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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. Improving carbon fixation pathways

    SciTech Connect

    Ducat, DC; Silver, PA

    2012-08-01

    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 novel pathways and organisms can be utilized to fix atmospheric carbon dioxide into useful materials.

  3. 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.

  4. 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.

  5. 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.

  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. PMID:26872043

  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. Phytoplankton plasticity drives large variability in carbon fixation efficiency

    NASA Astrophysics Data System (ADS)

    Ayata, Sakina-Dorothée.; Lévy, Marina; Aumont, Olivier; Resplandy, Laure; Tagliabue, Alessandro; Sciandra, Antoine; Bernard, Olivier

    2014-12-01

    Phytoplankton C:N stoichiometry is highly flexible due to physiological plasticity, which could lead to high variations in carbon fixation efficiency (carbon consumption relative to nitrogen). However, the magnitude, as well as the spatial and temporal scales of variability, remains poorly constrained. We used a high-resolution biogeochemical model resolving various scales from small to high, spatially and temporally, in order to quantify and better understand this variability. We find that phytoplankton C:N ratio is highly variable at all spatial and temporal scales (5-12 molC/molN), from mesoscale to regional scale, and is mainly driven by nitrogen supply. Carbon fixation efficiency varies accordingly at all scales (±30%), with higher values under oligotrophic conditions and lower values under eutrophic conditions. Hence, phytoplankton plasticity may act as a buffer by attenuating carbon sequestration variability. Our results have implications for in situ estimations of C:N ratios and for future predictions under high CO2 world.

  9. 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.

  10. Beyond the Calvin Cycle: Autotrophic Carbon Fixation in the Ocean

    NASA Astrophysics Data System (ADS)

    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. The Emergence and Early Evolution of Biological Carbon-Fixation

    PubMed Central

    Braakman, Rogier; Smith, Eric

    2012-01-01

    The fixation of 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 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 plausible than

  12. Silanediol-catalyzed carbon dioxide fixation.

    PubMed

    Hardman-Baldwin, Andrea M; Mattson, Anita E

    2014-12-01

    Carbon dioxide is an abundant and renewable C1 source. However, mild transformations with carbon dioxide at atmospheric pressure are difficult to accomplish. Silanediols have been discovered to operate as effective hydrogen-bond donor organocatalysts for the atom-efficient conversion of epoxides to cyclic carbonates under environmentally friendly conditions. The reaction system is tolerant of a variety of epoxides and the desired cyclic carbonates are isolated in excellent yields. PMID:25328125

  13. 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

  14. 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. PMID:26441854

  15. 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

  16. Quantifying Carbon Bioavailability in Northeast Siberian Soils

    NASA Astrophysics Data System (ADS)

    Heslop, J.; Chandra, S.; Sobczak, W. V.; Spektor, V.; Davydova, A.; Holmes, R. M.; Bulygina, E. B.; Schade, J. D.; Frey, K. E.; Bunn, A. G.; Walter Anthony, K.; Zimov, S. A.; Zimov, N.

    2010-12-01

    Soils in Northeast Siberia, particularly carbon-rich yedoma (Pleistocene permafrost) soils, have the potential to release large amounts of carbon dioxide and methane due to permafrost thaw and thermokarst activity. In order to quantify the amount of carbon release potential in these soils, it is important to understand carbon bioavailability for microbial consumption in the permafrost. In this study we measured amounts of bioavailable soil carbon across five locations in the Kolyma River Basin, NE Siberia. At each location, we sampled four horizons (top active layer, bottom active layer, Holocene optimum permafrost, and Pleistocene permafrost) and conducted soil extracts for each sample. Filtered and unfiltered extracts were used in biological oxygen demand experiments to determine the dissolved and particulate bioavailable carbon potential for consumption in the soil. Concentrations of bioavailable carbon were 102-608 mg C/kg dry soil for filtered extracts and 115-703 mg C/kg dry soil for unfiltered extracts. Concentrations of carbon respired per gram of dry soil were roughly equal for both the DOC and POC extracts (P<0.001), suggesting that bioavailable soil carbon is predominately in the dissolved form or the presence of an additional unknown limitation preventing organisms from utilizing carbon in the particulate form. Concentrations of bioavailable carbon were similar across the different sampling locations but differed among horizons. The top active layer (102-703 mg C/kg dry soil), Holocene optimum permafrost (193-481 mg C/kg dry soil), and Pleistocene permafrost (151-589 mg C/kg dry soil) horizons had the highest amounts of bioavailable carbon, and the bottom active layer (115-179 mg C/kg dry soil) horizon had the lowest amounts. For comparison, ice wedges had bioavailable carbon concentrations of 23.0 mg C/L and yedoma runoff from Duvyanni Yar had concentrations of 306 mg C/L. Pleistocene permafrost soils had similar concentrations of bioavailable carbon

  17. Potential carbon dioxide fixation by industrially important microalgae.

    PubMed

    Sydney, Eduardo Bittencourt; Sturm, Wilerson; de Carvalho, Julio Cesar; Thomaz-Soccol, Vanete; Larroche, Christian; Pandey, Ashok; Soccol, Carlos Ricardo

    2010-08-01

    The present study aimed at investigating the carbon metabolism in terms of carbon dioxide fixation and its destination in microalgae cultivations. To this purpose, analysis of growth parameters, media of cultivation, biomass composition and productivity and nutrients balance were performed. Four microalgae suitable for mass cultivation were evaluated: Dunaliella tertiolecta SAD-13.86, Chlorella vulgaris LEB-104, Spirulina platensis LEB-52 and Botryococcus braunii SAG-30.81. Global rates of carbon dioxide and oxygen were determinated by a system developed in our laboratory. B. braunii presented the highest CO(2) fixation rate, followed by S. platensis,D. tertiolecta and C. vulgaris (496.98, 318.61, 272.4 and 251.64 mg L(-1)day(-1), respectively). Carbon dioxide fixated was mainly used for microalgal biomass production. Nitrogen, phosphorus (calcium for D. tertiolecta), potassium and magnesium consumption rates (mg gX(-1)) were evaluated for the four microalgae. Biomass composition presented a predominance of proteins but also a high amount of lipids, especially in D. tertiolecta and B. braunii. PMID:20350804

  18. 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

  19. Carboxylase Levels and Carbon Dioxide Fixation in Baker's Yeast

    PubMed Central

    Cazzulo, J. J.; Claisse, L. M.; Stoppani, A. O. M.

    1968-01-01

    Levels of pyruvate carboxylase (PC), phosphopyruvate carboxylase (PEPC), and malate dehydrogenase (decarboxylating) were compared in wild-type bakers' yeast (I), a cytoplasmic-respiratory mutant (II), a biotin-deficient wild-type yeast (III), and a biotin-deficient respiratory mutant (IV). PC activities were greatly reduced in III and IV, whereas PEPC was reduced in II and IV. Malate dehydrogenase (decarboxylating) could not be detected in any of the yeasts. With yeast I growing on glucose as the sole carbon source, PEPC decreased to negligible levels during the logarithmic phase of growth (glucose repression effect), whereas PC increased. Both enzymes reverted to their original levels during the stationary phase, when glucose in the medium was exhausted. In agreement with the leading role of PC for CO2 assimilation, the rates of 14CO2 fixation in yeasts I and II were approximately equal and were much higher than that in yeast IV. With I and II, most of the 14C was distributed similarly in oxalacetate derivatives; with yeast IV, most of 14C appeared in a compound apparently unrelated to CO2 fixation via C4-dicarboxylic acids. PMID:5732499

  20. Recovering of carbon fixation in a eucalyptus site after felling

    NASA Astrophysics Data System (ADS)

    Rodrigues, A. M.; Pita, G. P. A.; Mateus, A.; Santos Pereira, J.

    2009-04-01

    Espirra site (38°38'N,8°36'W) is located in a 300ha Eucalyptus globulus plantation, with a Mediterranean type climate with a mean annual precipitation of 709mm and a mean annual air temperature of 15.9°C. The plantation was established in 1986 with about 1100 trees ha-1. A 33m observation tower was installed in 2002, with an ultrasonic Gill anemometer R2, an open path analyzer IRGA LI-7500 and a microclimate unit at its top. A harvesting of trees was made at the end of the 2nd rotation period, from November to December 2006. During the last four years of the second rotation the coppice were 20m height. Harvesting was planned in order to initiate a new 12 year productive cycle. In October 2008 a first thinning was made in three fourths of emerging stems from stumps. At this stage the forest trees had a mean height of 6m. For the 2002-2006 period, mean annual values of carbon net ecosystem exchange (NEE), gross production(GPP) and ecosystem respiration(Reco) were -533.3 gCm-2, 1628.6 gCm-2 and 1095.2 gCm-2. Seasonal patterns of carbon fixation for the five years showed a decrease in July-August periods due to highest air temperatures, atmospheric water vapour deficits and stomata partial closure to prevent water transpiration losses. For the period 2002-2006, the dry year of 2005 with a precipitation of about 390 mm, corresponded to the smaller carbon fixation of 390 gCm-2. Similarly, values of Reco, GPP and estimated leaf area index (less than three) were also minimal in 2005. Water use efficiency, WUE (ratio GPP/precipitation) was maximum in summer periods and in driest years, reaching values of about 12g/L-1. Recovery of carbon sink capacity, after the felling, begun after August 2007. The 2007 and 2008 annual NEE values were respectively 105.8 gCm-2 and -35.78 gCm-2. This negative value of NEE for 2008 is indicative of a carbon sink recovery. Annual Reco values for 2007 and 2008 were respectively 1059.03 gCm-2 and 1148.21 gCm-2. For GPP the annual values of

  1. Phytoplankton carbon fixation, chlorophyll-biomass and diagnostic pigments in the Atlantic Ocean

    NASA Astrophysics Data System (ADS)

    Poulton, Alex J.; Holligan, Patrick M.; Hickman, Anna; Kim, Young-Nam; Adey, Tim R.; Stinchcombe, Mark C.; Holeton, Claire; Root, Sarah; Woodward, E. Malcolm S.

    2006-07-01

    We have made daily measurements of phytoplankton pigments, size-fractionated (<2 and >2-μm) carbon fixation and chlorophyll- a concentration during four Atlantic Meridional Transect (AMT) cruises in 2003-04. Surface rates of carbon fixation ranged from <0.2-mmol C m -3 d -1 in the subtropical gyres to 0.2-0.5-mmol C m -3 d -1 in the tropical equatorial Atlantic. Significant intercruise variability was restricted to the subtropical gyres, with higher chlorophyll- a concentrations and carbon fixation in the subsurface chlorophyll maximum during spring in either hemisphere. In surface waters, although picoplankton (<2-μm) represented the dominant fraction in terms of both carbon fixation (50-70%) and chlorophyll- a (80-90%), nanoplankton (>2-μm) contributions to total carbon fixation (30-50%) were higher than to total chlorophyll- a (10-20%). However, in the subsurface chlorophyll maximum picoplankton dominated both carbon fixation (70-90%) and chlorophyll- a (70-90%). Thus, in surface waters chlorophyll-normalised carbon fixation was 2-3 times higher for nanoplankton and differences in picoplankton and nanoplankton carbon to chlorophyll- a ratios may lead to either higher or similar growth rates. These low chlorophyll-normalised carbon fixation rates for picoplankton may also reflect losses of fixed carbon (cell leakage or respiration), decreases in photosynthetic efficiency, grazing losses during the incubations, or some combination of all these. Comparison of nitrate concentrations in the subsurface chlorophyll maximum with estimates of those required to support the observed rates of carbon fixation (assuming Redfield stoichiometry) indicate that primary production in the chlorophyll maximum may be light rather than nutrient limited.

  2. 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.

  3. 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.

  4. 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? PMID:23489107

  5. Deep Soil: Quantifying and Modeling Subsurface Carbon

    NASA Astrophysics Data System (ADS)

    James, J. N.; Devine, W.; Harrison, R. B.

    2014-12-01

    Some soil carbon datasets that are spatially rich, such as the USDA Forest Service Inventory and Analysis National Program dataset, sample soil to only 20 cm (8 inches), despite evidence that substantial stores of soil C can be found deeper in the soil profile. The maximum extent of tree rooting is typically many meters deep and provides: direct exchange with the soil solution; redistribution of water from deep horizons toward the surface during times of drought; resources for active microbial communities in deep soil around root channels; and direct carbon inputs through exudates and root turnover. This study examined soil carbon to a depth of 2.5 meters across 22 soils in Pacific Northwest Douglas-fir forests. Excavations at 20 additional sites took place in summer 2014, greatly expanding the spatial coverage and extent of the data set. Forest floor and mineral soil bulk density samples were collected at depths of 0.1, 0.5, 1.0, 1.5, 2.0 and 2.5 meters. Pool estimates from systematic sampling depths shallower than 1.5 m yielded significantly smaller estimates than the total soil stock to 2.5 meters (P<0.01). On average, only 5% of soil C was found in the litter layer, 35% was found below 0.5 meter, and 21% was found below 1.0 meter. Due to the difficulty of excavating and measuring deep soil carbon, a series of nonlinear mixed effect models were fit to the data to predict deep soil carbon stocks given sampling to 1.0 meter. A model using an inverse polynomial function predicted soil carbon to 2.5 meters with -5.6% mean error. The largest errors occurred in Andisols with non-crystalline minerals, which can adsorb large quantities of carbon on mineral surfaces and preserve it from decomposition. An accurate spatial dataset of soil depth to bedrock would be extremely useful to constrain models of the vertical distribution of soil carbon. Efforts to represent carbon in spatial models would benefit from considering the vertical distribution of carbon in soil. Sampling

  6. 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

  7. Simultaneous Quantification of Active Carbon- and Nitrogen-Fixing Communities and Estimation of Fixation Rates Using Fluorescence In Situ Hybridization and Flow Cytometry

    PubMed Central

    Shepard, Alicia K.; Raes, Eric J.; Waite, Anya M.; Quigg, Antonietta

    2014-01-01

    Understanding the interconnectivity of oceanic carbon and nitrogen cycles, specifically carbon and nitrogen fixation, is essential in elucidating the fate and distribution of carbon in the ocean. Traditional techniques measure either organism abundance or biochemical rates. As such, measurements are performed on separate samples and on different time scales. Here, we developed a method to simultaneously quantify organisms while estimating rates of fixation across time and space for both carbon and nitrogen. Tyramide signal amplification fluorescence in situ hybridization (TSA-FISH) of mRNA for functionally specific oligonucleotide probes for rbcL (ribulose-1,5-bisphosphate carboxylase/oxygenase; carbon fixation) and nifH (nitrogenase; nitrogen fixation) was combined with flow cytometry to measure abundance and estimate activity. Cultured samples representing a diversity of phytoplankton (cyanobacteria, coccolithophores, chlorophytes, diatoms, and dinoflagellates), as well as environmental samples from the open ocean (Gulf of Mexico, USA, and southeastern Indian Ocean, Australia) and an estuary (Galveston Bay, Texas, USA), were successfully hybridized. Strong correlations between positively tagged community abundance and 14C/15N measurements are presented. We propose that these methods can be used to estimate carbon and nitrogen fixation in environmental communities. The utilization of mRNA TSA-FISH to detect multiple active microbial functions within the same sample will offer increased understanding of important biogeochemical cycles in the ocean. PMID:25172848

  8. 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. PMID:23334023

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

    PubMed

    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

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

    NASA Astrophysics Data System (ADS)

    Kawasaki, Mitsuo; Morita, Tatsuo; Tachibana, Kunihide

    2015-10-01

    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.

  11. 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

  12. 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)

  13. 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...

  14. 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

  15. Fixation of atmospheric carbon dioxide by a cadmium(II) macrocyclic complex.

    PubMed

    Janzen, Daron E; Botros, Maikel E; VanDerveer, Donald G; Grant, Gregory J

    2007-12-01

    A crystal structure showing an unusual trinuclear Cd(II) cluster bridged in mu3 fashion by a carbonate ligand is reported. The carbonate ion is formed by fixation of atmospheric carbon dioxide from the corresponding cadmium mononuclear complex containing an aza crown ether. PMID:18271488

  16. Carbon and energy fixation of great duckweed Spirodela polyrhiza growing in swine wastewater.

    PubMed

    Wang, Wenguo; Yang, Chuang; Tang, Xiaoyu; Zhu, Qili; Pan, Ke; Cai, Denggao; Hu, Qichun; Ma, Danwei

    2015-10-01

    The ability to fix carbon and energy in swine wastewater of duckweeds was investigated using Spirodela polyrhiza as the model species. Cultures of S. polyrhiza were grown in dilutions of both original swine wastewater (OSW) and anaerobic digestion effluent (ADE) based on total ammonia nitrogen (TAN). Results showed that elevated concentrations of TAN caused decreased growth, carbon fixation, and energy production rates, particularly just after the first rise in two types of swine wastewater. Also, OSW was more suitable for S. polyrhiza cultivation than ADE. Maximum carbon and energy fixation were achieved at OSW-TAN concentrations of 12.08 and 13.07 mg L(-1), respectively. Photosynthetic activity of S. polyrhiza could be inhibited by both nutrient stress (in high-concentration wastewater) and nutrient limitation (in low-concentration wastewater), affecting its growth and ability for carbon-energy fixation. PMID:26036587

  17. Effects of model structural uncertainty on carbon cycle projections: biological nitrogen fixation as a case study

    NASA Astrophysics Data System (ADS)

    Wieder, William R.; Cleveland, Cory C.; Lawrence, David M.; Bonan, Gordon B.

    2015-04-01

    Uncertainties in terrestrial carbon (C) cycle projections increase uncertainty of potential climate feedbacks. Efforts to improve model performance often include increased representation of biogeochemical processes, such as coupled carbon-nitrogen (N) cycles. In doing so, models are becoming more complex, generating structural uncertainties in model form that reflect incomplete knowledge of how to represent underlying processes. Here, we explore structural uncertainties associated with biological nitrogen fixation (BNF) and quantify their effects on C cycle projections. We find that alternative plausible structures to represent BNF result in nearly equivalent terrestrial C fluxes and pools through the twentieth century, but the strength of the terrestrial C sink varies by nearly a third (50 Pg C) by the end of the twenty-first century under a business-as-usual climate change scenario representative concentration pathway 8.5. These results indicate that actual uncertainty in future C cycle projections may be larger than previously estimated, and this uncertainty will limit C cycle projections until model structures can be evaluated and refined.

  18. 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…

  19. 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.

  20. 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).

  1. 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.

  2. 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

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

    PubMed

    Farmer, Ryan M; Tabita, F Robert

    2015-11-01

    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

  4. Light Modulates the Biosynthesis and Organization of Cyanobacterial Carbon Fixation Machinery through Photosynthetic Electron Flow.

    PubMed

    Sun, Yaqi; Casella, Selene; Fang, Yi; Huang, Fang; Faulkner, Matthew; Barrett, Steve; Liu, Lu-Ning

    2016-05-01

    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

  5. 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. PMID:25535939

  6. 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.

  7. Carbohydrate metabolism and carbon fixation in Roseobacter denitrificans OCh114.

    PubMed

    Tang, Kuo-Hsiang; Feng, Xueyang; Tang, Yinjie J; Blankenship, Robert E

    2009-01-01

    The Roseobacter clade of aerobic marine proteobacteria, which compose 10-25% of the total marine bacterial community, has been reported to fix CO(2), although it has not been determined what pathway is involved. In this study, we report the first metabolic studies on carbohydrate utilization, CO(2) assimilation, and amino acid biosynthesis in the phototrophic Roseobacter clade bacterium Roseobacter denitrificans OCh114. We develop a new minimal medium containing defined carbon source(s), in which the requirements of yeast extract reported previously for the growth of R. denitrificans can be replaced by vitamin B(12) (cyanocobalamin). Tracer experiments were carried out in R. denitrificans grown in a newly developed minimal medium containing isotopically labeled pyruvate, glucose or bicarbonate as a single carbon source or in combination. Through measurements of (13)C-isotopomer labeling patterns in protein-derived amino acids, gene expression profiles, and enzymatic activity assays, we report that: (1) R. denitrificans uses the anaplerotic pathways mainly via the malic enzyme to fix 10-15% of protein carbon from CO(2); (2) R. denitrificans employs the Entner-Doudoroff (ED) pathway for carbohydrate metabolism and the non-oxidative pentose phosphate pathway for the biosynthesis of histidine, ATP, and coenzymes; (3) the Embden-Meyerhof-Parnas (EMP, glycolysis) pathway is not active and the enzymatic activity of 6-phosphofructokinase (PFK) cannot be detected in R. denitrificans; and (4) isoleucine can be synthesized from both threonine-dependent (20% total flux) and citramalate-dependent (80% total flux) pathways using pyruvate as the sole carbon source. PMID:19794911

  8. Chemoautotrophic Carbon Fixation Rates and Active Bacterial Communities in Intertidal Marine Sediments

    PubMed Central

    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

  9. 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

  10. A global two component signal transduction system that integrates the control of photosynthesis, carbon dioxide assimilation, and nitrogen fixation

    PubMed Central

    Joshi, Hemalata M.; Tabita, F. Robert

    1996-01-01

    Photosynthesis, biological nitrogen fixation, and carbon dioxide assimilation are three fundamental biological processes catalyzed by photosynthetic bacteria. In the present study, it is shown that mutant strains of the nonsulfur purple photosynthetic bacteria Rhodospirillum rubrum and Rhodobacter sphaeroides, containing a blockage in the primary CO2 assimilatory pathway, derepress the synthesis of components of the nitrogen fixation enzyme complex and abrogate normal control mechanisms. The absence of the Calvin–Benson–Bassham (CBB) reductive pentose phosphate CO2 fixation pathway removes an important route for the dissipation of excess reducing power. Thus, the mutant strains develop alternative means to remove these reducing equivalents, resulting in the synthesis of large amounts of nitrogenase even in the presence of ammonia. This response is under the control of a global two-component signal transduction system previously found to regulate photosystem biosynthesis and the transcription of genes required for CO2 fixation through the CBB pathway and alternative routes. In addition, this two-component system directly controls the ability of these bacteria to grow under nitrogen-fixing conditions. These results indicate that there is a molecular link between the CBB and nitrogen fixation process, allowing the cell to overcome powerful control mechanisms to remove excess reducing power generated by photosynthesis and carbon metabolism. Furthermore, these results suggest that the two-component system integrates the expression of genes required for the three processes of photosynthesis, nitrogen fixation, and carbon dioxide fixation. PMID:8962083

  11. 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

  12. 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. PMID:16732432

  13. 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.

  14. 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. PMID:22677697

  15. 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.

  16. 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.

  17. 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

    2015-01-01

    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

  18. 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.

  19. 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

  20. 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

  1. 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. PMID:26324454

  2. 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

  3. 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.

  4. Variations in short term products of inorganic carbon fixation in exponential and stationary phase cultures of Aphanocapsa 6308.

    PubMed

    Weathers, P J; Allen, M M

    1978-03-01

    Aphanocapsa 6308 metabolizes both NaHCO3 and Na2CO3. The short term incorporation (5-s) metabolic pattern and the patterns of incorporation of bicarbonate for exponential versus stationary phase cultures differ, however. Cells were equilibrated for 10 min in air and distilled water prior to injection of either NaH14CO3 at pH 8.0, or Na214CO3 at pH 11.0. Hot ethanol extracts were analyzed via paper chromatography and autoradiography for products of CO2 fixation. At 5 s, malate (51.5%) predominates slightly as a primary bicarbonate fixation product over 3-phosphoglycerate (40.3%); 3-phosphoglycerate is the primary product of carbonate fixation. At 60 s, the carbonate and bicarbonate labelling patterns are similar. Cells in stationary phase fix in 5 s a greater proportion of bicarbonate into malate (36% vs. 14% for 3-phosphoglycerate) than do cells in exponential growth. Likewise, 60 s incorporations show a large amount of bicarbonate fixed into aspartate (30.9%) in stationary phase cells over that of exponential phase (11.6%). These data suggest an operative C4 pathway for purposes not related to carbohydrate synthesis but rather as compensation for the incomplete tricarboxylic acid cycle in cyanobacteria. The enhancement of both aspartate fixation and CO2 fixation into citrulline in stationary phase correlates with an increase in cyanophycin granule production which requires both aspartate and arginine. PMID:417691

  5. 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...

  6. 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

  7. 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. PMID:26511856

  8. 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.

  9. 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

  10. Identification of Missing Genes and Enzymes for Autotrophic Carbon Fixation in Crenarchaeota▿ †

    PubMed Central

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

    2011-01-01

    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. PMID:21169482

  11. Advances in spectroscopic methods for quantifying soil carbon

    USGS Publications Warehouse

    Reeves, James B., III; 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.

  12. Quantifying energetics of topological frustration in carbon nanostructures

    NASA Astrophysics Data System (ADS)

    Bullard, Zachary; Costa Girão, Eduardo; Daniels, Colin; Sumpter, Bobby G.; Meunier, Vincent

    2014-06-01

    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. While this phenomenon has been previously considered a binary operator, we here show a quantification in discrete units of frustrations. The graph theory method is combined with open density functional theory calculations to establish the existence of an energy of frustration 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 with its evaluation, is expected to be easily integrable into any modeling approach based on a structure's adjacency matrix.

  13. 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

  14. Carbon-Fixation Rates and Associated Microbial Communities Residing in Arid and Ephemerally Wet Antarctic Dry Valley Soils

    PubMed Central

    Niederberger, Thomas D.; Sohm, Jill A.; Gunderson, Troy; Tirindelli, Joëlle; Capone, Douglas G.; Carpenter, Edward J.; Cary, S. Craig

    2015-01-01

    Carbon-fixation is a critical process in severely oligotrophic Antarctic Dry Valley (DV) soils and may represent the major source of carbon in these arid environments. However, rates of C-fixation in DVs are currently unknown and the microorganisms responsible for these activities unidentified. In this study, C-fixation rates measured in the bulk arid soils (<5% moisture) ranged from below detection limits to ∼12 nmol C/cc/h. Rates in ephemerally wet soils ranged from ∼20 to 750 nmol C/cc/h, equating to turnover rates of ∼7–140 days, with lower rates in stream-associated soils as compared to lake-associated soils. Sequencing of the large subunit of RuBisCO (cbbL) in these soils identified green-type sequences dominated by the 1B cyanobacterial phylotype in both arid and wet soils including the RNA fraction of the wet soil. Red-type cbbL genes were dominated by 1C actinobacterial phylotypes in arid soils, with wetted soils containing nearly equal proportions of 1C (actinobacterial and proteobacterial signatures) and 1D (algal) phylotypes. Complementary 16S rRNA and 18S rRNA gene sequencing also revealed distinct differences in community structure between biotopes. This study is the first of its kind to examine C-fixation rates in DV soils and the microorganisms potentially responsible for these activities. PMID:26696969

  15. 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., III; 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.

  16. 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

  17. Characterization of microalgae-bacteria consortium cultured in landfill leachate for carbon fixation and lipid production.

    PubMed

    Zhao, Xin; Zhou, Yan; Huang, Sheng; Qiu, Duanyang; Schideman, Lance; Chai, Xiaoli; Zhao, Youcai

    2014-03-01

    The characteristics of cultivating high-density microalgae-bacteria consortium with landfill leachate was tested in this study. Landfill leachate was collected from Laogang landfill operated for over 10 years in Shanghai, China. The maximum biomass concentration of 1.58g L(-1) and chlorophyll a level of 22mg L(-1) were obtained in 10% leachate spike ratio. Meanwhile, up to 90% of the total nitrogen in landfill leachate was removed in culture with 10% leachate spike ratio with a total nitrogen concentration of 221.6mg L(-1). The fluorescence peak of humic-like organic matters red shifted to longer wavelengths by the end of culture, indicating that microalgae-bacteria consortium was effective for treating landfill leachate contaminants. Furthermore, with the leachate spike ratio of 10%, the maximum lipid productivity and carbon fixation were 24.1 and 65.8mg L(-1)d(-1), respectively. Results of this research provide valuable information for optimizing microalgae culture in landfill leachate. PMID:24525217

  18. 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. PMID:24532073

  19. 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

  20. Rates of fixation by lightning of carbon and nitrogen in possible primitive atmospheres.

    PubMed

    Chameides, W L; Walker, J C

    1981-12-01

    A thermochemical-hydrodynamic model of the production of trace species by electrical discharges has been used to estimate the rates of fixation of C and N by lightning in the primitive atmosphere. Calculations for various possible mixtures of CH4, CO2, CO, N2, H2, and H2O reveal that the prime species produced were probably HCN and NO and that the key parameter determining the rates of fixation was the ratio of C atoms to O atoms in the atmosphere. Atmospheres with C more abundant than O have large HCN fixation rates, in excess of 10(17) molecules J-1, but small NO yields. However, when O is more abundant than C, the NO fixation rate approaches 10(17) molecules J-1 while the HCN yield is small. The implications for the evolution of life are discussed. PMID:6276836

  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. PMID:25155758

  2. Role of dark carbon dioxide fixation in root nodules of soybean. [Rhizobium japonicum

    SciTech Connect

    King, B.J.; Layzell, D.B.; Canvin, D.T.

    1986-05-01

    The magnitude and role of dark Co/sub 2/ fixation were examined in nodules of intact soybean plants (Harosoy 63 x Rhizobium japonicum strain USDA 16). The estimated rate of nodule dark CO/sub 2/ fixation, based on a 2 minute pulse-feed with /sup 14/CO/sub 2/ under saturating conditions, was 102 micromoles per gram dry weight per hour. This was equivalent to 14% of net nodule respiration. Only 18% of this CO/sub 2/ fixation was estimated to be required for organic and amino acid synthesis for growth and export processes. The major portion (75-92%) of fixed label was released as CO/sub 2/ within 60 minutes. The labeling pattern during pulse-chase experiments was consistent with CO/sub 2/ fixation by phosphoenolpyruvate carboxylase. During the chase, the greatest loss of label occurred in organic acids. Exposure of nodulated roots to Ar:O/sub 2/(80:20) did not affect dark CO/sub 2/ fixation, while exposure to O/sub 2/:CO/sub 2/(95:5) resulted in 54% inhibition. From these results, it was concluded that at least 66% of dark CO/sub 2/ fixation in soybean may be involved with the production of organic acids, which when oxidized would be capable of providing at least 48% of the requirement for ATP equivalents to support nitrogenase activity.

  3. Carbon Dioxide Fixation and Related Properties in Sections of the Developing Green Maize Leaf 1

    PubMed Central

    Perchorowicz, John T.; Gibbs, Martin

    1980-01-01

    Light and dark 14CO2 assimilation, pulse-chase (14CO2 followed by 12CO2) labeling experiments both in the light and in the dark, photorespiratory activity and some enzymes (ribulose 1,5-bisphosphate (RuBP) carboxylase, phosphoenolpyruvate (PEP) carboxylase, and NADP-malic enzyme) were followed in sections of 2.5 centimeters from the base (younger tissue) to the tip (oldest tissue) of the green maize leaf. Tissue was taken from the third leaf of 12- to 16-day-old plants consisting of sections 0 to 2.5 centimeters (base), 4.5 to 7.0 centimeters (center) and 9.0 to 11.5 centimeters (top) measured from the base. Some of these properties were also determined in the intact leaves of 4-day-old maize plants. Electron microscopy indicated a Kranz anatomy in all sections. Differentiation into mesophyll granal chloroplasts and bundle sheath agranal chloroplasts had taken place only in the center and top pieces. All of the sections contained PEP carboxylase, RuBP carboxylase, and NADP-malic enzyme. The ratio of PEP:RuBP carboxylase increased from 3.03 (top) to 4.66 (base) whereas the PEP carboxylase:NADP-malic enzyme ratio rose from 2.87 (top) to 9.57 (base). Under conditions of light or dark, the majority of the newly incorporated 14CO2 was found in malate and aspartate in all sections and in 4-day-old leaves. The 14C-labeling pattern typical of C4 plants was present in the center and top sections and to a lesser extent in the 4-day-old leaves. In the base tissue, the percentage of radioactivity in malate and aspartate remained relatively constant both during photosynthesis and pulse-chase experiments. In contrast, radioactivity in glycerate-3-phosphate decreased with time coupled to an increase in sugar phosphates. To account for the isotopic pattern in the base tissue, parallel fixation by PEP carboxylase and RuBP carboxylase was proposed with the photosynthetic carbon reduction cycle functioning to some extent independently within the bundle sheath chloroplasts. The

  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, 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.

  5. 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.

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

    PubMed

    Zhao, Shuqing; Liu, Shuguang; Yin, Runsheng; Li, Zhengpeng; Deng, Yulin; Tan, Kun; Deng, Xiangzheng; Rothstein, David; Qi, Jiaguo

    2010-03-01

    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. PMID:19296154

  7. 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.

  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. 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

    2016-08-01

    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. PMID:26852782

  10. An ancient pathway combining carbon dioxide fixation with the generation and utilization of a sodium ion gradient for ATP synthesis.

    PubMed

    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

  11. 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

  12. 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

  13. Will Elevated Carbon Dioxide Concentration Amplify the Benefits of Nitrogen Fixation in Legumes?

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Current evidence suggests there are three key features of the response of legumes to elevated [CO2]: (1) unlike other non-leguminous C3 plants, only legumes have the potential to maximize the benefit of elevated [CO2] by matching stimulated photosynthesis with increased N2 fixation; (2) this potenti...

  14. Ammonia fixation by humic substances: A nitrogen-15 and carbon-13 NMR study

    USGS Publications Warehouse

    Thorn, K.A.; Mikita, M.A.

    1992-01-01

    The process of ammonia fixation has been studied in three well characterized and structurally diverse fulvic and humic acid samples. The Suwannee River fulvic acid, and the IHSS peat and leonardite humic acids, were reacted with 15N-labelled ammonium hydroxide, and analyzed by liquid phase 15N NMR spectrometry. Elemental analyses and liquid phase 13C NMR spectra also were recorded on the samples before and after reaction with ammonium hydroxide. The largest increase in percent nitrogen occurred with the Suwannee River fulvic acid, which had a nitrogen content of 0.88% before fixation and 3.17% after fixation. The 15N NMR spectra revealed that ammonia reacted similarly with all three samples, indicating that the functional groups which react with ammonia exist in structural configurations common to all three samples. The majority of nitrogcn incorporated into the samples appears to be in the form of indole and pyrrole nitrogen, followed by pyridine, pyrazine, amide and aminohydroquinone nitrogen. Chemical changes in the individual samples upon fixation could not be discerned from the 13C NMR spectra.

  15. 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

  16. Carbon dioxide effects on fruits : III. The fixation of C(14)O 2 in lemon in an atmosphere enriched with carbon dioxide.

    PubMed

    Young, R E; Biale, J B

    1968-09-01

    1. The first products of C(14)O2 fixation by lemon fruit in the dark were found to be malic, citric and aspartic acids. It is presumed that exalacetic is actually the first product to be labeled but that it is converted rapidly to the three other acids. 2. Malonic acid was identified as one of the products of exposure to C(14)O2. 3. Aconitic, fumaric and α-ketoglutaric acids could not be detected in the extracts of lemon peel, thus raising the possibility of the existence of at least two pools for the products of CO2 fixation. 4. The suggestion was advanced that accumulation of citric acid in the vacuole leads to a deficiency of oxalacetic acid and thus limits overall oxidation. Carbon dioxide stimulates respiration by increasing the supply of oxalacetic acid. PMID:24519678

  17. Light microenvironment and single-cell gradients of carbon fixation in tissues of symbiont-bearing corals.

    PubMed

    Wangpraseurt, Daniel; Pernice, Mathieu; Guagliardo, Paul; Kilburn, Matt R; Clode, Peta L; Polerecky, Lubos; Kühl, Michael

    2016-03-01

    Recent coral optics studies have revealed the presence of steep light gradients and optical microniches in tissues of symbiont-bearing corals. Yet, it is unknown whether such resource stratification allows for physiological differences of Symbiodinium within coral tissues. Using a combination of stable isotope labelling and nanoscale secondary ion mass spectrometry, we investigated in hospite carbon fixation of individual Symbiodinium as a function of the local O2 and light microenvironment within the coral host determined with microsensors. We found that net carbon fixation rates of individual Symbiodinium cells differed on average about sixfold between upper and lower tissue layers of single coral polyps, whereas the light and O2 microenvironments differed ~15- and 2.5-fold, respectively, indicating differences in light utilisation efficiency along the light microgradient within the coral tissue. Our study suggests that the structure of coral tissues might be conceptually similar to photosynthetic biofilms, where steep physico-chemical gradients define form and function of the local microbial community. PMID:26241503

  18. 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. PMID:26270956

  19. 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

  20. 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

  1. 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

  2. Autotrophic Carbon Dioxide Fixation via the Calvin-Benson-Bassham Cycle by the Denitrifying Methanotroph “Candidatus Methylomirabilis oxyfera”

    PubMed Central

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

    2014-01-01

    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 13CH4 or [13C]bicarbonate revealed that “Ca. Methylomirabilis oxyfera” biomass and lipids became significantly more enriched in 13C after incubation with 13C-labeled bicarbonate (and unlabeled methane) than after incubation with 13C-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

  3. Rapid resonance Raman microspectroscopy to probe carbon dioxide fixation by single cells in microbial communities

    PubMed Central

    Li, Mengqiu; Canniffe, Daniel P; Jackson, Philip J; Davison, Paul A; FitzGerald, Simon; Dickman, Mark J; Burgess, J Grant; Hunter, C Neil; Huang, Wei E

    2012-01-01

    Photosynthetic microorganisms play crucial roles in aquatic ecosystems and are the major primary producers in global marine ecosystems. The discovery of new bacteria and microalgae that play key roles in CO2 fixation is hampered by the lack of methods to identify hitherto-unculturable microorganisms. To overcome this problem we studied single microbial cells using stable-isotope probing (SIP) together with resonance Raman (RR) microspectroscopy of carotenoids, the light-absorbing pigments present in most photosynthetic microorganisms. We show that fixation of 13CO2 into carotenoids produces a red shift in single-cell RR (SCRR) spectra and that this SCRR–SIP technique is sufficiently sensitive to detect as little as 10% of 13C incorporation. Mass spectrometry (MS) analysis of labelled cellular proteins verifies that the red shift in carotenoid SCRR spectra acts as a reporter of the 13C content of single cells. Millisecond Raman imaging of cells in mixed cultures and natural seawater samples was used to identify cells actively fixing CO2, demonstrating that the SCRR–SIP is a noninvasive method for the rapid and quantitative detection of CO2 fixation at the single cell level in a microbial community. The SCRR–SIP technique may provide a direct method for screening environmental samples, and could help to reveal the ecophysiology of hitherto-unculturable microorganisms, linking microbial species to their ecological function in the natural environment. PMID:22113377

  4. Volatile fatty acid impacts on nitrite oxidation and carbon dioxide fixation in activated sludge.

    PubMed

    Oguz, Merve T; Robinson, Kevin G; Layton, Alice C; Sayler, Gary S

    2006-02-01

    Batch test were performed to assess nitrite removal, nitrate formation, CO2 fixation, gaseous nitrogen production and microbial density in activated sludge exposed to volatile fatty acid (VFA) mixtures. Nitrite removal and nitrate formation were both affected by the presence of VFAs, but to different degrees. Nitrate formation rates were reduced to a greater extent (79%) than nitrite removal rates (36%) resulting in an apparent unbalanced nitrite oxidation reaction. Since the total bacterial density and the nitrite oxidizing bacteria (NOB, Nitrospira) concentration remained essentially constant under all test conditions, the reduction in rates was not due to heterotrophic uptake of nitrogen or to a decrease in the NOB population. In contrast to the nitrogen results, VFAs were not found to impact CO2 fixation efficiency. It appeared that nitrite oxidation occurred when VFAs were present since the oxidation of nitrite provides energy for CO2 fixation. However, nitrate produced from the oxidation of nitrite was reduced to gaseous nitrogen products. N2O gas was detected in the presence of VFAs which was a clear indication that VFAs stimulated an alternative pathway, such as aerobic denitrification, during biotransformation of nitrogen in activated sludge. PMID:16436292

  5. Carbon fixation and chlorophyll in bottom sediments of brackish Lake Grevelingen, The Netherlands

    NASA Astrophysics Data System (ADS)

    Nienhuis, P. H.; De Bree, B. H. H.

    Chlorophyll a concentrations in the upper 10 cm (sliced per cm) of Lake Grevelingen sediments are given for the years 1977-1980. Chlorophyll a in the upper cm of the bottom varied between 20-400 mg·m -2. Average values in 1-3 m deep sandy and silty-sandy stations amounted to 67.5-82.2 mg·m -2 in the upper cm. A 7 m deep siltystation contained on an average 42.7 mg·m -2 chlorophyll a in the upper cm of the sediment. Both within year and year-to-year variations were large. A restricted number of phaeopigment data for 1977 revealed an average phaeopigment-chlorophyll a ratio of 0.03 (sand) to 0.39 (silt). POC measured in 1977 and 1978 in the top cm of the sediment showed annual average values ranging between 0.2 and 0.7% of sediment dry weight. 14C fixation data in the light, as measured in a laboratory incubator, are given for 1979 and 1980, with highest values during summer (200-500 mg C·m -2·d -1) and lower values in winter. Integrated annual values give average 14C fixation estimates per station, ranging between 47 g C·m -2·a -1 and 71 g C·m -1, with a variation coefficient of 35 to 49% of the mean. Average 14C dark fixation values varied between 13 and 27% of average light fixation values. An arbitrarily and tentatively derived net microphytobenthos primary production estimate for entire Lake Grevelingen amounts to 35 g C·m -2 for 1979 and 32 g C·m -2 for 1980. The relationship between POC and chlorophyll a concentration was sometimes significant, between annual chlorophyll a concentration and light fixation values it was not. A literature comparison between the 14C and the O 2 exchange method leads to the conclusion that both methods have serious drawbacks when applied to benthic systems.

  6. 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} .

  7. Crop yield and CO2 fixation monitoring over Asia by a photosynthetic-sterility model comparing with MODIS and carbon amounts in grain yields

    NASA Astrophysics Data System (ADS)

    Kaneko, Daijiro; Yang, Peng; Kumakura, Toshiro

    2009-08-01

    The authors have developed a photosynthesis crop model for grain production under the background of climate change and Asian economic growth in developing countries. This paper presents an application of the model to grain fields of paddy rice, winter wheat, and maize in China and Southeast Asia. The carbon hydrate in grains has the same chemical formula as that of cellulose in grain vegetation. The partitioning of carbon in grain plants can validate fixation amounts of computed carbon using a satellite-based photosynthesis model. The model estimates the photosynthesis fixation of rice reasonably in Japan and China. Results were validated through examination of carbon in grains, but the model tends to underestimate results for winter wheat and maize. This study also provides daily distributions of the PSN, which is the CO2 fixation in Asian areas combined with a land-cover distribution classified from MODIS data, NDVI from SPOT VEGETATION, and meteorological re-analysis data by European Centre for Medium-Range Forecasts (ECMWF). The mean CO2 and carbon fixation rates in paddy areas were 25.92 (t CO2/ha) and 5.28 (t/ha) in Japan, respectively. The method is based on routine observation data, enabling automated monitoring of crop yields.

  8. Quantifying Contemporary Terrestrial Carbon Sources and Sinks in the Conterminous United States

    NASA Astrophysics Data System (ADS)

    Liu, S.; Loveland, T.

    2003-12-01

    U.S. land likely accounts for a significant portion of the unidentified global carbon sink, although the magnitude is highly uncertain. The ultimate goal of this study is to quantify the contemporary temporal and spatial patterns of carbon sources and sinks in the conterminous United States from the early 1970s to 2000, and to explain the mechanisms that cause the variability and changes. Because of the difficulty and massive cost for developing land cover change databases for the conterminous United States, we adopt an ecoregion-based sampling approach. Carbon dynamics within thousands of 20 km by 20 km or 10 km by 10 km sampling blocks, stratified by Omernik Level III ecoregions, are simulated using the General Ensemble Biogeochemical Modeling System at the spatial resolution of 60 m by 60 m. The land use change data, providing unprecedented accuracy and consistency, are derived from Landsat imagery for five time points (nominally 1972, 1980, 1986, 1992, and 2000). Mechanisms have been implemented to assimilate data from key national benchmark databases (including the USDA Forest Service­_s Forest Inventory and Analysis data and the USDA­_s agricultural census data). The dynamics of carbon stocks in vegetation, soil, and harvested wood materials are quantified. Results from three ecoregions (i.e., Southeastern Plains, Piedmont, and Northern Piedmont) indicated that the carbon sink strength has been decreasing from the 1970s to 2000. The relative contribution of biomass accumulation to the sink decreased during this period, while those of soil organic carbon and harvested wood materials increased.

  9. Quantifying fire-wide carbon emissions in interior Alaska using field measurements and Landsat imagery

    NASA Astrophysics Data System (ADS)

    Rogers, B. M.; Veraverbeke, S.; Azzari, G.; Czimczik, C. I.; Holden, S. R.; Mouteva, G. O.; Sedano, F.; Treseder, K. K.; Randerson, J. T.

    2014-08-01

    Carbon emissions from boreal forest fires are projected to increase with continued warming and constitute a potentially significant positive feedback to climate change. The highest consistent combustion levels are reported in interior Alaska and can be highly variable depending on the consumption of soil organic matter. Here we present an approach for quantifying emissions within a fire perimeter using remote sensing of fire severity. Combustion from belowground and aboveground pools was quantified at 22 sites (17 black spruce and five white spruce-aspen) within the 2010 Gilles Creek burn in interior Alaska, constrained by data from eight unburned sites. We applied allometric equations and estimates of consumption to calculate carbon losses from aboveground vegetation. The position of adventitious spruce roots within the soil column, together with estimated prefire bulk density and carbon concentrations, was used to quantify belowground combustion. The differenced Normalized Burn Ratio (dNBR) exhibited a clear but nonlinear relationship with combustion that differed by forest type. We used a multiple regression model based on transformed dNBR and deciduous fraction to scale carbon emissions to the fire perimeter, and a Monte Carlo framework to assess uncertainty. Because of low-severity and unburned patches, mean combustion across the fire perimeter (1.98 ± 0.34 kg C m-2) was considerably less than within a defined core burn area (2.67 ± 0.40 kg C m-2) and the mean at field sites (2.88 ± 0.23 kg C m-2). These areas constitute a significant fraction of burn perimeters in Alaska but are generally not accounted for in regional-scale estimates. Although total combustion in black spruce was slightly lower than in white spruce-aspen forests, black spruce covered most of the fire perimeter (62%) and contributed the majority (67 ± 16%) of total emissions. Increases in spring albedo were found to be a viable alternative to dNBR for modeling emissions.

  10. 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.

  11. 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.

  12. Quantifying the Effects of Formalin Fixation on the Mechanical Properties of Cortical Bone Using Beam Theory and Optimization Methodology With Specimen-Specific Finite Element Models.

    PubMed

    Zhang, Guan-Jun; Yang, Jie; Guan, Feng-Jiao; Chen, Dan; Li, Na; Cao, Libo; Mao, Haojie

    2016-09-01

    The effects of formalin fixation on bone material properties remain debatable. In this study, we collected 36 fresh-frozen cuboid-shaped cortical specimens from five male bovine femurs and immersed half of the specimens into 4% formalin fixation liquid for 30 days. We then conducted three-point bending tests and used both beam theory method and an optimization method combined with specimen-specific finite element (FE) models to identify material parameters. Through the optimization FE method, the formalin-fixed bones showed a significantly lower Young's modulus (-12%) compared to the fresh-frozen specimens, while no difference was observed using the beam theory method. Meanwhile, both the optimization FE and beam theory methods revealed higher effective failure strains for formalin-fixed bones compared to fresh-frozen ones (52% higher through the optimization FE method and 84% higher through the beam theory method). Hence, we conclude that the formalin fixation has a significant effect on bovine cortical bones at small, elastic, as well as large, plastic deformations. PMID:27447849

  13. Photosynthetic carbon fixation characteristics of fruiting structures of Brassica campestris L

    SciTech Connect

    Singal, H.R.; Sheoran, I.S.; Singh, R.

    1987-04-01

    Activities of key enzymes of the Calvin cycle and C/sub 4/ metabolism, rates of CO/sub 2/ fixation, and the initial products of photosynthetic /sup 14/CO/sub 2/ fixation were determined in the podwall, seed coat (fruiting structures), and the subtending leaf (leaf below a receme) of Brassica campestris L. cv Toria. Compared to activities of ribulose-1,5-bisphosphate carboxylase and other Calvin cycle enzymes, e.g. NADP-glyceraldehyde-3-phosphate-dehydrogenase and ribulose-5-phosphate kinase, the activities of phosphoenol pyruvate carboxylase and other enzymes of C/sub 4/ metabolism, viz. NADP-malate dehydrogenase, NADP-malic enzyme, glutamate pyruvate transaminase, and glutamate oxaloacetate transaminase, were generally much higher in seed than in podwall and leaf. Podwall and leaf were comparable to each other. Pulse-chase experiments showed that in seed the major product of /sup 14/CO/sub 2/ assimilation was malate (in short time), whereas in podwall and leaf, the label initially appeared in 3-PGA. With time, the label moved to sucrose. In contrast to legumes, Brassica pods were able to fix net CO/sub 2/ during light. However, respiratory losses were very high during the dark period.

  14. 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.

  15. Quantifying forest disturbance and regrowth in support of the North American Carbon Program

    NASA Astrophysics Data System (ADS)

    Huang, C.; Goward, S. N.; Masek, J. G.

    2006-12-01

    Forest disturbance and regrowth are assumed to be significant forces modulating North American carbon balance. Quantifying the carbon fluxes of forest changes requires the changes be assessed with appropriate spatial and temporal details. The Landsat imagery archive accumulated since 1972 provides a unique data source for carrying out this work over the last 30+ years. Through two NASA funded projects "North American Forest Disturbance and Regrowth since 1972 (NAFDR)" and "Landsat Ecosystem Disturbance Adaptive Processing System (LEDAPS)", Landsat images are being used to assess forest changes across the North American continent. In the NAFDR project, dense time series (quasi-2-year) of Landsat images are being compiled to quantify forest changes for statistically sampled locations selected to permit national estimates of disturbance and regrowth. In the LEDAPS project, wall-to-wall North American Landsat images acquired and orthorectified under the NASA Scientific Data Purchase program for the 1970s, 1990s and 2000 are being used to examine forest change for the entire North American continent between these 3 decades. The change products derived through the two projects will be cross-calibrated using field plot data collected through the U.S. Department of Agriculture Forest Inventory and Analysis (FIA) program. Results from the two projects should provide spatially and temporally comprehensive assessments of forest disturbance history of the North American continent, therefore allowing more accurate estimation of the carbon flux arising from such changes.

  16. RuBP limitation of photosynthetic carbon fixation during NH sub 3 assimilation: Interactions between photosynthesis, respiration, and ammonium assimilation in N-limited green algae

    SciTech Connect

    Elrifi, I.R.; Holmes, J.J.; Weger, H.G.; Mayo, W.P.; Turpin, D.H. )

    1988-06-01

    The effects of ammonium assimilation on photosynthetic carbon fixation and O{sub 2} exchange were examined in two species of N-limited green algae, Chlorella pyrenoidosa and Selenastrum minutum. Under light-saturating conditions, ammonium assimilation resulted in a suppression of photosynthetic carbon fixation by S. minutum but not by C. pyrenoidosa. These different responses are due to different relationships between cellular ribulose bisphosphate (RuBP) concentration and the RuBP binding site density of ribulose bisphosphate carboxylase/oxygenase (Rubisco). In both species, ammonium assimilation resulted in a decrease in RuBP concentration. In S. minutum the concentration fell below the RuBP binding site density of Rubisco, indicating RuBP limitation of carboxylation. In contrast, RuBP concentration remained above the binding site density in C. pyrenoidosa. Compromising RuBP regeneration in C. pyrenoidosa with low light resulted in an ammonium-induced decrease in RuBP concentration below the RuBP binding site density of Rubisco. This resulted in a decrease in photosynthetic carbon fixation. In both species, ammonium assimilation resulted in a larger decrease in net O{sub 2} evolution than in carbon fixation. Mass spectrometric analysis shows this to be a result of an increase in the rate of mitochondrial respiration in the light.

  17. Multicomponent self-assembly of a pentanuclear Ir-Zn heterometal-organic polyhedron for carbon dioxide fixation and sulfite sequestration.

    PubMed

    Li, Xuezhao; Wu, Jinguo; He, Cheng; Zhang, Rong; Duan, Chunying

    2016-04-14

    By incorporating a fac-tris(4-(2-pyridinyl)phenylamine)iridium as the backbone of the tripodal ligand to constrain the coordination geometry of Zn(II) ions, a pentanuclear Ir-Zn heterometal-organic luminescent polyhedron was obtained via a subcomponent self-assembly for carbon dioxide fixation and sulfite sequestration. PMID:26932204

  18. Quantifying the Uncertainties in the Carbon Content of the Terrestrial Biosphere

    NASA Astrophysics Data System (ADS)

    Jain, A. K.; Yang, X.

    2003-12-01

    According to the IPCC (2001), the 1980s estimates for all major terms in the global carbon budget are subject to uncertainties. However, uncertainties in land use changes and terrestrial sinks are the largest, up to 200%. Here, we quantify the uncertainties in regional land use emissions as well as net terrestrial flux over the period 1765-2000. Using the terrestrial carbon cycle component of the Integrated Science Assessment Model (ISAM) coupled with observed atmospheric CO2, temperature and precipitation data, the effects of different land cover data sets on the response of plant and soil carbon stocks are assessed. This geographically-explicit implementation of ISAM simulates the carbon fluxes to and from different compartments of the terrestrial biosphere with 0.5-by-0.5 degree spatial resolution. Each grid cell contains at least one of the thirteen land coverage classifications, which represent both highly managed land uses and less managed biomes. Changes in the areal extent of land cover classifications are driven by shifts in land use related to agriculture, afforestation, deforestation, and reforestation. Within each grid cell and land-coverage classification, the modeled carbon cycle includes feedback processes such as CO2 fertilization and temperature effects on photosynthesis, and respiration. ISAM model simulations indicate that uncertainties in net terrestrial fluxes during the 1980s is mainly due to the large uncertainties in land cover change data for tropical Africa and south and south east Asia.

  19. 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.

  20. 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.

  1. 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. PMID:26959080

  2. 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. PMID:26581415

  3. 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.

  4. Predictable and efficient carbon sequestration in the North Pacific Ocean supported by symbiotic nitrogen fixation

    PubMed Central

    Karl, David M.; Church, Matthew J.; Dore, John E.; Letelier, Ricardo M.; Mahaffey, Claire

    2012-01-01

    The atmospheric and deep sea reservoirs of carbon dioxide are linked via physical, chemical, and biological processes. The last of these include photosynthesis, particle settling, and organic matter remineralization, and are collectively termed the “biological carbon pump.” Herein, we present results from a 13-y (1992–2004) sediment trap experiment conducted in the permanently oligotrophic North Pacific Subtropical Gyre that document a large, rapid, and predictable summertime (July 15–August 15) pulse in particulate matter export to the deep sea (4,000 m). Peak daily fluxes of particulate matter during the summer export pulse (SEP) average 408, 283, 24.1, 1.1, and 67.5 μmol·m−2·d−1 for total carbon, organic carbon, nitrogen, phosphorus (PP), and biogenic silica, respectively. The SEP is approximately threefold greater than mean wintertime particle fluxes and fuels more efficient carbon sequestration because of low remineralization during downward transit that leads to elevated total carbon/PP and organic carbon/PP particle stoichiometry (371:1 and 250:1, respectively). Our long-term observations suggest that seasonal changes in the microbial assemblage, namely, summertime increases in the biomass and productivity of symbiotic nitrogen-fixing cyanobacteria in association with diatoms, are the main cause of the prominent SEP. The recurrent SEP is enigmatic because it is focused in time despite the absence of any obvious predictable stimulus or habitat condition. We hypothesize that changes in day length (photoperiodism) may be an important environmental cue to initiate aggregation and subsequent export of organic matter to the deep sea. PMID:22308450

  5. 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.

  6. 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

  7. 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.

  8. 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

  9. Carbonate hydroxyapatite functionalization: a comparative study towards (bio)molecules fixation

    PubMed Central

    Russo, Laura; Taraballi, Francesca; Lupo, Cristina; Poveda, Ana; Jiménez-Barbero, Jesús; Sandri, Monica; Tampieri, Anna; Nicotra, Francesco; Cipolla, Laura

    2014-01-01

    Different methods for the functionalization of carbonate hydroxyapatite granules with free amine groups by reaction with (3-aminopropyl)triethoxysilane (APTES) have been compared in order to improve the potential for tethering of bioactive molecules to bioceramics. The combined use of tetraethoxyorthosilicate and APTES with acid catalysis resulted in an evident increase in amine surface grafting. PMID:24501671

  10. 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...

  11. 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.

    2010-06-01

    We propose a measure to quantify climate warming or cooling by pollutants with atmospheric lifetimes of less than one year: the Specific Forcing Pulse (SFP). SFP is the amount of energy added to the Earth system per mass of pollutant emitted. Global average SFP for black carbon, including atmosphere and cryosphere, is 1.12 GJ g-1 and that for organic matter is -0.061 GJ g-1. We provide regional values for black carbon (BC) and organic matter (OM) emitted from 23 source-region combinations, divided between atmosphere and cryosphere impacts and identifying forcing by latitude. Regional SFP varies by about 40% for black carbon. This variation is relatively small because of compensating effects; particles from regions that affect ice albedo typically have shorter atmospheric lifetimes because of lower convection. The ratio between BC and OM SFP implies that, for direct forcing, an OM:BC mass ratio of 15 has a neutral effect on top-of-atmosphere direct forcing for any region, and any lower ratio induces direct warming. However, important processes, particularly cloud changes that tend toward cooling, have not been included here. We demonstrate ensemble adjustment, in which we produce a "best estimate" by combining a suite of diverse but simple models and enhanced models of greater complexity. Adjustments for black carbon internal mixing and for regional variability are discussed; regions with convection are implicated in greater model diversity. SFP expresses scientific uncertainty and separates it from policy uncertainty; the latter is caused by disagreements about the relevant time horizon, impact, or spatial scale of interest. However, metrics used in policy discussions, such as global warming potentials, are easily derived from SFP. Global-average SFP for biofuel and fossil fuel emissions translates to a 100-year GWP of about 760 for black carbon and -40 for organic matter when snow forcing is included. Ensemble-adjusted estimates of atmospheric radiative impact by

  12. Chemolithotrophic nitrite oxidation by Nitrobacter: coupling with carbon dioxide fixation for growth and influence of metal ions and inorganic compounds of sulfur

    SciTech Connect

    Tsai, Y.L.

    1986-01-01

    The growth of Nitrobacter winogradskyi was completely inhibited by 0.1 mM persulfate, 0.5 mM tetrathionate, or by 5 mM each of dithionite, metabisulfite, or trithionate. The oxygen uptake activity of washed N. agilis cell suspensions was not influenced by persulfate or tetrathionate. Carbon dioxide fixation was insensitive to tetrathionate and in fact an enhancement by tetrathionate was observed. Persulfate inhibited the fixation of carbon dioxide only at a high concentration. The oxygen uptake activity of washed ell suspensions of N. agilis was tested in the presence of copper, nickel, aluminum, uranyl, and molybdate ions. Copper ion was slightly stimulatory at 0.17 M and strongly inhibitory at 17 mM. Molybdate ion showed either slight enhancement or no inhibition at all test concentrations. With the other test ions inhibition of oxygen uptake was observed.

  13. Biology of a widespread uncultivated archaeon that contributes to carbon fixation in the subsurface.

    PubMed

    Probst, Alexander J; Weinmaier, Thomas; Raymann, Kasie; Perras, Alexandra; Emerson, Joanne B; Rattei, Thomas; Wanner, Gerhard; Klingl, Andreas; Berg, Ivan A; Yoshinaga, Marcos; Viehweger, Bernhard; Hinrichs, Kai-Uwe; Thomas, Brian C; Meck, Sandra; Auerbach, Anna K; Heise, Matthias; Schintlmeister, Arno; Schmid, Markus; Wagner, Michael; Gribaldo, Simonetta; Banfield, Jillian F; Moissl-Eichinger, Christine

    2014-01-01

    Subsurface microbial life contributes significantly to biogeochemical cycling, yet it remains largely uncharacterized, especially its archaeal members. This 'microbial dark matter' has been explored by recent studies that were, however, mostly based on DNA sequence information only. Here, we use diverse techniques including ultrastuctural analyses to link genomics to biology for the SM1 Euryarchaeon lineage, an uncultivated group of subsurface archaea. Phylogenomic analyses reveal this lineage to belong to a widespread group of archaea that we propose to classify as a new euryarchaeal order ('Candidatus Altiarchaeales'). The representative, double-membraned species 'Candidatus Altiarchaeum hamiconexum' has an autotrophic metabolism that uses a not-yet-reported Factor420-free reductive acetyl-CoA pathway, confirmed by stable carbon isotopic measurements of archaeal lipids. Our results indicate that this lineage has evolved specific metabolic and structural features like nano-grappling hooks empowering this widely distributed archaeon to predominate anaerobic groundwater, where it may represent an important carbon dioxide sink. PMID:25425419

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

    DOE PAGESBeta

    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,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

  15. 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

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

    PubMed

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

    2016-05-01

    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, Mg(2+), 22 °C) and phosphoenolpyruvate carboxykinase (pH 7, >2mM Mn(2+), no Mg(2+)) 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

  17. Quantifying the emissions and air quality co-benefits of lower-carbon electricity production

    NASA Astrophysics Data System (ADS)

    Plachinski, Steven D.; Holloway, Tracey; Meier, Paul J.; Nemet, Gregory F.; Rrushaj, Arber; Oberman, Jacob T.; Duran, Phillip L.; Voigt, Caitlin L.

    2014-09-01

    The impact of air emissions from electricity generation depends on the spatial distribution of power plants and electricity dispatch decisions. Thus, any realistic evaluation of the air quality impacts of lower-carbon electricity must account for the spatially heterogeneous changes in associated emissions. Here, we present an analysis of the changes in fine particulate matter (PM2.5) associated with current, expected, and proposed energy efficiency and renewable energy policies in Wisconsin. We simulate the state's electricity system and its potential response to policies using the MyPower electricity-sector model, which calculates plant-by-plant reductions in NOx and SO2 emissions. We find that increased efficiency and renewable generation in a 2024 policy scenario substantially reduce statewide emissions of NOx and SO2 (55% and 59% compared to 2008, 32% and 33% compared to 2024 business-as-usual, BAU). PM2.5 is quantified across the Great Lakes region using the EPA Community Multiscale Air Quality (CMAQ) model for some emissions scenarios. We find that summer mean surface concentrations of sulfate and PM2.5 are less sensitive to policy changes than emissions. In the 2024 policy scenario, sulfate aerosol decreases less than 3% over most of the region relative to BAU and 3-13% relative to 2008 over most of Wisconsin. The lower response of these secondary aerosols arises from chemical and meteorological processing of electricity emissions, and mixing with other emission sources. An analysis of model performance and response to emission reduction at five sites in Wisconsin shows good model agreement with observations and a high level of spatial and temporal variability in sulfate and PM2.5 reductions. In this case study, the marginal improvements in emissions and air quality associated with carbon policies were less than the technology, renewable, and conservation assumptions under a business-as-usual scenario. However, this analysis for Wisconsin shows how

  18. Mid-infrared spectroscopy as a tool to identify and quantify soil organic carbon size fractions

    NASA Astrophysics Data System (ADS)

    Noon, Carole; Stevens, Antoine; Van Oost, Kristof; Six, Johan; Barthès, Bernard; van Wesemael, Bas

    2014-05-01

    of spectra to quantify organic carbon in each fraction. By preselecting variables, we are able to improve the performance of the models to predict C content in size fractions compare to a traditional PLS regression applied on the entire spectra in particular for the fine fraction (<53µm). Using a traditional PLS regression, we observed a RMSE of 1.21 gC/kg and a RPD < 2. In contrast, using the functional groups as described above we are able to model the C content in the fine fraction with a RMSE=1.1 gC/kg and RPD=2.35. We conclude that this new approach to quantify C content in size fraction represents an enhancement in the understanding of the functional organic groups that play a role in the different size fractions. Key words: mid infrared reflectance (MIR) spectroscopy, soil organic carbon, physical fractionation.

  19. Advanced remote sensing to quantify temperate peatland capacity for belowground carbon capture

    NASA Astrophysics Data System (ADS)

    Byrd, K. B.; Blanchard, S.; Schile, L. M.; Kolding, S.; Kelly, M.; Windham-Myers, L.; Miller, R.

    2011-12-01

    Temperate peatlands typically dominated by grasses and sedges generate among the greatest annual rates of net primary productivity (NPP, up to 4 kg C m-2) and soil carbon storage (up to 1 kg C m-2) for natural ecosystems. Belowground tissues represent 20-80% of total NPP, thus understanding the controls on belowground NPP (BNPP) in these wetland ecosystems is particularly important to quantifying peatland carbon balances. In addition, there is a growing need to quantify large-scale belowground C sequestration rates in wetlands to better understand marsh resilience to sea level rise and to help define eligibility for carbon offset credits. Since plant productivity influences wetland C budgets, combining field and remote sensing techniques for estimating above and belowground productivity of wetland vegetation over a large spatial extent will help to address these needs. We are working in a USGS long-term experimental wetland restoration site on drained peatland in the Sacramento-San Joaquin River Delta. Using the spatial variability in water depth and residence time across the 7 ha wetland, our goal is to develop practical methods to quantify and map BNPP of emergent marsh vegetation from remotely sensed estimates of aboveground plant characteristics and aboveground NPP. Field data collected on wetland plants hardstem bulrush (Schoenoplectus acutus) and cattail (Typha spp.) were coupled with reflectance data from a field spectrometer (range 350-2500 nm) every two to three weeks during the summer of 2011. We are analyzing reflectance data to develop hyperspectral indices that predict the biophysical characteristics of wetland vegetation - biomass, leaf area index (LAI), and the fraction of absorbed photosynthetically active radiation (fAPAR) - which may be used to infer belowground biomass and productivity. Soil cores and root in-growth bags were used to calculate root biomass and productivity rates. Existing allometric relationships were used to calculate

  20. 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.

  1. 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

  2. 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

  3. Robust Control of PEP Formation Rate in the Carbon Fixation Pathway of C4 Plants by a Bi-functional Enzyme

    PubMed Central

    2011-01-01

    Background C4 plants such as corn and sugarcane assimilate atmospheric CO2 into biomass by means of the C4 carbon fixation pathway. We asked how PEP formation rate, a key step in the carbon fixation pathway, might work at a precise rate, regulated by light, despite fluctuations in substrate and enzyme levels constituting and regulating this process. Results We present a putative mechanism for robustness in C4 carbon fixation, involving a key enzyme in the pathway, pyruvate orthophosphate dikinase (PPDK), which is regulated by a bifunctional enzyme, Regulatory Protein (RP). The robust mechanism is based on avidity of the bifunctional enzyme RP to its multimeric substrate PPDK, and on a product-inhibition feedback loop that couples the system output to the activity of the bifunctional regulator. The model provides an explanation for several unusual biochemical characteristics of the system and predicts that the system's output, phosphoenolpyruvate (PEP) formation rate, is insensitive to fluctuations in enzyme levels (PPDK and RP), substrate levels (ATP and pyruvate) and the catalytic rate of PPDK, while remaining sensitive to the system's input (light levels). Conclusions The presented PPDK mechanism is a new way to achieve robustness using product inhibition as a feedback loop on a bifunctional regulatory enzyme. This mechanism exhibits robustness to protein and metabolite levels as well as to catalytic rate changes. At the same time, the output of the system remains tuned to input levels. PMID:22024416

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

    PubMed

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

    2015-07-01

    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

  5. 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

  6. 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

  7. 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

  8. 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.

  9. Will elevated carbon dioxide concentration amplify the benefits of nitrogen fixation in legumes?

    SciTech Connect

    Rogers, A.; Ainsworth, E. A.; Leakey, A. D. B.

    2009-11-01

    Growth at elevated [CO{sub 2}] stimulates photosynthesis and increases carbon (C) supply in all C3 species. A sustained and maximal stimulation in productivity at elevated [CO{sub 2}] requires an enhanced nutrient supply to match the increase in C acquisition. The ability of legumes to exchange C for nitrogen (N) with their N{sub 2}-fixing symbionts has led to the hypothesis that legumes will have a competitive advantage over nonleguminous species when grown at elevated [CO{sub 2}]. On balance, evidence suggests that in managed systems, legumes are more responsive to elevated [CO{sub 2}] than other plants (e.g. Ainsworth and Long, 2005); however, in natural ecosystems, nutrient availability can limit the response of legumes to elevated [CO{sub 2}] (Hungate et al., 2004; van Groenigen et al., 2006). Here, we consider these observations, outline the mechanisms that underlie them, and examine recent work that advances our understanding of how legumes respond to growth at elevated [CO{sub 2}]. First we highlight the global importance of legumes and provide a brief overview of the symbiotic relationship.

  10. Kinetics and Apparent K(m) of Oxygen Cycle under Conditions of Limiting Carbon Dioxide Fixation.

    PubMed

    Radmer, R; Kok, B; Ollinger, O

    1978-06-01

    A mass spectrometer with a membrane inlet was used to monitor light-driven O(2) evolution, O(2) uptake, and CO(2) uptake in suspensions of algae (Scenedesmus obliquus). We observed the following. (a) The rate of O(2) uptake, which, in the presence of iodoacetamide, replaces the uptake of CO(2), showed a distinct plateau (V(max)) beyond approximately 30% O(2) and was half-maximal at approximately 8% O(2). We concluded that this light-driven O(2) uptake process, which does not involve carbon compounds, is saturated at lower O(2) concentrations than are photorespiration and glycolate formation. (b) In the absence of inhibitor, O(2) evolution was relatively unaffected by the presence or absence of CO(2). During the course of CO(2) depletion, electron flow to CO(2) was replaced by an equivalent flow to O(2). (c) There was a distinct delay between the cessation of CO(2) uptake and the increase in O(2) uptake. We ascribe this delay to the transient utilization of another electron acceptor-possibly bicarbonate or another bound form of CO(2). PMID:16660425

  11. How sensitive are estimates of carbon fixation in agricultural models to input data?

    PubMed Central

    2012-01-01

    Background Process based vegetation models are central to understand the hydrological and carbon cycle. To achieve useful results at regional to global scales, such models require various input data from a wide range of earth observations. Since the geographical extent of these datasets varies from local to global scale, data quality and validity is of major interest when they are chosen for use. It is important to assess the effect of different input datasets in terms of quality to model outputs. In this article, we reflect on both: the uncertainty in input data and the reliability of model results. For our case study analysis we selected the Marchfeld region in Austria. We used independent meteorological datasets from the Central Institute for Meteorology and Geodynamics and the European Centre for Medium-Range Weather Forecasts (ECMWF). Land cover / land use information was taken from the GLC2000 and the CORINE 2000 products. Results For our case study analysis we selected two different process based models: the Environmental Policy Integrated Climate (EPIC) and the Biosphere Energy Transfer Hydrology (BETHY/DLR) model. Both process models show a congruent pattern to changes in input data. The annual variability of NPP reaches 36% for BETHY/DLR and 39% for EPIC when changing major input datasets. However, EPIC is less sensitive to meteorological input data than BETHY/DLR. The ECMWF maximum temperatures show a systematic pattern. Temperatures above 20°C are overestimated, whereas temperatures below 20°C are underestimated, resulting in an overall underestimation of NPP in both models. Besides, BETHY/DLR is sensitive to the choice and accuracy of the land cover product. Discussion This study shows that the impact of input data uncertainty on modelling results need to be assessed: whenever the models are applied under new conditions, local data should be used for both input and result comparison. PMID:22296931

  12. Characterization of a Mesorhizobium loti alpha-type carbonic anhydrase and its role in symbiotic nitrogen fixation.

    PubMed

    Kalloniati, Chrysanthi; Tsikou, Daniela; Lampiri, Vasiliki; Fotelli, Mariangela N; Rennenberg, Heinz; Chatzipavlidis, Iordanis; Fasseas, Costas; Katinakis, Panagiotis; Flemetakis, Emmanouil

    2009-04-01

    Carbonic anhydrase (CA) (EC 4.2.1.1) is a widespread enzyme catalyzing the reversible hydration of CO(2) to bicarbonate, a reaction that participates in many biochemical and physiological processes. Mesorhizobium loti, the microsymbiont of the model legume Lotus japonicus, possesses on the symbiosis island a gene (msi040) encoding an alpha-type CA homologue, annotated as CAA1. In the present work, the CAA1 open reading frame from M. loti strain R7A was cloned, expressed, and biochemically characterized, and it was proven to be an active alpha-CA. The biochemical and physiological roles of the CAA1 gene in free-living and symbiotic rhizobia were examined by using an M. loti R7A disruption mutant strain. Our analysis revealed that CAA1 is expressed in both nitrogen-fixing bacteroids and free-living bacteria during growth in batch cultures, where gene expression was induced by increased medium pH. L. japonicus plants inoculated with the CAA1 mutant strain showed no differences in top-plant traits and nutritional status but consistently formed a higher number of nodules exhibiting higher fresh weight, N content, nitrogenase activity, and delta(13)C abundance. Based on these results, we propose that although CAA1 is not essential for nodule development and symbiotic nitrogen fixation, it may participate in an auxiliary mechanism that buffers the bacteroid periplasm, creating an environment favorable for NH(3) protonation, thus facilitating its diffusion and transport to the plant. In addition, changes in the nodule delta(13)C abundance suggest the recycling of at least part of the HCO(3)(-) produced by CAA1. PMID:19218391

  13. 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

  14. 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. PMID:27467757

  15. Insights into the autotrophic CO2 fixation pathway of the archaeon Ignicoccus hospitalis: comprehensive analysis of the central carbon metabolism.

    PubMed

    Jahn, Ulrike; Huber, Harald; Eisenreich, Wolfgang; Hügler, Michael; Fuchs, Georg

    2007-06-01

    Ignicoccus hospitalis is an autotrophic hyperthermophilic archaeon that serves as a host for another parasitic/symbiotic archaeon, Nanoarchaeum equitans. In this study, the biosynthetic pathways of I. hospitalis were investigated by in vitro enzymatic analyses, in vivo (13)C-labeling experiments, and genomic analyses. Our results suggest the operation of a so far unknown pathway of autotrophic CO(2) fixation that starts from acetyl-coenzyme A (CoA). The cyclic regeneration of acetyl-CoA, the primary CO(2) acceptor molecule, has not been clarified yet. In essence, acetyl-CoA is converted into pyruvate via reductive carboxylation by pyruvate-ferredoxin oxidoreductase. Pyruvate-water dikinase converts pyruvate into phosphoenolpyruvate (PEP), which is carboxylated to oxaloacetate by PEP carboxylase. An incomplete citric acid cycle is operating: citrate is synthesized from oxaloacetate and acetyl-CoA by a (re)-specific citrate synthase, whereas a 2-oxoglutarate-oxidizing enzyme is lacking. Further investigations revealed that several special biosynthetic pathways that have recently been described for various archaea are operating. Isoleucine is synthesized via the uncommon citramalate pathway and lysine via the alpha-aminoadipate pathway. Gluconeogenesis is achieved via a reverse Embden-Meyerhof pathway using a novel type of fructose 1,6-bisphosphate aldolase. Pentosephosphates are formed from hexosephosphates via the suggested ribulose-monophosphate pathway, whereby formaldehyde is released from C-1 of hexose. The organism may not contain any sugar-metabolizing pathway. This comprehensive analysis of the central carbon metabolism of I. hospitalis revealed further evidence for the unexpected and unexplored diversity of metabolic pathways within the (hyperthermophilic) archaea. PMID:17400748

  16. 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

  17. 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...

  18. 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

  19. 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. PMID:26317530

  20. 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

  1. 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. PMID:24450598

  2. Chloride mass balance to quantify the wastewater impact on karstified carbonate aquifers

    NASA Astrophysics Data System (ADS)

    Schmidt, S.; Nuseibeh, M.; Geyer, T.; Abdelghafour, D.; Al-Naji, G.; Bsharat, J.; Sawalhi, B.; Guttman, J.; Sauter, M.

    2012-04-01

    Groundwater resources are vulnerable to anthropogenic influences, like i.e. wastewater disposal in the environment. This is especially critical in karstified carbonate aquifers, because of the partially high flow velocities, resulting in an insufficient attenuation potential against pollutants. To assess the health risk associated with the pollution of the groundwater and for remediation measures planning, the wastewater impact on groundwater resources needs to be quantified. For this purpose the analysis of conservative tracer substances, abundant in the wastewater, is considered a suitable technique. Among the substances considered as tracers, chloride exhibits superior characteristics, the only drawback being the usually high natural background concentration in groundwater. As the chloride ion is not removed by common wastewater treatment processes, it is indicative of both treated and untreated wastewater. In this study, an example for a semi-arid karstified carbonate aquifer system is presented. The study area is located on the western margin of the Lower Jordan Valley (West Bank). The upper aquifer is discharged via several springs. For the springs in the study area, time series of chloride concentration in spring water from 1967-98 were interpreted. The study area displays a high population growth, which results in a steadily increasing wastewater discharge amount. The wastewater is mostly infiltrating into the karst system. First, the long-term average groundwater recharge rate of the local aquifers that fed the springs was quantified with the chloride mass balance method from groundwater data that are little influenced by anthropogenic impacts. The chloride concentration in the local precipitation is 9-10 mg/l and the average value in groundwater is 31 mg/l. This yields a mean recharge rate of around 30 percent. Second, the fraction of groundwater recharge, resulting from the infiltration of wastewater from leaky sewer systems and from wastewater disposal

  3. Quantifying uranium complexation by groundwater dissolved organic carbon using asymmetrical flow field-flow fractionation

    NASA Astrophysics Data System (ADS)

    Ranville, James F.; Hendry, M. Jim; Reszat, Thorsten N.; Xie, Qianli; Honeyman, Bruce D.

    2007-05-01

    The long-term mobility of actinides in groundwaters is important for siting nuclear waste facilities and managing waste-rock piles at uranium mines. Dissolved organic carbon (DOC) may influence the mobility of uranium, but few field-based studies have been undertaken to examine this in typical groundwaters. In addition, few techniques are available to isolate DOC and directly quantify the metals complexed to it. Determination of U-organic matter association constants from analysis of field-collected samples compliments laboratory measurements, and these constants are needed for accurate transport calculations. The partitioning of U to DOC in a clay-rich aquitard was investigated in 10 groundwater samples collected between 2 and 30 m depths at one test site. A positive correlation was observed between the DOC (4-132 mg/L) and U concentrations (20-603 μg/L). The association of U and DOC was examined directly using on-line coupling of Asymmetrical Flow Field-Flow Fractionation (AsFlFFF) with UV absorbance (UVA) and inductively coupled plasma-mass spectrometer (ICP-MS) detectors. This method has the advantages of utilizing very small sample volumes (20-50 μL) as well as giving molecular weight information on U-organic matter complexes. AsFlFFF-UVA results showed that 47-98% of the DOC (4-136 mg C/L) was recovered in the AsFlFFF analysis, of which 25-64% occurred in the resolvable peak. This peak corresponded to a weight-average molecular weight of about 900-1400 Daltons (Da). In all cases, AsFlFFF-ICP-MS suggested that ≤ 2% of the U, likely present as U(VI), was complexed with the DOC. This result was in good agreement with the U speciation modeling performed on the sample taken from the 2.3 m depth, which predicted approximately 3% DOC-complexed U. This good agreement suggests that the AsFlFFF-ICP-MS method may be very useful for determining U-organic matter association in small volume samples. Because the pH (7.0-8.1) and carbonate concentrations of these waters

  4. Quantifying Carbon-14 for Biology Using Cavity Ring-Down Spectroscopy.

    PubMed

    McCartt, A Daniel; Ognibene, Ted J; Bench, Graham; Turteltaub, Kenneth W

    2016-09-01

    A cavity ring-down spectroscopy (CRDS) instrument was developed using mature, robust hardware for the measurement of carbon-14 in biological studies. The system was characterized using carbon-14 elevated glucose samples and returned a linear response up to 387 times contemporary carbon-14 concentrations. Carbon-14 free and contemporary carbon-14 samples with varying carbon-13 concentrations were used to assess the method detection limit of approximately one-third contemporary carbon-14 levels. Sources of inaccuracies are presented and discussed, and the capability to measure carbon-14 in biological samples is demonstrated by comparing pharmacokinetics from carbon-14 dosed guinea pigs analyzed by both CRDS and accelerator mass spectrometry. The CRDS approach presented affords easy access to powerful carbon-14 tracer techniques that can characterize complex biochemical systems. PMID:27458740

  5. Relationship of photosynthetic carbon fixation with environmental changes in the Jiulong River estuary of the South China Sea, with special reference to the effects of solar UV radiation.

    PubMed

    Li, Gang; Gao, Kunshan; Yuan, Dongxing; Zheng, Ying; Yang, Guiyuan

    2011-08-01

    Phytoplankton cells in estuary waters usually experience drastic changes in chemical and physical environments due to mixing of fresh and seawaters. In order to see their photosynthetic performance in such dynamic waters, we measured the photosynthetic carbon fixation by natural phytoplankton assemblages in the Jiulong River estuary of the South China Sea during April 24-26 and July 24-26 of 2008, and investigated its relationship with environmental changes in the presence or the absence of UV radiation. Phytoplankton biomass (Chl a) decreased sharply from the river-mouth to seawards (17.3-2.1 μg L(-1)), with the dominant species changed from chlorophytes to diatoms. The photosynthetic rate based on Chl a at noon time under PAR-alone increased from 1.9 μg C (μg Chl a)(-1) L(-1) in low salinity zone (SSS<10) to 12.4 μg C (μg Chl a)(-1) L(-1) in turbidity front (SSS within 10-20), and then decreased to 2.1 μg C (μg Chl a)(-1) L(-1) in mixohaline zone (SSS>20); accordingly, the carbon fixation per volume of seawater increased from 12.8 to 149 μg C L(-1) h(-1), and decreased to 14.3 μg C L(-1) h(-1). Solar UVR caused the inhibition of carbon fixation in surface water of all the investigated zones, by 39% in turbidity area and 7-10% in freshwater or mixohaline zones. In the turbidity zone, higher availability of CO2 could have enhanced the photosynthetic performance; while osmotic stress might be responsible for the higher sensitivity of phytoplankton assemblages to solar UV radiation. PMID:21714975

  6. Effects of femoral component material properties on cementless fixation in total hip arthroplasty. A comparison study between carbon composite, titanium alloy, and stainless steel.

    PubMed

    Otani, T; Whiteside, L A; White, S E; McCarthy, D S

    1993-02-01

    Carbon-fiber-reinforced-carbon composite material is an attractive implant material because its modulus of elasticity can be made similar to that of cortical bone. This study investigated the effect of femoral prosthesis elastic modulus on cementless implant fixation. Distal, as well as proximal, relative micromovements between implant and bone were measured in two testing protocols (axial-load and torsional-load), comparing identically shaped carbon composite (modulus of elasticity = 18.6 GPa), Ti6Al4V (100 GPa), and 630 stainless steel (200 GPa) prostheses. In the axial-load test, proximal mediolateral micromotions were significantly larger in the flexible composite stem than in the two metals. In the torsional-load test, rotational micromotions and "slop" displacements in the flexible stem were significantly larger proximally and significantly smaller distally than in the two metals. While these results suggest that proximal stress transfer may be improved by a flexible stem, they raise the possibility of increased proximal micromotion, and suggest that improved proximal fixation may be necessary to achieve clinical success with flexible composite femoral components. PMID:8436992

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

    DOE PAGESBeta

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

    2015-01-07

    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 fatemore » 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 local emissions only contribute about 10% to

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

    DOE PAGESBeta

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

    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

  9. 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

  10. 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.

  11. 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

  12. 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

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

    PubMed

    Godaux, Damien; Bailleul, Benjamin; Berne, Nicolas; Cardol, Pierre

    2015-06-01

    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

  14. Quantifying the metabolic contribution to δ13C of shell carbonate of Arctica islandica: an experimental calibration

    NASA Astrophysics Data System (ADS)

    Beirne, E. C.; Wanamaker, A. D.

    2010-12-01

    The stable isotopic composition of dissolved inorganic carbon of seawater (δ13CDIC) can provide a powerful means to investigate atmospheric and oceanic carbon dynamics. Records of past δ13CDIC values of seawater, especially from the extratropical oceans, are needed to better understand how recent climate change and anthropogenic activity (namely fossil fuel emissions) have impacted the global carbon cycle. However, long-term reconstructions of marine δ13CDIC are limited (both spatially and temporally) by a lack of suitable proxy archives, which have undergone a rigorous calibration process. Marine mollusks represent a potential δ13CDIC archive given that the primary source of carbon to their shell material is ambient dissolved inorganic carbon. However, interpretation of this archive is confounded by the additional contribution of respired (or metabolic) carbon to the carbon isotope ratio of shell material (δ13Cshell). Although theoretical models predict that less than 10% of δ13Cshell of marine mollusks is attributable to metabolic carbon, several studies have reported significantly larger contributions of respired carbon (CM) to shell material depending upon the species in question, and in some cases, ontogenetic age. Therefore, species-specific calibrations must be conducted to establish metabolic contribution to δ13Cshell at different stages of ontogeny. The central objective of this study was to quantify the metabolic contribution to the shell carbonate of Arctica islandica L., juveniles and adults, to determine the viability of this species as a paleo-δ13CDIC archive. Results will be presented from an 8-month experimental calibration between δ13CDIC and δ13Cshell of the species Arctica islandica. Adults (25 to 55 years old) and juveniles (<3 years old) were collected and cultured in the Gulf of Maine, both in situ and in the laboratory environment. Relatively high growth rates in juveniles (>1mm/month) allowed for the measurement of three distinct

  15. Quantifying Sequestration of Carbon in the Ocean following Addition of Macronutrient

    NASA Astrophysics Data System (ADS)

    Harrison, D. P.; Lawrence, M. W.

    2011-12-01

    The effects of addition of limiting nutrients to the surface waters of the deep ocean has been investigated for the last twenty years, partly to explore ocean biogeochemical processes and partly because of the potential for sequestration of carbon in the deep ocean. Investigations have been performed for micronutrients (iron) and macronutrients (nitrogen and phosphorous). A methodology of estimating carbon stored is introduced here based on fertilization with nitrogen in those regions in which nitrogen is the limiting nutrient. The basis of the methodology is a combination of measurements in the photic zone and numerical modelling of the biogeochemical cycle. The calculation of the quantity of sequestered carbon is, after allowance for losses, equal to the carbon that is taken up by photosynthesis (new primary production equals export production) resulting from the added nitrogen. An essential feature of the biogeochemical process is that the added nitrogen is not lost from the upper waters by export to the deep ocean unless accompanied by carbon, in approximately the Redfield ratio. Determination of the quantity of carbon sequestered consists of three steps: (1.) Determination of the quantity of carbon converted by photosynthesis to biological form (new primary production). (2.) Allowance for factors potentially affecting carbon sequestration, such as: Loss of reactive nitrogen from the ocean; Greenhouse Gas (GHG) production by photosynthesis; GHG production by denitrification; GHG production following upwelling; Air-sea carbon transfer efficiency; Calcium carbonate production; Alkalinity change; and Respiration. (3.) Allowance for carbon dioxide released to the atmosphere during the manufacture and transport processes involved in providing added nutrients to the ocean. With these three steps, the net quantity of carbon sequestered by fertilisation may be determined.

  16. 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.

  17. 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.

  18. Quantifying and Reducing Climate-Carbon Cycle Feedback Uncertainties: Analysis of CMIP5 Earth System Model Feedbacks

    NASA Astrophysics Data System (ADS)

    Hoffman, F. M.; Randerson, J. T.

    2011-12-01

    Increasing atmospheric carbon dioxide (CO2) concentrations, resulting from anthropogenic perturbation of the global carbon cycle, are altering the Earth's climate. Climate change is expected to induce feedbacks on future CO2 concentrations and on the climate system itself. These feedbacks are highly uncertain, potentially large, and difficult to predict using Earth System Models (ESMs). In order to reduce the range of uncertainty in climate predictions, model representation of feedbacks must be improved through comparisons with contemporary observations. In this study, we quantify the terrestrial and ocean carbon storage sensitivity to climate and atmospheric CO2 concentration of ESMs participating in the Climate Model Intercomparison Project Phase 5 (CMIP5) following the methodology of Friedlingstein et al. (2006). In order to evaluate the models' abilities to capture the 21st century carbon cycle and to offer possible constraints on the modeled feedback strengths, comparisons with contemporary observations will be made over three different time scales: seasonal to annual, interannual to decadal, and decadal to centennial. A conceptual framework for evaluating climate-carbon cycle feedbacks in global models--employing best-available observational data--will be presented, along with results from application of this framework to CMIP5 model output. Included in the analysis will be prototype model evaluation benchmarks of the carbon cycle being designed for the International Land Model Benchmarking (ILAMB) Project.

  19. Quantifying ecosystem carbon losses and gains following development in New England: A combined field, modeling, and remote sensing approach

    NASA Astrophysics Data System (ADS)

    Raciti, S. M.; Hutyra, L.; Briber, B. M.; Dunn, A. L.; Friedl, M. A.; Woodcock, C.; Zhu, Z.; Olofsson, P.

    2013-12-01

    If current trends continue, the world's urban population may double and urban land area may quadruple over the next 50 years. Despite the rapid expansion of urban areas, the trajectories of carbon losses and gains following development remain poorly quantified. We are using a combination of field measurements, modeling, and remote sensing to advance our ability to measure and monitor trajectories of ecosystem carbon over space and time. To characterize how carbon stocks change across urban-to-rural gradients, we previously established field plots to survey live and dead tree biomass, tree canopy, soil and foliar carbon and nitrogen concentrations, and a range of landscape characteristics (Raciti et al. 2012). In 2013, we extended our field sampling to focus specifically on places that experienced land use and land cover change over the past 35 years. This chronosequence approach was informed by Landsat time series (1982-present) and property records (before 1982). The Landsat time series approach differs from traditional remote-sensing-based land use change detection methods because it leverages the entire Landsat archive of imagery using a Fourier fitting approach (Zhu et al. 2012). The result is a temporally and spatially continuous map of land use and land cover change across the study region. We used these field and remote sensing data to inform a carbon bookkeeping model that estimates changes in past and potential future carbon stocks over time. Here we present preliminary results of this work for eastern Massachusetts.

  20. 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...

  1. Prairie restoration and carbon sequestration: difficulties quantifying C sources and sinks using a biometric approach.

    PubMed

    Cahill, Kimberly Nicholas; Kucharik, Christopher J; Foley, Jonathan A

    2009-12-01

    We investigated carbon cycling and ecosystem characteristics among two prairie restoration treatments established in 1987 and adjacent cropland, all part of the Conservation Reserve Program in southwestern Wisconsin, USA. We hypothesized that different plant functional groups (cool-season C3 vs. warm-season C4 grasses) between the two prairie restoration treatments would lead to differences in soil and vegetation characteristics and amount of sequestered carbon, compared to the crop system. We found significant (P < 0.05) differences between the two prairie restoration treatments in soil CO2 respiration and above- and belowground productivity, but no significant differences in long-term (approximately 16-year) carbon sequestration. We used a biometric approach aggregating short-term observations of above- and belowground productivity and CO2 respiration to estimate total net primary production (NPP) and net ecosystem production (NEP) using varied methods suggested in the literature. Net ecosystem production is important because it represents the ecosystem carbon sequestration, which is of interest to land managers and policymakers seeking or regulating credits for ecosystem carbon storage. Such a biometric approach would be attractive because it might offer the ability to rapidly assess the carbon source/sink status of an ecosystem. We concluded that large uncertainties in (1) estimating aboveground NPP, (2) determining belowground NPP, and (3) partitioning soil respiration into microbial and plant components strongly affect the magnitude, and even the sign, of NEP estimates made from aggregating its components. A comparison of these estimates across treatments could not distinguish differences in NEP, nor the absolute sign of the overall carbon balance. Longer-term quantification of carbon stocks in the soil, periodically linked to measurements of individual processes, may offer a more reliable measure of the carbon balance in grassland systems, suitable for

  2. 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...

  3. Quantifying and timing of long-term carbonate mobilisation in a limestone aquifer

    NASA Astrophysics Data System (ADS)

    Kirstein, J.; Gaupp, R.

    2012-04-01

    Carbonate dissolution during weathering, its intermediate storage by reprecipitation, and/or final export to the sea are major components in the global carbon cycle. The Thuringian Basin in the central part of Germany exposes deposits of the German Triassic Muschelkalk sequence consisting of limestone and dolostone beds. Partial dissolution, oxidation and iron redistribution is obvious in limestones along the slopes of the middle Saale river valley. These features are most prominent close to a Mid Quaternary valley floor (Elster terrace). They decrease down-section following fractures in homogeneous micritic limestones of the Lower Muschelkalk (Jena Formation), and reach a minimum close to the present groundwater table. It implies a discontinuous vertical migration of the groundwater table close to the valley slopes, spanning >700 ka of valley incision, and a coeval increase of oxidative weathering of sulfides and organic matter in the micritic carbonate. The recharging groundwater carries dissolved and particulate organic matter from the soil into fractures and pores. Microbial community oxidizes the organic material by using O2 that diffuses in from atmosphere. Due to the dissolved CO2 the water is undersaturated concerning carbonate minerals. The fissures enlarge by the water dissolving the limestones. The working hypothesis suggests the maximum of carbonate dissolution and descendant export within the vadose zone. Material export is supposed to occur dependant on climatic variations with microbial mediation in both dissolution and transient reprecipitation. Furthermore, the study area has the important advantage that the timing of the 100 m migration of the ground water table has a good age control due to topographic dating of terrace formation. Key aspects of this study are the quantification of long-term telodiagenetic transformations of the limestones, the timing of the involved processes and the analysis of current carbon fluxes both surface and subsurface

  4. Quantifying Fast and Slow Responses of Terrestrial Carbon Exchange across a Water Availability Gradient in North American Flux Sites

    NASA Astrophysics Data System (ADS)

    Biederman, J. A.; Scott, R. L.; Goulden, M.

    2014-12-01

    Climate change is predicted to increase the frequency and severity of water limitation, altering terrestrial ecosystems and their carbon exchange with the atmosphere. Here we compare site-level temporal sensitivity of annual carbon fluxes to interannual variations in water availability against cross-site spatial patterns over a network of 19 eddy covariance flux sites. This network represents one order of magnitude in mean annual productivity and includes western North American desert shrublands and grasslands, savannahs, woodlands, and forests with continuous records of 4 to 12 years. Our analysis reveals site-specific patterns not identifiable in prior syntheses that pooled sites. We interpret temporal variability as an indicator of ecosystem response to annual water availability due to fast-changing factors such as leaf stomatal response and microbial activity, while cross-site spatial patterns are used to infer ecosystem adjustment to climatic water availability through slow-changing factors such as plant community and organic carbon pools. Using variance decomposition, we directly quantify how terrestrial carbon balance depends on slow- and fast-changing components of gross ecosystem production (GEP) and total ecosystem respiration (TER). Slow factors explain the majority of variance in annual net ecosystem production (NEP) across the dataset, and their relative importance is greater at wetter, forest sites than desert ecosystems. Site-specific offsets from spatial patterns of GEP and TER explain one third of NEP variance, likely due to slow-changing factors not directly linked to water, such as disturbance. TER and GEP are correlated across sites as previously shown, but our site-level analysis reveals surprisingly consistent linear relationships between these fluxes in deserts and savannahs, indicating fast coupling of TER and GEP in more arid ecosystems. Based on the uncertainty associated with slow and fast factors, we suggest a framework for improved

  5. Response of cbb gene transcription levels of four typical sulfur-oxidizing bacteria to the CO2 concentration and its effect on their carbon fixation efficiency during sulfur oxidation.

    PubMed

    Wang, Ya-Nan; Wang, Lei; Tsang, Yiu Fai; Fu, Xiaohua; Hu, Jiajun; Li, Huan; Le, Yiquan

    2016-10-01

    The variability in carbon fixation capability of four sulfur-oxidizing bacteria (Thiobacillus thioparus DSM 505, Halothiobacillus neapolitanus DSM 15147, Starkeya novella DSM 506, and Thiomonas intermedia DSM 18155) during sulfur oxidation was studied at low and high concentrations of CO2. The mechanism underlying the variability in carbon fixation was clarified by analyzing the transcription of the cbb gene, which encodes the key enzyme ribulose-1,5-bisphosphate carboxylase/oxygenase. DSM 15147 and DSM 505 fixed carbon more efficiently during sulfur oxidation than DSM 506 and DSM 18155 at 0.5% and 10% CO2, which was mainly because their cbb gene transcription levels were much higher than those of DSM 506 and DSM 18155. A high CO2 concentration significantly stimulated the carbon fixation efficiency of DSM 505 by greatly increasing the cbb gene transcription efficiency. Moreover, the influence of the CO2 concentration on the carbon fixation efficiency of the four strains differed greatly during sulfur oxidation. PMID:27542742

  6. Quantifying the effects of soil drainage on carbon storage in boreal soils

    NASA Astrophysics Data System (ADS)

    Pruett, L. E.; Czimczik, C. I.; Harden, J. W.; Trumbore, S.

    2006-12-01

    The accumulation of terrestrial carbon in boreal soils happens predominately in the organic layers and is determined by biological processes. It is, however, strongly influenced by environmental conditions such as perennially cold temperatures and high moisture content. Net primary productivity (NPP) and decomposition, along with fire regimes and the chemical composition of the organic matter, also play a role in determining organic stocks. Carbon stocks in these organic soils usually increase as soil drainage capability lessens due to the suppression of decomposition caused by cool temperatures and a lack of oxygen, as well as a lower risk of loss from fire. Climate change can potentially alter all of these factors and so it is important to understand the current mechanisms for carbon storage in northern ecosystems and the vulnerability of these stores to an altered climate. In this study, we compared paired moderately well- and poorly-drained black spruce stands that burned in 1964, 1930, or 1850 to investigate whether site differences in drainage and temperature were largely responsible for higher carbon storage in the poorly-drained sites. These sites were located within the BOREAS Northern Study area near Thompson, Manitoba, Canada. For all sites, the organic soil layers at the poorly drained stands were on average warmer (0.71 to 2.01 ° C) during the growing season (May September) than the moderately well-drained stands. The average temperature of the organic soil during the winter and the mineral soil (both seasons) showed no consistent trends. At all sites, the largest proportion of carbon was present in the organic layers overlying the mineral soil. In both poorly- and moderately well-drained sites, carbon stocks in the upper 20 cm of the soil increased with time since fire to a maximum of about 1.86 g C cm-2 at the 1850 burn. Organic layers were also thicker and carbon stocks were larger at the poorly-, versus moderately well-drained, sites. There was no

  7. 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

  8. Reduced Carbon Availability to Bacteroids and Elevated Ureides in Nodules, But Not in Shoots, Are Involved in the Nitrogen Fixation Response to Early Drought in Soybean1[OA

    PubMed Central

    Ladrera, Rubén; Marino, Daniel; Larrainzar, Estíbaliz; González, Esther M.; Arrese-Igor, Cesar

    2007-01-01

    Nitrogen fixation (NF) in soybean (Glycine max L. Merr.) is highly sensitive to soil drying. This sensitivity has been related to an accumulation of nitrogen compounds, either in shoots or in nodules, and a nodular carbon flux shortage under drought. To assess the relative importance of carbon and nitrogen status on NF regulation, the responses to the early stages of drought were monitored with two soybean cultivars with known contrasting tolerance to drought. In the sensitive cultivar (‘Biloxi’), NF inhibition occurred earlier and was more dramatic than in the tolerant cultivar (‘Jackson’). The carbon flux to bacteroids was also more affected in ‘Biloxi’ than in ‘Jackson’, due to an earlier inhibition of sucrose synthase activity and a larger decrease of malate concentration in the former. Drought provoked ureide accumulation in nodules of both cultivars, but this accumulation was higher and occurred earlier in ‘Biloxi’. However, at this early stage of drought, there was no accumulation of ureides in the leaves of either cultivar. These results indicate that a combination of both reduced carbon flux and nitrogen accumulation in nodules, but not in shoots, is involved in the inhibition of NF in soybean under early drought. PMID:17720761

  9. Reduced carbon availability to bacteroids and elevated ureides in nodules, but not in shoots, are involved in the nitrogen fixation response to early drought in soybean.

    PubMed

    Ladrera, Rubén; Marino, Daniel; Larrainzar, Estíbaliz; González, Esther M; Arrese-Igor, Cesar

    2007-10-01

    Nitrogen fixation (NF) in soybean (Glycine max L. Merr.) is highly sensitive to soil drying. This sensitivity has been related to an accumulation of nitrogen compounds, either in shoots or in nodules, and a nodular carbon flux shortage under drought. To assess the relative importance of carbon and nitrogen status on NF regulation, the responses to the early stages of drought were monitored with two soybean cultivars with known contrasting tolerance to drought. In the sensitive cultivar ('Biloxi'), NF inhibition occurred earlier and was more dramatic than in the tolerant cultivar ('Jackson'). The carbon flux to bacteroids was also more affected in 'Biloxi' than in 'Jackson', due to an earlier inhibition of sucrose synthase activity and a larger decrease of malate concentration in the former. Drought provoked ureide accumulation in nodules of both cultivars, but this accumulation was higher and occurred earlier in 'Biloxi'. However, at this early stage of drought, there was no accumulation of ureides in the leaves of either cultivar. These results indicate that a combination of both reduced carbon flux and nitrogen accumulation in nodules, but not in shoots, is involved in the inhibition of NF in soybean under early drought. PMID:17720761

  10. 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.

  11. Silver nanoparticles embedded over porous metal organic frameworks for carbon dioxide fixation via carboxylation of terminal alkynes at ambient pressure.

    PubMed

    Molla, Rostam Ali; Ghosh, Kajari; Banerjee, Biplab; Iqubal, Md Asif; Kundu, Sudipta K; Islam, Sk Manirul; Bhaumik, Asim

    2016-09-01

    Ag nanoparticles (NPs) has been supported over a porous Co(II)-salicylate metal-organic framework to yield a new nanocatalyst AgNPs/Co-MOF and it has been thoroughly characterized by powder X-ray diffraction (XRD), thermogravimetric analysis (TGA), energy dispersive X-ray spectrometry (EDX), high-resolution transmission electron microscopy (HR-TEM), UV-vis diffuse reflection spectroscopy (DRS) and N2 adsorption/desorption analysis. The AgNPs/Co-MOF material showed high catalytic activity in the carboxylation of terminal alkynes via CO2 fixation reaction to yield alkynyl carboxylic acids under very mild conditions. Due to the presence of highly reactive AgNPs bound at the porous MOF framework the reaction proceeded smoothly at 1atm CO2 pressure. Moreover, the catalyst is very convenient to handle and it can be reused for several reaction cycles without appreciable loss of catalytic activity in this CO2 fixation reaction, which suggested a promising future of AgNPs/Co-MOF nanocatalyst. PMID:27309859

  12. 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...

  13. METHOD TO QUANTIFY THE CARBON CYCLE OF FOREST BIOMES IN THE FORMER SOVIET UNION (EQUILIBRIUM ANALYSIS)

    EPA Science Inventory

    Human activities have caused a measurable increase in the atmospheric concentration of CO2 which is predicted to cause the earth's temperatures to rise and accelerate rates of plant respiration and the decay of organic matter, disrupting the equilibrium of the terrestrial carbon ...

  14. Quantifying dissolved organic carbon concentrations in upland catchments using phenolic proxy measurements

    NASA Astrophysics Data System (ADS)

    Peacock, Mike; Burden, Annette; Cooper, Mark; Dunn, Christian; Evans, Chris D.; Fenner, Nathalie; Freeman, Chris; Gough, Rachel; Hughes, David; Hughes, Steve; Jones, Tim; Lebron, Inma; West, Mike; Zieliński, Piotr

    2013-01-01

    SummaryConcentrations of dissolved organic carbon (DOC) in soil and stream waters in upland catchments are widely monitored, in part due to the potential of DOC to form harmful by-products when chlorinated during treatment of water for public supply. DOC can be measured directly, though this is expensive and time-consuming. Light absorbance in the UV-vis spectrum is often used as a surrogate measurement from which a colour-carbon relationship between absorbance and DOC can be derived, but this relationship can be confounded by numerous variables. Through the analysis of data from eight sites in England and Wales we investigate the possibility of using the concentration of phenolic compounds in water samples as a proxy for DOC concentration. A general model using data from all the sites allowed DOC to be calculated from phenolics at an accuracy of 81-86%. A detailed analysis at one site revealed that a site-specific calibration was more accurate than the general model, and that this compared favourably with a colour-carbon calibration. We therefore recommend this method for use where estimates of DOC concentration are needed, but where time and money are limiting factors, or as an additional method to calculate DOC alongside colour-carbon calibrations. Tests demonstrated only small amounts of phenolic degradation over time; a loss of 0.92 mg L-1 after 8 months in storage, and so this method can be used on older samples with limited loss of accuracy.

  15. 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.

  16. 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.

  17. 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.

  18. 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

  19. A New XRD Method to Quantify Plate and Lath Martensites of Hardened Medium-Carbon Steel

    NASA Astrophysics Data System (ADS)

    Luo, Quanshun

    2016-06-01

    This paper introduces a new technique to separately measure the volume fraction and tetragonal ratio of co-existing lath and plate martensites in ultrahigh strength steel, and to calculate their different carbon contents. First, the two martensites are assumed to have body-centered tetragonal lattice structures of different tetragonal ratios. X-ray diffraction is then applied to obtain the overlapping {200} diffraction peak, which is subsequently separated as four sub-peaks using a self-made multiple Gaussian peak-fitting method to allow the measurement of the individual lattice parameters c and a. Finally, a modified equation is applied to calculate the carbon contents from the obtained tetragonal ratios. The new technique is then applied to investigate the effect of subsequent tempering on the decarbonization of the as-quenched martensites.

  20. A New XRD Method to Quantify Plate and Lath Martensites of Hardened Medium-Carbon Steel

    NASA Astrophysics Data System (ADS)

    Luo, Quanshun

    2016-04-01

    This paper introduces a new technique to separately measure the volume fraction and tetragonal ratio of co-existing lath and plate martensites in ultrahigh strength steel, and to calculate their different carbon contents. First, the two martensites are assumed to have body-centered tetragonal lattice structures of different tetragonal ratios. X-ray diffraction is then applied to obtain the overlapping {200} diffraction peak, which is subsequently separated as four sub-peaks using a self-made multiple Gaussian peak-fitting method to allow the measurement of the individual lattice parameters c and a. Finally, a modified equation is applied to calculate the carbon contents from the obtained tetragonal ratios. The new technique is then applied to investigate the effect of subsequent tempering on the decarbonization of the as-quenched martensites.

  1. 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

  2. Quantifying the differences between Amazon forest biomass maps: uncertainty to be tackled in carbon emission estimates

    NASA Astrophysics Data System (ADS)

    Ometto, J.; Soler, L.; Assis, T.; Lapola, D.; Aguiar, A. P.; Meir, P.

    2012-12-01

    The current methods adopted to estimate the spatial variation on above- and below-ground biomass in tropical forests, in particular the Brazilian Amazon, are usually based on remote sensing and coupled with scarce and, generally poorly distributed fieldwork measurements. There are notable differences between the resulting published biomass maps and this results in high uncertainty in calculated carbon emissions from deforestation, forest degradation and other changes in the land cover. These uncertainties are particularly critical when biomass maps are coded into biomass classes referring to a specific range of values. The Brazilian Amazon is the largest continuous tropical broadleaf forest in the globe, containing a substantial amount of carbon above and below the soil surface. Analysis of land use change has shown that deforestation in the region is a patchy process, comprising different intensities and dynamics in separate and adjacent areas, such that even if when characterized by broad patterns estimates of carbon emissions can become a complicated task unless spatially accurate biomass maps are available. In this paper we analyze the differences in recently published biomass maps of the Amazon region, considering as well the official information used by the Brazilian government for its communication to the United Framework on Climate Change Convention of the United Nations. From the average biomass at deforestation areas in two different periods (1997 and 2006), maps varied from +20% to -19% in the first period and from +20% to -15% in the later, highlighting the substantial differences in the overall biomass estimate, with clear reflect on carbon emissions in the region.

  3. 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.

  4. 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. PMID:24064199

  5. 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

  6. 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).

  7. 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

  8. Quantifying uncertainties in soil carbon responses to changes in global mean temperature and precipitation

    NASA Astrophysics Data System (ADS)

    Nishina, K.; Ito, A.; Beerling, D. J.; Cadule, P.; Ciais, P.; Clark, D. B.; Falloon, P.; Friend, A. D.; Kahana, R.; Kato, E.; Keribin, R.; Lucht, W.; Lomas, M.; Rademacher, T. T.; Pavlick, R.; Schaphoff, S.; Vuichard, N.; Warszawaski, L.; Yokohata, T.

    2014-04-01

    Soil organic carbon (SOC) is the largest carbon pool in terrestrial ecosystems and may play a key role in biospheric feedbacks with elevated atmospheric carbon dioxide (CO2) in a warmer future world. We examined the simulation results of seven terrestrial biome models when forced with climate projections from four representative-concentration-pathways (RCPs)-based atmospheric concentration scenarios. The goal was to specify calculated uncertainty in global SOC stock projections from global and regional perspectives and give insight to the improvement of SOC-relevant processes in biome models. SOC stocks among the biome models varied from 1090 to 2650 Pg C even in historical periods (ca. 2000). In a higher forcing scenario (i.e., RCP8.5), inconsistent estimates of impact on the total SOC (2099-2000) were obtained from different biome model simulations, ranging from a net sink of 347 Pg C to a net source of 122 Pg C. In all models, the increasing atmospheric CO2 concentration in the RCP8.5 scenario considerably contributed to carbon accumulation in SOC. However, magnitudes varied from 93 to 264 Pg C by the end of the 21st century across biome models. Using the time-series data of total global SOC simulated by each biome model, we analyzed the sensitivity of the global SOC stock to global mean temperature and global precipitation anomalies (ΔT and ΔP respectively) in each biome model using a state-space model. This analysis suggests that ΔT explained global SOC stock changes in most models with a resolution of 1-2 °C, and the magnitude of global SOC decomposition from a 2 °C rise ranged from almost 0 to 3.53 Pg C yr-1 among the biome models. However, ΔP had a negligible impact on change in the global SOC changes. Spatial heterogeneity was evident and inconsistent among the biome models, especially in boreal to arctic regions. Our study reveals considerable climate uncertainty in SOC decomposition responses to climate and CO2 change among biome models. Further

  9. 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. PMID:26679897

  10. Quantifying Typhoon Impact on Net Carbon Ecosystem Exchange in a Sub-tropical Mangrove Ecosystem

    NASA Astrophysics Data System (ADS)

    Chen, H.; Lu, W.; Yan, G.; Yang, S.; Lin, G.

    2011-12-01

    Although typhoon is a natural disturbance for mangrove forests, research of typhoon impact on net carbon ecosystem exchange (NEE) of mangrove wetlands has not reached final conclusion. In this study we investigated possible effects of typhoons with different forces on the NEE of a subtropical mangrove forest in Fujian, China (117°23'E, 23°55'N). In 2010, Typhoon Lionrock, Fanapi and Megi made landfall with a speed of 23, 35 and 38 m s-1 near our mangrove field station in Zhangjiang Estuary National Mangrove Nature Reserve on September 2, September 20 and October 23, respectively. In October 2009, total of 16 litter traps and an eddy covariance system were instated at this field station. Litter production was monitored at the biweekly intervals while the NEE was measured continuously. The litter production and NEE values were compared before and after each typhoon landed. Strong winds and torrential rains from these typhoons caused the amount of litter production more than double over the same period a year before when there was no typhoon landing. Moreover, about 5~25% green leaves and twigs were found in the litter traps after the typhoons, indicating significant defoliation by the typhoons. Typhoon Lionrock and Fanapi did not significantly reduce NEE, while Typhoo Fanapi reduced gross ecosystem production (GEP) by about 12%. However, NEE was increased by Typhoon Megi, which resulted from lower daily ecosystem respiration (Re) following the typhoon. Our results indicate that, although theses typhoons caused significant defoliation, they had little effect on ecosystem carbon exchange over the short periods following the typhoons.

  11. Torsional moment to failure for carbon fibre polysulphone expandable rivets as compared with stainless steel screws for carbon fibre-reinforced epoxy fracture plate fixation.

    PubMed

    Sell, P J; Prakash, R; Hastings, G W

    1989-04-01

    A method of securing carbon fibre-reinforced epoxy bone plates with carbon fibre polysulphone expanding rivets was investigated. Six carbon fibre-reinforced epoxy bone plates were secured to rods with carbon fibre polysulphone rivets and six were secured with standard cortical stainless steel screws. These constructions were then subjected to pure torsional load to failure. The carbon fibre expandable rivets failed at a greater torsional moment. PMID:2720038

  12. 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.

  13. 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

  14. 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.

  15. 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.

  16. Improved field methods to quantify methane oxidation in landfill cover materials using stable carbon isotopes.

    PubMed

    Chanton, J P; Powelson, D K; Abichou, T; Hater, G

    2008-02-01

    Stable carbon isotopes provide a robust approach toward quantification of methanotrophic activity in landfill covers. The field method often applied to date has compared the delta13C of emitted to anaerobic zone CH4. Recent laboratory mass balance studies have indicated thatthis approach tends to underestimate CH4 oxidation. Therefore, we examined the CH4-delta13C at various soil depths in field settings and compared these values to emitted CH4. At 5-10 cm depth, we observed the most enrichment in CH4-delta13C (-46.0 to -32.1 per thousand). Emitted CH4-delta13C was more negative, ranging from -56.5 to -43.0 per thousand. The decrease in CH4-delta13C values from the shallow subsurface to the surface is the result of processes that result in selective emission of 12CH4 and selective retention of 13CH4 within the soil. Seasonal percent oxidation was calculated at seven sites representing four cover materials. Probe samples averaged greater (21 +/- 2%, p < 0.001, n = 7) oxidation than emitted CH4 data. We argue that calculations of fraction oxidized based on soil derived CH4 should yield upper limit values. When considered with emitted CH4 values, this combined approach will more realistically bracket the actual oxidation value. Following this guideline, we found the percent oxidation to be 23 +/- 3% and 38 +/- 16% for four soil and three compost covers, respectively. PMID:18323085

  17. 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.

  18. [Quantifying rice (Oryza sativa L.) photo-assimilated carbon input into soil organic carbon pools following continuous 14C labeling].

    PubMed

    Nie, San-An; Zhou, Ping; Ge, Ti-Da; Tong, Cheng-Li; Xiao, He-Ai; Wu, Jin-Shui; Zhang, Yang-Zhu

    2012-04-01

    The microcosm experiment was carried out to quantify the input and distribution of photo-assimilated C into soil C pools by using a 14C continuous labeling technique. Destructive samplings of rice (Oryza sativa) were conducted after labeling for 80 days. The allocation of 14C-labeled photosynthates in plants and soil C pools such as dissolved organic C (DOC) and microbial biomass C (MBC) in rice-planted soil were examined over the 14C labeling span. The amounts of rice shoot and root biomass C was ranged from 1.86 to 5.60 g x pot(-1), 0.46 to 0.78 g x pot(-1) in different tested paddy soils after labeling for 80 days, respectively. The amount of 14C in the soil organic C (14C-SOC) was also dependent on the soils, ranged from 114.3 to 348.2 mg x kg(-1), accounting for 5.09% to 6.62% of the rice biomass 14C, respectively. The amounts of 14C in the dissolved organic C (14C-DOC) and in the microbial biomass C(14C-MBC), as proportions of 14C-SOC, were 2.21%-3.54% and 9.72% -17.2%, respectively. The 14C-DOC, 14C-MBC, and 14C-SOC as proportions of total DOC, MBC, and SOC, respectively, were 6.72% -14.64%, 1.70% -7.67%, and 0.73% -1.99%, respectively. Moreover, the distribution and transformation of root-derived C had a greater influence on the dynamics of DOC and MBC than on the dynamics of SOC. Further studies are required to ascertain the functional significance of soil microorganisms (such as C-sequestering bacteria and photosynthetic bacteria) in the paddy system. PMID:22720588

  19. 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

  20. 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

  1. 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.

  2. 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

  3. Radiocarbon ( 14C) measurements to quantify sources of atmospheric carbon monoxide in urban air

    NASA Astrophysics Data System (ADS)

    Klouda, George A.; Connolly, Michael V.

    Atmospheric air samples were collected during the winter of 1989-1990 in Albuquerque, NM, U.S.A., for radiocarbon ( 14C) analysis of carbon monoxide (CO). An experimental sample design was prepared to target periods when the concentration of CO exceeds the 9 μl l-1 (volume fraction), 8 h National Ambient Air Quality Standard (NAAQS) and during periods of attainment. Sampling sites, time of day, sampling duration, and meteorology were carefully considered so that source impacts be optimal. A balanced sampling factorial design was used to yield maximum information from the constraints imposed; the number of samples was limited by the number of sample canisters available, time and resources. Radiocarbon measurements of urban CO, " clean-air" CO background from Niwot Ridge, Colorado, average (wood) logs and oxygenated-gasolines were used in a three-source model to calculate the contribution of wood burning to the total atmospheric CO burden in Albuquerque. Results show that the estimated fractional contribution of residential wood combustion (Θ' Rwc) ranged from 0 to 0.30 of CO concentrations corrected for " clean-air" background. For these same samples, the respective CO concentrations attributed to wood burning range from 0 to 0.90 μmol mol -1 (mole fraction), well below the NAAQS. In all cases, fossil CO is the predominant source of ambient CO concentrations ranging from 0.96 to 6.34 μmol mol -1 A final comment is made on the potential of fossil CO measurements as an indirect tracer of atmospheric benzene, relevant to exposure risk estimates of motor vehicle emissions and occupational health and safety standards.

  4. 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.

  5. 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

  6. Estimated stocks of circumpolar permafrost carbon with quantified uncertainty ranges and identified data gaps

    NASA Astrophysics Data System (ADS)

    Hugelius, G.; Strauss, J.; Zubrzycki, S.; Harden, J. W.; Schuur, E. A. G.; Ping, C.-L.; Schirrmeister, L.; Grosse, G.; Michaelson, G. J.; Koven, C. D.; O'Donnell, J. A.; Elberling, B.; Mishra, U.; Camill, P.; Yu, Z.; Palmtag, J.; Kuhry, P.

    2014-12-01

    Soils and other unconsolidated deposits in the northern circumpolar permafrost region store large amounts of soil organic carbon (SOC). This SOC is potentially vulnerable to remobilization following soil warming and permafrost thaw, but SOC stock estimates were poorly constrained and quantitative error estimates were lacking. This study presents revised estimates of permafrost SOC stocks, including quantitative uncertainty estimates, in the 0-3 m depth range in soils as well as for sediments deeper than 3 m in deltaic deposits of major rivers and in the Yedoma region of Siberia and Alaska. Revised estimates are based on significantly larger databases compared to previous studies. Despite this there is evidence of significant remaining regional data gaps. Estimates remain particularly poorly constrained for soils in the High Arctic region and physiographic regions with thin sedimentary overburden (mountains, highlands and plateaus) as well as for deposits below 3 m depth in deltas and the Yedoma region. While some components of the revised SOC stocks are similar in magnitude to those previously reported for this region, there are substantial differences in other components, including the fraction of perennially frozen SOC. Upscaled based on regional soil maps, estimated permafrost region SOC stocks are 217 ± 12 and 472 ± 27 Pg for the 0-0.3 and 0-1 m soil depths, respectively (±95% confidence intervals). Storage of SOC in 0-3 m of soils is estimated to 1035 ± 150 Pg. Of this, 34 ± 16 Pg C is stored in poorly developed soils of the High Arctic. Based on generalized calculations, storage of SOC below 3 m of surface soils in deltaic alluvium of major Arctic rivers is estimated as 91 ± 52 Pg. In the Yedoma region, estimated SOC stocks below 3 m depth are 181 ± 54 Pg, of which 74 ± 20 Pg is stored in intact Yedoma (late Pleistocene ice- and organic-rich silty sediments) with the remainder in refrozen thermokarst deposits. Total estimated SOC storage for the

  7. 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

  8. 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.

  9. 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

  10. 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. PMID:26397167

  11. Orthopedic prosthesis fixation.

    PubMed

    Park, J B

    1992-01-01

    The fixation of orthopedic implants has been one of the most difficult and challenging problems. The fixation can be achieved via: (a) direct mechanical fixation using screws, pins, wires, etc.; (b) passive or interference mechanical fixation where the implants are allowed to move or merely positioned onto the tissue surfaces; (c) bone cement fixation which is actually a grouting material; (d) biological fixation by allowing tissues to grow into the interstices of pores or textured surfaces of implants; (e) direct chemical bonding between implant and tissues; or (f) any combination of the above techniques. This article is concerned with various fixation techniques including the potential use of electrical, pulsed electromagnetic field, chemical stimulation using calcium phosphates for the enhancement of tissue ingrowth, direct bonding with bone by glass-ceramics and resorbable particle impregnated bone cement to take advantages of both the immediate fixation offered by the bone cement and long term fixation due to tissue ingrowth. PMID:1449228

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

    PubMed

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

    2016-12-01

    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. PMID:27365001

  13. Biological carbon fixation: A study of Isochrysis sp. growth under actual coal-fired power plant's flue gas

    NASA Astrophysics Data System (ADS)

    >Liyana Yahya, Muhammad Nazry Chik, Mohd Asyraf Mohd Azmir Pang,

    2013-06-01

    Preliminary study on the growth of marine microalgae Isochrysis sp. was carried out using actual flue gas from a coal-fired power station. The species was cultured using a 2×10-L customized bubble column photobioreactor skid under specified culture conditions. With an initial culture density of 0.459 Abs (optical density at 560 nm wavelength), the species was found able to survive - observed by increases in optical densities, number of cells and weights - in the presence of actual coal-fired flue gas containing on average 4.08 % O2, 200.21 mg/m3 SO2, 212.29 mg/m3 NOx, 4.73 % CO2 and 50.72 mg/m3 CO. Results thus add value to the potential and capability of microalgae, especially for Isochrysis sp., to be the biological carbon fixer in neutralizing carbon emissions from power plants.

  14. Involvement of Photosynthetic Carbon Reduction Cycle Intermediates in CO2 Fixation and O2 Evolution by Isolated Chloroplasts 1

    PubMed Central

    Schacter, Bernice; Eley, J. H.; Gibbs, Martin

    1971-01-01

    The photosynthetic carbon reduction cycle intermediates can be divided into three classes according to their effects on the rate of photosynthetic CO2 evolution by whole spinach (Spinacia oleracea) chloroplasts and on their ability to affect reversal of certain inhibitors (nigericin, arsenate, arsenite, iodoacetate, antimycin A) of photosynthesis: class I (maximal): fructose 1, 6-diphosphate, dihydroxyacetone phosphate, glyceraldehyde-3-phosphate, ribose-5-phosphate; class 2 (slight): glucose 6-phosphate, fructose 6-phosphate, ribulose-1, 5-diphosphate; class 3 (variable): glycerate 3-phosphate. While class 1 compounds influence the photosynthetic rate, they do not lower the Michaelis constant of the chloroplast for bicarbonate or affect strongly other photosynthetic properties such as the isotopic distribution pattern. It was concluded that the class 1 compounds influence the chloroplast by not only supplying components to the carbon cycle but also by activating or stabilizing a structural component of the chloroplast. PMID:16657865

  15. 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. PMID:26195601

  16. NifA- and CooA-Coordinated cowN Expression Sustains Nitrogen Fixation by Rhodobacter capsulatus in the Presence of Carbon Monoxide

    PubMed Central

    Hoffmann, Marie-Christine; Pfänder, Yvonne; Fehringer, Maria; Narberhaus, Franz

    2014-01-01

    Rhodobacter capsulatus fixes atmospheric dinitrogen via two nitrogenases, Mo- and Fe-nitrogenase, which operate under different conditions. Here, we describe the functions in nitrogen fixation and regulation of the rcc00574 (cooA) and rcc00575 (cowN) genes, which are located upstream of the structural genes of Mo-nitrogenase, nifHDK. Disruption of cooA or cowN specifically impaired Mo-nitrogenase-dependent growth at carbon monoxide (CO) concentrations still tolerated by the wild type. The cooA gene was shown to belong to the Mo-nitrogenase regulon, which is exclusively expressed when ammonium is limiting. Its expression was activated by NifA1 and NifA2, the transcriptional activators of nifHDK. AnfA, the transcriptional activator of Fe-nitrogenase genes, repressed cooA, thereby counteracting NifA activation. CooA activated cowN expression in response to increasing CO concentrations. Base substitutions in the presumed CooA binding site located upstream of the cowN transcription start site abolished cowN expression, indicating that cowN regulation by CooA is direct. In conclusion, a transcription factor-based network controls cowN expression to protect Mo-nitrogenase (but not Fe-nitrogenase) under appropriate conditions. PMID:25070737

  17. If a Tree Dies in a Forest will it be Reflected in a Forest Carbon Inventory? Quantifying the Effect of Disturbance on U.S. Forest Carbon Stocks

    NASA Astrophysics Data System (ADS)

    Woodall, C. W.; Domke, G.; Westfall, J.; Perry, C.; Oswalt, C. M.; Smith, J.; Patel-Weynand, T.

    2011-12-01

    The Forest Inventory and Analysis (FIA) program of the U.S. Department of Agriculture Forest Service is charged with the responsibility of monitoring forest ecosystem attributes, such as carbon (C) stocks, across the U.S. Given the role of both natural and anthropocentric disturbance on forest C stocks across a range of spatial scales and intensity (e.g., stand-level canopy gaps to major hurricane), quantifying the statistical power of the FIA inventory to detect disturbance and resulting implications for climate change hypothesis testing and C cycle impacts is paramount. Our study evaluates the statistical power of the FIA inventory to detect C stock change, distribution of disturbance events over time, and implications for C accounting/dynamics.

  18. 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.

  19. 13C Metabolic Flux Analysis Identifies an Unusual Route for Pyruvate Dissimilation in Mycobacteria which Requires Isocitrate Lyase and Carbon Dioxide Fixation

    PubMed Central

    Beste, Dany J. V.; Bonde, Bhushan; Hawkins, Nathaniel; Ward, Jane L.; Beale, Michael H.; Noack, Stephan; Nöh, Katharina; Kruger, Nicholas J.; Ratcliffe, R. George; McFadden, Johnjoe

    2011-01-01

    Mycobacterium tuberculosis requires the enzyme isocitrate lyase (ICL) for growth and virulence in vivo. The demonstration that M. tuberculosis also requires ICL for survival during nutrient starvation and has a role during steady state growth in a glycerol limited chemostat indicates a function for this enzyme which extends beyond fat metabolism. As isocitrate lyase is a potential drug target elucidating the role of this enzyme is of importance; however, the role of isocitrate lyase has never been investigated at the level of in vivo fluxes. Here we show that deletion of one of the two icl genes impairs the replication of Mycobacterium bovis BCG at slow growth rate in a carbon limited chemostat. In order to further understand the role of isocitrate lyase in the central metabolism of mycobacteria the effect of growth rate on the in vivo fluxes was studied for the first time using 13C-metabolic flux analysis (MFA). Tracer experiments were performed with steady state chemostat cultures of BCG or M. tuberculosis supplied with 13C labeled glycerol or sodium bicarbonate. Through measurements of the 13C isotopomer labeling patterns in protein-derived amino acids and enzymatic activity assays we have identified the activity of a novel pathway for pyruvate dissimilation. We named this the GAS pathway because it utilizes the Glyoxylate shunt and Anapleurotic reactions for oxidation of pyruvate, and Succinyl CoA synthetase for the generation of succinyl CoA combined with a very low flux through the succinate – oxaloacetate segment of the tricarboxylic acid cycle. We confirm that M. tuberculosis can fix carbon from CO2 into biomass. As the human host is abundant in CO2 this finding requires further investigation in vivo as CO2 fixation may provide a point of vulnerability that could be targeted with novel drugs. This study also provides a platform for further studies into the metabolism of M. tuberculosis using 13C-MFA. PMID:21814509

  20. 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

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

    PubMed

    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 (NaH(13)CO(3) and NaH(14)CO(3)) in the presence of two different electron donors (Na(2)S(2)O(3) and Fe(2+)) and with radiolabelled organic compounds ((14)C-acetate and (3)H-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

  2. 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

  3. Gene regulation of carbon fixation, storage, and utilization in the diatom Phaeodactylum tricornutum acclimated to light/dark cycles.

    PubMed

    Chauton, Matilde Skogen; Winge, Per; Brembu, Tore; Vadstein, Olav; Bones, Atle M

    2013-02-01

    The regulation of carbon metabolism in the diatom Phaeodactylum tricornutum at the cell, metabolite, and gene expression levels in exponential fed-batch cultures is reported. Transcriptional profiles and cell chemistry sampled simultaneously at all time points provide a comprehensive data set on carbon incorporation, fate, and regulation. An increase in Nile Red fluorescence (a proxy for cellular neutral lipids) was observed throughout the light period, and water-soluble glucans increased rapidly in the light period. A near-linear decline in both glucans and lipids was observed during the dark period, and transcription profile data indicated that this decline was associated with the onset of mitosis. More than 4,500 transcripts that were differentially regulated during the light/dark cycle are identified, many of which were associated with carbohydrate and lipid metabolism. Genes not previously described in algae and their regulation in response to light were integrated in this analysis together with proposed roles in metabolic processes. Some very fast light-responding genes in, for example, fatty acid biosynthesis were identified and allocated to biosynthetic processes. Transcripts and cell chemistry data reflect the link between light energy availability and light energy-consuming metabolic processes. Our data confirm the spatial localization of processes in carbon metabolism to either plastids or mitochondria or to glycolysis/gluconeogenesis, which are localized to the cytosol, chloroplast, and mitochondria. Localization and diel expression pattern may be of help to determine the roles of different isoenzymes and the mining of genes involved in light responses and circadian rhythms. PMID:23209127

  4. Leaf-level gas exchange and scaling-up of forest understory carbon fixation rates with a ``patch-scale'' canopy model

    NASA Astrophysics Data System (ADS)

    Wedler, M.; Geyer, R.; Heindl, B.; Hahn, S.; Tenhunen, J. D.

    1996-03-01

    During the Hartheim experiment (HartX) 1992, conducted in the Upper Rhine Valley, Germany, we estimated water vapor flux from the understory by several methods as reported in Wedler et al. (this issue). We also examined the photosynthetic gas exchange of the dominant understory species Brachypodium pinnatum, Carex alba, and Carex flacca at the leaf level with an CO2/H2O porometer. A mechanisticallybased leaf gas exchange model was parameterized for these understory species and validated via the measured diurnal courses of carbon dioxide exchange. Leaf CO2 gas exchange was scaled-up to patch- and then to stand-level utilizing the leaf gas exchange model as a component of the canopy light interception/energy balance model GAS-FLUX, and by further considering variation in vegetation “patch-type” distribution, patch-specific spatial structure, patch-type leaf area index, and microclimate beneath the tree canopy. At patch-level, C. alba exhibited the lowest net CO2 uptake of ca. 75 mmol m-2 d-1 due to a low leaf-level photosynthetic capacity, whereas net CO2 fixation of B. pinnatum- and C. flacca-patches was approx. 178 and 184 mmol m-2 d-1, respectively. Highest CO2 uptake was estimated for mixed patches where B. pinnatum grew together with the sedge species C. alba or C. flacca. Scaling-up of leaf gas exchange to stand level resulted in an estimated average rate of total CO2 fixation by the graminoid understory patches of approximately 93 mmol m-2 d-1 during the HartX period. The conservative gas exchange behavior of C. alba at Hartheim and its apparent success in space capture seems to affect overall functioning of this pine forest ecosystem by limiting understory CO2 uptake. The CO2 uptake by the understory is approximately 20% of stand total CO2 uptake. CO2 uptake fluxes mirror the relative differences in water loss from the understory and crown layer during the HartX period. Comparative measurements indicate that understory vegetation in spruce and pine

  5. 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

  6. 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.

  7. 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.

  8. Quantifying Fossil Fuel Carbon Dioxide Emissions from Space: Fossil Fuel Data Assimilation System and Global Urban Emissions

    NASA Astrophysics Data System (ADS)

    Gurney, K. R.; Song, Y.; Asefi-Najafabady, S.; Rayner, P. J.

    2015-12-01

    The Fossil Fuel Data Assimilation System (FFDAS) quantifies fossil fuel carbon dioxide (CO2) emissions for the planet at a scale of 10 km hourly for the time period 1997-2012. FFDAS is based on the Kaya identity constrained by multiple ground and space-based observations. Among these are the DMSP nightlights, Landscan population, and the Ventus power plant database. We have recently downscaled the FFDAS version 2.0 to 1 km x 1 km resolution using nighlights. The finer spatial resolution allows for the examination of urban emissions across the planet. We take two approaches to examination of urban FFCO2 emissions. The first, utilizes named administrative boundaries combined with manual GIS identification (supported by LandSat and ISA) to identify the top emitting urban areas of the planet. We also utilize an urban land mask, without governmental boundary identification, to analyze all urban area by country across the planet. We perform multiple regression to identify key drivers and patterns. The results demonstrate the change in urban emissions during the last decade and assess the question of whether urban areas exhibit scaling properties vis a vis FFCO2 emissions.

  9. Application of stable isotope analysis to quantify the retention of eroded carbon in grass filters at the North Appalachian experimental watersheds.

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The entrapment of eroded soil organic carbon (SOC) in grass filters could affect watershed C export, but the magnitude of the process is poorly quantified. In order to assess the retention of eroded C in these settings, SOC stock was measured in grass buffers receiving runoff from cropped watersheds...

  10. 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

  11. 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. PMID:25647028

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

    PubMed Central

    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. PMID:26393517

  13. Quantifying the Amount of Bleeding and Associated Changes in Intra-Abdominal Pressure and Mean Airway Pressure in Patients Undergoing Lumbar Fixation Surgeries: A Comparison of Three Positioning Systems

    PubMed Central

    Gupta, Vikas; Abraham, Mary; Punetha, Pankaj; Bundela, Yashpal

    2016-01-01

    Study Design Prospective, randomised controlled, single centre study of 45 patients posted for two level lumbar fixation surgery in the prone position. Purpose To compare intra-abdominal pressure (IAP), mean airway pressure mean airway pressure and blood loss during the spine surgery in prone position using three different positioning systems. Overview of Literature Studies have correlated IAP with the amount of perioperative bleeding. However, IAP and airway pressures while assessing the bleeding comparing two or more prone positioning systems are unclear. Methods This prospective study was conducted on a cohort of 45 patients scheduled for two-level lumbar fixation. Patients were randomly allocated to a spine table, Wilson's frame, and thermomodulated pads. Bladder pressure as an indicator of IAP, mean and peak airway pressures, and blood loss were monitored. Results IAP increased whenever patient position was changed to prone .The increase in pressure was more in the Wilson's frame group but was statistically significant only on prolonged positioning. Adopting the prone position always increased the mean airway pressure, but the increased was significant only in the Wilson's frame group. Mean airway pressure decreased in the spine table group and was statistically significant. The blood loss in the spine table group was significantly less as compared to the other groups. Conclusions Positioning on a spine table results in less blood loss and low mean airway pressure. The Wilson's frame results in high IAP, increased mean airway pressure, and more blood loss. The thermomodulated frame increases mean airway pressure and produces a moderate increase in IAP and airway pressure. PMID:27114757

  14. 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

  15. Quantifying biological and atmospheric processes with in-situ measurements of carbon dioxide and water vapor isotopes (Invited)

    NASA Astrophysics Data System (ADS)

    Lee, X.

    2010-12-01

    The ability to make real-time, high-frequency measurements of CO2 and H2O isotopes in the atmosphere opens a new channel of scientific pursuit. The objectives of this paper are (1) to examine practical issues on using these measurements in biospheric and atmospheric research, and (2) to compare two different perspectives on isotopic surface-air fluxes. From the user’s perspective, three issues should be resolved in order to further realize the power of these in-situ measurements. The first one is related to instrument calibration. By their nature, isotopologue measurements by optical methods are prone to biases from nonlinear concentration dependence. Overcoming the nonlinear effect via calibration is important for the measurement of the isotopic abundance of CO2 or H2O and even more so for the measurement of the isotopic signal of their fluxes. Further, a portable calibration system is essential for deployment in remote sites. The second challenge that researchers face is instrument cost. We envision the development of a new flux network with real-time observations of isotopic fluxes of CO2 and H2O to help diagnose changes in atmospheric and biospheric processes. This can become a realistic goal if the instrument cost is brought down to a level comparable to that of broadband infrared analyzers. Third, speed of detection also deserves attention. In-situ measurements of CO2 and H2O isotope ratios in ambient air, especially if made on a long-term basis and calibrated precisely, can aid atmospheric inverse analysis of land carbon sink and the tracking of water transport in the atmosphere. Ambient monitoring alone is however not very useful in ecological studies. To measure the source/sink signature properly, one should interface the isotopic analyzer with a plant or soil chamber, deploy it in the gradient-diffusion mode either over a plant canopy or over the soil surface inside the canopy, or combine it with a sonic anemometer for direct eddy covariance measurement

  16. Geochemical roots of autotrophic carbon fixation: hydrothermal experiments in the system citric acid, H 2O-(±FeS)-(±NiS)

    NASA Astrophysics Data System (ADS)

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

    2001-10-01

    Recent theories have proposed that life arose from primitive hydrothermal environments employing chemical reactions analogous to the reductive citrate cycle (RCC) as the primary pathway for carbon fixation. This chemistry is presumed to have developed as a natural consequence of the intrinsic geochemistry of the young, prebiotic, Earth. There has been no experimental evidence, however, demonstrating that there exists a natural pathway into such a cycle. Toward this end, the results of hydrothermal experiments involving citric acid are used as a method of deducing such a pathway. Homocatalytic reactions observed in the citric acid-H 2O experiments encompass many of the reactions found in modern metabolic systems, i.e., hydration-dehydration, retro-Aldol, decarboxylation, hydrogenation, and isomerization reactions. Three principal decomposition pathways operate to degrade citric acid under thermal and aquathermal conditions. It is concluded that the acid catalyzed βγ decarboxylation pathway, leading ultimately to propene and CO 2, may provide the most promise for reaction network reversal under natural hydrothermal conditions. Increased pressure is shown to accelerate the principal decarboxylation reactions under strictly hydrothermal conditions. The effect of forcing the pH via the addition of NaOH reveals that the βγ decarboxylation pathway operates even up to intermediate pH levels. The potential for network reversal (the conversion of propene and CO 2 up to a tricarboxylic acid) is demonstrated via the Koch (hydrocarboxylation) reaction promoted heterocatalytically with NiS in the presence of a source of CO. Specifically, an olefin (1-nonene) is converted to a monocarboxylic acid; methacrylic acid is converted to the dicarboxylic acid, methylsuccinic acid; and the dicarboxylic acid, itaconic acid, is converted into the tricarboxylic acid, hydroaconitic acid. A number of interesting sulfur-containing products are also formed that may provide for additional

  17. Nitrogen Fixation By Sulfate-Reducing Bacteria in Coastal and Deep-Sea Sediments

    NASA Astrophysics Data System (ADS)

    Bertics, V. J.; Löscher, C.; Salonen, I.; Schmitz-Streit, R.; Lavik, G.; Kuypers, M. M.; Treude, T.

    2011-12-01

    Sulfate-reducing bacteria (SRB) can greatly impact benthic nitrogen (N) cycling, by for instance inhibiting coupled denitrification-nitrification through the production of sulfide or by increasing the availability of fixed N in the sediment via dinitrogen (N2)-fixation. Here, we explored several coastal and deep-sea benthic habitats within the Atlantic Ocean and Baltic Sea, for the occurrence of N2-fixation mediated by SRB. A combination of different methods including microbial rate measurements of N2-fixation and sulfate reduction, geochemical analyses (porewater nutrient profiles, mass spectrometry), and molecular analyses (CARD-FISH, HISH-SIMS, "nested" PCR, and QPCR) were applied to quantify and identify the responsible processes and organisms, respectively. Furthermore, we looked deeper into the question of whether the observed nitrogenase activity was associated with the final incorporation of N into microbial biomass or whether the enzyme activity served another purpose. At the AGU Fall Meeting, we will present and compare data from numerous stations with different water depths, temperatures, and latitudes, as well as differences in key geochemical parameters, such as organic carbon content and oxygen availability. Current metabolic and molecular data indicate that N2-fixation is occurring in many of these benthic environments and that a large part of this activity may linked to SRB.

  18. 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

  19. Fixation: A Bibliography.

    ERIC Educational Resources Information Center

    Pedrini, D. T.; Pedrini, Bonnie C.

    Fixation and regression were considered complementary by Freud. You tend to regress to a point of fixation. They are both opposed to progression. In the general area, Anna Freud has written (The Ego and the Mechanisms of Defence. London: Hogarth and the Psycho-Analytic Institute, 1937), Sears has evaluated (Survey of Objective Studies of…

  20. 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.

  1. Quantifying the Impact of Agricultural Land Management Practices on Soil Carbon Dynamics at Different Temporal and Spatial Scales

    NASA Astrophysics Data System (ADS)

    Wilson, C. G.; Papanicolaou, T.; Wacha, K.

    2012-12-01

    Vast amounts of rich, organic topsoil are lost from agricultural landscapes each year through the combination of both tillage- and rainfall-induced erosion. The implications of these losses lead to soil and water quality degradation, as well as decreased biomass production and grain yields within a watershed. Further, the effects of land management practices on soil carbon can be felt at a much larger scale in terms of the global carbon cycle, where the interactions of carbon between the atmosphere, vegetation, and soil are highly dynamic. During tillage- and rainfall-induced erosion, organic material encapsulated within soil aggregates are dislodged and redistributed along the hillslope. Additionally, this redistribution increases decomposition rates and the release of carbon dioxide fluxes to the atmosphere by changing soil texture, bulk density, and water holding capacities, which are key parameters that affect microbial activity. In this ongoing study, the combination of extensive field data, geo-spatial tools, and a coupled erosion (Water Erosion Prediction Project) - biogeochemical (CENTURY) model were used to assess the soil carbon sequestration potential for representative crop rotations in a highly productive agricultural watershed, at various spatial and temporal scales. Total Belowground Carbon Allocation was selected as a metric to assess carbon sequestration because it implements a mass balance approach of the various carbon fluxes stemming from soil detachment (erosion/deposition), heterotrophic respiration from microbial decomposition, and plant production. The results from this study show that the use of conservation practices can sequester 35 g C/m2 within the soils of the studied watershed over a 2-year crop rotation. Extrapolating to the watershed scale shows that the system is a net sink of carbon. Providing accurate assessment of the carbon fluxes associated with agricultural land management practices can provide much insight to global climate

  2. 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.

  3. 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

    NASA Astrophysics Data System (ADS)

    Li, F.; Bond-Lamberty, B.; Levis, S.

    2014-03-01

    Fire is the primary form of terrestrial ecosystem disturbance on a global scale. It affects the net carbon balance of terrestrial ecosystems by emitting carbon directly and immediately into the atmosphere from biomass burning (the 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 (the fire indirect effect). Here, we provide the first quantitative assessment of the impact of fire on the net carbon balance of global terrestrial ecosystems during the 20th century, and investigate the roles of fire's direct and indirect effects. This is done by quantifying the difference between the 20th century fire-on and fire-off simulations with the NCAR Community Land Model CLM4.5 (prescribed vegetation cover and uncoupled from the atmospheric model) as a model platform. Results show that fire decreases the net carbon gain of global terrestrial ecosystems by 1.0 Pg C yr-1 averaged across the 20th century, as a result of the fire direct effect (1.9 Pg C yr-1) partly offset by the indirect effect (-0.9 Pg C yr-1). Post-fire regions generally experience decreased carbon gains, which is significant over tropical savannas and some North American and East Asian forests. This decrease is due to the direct effect usually exceeding the indirect effect, while they have similar spatial patterns and opposite sign. The effect of fire on the net carbon balance significantly declines until ∼1970 with a trend of 8 Tg C yr-1 due to an increasing indirect effect, and increases subsequently with a trend of 18 Tg C yr-1 due to an increasing direct effect. These results help constrain the global-scale dynamics of fire and the terrestrial carbon cycle.

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

    PubMed Central

    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

  5. Tight coupling of root-associated nitrogen fixation and plant photosynthesis in the salt marsh Spartina alterniflora and carbon dioxide enhancement of Nitrogenase activity

    SciTech Connect

    Whiting, G.J.; Gandy, E.L.; Yoch, D.C.

    1986-07-01

    The coupling of root-associated nitrogen fixation and plant photosynthesis was examined in the salt marsh grass Spartina alterniflora. In both field experiments and hydroponic assay chambers, nitrogen fixation associated with the roots was rapidly enhanced by stimulating plant photosynthesis. A kinetic analysis of acetylene reduction activity (ARA) showed that a five-to-sixfold stimulation occurred within 10 to 60 min after the plant leaves were exposed to light or increase CO/sub 2/ concentrations (with the light held constant). In field experiments, CO/sub 2/ enrichment increased plant-associated ARA by 27%. Further evidence of the dependence of ARA on plant photosynthate was obtained when activity in excised roots was shown to decrease after young greenhouse plants were placed in the dark. Seasonal variation in the ARA of excised plant roots from field cores appears to be related to the annual cycle of net photosynthesis in S. alterniflora.

  6. Role of soft tissues in metacarpal fracture fixation.

    PubMed

    Ouellette, Elizabeth Anne; Dennis, Jay J; Milne, Edward L; Latta, Loren L; Makowski, Anna-Lena

    2003-07-01

    The contribution of soft tissues in stabilizing fracture fixation in metacarpals is appreciated clinically, but no quantitative biomechanical study of their role has been done. All previous studies of fracture fixation in vitro have been done on metacarpals denuded of soft tissues. To quantify the role of soft tissues in metacarpal fracture fixation, the biomechanical effectiveness of four fixation devices was examined in human cadaver metacarpals with and without soft tissues. Values were compared for three nonrigid methods (expandable intramedullary fixation devices, crossed Kirschner wires, and single half-pin frames) and one rigid method (dorsal plates) in 45 disarticulated metacarpals stripped of soft tissues (denuded) and in 46 metacarpals in whole hands with all soft tissues remaining (intact). Mechanical testing to complete failure in three-point apex dorsal bending was done in all specimens. Ultimate moment (strength) of each of the four fixation methods was significantly greater in intact specimens than in denuded specimens. Crossed Kirschner wires were most stable in intact specimens, and dorsal plates were more stable in denuded specimens. The results show that soft tissues contribute to the strength of fracture fixation. Clinically, surgeons may be able to use a less invasive fixation method than plating without compromising the strength of metacarpal fixation in patients whose soft tissues are not severely disrupted and the fracture configuration allows. Plating may offer optimum stability in patients whose soft tissues are damaged severely and provide less strengthening of the fracture construct. PMID:12838068

  7. Quantifying the effectiveness of climate change mitigation through forest plantations and carbon sequestration with an integrated land-use model

    PubMed Central

    van Minnen, Jelle G; Strengers, Bart J; Eickhout, Bas; Swart, Rob J; Leemans, Rik

    2008-01-01

    Background Carbon plantations are introduced in climate change policy as an option to slow the build-up of atmospheric carbon dioxide (CO2) concentrations. Here we present a methodology to evaluate the potential effectiveness of carbon plantations. The methodology explicitly considers future long-term land-use change around the world and all relevant carbon (C) fluxes, including all natural fluxes. Both issues have generally been ignored in earlier studies. Results Two different baseline scenarios up to 2100 indicate that uncertainties in future land-use change lead to a near 100% difference in estimates of carbon sequestration potentials. Moreover, social, economic and institutional barriers preventing carbon plantations in natural vegetation areas decrease the physical potential by 75–80% or more. Nevertheless, carbon plantations can still considerably contribute to slowing the increase in the atmospheric CO2 concentration but only in the long term. The most conservative set of assumptions lowers the increase of the atmospheric CO2 concentration in 2100 by a 27 ppm and compensates for 5–7% of the total energy-related CO2 emissions. The net sequestration up to 2020 is limited, given the short-term increased need for agricultural land in most regions and the long period needed to compensate for emissions through the establishment of the plantations. The potential is highest in the tropics, despite projections that most of the agricultural expansion will be in these regions. Plantations in high latitudes as Northern Europe and Northern Russia should only be established if the objective to sequester carbon is combined with other activities. Conclusion Carbon sequestration in plantations can play an important role in mitigating the build-up of atmospheric CO2. The actual magnitude depends on natural and management factors, social barriers, and the time frame considered. In addition, there are a number of ancillary benefits for local communities and the environment

  8. Photographic fixative poisoning

    MedlinePlus

    Photographic developer poisoning; Hydroquinone poisoning; Quinone poisoning; Sulfite poisoning ... Hydroquinones Quinones Sodium thiosulfate Sodium sulfite/bisulfite Boric acid Photographic fixative can also break down (decompose) to form sulfur dioxide gas.

  9. 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)

  10. 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.

  11. 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

  12. Lasers on the Landscape: Quantifying 3-D ecosystem structure to map continuous surfaces of carbon, avian species richness, and tree species distributions

    NASA Astrophysics Data System (ADS)

    Vierling, L. A.; Finch, S.; Vierling, K. T.; Strand, E. K.; Hudak, A. T.; Vogeler, J.; Martinuzzi, S.; Eitel, J.; Falkowski, M. J.

    2012-12-01

    Quantifying ecosystem services and species diversity at multiple spatial scales is central to the sustainable management of global natural resources. Many attempts to quantify ecosystem services and species diversity have focused on single services or taxonomic groups, used proxy relationships rather than primary data, and/or failed to adequately assess broad spatial extents with a grain size fine enough to link with individual human decisions and local knowledge. It is thus important to establish objective, repeatable monitoring tools from the parcel to the landscape scale to meet management and policy needs, and to assist with targeting areas for conservation where high collective ecosystem service values (i.e. "hotspots") occur. To meet this need, we combined detailed field observations with LiDAR-derived ecosystem structural variables and statistical modeling techniques to map continuous surfaces of aboveground carbon, bird species richness, and tree diversity across a ~20,000 ha north Idaho case study landscape. Plot-level values of carbon (range: 0-584 Mg/ha), bird species richness (range: 0-23 species/0.04 ha), and tree species variety (range: 0-6 species/0.04 ha) were extrapolated across the landscape using imputation enabled by LiDAR-based relationships. Each quantity was then transformed to normalized values ranging from 0 to 1 to enable the three quantities to be combined for hotspot identification. We found that the scale of analysis strongly affected the magnitude of hotspots containing high carbon and biodiversity values: the maximum hotspot value decreased by 32% when grain size was increased from 100m to 1500m. In addition, we found that preferentially weighting one ecosystem property relative to the others (a situation common to many management scenarios) changed the location and magnitude of hotspots across the landscape. Our results indicate that LiDAR-derived ecosystem structure provides information that is useful for mapping numerous ecosystem

  13. A Comparison of Two Methods for Quantifying Soil Organic Carbon of Alpine Grasslands on the Tibetan Plateau

    PubMed Central

    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. PMID:25946085

  14. High-Resolution Three-Dimensional Structural Data Quantify the Impact of Photoinhibition on Long-Term Carbon Gain in Wheat Canopies in the Field.

    PubMed

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

    2015-10-01

    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

  15. 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

  16. Quantifying nitrogen and carbon emissions from large-scale cattle feeding operations through the use of a mobile measurement platform.

    NASA Astrophysics Data System (ADS)

    Floerchinger, C. R.; Fortner, E.; Brooks, B.; Wormhoult, J.; Massoli, P.; Nowak, J. B.; Roscioli, J. R.; Agnese, M.; Ham, J. M.; Knighton, W. B.; Bon, D.; Herndon, S. C.

    2014-12-01

    Concentrated animal feeding operations (CAFO's) are believed to contribute a significant fraction of reactive nitrogen to the ecosystem in Rocky Mountain National Park through regional transport and deposition of biogenic ammonia and associated particle nitrate, at the same time acting as large contributors to the regional methane budget. These operations were characterized by the Aerodyne Mobile Laboratory as a part of the FRAPPE field study 2014 with the focus of understanding the emission, transmission, and subsequent evolution of the CAFO biogenic airmass. Using Quantum Cascade Laser - Tunable Infrared Laser Differential Absorption Spectrometers (QCL-TILDAS) we measured ammonia, a hydrolysis product of NH4+ found in urine and feces, and methane, a product of both enteric fermentation occurring in the rumen and methanogenic bacterial colonies found in feces. Using a High Resolution Time of Flight Aerosol Mass Spectrometer (HR-TOF-AMS) we also quantified inorganic nitrate aerosol, a secondary aerosol product generated through the reaction of primary ammonia with nitric acid. The results are presented and compared to other methods.

  17. 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

  18. 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.

  19. The fluvial flux of particulate organic matter from the UK: Quantifying in-stream losses and carbon sinks

    NASA Astrophysics Data System (ADS)

    Worrall, Fred; Burt, Tim P.; Howden, Nicholas J. K.

    2014-11-01

    This study considers records of fluvial suspended sediment concentration and its organic matter content from across the United Kingdom from 1974 to 2010. Suspended sediment, mineral concentration and river flow data were used to estimate the particulate organic matter (POM) concentration and flux. Median annual POM flux from the UK was 1596 ktonnes/yr. The POM concentration significantly declined after the European Commission's Urban Wastewater Directive was adopted in 1991 although the POM flux after 1992 was significantly higher. Estimates of POM flux were compared to a range of catchment properties to estimate the flux of particulate organic carbon (POC) and particulate organic nitrogen (PON) as they entered rivers and thus estimate the net catchment losses. The total fluvial flux of N from the soil source to rivers was 2209 ktonnes N/yr with 814 ktonnes N lost at the tidal limit, and so leaving 1395 ktonnes N/yr loss to atmosphere from across UK catchments - equivalent to an N2O flux from UK rivers of between 33 and 154 ktonnes (N2O)/yr. The total fluvial flux of carbon from the soil source to rivers for the UK was 5020 ktonnes C/yr; the flux at the tidal limit was 1508 ktonnes C/yr, equivalent to 6.5 tonnes C/km2/yr. Assuming that all the net catchment loss goes into the atmosphere, then the impact of rivers on the atmosphere is 3512 ktonnes C/yr, equivalent to 15.2 tonnes C/km2/yr. The loss of POM from the UK suggests that soil erosion in the UK prevents soil being a net sink of CO2 and is instead a small net source to the atmosphere.

  20. 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.

  1. The use of natural abundance carbon-13 to identify and quantify sources of emitted carbon dioxide in a calcareous southern Ontario Luvisolic soil

    NASA Astrophysics Data System (ADS)

    Wilton, Meaghan

    Three studies Were conducted at the Elora Research Station (ERS) on a Luvisolic soil to investigate the soil inorganic carbon (SIC) and soil organic carbon (SOC) components contributing to the CO2 flux (FC) using natural 13C abundance. SIC contributed to the FC in intact soil incubations. Soil disruption exacerbated the release of CO2 from both pedogenic and lithogenic carbonates. Field and laboratory techniques to obtain the delta13C of respired CO2 (delta13CR) were compared. Short-term deployment of non flow-through non steady-state chambers and the use of the simple two-ended mass balance approach to derive delta 13CR were found acceptable to apply to the ERS site. The delta13CR from a corn field at ERS with a history of multiple C4 and C3 crop rotations was partitioned into SIC and SOC components using two approaches. Root respiration contributed 2% - 64% and carbonates contribute up to 20% to the FC.

  2. Quantifying black carbon from biomass burning by means of levoglucosan - a one year time series at the Arctic observatory Zeppelin

    NASA Astrophysics Data System (ADS)

    Yttri, K. E.; Myhre, C. Lund; Eckhardt, S.; Fiebig, M.; Dye, C.; Hirdman, D.; Ström, J.; Klimont, Z.; Stohl, A.

    2013-12-01

    Levoglucosan, a highly specific tracer of particulate matter from biomass burning, has been used to study the influence of residential wood burning, agricultural waste burning and boreal forest fire emissions on the Arctic atmosphere black carbon (BC) concentration. A one year time series from March 2008 to March 2009 of levoglucosan has been established at the Zeppelin Observatory in the European Arctic. Elevated concentrations of levoglucosan in winter (Mean: 1.02 ng m-3) compared to summer (Mean: 0.13 ng m-3) were observed, resembling the seasonal variation seen for e.g. sulphate and BC. The mean concentration in the winter period was two to three orders of magnitude lower than typical values reported for European urban areas in winter, and one to two orders of magnitude lower than European rural background concentrations. Episodes of elevated levoglucosan concentration were more frequent in winter than in summer and peak values were higher, exceeding 10 ng m-3 at the most. Concentrations of elemental carbon from biomass burning (ECbb) were obtained by combining measured concentrations of levoglucosan and emission ratios of levoglucosan and EC for wild/agricultural fires and for residential wood burning. Neglecting chemical degradation by OH provides minimum levoglucosan concentrations, corresponding to a mean ECbb concentration of 3.7±1.2 ng m-3 in winter (October-April) and 0.8±0.3 ng m-3 in summer (May-September) or 8.8±4.5% of the measured equivalent black carbon (EBC) concentration in winter and 6.1±3.4% in summer. When accounting for chemical degradation of levoglucosan by OH, an upper estimate of 31-45% of EBC could be attributed to ECbb* (ECbb adjusted for chemical degradation) in winter and <65% in summer. Hence, fossil fuel sources appear to dominate the European Arctic BC concentrations in winter, whereas the very wide range obtained for summer does not allow us to conclude upon this for the warm season. Calculations using the Lagrangian particle

  3. Quantifying carbon, water and energy fluxes under the influence of rapidly degrading discontinuous permafrost in the Northwest Territories, Canada

    NASA Astrophysics Data System (ADS)

    Helbig, M.; Detto, M.; Higgins, K.; Wischnewski, K.; Chasmer, L.; Quinton, W. L.; Sonnentag, O.

    2013-12-01

    A large portion of Canada's northern landscapes, including boreal forest, peatland and tundra ecosystems, is affected by permanently cryotic ground (permafrost) that underlies a seasonally-thawed (i.e. active) layer. A widely used classification distinguishes between discontinuous (thickness varies but is typically <10 m at its southern extent) and continuous (thickness usually is >100 m) permafrost zones, consisting of less than 90% and 90-100% of permanently cryotic ground in areal extent, respectively. Recent research indicates rapid degradation of permafrost at its southern limit with associated ground surface subsidence and conversion of forest to wetland. Together these changes might cause a strong net feedback to the climate system of unknown magnitude and direction by altering important land surface characteristics and/or by altering the fluxes of carbon dioxide (CO2) and methane (CH4) between the biosphere and the atmosphere. Large knowledge gaps exist regarding the links between continued permafrost degradation, regional hydrology and topography, vegetation composition and structure, land surface properties, and CO2 and CH4 sink-source strengths. To shed light on these links, we have measured the net exchanges of CH4, CO2, water vapour and heat with an eddy covariance system at Scotty Creek, Northwest Territories, Canada, a hydrologically well-characterized watershed in the discontinuous permafrost zone. The landscape in the vicinity of the eddy covariance tower features forested permafrost peat plateaus (~40%) and permafrost-free bogs (~25%), fens (~25%) and shallow lakes (~10%). These measurements are complemented by repeated surveys of surface and frost table topography and vegetation, and by remote sensing-based footprint analysis. With our contribution, we will present the first growing season of measurements. Preliminary results for May and June 2013 suggest that daily net uptake of atmospheric CO2 at Scotty Creek peaks at 2.5 g C m-2 day-1 and is

  4. 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

  5. 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

  6. Update: Biological Nitrogen Fixation.

    ERIC Educational Resources Information Center

    Wiseman, Alan; And Others

    1985-01-01

    Updates knowledge on nitrogen fixation, indicating that investigation of free-living nitrogen-fixing organisms is proving useful in understanding bacterial partners and is expected to lead to development of more effective symbioses. Specific areas considered include biochemistry/genetics, synthesis control, proteins and enzymes, symbiotic systems,…

  7. 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)

  8. Evaluating and quantifying the potential for CO2 leakage through the caprock during carbon sequestration using a Risk Matrix

    NASA Astrophysics Data System (ADS)

    Edlmann, K.

    2012-04-01

    Geological sequestration of CO2 in deep aquifers or depleted oil/gas reservoirs is considered a solution for reducing excess CO2 currently being emitted to the atmosphere. Low permeability cap rocks trap the CO2 that is then sequestered in the underlying porous reservoir or aquifer rock. The long term dependability of CO2 sequestration is directly linked to the integrity of the caprock seals effectively trapping the CO2. Evaluation and quantification of all of the possible CO2 leakage risks and their severity and probability throughout the life of the carbon sequestration timescale is essential. This study aims to identify the CO2 leakage risks, analyse them and then evaluate the impact of each risk - will it cause leakage, how will it leak and how much will it leak? The risks assessed covered all factors that may lead to CO2 leakage including those associated with matrix permeability, CO2 diffusion, aquifer flow, scCO2 flow properties, capillary transport, effective and relative permeability of the scCO2 / brine / pore system, migration through fracture and microfracture network both existing and induced, geological discontinuities and the wellbore and drilling environment. The risks were assessed by assigning a severity and probability to each identified risk. Severity was ranked from 1 to 5; where 1 was mm scale intrusion and 5 was leakage above the top caprock. Probability was also ranked from 1 to 5; where 1 was likelihood of happening after 10,000 years and 5 was likelihood of it happening during injection. A risk matrix was produced which highlights the risks that will have the most significant impact on CO2 sequestration reliability.

  9. 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. PMID:27376916

  10. Quantifying the success of onshore carbon capture and storage from surface deformation measurement and geo-mechanical modeling

    NASA Astrophysics Data System (ADS)

    Gourmelen, N.; Shepherd, A.; Angus, D.; Fisher, Q.; Lesnic, D.; Gouldson, A.

    2012-04-01

    Although Carbon capture and storage (CCS) is an attractive technology in the drive to mitigate global warming, the approach is controversial because long-term containment and accounting of the stored CO2 have yet to be demonstrated. Options for monitoring CO2 storage are varied and range from discrete chemical well sampling programs to full field time-lapse seismic surveys. Crucial for any monitoring program is that it be as cost effective as possible yet yielding sufficiently accurate measurement. Time-lapse seismics has generally proven to be a sufficiently accurate means of monitoring CO2 in the subsurface. However, there is debate as to whether seismics is the most cost effective approach in the quantitative measurement of CO2 flow and containment. The cost of monitoring is compounded potentially further by the various international regulations related to CO2 sequestration, where, for example, it can be argued that CO2 storage monitoring requirements are much stricter than those for natural gas storage. For on-shore sequestration, there has been a significant drive to integrate satellite interferometric synthetic aperture radar (InSAR) with geomechanical modeling to link surface deformation with the movement and storage of injected CO2. At the In Salah CO2 storage project, export gas specifications require the removal of CO2 from the produced natural gas with strict long term monitoring requirements to ensure that CO2 is contained indefinitely. Thus there has been significant research into linking geomechanical modeling with InSAR observations (e.g., Rutqvist et al., 2010; Vasco et al., 2010). We analyze the surface deformation resulting from CO2 storage at In Salah in order to provide constraints on the temporal and spatial evolution of CO2 within the reservoir. Specifically, we process InSAR from the pre-injection period 1992-2004 and the injection period 2004-2009 and combine the InSAR observations with geomechanical modeling of reservoir deformation to

  11. Quantifying contextuality.

    PubMed

    Grudka, A; Horodecki, K; Horodecki, M; Horodecki, P; Horodecki, R; Joshi, P; Kłobus, W; Wójcik, A

    2014-03-28

    Contextuality is central to both the foundations of quantum theory and to the novel information processing tasks. Despite some recent proposals, it still faces a fundamental problem: how to quantify its presence? In this work, we provide a universal framework for quantifying contextuality. We conduct two complementary approaches: (i) the bottom-up approach, where we introduce a communication game, which grasps the phenomenon of contextuality in a quantitative manner; (ii) the top-down approach, where we just postulate two measures, relative entropy of contextuality and contextuality cost, analogous to existent measures of nonlocality (a special case of contextuality). We then match the two approaches by showing that the measure emerging from the communication scenario turns out to be equal to the relative entropy of contextuality. Our framework allows for the quantitative, resource-type comparison of completely different games. We give analytical formulas for the proposed measures for some contextual systems, showing in particular that the Peres-Mermin game is by order of magnitude more contextual than that of Klyachko et al. Furthermore, we explore properties of these measures such as monotonicity or additivity. PMID:24724629

  12. 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.

  13. Quantifying sources of elemental carbon over the Guanzhong Basin of China: A consistent network of measurements and WRF-Chem modeling.

    PubMed

    Li, Nan; He, Qingyang; Tie, Xuexi; Cao, Junji; Liu, Suixin; Wang, Qiyuan; Li, Guohui; Huang, Rujin; Zhang, Qiang

    2016-07-01

    We conducted a year-long WRF-Chem (Weather Research and Forecasting Chemical) model simulation of elemental carbon (EC) aerosol and compared the modeling results to the surface EC measurements in the Guanzhong (GZ) Basin of China. The main goals of this study were to quantify the individual contributions of different EC sources to EC pollution, and to find the major cause of the EC pollution in this region. The EC measurements were simultaneously conducted at 10 urban, rural, and background sites over the GZ Basin from May 2013 to April 2014, and provided a good base against which to evaluate model simulation. The model evaluation showed that the calculated annual mean EC concentration was 5.1 μgC m(-3), which was consistent with the observed value of 5.3 μgC m(-3). Moreover, the model result also reproduced the magnitude of measured EC in all seasons (regression slope = 0.98-1.03), as well as the spatial and temporal variations (r = 0.55-0.78). We conducted several sensitivity studies to quantify the individual contributions of EC sources to EC pollution. The sensitivity simulations showed that the local and outside sources contributed about 60% and 40% to the annual mean EC concentration, respectively, implying that local sources were the major EC pollution contributors in the GZ Basin. Among the local sources, residential sources contributed the most, followed by industry and transportation sources. A further analysis suggested that a 50% reduction of industry or transportation emissions only caused a 6% decrease in the annual mean EC concentration, while a 50% reduction of residential emissions reduced the winter surface EC concentration by up to 25%. In respect to the serious air pollution problems (including EC pollution) in the GZ Basin, our findings can provide an insightful view on local air pollution control strategies. PMID:27064614

  14. Sludge fixation and stabilization

    SciTech Connect

    Smith, R.H.

    1982-08-03

    The physical and chemical fixation and stabilization of waste products from a sulfur-fuel burning unit through controlled crystallization of dissolved calcium sulfite. A low ph calcium sulfite solution is added to the waste containing aqueous sludge produced by a gas desulfurization unit thereby raising the ph of the calcium sulfite to crystalize the calcium sulfite and bind and encapsulate the waste products into a solid mass.

  15. 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.

  16. Re-engineering of carbon fixation in plants - challenges for plant biotechnology to improve yields in a high-CO2 world.

    PubMed

    Peterhansel, Christoph; Offermann, Sascha

    2012-04-01

    Source and sink strength control plant carbon gain and yield. Source strength was recently engineered by modifying the large subunit of Rubisco, replacing the small subunit, and creating improved thermostable Rubisco activases. This technological breakthrough makes Rubisco engineering feasible at last. Enhancement of leaf transitory starch synthesis or induction of artificial sinks in leaves increased biomass and yield. Importantly, such approaches also had a positive feedback on source strength. In addition, novel targets for the improvement of carbon gain in crops have been identified that are especially relevant in the light of climate change. PMID:22261558

  17. 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

  18. Quantifying precision and accuracy of measurements of dissolved inorganic carbon stable isotopic composition using continuous-flow isotope-ratio mass spectrometry

    PubMed Central

    Waldron, Susan; Marian Scott, E; Vihermaa, Leena E; Newton, Jason

    2014-01-01

    RATIONALE We describe an analytical procedure that allows sample collection and measurement of carbon isotopic composition (δ13CV-PDB value) and dissolved inorganic carbon concentration, [DIC], in aqueous samples without further manipulation post field collection. By comparing outputs from two different mass spectrometers, we quantify with the statistical rigour uncertainty associated with the estimation of an unknown measurement. This is rarely undertaken, but it is needed to understand the significance of field data and to interpret quality assurance exercises. METHODS Immediate acidification of field samples during collection in evacuated, pre-acidified vials removed the need for toxic chemicals to inhibit continued bacterial activity that might compromise isotopic and concentration measurements. Aqueous standards mimicked the sample matrix and avoided headspace fractionation corrections. Samples were analysed using continuous-flow isotope-ratio mass spectrometry, but for low DIC concentration the mass spectrometer response could be non-linear. This had to be corrected for. RESULTS Mass spectrometer non-linearity exists. Rather than estimating precision as the repeat analysis of an internal standard, we have adopted inverse linear calibrations to quantify the precision and 95% confidence intervals (CI) of the δ13CDIC values. The response for [DIC] estimation was always linear. For 0.05–0.5 mM DIC internal standards, however, changes in mass spectrometer linearity resulted in estimations of the precision in the δ13CVPDB value of an unknown ranging from ± 0.44‰ to ± 1.33‰ (mean values) and a mean 95% CI half-width of ±1.1–3.1‰. CONCLUSIONS Mass spectrometer non-linearity should be considered in estimating uncertainty in measurement. Similarly, statistically robust estimates of precision and accuracy should also be adopted. Such estimations do not inhibit research advances: our consideration of small-scale spatial variability at two points on a

  19. 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

  20. 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

  1. Ultrastructural analysis of adult mouse neocortex comparing aldehyde perfusion with cryo fixation.

    PubMed

    Korogod, Natalya; Petersen, Carl C H; 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. PMID:26259873

  2. 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

  3. 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.

  4. Gene Regulation of Carbon Fixation, Storage, and Utilization in the Diatom Phaeodactylum tricornutum Acclimated to Light/Dark Cycles1[C][W][OA

    PubMed Central

    Chauton, Matilde Skogen; Winge, Per; Brembu, Tore; Vadstein, Olav; Bones, Atle M.

    2013-01-01

    The regulation of carbon metabolism in the diatom Phaeodactylum tricornutum at the cell, metabolite, and gene expression levels in exponential fed-batch cultures is reported. Transcriptional profiles and cell chemistry sampled simultaneously at all time points provide a comprehensive data set on carbon incorporation, fate, and regulation. An increase in Nile Red fluorescence (a proxy for cellular neutral lipids) was observed throughout the light period, and water-soluble glucans increased rapidly in the light period. A near-linear decline in both glucans and lipids was observed during the dark period, and transcription profile data indicated that this decline was associated with the onset of mitosis. More than 4,500 transcripts that were differentially regulated during the light/dark cycle are identified, many of which were associated with carbohydrate and lipid metabolism. Genes not previously described in algae and their regulation in response to light were integrated in this analysis together with proposed roles in metabolic processes. Some very fast light-responding genes in, for example, fatty acid biosynthesis were identified and allocated to biosynthetic processes. Transcripts and cell chemistry data reflect the link between light energy availability and light energy-consuming metabolic processes. Our data confirm the spatial localization of processes in carbon metabolism to either plastids or mitochondria or to glycolysis/gluconeogenesis, which are localized to the cytosol, chloroplast, and mitochondria. Localization and diel expression pattern may be of help to determine the roles of different isoenzymes and the mining of genes involved in light responses and circadian rhythms. PMID:23209127

  5. 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

  6. 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

    2016-01-01

    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

  7. 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.

  8. 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

  9. 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

  10. External fixation of distal radius fractures.

    PubMed

    Slutsky, David J

    2007-12-01

    External fixation has been used for the treatment of distal radius fractures for more than 50 years. Although the fixator configurations have undergone considerable modification over time, the type of fixator itself is not as important as the underlying principles that provide the foundation for external fixation. Although volar plate fixation is currently in vogue, the indications for external fixation remain largely unchanged. Newer fixator designs have also expanded the traditional usage to include nonbridging applications that allow early wrist motion. The following discussion focuses on the myriad uses for external fixation as well as the shortcomings and potential pitfalls. PMID:18070654

  11. Fixation by active accommodation

    NASA Astrophysics Data System (ADS)

    Pahlavan, Kourosh; Uhlin, Tomas; Eklundh, Jan-Olof

    1992-11-01

    The field of computer vision has long been interested in disparity as the cue for the correspondence between stereo images. The other cue to correspondence, blur, and the fact that vergence is a combination of the two processes, accommodative vergence and disparity vergence, have not been equally appreciated. Following the methodology of active vision that allows the observer to control all his visual parameters, it is quite natural to take advantage of the powerful combination of these two processes. In this article, we try to elucidate such an integration and briefly analyze the cooperation and competition between accommodative vergence and disparity vergence on one hand and disparity and blur stimuli on the other hand. The human fixation mechanism is used as a guide-line and some virtues of this mechanism are used to implement a model for vergence in isolation. Finally, some experimental results are reported.

  12. 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). PMID:18563086

  13. Nitrogen Fixation on Early Mars and Other Terrestrial Planets: Experimental Demonstration of Abiotic Fixation Reactions to Nitrite and Nitrate

    NASA Astrophysics Data System (ADS)

    Summers, David P.; Khare, Bishun

    2007-05-01

    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 NO2. 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 NO2 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 NO2 reaction with ice, adsorbed water, etc.).

  14. Evaluation of fixation stability using different targets with the MP1 microperimeter.

    PubMed

    Cesareo, M; Manca, D; Ciuffoletti, E; De Giovanni, V; Ricci, F; Nucci, C; Cerulli, L

    2015-02-01

    The aim of this study was to evaluate fixation stability using two different fixation targets with the Nidek MP1 microperimeter. Twenty-nine healthy subjects with a mean age of 26.53 ± 7.35 years and visual acuity ≥0.0 logMAR were enrolled in this study. Fifty-eight eyes of 29 patients without ophthalmic and/or systemic disease underwent a fixation test with the MP1 microperimeter. Fixation stability related to a red cross (central) and/or a red circle (pericentral) target was quantified using either Fujii classification or by calculating the bivariate contour ellipse area (BCEA). For statistical analysis, BCEA values were converted into their logarithms (logBCEA) and all data obtained were analyzed using paired Student's t test. The inclination values of the axis of BCEA were analyzed with Chi squared test. The mean values of logBCEA and the mean values of the major and minor axis of the ellipses related to the cross and the circle fixation target were significantly different (68.2 %, p = 0.00; 95.4 %, p = 0.00; 99.6 %, p = 0.00, respectively) for each BCEA standard deviation. Fixation was significantly less stable for the pericentral fixation target in normal subjects, indicating an advantage for central fixation targets. These results are of particular interest when evaluation of changes in fixation is needed. PMID:24723270

  15. Using 224Ra/228Th disequilibrium to quantify benthic fluxes of dissolved inorganic carbon and nutrients into the Pearl River Estuary

    NASA Astrophysics Data System (ADS)

    Cai, Pinghe; Shi, Xiangming; Hong, Qingquan; Li, Qing; Liu, Lingfeng; Guo, Xianghui; Dai, Minhan

    2015-12-01

    The 224Ra/228Th disequilibrium that was recently observed in coastal sediments has been proven to be an excellent proxy for tracing the benthic processes that regulate solute transfer across the sediment-water interface. In order to better utilize this proxy, there is a need to understand the reaction kinetics of 224Ra in sediments. In this study, depth profiles of 224Ra and 228Th in bulk sediments were collected along a transect in the Pearl River Estuary (PRE). Together with bulk sediment measurements, dissolved 224Ra, dissolved inorganic carbon (DIC), and nutrients (NO2- + NO3-, NH4+) in pore water and in the overlying waters were also determined. A marked deficit of 224Ra with respect to 228Th with large spatial variations was observed in the PRE sediments. By use of a diagenetic model for the distributions of dissolved and adsorbed 224Ra in sediments, we infer that adsorption removes 224Ra from aqueous phase at a rate of 0.1 ± 1.1-2000 ± 400 d-1. In addition, adsorption of 224Ra exhibits a rate sequence of oxic freshwater > anoxic freshwater > anoxic brackish water, probably reflecting the effect of the redox conditions and ionic strength on the adsorption-desorption kinetics of 224Ra. Benthic fluxes of 224Ra were estimated from the observed deficit of 224Ra in the sediments using a one-dimensional (1D) mass balance exchange model. We demonstrated that irrigation was the predominant process that controls solute transfer across the sediment-water interface, whereas molecular diffusion and sediment mixing together contributed <5% of the total 224Ra fluxes from bottom sediments. We then utilized the 224Ra/228Th disequilibrium approach to quantify the benthic fluxes of DIC and nutrients. We showed that sediment interstitial waters delivered approximately 42 ± 6 × 109 mol of DIC and ˜16 ± 1 × 109 mol of NH4+ into the PRE in the dry season. In contrast, it removed about 13 ± 1 × 109 mol of NO3- from the overlying water column. The benthic flux of DIC is

  16. Phase-contrast Hounsfield units of fixated and non-fixated soft-tissue samples

    DOE PAGESBeta

    Willner, Marian; Fior, Gabriel; Marschner, Mathias; Birnbacher, Lorenz; Schock, Jonathan; Braun, Christian; Fingerle, Alexander A.; Noël, Peter B.; Rummeny, Ernst J.; Pfeiffer, Franz; et al

    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. 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.

  18. Epidural catheter fixation. A comparison of subcutaneous tunneling versus device fixation technique

    PubMed Central

    Sharma, Ashima; Parasa, Sujay Kumar; Tejvath, Kiran; Ramachandran, Gopinath

    2016-01-01

    Background and Aims: The technique of securing the epidural catheter has a major bearing on the efficacy of epidural analgesia. Specific fixator devices, for e.g., Lockit epidural catheter clamp, which successfully prevents catheter migration, are available. The possibility of catheter snapping and surgical retrieval has been reported with tunneling of catheters. These techniques have not been compared for safety, efficacy and appropriateness of achieving secure epidural catheter fixation in the postoperative period. Material and Methods: A total of 200 patients who required postoperative epidural analgesia were included. They were randomized into two groups: Group I (n = 100) in whom epidural catheters were tunneled vertically in the paravertebral subcutaneous tissue and group II (n = 100) wherein a Lockit device was used to fix the catheter. Likert score was used to quantify patient's comfort during procedure. The techniques were compared for migration, catheter dislodgement, local trauma, catheter snapping and catheter obstruction. Results: 12% of tunneled catheters had migrated significantly outward. 22% of patients had erythema and 77% had significant procedural discomfort in group I. In group II, 3% catheters had kinked and 14% had erythema from device adhesive. Conclusion: Our results support the use of Lockit device as a safe and comfortable fixation device compared to subcutaneous tunneling of catheters. PMID:27006544

  19. Phase-Contrast Hounsfield Units of Fixated and Non-Fixated Soft-Tissue Samples

    PubMed Central

    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

    2015-01-01

    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. Furthermore, we investigated the effects of formalin fixation on the quantitative phase-contrast imaging results. PMID:26322638

  20. 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)

  1. 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. PMID:21944395

  2. Nitrogen fixation: key genetic regulatory mechanisms.

    PubMed

    Martinez-Argudo, I; Little, R; Shearer, N; Johnson, P; Dixon, R

    2005-02-01

    The necessity to respond to the level of fixed nitrogen and external oxygen concentrations and to provide sufficient energy for nitrogen fixation imposes common regulatory principles amongst diazotrophs. The NifL-NifA system in Azotobacter vinelandii integrates the signals of redox, fixed-nitrogen and carbon status to regulate nif transcription. Multidomain signalling interactions between NifL and NifA are modulated by redox changes, ligand binding and interaction with the signal-transduction protein GlnK. Under adverse redox conditions (excess oxygen) or when fixed nitrogen is in excess, NifL forms a complex with NifA in which transcriptional activation is prevented. Oxidized NifL forms a binary complex with NifA to inhibit NifA activity. When fixed nitrogen is in excess, the non-covalently modified form of GlnK interacts with NifL to promote the formation of a GlnK-NifL-NifA ternary complex. When the cell re-encounters favourable conditions for nitrogen fixation, it is necessary to deactivate the signals to ensure that the NifL-NifA complex is dissociated so that NifA is free to activate transcription. This is achieved through interactions with 2-oxoglutarate, a key metabolic signal of the carbon status, which binds to the N-terminal GAF (cGMP-specific and stimulated phosphodiesterases, Anabaena adenylate cyclases and Escherichia coli FhlA) domain of NifA. PMID:15667291

  3. 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.

  4. 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.

  5. Quantifying Carbon Financial Risk in the International Greenhouse Gas Market: An Application Using Remotely-Sensed Data to Align Scientific Uncertainty with Financial Decisions

    NASA Astrophysics Data System (ADS)

    Hultman, N. E.

    2002-12-01

    A common complaint about environmental policy is that regulations inadequately reflect scientific uncertainty and scientific consensus. While the causes of this phenomenon are complex and hard to discern, we know that corporations are the primary implementers of environmental regulations; therefore, focusing on how policy relates scientific knowledge to corporate decisions can provide valuable insights. Within the context of the developing international market for greenhouse gas emissions, I examine how corporations would apply finance theory into their investment decisions for carbon abatement projects. Using remotely-sensed ecosystem scale carbon flux measurements, I show how to determine much financial risk of carbon is diversifiable. I also discuss alternative, scientifically sound methods for hedging the non-diversifiable risks in carbon abatement projects. In providing a quantitative common language for scientific and corporate uncertainties, the concept of carbon financial risk provides an opportunity for expanding communication between these elements essential to successful climate policy.

  6. 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

  7. 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. PMID:27296246

  8. 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.

  9. 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.

  10. 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

  11. 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.

  12. First metatarsophalangeal joint arthrodesis: current fixation options.

    PubMed

    Moon, Jared L; McGlamry, Michael C

    2011-04-01

    This article reviews the current literature on first metatarsophalangeal joint arthrodesis rates using various forms of fixation, as well as reviewing biomechanical studies comparing the strengths of the different fixation options that are available. PMID:21669346

  13. 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 ...

  14. Prevention of Thumb Web Space Contracture With Multiplanar External Fixation.

    PubMed

    Harper, Carl M; Iorio, Matthew L

    2016-09-01

    Thumb web space contracture following hand trauma can be disabling with numerous reconstructive procedures existing to correct the resultant deformity. Following marked soft tissue injury to the hand we utilized the Stryker Hoffmann II Micro External Fixator System to link the first and second metacarpals by a multiplanar system using 1.6 or 2.0 mm self-drilling half-pins and 3 mm carbon fiber connecting rods. This facilitated placement of the thumb in maximal palmar abduction as well as allowed adjustment of thumb position throughout the postoperative period. This technique was performed on 5 patients. Two patients were treated with a first web space external fixator for table saw injuries to the radial aspect of the hand. An additional 2 patients were treated with a first web space external fixator following metacarpophalangeal joint capsular release in the setting of thermal burns. A fifth patient underwent second ray amputation, trapeziectomy and trapezoidectomy for squamous cell carcinoma with subsequent stabilization with the external fixator. The external fixator was left in place until soft tissues were healed (average 5.5 wk). The patients were allowed to mobilize their hand in as much as the external fixator allowed, and no device-associated complications were noted. Thumb web space was preserved with passive and supple thumb circumduction and web space abduction/adduction in all patients at an average follow-up of 5 months. The average Quick Dash Score was 35±5 and the average Modern Activity Subjective Survey of 2007 was 30±8. PMID:27203276

  15. Quantifying the effect of drought on carbon dioxide-induced changes in competition between a C3 crop (tomato) and a C4 weed (Amaranthus retroflexus)

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Recent and projected increases in atmospheric carbon dioxide concentration ([CO2]) and subsequent effects on climate are likely to alter competitive outcomes of weeds and crops. Rising [CO2] per se could increase the competitive ability of C3 crops relative to C4 weeds; however, such an outcome may...

  16. Weakly Supervised Human Fixations Prediction.

    PubMed

    Zhang, Luming; Li, Xuelong; Nie, Liqiang; Yang, Yi; Xia, Yingjie

    2016-01-01

    Automatically predicting human eye fixations is a useful technique that can facilitate many multimedia applications, e.g., image retrieval, action recognition, and photo retargeting. Conventional approaches are frustrated by two drawbacks. First, psychophysical experiments show that an object-level interpretation of scenes influences eye movements significantly. Most of the existing saliency models rely on object detectors, and therefore, only a few prespecified categories can be discovered. Second, the relative displacement of objects influences their saliency remarkably, but current models cannot describe them explicitly. To solve these problems, this paper proposes weakly supervised fixations prediction, which leverages image labels to improve accuracy of human fixations prediction. The proposed model hierarchically discovers objects as well as their spatial configurations. Starting from the raw image pixels, we sample superpixels in an image, thereby seamless object descriptors termed object-level graphlets (oGLs) are generated by random walking on the superpixel mosaic. Then, a manifold embedding algorithm is proposed to encode image labels into oGLs, and the response map of each prespecified object is computed accordingly. On the basis of the object-level response map, we propose spatial-level graphlets (sGLs) to model the relative positions among objects. Afterward, eye tracking data is employed to integrate these sGLs for predicting human eye fixations. Thorough experiment results demonstrate the advantage of the proposed method over the state-of-the-art. PMID:26168451

  17. Rate my data: a hierarchical approach to quantifying the relative value of ecological data for the development of process-based models of the terrestrial carbon cycle

    NASA Astrophysics Data System (ADS)

    Keenan, T. F.; Richardson, A. D.; Davidson, E. A.; Munger, J. W.

    2011-12-01

    The proliferation of ecological observation networks over the past two decades has led to the accumulation of large amounts of data at different spatial and temporal scales. Process-based models of the terrestrial carbon cycle have been adopted as the most effective way of scaling this point based information through space and time. Given the large amounts of data available, model developers have begun to update the statistical and analytical tools they use, relying more heavily on techniques such as data mining and model-data fusion. Such techniques are useful in that they can synchronously use all measurements available to give a more complete integration of models with data, shedding light on model weaknesses and highlighting model aspects in need of further development. Although modelers and organizers of measurement campaigns are focused on similar questions of terrestrial carbon cycling, cooperative efforts between the two are rare. Modelers generally use a limited set of measurements, with large assumptions as to what measurements are most effective in reducing uncertainty in model projections. On the other hand, those involved in field work are often motivated by hypothesis driven science, and commonly do not have information as to what measurements would be most useful for modelers. The lack of information flow between the two communities is clearly sub-optimal. Here we address this problem by providing a hierarchical rating of the value of different data sources for reducing uncertainty in model estimates of terrestrial carbon cycling. We do so using a model-data fusion framework to iteratively integrate different data streams (both real data from Harvard forest, MA, USA, and synthetic data) with a process-based model of terrestrial carbon cycling. At each stage, the data source that leads to the greatest reduction in uncertainty in model projections is retained, and the additional benefit of each other data stream is tested independently. This process is

  18. Options for acetabular fixation surfaces.

    PubMed

    Klika, Alison K; Murray, Trevor G; Darwiche, Hussein; Barsoum, Wael K

    2007-01-01

    Aseptic loosening is the most common cause for revision total hip arthroplasty (THA). Due to poor long-term results with cemented acetabular components, cementless implants that rely on biologic fixation became popular in the United States for both primary and revision procedures in the early 1980s. Cementless acetabular components used in THA have been reported to have superior radiographic performance compared with cemented fixation, although the optimal method of acetabular fixation remains controversial. Cementless acetabular components require initial implant stability to allow for bone ingrowth and remodeling into the acetabular shell, providing long-term durability of the prosthesis. Many improved implant materials are available to facilitate bone growth and remodeling, including the 3 most common surface treatments; fibermesh, sintered beads, and plasma spray coatings. Recently added to these are porous metal surfaces, which have increased porosity and optimal pore sizes when compared with titanium fibermesh. The most studied of these materials is the titanium fibermesh fixation surface, which has demonstrated a mechanical failure rate of 1% at 10 to 15 years. This technology utilizes the diffusion bonding process to attach fiber metal pads to a titanium substrate using heat and pressure. The sintered bead fixation surface offers a porous coating of various sizes of spherical beads, achieved by the sintering process, and has been shown to provide long-term fixation. While there are less long-term published data regarding the titanium plasma spray surface, its early results have provided evidence of its durability, even in the face of significant osteolysis. The most recently added alternative fixation surface is porous tantalum metal, which offers potentially greater bone ingrowth and bone graft incorporation due to its high porosity (80%) and low modulus of elasticity (3 MPa). Porous tantalum implants have shown early favorable clinical results and have

  19. 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. PMID:24561827

  20. 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

  1. 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

    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

  2. Heterotrophic organisms dominate nitrogen fixation in the South Pacific Gyre

    PubMed Central

    Halm, Hannah; Lam, Phyllis; Ferdelman, Timothy G; Lavik, Gaute; Dittmar, Thorsten; LaRoche, Julie; D'Hondt, Steven; Kuypers, Marcel MM

    2012-01-01

    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 N2-fixation. The South Pacific Gyre (SPG) is the largest ocean gyre in the world, but measurements of N2-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 15N-labeled ammonium and leucine in our incubation experiments. N2-fixation was detectable throughout the upper 200 m at most stations, with rates ranging from 0.001 to 0.19 nM N h−1. N2-fixation in the SPG may account for the production of 8–20% of global oceanic new nitrogen. Interestingly, comparable 15N2-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. PMID:22170429

  3. 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. PMID:23965620

  4. 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

  5. Art expertise reduces influence of visual salience on fixation in viewing abstract-paintings.

    PubMed

    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

  6. 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.

  7. The mechanical and morphological properties of bone beneath internal fixation plates of differing rigidity.

    PubMed

    Claes, L

    1989-01-01

    The internal fixation of diaphyseal fractures by bone plates is a well recognized treatment. The normal physiological stress of bone is reduced by plates that cause a negative balance of bone-remodeling processes. Many investigators have shown that the degree of stress protection is dependent on the rigidity of the plates. It was the aim of this study to quantify mechanical and morphological changes at different locations in a plated diaphyseal bone as a function of differing plate rigidity. Two types of plates with the same size but different materials were used. The stainless steel plates had a modulus of elasticity and bending stiffness 3.2 times higher than the carbon fiber reinforced carbon plates. Both types of plates were applied to the intact right and left femora of six foxhounds for 6 months. The stiffer stainless steel plates led to a significantly higher bone loss and correspondingly greater loss of mechanical properties. These effects were greatest directly beneath the plate and less with increasing distance from the plate. PMID:2918416

  8. 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.

  9. OVEREXPRESSION OF A NODULE-ENHANCED MALATE DEHYDROGENASE INCREASES NITROGEN FIXATION IN ALFALFA

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Malate is crucial for symbiotic dinitrogen (N2) fixation, occurring in high concentrations in N2-fixing nodules as the major carbon source for bacteroid respiration. Malate also provides carbon skeletons for the assimilation of fixed nitrogen from ammonia into amino acids and is proposed to be invol...

  10. 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. PMID:27098528

  11. 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. PMID:27090595

  12. Evolution of the Hoffmann Fixators.

    PubMed

    Seligson, David

    2015-09-01

    Dr. Raoul Hoffmann of Geneva, Switzerland with the collaboration of Henri Jaquet developed the original Hoffmann external fixateur as a system for treating broken bones without necessarily opening a fracture site to reposition the bone ends. This system has evolved to a more flexible, modular concept with input from surgeons and engineers. In this chapter the modifications of the Hoffmann family of fixators are traced and the important steps in the development of the concept and the instrumentation emphasized. PMID:26458297

  13. 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. PMID:25892361

  14. 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

  15. 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

  16. 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.

  17. 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. PMID:22666002

  18. Tissue fixation and the effect of molecular fixatives on downstream staining procedures

    PubMed Central

    Howat, William J.; Wilson, Beverley A.

    2014-01-01

    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. PMID:24561827

  19. An oculomotor continuum from exploration to fixation

    PubMed Central

    Otero-Millan, Jorge; Macknik, Stephen L.; Langston, Rachel E.; Martinez-Conde, Susana

    2013-01-01

    During visual exploration, saccadic eye movements scan the scene for objects of interest. During attempted fixation, the eyes are relatively still but often produce microsaccades. Saccadic rates during exploration are higher than those of microsaccades during fixation, reinforcing the classic view that exploration and fixation are two distinct oculomotor behaviors. An alternative model is that fixation and exploration are not dichotomous, but are instead two extremes of a functional continuum. Here, we measured the eye movements of human observers as they either fixed their gaze on a small spot or scanned natural scenes of varying sizes. As scene size diminished, so did saccade rates, until they were continuous with microsaccadic rates during fixation. Other saccadic properties varied as function of image size as well, forming a continuum with microsaccadic parameters during fixation. This saccadic continuum extended to nonrestrictive, ecological viewing conditions that allowed all types of saccades and fixation positions. Eye movement simulations moreover showed that a single model of oculomotor behavior can explain the saccadic continuum from exploration to fixation, for images of all sizes. These findings challenge the view that exploration and fixation are dichotomous, suggesting instead that visual fixation is functionally equivalent to visual exploration on a spatially focused scale. PMID:23533278

  20. Quantifying black carbon from biomass burning by means of levoglucosan - a one-year time series at the Arctic observatory Zeppelin

    NASA Astrophysics Data System (ADS)

    Yttri, K. E.; Myhre, C. Lund; Eckhardt, S.; Fiebig, M.; Dye, C.; Hirdman, D.; Ström, J.; Klimont, Z.; Stohl, A.

    2014-06-01

    Levoglucosan, a highly specific tracer of particulate matter from biomass burning, has been used to study the influence of residential wood burning, agricultural waste burning and Boreal forest fire emissions on the Arctic atmosphere black carbon (BC) concentration. A one-year time series from March 2008 to March 2009 of levoglucosan has been established at the Zeppelin observatory in the European Arctic. Elevated concentrations of levoglucosan in winter (mean: 1.02 ng m-3) compared to summer (mean: 0.13 ng m-3) were observed, resembling the seasonal variation seen for e.g. sulfate and BC. The mean concentration in the winter period was 2-3 orders of magnitude lower than typical values reported for European urban areas in winter, and 1-2 orders of magnitude lower than European rural background concentrations. Episodes of elevated levoglucosan concentration lasting from 1 to 6 days were more frequent in winter than in summer and peak values were higher, exceeding 10 ng m-3 at the most. Concentrations of elemental carbon from biomass burning (ECbb) were obtained by combining measured concentrations of levoglucosan and emission ratios of levoglucosan and EC for wildfires/agricultural fires and for residential wood burning. Neglecting chemical degradation by OH provides minimum levoglucosan concentrations, corresponding to a mean ECbb concentration of 3.7 ± 1.2 ng m-3 in winter (October-April) and 0.8 ± 0.3 ng m-3 in summer (May-September), or 8.8 ± 4.5% of the measured equivalent black carbon (EBC) concentration in winter and 6.1 ± 3.4% in summer. When accounting for chemical degradation of levoglucosan by OH, an upper estimate of 31-45% of EBC could be attributed to ECbb* (ECbb adjusted for chemical degradation) in winter, whereas no reliable (<100%) upper estimate could be provided for summer for the degradation rates applied. Hence, fossil fuel sources appear to dominate the European Arctic BC concentrations in winter, whereas the very wide range obtained for

  1. Effects of soil data and simulation unit resolution on quantifying changes of soil organic carbon at regional scale with a biogeochemical process model.

    PubMed

    Zhang, Liming; Yu, Dongsheng; Shi, Xuezheng; Xu, Shengxiang; Xing, Shihe; Zhao, Yongcong

    2014-01-01

    Soil organic carbon (SOC) models were often applied to regions with high heterogeneity, but limited spatially differentiated soil information and simulation unit resolution. This study, carried out in the Tai-Lake region of China, defined the uncertainty derived from application of the DeNitrification-DeComposition (DNDC) biogeochemical model in an area with heterogeneous soil properties and different simulation units. Three different resolution soil attribute databases, a polygonal capture of mapping units at 1:50,000 (P5), a county-based database of 1:50,000 (C5) and county-based database of 1:14,000,000 (C14), were used as inputs for regional DNDC simulation. The P5 and C5 databases were combined with the 1:50,000 digital soil map, which is the most detailed soil database for the Tai-Lake region. The C14 database was combined with 1:14,000,000 digital soil map, which is a coarse database and is often used for modeling at a national or regional scale in China. The soil polygons of P5 database and county boundaries of C5 and C14 databases were used as basic simulation units. Results project that from 1982 to 2000, total SOC change in the top layer (0-30 cm) of the 2.3 M ha of paddy soil in the Tai-Lake region was +1.48 Tg C, -3.99 Tg C and -15.38 Tg C based on P5, C5 and C14 databases, respectively. With the total SOC change as modeled with P5 inputs as the baseline, which is the advantages of using detailed, polygon-based soil dataset, the relative deviation of C5 and C14 were 368% and 1126%, respectively. The comparison illustrates that DNDC simulation is strongly influenced by choice of fundamental geographic resolution as well as input soil attribute detail. The results also indicate that improving the framework of DNDC is essential in creating accurate models of the soil carbon cycle. PMID:24523922

  2. Effects of Soil Data and Simulation Unit Resolution on Quantifying Changes of Soil Organic Carbon at Regional Scale with a Biogeochemical Process Model

    PubMed Central

    Zhang, Liming; Yu, Dongsheng; Shi, Xuezheng; Xu, Shengxiang; Xing, Shihe; Zhao, Yongcong

    2014-01-01

    Soil organic carbon (SOC) models were often applied to regions with high heterogeneity, but limited spatially differentiated soil information and simulation unit resolution. This study, carried out in the Tai-Lake region of China, defined the uncertainty derived from application of the DeNitrification-DeComposition (DNDC) biogeochemical model in an area with heterogeneous soil properties and different simulation units. Three different resolution soil attribute databases, a polygonal capture of mapping units at 1∶50,000 (P5), a county-based database of 1∶50,000 (C5) and county-based database of 1∶14,000,000 (C14), were used as inputs for regional DNDC simulation. The P5 and C5 databases were combined with the 1∶50,000 digital soil map, which is the most detailed soil database for the Tai-Lake region. The C14 database was combined with 1∶14,000,000 digital soil map, which is a coarse database and is often used for modeling at a national or regional scale in China. The soil polygons of P5 database and county boundaries of C5 and C14 databases were used as basic simulation units. Results project that from 1982 to 2000, total SOC change in the top layer (0–30 cm) of the 2.3 M ha of paddy soil in the Tai-Lake region was +1.48 Tg C, −3.99 Tg C and −15.38 Tg C based on P5, C5 and C14 databases, respectively. With the total SOC change as modeled with P5 inputs as the baseline, which is the advantages of using detailed, polygon-based soil dataset, the relative deviation of C5 and C14 were 368% and 1126%, respectively. The comparison illustrates that DNDC simulation is strongly influenced by choice of fundamental geographic resolution as well as input soil attribute detail. The results also indicate that improving the framework of DNDC is essential in creating accurate models of the soil carbon cycle. PMID:24523922

  3. 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. PMID:21041396

  4. 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.

  5. Quantifying the Age Spectra of Particulate Organic Carbon in the Lower Mississippi River and Atchafalaya Outflow during the Great Flood of 2011 - How Does a High-Flow Event Effect Carbon Transport?

    NASA Astrophysics Data System (ADS)

    Rosenheim, B. E.; Roberts, B. J.; Allison, M. A.

    2011-12-01

    Biogeochemically, the role of rivers in transporting carbon to long-term sedimentary reservoirs is important to regulating atmospheric CO2 on several geologic time scales. Physically, sediment transport processes link carbon transport and depositional potential at different flow regimes. In the deltaic depositional setting, both types of processes dictate what carbon is stored, what is transported through the system, and what is reconverted to atmospheric CO2. To constrain first order relationships between sediment processes, biogeochemistry, and age spectra of transported carbon, we employ ramped pyrolysis radiocarbon analysis to samples taken in conjunction with bedload and suspended sediment surveys in the Mississippi River and with bioavailability data from the Atchafalaya River. Samples of particulate organic carbon (POC) were filtered from the Mississippi River and Atchafalaya outflow during the rising limb, crest, and falling limb of the 2011 Great Flood event. These samples were analyzed by ramped pyrolysis radiocarbon determination, whereby different temperature intervals of the bulk POC are pyrolyzed, collected, and measured for radiocarbon content. Past sampling of different flow regimes have shown older carbon being transported by both rivers during higher flow events, as well as increasing age of POC toward both river outflows. Deltaic deposits are constructed largely from high flow events, thus previous data indicate an attenuation of young carbon storage in such deposits with progressively larger flow events. Data from these samples will be compared to past sampled flow regimes to further assess the relationship between flow regime and age spectrum of POC. Ramped pyrolysis data from the Mississippi River will be compared to bedload and suspended sediment transport, and data from the Atchafalaya will be compared to bioavailability data from both the water column and the underlying sediments. These approaches will provide information about the

  6. 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. PMID:24575886

  7. Tibiofibular screw fixation for syndesmotic ruptures: a biomechanical analysis.

    PubMed

    Stein, G; Eichler, C; Ettmann, L; Koebke, J; Müller, L P; Thelen, U; Skouras, E

    2012-09-01

    The mechanisms of injuries to the tibiofibular syndesmosis include isolated rupture and rupture in combination with ankle fractures. Current concepts of surgical treatment are fixation using bioabsorbable screws, syndesmotic stapling, syndesmotic hooks, and the widely used screw fixation. Postoperative care utilises passive motion of the ankle joint either with or without axial weight-bearing. The aim of our investigation was to quantify the motion of the mortise during axial load. Therefore, photoelastic tests, on the one hand, and biomechanical tests of cadaveric specimens, on the other, using axial loads of up to 2,000 N were used. Our photoelastic investigations showed force distribution through the screw into the cranial and caudal parts of the distal fibula. Biomechanical testing showed a progressive dehiscence in both ruptured and fixated specimens up to 2.89 (ruptured) and 2.42 mm (despite screw). Our findings strongly suggest a concept of partial weight-bearing at most to support regeneration of scar tissue and to prevent the appearance of instability in the ankle joint. PMID:22415030

  8. Quantifying sources of black carbon in western North America using observationally based analysis and an emission tagging technique in the Community Atmosphere Model

    NASA Astrophysics Data System (ADS)

    Zhang, R.; Wang, H.; Hegg, D. A.; Qian, Y.; Doherty, S. J.; Dang, C.; Ma, P.-L.; Rasch, P. J.; Fu, Q.

    2015-11-01

    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 western 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.

  9. Quantifying sources of black carbon in Western North America using observationally based analysis and an emission tagging technique in the Community Atmosphere Model

    NASA Astrophysics Data System (ADS)

    Zhang, R.; Wang, H.; Hegg, D. A.; Qian, Y.; Doherty, S. J.; Dang, C.; Ma, P.-L.; Rasch, P. J.; Fu, Q.

    2015-05-01

    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 the Northwest USA and West 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.

  10. 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

  11. 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)

  12. The upward branch of the Brewer-Dobson circulation quantified by tropical stratospheric water vapor and carbon monoxide measurements from the Aura Microwave Limb Sounder

    NASA Astrophysics Data System (ADS)

    Minschwaner, K.; Su, H.; Jiang, J. H.

    2016-03-01

    The vertical distributions of water vapor (H2O) and carbon monoxide (CO) in the tropical lower stratosphere are controlled largely by their mixing ratios near the tropopause and by ascending motions as part of the Brewer-Dobson circulation (BDC). The upward propagation of seasonal variations imprinted on H2O and CO vertical profiles, often referred to as the tropical "tape recorder," can be used to derive the mean vertical velocity, w*>¯, in this region of the lower stratosphere where quasi-horizontal mixing is not strong enough to erase the seasonal tape recorder signals. We used Aura Microwave Limb Sounder observations of the tropical tape recorders from 2004 to 2014 to derive values of w*>¯ at pressures between 90 and 16 hPa (about 18 to 28 km altitude). Mean vertical profiles of w*>¯ are consistent with calculated velocities derived from net radiative heating rates based on observed temperature, humidity, cloud, and trace gas amounts. Temporal variations in w*>¯ are dominated by a quasi-biennial oscillation (QBO) and seasonal cycles, with maximum upwelling coinciding with easterly phases of the QBO in zonal wind shear and during the November-December period of the seasonal cycle. Both the QBO and annual modes emphasize the importance of wave phenomena in modulating the strength of tropical upwelling in the BDC. Interannual anomalies in w*>¯ are correlated with variations in the El Niño-Southern Oscillation (ENSO), with enhanced stratospheric upwelling during El Niño phases and reduced upwelling during La Niña. A small decreasing linear trend (~6%/decade) in w*>¯ is observed from 2005 to 2014, although confidence is low in identifying such a trend as part of a long-term change due to the influence of ENSO over this period.

  13. Quantifying sources of black carbon in Western North America using observationally based analysis and an emission tagging technique in the Community Atmosphere Model

    DOE PAGESBeta

    Zhang, R.; Wang, H.; Hegg, D. A.; Qian, Y.; Doherty, S. J.; Dang, C.; Ma, P.-L.; Rasch, P. J.; Fu, Q.

    2015-05-04

    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 the Northwest USA andmore » West 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

  14. Quantifying sources of black carbon in western North America using observationally based analysis and an emission tagging technique in the Community Atmosphere Model

    DOE PAGESBeta

    Zhang, R.; Wang, H.; Hegg, D. A.; Qian, Y.; Doherty, S. J.; Dang, C.; Ma, P.-L.; Rasch, P. J.; Fu, Q.

    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

  15. Quantifying sources of black carbon in Western North America using observationally based analysis and an emission tagging technique in the Community Atmosphere Model

    SciTech Connect

    Zhang, Rudong; Wang, Hailong; Hegg, D. A.; Qian, Yun; Doherty, Sarah J.; Dang, Cheng; Ma, Po-Lun; Rasch, Philip J.; Fu, Qiang

    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 the Northwest USA and West 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.

  16. 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.

  17. 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.

  18. 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.

  19. 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…

  20. Can central hexagon peak latency provide a clue to fixation within the mfERG.

    PubMed

    Hagan, R P; Small, A; Fisher, A C; Brown, M C

    2010-04-01

    The mfERG has proven to be a useful tool in determining central retinal and macular function. It is, however, reliant on good subject co-operation and fixation. This cannot always be guaranteed due to visual impairment or poor co-operation. Whilst a change in fixation is easy to identify with camera monitoring of the subject, a small eccentric fixation can be difficult to notice or quantify. Whilst the problem of fixation can be obviated by stimulating the retina directly with SLO (Scanning Laser Ophthalmoscope), this is expensive and a certain amount of expertize in optics is required to properly stimulate the retina. In this study, peak latency of response was investigated to see whether it changed across the retina and whether this measure could be used to help assess fixation. Eighteen normal eyes were stimulated using a 60 Hz CRT monitor with only 2 hexagons, one central and one peripheral. These hexagons were presented at three stimulation rates, fast (no filler frames between steps of the m-sequence) and slow (4 and 7 black filler frames between each step of the m-sequence), under all conditions significantly increased central hexagon latencies were noted. In a smaller experiment with 19 hexagons and only 4 subjects, it was noted a significant delay in latency was observed in ring 1 compared to ring 2 and 3 with central fixation, but not when the subjects fixed mid-peripheral and in the periphery to slow stimulation, showing that the central hexagon response was only delayed in the central hexagon when there was adequate fixation. This study suggests that latency could provide a clue to fixation particular at slow rates thereby improving the quality and confidence of recordings made clinically. PMID:19949833

  1. 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...

  2. 21 CFR 886.1290 - Fixation device.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... 21 Food and Drugs 8 2011-04-01 2011-04-01 false Fixation device. 886.1290 Section 886.1290 Food and Drugs FOOD AND DRUG ADMINISTRATION, DEPARTMENT OF HEALTH AND HUMAN SERVICES (CONTINUED) MEDICAL DEVICES OPHTHALMIC DEVICES Diagnostic Devices § 886.1290 Fixation device. (a) Identification. A...

  3. 21 CFR 886.1290 - Fixation device.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 21 Food and Drugs 8 2010-04-01 2010-04-01 false Fixation device. 886.1290 Section 886.1290 Food and Drugs FOOD AND DRUG ADMINISTRATION, DEPARTMENT OF HEALTH AND HUMAN SERVICES (CONTINUED) MEDICAL DEVICES OPHTHALMIC DEVICES Diagnostic Devices § 886.1290 Fixation device. (a) Identification. A...

  4. 21 CFR 886.1290 - Fixation device.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... 21 Food and Drugs 8 2014-04-01 2014-04-01 false Fixation device. 886.1290 Section 886.1290 Food and Drugs FOOD AND DRUG ADMINISTRATION, DEPARTMENT OF HEALTH AND HUMAN SERVICES (CONTINUED) MEDICAL DEVICES OPHTHALMIC DEVICES Diagnostic Devices § 886.1290 Fixation device. (a) Identification. A...

  5. Whole Animal Perfusion Fixation for Rodents

    PubMed Central

    Gage, Gregory J.; Kipke, Daryl R.; Shain, William

    2012-01-01

    The goal of fixation is to rapidly and uniformly preserve tissue in a life-like state. While placing tissue directly in fixative works well for small pieces of tissue, larger specimens like the intact brain pose a problem for immersion fixation because the fixative does not reach all regions of the tissue at the same rate 5,7. Often, changes in response to hypoxia begin before the tissue can be preserved 12. The advantage of directly perfusing fixative through the circulatory system is that the chemical can quickly reach every corner of the organism using the natural vascular network. In order to utilize the circulatory system most effectively, care must be taken to match physiological pressures 3. It is important to note that physiological pressures are dependent on the species used. Techniques for perfusion fixation vary depending on the tissue to be fixed and how the tissue will be processed following fixation. In this video, we describe a low-cost, rapid, controlled and uniform fixation procedure using 4% paraformaldehyde perfused via the vascular system: through the heart of the rat to obtain the best possible preservation of the brain for immunohistochemistry. The main advantage of this technique (vs. gravity-fed systems) is that the circulatory system is utilized most effectively. PMID:22871843

  6. Outcome comparison of Lisfranc injuries treated through dorsal plate fixation versus screw fixation

    PubMed Central

    Hu, Sun-jun; Chang, Shi-min; Li, Xiao-hua; Yu, Guang-rong

    2014-01-01

    OBJECTIVE: The objective of this prospective study was to test whether the treatment of Lisfranc injuries with open reduction and dorsal plate fixation would have the same or better functional outcomes as treatment with standard trans-articular screw fixation. METHODS: Sixty patients with primarily isolated Lisfranc joint injury were treated by open reduction and dorsal plate fixation or standard screw fixation. The patients were followed on average for 31 months. Evaluation was performed with patients' chief complaint, clinical examination, radiography, and AOFAS Midfoot Scale. RESULTS: Thirty two patients were treated with open reduction and dorsal plate fixation, and twenty eight patients were treated with open reduction and screw fixation. After two years follow-up, the mean AOFAS Midfoot score was 83.1 points in the dorsal plate fixation group and 78.5 points in the screw fixation group (p<0.01). Of the dorsal plate fixation group, radiographic analysis revealed anatomic reduction in twenty-nine patients (90.6%, 29/32) and nonanatomic reduction in three patients. Of the screw fixation group, radiographic analysis revealed anatomic reduction in twenty-three patients and nonanatomic reduction in five patients (82.1%, 23/28). CONCLUSIONS: Open reduction and dorsal plate fixation for a dislocated Lisfranc injury do have better short and median term outcome and a lower reoperation rate than standard screw ORIF. In our experience, we recommend using dorsal plate in ORIF on dislocated Lisfranc injuries. Level of Evidence II, Prospective Comparative Study. PMID:25538478

  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. Optimizing Stability in Femoral Neck Fracture Fixation.

    PubMed

    Ye, Ye; Hao, Jiandong; Mauffrey, Cyril; Hammerberg, E Mark; Stahel, Philip F; Hak, David J

    2015-10-01

    Optimizing stability of femoral neck fracture fixation is important in obtaining a successful outcome. The mechanical problems and strategies for achieving optimal stability differ depending on patients' age and degree of osteoporosis. Femoral neck fractures in younger adults usually result from high-energy trauma and have a vertical fracture pattern. Strategies for optimizing fixation stability in this group include placing additional screws at right angles to the fracture plane and medial buttress plate augmentation. In elderly patients, screw position relative to the intact cortical femoral neck bone is of critical importance. Additional strategies for optimizing fixation stability in this group include the concept of length stable fixation, use of adjunctive calcium phosphate cement, and use of novel fixed angle fixation implants. PMID:26488776

  9. Visual Fixation in Chiari Type II Malformation

    PubMed Central

    Salman, Michael S.; Sharpe, James A.; Lillakas, Linda; Dennis, Maureen; Steinbach, Martin J.

    2011-01-01

    Chiari type II malformation is a congenital deformity of the hindbrain. Square wave jerks are horizontal involuntary saccades that interrupt fixation. Cerebellar disorders may be associated with frequent square wave jerks or saccadic oscillations such as ocular flutter. The effects of Chiari type II malformation on visual fixation are unknown. We recorded eye movements using an eye tracker in 21 participants with Chiari type II malformation, aged 8 to 19 years while they fixated a target for 1 minute. Thirty-eight age-matched healthy participants served as controls. Square wave jerks’ parameters were similar in the 2 groups. Saccadic oscillations were not seen. Chiari type II malformation is not associated with pathological square wave jerks or abnormal saccadic oscillations. The congenital nature of this deformity may permit compensation that preserves stable visual fixation. Alternatively, the deformity of Chiari type II malformation may spare parts of the cerebellum that usually cause fixation instability when damaged. PMID:19182152

  10. Subperiosteal brow lifts without fixation.

    PubMed

    Troilius, Carl

    2004-11-01

    Most surgeons today advocate an endoscopic subperiosteal brow lift for surgical correction of the upper third of the face. At the author's clinic, this operation has been performed since 1994 and the subgaleal bicoronal brow lift is no longer used. In earlier investigations, the author showed that the subperiosteal approach (n = 60) gives a better result than the subgaleal method (n = 60) when compared 1 year after surgery. In the literature, however, there are no published data regarding the long-term results of subperiosteal brow lifts. The author took material from his earlier investigations and looked at the same patients 5 years postoperatively. He compared the subperiosteal approach (n = 30) with the subgaleal brow lift (n = 15) and found that after 5 years the brows of the subgaleal patients were on the same level as they were before surgery, but in the group of subperiosteal brow lifts, almost all of the brows were higher 5 years after surgery than they were 1 year after surgery, with a mean increase in height of 2.5 mm. These findings led the author to the question whether scalp fixation was necessary at all when performing a subperiosteal brow lift. He performed 20 subperiosteal endoscopic brow lifts where scalp fixation was not used at all, relying only on changing the balance of muscle vectors around the eyebrows. Using a computerized instrument, measurements were made of the distance between the medial canthus and the top of the eyebrow, the midpupil and the top of the eyebrow, and the lateral canthus and the top of the eyebrow. All patients were measured before and 1 year after surgery. The author found an increase of the vertical height from the midpupil to the top of the brow, with an average increase of 3.9 mm. There were no differences between patients who had only a brow lift and those who had a brow lift and an upper blepharoplasty at the same time. The author concludes that for most cases where an increased vertical height of the brows of more

  11. 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

  12. Open reduction and internal fixation compared to closed reduction and external fixation in distal radial fractures

    PubMed Central

    Kopylov, Philippe; Geijer, Mats; Tägil, Magnus

    2009-01-01

    Background and purpose In unstable distal radial fractures that are impossible to reduce or to maintain in reduced position, the treatment of choice is operation. The type of operation and the choice of implant, however, is a matter of discussion. Our aim was to investigate whether open reduction and internal fixation would produce a better result than traditional external fixation. Methods 50 patients with an unstable or comminute distal radius fracture were randomized to either closed reduction and bridging external fixation, or open reduction and internal fixation using the TriMed system. The primary outcome parameter was grip strength, but the patients were followed for 1 year with objective clinical assessment, subjective outcome using DASH, and radiographic examination. Results At 1 year postoperatively, grip strength was 90% (SD 16) of the uninjured side in the internal fixation group and 78% (17) in the external fixation group. Pronation/supination was 150° (15) in the internal fixation group and 136° (20) in the external fixation group at 1 year. There were no differences in DASH scores or in radiographic parameters. 5 patients in the external fixation group were reoperated due to malunion, as compared to 1 in the internal fixation group. 7 other cases were classified as radiographic malunion: 5 in the external fixation group and 2 in the internal fixation group. Interpretation Internal fixation gave better grip strength and a better range of motion at 1 year, and tended to have less malunions than external fixation. No difference could be found regarding subjective outcome. PMID:19857180

  13. The effectiveness of standard povidone iodine surgical preparation in decontaminating external fixator components.

    PubMed

    Hak, David J; Wiater, Patrick J; Williams, Robert M; Pierson, Carl L

    2005-12-01

    The purpose of this study was to evaluate the effectiveness of standard iodine surgical scrubs to remove bacteria from external fixator components. Sterile adjustable external fixation clamps, Schanz pins, and carbon fibre rods were coated with a sterile protein solution and immersed in solution of coagulase negative Staphylococcus (10(3)organisms/ml). They were then decontaminated in standard fashion using a povidone iodine scrub and paint solution. After neutralisation the components were sonicated, serially diluted, plated on blood agar, and incubated for 24h. Unassembled external fixation components were examined individually, and as assembled pin-rod-clamp constructs with and without manipulation of the clamp. Of the three external fixation components (pins, rods, clamps) the highest number of bacterial colony forming units was seen on the external fixation clamps. Manipulation of the assembled construct significantly increased the mean bacterial colony counts compared to the assembled non-manipulated construct (p=0.0007). Standard surgical preparation does not remove all bacteria from external fixators during subsequent operative procedures. PMID:16243337

  14. 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

  15. Symbiotic Nitrogen Fixation and the Challenges to Its Extension to Nonlegumes.

    PubMed

    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; Ané, Jean-Michel; Peters, John W

    2016-07-01

    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

  16. Complement fixation by rheumatoid factor.

    PubMed Central

    Tanimoto, K; Cooper, N R; Johnson, J S; Vaughan, J H

    1975-01-01

    The capacity for fixation and activation of hemolytic complement by polyclonal IgM rheumatoid factors (RF) isolated from sera of patients with rheumatoid arthritis and monoclonal IgM-RF isolated from the cryoprecipitates of patients with IgM-IgG mixed cryoglobulinemia was examined. RF mixed with aggregated, reduced, and alkylated human IgG (Agg-R/A-IgG) in the fluid phase failed to significantly reduce the level of total hemolytic complement, CH50, or of individual complement components, C1, C2, C3, and C5. However, sheep erythrocytes (SRC) coated with Agg-R/A-IgG or with reduced and alkylated rabbit IgG anti-SRC antibody were hemolyzed by complement in the presence of polyclonal IgM-RF. Human and guinea pig complement worked equally well. The degree of hemolysis was in direct proportion to the hemagglutination titer of the RF against the same coated cells. Monoclonal IgM-RF, normal human IgM, and purified Waldenström macroglobulins without antiglobulin activity were all inert. Hemolysis of coated SRC by RF and complement was inhibited by prior treatment of the complement source with chelating agents, hydrazine, cobra venom factor, specific antisera to C1q, CR, C5, C6, or C8, or by heating at 56 degrees C for 30 min. Purified radiolabeled C4, C3, and C8 included in the complement source were bound to hemolysed SRC in direct proportion to the degree of hemolysis. These data indicate that polyclonal IgM-RF fix and activate complement via the classic pathway. The system described for assessing complement fixation by isolated RF is readily adaptable to use with whole human serum. PMID:1078825

  17. 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

  18. Contribution of mono and polysaccharides to heterotrophic N2 fixation at the eastern Mediterranean coastline.

    PubMed

    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

  19. Salient in space, salient in time: Fixation probability predicts fixation duration during natural scene viewing.

    PubMed

    Einhäuser, Wolfgang; Nuthmann, Antje

    2016-09-01

    During natural scene viewing, humans typically attend and fixate selected locations for about 200-400 ms. Two variables characterize such "overt" attention: the probability of a location being fixated, and the fixation's duration. Both variables have been widely researched, but little is known about their relation. We use a two-step approach to investigate the relation between fixation probability and duration. In the first step, we use a large corpus of fixation data. We demonstrate that fixation probability (empirical salience) predicts fixation duration across different observers and tasks. Linear mixed-effects modeling shows that this relation is explained neither by joint dependencies on simple image features (luminance, contrast, edge density) nor by spatial biases (central bias). In the second step, we experimentally manipulate some of these features. We find that fixation probability from the corpus data still predicts fixation duration for this new set of experimental data. This holds even if stimuli are deprived of low-level images features, as long as higher level scene structure remains intact. Together, this shows a robust relation between fixation duration and probability, which does not depend on simple image features. Moreover, the study exemplifies the combination of empirical research on a large corpus of data with targeted experimental manipulations. PMID:27627736

  20. 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.

  1. Immaturity of Visual Fixations in Dyslexic Children

    PubMed Central

    Tiadi, Aimé; Gérard, Christophe-Loïc; Peyre, Hugo; Bui-Quoc, Emmanuel; Bucci, Maria Pia

    2016-01-01

    To our knowledge, behavioral studies recording visual fixations abilities in dyslexic children are scarce. The object of this article is to explore further the visual fixation ability in dyslexics compared to chronological age-matched and reading age-matched non-dyslexic children. Fifty-five dyslexic children from 7 to 14 years old, 55 chronological age-matched non-dyslexic children and 55 reading age-matched non-dyslexic children participated to this study. Eye movements from both eyes were recorded horizontally and vertically by a video-oculography system (EyeBrain® T2). The fixation task consisted in fixating a white-filled circle appearing in the center of the screen for 30 s. Results showed that dyslexic children produced a significantly higher number of unwanted saccades than both groups of non-dyslexic children. Moreover, the number of unwanted saccades significantly decreased with age in both groups of non-dyslexic children, but not in dyslexics. Furthermore, dyslexics made more saccades during the last 15 s of fixation period with respect to both groups of non-dyslexic children. Such poor visual fixation capability in dyslexic children could be due to impaired attention abilities, as well as to an immaturity of the cortical areas controlling the fixation system. PMID:26924975

  2. Distal Humerus Fractures: Open Reduction Internal Fixation.

    PubMed

    Mighell, Mark A; Stephens, Brent; Stone, Geoffrey P; Cottrell, Benjamin J

    2015-11-01

    Distal humerus fractures are challenging injuries for the upper extremity surgeon. However, recent techniques in open reduction internal fixation have been powerful tools in getting positive outcomes. To get such results, the surgeon must be aware of how to properly use these techniques in their respective practices. The method of fixation depends on the fracture, taking the degree of comminution and the restoration of the columns and articular surface into account. This article helps surgeons understand the concepts behind open reduction internal fixation of the distal humerus and makes them aware of pitfalls that may lead to negative results. PMID:26498548

  3. Arthroscopic fixation of type III acromioclavicular dislocations.

    PubMed

    Somers, Jan F A; Van der Linden, Dietert

    2007-10-01

    Type III Acromio-Clavicular Joint dislocations can be treated successfully by surgical stabilisation in situ, with or without reconstruction of the coracoclavicular ligaments. The authors describe a simple and reliable mode of fixation, performed arthroscopically. The technique can be used for in situ fixation, or as part of an arthroscopically assisted Weaver and Dunn procedure. Using a metallic anchor loaded with a braided polyfilament suture, a strong and reliable fixation of the clavicle to the coracoid process is obtained. No hardware removal is necessary. Concomitant glenohumeral pathology can be treated simultaneously. PMID:18019910

  4. 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

  5. Biodegradable fixation of rabbit osteotomies.

    PubMed

    Vainionpää, S; Vihtonen, K; Mero, M; Pätiälä, H; Rokkanen, P; Kilpikari, J; Törmälä, P

    1986-06-01

    Osteotomies of the tibial diaphysis were operatively fixed with biodegradable implants in 44 rabbits. Polyglycolic acid (PGA)/polylactic acid (PLA) copolymer implants reinforced with 7 per cent carbon fibre and overlaid with gold were used in 24 rabbits. Poly-beta-hydroxy butyric acid (PHBA) with carbon fibre reinforcement and gold surfacing were used in 20 rabbits. No external support was used. Unsatisfactory results were achieved with the PGA/PLA copolymer implants. Better results were achieved in 15 out of 20 rabbits whose osteotomies were fixed with carbon fibre-reinforced PHBA implants. PMID:3739665

  6. 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.

  7. 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. PMID:26151101

  8. 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…

  9. 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.

  10. 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…

  11. Tibial rotational osteotomy with intramedullary nail fixation

    PubMed Central

    Stevens, Peter M.

    2009-01-01

    There are several theoretic advantages of using intramedullary rod fixation for tibial osteotomy fixation. We performed a retrospective review of patients who were treated with a mid-diaphyseal osteotomy of the tibia fixed with an intramedullary rod for isolated, symptomatic tibial torsion. Forty patients (59 tibias) were included in the study and were followed for a minimum of 12 months or until rod removal (average follow-up 22.6 months). Major complication rate was 8.5%, which is comparable to alternative methods of fixation. We believe that intramedullary rods are a safe alternative for fixation of tibial rotational osteotomy in patients with physeal closure. PMID:19941168

  12. Periprosthetic fracture fixation in osteoporotic bone.

    PubMed

    Lenz, Mark; Lehmann, Wolfgang; Wähnert, Dirk

    2016-06-01

    Fixation techniques of periprosthetic fractures are far from ideal although the number of this entity is rising. The presence of an intramedullary implant generates its own fracture characteristics since stiffness is altered along the bone shaft and certain implant combinations affect load resistance of the bone. Influencing factors are cement fixation of the implant, intramedullary locking and extramedullary or intramedullary localization of the implant and the cortical thickness of the surrounding bone. Cerclage wires are ideally suited to fix radially displaced fragments around an intramedullary implant but they are susceptible to axial and torsional load. Screws should be added if these forces have to be neutralized. Stability of the screw fixation itself can be enhanced by embracement configuration around the intramedullary implant. Poor bone stock quality, often being present in metaphyseal areas limits screw fixation. Cement augmentation is an attractive option in this field to enhance screw purchase. PMID:27338227

  13. Bicondylar tibial fractures: Internal or external fixation?

    PubMed

    Kumar, Gunasekaran; Peterson, Nicholas; Narayan, Badri

    2011-03-01

    Bicondylar fractures of the tibia, representing the Schatzker V and VI fractures represent a challenging problem. Any treatment protocol should aim at restoring articular congruity and the metaphyseo-diaphsyeal dissociation (MDD)-both of these are equally important to long-term outcome. Both internal and external fixations have their proponents, and each method of treatment is associated with its unique features and complications. We review the initial and definitive management of these injuries, and the advantages and disadvantages of each method of definitive fixation. We suggest the use of a protocol for definitive management, using either internal or external fixation as deemed appropriate. This protocol is based on the fracture configuration, local soft tissue status and patient condition. In a nutshell, if the fracture pattern and soft tissue status are amenable plate fixation (single or double) is performed, otherwise limited open reduction and articular surface reconstruction with screws and circular frame is performed. PMID:21430865

  14. A simple and inexpensive external fixator.

    PubMed

    Noor, M A

    1988-11-01

    A simple and inexpensive external fixator has been designed. It is constructed of galvanized iron pipe and mild steel bolts and nuts. It can easily be manufactured in a hospital workshop with a minimum of tools. PMID:3267638

  15. Tamponade following sternoclavicular dislocation surgical fixation.

    PubMed

    Bensafi, H; Laffosse, J-M; Taam, S A; Molinier, F; Chaminade, B; Puget, J

    2010-05-01

    The authors report a case of posterior sternoclavicular dislocation surgically reduced and stabilized with tenodesis, according to the Burrows technique completed by temporary wire fixation. The patient presented postoperative pericardiac tamponade appearing progressively from brachiocephalic blood vessels bleeding. Emergency drainage was surgically placed associated with removal of the material, thus curing the patient. This complication, although exceptional, formally contraindicates the use of wire fixation in surgery of the sternoclavicular joint. PMID:20488152

  16. Tips and Tricks in Mallet Fracture Fixation.

    PubMed

    Chin, Yuin Cheng; Foo, Tun-Lin

    2016-10-01

    We describe three steps to aid fracture assessment and fixation in the extensor block pin technique for mallet fractures. The first step is the use of fluoroscopy in the initial assessment to determine indication for fixation. Next is the use of supplementary extension block pin to control larger dorsal fragments. The third technique described details the steps of open reduction of nascently malunited fractures. PMID:27595969

  17. 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

  18. 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. PMID:26812487

  19. Fixational eye movements predict visual sensitivity.

    PubMed

    Scholes, Chris; McGraw, Paul V; Nyström, Marcus; Roach, Neil W

    2015-10-22

    During steady fixation, observers make small fixational saccades at a rate of around 1-2 per second. Presentation of a visual stimulus triggers a biphasic modulation in fixational saccade rate-an initial inhibition followed by a period of elevated rate and a subsequent return to baseline. Here we show that, during passive viewing, this rate signature is highly sensitive to small changes in stimulus contrast. By training a linear support vector machine to classify trials in which a stimulus is either present or absent, we directly compared the contrast sensitivity of fixational eye movements with individuals' psychophysical judgements. Classification accuracy closely matched psychophysical performance, and predicted individuals' threshold estimates with less bias and overall error than those obtained using specific features of the signature. Performance of the classifier was robust to changes in the training set (novel subjects and/or contrasts) and good prediction accuracy was obtained with a practicable number of trials. Our results indicate a tight coupling between the sensitivity of visual perceptual judgements and fixational eye control mechanisms. This raises the possibility that fixational saccades could provide a novel and objective means of estimating visual contrast sensitivity without the need for observers to make any explicit judgement. PMID:26468244

  20. Maxwellian Eye Fixation during Natural Scene Perception

    PubMed Central

    Duchesne, Jean; Bouvier, Vincent; Guillemé, Julien; Coubard, Olivier A.

    2012-01-01

    When we explore a visual scene, our eyes make saccades to jump rapidly from one area to another and fixate regions of interest to extract useful information. While the role of fixation eye movements in vision has been widely studied, their random nature has been a hitherto neglected issue. Here we conducted two experiments to examine the Maxwellian nature of eye movements during fixation. In Experiment 1, eight participants were asked to perform free viewing of natural scenes displayed on a computer screen while their eye movements were recorded. For each participant, the probability density function (PDF) of eye movement amplitude during fixation obeyed the law established by Maxwell for describing molecule velocity in gas. Only the mean amplitude of eye movements varied with expertise, which was lower in experts than novice participants. In Experiment 2, two participants underwent fixed time, free viewing of natural scenes and of their scrambled version while their eye movements were recorded. Again, the PDF of eye movement amplitude during fixation obeyed Maxwell's law for each participant and for each scene condition (normal or scrambled). The results suggest that eye fixation during natural scene perception describes a random motion regardless of top-down or of bottom-up processes. PMID:23226987

  1. Maxwellian eye fixation during natural scene perception.

    PubMed

    Duchesne, Jean; Bouvier, Vincent; Guillemé, Julien; Coubard, Olivier A

    2012-01-01

    When we explore a visual scene, our eyes make saccades to jump rapidly from one area to another and fixate regions of interest to extract useful information. While the role of fixation eye movements in vision has been widely studied, their random nature has been a hitherto neglected issue. Here we conducted two experiments to examine the Maxwellian nature of eye movements during fixation. In Experiment 1, eight participants were asked to perform free viewing of natural scenes displayed on a computer screen while their eye movements were recorded. For each participant, the probability density function (PDF) of eye movement amplitude during fixation obeyed the law established by Maxwell for describing molecule velocity in gas. Only the mean amplitude of eye movements varied with expertise, which was lower in experts than novice participants. In Experiment 2, two participants underwent fixed time, free viewing of natural scenes and of their scrambled version while their eye movements were recorded. Again, the PDF of eye movement amplitude during fixation obeyed Maxwell's law for each participant and for each scene condition (normal or scrambled). The results suggest that eye fixation during natural scene perception describes a random motion regardless of top-down or of bottom-up processes. PMID:23226987

  2. Variable Nitrogen Fixation in Wild Populus.

    PubMed

    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

  3. 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

  4. 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. PMID:24037375

  5. 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.

  6. 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

  7. Quantifying Health Across Populations.

    PubMed

    Kershnar, Stephen

    2016-07-01

    In this article, I argue that as a theoretical matter, a population's health-level is best quantified via averagism. Averagism asserts that the health of a population is the average of members' health-levels. This model is better because it does not fall prey to a number of objections, including the repugnant conclusion, and because it is not arbitrary. I also argue that as a practical matter, population health-levels are best quantified via totalism. Totalism asserts that the health of a population is the sum of members' health-levels. Totalism is better here because it fits better with cost-benefit analysis and such an analysis is the best practical way to value healthcare outcomes. The two results are compatible because the theoretical and practical need not always align, whether in general or in the context of population health. PMID:26766584

  8. 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

  9. 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.

  10. Application of nano composites in the fixation and processing of histological material.

    PubMed

    Burkadze, G; Kikalishvili, N; Kargareteli, V

    2015-04-01

    The pathological examination is one of the longest in the list of medical tests. Most of this time is spent on preparation of the microslide, which involves the following phases: fixation, processing, cutting and staining. Our objective was to develop optimal regime of fixation and processing (namely, 1 and 2 stage of processing) by applying Nano composites for the development of quick, cheap and qualitative protocol of material processing. 24 various types and concentration Nano composite fixation device were used in study, made by applying single-layer, surface modified carbon nanotubes in the conditions of ultrasound treatment by UP200HT device. Also was developed Nano tubular network integration method in bio-material in the conditions of ultrasound treatment, when besides Nano composite fixation devices various Nano composite reagents (namely, 0.003% and 0.005% Nano composite alcohols) were used in material processing. There were carried out 126 experiments in sum and experiments were checked through standard processing. Fixation devices produced from formalin and alcohol base showed good result of fixation - by using them in the conditions of ultrasound treatment, practically 24 times decreased the period of fixation (as a standard of fixation was applied minimal rate of ASCO/Cap guideline dated by 2008 - 6 hours). The best way was considered Nano composite fixation device of NH2 functionalization of the 0.002% concentration on alcohol base A19 (according to the fixation rate 15 minutes with ultrasound maintenance). Nano tubular network integration method enabled us to have decreased the number of alcohols of ascending concentration and delay time in them. High time efficiency factor - Tk = 47.5% (time of new processing/ standard processing time X100) and high efficiency factor of the expense of reagents - Rk = 33% (number of reagents spent at the time of new processing/number of spent reagents at the time of standard processing X100) is obtained as a result

  11. Direct nitrogen fixation at the edges of graphene nanoplatelets as efficient electrocatalysts for energy conversion

    NASA Astrophysics Data System (ADS)

    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

    2013-07-01

    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.

  12. 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

  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. 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.

  15. Nitrogen Fixation in Denitrified Marine Waters

    PubMed Central

    Fernandez, Camila; Farías, Laura; Ulloa, Osvaldo

    2011-01-01

    Nitrogen fixation is an essential process that biologically transforms atmospheric dinitrogen gas to ammonia, therefore compensating for nitrogen losses occurring via denitrification and anammox. Currently, inputs and losses of nitrogen to the ocean resulting from these processes are thought to be spatially separated: nitrogen fixation takes place primarily in open ocean environments (mainly through diazotrophic cyanobacteria), whereas nitrogen losses occur in oxygen-depleted intermediate waters and sediments (mostly via denitrifying and anammox bacteria). Here we report on rates of nitrogen fixation obtained during two oceanographic cruises in 2005 and 2007 in the eastern tropical South Pacific (ETSP), a region characterized by the presence of coastal upwelling and a major permanent oxygen minimum zone (OMZ). Our results show significant rates of nitrogen fixation in the water column; however, integrated rates from the surface down to 120 m varied by ∼30 fold between cruises (7.5±4.6 versus 190±82.3 µmol m−2 d−1). Moreover, rates were measured down to 400 m depth in 2007, indicating that the contribution to the integrated rates of the subsurface oxygen-deficient layer was ∼5 times higher (574±294 µmol m−2 d−1) than the oxic euphotic layer (48±68 µmol m−2 d−1). Concurrent molecular measurements detected the dinitrogenase reductase gene nifH in surface and subsurface waters. Phylogenetic analysis of the nifH sequences showed the presence of a diverse diazotrophic community at the time of the highest measured nitrogen fixation rates. Our results thus demonstrate the occurrence of nitrogen fixation in nutrient-rich coastal upwelling systems and, importantly, within the underlying OMZ. They also suggest that nitrogen fixation is a widespread process that can sporadically provide a supplementary source of fixed nitrogen in these regions. PMID:21687726

  16. Percutaneous limited internal fixation combined with external fixation to treat open pelvic fractures concomitant with perineal lacerations.

    PubMed

    Chen, Linwei; Zhang, Guoyou; Wu, Yaoshen; Guo, Xiaoshan; Yuan, Wen

    2011-12-01

    External fixation combined with colostomy is a traditional management of the pelvic fractures associated with perineal lacerations. However, malunion and dysfunction caused by malreduction and loss of reduction are common. One-stage definitive fixation without soft tissue harassment is requisite for the treatment. The purpose of this study was to assess the outcome of 1-stage definitive fixation by combining percutaneous limited internal fixation and external fixation in the treatment of pelvic fractures with perineal lacerations. Eighteen adults with high-energy unstable pelvic ring fractures associated with perineal lacerations were admitted between June 2003 and December 2010. Mean follow-up was 28 months. After wound closure and colostomy, 10 patients received external fixation and percutaneous screw fixation, and 8 patients underwent external fixation. Demographics, wound and fracture classification, and Injury Severity Score were comparable between the groups (P>.05). Initial reduction quality was comparable between the groups (P=.14), but the loss of reduction during follow-up was more significant in the external fixation group (P=.004). Combined fixation achieved better functional results than external fixation (P=.02). There were 2 cases of superficial wound infection in each group (P=1.0). By combining debridement, wound closure, colostomy, percutaneous limited internal fixation, and external fixation, we improved pelvic fracture recovery while reducing the risk of infection. One-stage definitive fixation is a better choice than external fixation in the treatment of open pelvic fracture concomitant with perineal wound. PMID:22146197

  17. A Kinetic Model To Quantify The Effect Of Total Organic Carbon Content On The Loss Of Magnetic Susceptibility Values In Surficial Sediments Of Coastal Environments: The Case Study Of The Ría De Muros, NW Spain

    NASA Astrophysics Data System (ADS)

    Andrade, A.; Rey, D.; Mohamed, K. J.; Rubio, B.

    2013-05-01

    A detailed magnetic study of mineral dissolution has been carried out in surficial sediments from the Ría de Muros, a large coastal embayment in NW Iberia. The study area is under the influence of one of the world's most intense coastal upwelling systems, which along with the important continental supplies of organic carbon, cause very high organic matter contents in the sediment. The magnetic susceptibility of the surficial (top 20 cm of the sea bed) sediments of the Ría de Muros is dominated by the occurrence of ferromagnetic minerals, mostly biogenic magnetite and detrital (titano-) magnetite. The way in which the Total Organic Carbon (TOC) in the sediment controls the occurrence and concentration of these minerals is twofold. First because a minimal amount of organic matter it is needed for the development of the magnetotactic bacteria. Second because values above a given TOC concentration promote early redoxomorfic diagenesis and subsequently, ferromagnetic minerals depletion by dissolution. Maximum magnetic susceptibility values (up to 7 x 10-8 SI) are subsequently found in sediments with enough supply of organic matter to ensure the growth of magnetotactic bacteria, but where the TOC content is not as high as to cause the development of suboxic conditions within the surficial layers of the sediments. The magnetic susceptibility loss due to the increase in TOC can be explained and quantified with a simple geochemical kinetic model. Textural dilution of the magnetic signal due to the presence of coarse diamagnetic quartz and biogenic carbonates in the sediment matrix, are accounted for by normalizing with Al, a well-know grain-size proxy in this environment. When the normalized magnetic susceptibility is plotted against the TOC, the resulting distribution shows a neat exponential decay trend from high magnetic susceptibility and low TOC values to low magnetic susceptibility and high TOC values, resulting from the kinetics of magnetite dissolution. This

  18. Mechanical evaluation of external skeletal fixator-intramedullary pin tie-in configurations applied to cadaveral humeri from red-tailed hawks (Buteo jamaicensis).

    PubMed

    Van Wettere, Arnaud J; Redig, Patrick T; Wallace, Larry J; Bourgeault, Craig A; Bechtold, Joan E

    2009-12-01

    Use of external skeletal fixator-intramedullary pin (ESF-IM) tie-in fixators is an adjustable and effective method of fracture fixation in birds. The objective of this study was to determine the contribution of each of the following parameters to the compressive and torsional rigidity of an ESF-IM pin tie-in applied to avian bones with an osteotomy gap: (1) varying the fixation pin position in the proximal bone segment and (2) increasing the number of fixation pins in one or both bone segments. ESF-IM pin tie-in constructs were applied to humeri harvested from red-tailed hawks (Buteo jamaicensis) (n=24) that had been euthanatized for clinical reasons. Constructs with a variation in the placement of the proximal fixation pin and with 2, 3, or 4 fixation pins applied to avian bone with an osteotomy gap were loaded to a defined displacement in torque and axial compression. Response variables were determined from resulting load-displacement curves (construct stiffness, load at 1-mm displacement). Increasing the number of fixation pins from 1 to 2 per bone segment significantly increased the stiffness in torque (110%) and compression (60%), and the safe load in torque (107%) and compression (50%). Adding a fixation pin to the distal bone segment to form a 3-pin fixator significantly increased the stiffness (27%) and safe load (20%) in torque but not in axial compression. In the configuration with 2 fixation pins, placing the proximal pin distally in the proximal bone segment significantly increased the stiffness in torque (28%), and the safe load in torque (23%) and in axial compression (32%). Results quantified the relative importance of specific parameters affecting the rigidity of ESF-IM pin tie-in constructs as applied to unstable bone fracture models in birds. PMID:20235458

  19. The importance of regulation of nitrogen fixation

    NASA Astrophysics Data System (ADS)

    Menge, D. N.

    2012-12-01

    I am not a proponent of including more detail in models simply because it makes them more realistic. More complexity increases the difficulty of model interpretation, so it only makes sense to include complexity if its benefit exceeds its costs. Biological nitrogen (N) fixation (BNF) is one process for which I feel the benefits of including greater complexity far outweigh the costs. I don't think that just because I work on BNF; I work on BNF because I think that. BNF, a microbial process carried out by free-living and symbiotic microbes, is the dominant N input to many ecosystems, the primary mechanism by which N deficiency can feed back to N inputs, and a main mechanism by which N surplus can develop. The dynamics of BNF, therefore, have huge implications for the rate of carbon uptake and the extent of CO2 fertilization, as well as N export to waterways and N2O emissions to the atmosphere. Unfortunately, there are serious deficiencies in our understanding of BNF. One main deficiency in our understanding is the extent to which various symbiotic N fixing organisms respond to imbalanced nutrition. Theory suggests that these responses, which I will call "strategies," have fundamental consequences for N fixer niches and ecosystem-level N and C cycling. Organisms that fix N regardless of whether they need it, a strategy that I will call "obligate," occupy post-disturbance niches and rapidly lead to N surplus. On the contrary, organisms that only fix as much N as they need, a "facultative" strategy, can occupy a wider range of successional niches, do not produce surplus N, and respond more rapidly to increased atmospheric CO2. In this talk I will show new results showing that consideration of these strategies could on its own explain the latitudinal distribution of symbiotic N fixing trees in North America. Specifically, the transition in N-fixing tree abundance from ~10% of basal area south of 35° latitude to ~1% of basal area north of 35° latitude that we observe

  20. Posterior Fixation Techniques in the Subaxial Cervical Spine

    PubMed Central

    Ghori, Ahmer; Makanji, Heeren; Cha, Thomas

    2015-01-01

    This article reviews the historical context, indications, techniques, and complications of four posterior fixation techniques to stabilize the subaxial cervical spine. Specifically, posterior wiring, laminar screw fixation, lateral mass fixation, and pedicle screw fixation are among the common methods of operative fixation of the subaxial cervical spine. While wiring and laminar screw fixation are now rarely used, both lateral mass and pedicle screw fixation are technically challenging and present the risk of significant complications if performed incorrectly. With a sound understanding of anatomy and rigorous preoperative evaluation of bony structures, both lateral mass and pedicle screw fixation provide a safe and reliable method for subaxial cervical spine fixation. PMID:26594602

  1. [Visual fixation features after treatment of exudative age macular degeneration].

    PubMed

    Surguch, V K; Surnina, Z V; Sizova, M V

    2011-01-01

    Changes of visual fixation in patients with choroidal neovascularitation (CNV) associated with age macular degeneration (AMD) after bevacizumab are studied. 45 patients (45 eyes) with active CNV treated with intravitreal bevacizumab were enrolled into the study. Visual fixation was studied before and 3-6 months after treatment using original method that included fundus foto and fluorescein angiography. Fixation relative to fovea and lesion was evaluated. Foveal fixation beyond lesion was found in 9%, foveal fixation within lesion--in 47%, extrafoveal fixation beyond lesion--in 18%, extrafoveal fixation within lesion--in 26% of patients. Changes of fixation localization after treatment was found in 24% patients. Examination of visual fixation may be useful for prognosis of anti-VEGF treatment efficacy in patients with CNV. PMID:21721271

  2. Modeled contributions of three types of diazotrophs to nitrogen fixation at Station ALOHA.

    PubMed

    Goebel, Nicole L; Edwards, Christopher A; Church, Matthew J; Zehr, Jonathan P

    2007-11-01

    A diagnostic model based on biomass and growth was used to assess the relative contributions of filamentous nonheterocystous Trichodesmium and unicellular cyanobacteria, termed Groups A and B, to nitrogen fixation at the North Pacific Station ALOHA over a 2-year period. Average (and 95% confidence interval, CI) annual rates of modeled monthly values for Trichodesmium, Group B and Group A were 92 (52), 14 (4) and 12 (8) mmol N per m(2) per year, respectively. The fractional contribution to modeled instantaneous nitrogen fixation by each diazotroph fluctuated on interannual, seasonal and shorter time scales. Trichodesmium fixed substantially more nitrogen in year 1 (162) than year 2 (12). Group B fixed almost two times more nitrogen in year 1 (17) than year 2 (9). In contrast, Group A fixed two times more nitrogen in year 2 (16) than year 1 (8). When including uncertainties in our estimates using the bootstrap approach, the range of unicellular nitrogen fixation extended from 10% to 68% of the total annual rate of nitrogen fixation for all three diazotrophs. Furthermore, on a seasonal basis, the model demonstrated that unicellular diazotrophs fixed the majority (51%-97%) of nitrogen during winter and spring, whereas Trichodesmium dominated nitrogen fixation during summer and autumn (60%-96%). Sensitivity of the modeled rates to some parameters suggests that this unique attempt to quantify relative rates of nitrogen fixation by different diazotrophs may need to be reevaluated as additional information on cell size, variability in biomass and C:N, and growth characteristics of the different cyanobacterial diazotrophs become available. PMID:18043668

  3. Quantifying light pollution

    NASA Astrophysics Data System (ADS)

    Cinzano, P.; Falchi, F.

    2014-05-01

    In this paper we review new available indicators useful to quantify and monitor light pollution, defined as the alteration of the natural quantity of light in the night environment due to introduction of manmade light. With the introduction of recent radiative transfer methods for the computation of light pollution propagation, several new indicators become available. These indicators represent a primary step in light pollution quantification, beyond the bare evaluation of the night sky brightness, which is an observational effect integrated along the line of sight and thus lacking the three-dimensional information.

  4. Diazotrophy in the Deep: Measuring Rates and Identifying Biological Mediators of N2 fixation in Deep-Sea Sediments

    NASA Astrophysics Data System (ADS)

    Dekas, A. E.; Fike, D. A.; Chadwick, G.; Connon, S. A.; Orphan, V. J.

    2013-12-01

    Biological N2 fixation (the conversion of N2 to NH3) is the largest natural source of bioavailable nitrogen to the biosphere, and dictates the rate of community productivity in many nitrogen-limited environments. Deep-sea sediments are traditionally not thought to host N2 fixation, however evidence from a metagenomics dataset targeting deep-sea methanotrophic archaea (ANME) suggested their ability to fix N2 (Pernthaler, et al., PNAS 2008). Using stable isotope labeling experiments and FISH-NanoSIMS, a technique which allows the visualization of isotopic composition within phylogenetically identified cells on the nanometer scale, we demonstrated that the ANME are capable of N2 fixation (Dekas et al., Science 2009). In the present work, we use FISH-NanoSIMS and bulk Isotope Ratio Mass Spectrometry (IRMS) to show that the ANME are the most significant source of new nitrogen at a Costa Rican methane seep. This suggests that the ANME may play a significant role in N2 fixation in methane seeps worldwide. We expand our investigation of deep-sea diazotrophy to include diverse habitats, including sulfide- and carbon-rich whalefalls, and observe that N2 fixation is widespread in sediments on the seafloor. Outside of methane seeps, N2 fixation appears to be mediated by a diversity of anaerobic microbes potentially including methanogens and sulfate reducing bacteria. Interestingly, deep-sea N2 fixation often occurs in the presence of high levels of NH4+. Our observations challenge long-held hypotheses about where and when N2 fixation occurs, and suggest a bigger role for N2 fixation on the seafloor - and potentially the deep-biosphere - than previously realized.

  5. 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…

  6. 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.

  7. Chemical and physical basics of routine formaldehyde fixation

    PubMed Central

    Thavarajah, Rooban; Mudimbaimannar, Vidya Kazhiyur; Elizabeth, Joshua; Rao, Umadevi Krishnamohan; Ranganathan, Kannan

    2012-01-01

    Formaldehyde is the widely employed fixative that has been studied for decades. The chemistry of fixation has been studied widely since the early 20th century. However, very few studies have been focused on the actual physics/chemistry aspect of process of this fixation. This article attempts to explain the chemistry of formaldehyde fixation and also to study the physical aspects involved in the fixation. The factors involved in the fixation process are discussed using well documented mathematical and physical formulae. The deeper understanding of these factors will enable pathologist to optimize the factors and use them in their favor. PMID:23248474

  8. Chemical and physical basics of routine formaldehyde fixation.

    PubMed

    Thavarajah, Rooban; Mudimbaimannar, Vidya Kazhiyur; Elizabeth, Joshua; Rao, Umadevi Krishnamohan; Ranganathan, Kannan

    2012-09-01

    Formaldehyde is the widely employed fixative that has been studied for decades. The chemistry of fixation has been studied widely since the early 20(th) century. However, very few studies have been focused on the actual physics/chemistry aspect of process of this fixation. This article attempts to explain the chemistry of formaldehyde fixation and also to study the physical aspects involved in the fixation. The factors involved in the fixation process are discussed using well documented mathematical and physical formulae. The deeper understanding of these factors will enable pathologist to optimize the factors and use them in their favor. PMID:23248474

  9. Effect of simulated tillage on microbial autotrophic CO2 fixation in paddy and upland soils

    NASA Astrophysics Data System (ADS)

    Ge, Tida; Wu, Xiaohong; Liu, Qiong; Zhu, Zhenke; Yuan, Hongzhao; Wang, Wei; Whiteley, A. S.; Wu, Jinshui

    2016-01-01

    Tillage is a common agricultural practice affecting soil structure and biogeochemistry. To evaluate how tillage affects soil microbial CO2 fixation, we incubated and continuously labelled samples from two paddy soils and two upland soils subjected to simulated conventional tillage (CT) and no-tillage (NT) treatments. Results showed that CO2 fixation (14C-SOC) in CT soils was significantly higher than in NT soils. We also observed a significant, soil type- and depth-dependent effect of tillage on the incorporation rates of labelled C to the labile carbon pool. Concentrations of labelled C in the carbon pool significantly decreased with soil depth, irrespective of tillage. Additionally, quantitative PCR assays revealed that for most soils, total bacteria and cbbL-carrying bacteria were less abundant in CT versus NT treatments, and tended to decrease in abundance with increasing depth. However, specific CO2 fixation activity was significantly higher in CT than in NT soils, suggesting that the abundance of cbbL-containing bacteria may not always reflect their functional activity. This study highlights the positive effect of tillage on soil microbial CO2 fixation, and the results can be readily applied to the development of sustainable agricultural management.

  10. Effect of simulated tillage on microbial autotrophic CO2 fixation in paddy and upland soils.

    PubMed

    Ge, Tida; Wu, Xiaohong; Liu, Qiong; Zhu, Zhenke; Yuan, Hongzhao; Wang, Wei; Whiteley, A S; Wu, Jinshui

    2016-01-01

    Tillage is a common agricultural practice affecting soil structure and biogeochemistry. To evaluate how tillage affects soil microbial CO2 fixation, we incubated and continuously labelled samples from two paddy soils and two upland soils subjected to simulated conventional tillage (CT) and no-tillage (NT) treatments. Results showed that CO2 fixation ((14)C-SOC) in CT soils was significantly higher than in NT soils. We also observed a significant, soil type- and depth-dependent effect of tillage on the incorporation rates of labelled C to the labile carbon pool. Concentrations of labelled C in the carbon pool significantly decreased with soil depth, irrespective of tillage. Additionally, quantitative PCR assays revealed that for most soils, total bacteria and cbbL-carrying bacteria were less abundant in CT versus NT treatments, and tended to decrease in abundance with increasing depth. However, specific CO2 fixation activity was significantly higher in CT than in NT soils, suggesting that the abundance of cbbL-containing bacteria may not always reflect their functional activity. This study highlights the positive effect of tillage on soil microbial CO2 fixation, and the results can be readily applied to the development of sustainable agricultural management. PMID:26795428

  11. Effect of simulated tillage on microbial autotrophic CO2 fixation in paddy and upland soils

    PubMed Central

    Ge, Tida; Wu, Xiaohong; Liu, Qiong; Zhu, Zhenke; Yuan, Hongzhao; Wang, Wei; Whiteley, A. S.; Wu, Jinshui

    2016-01-01

    Tillage is a common agricultural practice affecting soil structure and biogeochemistry. To evaluate how tillage affects soil microbial CO2 fixation, we incubated and continuously labelled samples from two paddy soils and two upland soils subjected to simulated conventional tillage (CT) and no-tillage (NT) treatments. Results showed that CO2 fixation (14C-SOC) in CT soils was significantly higher than in NT soils. We also observed a significant, soil type- and depth-dependent effect of tillage on the incorporation rates of labelled C to the labile carbon pool. Concentrations of labelled C in the carbon pool significantly decreased with soil depth, irrespective of tillage. Additionally, quantitative PCR assays revealed that for most soils, total bacteria and cbbL-carrying bacteria were less abundant in CT versus NT treatments, and tended to decrease in abundance with increasing depth. However, specific CO2 fixation activity was significantly higher in CT than in NT soils, suggesting that the abundance of cbbL-containing bacteria may not always reflect their functional activity. This study highlights the positive effect of tillage on soil microbial CO2 fixation, and the results can be readily applied to the development of sustainable agricultural management. PMID:26795428

  12. Influence of age, spatial memory, and ocular fixation on localization of auditory, visual, and bimodal targets by human subjects.

    PubMed

    Dobreva, Marina S; O'Neill, William E; Paige, Gary D

    2012-12-01

    A common complaint of the elderly is difficulty identifying and localizing auditory and visual sources, particularly in competing background noise. Spatial errors in the elderly may pose challenges and even threats to self and others during everyday activities, such as localizing sounds in a crowded room or driving in traffic. In this study, we investigated the influence of aging, spatial memory, and ocular fixation on the localization of auditory, visual, and combined auditory-visual (bimodal) targets. Head-restrained young and elderly subjects localized targets in a dark, echo-attenuated room using a manual laser pointer. Localization accuracy and precision (repeatability) were quantified for both ongoing and transient (remembered) targets at response delays up to 10 s. Because eye movements bias auditory spatial perception, localization was assessed under target fixation (eyes free, pointer guided by foveal vision) and central fixation (eyes fixed straight ahead, pointer guided by peripheral vision) conditions. Spatial localization across the frontal field in young adults demonstrated (1) horizontal overshoot and vertical undershoot for ongoing auditory targets under target fixation conditions, but near-ideal horizontal localization with central fixation; (2) accurate and precise localization of ongoing visual targets guided by foveal vision under target fixation that degraded when guided by peripheral vision during central fixation; (3) overestimation in horizontal central space (±10°) of remembered auditory, visual, and bimodal targets with increasing response delay. In comparison with young adults, elderly subjects showed (1) worse precision in most paradigms, especially when localizing with peripheral vision under central fixation; (2) greatly impaired vertical localization of auditory and bimodal targets; (3) increased horizontal overshoot in the central field for remembered visual and bimodal targets across response delays; (4) greater vulnerability to

  13. Biometric recognition via fixation density maps

    NASA Astrophysics Data System (ADS)

    Rigas, Ioannis; Komogortsev, Oleg V.

    2014-05-01

    This work introduces and evaluates a novel eye movement-driven biometric approach that employs eye fixation density maps for person identification. The proposed feature offers a dynamic representation of the biometric identity, storing rich information regarding the behavioral and physical eye movement characteristics of the individuals. The innate ability of fixation density maps to capture the spatial layout of the eye movements in conjunction with their probabilistic nature makes them a particularly suitable option as an eye movement biometrical trait in cases when free-viewing stimuli is presented. In order to demonstrate the effectiveness of the proposed approach, the method is evaluated on three different datasets containing a wide gamut of stimuli types, such as static images, video and text segments. The obtained results indicate a minimum EER (Equal Error Rate) of 18.3 %, revealing the perspectives on the utilization of fixation density maps as an enhancing biometrical cue during identification scenarios in dynamic visual environments.

  14. Stiffness of modified Type 1a linear external skeletal fixators.

    PubMed

    Reaugh, H F; Rochat, M C; Bruce, C W; Galloway, D S; Payton, M E

    2007-01-01

    Modifications of a Type 1a external skeletal fixator (ESF) frame were evaluated by alternately placing transfixation pins on opposite sides of the connecting rod (Type 1a-MOD) or by placing additional connecting rods on either of the two inside (Type 1a-INSIDE) or two outside (Type 1a-OUTSIDE) transfixation pins. The objective of this study was to evaluate the stiffness of these modifications in terms of axial compression (AC), cranial-caudal bending (CCB), and medial-lateral bending (MLB). We hypothesized that these designs would allow significant increase in unilateral frame stiffness, over Type 1a, without proportional increase in frame complexity or technical difficulty of application. All of the ESF frames were constructed using large IMEX SKtrade mark clamps, 3.2 mm threaded fixation pins, 9.5 mm carbon fibre connecting rods and Delrin rods as bone models. Nine, eight pin frames of each design were constructed, and subjected to repetitive non-destructive loading forces (AC, CCB, MLB) using a materials testing machine. Frame construct stiffness for each force (AC, CCB, MLB) was derived from load-deformation curve analysis and displayed in N/mm. Data revealed the 1a-MOD and 1a-OUTSIDE constructs had significantly increased stiffness in CCB and AC as compared to the Type 1a constructs while all of the modified constructs were significantly stiffer in MLB than the Type 1a constructs. PMID:18038001

  15. Anatomic Locking Plate Fixation for Scaphoid Nonunion

    PubMed Central

    Yeung, Just; Sapienza, Anthony

    2016-01-01

    Nonunion can occur relatively frequently after scaphoid fracture and appears to be associated with severity of injury. There have been a number of techniques described for bone grafting with or without screw fixation to facilitate fracture healing. However, even with operative fixation of scaphoid fractures with bone grafting nonunion or malunion rates of 5 to 10 percent are still reported. This is the first report of an anatomic locking plate for scaphoid fracture repair in a 25-year-old right hand dominant healthy male. PMID:27366338

  16. 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.

  17. Attention in natural scenes: contrast affects rapid visual processing and fixations alike.

    PubMed

    't Hart, Bernard Marius; Schmidt, Hannah Claudia Elfriede Fanny; Klein-Harmeyer, Ingo; Einhäuser, Wolfgang

    2013-10-19

    For natural scenes, attention is frequently quantified either by performance during rapid presentation or by gaze allocation during prolonged viewing. Both paradigms operate on different time scales, and tap into covert and overt attention, respectively. To compare these, we ask some observers to detect targets (animals/vehicles) in rapid sequences, and others to freely view the same target images for 3 s, while their gaze is tracked. In some stimuli, the target's contrast is modified (increased/decreased) and its background modified either in the same or in the opposite way. We find that increasing target contrast relative to the background increases fixations and detection alike, whereas decreasing target contrast and simultaneously increasing background contrast has little effect. Contrast increase for the whole image (target + background) improves detection, decrease worsens detection, whereas fixation probability remains unaffected by whole-image modifications. Object-unrelated local increase or decrease of contrast attracts gaze, but less than actual objects, supporting a precedence of objects over low-level features. Detection and fixation probability are correlated: the more likely a target is detected in one paradigm, the more likely it is fixated in the other. Hence, the link between overt and covert attention, which has been established in simple stimuli, transfers to more naturalistic scenarios. PMID:24018728

  18. Doubling of marine dinitrogen-fixation rates based on direct measurements.

    PubMed

    Großkopf, Tobias; Mohr, Wiebke; Baustian, Tina; Schunck, Harald; Gill, Diana; Kuypers, Marcel M M; Lavik, Gaute; Schmitz, Ruth A; Wallace, Douglas W R; LaRoche, Julie

    2012-08-16

    Biological dinitrogen fixation provides the largest input of nitrogen to the oceans, therefore exerting important control on the ocean's nitrogen inventory and primary productivity. Nitrogen-isotope data from ocean sediments suggest that the marine-nitrogen inventory has been balanced for the past 3,000 years (ref. 4). Producing a balanced marine-nitrogen budget based on direct measurements has proved difficult, however, with nitrogen loss exceeding the gain from dinitrogen fixation by approximately 200 Tg N yr−1 (refs 5, 6). Here we present data from the Atlantic Ocean and show that the most widely used method of measuring oceanic N2-fixation rates underestimates the contribution of N2-fixing microorganisms (diazotrophs) relative to a newly developed method. Using molecular techniques to quantify the abundance of specific clades of diazotrophs in parallel with rates of 15N2 incorporation into particulate organic matter, we suggest that the difference between N2-fixation rates measured with the established method and those measured with the new method can be related to the composition of the diazotrophic community. Our data show that in areas dominated by Trichodesmium, the established method underestimates N2-fixation rates by an average of 62%. We also find that the newly developed method yields N2-fixation rates more than six times higher than those from the established method when unicellular, symbiotic cyanobacteria and γ-proteobacteria dominate the diazotrophic community. On the basis of average areal rates measured over the Atlantic Ocean, we calculated basin-wide N2-fixation rates of 14 ± 1 Tg N yr−1 and 24 ±1 Tg N yr−1 for the established and new methods, respectively. If our findings can be extrapolated to other ocean basins, this suggests that the global marine N2-fixation rate derived from direct measurements may increase from 103 ± 8 Tg N yr−1 to 177 ± 8 Tg N yr−1, and that the contribution

  19. Temporary external pedicular fixation versus definitive bony fusion: a prospective comparative study on pain relief and function.

    PubMed

    Axelsson, Paul; Johnsson, Ragnar; Strömqvist, Björn; Andréasson, Håkan

    2003-02-01

    Temporary external pedicular fixation is used as a prognostic instrument when treating degenerative conditions with spinal fusion. We studied the validity of the method and whether a functional test could improve the prognostic value of such fixation. Twenty-six patients with long-standing lumbar pain had an external temporary fixation. Pain levels were registered before fixation on a visual analogue scale at rest, as a mean for the previous week, and at seven different standardized activities. Walking capacity and walking speed for a standardized distance were also measured. Identical evaluations were then repeated during the external fixation and 1 year after definitive fusion. Based on the outcome of the temporary fixation, 20 patients were recommended for definitive surgical fusion. In six cases, the option of fusion surgery was rejected due to an unfavourable pain response or insufficient pain relief during the test fixation period, and this group was not further followed within the study. One year after surgery, 14 of 20 patients reported a good outcome. Solid bony fusion assessed by conventional radiography was seen in 19 patients. One patient with a poor clinical outcome had a pseudarthrosis. The mean values for pain level at rest, during last week and at the seven different activities in the functional test tended to decrease after fusion compared to the situation with temporary external fixation. In no activity did the external fixator overestimate the mean positive pain-relieving effect after definitive fusion. The walking capacity significantly increased, while the walking speed did not alter at the three different measurements. We conclude that with a good outcome ratio of 14 patients out of 19 having a solid fusion, the external frame improved patient selection and can be used as a valid prognostic instrument. The pain relief and function after definitive fusion can not be quantified by the external fixation, probably due to the fact that the

  20. 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

  1. Physical forcing of nitrogen fixation and diazotroph community structure in the North Pacific subtropical gyre

    NASA Astrophysics Data System (ADS)

    Church, Matthew J.; Mahaffey, Claire; Letelier, Ricardo M.; Lukas, Roger; Zehr, Jonathan P.; Karl, David M.

    2009-06-01

    Dinitrogen (N2) fixing microorganisms (termed diazotrophs) exert important control on the ocean carbon cycle. However, despite increased awareness on the roles of these microorganisms in ocean biogeochemistry and ecology, the processes controlling variability in diazotroph distributions, abundances, and activities remain largely unknown. In this study, we examine 3 years (2004-2007) of approximately monthly measurements of upper ocean diazotroph community structure and rates of N2 fixation at Station ALOHA (22°45'N, 158°W), the field site for the Hawaii Ocean Time-series program in the central North Pacific subtropical gyre (NPSG). The structure of the N2-fixing microorganism assemblage varied widely in time with unicellular N2-fixing microorganisms frequently dominating diazotroph abundances in the late winter and early spring, while filamentous microorganisms (specifically various heterocyst-forming cyanobacteria and Trichodesmium spp.) fluctuated episodically during the summer. On average, a large fraction (˜80%) of the daily N2 fixation was partitioned into the biomass of <10 μm microorganisms. Rates of N2 fixation were variable in time, with peak N2 fixation frequently coinciding with periods when heterocystous N2-fixing cyanobacteria were abundant. During the summer months when sea surface temperatures exceeded 25.2°C and concentrations of nitrate plus nitrite were at their annual minimum, rates of N2 fixation often increased during periods of positive sea surface height anomalies, as reflected in satellite altimetry. Our results suggest mesoscale physical forcing may comprise an important control on variability in N2 fixation and diazotroph community structure in the NPSG.

  2. Bacterial N2-fixation in mangrove ecosystems: insights from a diazotroph–mangrove interaction

    PubMed Central

    Alfaro-Espinoza, Gabriela; Ullrich, Matthias S.

    2015-01-01

    Mangrove forests are highly productive ecosystems but represent low nutrient environments. Nitrogen availability is one of the main factors limiting mangrove growth. Diazotrophs have been identified as key organisms that provide nitrogen to these environments. N2-fixation by such organisms was found to be higher in the mangrove roots than in surrounding rhizosphere. Moreover, previous studies showed that mangroves grew better in the presence of N2-fixers indicating a potentially mutualistic relationship. However, the molecular signals and mechanisms that govern these interactions are still poorly understood. Here we present novel insights in the interaction of a diazotroph with a mangrove species to improve our understanding of the molecular and ecophysiological relationship between these two organisms under controlled conditions. Our results showed that Marinobacterium mangrovicola is a versatile organism capable of competing with other organisms to survive for long periods in mangrove soils. N2-fixation by this bacterium was up-regulated in the presence of mangrove roots, indicating a possible beneficial interaction. The increase in N2-fixation was limited to cells of the exponential growth phase suggesting that N2-fixation differs over the bacterial growth cycle. Bacterial transformants harboring a transcriptional nifH::gusA fusion showed that M. mangrovicola