chemical fixative. The KFT is composed of the following elements: a polycarbonate main tube where the fixative is loaded preflight, the sample tube where the plant or other biological specimens is placed during operations, the expansion plug, actuator, and base plug that provides fixative containment (Fig. 2). The main tube is pre-filled with 25 mL of fixative solution prior to flight. When actuated, the specimen contained within the sample tube is immersed with approximately 22 mL (+/- 2 mL) of the fixative solution. The KFT has been demonstrated to maintain its containment at ambient temperatures, 4degC refrigeration and -100 C freezing conditions.

  17. Minimum formalin fixation time for consistent estrogen receptor immunohistochemical staining of invasive breast carcinoma.

    PubMed

    Goldstein, Neal S; Ferkowicz, Monica; Odish, Eva; Mani, Anju; Hastah, Farnaz

    2003-07-01

    To identify the minimum time necessary for consistent immunohistochemical estrogen receptor (ER) results in our laboratory, we evaluated results in timed fixation blocks and cases with disparate and similar needle core biopsy and partial mastectomy specimens. Tissue sections of 24 ER-positive, invasive breast carcinomas were fixed for 3, 6, 8, and 12 hours and 1, 2, and 7 days. ER values were quantified using the Q score (0-7). In timed fixation blocks, the mean Q score per block was 2.46 for blocks fixed for 3 hours, 5.75 for blocks fixed for 6 hours, and 6.70 for blocks fixed for 8 hours (P < .001). The difference between the case maximum and mean block Q scores was a plateau of almost 0 at 6 to 8 hours of formalin fixation. For needle core biopsy specimen fixation times, the means for specimens with ER-disparate and ER-similar results were 1.2 and 6.3 hours, respectively (P = .01). The minimum formalin fixation time for reliable immunohistochemical ER results is 6 to 8 hours in our laboratory, regardless of the type or size of specimen.

  18. Fixation light hue bias revisited: implications for using adaptive optics to study color vision.

    PubMed

    Hofer, H J; Blaschke, J; Patolia, J; Koenig, D E

    2012-03-01

    Current vision science adaptive optics systems use near infrared wavefront sensor 'beacons' that appear as red spots in the visual field. Colored fixation targets are known to influence the perceived color of macroscopic visual stimuli (Jameson, D., & Hurvich, L. M. (1967). Fixation-light bias: An unwanted by-product of fixation control. Vision Research, 7, 805-809.), suggesting that the wavefront sensor beacon may also influence perceived color for stimuli displayed with adaptive optics. Despite its importance for proper interpretation of adaptive optics experiments on the fine scale interaction of the retinal mosaic and spatial and color vision, this potential bias has not yet been quantified or addressed. Here we measure the impact of the wavefront sensor beacon on color appearance for dim, monochromatic point sources in five subjects. The presence of the beacon altered color reports both when used as a fixation target as well as when displaced in the visual field with a chromatically neutral fixation target. This influence must be taken into account when interpreting previous experiments and new methods of adaptive correction should be used in future experiments using adaptive optics to study color.

  19. An eye movement technique for correlating fixational target eye movements with location on the retinal image.

    PubMed

    Barrett, S F; Zwick, H

    2000-01-01

    Recent investigation demonstrate that ocular motility in eyes with retinal pathology may show a lower propensity to visit such areas of the retina as compared to non-pathological retinal sites. While current ophthalmic instruments with the ability to image both the retina and visual function test target placement on the retina have provided this observation, the ability to quantify in real time these images as an eye movement measurement is presently lacking and the objective of this paper. A Rodenstock confocal scanning ophthalmoscope (CSLO) was used to image the retina during the performance of a visual fixation task. Direct observation of acuity target placement at the retina under continuous viewing conditions was possible with this apparatus. Target fixation eye movement images of the retina were rapidly digitized from video tape records and registered using a specialized rapid retinal image tracking algorithm. Fixational eye movement pattern densities at the retina were derived from these data. Preliminary data obtained demonstrate the utility of this technique in quantifying fixation eye movement patterns observed in three human patients with vocation-related laser retinal injury. In all patients, areas of severe retinal damage was generally avoided. The density of ocular eye movement tends to reflect regions of retinal normality and avoidance of retinal regions with severe pathology. Variation in eye movement density may exist where pathology is less severe.

  20. A quantitative analysis of the direct and indirect costs of nitrogen fixation: a model based on Azotobacter vinelandii

    PubMed Central

    Inomura, Keisuke; Bragg, Jason; Follows, Michael J

    2017-01-01

    Nitrogen fixation is advantageous in microbial competition when bioavailable nitrogen is scarce, but has substantial costs for growth rate and growth efficiency. To quantify these costs, we have developed a model of a nitrogen-fixing bacterium that constrains mass, electron and energy flow at the scale of the individual. When tested and calibrated with laboratory data for the soil bacterium Azotobacter vinelandii, the model reveals that the direct energetic cost of nitrogen fixation is small relative to the cost of managing intracellular oxygen. It quantifies the costs and benefits of several potential oxygen protection mechanisms present in nature including enhanced respiration (respiratory protection) as well as the production of extracellular polymers as a barrier to O2 diffusion, and increasing cell size. The latter mechanisms lead to higher growth efficiencies relative to respiratory protection alone. This simple, yet mechanistic framework provides a quantitative model of nitrogen fixation, which can be applied in ecological simulations. PMID:27740611

  1. The Pattern of Visual Fixation Eccentricity and Instability in Optic Neuropathy and Its Spatial Relationship to Retinal Ganglion Cell Layer Thickness

    PubMed Central

    M. Mallery, Robert; Poolman, Pieter; J. Thurtell, Matthew; Wang, Jui-Kai; K. Garvin, Mona; Ledolter, Johannes; Kardon, Randy H.

    2016-01-01

    Purpose The purpose of this study was to assess whether clinically useful measures of fixation instability and eccentricity can be derived from retinal tracking data obtained during optical coherence tomography (OCT) in patients with optic neuropathy (ON) and to develop a method for relating fixation to the retinal ganglion cell complex (GCC) thickness. Methods Twenty-nine patients with ON underwent macular volume OCT with 30 seconds of confocal scanning laser ophthalmoscope (cSLO)-based eye tracking during fixation. Kernel density estimation quantified fixation instability and fixation eccentricity from the distribution of fixation points on the retina. Preferred ganglion cell layer loci (PGCL) and their relationship to the GCC thickness map were derived, accounting for radial displacement of retinal ganglion cell soma from their corresponding cones. Results Fixation instability was increased in ON eyes (0.21 deg2) compared with normal eyes (0.06982 deg2; P < 0.001), and fixation eccentricity was increased in ON eyes (0.48°) compared with normal eyes (0.24°; P = 0.03). Fixation instability and eccentricity each correlated moderately with logMAR acuity and were highly predictive of central visual field loss. Twenty-six of 35 ON eyes had PGCL skewed toward local maxima of the GCC thickness map. Patients with bilateral dense central scotomas had PGCL in homonymous retinal locations with respect to the fovea. Conclusions Fixation instability and eccentricity measures obtained during cSLO-OCT assess the function of perifoveal retinal elements and predict central visual field loss in patients with ON. A model relating fixation to the GCC thickness map offers a method to assess the structure–function relationship between fixation and areas of preserved GCC in patients with ON. PMID:27409502

  2. New radiolucent head fixation made of engineering plastics for intraoperative CT scanning.

    PubMed

    Okudera, H; Kobayashi, S; Kyoshima, K; Tokushige, K; Sugita, K

    1994-01-01

    A newly developed head fixation for intraoperative computerized tomographic (IOCT) scanning is presented. The system is developed based on the head holder of multipurpose head frame and is made of two kinds of advanced engineering material; carbon fiber reinforced plastic for head holder and frames, polyamide-imide polymer for joints, screws, and head pin. Clinical tests including autoclaving and sterilization were performed and revealed all materials had sufficient strength for clinical use. This fixation system enables us to increase the efficacy of IOCT scanning during open-field neurosurgery.

  3. HPLC analysis of Vicia guard cells indicates that products from photosynthetic carbon fixation and starch hydrolysis have an osmotic role during stomatal opening under blue (BL) and red (RL) light

    SciTech Connect

    Talbott, L.D.; Zeiger, E. )

    1991-05-01

    HPLC was used to quantify neutral sugars and organic acids in guard cells of sonicated Vicia faba epidermal peels irradiated with BL or RL in the presence of 1 mM KCl. Under photosynthetically inactive, low fluence-rates of BL, guard cells initially accumulate malate and citrate. At later times, sucrose and starch breakdown products such as maltose predominate. Guard cells opening under saturating fluence rates of RL show very little organic acid or maltose accumulation, and accumulate mainly sucrose. Changes in metabolite concentrations were correlated with stomatal apertures in both light treatments. These results support previous observations that light quality modulated alternative mechanisms of osmotic accumulation in guard cells, including K{sup +} uptake, photosynthesis and starch hydrolysis. At 5 mM, KCl suppresses RL but not BL-induced opening. These contrasting KCl treatments can be used to investigate osmoregulatory features in guard cells.

  4. Quantifying surface normal estimation

    NASA Astrophysics Data System (ADS)

    Reid, Robert B.; Oxley, Mark E.; Eismann, Michael T.; Goda, Matthew E.

    2006-05-01

    An inverse algorithm for surface normal estimation from thermal polarimetric imagery was developed and used to quantify the requirements on a priori information. Building on existing knowledge that calculates the degree of linear polarization (DOLP) and the angle of polarization (AOP) for a given surface normal in a forward model (from an object's characteristics to calculation of the DOLP and AOP), this research quantifies the impact of a priori information with the development of an inverse algorithm to estimate surface normals from thermal polarimetric emissions in long-wave infrared (LWIR). The inverse algorithm assumes a polarized infrared focal plane array capturing LWIR intensity images which are then converted to Stokes vectors. Next, the DOLP and AOP are calculated from the Stokes vectors. Last, the viewing angles, θ v, to the surface normals are estimated assuming perfect material information about the imaged scene. A sensitivity analysis is presented to quantitatively describe the a priori information's impact on the amount of error in the estimation of surface normals, and a bound is determined given perfect information about an object. Simulations explored the impact of surface roughness (σ) and the real component (n) of a dielectric's complex index of refraction across a range of viewing angles (θ v) for a given wavelength of observation.

  5. Neural correlates of fixation duration in natural reading: Evidence from fixation-related fMRI.

    PubMed

    Henderson, John M; Choi, Wonil; Luke, Steven G; Desai, Rutvik H

    2015-10-01

    A key assumption of current theories of natural reading is that fixation duration reflects underlying attentional, language, and cognitive processes associated with text comprehension. The neurocognitive correlates of this relationship are currently unknown. To investigate this relationship, we compared neural activation associated with fixation duration in passage reading and a pseudo-reading control condition. The results showed that fixation duration was associated with activation in oculomotor and language areas during text reading. Fixation duration during pseudo-reading, on the other hand, showed greater involvement of frontal control regions, suggesting flexibility and task dependency of the eye movement network. Consistent with current models, these results provide support for the hypothesis that fixation duration in reading reflects attentional engagement and language processing. The results also demonstrate that fixation-related fMRI provides a method for investigating the neurocognitive bases of natural reading.

  6. Key role of symbiotic dinitrogen fixation in tropical forest secondary succession.

    PubMed

    Batterman, Sarah A; Hedin, Lars O; van Breugel, Michiel; Ransijn, Johannes; Craven, Dylan J; Hall, Jefferson S

    2013-10-10

    Forests contribute a significant portion of the land carbon sink, but their ability to sequester CO2 may be constrained by nitrogen, a major plant-limiting nutrient. Many tropical forests possess tree species capable of fixing atmospheric dinitrogen (N2), but it is unclear whether this functional group can supply the nitrogen needed as forests recover from disturbance or previous land use, or expand in response to rising CO2 (refs 6, 8). Here we identify a powerful feedback mechanism in which N2 fixation can overcome ecosystem-scale deficiencies in nitrogen that emerge during periods of rapid biomass accumulation in tropical forests. Over a 300-year chronosequence in Panama, N2-fixing tree species accumulated carbon up to nine times faster per individual than their non-fixing neighbours (greatest difference in youngest forests), and showed species-specific differences in the amount and timing of fixation. As a result of fast growth and high fixation, fixers provided a large fraction of the nitrogen needed to support net forest growth (50,000 kg carbon per hectare) in the first 12 years. A key element of ecosystem functional diversity was ensured by the presence of different N2-fixing tree species across the entire forest age sequence. These findings show that symbiotic N2 fixation can have a central role in nitrogen cycling during tropical forest stand development, with potentially important implications for the ability of tropical forests to sequester CO2.

  7. Key role of symbiotic dinitrogen fixation in tropical forest secondary succession

    NASA Astrophysics Data System (ADS)

    Batterman, Sarah A.; Hedin, Lars O.; van Breugel, Michiel; Ransijn, Johannes; Craven, Dylan J.; Hall, Jefferson S.

    2013-10-01

    Forests contribute a significant portion of the land carbon sink, but their ability to sequester CO2 may be constrained by nitrogen, a major plant-limiting nutrient. Many tropical forests possess tree species capable of fixing atmospheric dinitrogen (N2), but it is unclear whether this functional group can supply the nitrogen needed as forests recover from disturbance or previous land use, or expand in response to rising CO2 (refs 6, 8). Here we identify a powerful feedback mechanism in which N2 fixation can overcome ecosystem-scale deficiencies in nitrogen that emerge during periods of rapid biomass accumulation in tropical forests. Over a 300-year chronosequence in Panama, N2-fixing tree species accumulated carbon up to nine times faster per individual than their non-fixing neighbours (greatest difference in youngest forests), and showed species-specific differences in the amount and timing of fixation. As a result of fast growth and high fixation, fixers provided a large fraction of the nitrogen needed to support net forest growth (50,000kg carbon per hectare) in the first 12years. A key element of ecosystem functional diversity was ensured by the presence of different N2-fixing tree species across the entire forest age sequence. These findings show that symbiotic N2 fixation can have a central role in nitrogen cycling during tropical forest stand development, with potentially important implications for the ability of tropical forests to sequester CO2.

  8. Ocular Fixation Abnormality in Patients with Autism Spectrum Disorder

    ERIC Educational Resources Information Center

    Shirama, Aya; Kanai, Chieko; Kato, Nobumasa; Kashino, Makio

    2016-01-01

    We examined the factors that influence ocular fixation control in adults with autism spectrum disorder (ASD) including sensory information, individuals' motor characteristics, and inhibitory control. The ASD group showed difficulty in maintaining fixation especially when there was no fixation target. The fixational eye movement characteristics of…

  9. Toward FRP-Based Brain-Machine Interfaces-Single-Trial Classification of Fixation-Related Potentials.

    PubMed

    Finke, Andrea; Essig, Kai; Marchioro, Giuseppe; Ritter, Helge

    2016-01-01

    The co-registration of eye tracking and electroencephalography provides a holistic measure of ongoing cognitive processes. Recently, fixation-related potentials have been introduced to quantify the neural activity in such bi-modal recordings. Fixation-related potentials are time-locked to fixation onsets, just like event-related potentials are locked to stimulus onsets. Compared to existing electroencephalography-based brain-machine interfaces that depend on visual stimuli, fixation-related potentials have the advantages that they can be used in free, unconstrained viewing conditions and can also be classified on a single-trial level. Thus, fixation-related potentials have the potential to allow for conceptually different brain-machine interfaces that directly interpret cortical activity related to the visual processing of specific objects. However, existing research has investigated fixation-related potentials only with very restricted and highly unnatural stimuli in simple search tasks while participant's body movements were restricted. We present a study where we relieved many of these restrictions while retaining some control by using a gaze-contingent visual search task. In our study, participants had to find a target object out of 12 complex and everyday objects presented on a screen while the electrical activity of the brain and eye movements were recorded simultaneously. Our results show that our proposed method for the classification of fixation-related potentials can clearly discriminate between fixations on relevant, non-relevant and background areas. Furthermore, we show that our classification approach generalizes not only to different test sets from the same participant, but also across participants. These results promise to open novel avenues for exploiting fixation-related potentials in electroencephalography-based brain-machine interfaces and thus providing a novel means for intuitive human-machine interaction.

  10. Toward FRP-Based Brain-Machine Interfaces—Single-Trial Classification of Fixation-Related Potentials

    PubMed Central

    Finke, Andrea; Essig, Kai; Marchioro, Giuseppe; Ritter, Helge

    2016-01-01

    The co-registration of eye tracking and electroencephalography provides a holistic measure of ongoing cognitive processes. Recently, fixation-related potentials have been introduced to quantify the neural activity in such bi-modal recordings. Fixation-related potentials are time-locked to fixation onsets, just like event-related potentials are locked to stimulus onsets. Compared to existing electroencephalography-based brain-machine interfaces that depend on visual stimuli, fixation-related potentials have the advantages that they can be used in free, unconstrained viewing conditions and can also be classified on a single-trial level. Thus, fixation-related potentials have the potential to allow for conceptually different brain-machine interfaces that directly interpret cortical activity related to the visual processing of specific objects. However, existing research has investigated fixation-related potentials only with very restricted and highly unnatural stimuli in simple search tasks while participant’s body movements were restricted. We present a study where we relieved many of these restrictions while retaining some control by using a gaze-contingent visual search task. In our study, participants had to find a target object out of 12 complex and everyday objects presented on a screen while the electrical activity of the brain and eye movements were recorded simultaneously. Our results show that our proposed method for the classification of fixation-related potentials can clearly discriminate between fixations on relevant, non-relevant and background areas. Furthermore, we show that our classification approach generalizes not only to different test sets from the same participant, but also across participants. These results promise to open novel avenues for exploiting fixation-related potentials in electroencephalography-based brain-machine interfaces and thus providing a novel means for intuitive human-machine interaction. PMID:26812487

  11. When femoral fracture fixation fails: salvage options.

    PubMed

    Petrie, J; Sassoon, A; Haidukewych, G J

    2013-11-01

    Most hip fractures treated with modern internal fixation techniques will heal. However, failures occasionally occur and require revision procedures. Salvage strategies employed during revision are based on whether the fixation failure occurs in the femoral neck, or in the intertrochanteric region. Patient age and remaining bone stock also influence decision making. For fractures in young patients, efforts are generally focused on preserving the native femoral head via osteotomies and repeat internal fixation. For failures in older patients, some kind of hip replacement is usually selected. Disuse osteopenia, deformity, bone loss, and stress-risers from previous internal fixation devices all pose technical challenges to successful reconstruction. Attention to detail is important in order to minimise complications. In the majority of cases, good outcomes have been reported for the various salvage strategies.

  12. Iris fixation of posterior chamber intraocular lenses.

    PubMed

    Yazdani-Abyaneh, Alireza; Djalilian, Ali R; Fard, Masoud Aghsaei

    2016-12-01

    We introduce a technique for iris fixation of a posterior chamber intraocular lens (IOL) in which most of the procedure is done outside the eye. This minimizes intraocular manipulation, maximizes corneal endothelial preservation, and avoids the risk for IOL drop into the vitreous cavity intraoperatively. The IOL is fixated to the most peripheral part of the iris, resulting in a rounder pupil. Sutures are placed at exact positions on the haptics, resulting in a well-centered IOL.

  13. On quantifying insect movements

    SciTech Connect

    Wiens, J.A.; Crist, T.O. ); Milne, B.T. )

    1993-08-01

    We elaborate on methods described by Turchin, Odendaal Rausher for quantifying insect movement pathways. We note the need to scale measurement resolution to the study insects and the questions being asked, and we discuss the use of surveying instrumentation for recording sequential positions of individuals on pathways. We itemize several measures that may be used to characterize movement pathways and illustrate these by comparisons among several Eleodes beetles occurring in shortgrass steppe. The fractal dimension of pathways may provide insights not available from absolute measures of pathway configuration. Finally, we describe a renormalization procedure that may be used to remove sequential interdependence among locations of moving individuals while preserving the basic attributes of the pathway.

  14. Variable Nitrogen Fixation in Wild Populus

    PubMed Central

    Doty, Sharon L.; Sher, Andrew W.; Fleck, Neil D.; Khorasani, Mahsa; Bumgarner, Roger E.; Khan, Zareen; Ko, Andrew W. K.; Kim, Soo-Hyung; DeLuca, Thomas H.

    2016-01-01

    The microbiome of plants is diverse, and like that of animals, is important for overall health and nutrient acquisition. In legumes and actinorhizal plants, a portion of essential nitrogen (N) is obtained through symbiosis with nodule-inhabiting, N2-fixing microorganisms. However, a variety of non-nodulating plant species can also thrive in natural, low-N settings. Some of these species may rely on endophytes, microorganisms that live within plants, to fix N2 gas into usable forms. Here we report the first direct evidence of N2 fixation in the early successional wild tree, Populus trichocarpa, a non-leguminous tree, from its native riparian habitat. In order to measure N2 fixation, surface-sterilized cuttings of wild poplar were assayed using both 15N2 incorporation and the commonly used acetylene reduction assay. The 15N label was incorporated at high levels in a subset of cuttings, suggesting a high level of N-fixation. Similarly, acetylene was reduced to ethylene in some samples. The microbiota of the cuttings was highly variable, both in numbers of cultured bacteria and in genetic diversity. Our results indicated that associative N2-fixation occurred within wild poplar and that a non-uniformity in the distribution of endophytic bacteria may explain the variability in N-fixation activity. These results point to the need for molecular studies to decipher the required microbial consortia and conditions for effective endophytic N2-fixation in trees. PMID:27196608

  15. Symbiosis revisited: phosphorus and acid buffering stimulate N2 fixation but not Sphagnum growth

    NASA Astrophysics Data System (ADS)

    van den Elzen, Eva; Kox, Martine A. R.; Harpenslager, Sarah F.; Hensgens, Geert; Fritz, Christian; Jetten, Mike S. M.; Ettwig, Katharina F.; Lamers, Leon P. M.

    2017-03-01

    In pristine Sphagnum-dominated peatlands, (di)nitrogen (N2) fixing (diazotrophic) microbial communities associated with Sphagnum mosses contribute substantially to the total nitrogen input, increasing carbon sequestration. The rates of symbiotic nitrogen fixation reported for Sphagnum peatlands, are, however, highly variable, and experimental work on regulating factors that can mechanistically explain this variation is largely lacking. For two common fen species (Sphagnum palustre and S. squarrosum) from a high nitrogen deposition area (25 kg N ha-1 yr-1), we found that diazotrophic activity (as measured by 15 - 15N2 labeling) was still present at a rate of 40 nmol N gDW-1 h-1. This was surprising, given that nitrogen fixation is a costly process. We tested the effects of phosphorus availability and buffering capacity by bicarbonate-rich water, mimicking a field situation in fens with stronger groundwater or surface water influence, as potential regulators of nitrogen fixation rates and Sphagnum performance. We expected that the addition of phosphorus, being a limiting nutrient, would stimulate both diazotrophic activity and Sphagnum growth. We indeed found that nitrogen fixation rates were doubled. Plant performance, in contrast, did not increase. Raised bicarbonate levels also enhanced nitrogen fixation, but had a strong negative impact on Sphagnum performance. These results explain the higher nitrogen fixation rates reported for minerotrophic and more nutrient-rich peatlands. In addition, nitrogen fixation was found to strongly depend on light, with rates 10 times higher in light conditions suggesting high reliance on phototrophic organisms for carbon. The contrasting effects of phosphorus and bicarbonate on Sphagnum spp. and their diazotrophic communities reveal strong differences in the optimal niche for both partners with respect to conditions and resources. This suggests a trade-off for the symbiosis of nitrogen fixing microorganisms with their Sphagnum

  16. Efficient CO2 Fixation Pathways: Energy Plant: High Efficiency Photosynthetic Organisms

    SciTech Connect

    2012-01-01

    PETRO Project: UCLA is redesigning the carbon fixation pathways of plants to make them more efficient at capturing the energy in sunlight. Carbon fixation is the key process that plants use to convert carbon dioxide (CO2) from the atmosphere into higher energy molecules (such as sugars) using energy from the sun. UCLA is addressing the inefficiency of the process through an alternative biochemical pathway that uses 50% less energy than the pathway used by all land plants. In addition, instead of producing sugars, UCLA’s designer pathway will produce pyruvate, the precursor of choice for a wide variety of liquid fuels. Theoretically, the new biochemical pathway will allow a plant to capture 200% as much CO2 using the same amount of light. The pathways will first be tested on model photosynthetic organisms and later incorporated into other plants, thus dramatically improving the productivity of both food and fuel crops.

  17. Chemosynthetic symbionts of marine invertebrate animals are capable of nitrogen fixation.

    PubMed

    Petersen, Jillian M; Kemper, Anna; Gruber-Vodicka, Harald; Cardini, Ulisse; van der Geest, Matthijs; Kleiner, Manuel; Bulgheresi, Silvia; Mußmann, Marc; Herbold, Craig; Seah, Brandon K B; Antony, Chakkiath Paul; Liu, Dan; Belitz, Alexandra; Weber, Miriam

    2016-10-24

    Chemosynthetic symbioses are partnerships between invertebrate animals and chemosynthetic bacteria. The latter are the primary producers, providing most of the organic carbon needed for the animal host's nutrition. We sequenced genomes of the chemosynthetic symbionts from the lucinid bivalve Loripes lucinalis and the stilbonematid nematode Laxus oneistus. The symbionts of both host species encoded nitrogen fixation genes. This is remarkable as no marine chemosynthetic symbiont was previously known to be capable of nitrogen fixation. We detected nitrogenase expression by the symbionts of lucinid clams at the transcriptomic and proteomic level. Mean stable nitrogen isotope values of Loripes lucinalis were within the range expected for fixed atmospheric nitrogen, further suggesting active nitrogen fixation by the symbionts. The ability to fix nitrogen may be widespread among chemosynthetic symbioses in oligotrophic habitats, where nitrogen availability often limits primary productivity.

  18. Direct nitrogen fixation at the edges of graphene nanoplatelets as efficient electrocatalysts for energy conversion

    PubMed Central

    Jeon, In-Yup; Choi, Hyun-Jung; Ju, Myung Jong; Choi, In Taek; Lim, Kimin; Ko, Jaejung; Kim, Hwan Kyu; Kim, Jae Cheon; Lee, Jae-Joon; Shin, Dongbin; Jung, Sun-Min; Seo, Jeong-Min; Kim, Min-Jung; Park, Noejung; Dai, Liming; Baek, Jong-Beom

    2013-01-01

    Nitrogen fixation is essential for the synthesis of many important chemicals (e.g., fertilizers, explosives) and basic building blocks for all forms of life (e.g., nucleotides for DNA and RNA, amino acids for proteins). However, direct nitrogen fixation is challenging as nitrogen (N2) does not easily react with other chemicals. By dry ball-milling graphite with N2, we have discovered a simple, but versatile, scalable and eco-friendly, approach to direct fixation of N2 at the edges of graphene nanoplatelets (GnPs). The mechanochemical cracking of graphitic C−C bonds generated active carbon species that react directly with N2 to form five- and six-membered aromatic rings at the broken edges, leading to solution-processable edge-nitrogenated graphene nanoplatelets (NGnPs) with superb catalytic performance in both dye-sensitized solar cells and fuel cells to replace conventional Pt-based catalysts for energy conversion. PMID:23877200

  19. Fixation of carbon dioxide by macrocyclic lanthanide(III) complexes under neutral conditions producing self-assembled trimeric carbonato-bridged compounds with μ3-η2:η2:η2 bonding.

    PubMed

    Bag, Pradip; Dutta, Supriya; Biswas, Papu; Maji, Swarup Kumar; Flörke, Ulrich; Nag, Kamalaksha

    2012-03-28

    A series of mononuclear lanthanide(III) complexes [Ln(LH(2))(H(2)O)(3)Cl](ClO(4))(2) (Ln = La, Nd, Sm, Eu, Gd, Tb, Lu) of the tetraiminodiphenolate macrocyclic ligand (LH(2)) in 95 : 5 (v/v) methanol-water solution fix atmospheric carbon dioxide to produce the carbonato-bridged trinuclear complexes [{Ln(LH(2))(H(2)O)Cl}(3)(μ(3)-CO(3))](ClO(4))(4)·nH(2)O. Under similar conditions, the mononuclear Y(III) complex forms the dimeric compound [{Y(LH(2))(H(2)O)Cl}(μ(2)-CO(3)){Y(LH(2))(H(2)O)(2)}](ClO(4))(3)·4H(2)O. These complexes have been characterized by their IR and NMR ((1)H, (13)C) spectra. The X-ray crystal structures have been determined for the trinuclear carbonato-bridged compounds of Nd(III), Gd(III) and Tb(III) and the dinuclear compound of Y(III). In all cases, each of the metal centers are 8-coordinate involving two imine nitrogens and two phenolate oxygens of the macrocyclic ligand (LH(2)) whose two other imines are protonated and intramolecularly hydrogen-bonded with the phenolate oxygens. The oxygen atoms of the carbonate anion in the trinuclear complexes are bonded to the metal ions in tris-bidentate μ(3)-η(2):η(2):η(2) fashion, while they are in bis-bidentate μ(2)-η(2):η(2) mode in the Y(III) complex. The magnetic properties of the Gd(III) complex have been studied over the temperature range 2 to 300 K and the magnetic susceptibility data indicate a very weak antiferromagnetic exchange interaction (J = -0.042 cm(-1)) between the Gd(III) centers (S = 7/2) in the metal triangle through the carbonate bridge. The luminescence spectral behaviors of the complexes of Sm(III), Eu(III), and Tb(III) have been studied. The ligand LH(2) acts as a sensitizer for the metal ions in an acetonitrile-toluene glassy matrix (at 77 K) and luminescence intensities of the complexes decrease in the order Eu(3+) > Sm(3+) > Tb(3+).

  20. Cost of external fixation vs external fixation then nailing in bone infection

    PubMed Central

    Emara, Khaled Mohamed; Diab, Ramy Ahmed; Ghafar, Khaled Abd EL

    2015-01-01

    AIM: To study the cost benefit of external fixation vs external fixation then nailing in treatment of bone infection by segment transfer. METHODS: Out of 71 patients with infected nonunion tibia treated between 2003 and 2006, 50 patients fitted the inclusion criteria (26 patients were treated by external fixation only, and 24 patients were treated by external fixation early removal after segment transfer and replacement by internal fixation). Cost of inpatient treatment, total cost of inpatient and outpatient treatment till full healing, and the weeks of absence from school or work were calculated and compared between both groups. RESULTS: The cost of hospital stay and surgery in the group of external fixation only was 22.6 ± 3.3 while the cost of hospital stay and surgery in the group of early external fixation removal and replacement by intramedullary nail was 26.0 ± 3.2. The difference was statistically significant regarding the cost of hospital stay and surgery in favor of the group of external fixation only. The total cost of medical care (surgery, hospital stay, treatment outside the hospital including medications, dressing, physical therapy, outpatient laboratory work, etc.) in group of external fixation only was 63.3 ± 15.1, and total absence from work was 38.6 ± 6.6 wk. While the group of early removal of external fixation and replacement by IM nail, total cost of medical care was 38.3 ± 6.4 and total absence from work or school was 22.7 ± 4.1. The difference was statistically significant regarding the total cost and absence from work in favor of the group of early removal and replacement by IM nail. CONCLUSION: Early removal of external fixation and replacement by intramedullary nail in treatment of infected nonunion showed more cost effectiveness. Orthopaedic society needs to show the cost effectiveness of different procedures to the community, insurance, and health authorities. PMID:25621219

  1. Characteristics of Fixational Eye Movements in Amblyopia: Limitations on Fixation Stability and Acuity?

    PubMed Central

    Kumar, Girish; Li, Roger W.; Levi, Dennis M.

    2015-01-01

    Persons with amblyopia, especially those with strabismus, are known to exhibit abnormal fixational eye movements. In this paper, we compared six characteristics of fixational eye movements among normal control eyes (n=16), the non-amblyopic fellow eyes and the amblyopic eyes of anisometropic (n=14) and strabismic amblyopes (n=14). These characteristics include the frequency, magnitude of landing errors, amplitude and speed of microsaccades, and the amplitude and speed of slow drifts. Fixational eye movements were recorded using retinal imaging while observers monocularly fixated a 1° cross. Eye position data were recovered using a cross-correlation procedure. We found that in general, the characteristics of fixational eye movements are not significantly different between the fellow eyes of amblyopes and controls, and that the strabismic amblyopic eyes are always different from the other groups. Next, we determined the primary factors that limit fixation stability and visual acuity in amblyopic eyes by examining the relative importance of the different oculomotor characteristics, adding acuity (for fixation stability) or fixation stability (for acuity), and the type of amblyopia, as predictive factors in a multiple linear regression model. We show for the first time that the error magnitude of microsaccades, acuity, amplitude and frequency of microsaccades are primary factors limiting fixation stability; while the error magnitude, fixation stability, amplitude of drifts and amplitude of microsaccades are the primary factors limiting acuity. A mediation analysis showed that the effects of error magnitude and amplitude of microsaccades on acuity could be explained, at least in part, by their effects on fixation stability. PMID:25668775

  2. Warming alters coupled carbon and nutrient cycles in experimental streams.

    PubMed

    Williamson, Tanner J; Cross, Wyatt F; Benstead, Jonathan P; Gíslason, Gísli M; Hood, James M; Huryn, Alexander D; Johnson, Philip W; Welter, Jill R

    2016-06-01

    Although much effort has been devoted to quantifying how warming alters carbon cycling across diverse ecosystems, less is known about how these changes are linked to the cycling of bioavailable nitrogen and phosphorus. In freshwater ecosystems, benthic biofilms (i.e. thin films of algae, bacteria, fungi, and detrital matter) act as biogeochemical hotspots by controlling important fluxes of energy and material. Understanding how biofilms respond to warming is thus critical for predicting responses of coupled elemental cycles in freshwater systems. We developed biofilm communities in experimental streamside channels along a gradient of mean water temperatures (7.5-23.6 °C), while closely maintaining natural diel and seasonal temperature variation with a common water and propagule source. Both structural (i.e. biomass, stoichiometry, assemblage structure) and functional (i.e. metabolism, N2 -fixation, nutrient uptake) attributes of biofilms were measured on multiple dates to link changes in carbon flow explicitly to the dynamics of nitrogen and phosphorus. Temperature had strong positive effects on biofilm biomass (2.8- to 24-fold variation) and net ecosystem productivity (44- to 317-fold variation), despite extremely low concentrations of limiting dissolved nitrogen. Temperature had surprisingly minimal effects on biofilm stoichiometry: carbon:nitrogen (C:N) ratios were temperature-invariant, while carbon:phosphorus (C:P) ratios declined slightly with increasing temperature. Biofilm communities were dominated by cyanobacteria at all temperatures (>91% of total biovolume) and N2 -fixation rates increased up to 120-fold between the coldest and warmest treatments. Although ammonium-N uptake increased with temperature (2.8- to 6.8-fold variation), the much higher N2 -fixation rates supplied the majority of N to the ecosystem at higher temperatures. Our results demonstrate that temperature can alter how carbon is cycled and coupled to nitrogen and phosphorus. The

  3. Temporal Sequences Quantify the Contributions of Individual Fixations in Complex Perceptual Matching Tasks

    ERIC Educational Resources Information Center

    Busey, Thomas; Yu, Chen; Wyatte, Dean; Vanderkolk, John

    2013-01-01

    Perceptual tasks such as object matching, mammogram interpretation, mental rotation, and satellite imagery change detection often require the assignment of correspondences to fuse information across views. We apply techniques developed for machine translation to the gaze data recorded from a complex perceptual matching task modeled after…

  4. Solar Water Splitting and Nitrogen Fixation with Layered Bismuth Oxyhalides.

    PubMed

    Li, Jie; Li, Hao; Zhan, Guangming; Zhang, Lizhi

    2017-01-17

    Hydrogen and ammonia are the chemical molecules that are vital to Earth's energy, environmental, and biological processes. Hydrogen with renewable, carbon-free, and high combustion-enthalpy hallmarks lays the foundation of next-generation energy source, while ammonia furnishes the building blocks of fertilizers and proteins to sustain the lives of plants and organisms. Such merits fascinate worldwide scientists in developing viable strategies to produce hydrogen and ammonia. Currently, at the forefronts of hydrogen and ammonia syntheses are solar water splitting and nitrogen fixation, because they go beyond the high temperature and pressure requirements of methane stream reforming and Haber-Bosch reaction, respectively, as the commercialized hydrogen and ammonia production routes, and inherit the natural photosynthesis virtues that are green and sustainable and operate at room temperature and atmospheric pressure. The key to propelling such photochemical reactions lies in searching photocatalysts that enable water splitting into hydrogen and nitrogen fixation to make ammonia efficiently. Although the past 40 years have witnessed significant breakthroughs using the most widely studied TiO2, SrTiO3, (Ga1-xZnx)(N1-xOx), CdS, and g-C3N4 for solar chemical synthesis, two crucial yet still unsolved issues challenge their further progress toward robust solar water splitting and nitrogen fixation, including the inefficient steering of electron transportation from the bulk to the surface and the difficulty of activating the N≡N triple bond of N2. This Account details our endeavors that leverage layered bismuth oxyhalides as photocatalysts for efficient solar water splitting and nitrogen fixation, with a focus on addressing the above two problems. We first demonstrate that the layered structures of bismuth oxyhalides can stimulate an internal electric field (IEF) that is capable of efficiently separating electrons and holes after their formation and of precisely channeling

  5. Quantifier Comprehension in Corticobasal Degeneration

    ERIC Educational Resources Information Cen