Science.gov

Sample records for coupled water transport

  1. Numerical Modeling of Coupled Water Flow and Heat Transport in Soil and Snow

    NASA Astrophysics Data System (ADS)

    Kelleners, T.

    2015-12-01

    A numerical model is developed to calculate coupled water flow and heat transport in seasonally frozen soil and snow. Both liquid water flow and water vapor flow are included. The effect of dissolved ions on soil water freezing point depression is included by combining an expression for osmotic head with the Clapeyron equation and the van Genuchten soil water retention function. The coupled water flow and heat transport equations are solved using the Thomas algorithm and Picard iteration. Ice pressure is always assumed zero and frost heave is neglected. The new model is tested using data from a high-elevation rangeland soil that is subject to significant soil freezing and a mountainous forest soil that is snow-covered for about 8 months of the year. Soil hydraulic parameters are mostly based on measurements and only vegetation parameters are fine-tuned to match measured and calculated soil water content, soil & snow temperature, and snow height. Modeling statistics for both systems show good performance for temperature, intermediate performance for snow height, and relatively low performance for soil water content, in accordance with earlier results with an older version of the model.

  2. Coupled Water Flow and Heat Transport in Seasonally Frozen Soils with Snow Accumulation

    NASA Astrophysics Data System (ADS)

    kelleners, T.

    2013-12-01

    A numerical model is developed to calculate coupled water flow and heat transport in seasonally frozen soil and snow. Separate equations are used to describe both unsaturated and saturated soil water flow. The effect of dissolved ions on soil water freezing point depression is included by combining an expression for osmotic head with the Clapeyron equation and the van Genuchten soil water retention function. The coupled water flow and heat transport equations are solved using the Thomas algorithm and Picard iteration. Ice pressure is always assumed zero and frost heave is neglected. The new model is tested using data from an existing laboratory soil column freezing experiment and an ongoing field experiment in a high-elevation rangeland soil. A dimensionless impedance factor describing the effect of ice pore blocking on soil hydraulic conductivity is treated as a calibration parameter for both cases. Calculated values of total water content for the laboratory soil column freezing experiment compare well with measured values, especially during the early stages of the experiment, as is also found by others. Modeling statistics for the rangeland field experiment show varied performance for soil water content and excellent performance for soil temperature, in accordance with earlier results with an older version of the model.

  3. Coupled Water Flow and Heat Transport in Seasonally Frozen Soils with Snow Accumulation

    NASA Astrophysics Data System (ADS)

    King, J. M.; Kasurak, A.; Kelly, R. E.; Duguay, C. R.; Derksen, C.

    2011-12-01

    A numerical model is developed to calculate coupled water flow and heat transport in seasonally frozen soil and snow. Separate equations are used to describe both unsaturated and saturated soil water flow. The effect of dissolved ions on soil water freezing point depression is included by combining an expression for osmotic head with the Clapeyron equation and the van Genuchten soil water retention function. The coupled water flow and heat transport equations are solved using the Thomas algorithm and Picard iteration. Ice pressure is always assumed zero and frost heave is neglected. The new model is tested using data from an existing laboratory soil column freezing experiment and an ongoing field experiment in a high-elevation rangeland soil. A dimensionless impedance factor describing the effect of ice pore blocking on soil hydraulic conductivity is treated as a calibration parameter for both cases. Calculated values of total water content for the laboratory soil column freezing experiment compare well with measured values, especially during the early stages of the experiment, as is also found by others. Modeling statistics for the rangeland field experiment show varied performance for soil water content and excellent performance for soil temperature, in accordance with earlier results with an older version of the model.

  4. Water-transporting proteins.

    PubMed

    Zeuthen, Thomas

    2010-04-01

    Transport through lipids and aquaporins is osmotic and entirely driven by the difference in osmotic pressure. Water transport in cotransporters and uniporters is different: Water can be cotransported, energized by coupling to the substrate flux by a mechanism closely associated with protein. In the K(+)/Cl(-) and the Na(+)/K(+)/2Cl(-) cotransporters, water is entirely cotransported, while water transport in glucose uniporters and Na(+)-coupled transporters of nutrients and neurotransmitters takes place by both osmosis and cotransport. The molecular mechanism behind cotransport of water is not clear. It is associated with the substrate movements in aqueous pathways within the protein; a conventional unstirred layer mechanism can be ruled out, due to high rates of diffusion in the cytoplasm. The physiological roles of the various modes of water transport are reviewed in relation to epithelial transport. Epithelial water transport is energized by the movements of ions, but how the coupling takes place is uncertain. All epithelia can transport water uphill against an osmotic gradient, which is hard to explain by simple osmosis. Furthermore, genetic removal of aquaporins has not given support to osmosis as the exclusive mode of transport. Water cotransport can explain the coupling between ion and water transport, a major fraction of transepithelial water transport and uphill water transport. Aquaporins enhance water transport by utilizing osmotic gradients and cause the osmolarity of the transportate to approach isotonicity.

  5. Solute transport modelling in a coupled water and heat flow system applied to cold regions hydrogeology

    NASA Astrophysics Data System (ADS)

    Frampton, Andrew; Destouni, Georgia

    2016-04-01

    In cold regions, flow in the unsaturated zone is highly dynamic with seasonal variability and changes in temperature, moisture, and heat and water fluxes, all of which affect ground freeze-thaw processes and influence transport of inert and reactive waterborne substances. In arctic permafrost environments, near-surface groundwater flow is further restricted to a relatively shallow and seasonally variable active layer, confined by perennially frozen ground below. The active layer is typically partially saturated with ice, liquid water and air, and is strongly dependent on seasonal temperature fluctuations, thermal forcing and infiltration patterns. Here there is a need for improved understanding of the mechanisms controlling subsurface solute transport in the partially saturated active layer zone. Studying solute transport in cold regions is relevant to improve the understanding of how natural and anthropogenic pollution may change as activities in arctic and sub-arctic regions increase. It is also particularly relevant for understanding how dissolved carbon is transported in coupled surface and subsurface hydrological systems under climate change, in order to better understand the permafrost-hydrological-carbon climate feedback. In this contribution subsurface solute transport under surface warming and degrading permafrost conditions is studied using a physically based model of coupled cryotic and hydrogeological flow processes combined with a particle tracking method. Changes in subsurface water flows and solute transport travel times are analysed for different modelled geological configurations during a 100-year warming period. Results show that for all simulated cases, the minimum and mean travel times increase non-linearly with warming irrespective of geological configuration and heterogeneity structure. The travel time changes are shown to depend on combined warming effects of increase in pathway length due to deepening of the active layer, reduced transport

  6. Lagrangian transport of water vapor and CFCs in a coupled Chemistry Climate Model

    NASA Astrophysics Data System (ADS)

    Hoppe, Charlotte; Müller, Rolf; Hoffmann, Lars; Konopka, Paul; Plöger, Felix; Grooß, Jens-Uwe

    2013-04-01

    We describe the implementation of a Lagrangian transport core in a chemistry climate model (CCM). Thereby we address the common problem of properly representing trace gas distributions in a classical Eulerian framework with a fixed model grid, particularly in regions with strong trace gas gradients. A prominent example is stratospheric water vapor, which is an important driver of surface climate change on decadal scales. In this case, the transport representation is particularly important in the tropical tropopause layer (TTL), where tropospheric air enters into the stratosphere. We have coupled the Chemical Lagrangian Model of the Stratosphere (CLaMS) with the ECHAM-MESSy Atmospheric Chemistry Model (EMAC). The latter includes the ECHAM5 climate model, and the MESSy interface, which allows for flexible coupling and switching between different submodels. The chemistry transport model CLaMS provides a fully Lagrangian transport representation to calculate constituent transport for an ensemble of air parcels that move along trajectories. To facilitate the calculation of long time-series a simplified chemistry scheme was implemented. Various studies show that the CLaMS model is particularly suited to properly represent dynamics and chemistry in the UT/LS region. The analysis of mean age of stratospheric air gives insight into the different transport characteristics of the Eulerian and the Lagrangian transport schemes. Mean age of air, calculated in both frameworks, is compared regarding the representation of important processes, i.e. descent in the polar vortex, upwelling in the tropical pipe, and isentropic in-mixing in subtropical regions. We also compared the zonal mean distributions and photochemical lifetimes of CFC-11 and CFC-12 with climatologies from different satellite experiments (ACE-FTS, HIRDLS, and MIPAS). CLaMS stratospheric water vapor distributions show remarkable differences compared to the stratospheric water vapor simulated by ECHAM, especially in

  7. Development of a Coupled Ocean-Hydrologic Model to Simulate Pollutant Transport in Singapore Coastal Waters

    NASA Astrophysics Data System (ADS)

    Chua, V. P.

    2015-12-01

    Intensive agricultural, economic and industrial activities in Singapore and Malaysia have made our coastal areas under high risk of water pollution. A coupled ocean-hydrologic model is employed to perform three-dimensional simulations of flow and pollutant transport in Singapore coastal waters. The hydrologic SWAT model is coupled with the coastal ocean SUNTANS model by outputting streamflow and pollutant concentrations from the SWAT model and using them as inputs for the SUNTANS model at common boundary points. The coupled model is calibrated with observed sea surface elevations and velocities, and high correlation coefficients that exceed 0.97 and 0.91 are found for sea surface elevations and velocities, respectively. The pollutants are modeled as Gaussian passive tracers, and are released at five upstream locations in Singapore coastal waters. During the Northeast monsoon, pollutants released in Source 1 (Johor River), Source 2 (Tiram River), Source 3 (Layang River) and Source 4 (Layau River) enter the Singapore Strait after 4 days of release and reach Sentosa Island within 9 days. Meanwhile, pollutants released in Source 5 (Kallang River) reach Sentosa Island after 4 days. During the Southwest monsoon, the dispersion time is roughly doubled, with pollutants from Sources 1 - 4 entering the Singapore Strait only after 12 days of release due to weak currents.

  8. A fully coupled model for water-gas-heat reactive transport with methane oxidation in landfill covers.

    PubMed

    Ng, C W W; Feng, S; Liu, H W

    2015-03-01

    Methane oxidation in landfill covers is a complex process involving water, gas and heat transfer as well as microbial oxidation. The coupled phenomena of microbial oxidation, water, gas, and heat transfer are not fully understood. In this study, a new model is developed that incorporates water-gas-heat coupled reactive transport in unsaturated soil with methane oxidation. Effects of microbial oxidation-generated water and heat are included. The model is calibrated using published data from a laboratory soil column test. Moreover, a series of parametric studies are carried out to investigate the influence of microbial oxidation-generated water and heat, initial water content on methane oxidation efficiency. Computed and measured results of gas concentration and methane oxidation rate are consistent. It is found that the coupling effects between water-gas-heat transfer and methane oxidation are significant. Ignoring microbial oxidation-generated water and heat can result in a significant difference in methane oxidation efficiency by 100%.

  9. Coupled Soil Water and Heat Transport Near the Land Surface in Arid and Semiarid Regions - Multi-Domain Modeling

    NASA Astrophysics Data System (ADS)

    Mohanty, Binayak; Yang, Zhenlei

    2016-04-01

    Understanding and simulating coupled water and heat transfer appropriately in the shallow subsurface is of vital significance for accurate prediction of soil evaporation that would improve the coupling between land surface and atmosphere, which consequently could enhance the reliability of weather as well as climate forecast. The theory of Philip and de Vries (1957), accounting for water vapor diffusion only, was considered physically incomplete and consequently extended and improved by several researchers by explicitly taking water vapor convection, dispersion or air flow into account. It is generally believed that the soil moisture is usually low in the near surface layer under highly transient field conditions, particularly in arid and semiarid regions, and that accurate characterization of water vapor transport is critical when modeling simultaneous water and heat transport in the shallow field soils. The first objective of this study is thus mainly to test existing coupled water and heat transport theories and to develop reasonable and simplified numerical models using field experimental data collected under semi-arid and arid hydro-climatic conditions. In addition, more complex multi-domain models are developed for ubiquitous heterogeneous terrestrial surfaces such as horizontal textural contrasts or structured heterogeneity including macropores (fractures, cracks, root channels, etc.). This would make coupled water and heat transfer models applicable in such non-homogeneous soils more meaningful and enhance the skill of land-atmosphere interaction models at a larger context.

  10. Coupling between inter-helical hydrogen bonding and water dynamics in a proton transporter.

    PubMed

    del Val, Coral; Bondar, Luiza; Bondar, Ana-Nicoleta

    2014-04-01

    Long-distance proton transfers by proton pumps occurs in discrete steps that may involve the direct participation of protein sidechains and water molecules, and coupling of protonation changes to structural rearrangements of the protein matrix. Here we explore the role of inter-helical hydrogen bonding in long-distance protein conformational coupling and dynamics of internal water molecules. From molecular dynamics simulations of wild type and nine different bacteriorhodopsin mutants we find that both intra- and inter-helical hydrogen bonds are important determinants of the local protein structure, dynamics, and water interactions. Based on molecular dynamics and bioinformatics analyses, we identify an aspartate/threonine inter-helical hydrogen-bonding motif involved in controlling the local conformational dynamics. Perturbation of inter-helical hydrogen bonds can couple to rapid changes in water dynamics.

  11. Coupled modeling of water transport and air-droplet interaction in the electrode of a proton exchange membrane fuel cell

    NASA Astrophysics Data System (ADS)

    Esposito, Angelo; Pianese, Cesare; Guezennec, Yann G.

    In this work, an accurate and computationally fast model for liquid water transport within a proton exchange membrane fuel cell (PEMFC) electrode is developed by lumping the space-dependence of the relevant variables. Capillarity is considered as the main transport mechanism within the gas diffusion layer (GDL). The novelty of the model lies in the coupled simulation of the water transport at the interface between gas diffusion layer and gas flow channel (GFC). This is achieved with a phenomenological description of the process that allows its simulation with relative simplicity. Moreover, a detailed two-dimensional visualization of such interface is achieved via geometric simulation of water droplets formation, growth, coalescence and detachment on the surface of the GDL. The model is useful for optimization analysis oriented to both PEMFC design and balance of plant. Furthermore, the accomplishment of reduced computational time and good accuracy makes the model suitable for control strategy implementation to ensure PEM fuel cells operation within optimal electrode water content.

  12. Simulating Water and Nutrient Transport in an Urbanizing Agricultural Watershed with Lake-Level Regulation Using a Coupled Modeling Approach

    NASA Astrophysics Data System (ADS)

    Chen, X.; Motew, M.; Booth, E.; Carpenter, S. R.; Steven, L. I.; Kucharik, C. J.

    2015-12-01

    The Yahara River basin located in southern Wisconsin is a watershed with long-term eutrophication issues due largely to a thriving dairy industry upstream of the Madison chain of lakes. Steady phosphorus loading from manure production and other sources has contributed directly to blue-green algae blooms and poor water quality in the lakes and river system, and is often viewed as the most important environmental problem to solve in the region. In this study, the daily streamflow and monthly nitrogen (N), sediment and phosphorus (P) transport, as well as the lake levels in the Yahara River basin are simulated using a physically-based hydrologic routing model: the Terrestrial Hydrology Model with Biogeochemistry (THMB). The original model includes representation of water and nitrogen transport but as part of this work, P transport and lake regulation are added into the model. The modified THMB model is coupled with the AgroIBIS-VSF agroecosystem model to represent dynamic coupling between agricultural management in the watershed, and N, P, and sediment transport to lakes and streams. We will present model calibration and validation results that demonstrate the hydrologic routing capability of THMB for a spatial resolution of 220m, several orders of magnitude finer than attempted previously with THMB. The calibrated modeling system is being used to simulate the impacts of climate change and land management on biogeochemistry in the Yahara watershed under four different pathways of change to the year 2070 (Yahara 2070). These scenarios are Abandonment and Renewal, Accelerated Innovation, Connected Communities and Nested Watersheds, which are used to better understand how future decision-making influences the provisioning and trade-offs of ecosystem services.

  13. Coupling of water and carbon transport in trees: -Could water limitations of phloem transport speed up carbon starvation and tree mortality?

    NASA Astrophysics Data System (ADS)

    Sevanto, S.; McDowell, N. G.; Dickman, L. T.; Pangle, R.; Pockman, W.

    2011-12-01

    Understanding the mechanisms behind tree mortality is increasingly important because climate change appears to be increasing drought severity and duration worldwide, with concomitant increases in mortality. Carbon starvation is one of the mechanisms suggested to be responsible for mortality, especially for species that close stomata at low xylem water tensions. Such plants would be under negative carbon balance during drought. Carbohydrate transport in plants relies on the availability of apoplastic water and therefore, shortage of water could lead to inability to distribute sugars and speed up carbon starvation even if carbohydrate reserves existed. To test these ideas we conducted a greenhouse study where pinon pine (Pinus edulis) trees were killed using two treatments: water limitation (complete drought) and carbon limitation (complete darkness). We collected tissue samples for non-structural carbohydrate content analysis weekly and monitored changes in xylem and phloem water potentials using stem diameter variation measurements. To follow changes in the physiological status of the trees we measured shoot gas exchange, leaf water potential and sap flow rate. Carbon-limited trees continued respiring at relatively high rates and maintained both xylem and phloem transport despite rapidly diminishing carbohydrate pools. Water-limited trees, on the other hand, exhibited reduced respiration and xylem and phloem transport rates as soon as drought inhibited stomatal opening; even before any significant drop in leaf water potential. This suggests that respirationmetabolic rate is strongly controlled by soil water availability, and instead of speeding up mortality, reduced carbohydrate transport and utilization rate may be a valuable strategy to enhance tree survival during long droughts.

  14. The Coupled Mars Dust and Water Cycles: Understanding How Clouds Affect the Vertical Distribution and Meridional Transport of Dust and Water

    NASA Astrophysics Data System (ADS)

    Kahre, M. A.

    2015-12-01

    The dust and water cycles are crucial to the current Martian climate, and they are coupled through cloud formation. Dust strongly impacts the thermal structure of the atmosphere and thus greatly affects atmospheric circulation, while clouds provide radiative forcing and control the hemispheric exchange of water through the modification of the vertical distributions of water and dust. Recent improvements in the quality and sophistication of both observations and climate models allow for a more comprehensive understanding of how the interaction between the dust and water cycles (through cloud formation) affects the dust and water cycles individually. We focus here on the effects of clouds on the vertical distribution of dust and water, and how those vertical distributions control the net meridional transport of water. For this study, we utilize observations of temperature, dust and water ice from the Mars Climate Sounder (MCS) on the Mars Reconnaissance Orbiter (MRO) combined with the NASA ARC Mars Global Climate Model (MGCM). We demonstrate that the magnitude and nature of the net meridional transport of water between the northern and southern hemispheres during NH summer is sensitive to the vertical structure of the simulated aphelion cloud belt. We further examine how clouds influence the atmospheric thermal structure and thus the vertical structure of the cloud belt. Our goal is to identify and understand the importance of radiative/dynamic feedbacks due to the physical processes involved with cloud formation and evolution on the current climate of Mars.

  15. The Coupled Mars Dust and Water Cycles: Understanding How Clouds Affect the Vertical Distribution and Meridional Transport of Dust and Water.

    NASA Technical Reports Server (NTRS)

    Kahre, M. A.

    2015-01-01

    The dust and water cycles are crucial to the current Martian climate, and they are coupled through cloud formation. Dust strongly impacts the thermal structure of the atmosphere and thus greatly affects atmospheric circulation, while clouds provide radiative forcing and control the hemispheric exchange of water through the modification of the vertical distributions of water and dust. Recent improvements in the quality and sophistication of both observations and climate models allow for a more comprehensive understanding of how the interaction between the dust and water cycles (through cloud formation) affects the dust and water cycles individually. We focus here on the effects of clouds on the vertical distribution of dust and water, and how those vertical distributions control the net meridional transport of water. For this study, we utilize observations of temperature, dust and water ice from the Mars Climate Sounder (MCS) on the Mars Reconnaissance Orbiter (MRO) combined with the NASA ARC Mars Global Climate Model (MGCM). We demonstrate that the magnitude and nature of the net meridional transport of water between the northern and southern hemispheres during NH summer is sensitive to the vertical structure of the simulated aphelion cloud belt. We further examine how clouds influence the atmospheric thermal structure and thus the vertical structure of the cloud belt. Our goal is to identify and understand the importance of radiative/dynamic feedbacks due to the physical processes involved with cloud formation and evolution on the current climate of Mars.

  16. Beta-adrenergic activation of solute coupled water uptake by toad skin epithelium results in near-isosmotic transport.

    PubMed

    Nielsen, Robert; Larsen, Erik Hviid

    2007-09-01

    Transepithelial potential (V(T)), conductance (G(T)), and water flow (J(V)) were measured simultaneously with good time resolution (min) in isolated toad (Bufo bufo) skin epithelium with Ringer on both sides. Inside application of 5 microM isoproterenol resulted in the fast increase in G(T) from 1.2+/-0.3 to 2.4+/-0.4 mS x cm(-2) and slower increases in equivalent short circuit current, I(SC)(Eqv) = -G(T) x V(T), from 12.7+/-3.2 to 33.1+/-6.8 microA cm(-2), and J(V) from 0.72+/-0.17 to 3.01+/-0.49 nL cm(-2) s(-1). Amiloride in the outside solution abolished I(SC)(Eqv) (-1.6+/-0.1 microA cm(-2)) while J(V) decreased to 0.50+/-0.15 nL cm(-2) x s(-1), which is significantly different from zero. Isoproterenol decreased the osmotic concentration of the transported fluid, C(osm) approximately 2 x I(SC)(Eqv)/J(V), from 351+/-72 to 227+/-28 mOsm (Ringer's solution: 252.8 mOsm). J(V) depicted a saturating function of [Na+]out in agreement with Na+ self-inhibition of ENaC. Ouabain on the inside decreased I(SC)(Eqv) from 60+/-10 to 6.1+/-1.7 microA cm(-2), and J(V) from 3.34+/-0.47 to 1.40+/-0.24 nL cm(-2) x s(-1). Short-circuited preparations exhibited a linear relationship between short-circuit current and J(V) with a [Na+] of the transported fluid of 130+/-24 mM ([Na+]Ringer's solution = 117.4 mM). Addition of bumetanide to the inside solution reduced J(V). Water was transported uphill and J(V) reversed at an excess outside osmotic concentration, deltaC(S,rev) = 28.9+/-3.9 mOsm, amiloride decreased deltaC(S,rev) to 7.5+/-1.5 mOsm. It is concluded that water uptake is accomplished by osmotic coupling in the lateral intercellular space (lis), and hypothesized that a small fraction of the Na+ flux pumped into lis is recirculated via basolateral NKCC transporters.

  17. Large Eddy Simulation of Coupled Water and Carbon Exchange and Transport Through and Above Forest Canopies

    NASA Astrophysics Data System (ADS)

    Drewry, D. T.; Albertson, J. D.

    2002-12-01

    There are outstanding questions surrounding the measurement and modeling of carbon and water fluxes over complex landscapes. Typically, forest fluxes are measured with the eddy covariance technique from a single tower. A unique study over a loblolly pine stand in the Duke Forest yielded high frequency velocity, temperature, water vapor and carbon dioxide fluxes from a network of six instrumented towers, simultaneously. In this talk we explore the canopy-atmosphere dynamics active during this experiment through the use of a Large Eddy Simulation (LES) code. The LES includes a numerical representation of the plant canopy structure, a biophysical process sub-model, and mixes the sources and sinks through the boundary layer with a filtered form of the Navier-Stokes equations. Through this combination of a spatially distributed dataset and a 3D model of canopy flows and processes we investigate the relative influences of canopy structure and meteorological forcing on observed and modeled fluxes. This work has implications for our understanding of the effects of canopy turbulence on eddy covariance flux measurements.

  18. Modeling coupled water flow, solute transport and geochemical reactions affecting heavy metal migration in a podzol soil

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Many or most subsurface pollution problems at the field scale involve such simultaneous processes as water flow, multicomponent solute transport, heat transport and biogeochemical processes and reactions. Process-based models that integrate these various processes can be valuable tools for investiga...

  19. Water transport by Na+-coupled cotransporters of glucose (SGLT1) and of iodide (NIS). The dependence of substrate size studied at high resolution

    PubMed Central

    Zeuthen*, Thomas; Belhage, Bo; Zeuthen, Emil

    2006-01-01

    The relation between substrate and water transport was studied in Na+-coupled cotransporters of glucose (SGLT1) and of iodide (NIS) expressed in Xenopus oocytes. The water transport was monitored from changes in oocyte volume at a resolution of 20 pl, more than one order of magnitude better than previous investigations. The rate of cotransport was monitored as the clamp current obtained from two-electrode voltage clamp. The high resolution data demonstrated a fixed ratio between the turn-over of the cotransporter and the rate of water transport. This applied to experiments in which the rate of cotransport was changed by isosmotic application of substrate, by rapid changes in clamp voltage, or by poisoning. Transport of larger substrates gave rise to less water transport. For the rabbit SGLT1, 378 ± 20 (n = 18 oocytes) water molecules were cotransported along with the 2 Na+ ions and the glucose-analogue α-MDG (MW 194); using the larger sugar arbutin (MW 272) this number was reduced by a factor of at least 0.86 ± 0.03 (15). For the human SGLT1 the respective numbers were 234 ± 12 (18) and 0.85 ± 0.8 (7). For NIS, 253 ± 16 (12) water molecules were cotransported for each 2 Na+ and 1 thiocyanate (SCN−, MW 58), with I− as anion (MW 127) only 162 ± 11 (19) water molecules were cotransported. The effect of substrate size suggests a molecular mechanism for water cotransport and is opposite to what would be expected from unstirred layer effects. Data were analysed by a model which combined cotransport and osmosis at the membrane with diffusion in the cytoplasm. The combination of high resolution measurements and precise modelling showed that water transport across the membrane can be explained by cotransport of water in the membrane proteins and that intracellular unstirred layers effects are minute. PMID:16322051

  20. Interpretation of MSL REMS data using 1D coupled heat and water vapor transport model of Mars subsurface

    NASA Astrophysics Data System (ADS)

    Gloesener, Elodie; Karatekin, Özgür; Dehant, Véronique

    2016-04-01

    MSL Rover Environmental Monitoring Station (REMS) performed high-resolution measurements of temperature and relative humidity during more than one Martian year. In this work, a 1D subsurface model is used to study water vapor exchange between the atmosphere and the subsurface at Gale crater using REMS data. The thermal model used includes several layers of varying thickness with depth and properties that can be changed to correspond to those of Martian rocks at locations studied. It also includes the transport of water vapor through porous Martian regolith and the different phases considered are vapor, ice and adsorbed H2O. The total mass flux is given by the sum of diffusive and advective transport. The role of an adsorbing regolith on water transfer as well as the range of parameters with significant effect on water transport in Martian conditions are investigated. In addition, kinetics of the adsorption process is considered to examine its influence on the water vapor exchange between the subsurface and the atmosphere.

  1. Cation-Coupled Bicarbonate Transporters

    PubMed Central

    Aalkjaer, Christian; Boedtkjer, Ebbe; Choi, Inyeong; Lee, Soojung

    2016-01-01

    Cation-coupled HCO3− transport was initially identified in the mid-1970s when pioneering studies showed that acid extrusion from cells is stimulated by CO2/HCO3− and associated with Na+ and Cl− movement. The first Na+-coupled bicarbonate transporter (NCBT) was expression-cloned in the late 1990s. There are currently five mammalian NCBTs in the SLC4-family: the electrogenic Na,HCO3-cotransporters NBCe1 and NBCe2 (SLC4A4 and SLC4A5 gene products); the electroneutral Na,HCO3-cotransporter NBCn1 (SLC4A7 gene product); the Na+-driven Cl,HCO3-exchanger NDCBE (SLC4A8 gene product); and NBCn2/NCBE (SLC4A10 gene product), which has been characterized as an electroneutral Na,HCO3-cotransporter or a Na+-driven Cl,HCO3-exchanger. Despite the similarity in amino acid sequence and predicted structure among the NCBTs of the SLC4-family, they exhibit distinct differences in ion dependency, transport function, pharmacological properties, and interactions with other proteins. In epithelia, NCBTs are involved in transcellular movement of acid-base equivalents and intracellular pH control. In nonepithelial tissues, NCBTs contribute to intracellular pH regulation; and hence, they are crucial for diverse tissue functions including neuronal discharge, sensory neuron development, performance of the heart, and vascular tone regulation. The function and expression levels of the NCBTs are generally sensitive to intracellular and systemic pH. Animal models have revealed pathophysiological roles of the transporters in disease states including metabolic acidosis, hypertension, visual defects, and epileptic seizures. Studies are being conducted to understand the physiological consequences of genetic polymorphisms in the SLC4-members, which are associated with cancer, hypertension, and drug addiction. Here, we describe the current knowledge regarding the function, structure, and regulation of the mammalian cation-coupled HCO3− transporters of the SLC4-family. PMID:25428855

  2. Cation-coupled bicarbonate transporters.

    PubMed

    Aalkjaer, Christian; Boedtkjer, Ebbe; Choi, Inyeong; Lee, Soojung

    2014-10-01

    Cation-coupled HCO3(-) transport was initially identified in the mid-1970s when pioneering studies showed that acid extrusion from cells is stimulated by CO2/HCO3(-) and associated with Na(+) and Cl(-) movement. The first Na(+)-coupled bicarbonate transporter (NCBT) was expression-cloned in the late 1990s. There are currently five mammalian NCBTs in the SLC4-family: the electrogenic Na,HCO3-cotransporters NBCe1 and NBCe2 (SLC4A4 and SLC4A5 gene products); the electroneutral Na,HCO3-cotransporter NBCn1 (SLC4A7 gene product); the Na(+)-driven Cl,HCO3-exchanger NDCBE (SLC4A8 gene product); and NBCn2/NCBE (SLC4A10 gene product), which has been characterized as an electroneutral Na,HCO3-cotransporter or a Na(+)-driven Cl,HCO3-exchanger. Despite the similarity in amino acid sequence and predicted structure among the NCBTs of the SLC4-family, they exhibit distinct differences in ion dependency, transport function, pharmacological properties, and interactions with other proteins. In epithelia, NCBTs are involved in transcellular movement of acid-base equivalents and intracellular pH control. In nonepithelial tissues, NCBTs contribute to intracellular pH regulation; and hence, they are crucial for diverse tissue functions including neuronal discharge, sensory neuron development, performance of the heart, and vascular tone regulation. The function and expression levels of the NCBTs are generally sensitive to intracellular and systemic pH. Animal models have revealed pathophysiological roles of the transporters in disease states including metabolic acidosis, hypertension, visual defects, and epileptic seizures. Studies are being conducted to understand the physiological consequences of genetic polymorphisms in the SLC4-members, which are associated with cancer, hypertension, and drug addiction. Here, we describe the current knowledge regarding the function, structure, and regulation of the mammalian cation-coupled HCO3(-) transporters of the SLC4-family.

  3. Coupled Neutron Transport for HZETRN

    NASA Technical Reports Server (NTRS)

    Slaba, Tony C.; Blattnig, Steve R.

    2009-01-01

    Exposure estimates inside space vehicles, surface habitats, and high altitude aircrafts exposed to space radiation are highly influenced by secondary neutron production. The deterministic transport code HZETRN has been identified as a reliable and efficient tool for such studies, but improvements to the underlying transport models and numerical methods are still necessary. In this paper, the forward-backward (FB) and directionally coupled forward-backward (DC) neutron transport models are derived, numerical methods for the FB model are reviewed, and a computationally efficient numerical solution is presented for the DC model. Both models are compared to the Monte Carlo codes HETC-HEDS, FLUKA, and MCNPX, and the DC model is shown to agree closely with the Monte Carlo results. Finally, it is found in the development of either model that the decoupling of low energy neutrons from the light particle transport procedure adversely affects low energy light ion fluence spectra and exposure quantities. A first order correction is presented to resolve the problem, and it is shown to be both accurate and efficient.

  4. Documentation and verification of VST2D; a model for simulating transient, Variably Saturated, coupled water-heat-solute Transport in heterogeneous, anisotropic 2-Dimensional, ground-water systems with variable fluid density

    USGS Publications Warehouse

    Friedel, Michael J.

    2001-01-01

    This report describes a model for simulating transient, Variably Saturated, coupled water-heatsolute Transport in heterogeneous, anisotropic, 2-Dimensional, ground-water systems with variable fluid density (VST2D). VST2D was developed to help understand the effects of natural and anthropogenic factors on quantity and quality of variably saturated ground-water systems. The model solves simultaneously for one or more dependent variables (pressure, temperature, and concentration) at nodes in a horizontal or vertical mesh using a quasi-linearized general minimum residual method. This approach enhances computational speed beyond the speed of a sequential approach. Heterogeneous and anisotropic conditions are implemented locally using individual element property descriptions. This implementation allows local principal directions to differ among elements and from the global solution domain coordinates. Boundary conditions can include time-varying pressure head (or moisture content), heat, and/or concentration; fluxes distributed along domain boundaries and/or at internal node points; and/or convective moisture, heat, and solute fluxes along the domain boundaries; and/or unit hydraulic gradient along domain boundaries. Other model features include temperature and concentration dependent density (liquid and vapor) and viscosity, sorption and/or decay of a solute, and capability to determine moisture content beyond residual to zero. These features are described in the documentation together with development of the governing equations, application of the finite-element formulation (using the Galerkin approach), solution procedure, mass and energy balance considerations, input requirements, and output options. The VST2D model was verified, and results included solutions for problems of water transport under isohaline and isothermal conditions, heat transport under isobaric and isohaline conditions, solute transport under isobaric and isothermal conditions, and coupled water

  5. Coupled transport in rotor models

    NASA Astrophysics Data System (ADS)

    Iubini, S.; Lepri, S.; Livi, R.; Politi, A.

    2016-08-01

    Steady nonequilibrium states are investigated in a one-dimensional setup in the presence of two thermodynamic currents. Two paradigmatic nonlinear oscillators models are investigated: an XY chain and the discrete nonlinear Schrödinger equation. Their distinctive feature is that the relevant variable is an angle in both cases. We point out the importance of clearly distinguishing between energy and heat flux. In fact, even in the presence of a vanishing Seebeck coefficient, a coupling between (angular) momentum and energy arises, mediated by the unavoidable presence of a coherent energy flux. Such a contribution is the result of the ‘advection’ induced by the position-dependent angular velocity. As a result, in the XY model, the knowledge of the two diagonal elements of the Onsager matrix suffices to reconstruct its transport properties. The analysis of the nonequilibrium steady states finally allows to strengthen the connection between the two models.

  6. Water promoting electron hole transport between tyrosine and cysteine in proteins via a special mechanism: double proton coupled electron transfer.

    PubMed

    Chen, Xiaohua; Ma, Guangcai; Sun, Weichao; Dai, Hongjing; Xiao, Dong; Zhang, Yanfang; Qin, Xin; Liu, Yongjun; Bu, Yuxiang

    2014-03-26

    The proton/electron transfer reactions between cysteine residue (Cys) and tyrosinyl radical (Tyr(•)) are an important step for many enzyme-catalyzed processes. On the basis of the statistical analysis of protein data bank, we designed three representative models to explore the possible proton/electron transfer mechanisms from Cys to Tyr(•) in proteins. Our ab initio calculations on simplified models and quantum mechanical/molecular mechanical (QM/MM) calculations on real protein environment reveal that the direct electron transfer between Cys and Tyr(•) is difficult to occur, but an inserted water molecule can greatly promote the proton/electron transfer reactions by a double-proton-coupled electron transfer (dPCET) mechanism. The inserted H2O plays two assistant roles in these reactions. The first one is to bridge the side chains of Tyr(•) and Cys via two hydrogen bonds, which act as the proton pathway, and the other one is to enhance the electron overlap between the lone-pair orbital of sulfur atom and the π-orbital of phenol moiety and to function as electron transfer pathway. This water-mediated dPCET mechanism may offer great help to understand the detailed electron transfer processes between Tyr and Cys residues in proteins, such as the electron transfer from Cys439 to Tyr730(•) in the class I ribonucleotide reductase.

  7. Moss hair water transport

    NASA Astrophysics Data System (ADS)

    Pan, Zhao; Wu, Nan; Hurd, Randy; Thomson, Scott; Pitt, William; Truscott, Tadd

    2013-11-01

    We present an investigation of water transportation on a moss (Syntrichia caninervis) indigenous to temperate deserts. The moss typically appears to be in a dry, brown state, but is rehydrated by water during the wet season, making the desert green. Small hairs (500-2000 μm in length, and 40 μm in diameter, d) growing out from the tip of the moss leaves transport water back to the leaves. Through high speed observations and mathematical modeling it appears that this transportation is driven by two different mechanisms. 1) Droplet transport is achieved in three ways: i) A large (10d) droplet attached between two intersecting fibers will move toward the bases of the leaves by the changing angle between the two hairs. ii) The shape of the moss hair is conical, thicker at the base, producing a gradient that moves fluid (5d) toward the leaf similar to cactus spines. iii) We also observe that in some cases a Plateau-Rayleigh instability trigger a series of droplets moving toward the base. 2) Micro-grooves on the moss hair transport a film of water along the moss hair when larger droplets are not available. These various water transportation strategies combine to help the moss to survive in the desert and provide valuable insight.

  8. Thermodynamically coupled mass transport processes in a saturated clay

    SciTech Connect

    Carnahan, C.L.

    1984-11-01

    Gradients of temperature, pressure, and fluid composition in saturated clays give rise to coupled transport processes (thermal and chemical osmosis, thermal diffusion, ultrafiltration) in addition to the direct processes (advection and diffusion). One-dimensional transport of water and a solute in a saturated clay subjected to mild gradients of temperature and pressure was simulated numerically. When full coupling was accounted for, volume flux (specific discharge) was controlled by thermal osmosis and chemical osmosis. The two coupled fluxes were oppositely directed, producing a point of stagnation within the clay column. Solute flows were dominated by diffusion, chemical osmosis, and thermal osmosis. Chemical osmosis produced a significant flux of solute directed against the gradient of solute concentration; this effect reduced solute concentrations relative to the case without coupling. Predictions of mass transport in clays at nuclear waste repositories could be significantly in error if coupled transport processes are not accounted for. 14 references, 8 figures, 1 table.

  9. Fuel cell water transport

    DOEpatents

    Vanderborgh, Nicholas E.; Hedstrom, James C.

    1990-01-01

    The moisture content and temperature of hydrogen and oxygen gases is regulated throughout traverse of the gases in a fuel cell incorporating a solid polymer membrane. At least one of the gases traverses a first flow field adjacent the solid polymer membrane, where chemical reactions occur to generate an electrical current. A second flow field is located sequential with the first flow field and incorporates a membrane for effective water transport. A control fluid is then circulated adjacent the second membrane on the face opposite the fuel cell gas wherein moisture is either transported from the control fluid to humidify a fuel gas, e.g., hydrogen, or to the control fluid to prevent excess water buildup in the oxidizer gas, e.g., oxygen. Evaporation of water into the control gas and the control gas temperature act to control the fuel cell gas temperatures throughout the traverse of the fuel cell by the gases.

  10. Coupled transport processes in semipermeable media

    SciTech Connect

    Carnahan, C.L.; Jacobsen, J.S.

    1990-04-01

    The thermodynamics of irreversible processes (TTIP) is used to derive governing equations and phenomenological equations for transport processes and chemical reactions in water-saturated semipermeable media. TTIP is based on three fundamental postulates. The first postulate, the assumption of local equilibrium, allows the formulation of balance equations for entropy. These equations are the bases for the derivation of governing equations for the thermodynamic variables, temperature, pressure, and composition. The governing equations involve vector fluxes of heat and mass and scalar rates of chemical reactions; in accordance with the second postulate of TTIP, these fluxes and rates are related, respectively, to all scalar driving forces (gradients of thermodynamic variables) acting within the system. The third postulate of TTIP states equality (the Onsager reciprocal relations) between certain of the phenomenological coefficients relating forces and fluxes. The description by TTIP of a system undergoing irreversible processes allows consideration of coupled transport processes such as thermal osmosis, chemical osmosis, and ultrafiltration. The coupled processes can make significant contributions to flows of mass and energy in slightly permeable, permselective geological materials such as clays and shales.

  11. Physiological and ecological implications of coupled heat and water transport mechanisms of endotherms and tundra vegetation. Progress report

    SciTech Connect

    Porter, W.P.; Stewart, W.E.

    1986-01-01

    This research seeks to extend a current quantitative general heat and mass transfer model developed for the porous insulation of endotherms to include the porous media of tundra vegetation, to test the model's predictions for endotherm heat generation requirements and water loss rates for different insulations under conditions measured in the laboratory and in the field on various inanimate objects and live endotherms, and to integrate the porous media model with microclimate models to calculate heat and mass fluxes through the low canopies of tundra vegetation and the soil. 9 refs., 6 figs.

  12. Water intensity of transportation.

    PubMed

    King, Carey W; Webber, Michael E

    2008-11-01

    As the need for alternative transportation fuels increases, it is important to understand the many effects of introducing fuels based upon feedstocks other than petroleum. Water intensity in "gallons of water per mile traveled" is one method to measure these effects on the consumer level. In this paper we investigate the water intensity for light duty vehicle (LDV) travel using selected fuels based upon petroleum, natural gas, unconventional fossil fuels, hydrogen, electricity, and two biofuels (ethanol from corn and biodiesel from soy). Fuels more directly derived from fossil fuels are less water intensive than those derived either indirectly from fossil fuels (e.g., through electricity generation) or directly from biomass. The lowest water consumptive (<0.15 gal H20/mile) and withdrawal (<1 gal H2O/mile) rates are for LDVs using conventional petroleum-based gasoline and diesel, nonirrigated biofuels, hydrogen derived from methane or electrolysis via nonthermal renewable electricity, and electricity derived from nonthermal renewable sources. LDVs running on electricity and hydrogen derived from the aggregate U.S. grid (heavily based upon fossil fuel and nuclear steam-electric power generation) withdraw 5-20 times and consume nearly 2-5 times more water than by using petroleum gasoline. The water intensities (gal H20/mile) of LDVs operating on biofuels derived from crops irrigated in the United States at average rates is 28 and 36 for corn ethanol (E85) for consumption and withdrawal, respectively. For soy-derived biodiesel the average consumption and withdrawal rates are 8 and 10 gal H2O/mile.

  13. Diffusive Transport Properties Across Coupling Regimes

    NASA Astrophysics Data System (ADS)

    Dharuman, G.; Murillo, M. S.; Verboncoeur, J.; Christlieb, A.

    2014-10-01

    Transport properties are poorly known across coupling regimes, therefore understanding them is of importance for theoretical and practical reasons. A useful tool is an ultracold plasma system because of the experimental capability to tune the system to attain Coulomb coupling Γ ranging from 0.1 to 1 to 10 with the screening parameter κ ranging from 0 to 4 to 8, spanning the regions of the phase diagram from weak to moderate to strongly coupled and screened systems. Strong coupling is possible if Disorder Induced Heating is mitigated which requires a correlated initial ion state. Of particular interest is Rydberg blockaded gas of ultracold atoms where the local blockade effect results in correlations. Predictions of higher coupling in ultracold plasma created from a Rydberg blockaded gas have been reported. In this work we examine the diffusive transport properties of ultracold plasma system using molecular dynamics simulations for experimentally realizable values of Γ and κ as discussed above.

  14. Coupled electron-photon radiation transport

    SciTech Connect

    Lorence, L.; Kensek, R.P.; Valdez, G.D.; Drumm, C.R.; Fan, W.C.; Powell, J.L.

    2000-01-17

    Massively-parallel computers allow detailed 3D radiation transport simulations to be performed to analyze the response of complex systems to radiation. This has been recently been demonstrated with the coupled electron-photon Monte Carlo code, ITS. To enable such calculations, the combinatorial geometry capability of ITS was improved. For greater geometrical flexibility, a version of ITS is under development that can track particles in CAD geometries. Deterministic radiation transport codes that utilize an unstructured spatial mesh are also being devised. For electron transport, the authors are investigating second-order forms of the transport equations which, when discretized, yield symmetric positive definite matrices. A novel parallelization strategy, simultaneously solving for spatial and angular unknowns, has been applied to the even- and odd-parity forms of the transport equation on a 2D unstructured spatial mesh. Another second-order form, the self-adjoint angular flux transport equation, also shows promise for electron transport.

  15. Coupled experimetal and theoretical study of photon absorption and charge transport in BiVO4 photoanodes for solar water splitting

    NASA Astrophysics Data System (ADS)

    Ping, Yuan; Kim, Tae Woo; Galli, Giulia; Choi, Kyoung-Shin

    Bismuth vanadate (BiVO4) has been identified as one of the most promising photoanode materials for water-splitting photoelectrochemical cells. The major limitations of BiVO4 are its relatively wide bandgap (2.5 eV) and low electron mobility (0.2 cm-2V-2S-1), which limit its solar-to-hydrogen conversion efficiency. In this talk we will present the results of a coupled experimental and ab initio theoretical study showing that nitrogen doping together with extra oxygen vacancies lead to both a reduction of BiVO4 band gap and to an increase of the majority carrier density and mobility. In turn these improvements lead to the applied bias photon-to-current efficiency over 2%, a record for a single oxide photon absorber, to the best of our knowledge. The ``codoping'' method adopted in our work could also be applied to simultaneously enhance photon absorption and charge transport in other oxides, providing new possibilities for photocatalytic materials. This work was supported by the National Science Foundation (NSF) under the NSF Center (CHE-1305124). Computer time was provided by NERSC.

  16. Energy coupling mechanisms of MFS transporters

    PubMed Central

    Zhang, Xuejun C; Zhao, Yan; Heng, Jie; Jiang, Daohua

    2015-01-01

    Major facilitator superfamily (MFS) is a large class of secondary active transporters widely expressed across all life kingdoms. Although a common 12-transmembrane helix-bundle architecture is found in most MFS crystal structures available, a common mechanism of energy coupling remains to be elucidated. Here, we discuss several models for energy-coupling in the transport process of the transporters, largely based on currently available structures and the results of their biochemical analyses. Special attention is paid to the interaction between protonation and the negative-inside membrane potential. Also, functional roles of the conserved sequence motifs are discussed in the context of the 3D structures. We anticipate that in the near future, a unified picture of the functions of MFS transporters will emerge from the insights gained from studies of the common architectures and conserved motifs. PMID:26234418

  17. Lagrangian Transport in a coupled Chemistry Climate Model

    NASA Astrophysics Data System (ADS)

    Hoppe, C.; Müller, R.; Günther, G.; Hoffmann, L.

    2012-04-01

    We describe the implementation of a Lagrangian transport core in a chemistry climate model (CCM). This is motivated by the problem that in many cases trace gas distributions in the stratosphere can not be represented properly in a classical Eulerian framework with a fixed model grid, especially in regions where strong trace gas gradients occur. Here, we focus on stratospheric water vapor, which is an important driver of surface climate change on decadal scales. In this case, the transport representation is particularly important in the tropical tropopause layer (TTL), where tropospheric air enters into the stratosphere, i.e. , where the entry level of stratospheric water vapor is determined. For this purpose, the Chemical Lagrangian Model of the Stratosphere (CLaMS) is coupled with the ECHAM/MESSy Atmospheric Chemistry Model (EMAC). The latter includes the ECHAM5 climate model, and a coupling interface, which allows for flexible coupling and switching between different submodels. The chemistry transport model CLaMS provides a full Lagrangian transport representation to calculate constituent transport on a set of air parcels that move along trajectories. In the Lagrangian frame of reference, different vertical velocity representations can be used to drive the trajectories: - kinematic transport in isobaric coordinates with omega as vertical velocity, - diabatic transport in isentropic coordinates, where thetadot calculated from diabatic heatingrates is used as vertical velocity. Since vertical winds in the statosphere derived with the kinematic method from the continuity equation often suffer from excessive numerical noise and errors, we expect that constituent transport using the diabatic method will improve the simulations of stratospheric water vapor. We will present preliminary results illustrating how the different transport representations influence simulated tracer distributions.

  18. Mixing and transport. [Water pollution

    SciTech Connect

    Roberts, P.J.W.

    1982-06-01

    The mixing and transport of water pollution is the subject of this literature review with 110 references. The environmental transport of pollutants is examined in streams, rivers, reservoirs, ponds, estuaries, salt marshes and coastal waters. The dynamics of fluid flow, and the physical properties of jets, plumes, and stratified fluids are discussed. (KRM)

  19. Coupled transport processes in semipermeable media

    SciTech Connect

    Jacobsen, J.S.; Carnahan, C.L.

    1990-04-01

    A numerical simulator has been developed to investigate the effects of coupled processes on heat and mass transport in semipermeable media. The governing equations on which the simulator is based were derived using the thermodynamics of irreversible processes. The equations are nonlinear and have been solved numerically using the n-dimensional Newton's method. As an example of an application, the numerical simulator has been used to investigate heat and solute transport in the vicinity of a heat source buried in a saturated clay-like medium, in part to study solute transport in bentonite packing material surrounding a nuclear waste canister. The coupled processes considered were thermal filtration, thermal osmosis, chemical osmosis and ultrafiltration. In the simulations, heat transport by coupled processes was negligible compared to heat conduction, but pressure and solute migration were affected. Solute migration was retarded relative to the uncoupled case when only chemical osmosis was considered. When both chemical osmosis and thermal osmosis were included, solute migration was enhanced. 18 refs., 20 figs.

  20. Students' Conceptions of Water Transport

    ERIC Educational Resources Information Center

    Rundgren, Carl-Johan; Rundgren, Shu-Nu Chang; Schonborn, Konrad J.

    2010-01-01

    Understanding diffusion of water into and out of the cell through osmosis is fundamental to the learning and teaching of biology. Although this process is thought of as occurring directly across the lipid bilayer, the majority of water transport is actually mediated by specialised transmembrane water-channels called aquaporins. This study…

  1. Plasma transport theory spanning weak to strong coupling

    SciTech Connect

    Daligault, Jérôme; Baalrud, Scott D.

    2015-06-29

    We describe some of the most striking characteristics of particle transport in strongly coupled plasmas across a wide range of Coulomb coupling strength. We then discuss the effective potential theory, which is an approximation that was recently developed to extend conventional weakly coupled plasma transport theory into the strongly coupled regime in a manner that is practical to evaluate efficiently.

  2. A coupled energy transport and hydrological model for urban canopies

    NASA Astrophysics Data System (ADS)

    Wang, Z.; Bou-Zeid, E.; Smith, J. A.

    2011-12-01

    Urban land-atmosphere interaction has been attracting more research efforts in order to understand the complex physics of flow and mass and heat transport in urban surfaces and the lower urban atmosphere. In this work, we developed and implemented a new physically-based single-layer urban canopy model, coupling the surface exchange of energy and the subsurface transport of water/soil moisture. The new model incorporates sub-facet heterogeneity for each urban surface (roof, wall or ground). This better simulates the energy transport in urban canopy layers, especially over low-intensity built (suburban type) terrains that include a significant fraction of vegetated surfaces. We implemented detailed urban hydrological models for both natural terrains (bare soil and vegetation) and porous engineered materials with water-holding capacity (concrete, gravel, etc). The skill of the new scheme was tested against experimental data collected through a wireless sensor network deployed over the campus of Princeton University. The model performance was found to be robust and insensitive to changes in weather conditions or seasonal variability. Predictions of the volumetric soil water content were also in good agreement with field measurements, highlighting the model capability of capturing subsurface water transport for urban lawns. The new model was also applied to a case study assessing different strategies, i.e. white versus green roofs, in the mitigation of urban heat island effect.

  3. The human proton-coupled folate transporter

    PubMed Central

    Desmoulin, Sita Kugel; Hou, Zhanjun; Gangjee, Aleem; Matherly, Larry H.

    2012-01-01

    This review summarizes the biology of the proton-coupled folate transporter (PCFT). PCFT was identified in 2006 as the primary transporter for intestinal absorption of dietary folates, as mutations in PCFT are causal in hereditary folate malabsorption (HFM) syndrome. Since 2006, there have been major advances in understanding the mechanistic roles of critical amino acids and/or domains in the PCFT protein, many of which were identified as mutated in HFM patients, and in characterizing transcriptional control of the human PCFT gene. With the recognition that PCFT is abundantly expressed in human tumors and is active at pHs characterizing the tumor microenvironment, attention turned to exploiting PCFT for delivering novel cytotoxic antifolates for solid tumors. The finding that pemetrexed is an excellent PCFT substrate explains its demonstrated clinical efficacy for mesothelioma and non-small cell lung cancer, and prompted development of more PCFT-selective tumor-targeted 6-substituted pyrrolo[2,3-d]pyrimidine antifolates that derive their cytotoxic effects by targeting de novo purine nucleotide biosynthesis. PMID:22954694

  4. Entrainment in coupled salt-water oscillators

    NASA Astrophysics Data System (ADS)

    Miyakawa, Kenji; Yamada, Kazuhiko

    1999-03-01

    The properties of coupling between two salt-water oscillators were studied. Two salt-water oscillators were coupled through the window of the partition wall. With an increase of the area of the window, the quasi-periodic mode, the in-phase mode, the bistable mode, and the out-of-phase mode appeared successively. A phase diagram of coupling was obtained in the plane of the area of the window and the diameter of the orifice of the cup. Furthermore, the effect of viscosity on coupling behaviors was investigated. In the boundary region between quasi-periodic coupling and in-phase coupling, the mode coupled with the phase difference of approximately π/4 was found. The experimental results were reproduced by the numerical simulation using coupled non-linear differential equations.

  5. Development, Testing, and Application of a Coupled Hydrodynamic Surface-Water/Groundwater Model (FTLOADDS) with Heat and Salinity Transport in the Ten Thousand Islands/Picayune Strand Restoration Project Area, Florida

    USGS Publications Warehouse

    Swain, Eric D.; Decker, Jeremy D.

    2009-01-01

    A numerical model application was developed for the coastal area inland of the Ten Thousand Islands (TTI) in southwestern Florida using the Flow and Transport in a Linked Overland/Aquifer Density-Dependent System (FTLOADDS) model. This model couples a two-dimensional dynamic surface-water model with a three-dimensional groundwater model, and has been applied to several locations in southern Florida. The model application solves equations for salt transport in groundwater and surface water, and also simulates surface-water temperature using a newly enhanced heat transport algorithm. One of the purposes of the TTI application is to simulate hydrologic factors that relate to habitat suitability for the West Indian Manatee. Both salinity and temperature have been shown to be important factors for manatee survival. The inland area of the TTI domain is the location of the Picayune Strand Restoration Project, which is designed to restore predevelopment hydrology through the filling and plugging of canals, construction of spreader channels, and the construction of levees and pump stations. The effects of these changes are simulated to determine their effects on manatee habitat. The TTI application utilizes a large amount of input data for both surface-water and groundwater flow simulations. These data include topography, frictional resistance, atmospheric data including rainfall and air temperature, aquifer properties, and boundary conditions for tidal levels, inflows, groundwater heads, and salinities. Calibration was achieved by adjusting the parameters having the largest uncertainty: surface-water inflows, the surface-water transport dispersion coefficient, and evapotranspiration. A sensitivity analysis did not indicate that further parameter changes would yield an overall improvement in simulation results. The agreement between field data from GPS-tracked manatees and TTI application results demonstrates that the model can predict the salinity and temperature

  6. Distinct transport regimes for two elastically coupled molecular motors.

    PubMed

    Berger, Florian; Keller, Corina; Klumpp, Stefan; Lipowsky, Reinhard

    2012-05-18

    Cooperative cargo transport by two molecular motors involves an elastic motor-motor coupling, which can reduce the motors' velocity and/or enhance their unbinding from the filament. We show theoretically that these interference effects lead, in general, to four distinct transport regimes. In addition to a weak coupling regime, kinesin and dynein motors are found to exhibit a strong coupling and an enhanced unbinding regime, whereas myosin motors are predicted to attain a reduced velocity regime. All of these regimes, which we derive by explicit calculations and general time scale arguments, can be explored experimentally by varying the elastic coupling strength.

  7. Numerical and Experimental Quantification of coupled water and water vapor fluxes in very dry soils.

    NASA Astrophysics Data System (ADS)

    Madi, Raneem; de Rooij, Gerrit

    2015-04-01

    In arid and semi-arid regions with deep groundwater and very dry soils, vapor movement in the vadose zone may be a major component in the total water flux. Therefore, the coupled movement of liquid water, water vapor and heat transport in the unsaturated zone should be explicitly considered to quantify subsurface water fluxes in such regions. Only few studies focused on the importance of vapor water diffusion in dry soils and in many water flow studies in soil it was neglected. We are interested in the importance of water vapor diffusion and condensation in very dry sand. A version of Hydrus-1D capable of solving the coupled water vapor and heat transport equations will be used to do the numerical modeling. The soil hydraulic properties will be experimentally determined. A soil column experiment was developed with negligible liquid flow in order to isolate vapor flux for testing. We have used different values of initial water contents trying to generate different scenarios to assess the role of the water vapor transport in arid and semi-arid soils and how it changes the soil water content using different soil hydraulic parametrization functions. In the session a preliminary experimental and modelling results of vapor and water fluxes will be presented.

  8. Water transport by GLUT2 expressed in Xenopus laevis oocytes

    PubMed Central

    Zeuthen, Thomas; Zeuthen, Emil; MacAulay, Nanna

    2007-01-01

    The glucose transporter GLUT2 has been shown to also transport water. In the present paper we investigated the relation between sugar and water transport in human GLUT2 expressed in Xenopus oocytes. Sugar transport was determined from uptakes of non-metabolizable glucose analogues, primarily 3-O-methyl-d-glucopyranoside; key experimental results were confirmed using d(+)-glucose. Water transport was derived from changes in oocyte volume monitored at a high resolution (20 pl, 1 s). Expression of GLUT2 induced a sugar permeability, PS, of about 5 × 10−6 cm s−1 and a passive water permeability, Lp, of 5.5 × 10−5 cm s−1. Accordingly, the passive water permeability of a GLUT2 protein is about 10 times higher than its sugar permeability. Both permeabilities were abolished by phloretin. Isosmotic addition of sugar to the bathing solution (replacing mannitol) induced two parallel components of water influx in GLUT2, one by osmosis and one by cotransport. The osmotic driving force arose from sugar accumulation at the intracellular side of the membrane and was given by an intracellular diffusion coefficient for sugar of 10−6 cm2 s−1, one-fifth of the free solution value. The diffusion coefficient was determined in oocytes coexpressing GLUT2 and the water channel AQP1 where water transport was predominantly osmotic. By the cotransport mechanism about 35 water molecules were transported for each sugar molecule by a mechanism within the GLUT2. These water molecules could be transported uphill, against an osmotic gradient, energized by the flux of sugar. This capacity for cotransport is 10 times smaller than that of the Na+-coupled glucose transporters (SGLT1). The physiological role of GLUT2 for intestinal transport under conditions of high luminal sugar concentrations is discussed. PMID:17158169

  9. Transportation dynamics on coupled networks with limited bandwidth

    NASA Astrophysics Data System (ADS)

    Li, Ming; Hu, Mao-Bin; Wang, Bing-Hong

    2016-12-01

    The communication networks in real world often couple with each other to save costs, which results in any network does not have a stand-alone function and efficiency. To investigate this, in this paper we propose a transportation model on two coupled networks with bandwidth sharing. We find that the free-flow state and the congestion state can coexist in the two coupled networks, and the free-flow path and congestion path can coexist in each network. Considering three bandwidth-sharing mechanisms, random, assortative and disassortative couplings, we also find that the transportation capacity of the network only depends on the coupling mechanism, and the fraction of coupled links only affects the performance of the system in the congestion state, such as the traveling time. In addition, with assortative coupling, the transportation capacity of the system will decrease significantly. However, the disassortative coupling has little influence on the transportation capacity of the system, which provides a good strategy to save bandwidth. Furthermore, a theoretical method is developed to obtain the bandwidth usage of each link, based on which we can obtain the congestion transition point exactly.

  10. Transportation dynamics on coupled networks with limited bandwidth.

    PubMed

    Li, Ming; Hu, Mao-Bin; Wang, Bing-Hong

    2016-12-14

    The communication networks in real world often couple with each other to save costs, which results in any network does not have a stand-alone function and efficiency. To investigate this, in this paper we propose a transportation model on two coupled networks with bandwidth sharing. We find that the free-flow state and the congestion state can coexist in the two coupled networks, and the free-flow path and congestion path can coexist in each network. Considering three bandwidth-sharing mechanisms, random, assortative and disassortative couplings, we also find that the transportation capacity of the network only depends on the coupling mechanism, and the fraction of coupled links only affects the performance of the system in the congestion state, such as the traveling time. In addition, with assortative coupling, the transportation capacity of the system will decrease significantly. However, the disassortative coupling has little influence on the transportation capacity of the system, which provides a good strategy to save bandwidth. Furthermore, a theoretical method is developed to obtain the bandwidth usage of each link, based on which we can obtain the congestion transition point exactly.

  11. Transportation dynamics on coupled networks with limited bandwidth

    PubMed Central

    Li, Ming; Hu, Mao-Bin; Wang, Bing-Hong

    2016-01-01

    The communication networks in real world often couple with each other to save costs, which results in any network does not have a stand-alone function and efficiency. To investigate this, in this paper we propose a transportation model on two coupled networks with bandwidth sharing. We find that the free-flow state and the congestion state can coexist in the two coupled networks, and the free-flow path and congestion path can coexist in each network. Considering three bandwidth-sharing mechanisms, random, assortative and disassortative couplings, we also find that the transportation capacity of the network only depends on the coupling mechanism, and the fraction of coupled links only affects the performance of the system in the congestion state, such as the traveling time. In addition, with assortative coupling, the transportation capacity of the system will decrease significantly. However, the disassortative coupling has little influence on the transportation capacity of the system, which provides a good strategy to save bandwidth. Furthermore, a theoretical method is developed to obtain the bandwidth usage of each link, based on which we can obtain the congestion transition point exactly. PMID:27966624

  12. The maltose ABC transporter: action of membrane lipids on the transporter stability, coupling and ATPase activity.

    PubMed

    Bao, Huan; Dalal, Kush; Wang, Victor; Rouiller, Isabelle; Duong, Franck

    2013-08-01

    The coupling between ATP hydrolysis and substrate transport remains a key question in the understanding of ABC-mediated transport. We show using the MalFGK2 complex reconstituted into nanodiscs, that membrane lipids participate directly to the coupling reaction by stabilizing the transporter in a low energy conformation. When surrounded by short acyl chain phospholipids, the transporter is unstable and hydrolyzes large amounts of ATP without inducing maltose. The presence of long acyl chain phospholipids stabilizes the conformational dynamics of the transporter, reduces its ATPase activity and restores dependence on maltose. Membrane lipids therefore play an essential allosteric function, they restrict the transporter ATPase activity to increase coupling to the substrate. In support to the notion, we show that increasing the conformational dynamics of MalFGK2 with mutations in MalF increases the transporter ATPase activity but decreases the maltose transport efficiency.

  13. Modeling greenhouse gas emissions (CO2, N2O, CH4) from managed arable soils with a fully coupled hydrology-biogeochemical modeling system simulating water and nutrient transport and associated carbon and nitrogen cycling at catchment scale

    NASA Astrophysics Data System (ADS)

    Klatt, Steffen; Haas, Edwin; Kraus, David; Kiese, Ralf; Butterbach-Bahl, Klaus; Kraft, Philipp; Plesca, Ina; Breuer, Lutz; Zhu, Bo; Zhou, Minghua; Zhang, Wei; Zheng, Xunhua; Wlotzka, Martin; Heuveline, Vincent

    2014-05-01

    The use of mineral nitrogen fertilizer sustains the global food production and therefore the livelihood of human kind. The rise in world population will put pressure on the global agricultural system to increase its productivity leading most likely to an intensification of mineral nitrogen fertilizer use. The fate of excess nitrogen and its distribution within landscapes is manifold. Process knowledge on the site scale has rapidly grown in recent years and models have been developed to simulate carbon and nitrogen cycling in managed ecosystems on the site scale. Despite first regional studies, the carbon and nitrogen cycling on the landscape or catchment scale is not fully understood. In this study we present a newly developed modelling approach by coupling the fully distributed hydrology model CMF (catchment modelling framework) to the process based regional ecosystem model LandscapeDNDC for the investigation of hydrological processes and carbon and nitrogen transport and cycling, with a focus on nutrient displacement and resulting greenhouse gas emissions in a small catchment at the Yanting Agro-ecological Experimental Station of Purple Soil, Sichuan province, China. The catchment hosts cypress forests on the outer regions, arable fields on the sloping croplands cultivated with wheat-maize rotations and paddy rice fields in the lowland. The catchment consists of 300 polygons vertically stratified into 10 soil layers. Ecosystem states (soil water content and nutrients) and fluxes (evapotranspiration) are exchanged between the models at high temporal scales (hourly to daily) forming a 3-dimensional model application. The water flux and nutrients transport in the soil is modelled using a 3D Richards/Darcy approach for subsurface fluxes with a kinematic wave approach for surface water runoff and the evapotranspiration is based on Penman-Monteith. Biogeochemical processes are modelled by LandscapeDNDC, including soil microclimate, plant growth and biomass allocation

  14. Mathematical Simulation of Sediment and Radionuclide Transport in Surface Waters

    SciTech Connect

    ,

    1981-04-01

    The study objective of "The Mathematical Simulation of Sediment and Radionuclide Transport in Surface Waters" is to synthesize and test radionuclide transport models capable of realistically assessing radionuclide transport in various types of surface water bodies by including the sediment-radionuclide interactions. These interactions include radionuclide adsorption by sediment; desorption from sediment into water; and transport, deposition, and resuspension of sorbed radionuclides controlled by the sediment movements. During FY-1979, the modification of sediment and contaminant (radionuclide) transport model, FETRA, was completed to make it applicable to coastal waters. The model is an unsteady, two-dimensional (longitudinal and lateral) model that consists of three submodels (for sediment, dissolved-contaminant, and particulate-contaminant transport), coupled to include the sediment-contaminant interactions. In estuaries, flow phenomena and consequent sediment and radionuclide migration are often three-dimensional in nature mainly because of nonuniform channel cross-sections, salinity intrusion, and lateral-flow circulation. Thus, an unsteady, three-dimensional radionuclide transport model for estuaries is also being synthesized by combining and modifying a PNL unsteady hydrothermal model and FETRA. These two radionuclide transport models for coastal waters and estuaries will be applied to actual sites to examine the validity of the codes.

  15. Water transport with a carbon nanotube pump.

    PubMed

    Duan, Wen Hui; Wang, Quan

    2010-04-27

    Transportation of water molecules in a carbon nanotube based on an energy pump concept is investigated by molecular dynamics simulations. A small portion of the initially twisted wall of a carbon nanotube is employed to function as an energy pump for possible smooth transportation of water molecules. The momentum and resultant force on a water molecule and the corresponding displacement and velocity of the molecule are particularly studied to disclose the transportation process. The efficiency of the transportation is found to be dependent on the size of the energy pump. Once the process for the transportation of one molecule is elucidated, transportations of 20 water molecules are simulated to investigate the effect of the environmental temperature and fluctuations in the nanotube channel on the transportation. It is revealed that the accelerated period of multiple water molecules is longer than that in the transportation of a single water molecule. In addition, the fluctuations in the nanotube wall due to the buckling propagation and a higher environmental temperature will all lead to obvious decreases in the water velocity and hence retard the transportation process.

  16. The Physiological Relevance of Na+-Coupled K+-Transport.

    PubMed Central

    Maathuis, FJM.; Verlin, D.; Smith, F. A.; Sanders, D.; Fernandez, J. A.; Walker, N. A.

    1996-01-01

    Plant roots utilize at least two distinct pathways with high and low affinities to accumulate K+. The system for high-affinity K+ uptake, which takes place against the electrochemical K+ gradient, requires direct energization. Energization of K+ uptake via Na+ coupling has been observed in algae and was recently proposed as a mechanism for K+ uptake in wheat (Triticum aestivum L.). To investigate whether Na+ coupling has general physiological relevance in energizing K+ transport, we screened a number of species, including Arabidopsis thaliana L. Heynh. ecotype Columbia, wheat, and barley (Hordeum vulgare L.), for the presence of Na+-coupled K+ uptake. Rb+-flux analysis and electrophysiological K+-transport assays were performed in the presence and absence of Na+ and provided evidence for a coupling between K+ and Na+ transport in several aquatic species. However, all investigated terrestrial species were able to sustain growth and K+ uptake in the absence of Na+. Furthermore, the addition of Na+ was either without effect or inhibited K+ absorption. The latter characteristic was independent of growth conditions with respect to Na+ status and pH. Our results suggest that in terrestrial species Na+-coupled K+ transport has no or limited physiological relevance, whereas in certain aquatic angiosperms and algae this type of secondary transport energization plays a significant role. PMID:12226467

  17. MODELING COUPLED HYDROLOGICAL AND CHEMICAL PROCESSES: LONG-TERM URANIUM TRANSPORT FOLLOWING PHOSPHOROUS-FERTILIZATION

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Contaminants in the vadose zone are affected by the physical processes of water flow, heat movement and multicomponent transport, as well as generally by a range of interacting biogeochemical processes. Coupling these various processes within one integrated numerical simulator provides a process-ba...

  18. Plant water relations I: uptake and transport

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Plants, like all living things, are mostly water. Water is the matrix of life, and its availability determines the distribution and productivity of plants on earth. Vascular plants evolved structures that enable them to transport water long distances with little input of energy, but the hollow trach...

  19. Quantum transport in coupled resonators enclosed synthetic magnetic flux

    NASA Astrophysics Data System (ADS)

    Jin, L.

    2016-07-01

    Quantum transport properties are instrumental to understanding quantum coherent transport processes. Potential applications of quantum transport are widespread, in areas ranging from quantum information science to quantum engineering, and not restricted to quantum state transfer, control and manipulation. Here, we study light transport in a ring array of coupled resonators enclosed synthetic magnetic flux. The ring configuration, with an arbitrary number of resonators embedded, forms a two-arm Aharonov-Bohm interferometer. The influence of magnetic flux on light transport is investigated. Tuning the magnetic flux can lead to resonant transmission, while half-integer magnetic flux quantum leads to completely destructive interference and transmission zeros in an interferometer with two equal arms.

  20. Transport signatures in topological systems coupled to ac fields

    NASA Astrophysics Data System (ADS)

    Ruocco, Leonard; Gómez-León, Álvaro

    2017-02-01

    We study the transport properties of a topological system coupled to an ac electric field by means of Floquet-Keldysh formalism. We consider a semi-infinite chain of dimers coupled to a semi-infinite metallic lead and obtain the density of states and current when the system is out of equilibrium. Our formalism is nonperturbative and allows us to explore, in the thermodynamic limit, a wide range of regimes for the ac field, arbitrary values of the coupling strength to the metallic contact and corrections to the wide-band limit (WBL). We find that hybridization with the contact can change the dimerization phase, and that the current dependence on the field amplitude can be used to discriminate between them. We also show the appearance of side bands and nonequilibrium zero-energy modes, characteristic of the Floquet systems. Our results directly apply to the stability of nonequilibrium topological phases, when transport measurements are used for their detection.

  1. Quantum transport in coupled resonators enclosed synthetic magnetic flux

    SciTech Connect

    Jin, L.

    2016-07-15

    Quantum transport properties are instrumental to understanding quantum coherent transport processes. Potential applications of quantum transport are widespread, in areas ranging from quantum information science to quantum engineering, and not restricted to quantum state transfer, control and manipulation. Here, we study light transport in a ring array of coupled resonators enclosed synthetic magnetic flux. The ring configuration, with an arbitrary number of resonators embedded, forms a two-arm Aharonov–Bohm interferometer. The influence of magnetic flux on light transport is investigated. Tuning the magnetic flux can lead to resonant transmission, while half-integer magnetic flux quantum leads to completely destructive interference and transmission zeros in an interferometer with two equal arms. -- Highlights: •The light transport is investigated through ring array of coupled resonators enclosed synthetic magnetic field. •Aharonov–Bohm ring interferometer of arbitrary configuration is investigated. •The half-integer magnetic flux quantum leads to destructive interference and transmission zeros for two-arm at equal length. •Complete transmission is available via tuning synthetic magnetic flux.

  2. Turbulent water coupling in shock wave lithotripsy.

    PubMed

    Lautz, Jaclyn; Sankin, Georgy; Zhong, Pei

    2013-02-07

    Previous studies have demonstrated that stone comminution decreases with increased pulse repetition frequency as a result of bubble proliferation in the cavitation field of a shock wave lithotripter (Pishchalnikov et al 2011 J. Acoust. Soc. Am. 130 EL87-93). If cavitation nuclei remain in the propagation path of successive lithotripter pulses, especially in the acoustic coupling cushion of the shock wave source, they will consume part of the incident wave energy, leading to reduced tensile pressure in the focal region and thus lower stone comminution efficiency. We introduce a method to remove cavitation nuclei from the coupling cushion between successive shock exposures using a jet of degassed water. As a result, pre-focal bubble nuclei lifetime quantified by B-mode ultrasound imaging was reduced from 7 to 0.3 s by a jet with an exit velocity of 62 cm s(-1). Stone fragmentation (percent mass <2 mm) after 250 shocks delivered at 1 Hz was enhanced from 22 ± 6% to 33 ± 5% (p = 0.007) in water without interposing tissue mimicking materials. Stone fragmentation after 500 shocks delivered at 2 Hz was increased from 18 ± 6% to 28 ± 8% (p = 0.04) with an interposing tissue phantom of 8 cm thick. These results demonstrate the critical influence of cavitation bubbles in the coupling cushion on stone comminution and suggest a potential strategy to improve the efficacy of contemporary shock wave lithotripters.

  3. Coupled surface-water and ground-water model

    USGS Publications Warehouse

    Swain, Eric D.; Wexler, Eliezer J.

    1991-01-01

    In areas with dynamic and hydraulically well connected ground-water and surface-water systems, it is desirable that stream-aquifer interaction be simulated with models of equal sophistication and accuracy. Accordingly, a new, coupled ground-water and surface-water model was developed by combining the U.S. Geological Survey models MODFLOW and BRANCH. MODFLOW is the widely used modular three-dimensional, finite-difference, ground-water model and BRANCH is a one-dimensional numerical model commonly used to simulate flow in open-channel networks. Because time steps used in ground-water modeling commonly are much longer than those used in surface-water simulations, provision has been made for handling multiple BRANCH time steps within one MODFLOW time step. Verification testing of the coupled model was done using data from previous studies and by comparing results with output from a simpler four-point implicit open-channel flow model linked with MODFLOW.

  4. Effective Potential Theory for Transport Coefficients across Coupling Regimes

    NASA Astrophysics Data System (ADS)

    Baalrud, Scott D.

    2013-10-01

    Plasmas in several modern experiments, including dense, ultracold and dusty plasmas, can reach strong coupling where the Coulomb potential energy of interacting particles exceeds their average kinetic energy. Understanding how the many-body physics of correlations affects plasma transport properties in this regime is interesting both from a basic physics standpoint and as a practical matter. Transport coefficients are essential input required for accurate hydrodynamic modeling of these systems, which can include weakly coupled and strongly coupled components simultaneously. We discuss a physically motivated extension of plasma transport theory that is computationally efficient and versatile enough that it can be applied to essentially any transport property. Like conventional plasma theories, ours is based on a binary collision picture, but where particles interact via an effective potential that accounts for average affects of the intervening medium. This includes both correlations and screening. Hypernetted chain (HNC) theory, which is a well-established approximation for the pair correlation function, is used to derive the effective potential. The theory is shown to compare well with ion velocity relaxation in an ultracold plasma experiment, as well as classical molecular dynamics simulations of temperature relaxation in electron-ion plasmas, and diffusion in both one-component plasmas and ionic mixtures. This research was conducted in collaboration with Jerome Daligault and was supported by a Richard P. Feynman Postdoctoral Fellowship and the LDRD program at Los Alamos National Laboratory.

  5. Transport properties of elastically coupled fractional Brownian motors

    NASA Astrophysics Data System (ADS)

    Lv, Wangyong; Wang, Huiqi; Lin, Lifeng; Wang, Fei; Zhong, Suchuan

    2015-11-01

    Under the background of anomalous diffusion, which is characterized by the sub-linear or super-linear mean-square displacement in time, we proposed the coupled fractional Brownian motors, in which the asymmetrical periodic potential as ratchet is coupled mutually with elastic springs, and the driving source is the external harmonic force and internal thermal fluctuations. The transport mechanism of coupled particles in the overdamped limit is investigated as the function of the temperature of baths, coupling constant and natural length of the spring, the amplitude and frequency of driving force, and the asymmetry of ratchet potential by numerical stimulations. The results indicate that the damping force involving the information of historical velocity leads to the nonlocal memory property and blocks the traditional dissipative motion behaviors, and it even plays a cooperative role of driving force in drift motion of the coupled particles. Thus, we observe various non-monotonic resonance-like behaviors of collective directed transport in the mediums with different diffusion exponents.

  6. [Research advances in simulating land water-carbon coupling].

    PubMed

    Liu, Ning; Sun, Peng-Sen; Liu, Shi-Rong

    2012-11-01

    The increasing demand of adaptive management of land, forest, and water resources under the background of global change and water resources crisis has promoted the comprehensive study of coupling ecosystem water and carbon cycles and their restrictive relations. To construct the water-carbon coupling model and to approach the ecosystem water-carbon balance and its interactive response mechanisms under climate change at multiple spatiotemporal scales is nowadays a major concern. After reviewing the coupling relationships of water and carbon at various scales, this paper explored the implications and estimation methods of the key processes and related parameters of water-carbon coupling, the construction of evapotranspiration model at large scale based on RS, and the importance of this model in water-carbon coupling researches. The applications of assimilative multivariate data in water-carbon coupling researches under future climate change scenarios were also prospected.

  7. Electron Transport in Water Vapour

    NASA Astrophysics Data System (ADS)

    Kawaguchi, Satoru; Satoh, Kohki; Itoh, Hidenori

    2015-09-01

    Sets of electron collision cross sections for water vapour previously reported are examined by comparing calculated electron swarm parameters with measured parameters. Further, reliable cross section set of water vapour is estimated by the electron swarm method using Monte Carlo simulation to ensure the accuracy of the swarm parameter calculation. The values of an electron drift velocity, a longitudinal diffusion coefficient, and an effective ionisation coefficient calculated from Yousfi and Benabdessadok's set and those calculated from Itikawa and Mason's set do not necessarily agree with measured data. A new cross section set of water vapour, which consists of three kinds of rotational excitation, two kinds of vibrational excitation, three kinds of electron attachment, twenty-six kinds of electronic excitation, and six kinds of ionisation cross sections, and an elastic collision cross section, is estimated, and an anisotropic electron scattering for elastic and rotational excitation collision is considered. The swarm parameters calculated from the estimated cross section set is in good agreement with measured data in a wide range of reduced electric field.

  8. Coupled ATPase-adenylate kinase activity in ABC transporters

    PubMed Central

    Kaur, Hundeep; Lakatos-Karoly, Andrea; Vogel, Ramona; Nöll, Anne; Tampé, Robert; Glaubitz, Clemens

    2016-01-01

    ATP-binding cassette (ABC) transporters, a superfamily of integral membrane proteins, catalyse the translocation of substrates across the cellular membrane by ATP hydrolysis. Here we demonstrate by nucleotide turnover and binding studies based on 31P solid-state NMR spectroscopy that the ABC exporter and lipid A flippase MsbA can couple ATP hydrolysis to an adenylate kinase activity, where ADP is converted into AMP and ATP. Single-point mutations reveal that both ATPase and adenylate kinase mechanisms are associated with the same conserved motifs of the nucleotide-binding domain. Based on these results, we propose a model for the coupled ATPase-adenylate kinase mechanism, involving the canonical and an additional nucleotide-binding site. We extend these findings to other prokaryotic ABC exporters, namely LmrA and TmrAB, suggesting that the coupled activities are a general feature of ABC exporters. PMID:28004795

  9. Electron transport in coupled double quantum wells and wires

    SciTech Connect

    Harff, N.E.; Simmons, J.A.; Lyo, S.K.

    1997-04-01

    Due to inter-quantum well tunneling, coupled double quantum wells (DQWs) contain an extra degree of electronic freedom in the growth direction, giving rise to new transport phenomena not found in single electron layers. This report describes work done on coupled DQWs subject to inplane magnetic fields B{sub {parallel}}, and is based on the lead author`s doctoral thesis, successfully defended at Oregon State University on March 4, 1997. First, the conductance of closely coupled DQWs in B{sub {parallel}} is studied. B{sub {parallel}}-induced distortions in the dispersion, the density of states, and the Fermi surface are described both theoretically and experimentally, with particular attention paid to the dispersion anticrossing and resulting partial energy gap. Measurements of giant distortions in the effective mass are found to agree with theoretical calculations. Second, the Landau level spectra of coupled DQWs in tilted magnetic fields is studied. The magnetoresistance oscillations show complex beating as Landau levels from the two Fermi surface components cross the Fermi level. A third set of oscillations resulting from magnetic breakdown is observed. A semiclassical calculation of the Landau level spectra is then performed, and shown to agree exceptionally well with the data. Finally, quantum wires and quantum point contacts formed in DQW structures are investigated. Anticrossings of the one-dimensional DQW dispersion curves are predicted to have interesting transport effects in these devices. Difficulties in sample fabrication have to date prevented experimental verification. However, recently developed techniques to overcome these difficulties are described.

  10. Water transport dynamics in trees and stands

    SciTech Connect

    Pallardy, S.G.; Cermak, J.; Ewers, F.W.; Kaufmann, M.R.; Parker, W.C.; Sperry, J.S.

    1995-07-01

    Water transport dynamics in trees and stands of conifers have certain features that are characteristic of this group and are at least rare among angiosperms. Among these features is the xylem transport system that is dependent on tracheids for long-distance water transport. Tracheid-containing xylem is relatively inefficient, a property that can reduce submaximum allowable rates of gas exchange, but tracheids also offer substantial capacity for water storage and high resistance to freezing-induced dysfunction. Thus, they are quite compatible with the typical evergreen habit and long transpiration season of conifers. At the stand level, canopy transpiration in conifers is primarily controlled by stomatal conductance. In contrast, in dense canopies of angio-sperms, particularly those of tropical forests with limited air mixing, stand transpiration is limited by radiation input rather than by stomatal control. Because of their evergreen habit a greater proportion of evapotranspiration in conifer forests is associated with evaporation of water intercepted by the tree crowns. Other features of transport dynamics are characteristic of most conifers, but are not unique to this group. Among these features are typically shallow root systems that often must supply water in winter to replace transpiration needs of evergreen species, common occurrence of mycorrhizae that enhance mineral and water uptake, and drought tolerance adaptations that include elements of both dehydration avoidance (e.g., stomatal closure under water stress, shifts in allocation of dry matter to below-ground sinks) and dehydration tolerance (e.g., capacity for acclimation of photosynthetic apparatus to drought, osmotic adjustment). Transpiration rates from conifer foliage often are lower than those of deciduous angiosperms, probably because of the lower maximum capacity of tracheid-bearing xylem to transport water.

  11. A coupled heat and water flow apparatus

    SciTech Connect

    Mohamed, A.M.O.; Caporouscio, F.; Yong, R.N. ); Cheung, C.H. ); Kjartanson, B.H. )

    1993-03-01

    Safe and permanent disposal of radioactive waste requires isolation of a number of diverse chemical elements form the environment. The Canadian Nuclear Fuel Waste Management Program is assessing the concept of disposing of waste in a vault excavated at a depth of 500 to 1000 m below the ground surface in plutonic rock of the Canadian Shield. The temperatures and hydraulic potential in the buffer and back fill material were investigated. To study the performance of a compacted buffer material under thermal and isothermal conditions, a coupled heat and water flow apparatus is designed and presented. In the preliminary design, a one-dimensional flow of heat and water was not achieved. however, control of temperature gradient, existence of one-dimensional flow, and uniformity of temperature and volumetric water content distributions at any cross section within the specimen are achieved in the modified design. Experimental results have shown that the temperature stabilizes very rapidly after a period of approximately 0. 107 days. The moisture moves away from the hot end along the longitudinal direction of the specimen due to imposed thermal gradient. The time required for moisture to stabilize is in order of days. 17 refs., 17 figs., 3 tabs.

  12. CFEST Coupled Flow, Energy & Solute Transport Version CFEST005 Theory Guide

    SciTech Connect

    Freedman, Vicky L.; Chen, Yousu; Gupta, Sumant K.

    2005-11-01

    This document presents the mathematical theory implemented in the CFEST (Coupled Flow, Energy, and Solute Transport) simulator. The simulator is a three-dimensional finite element model that can be used for evaluating flow and solute mass transport. Although the theory for thermal transport is presented in this guide, it has not yet been fully implemented in the simulator. The flow module is capable of simulating both confined and unconfined aquifer systems, as well as constant and variable density fluid flows. For unconfined aquifers, the model uses a moving boundary for the water table, deforming the numerical mesh so that the uppermost nodes are always at the water table. For solute transport, changes in concentration of a single dissolved chemical constituent are computed for advective and hydrodynamic transport, linear sorption represented by a retardation factor, and radioactive decay. Once fully implemented, transport of thermal energy in the groundwater and solid matrix of the aquifer can also be used to model aquifer thermal regimes. Mesh construction employs “collapsible”, hexahedral finite elements in a three-dimensional coordinate system. CFEST uses the Galerkin finite element method to convert the partial differential equations to algebraic form. To solve the coupled equations for momentum, solute and heat transport, either Picard or Newton-Raphson iterative schemes are used to treat nonlinearities. An upstream weighted residual finite-element method is used to solve the advective-dispersive transport and energy transfer equations, which circumvents problems of numerical oscillation problems. Matrix solutions of the flow and transport problems are performed using efficient iterative solvers available in ITPACK and PETSc, solvers that are available in the public domain. These solvers are based on the preconditioned conjugate gradient and ORTHOMIN methods for symmetric and a nonsymmetric matrices, respectively.

  13. Vibronic coupling effect on the electron transport through molecules

    NASA Astrophysics Data System (ADS)

    Tsukada, Masaru; Mitsutake, Kunihiro

    2007-03-01

    Electron transport through molecular bridges or molecular layers connected to nano-electrodes is determined by the combination of coherent and dissipative processes, controlled by the electron-vibron coupling, transfer integrals between the molecular orbitals, applied electric field and temperature. We propose a novel theoretical approach, which combines ab initio molecular orbital method with analytical many-boson model. As a case study, the long chain model of the thiophene oligomer is solved by a variation approach. Mixed states of moderately extended molecular orbital states mediated and localised by dress of vibron cloud are found as eigen-states. All the excited states accompanied by multiple quanta of vibration can be solved, and the overall carrier transport properties including the conductance, mobility, dissipation spectra are analyzed by solving the master equation with the transition rates estimated by the golden rule. We clarify obtained in a uniform systematic way, how the transport mode changes from a dominantly coherent transport to the dissipative hopping transport.

  14. Inertial effect on spin-orbit coupling and spin transport

    NASA Astrophysics Data System (ADS)

    Basu, B.; Chowdhury, Debashree

    2013-08-01

    We theoretically study the renormalization of inertial effects on the spin dependent transport of conduction electrons in a semiconductor by taking into account the interband mixing on the basis of k→ṡp→ perturbation theory. In our analysis, for the generation of spin current we have used the extended Drude model where the spin-orbit coupling plays an important role. We predict enhancement of the spin current resulting from the renormalized spin-orbit coupling effective in our model in cubic and non-cubic crystals. Attention has been paid to clarify the importance of gauge fields in the spin transport of this inertial system. A theoretical proposition of a perfect spin filter has been done through the Aharonov-Casher like phase corresponding to this inertial system. For a time dependent acceleration, effect of k→ ṡp→ perturbation on the spin current and spin polarization has also been addressed. Furthermore, achievement of a tunable source of polarized spin current through the non uniformity of the inertial spin-orbit coupling strength has also been discussed.

  15. An analytical model for predicting transport in a coupled vadose/phreatic system

    SciTech Connect

    Tomasko, D.

    1997-05-01

    A simple analytical model is presented for predicting the transport of a contaminant in both the unsaturated (vadose) and saturated (phreatic) zones following a surficial spill. The model incorporates advection, dispersion, adsorption, and first-order decay in both zones and couples the transport processes at the water table. The governing equation is solved by using the method of Laplace transforms, with numerical inversion of the Laplace space equation for concentration. Because of the complexity of the functional form for the Laplace space solution, a numerical methodology using the real and imaginary parts of a Fourier series was implemented. To reduce conservatism in the model, dilution at the water table was also included. Verification of the model is demonstrated by its ability to reproduce the source history at the surface and to replicate appropriate one-dimensional transport through either the vadose or phreatic zone. Because of its simplicity and lack of detailed input data requirements, the model is recommended for scoping calculations.

  16. ATP-dependent substrate transport by the ABC transporter MsbA is proton-coupled

    PubMed Central

    Singh, Himansha; Velamakanni, Saroj; Deery, Michael J.; Howard, Julie; Wei, Shen L.; van Veen, Hendrik W.

    2016-01-01

    ATP-binding cassette transporters mediate the transbilayer movement of a vast number of substrates in or out of cells in organisms ranging from bacteria to humans. Current alternating access models for ABC exporters including the multidrug and Lipid A transporter MsbA from Escherichia coli suggest a role for nucleotide as the fundamental source of free energy. These models involve cycling between conformations with inward- and outward-facing substrate-binding sites in response to engagement and hydrolysis of ATP at the nucleotide-binding domains. Here we report that MsbA also utilizes another major energy currency in the cell by coupling substrate transport to a transmembrane electrochemical proton gradient. The dependence of ATP-dependent transport on proton coupling, and the stimulation of MsbA-ATPase by the chemical proton gradient highlight the functional integration of both forms of metabolic energy. These findings introduce ion coupling as a new parameter in the mechanism of this homodimeric ABC transporter. PMID:27499013

  17. Isothermal titration calorimetry of ion-coupled membrane transporters.

    PubMed

    Boudker, Olga; Oh, SeCheol

    2015-04-01

    Binding of ligands, ranging from proteins to ions, to membrane proteins is associated with absorption or release of heat that can be detected by isothermal titration calorimetry (ITC). Such measurements not only provide binding affinities but also afford direct access to thermodynamic parameters of binding--enthalpy, entropy and heat capacity. These parameters can be interpreted in a structural context, allow discrimination between different binding mechanisms and guide drug design. In this review, we introduce advantages and limitations of ITC as a methodology to study molecular interactions of membrane proteins. We further describe case studies where ITC was used to analyze thermodynamic linkage between ions and substrates in ion-coupled transporters. Similar type of linkage analysis will likely be applicable to a wide range of transporters, channels, and receptors.

  18. Coupled transport/hyperelastic model for nastic materials

    NASA Astrophysics Data System (ADS)

    Homison, Chris; Weiland, Lisa M.

    2006-03-01

    Nastic materials are high energy density active materials that mimic processes used in the plant kingdom to produce large deformations through the conversion of chemical energy. These materials utilize the controlled transport of charge and fluid across a selectively-permeable membrane to achieve bulk deformation in a process referred to in the plant kingdom as nastic movements. The nastic material being developed consists of synthetic membranes containing biological ion pumps, ion channels, and ion exchangers surrounding fluid-filled cavities embedded within a polymer matrix. In this paper the formulation of a biological transport model and its coupling with a hyperelastic finite element model of the polymer matrix is discussed. The transport model includes contributions from ion pumps, ion exchangers, and solvent flux. This work will form the basis for a feedback loop in material synthesis efforts. The goal of these studies is to determine the relative importance of the various parameters associated with both the polymer matrix and the biological transport components.

  19. Understanding transport in model water desalination membranes

    NASA Astrophysics Data System (ADS)

    Chan, Edwin

    Polyamide based thin film composites represent the the state-of-the-art nanofiltration and reverse osmosis membranes used in water desalination. The performance of these membranes is enabled by the ultrathin (~100 nm) crosslinked polyamide film in facilitating the selective transport of water over salt ions. While these materials have been refined over the last several decades, understanding the relationships between polyamide structure and membrane performance remains a challenge because of the complex and heterogeneous nature of the polyamide film. In this contribution, we present our approach to addressing this challenge by studying the transport properties of model polyamide membranes synthesized via molecular layer-by-layer (mLbL) assembly. First, we demonstrate that mLbL can successfully construct polyamide membranes with well-defined nanoscale thickness and roughness using a variety of monomer formulations. Next, we present measurement tools for characterizing the network structure and transport of these model polyamide membranes. Specifically, we used X-ray and neutron scattering techniques to characterize their structure as well as a recently-developed indentation based poromechanics approach to extrapolate their water diffusion coefficient. Finally, we illustrate how these measurements can provide insight into the original problem by linking the key polyamide network properties, i.e. water-polyamide interaction parameter and characteristic network mesh size, to the membrane performance.

  20. Transport properties of supercooled confined water

    NASA Astrophysics Data System (ADS)

    Mallamace, F.; Branca, C.; Broccio, M.; Corsaro, C.; Gonzalez-Segredo, N.; Spooren, J.; Stanley, H. E.; Chen, S.-H.

    2008-07-01

    This article presents an overview of recent experiments performed on transport properties of water in the deeply supercooled region, a temperature region of fundamental importance in the science of water. We report data of nuclear magnetic resonance, quasi-elastic neutron scattering, Fourier-transform infrared spectroscopy, and Raman spectroscopy, studying water confined in nanometer-scale environments. When contained within small pores, water does not crystallise, and can be supercooled well below its homogeneous nucleation temperature Th. On this basis it is possible to carry out a careful analysis of the well known thermodynamical anomalies of water. Studying the temperature and pressure dependencies of water dynamics, we show that the liquid-liquid phase transition (LLPT) hypothesis represents a reliable model for describing liquid water. In this model, water in the liquid state is a mixture of two different local structures, characterised by different densities, namely the low density liquid (LDL) and the high-density liquid (HDL). The LLPT line should terminate at a special transition point: a low-T liquid-liquid critical point. We discuss the following experimental findings on liquid water: (i) a crossover from non-Arrhenius behaviour at high T to Arrhenius behaviour at low T in transport parameters; (ii) a breakdown of the Stokes-Einstein relation; (iii) the existence of a Widom line, which is the locus of points corresponding to maximum correlation length in the p-T phase diagram and which ends in the liquid-liquid critical point; (iv) the direct observation of the LDL phase; (v) a minimum in the density at approximately 70 K below the temperature of the density maximum. In our opinion these results represent the experimental proofs of the validity of the LLPT hypothesis.

  1. Coupling of volatile transport and internal heat flow on Triton

    NASA Technical Reports Server (NTRS)

    Brown, Robert H.; Kirk, Randolph L.

    1994-01-01

    Recently Brown et al. (1991) showed that Triton's internal heat source could amount to 5-20% of the absorbed insolation on Triton, thus significantly affecting volatile transport and atmospheric pressure. Subsequently, Kirk and Brown (1991a) used simple analytical models of the effect of internal heat on the distribution of volatiles on Triton's surface, confirming the speculation of Brown et al. that Triton's internal heat flow could strongly couple to the surface volatile distribution. To further explore this idea, we present numerical models of the permanent distribution of nitrogen ice on Triton that include the effects of sunlight, the two-dimensional distribution of internal heat flow, the coupling of internal heat flow to the surface distribution of nitrogen ice, and the finite viscosity of nitrogen ice. From these models we conclude that: (1) The strong vertical thermal gradient induced in Triton's polar caps by internal heat-flow facilitates viscous spreading to lower latitudes, thus opposing the poleward transport of volatiles by sunlight, and, for plausible viscosities and nitrogen inventories, producing permanent caps of considerable latitudinal extent; (2) It is probable that there is a strong coupling between the surface distribution of nitrogen ice on Triton and internal heat flow; (3) Asymmetries in the spatial distribution of Triton's heat flow, possibly driven by large-scale, volcanic activity or convection in Triton's interior, can result in permanent polar caps of unequal latitudinal extent, including the case of only one permanent polar cap; (4) Melting at the base of a permanent polar cap on Triton caused by internal heat flow can significantly enhance viscous spreading, and, as an alternative to the solid-state greenhouse mechanism proposed by Brown et al. (1990), could provide the necessary energy, fluids, and/or gases to drive Triton's geyser-like plumes; (5) The atmospheric collapse predicted to occur on Triton in the next 20 years

  2. Polyacrylamide Transport in Water Delivery Canals

    NASA Astrophysics Data System (ADS)

    Chen, L.; Zhu, J.; Young, M.

    2007-12-01

    Linear, anionic polyacrylamide (PAM) is being considered in the western United States as a technology to reduce seepage in unlined water delivery canals. A broad laboratory and field testing program has been undertaken to understand the benefits and potential environmental impacts of PAM use. The ability to predict the fate and transport of PAM in water delivery canals could prove to be a useful planning tool for PAM application. However, one key area of uncertainty of this type of canal treatment is the hydration, reaction, and settling rates of PAM after the dry powder is added to the canal water. In this study, we have developed a model that incorporates a number of known physical and chemical processes that can affect PAM transport, such as convection, dispersion, dissolution, flocculation, and settling, while solving the governing convection-dispersion transport equation. The model uses a mixed analytical and advanced numerical approach, and implements a transient partitioning of PAM mass between the canal water, the substrate soil, and potentially to open water bodies downstream of the application point. All source terms are modeled based on physical and chemical mechanisms as well as laboratory or field determined parameters. To more closely simulate field treatment of some canals, where PAM application moves upstream in time, the model is capable of implementing either a fixed or mobile upper boundary. In the latter treatment, the PAM can be added discretely or continuously in both time and space. A number of test situations have been simulated thus far, including theoretical and hypothetical cases for a wide range of conditions. The model also performed well when predicting PAM concentrations from a full-scale canal treatment experiment. The model provides a useful tool for predicting PAM fate and transport in water delivery canals, and therefore can play an important role in evaluating the efficacy of PAM application for water resources management

  3. Water transport in plants obeys Murray's law.

    PubMed

    McCulloh, Katherine A; Sperry, John S; Adler, Frederick R

    2003-02-27

    The optimal water transport system in plants should maximize hydraulic conductance (which is proportional to photosynthesis) for a given investment in transport tissue. To investigate how this optimum may be achieved, we have performed computer simulations of the hydraulic conductance of a branched transport system. Here we show that the optimum network is not achieved by the commonly assumed pipe model of plant form, or its antecedent, da Vinci's rule. In these representations, the number and area of xylem conduits is constant at every branch rank. Instead, the optimum network has a minimum number of wide conduits at the base that feed an increasing number of narrower conduits distally. This follows from the application of Murray's law, which predicts the optimal taper of blood vessels in the cardiovascular system. Our measurements of plant xylem indicate that these conduits conform to the Murray's law optimum as long as they do not function additionally as supports for the plant body.

  4. Novel macrocyclic carriers for proton-coupled liquid membrane transport

    SciTech Connect

    Lamb, J.D.

    1991-06-10

    The objective of our research program is to elucidate the chemical principles which are responsible for the cation selectivity and permeability of liquid membranes containing macrocyclic carriers. Several new macrocyclic carriers were synthesized during the last three year period, including selenium-containing macrocycles, new crown-4 structures, and several new crown structures containing nitrogen based heterocycles as substituents in the principal macrocyclic ring. The cation binding properties of these macrocycles were investigated by potentiometric titration, calorimetric titration, solvent extraction, and NMR techniques. In addition, hydrophobic macrocycles were incorporated into dual hollow fiber membrane systems to investigate their membrane performance, especially in the proton-coupled transport mode. It was found that the dual hollow fiber system maintains the cation selectivity and permeability of supported liquid membranes, while enhancing membrane stability. The diffusion limited transport model was expanded to account for membrane solvent effects. Furthermore, Eu{sup 2+} transport was found to be similar to that of strontium and much higher than that of the lanthanides, in supported liquid membrane systems.

  5. Water transport control in carbon nanotube arrays

    PubMed Central

    2014-01-01

    Based on a recent scaling law of the water mobility under nanoconfined conditions, we envision novel strategies for precise modulation of water diffusion within membranes made of carbon nanotube arrays (CNAs). In a first approach, the water diffusion coefficient D may be tuned by finely controlling the size distribution of the pore size. In the second approach, D can be varied at will by means of externally induced electrostatic fields. Starting from the latter strategy, switchable molecular sieves are proposed, where membranes are properly designed with sieving and permeation features that can be dynamically activated/deactivated. Areas where a precise control of water transport properties is beneficial range from energy and environmental engineering up to nanomedicine. PMID:25313305

  6. Modular structure of sodium-coupled bicarbonate transporters.

    PubMed

    Boron, Walter F; Chen, Liming; Parker, Mark D

    2009-06-01

    Mammalian genomes contain 10 SLC4 genes that, between them, encode three Cl-HCO(3) exchangers, five Na(+)-coupled HCO(3) transporters (NCBTs), one reported borate transporter, and what is reported to be a fourth Cl-HCO(3) exchanger. The NCBTs are expressed throughout the body and play important roles in maintaining intracellular and whole-body pH, as well as contributing to transepithelial transport processes. The importance of NCBTs is underscored by the genetic association of dysfunctional NCBT genes with blindness, deafness, epilepsy, hypertension and metal retardation. Key to understanding the action and regulation of NCBTs is an appreciation of the diversity of NCBT gene products. The transmembrane domains of human NCBT paralogs are 50-84% identical to each other at the amino acid level, and are capable of a diverse range of actions, including electrogenic Na/HCO(3) cotransport (i.e. NBCe1 and NBCe2) and electroneutral Na/HCO(3) cotransport (i.e. NBCn1 and NBCn2), as well as Na(+)-dependent Cl-HCO(3) exchange (i.e. NDCBE). Furthermore, by the use of alternative promoters and alternative-splicing events, individual SLC4 genes have the potential to generate multiple splice variants (as many as 16 in the case of NBCn1), each of which could have unique temporal and spatial patterns of distribution, unitary transporter activity (i.e. flux mediated by one molecule), array of protein-binding partners, and complement of regulatory stimuli. In the first section of this review, we summarize our present knowledge of the function and distribution of mammalian NCBTs and their multiple variants. In the second section of this review we consider the molecular consequences of NCBT variation.

  7. Coupled Eulerian-Lagrangian transport of large debris by tsunamis

    NASA Astrophysics Data System (ADS)

    Conde, Daniel A. S.; Ferreira, Rui M. L.; Sousa Oliveira, Carlos

    2016-04-01

    Tsunamis are notorious for the large disruption they can cause on coastal environments, not only due to the imparted momentum of the incoming wave but also due to its capacity to transport large quantities of solid debris, either from natural or human-made sources, over great distances. A 2DH numerical model under development at CERIS-IST (Ferreira et al., 2009; Conde, 2013) - STAV2D - capable of simulating solid transport in both Eulerian and Lagrangian paradigms will be used to assess the relevance of Lagrangian-Eulerian coupling when modelling the transport of solid debris by tsunamis. The model has been previously validated and applied to tsunami scenarios (Conde, 2013), being well-suited for overland tsunami propagation and capable of handling morphodynamic changes in estuaries and seashores. The discretization scheme is an explicit Finite Volume technique employing flux-vector splitting and a reviewed Roe-Riemann solver. Source term formulations are employed in a semi-implicit way, including the two-way coupling of the Lagrangian and Eulerian solvers by means of conservative mass and momentum transfers between fluid and solid phases. The model was applied to Sines Port, a major commercial port in Portugal, where two tsunamigenic scenarios are considered: an 8.5 Mw scenario, consistent with the Great Lisbon Earthquake and Tsunami of the 1st November 1755 (Baptista, 2009), and an hypothetical 9.5 Mw worst-case scenario based on the same historical event. Open-ocean propagation of these scenarios were simulated with GeoClaw model from ClawPack (Leveque, 2011). Following previous efforts on the modelling of debris transport by tsunamis in seaports (Conde, 2015), this work discusses the sensitivity of the obtained results with respect to the phenomenological detail of the employed Eulerian-Lagrangian formulation and the resolution of the mesh used in the Eulerian solver. The results have shown that the fluid to debris mass ratio is the key parameter regarding the

  8. Spin transport at interfaces with spin-orbit coupling: Formalism

    NASA Astrophysics Data System (ADS)

    Amin, V. P.; Stiles, M. D.

    2016-09-01

    We generalize magnetoelectronic circuit theory to account for spin transfer to and from the atomic lattice via interfacial spin-orbit coupling. This enables a proper treatment of spin transport at interfaces between a ferromagnet and a heavy-metal nonmagnet. This generalized approach describes spin transport in terms of drops in spin and charge accumulations across the interface (as in the standard approach), but additionally includes the responses from in-plane electric fields and offsets in spin accumulations. A key finding is that in-plane electric fields give rise to spin accumulations and spin currents that can be polarized in any direction, generalizing the Rashba-Edelstein and spin Hall effects. The spin accumulations exert torques on the magnetization at the interface when they are misaligned from the magnetization. The additional out-of-plane spin currents exert torques via the spin-transfer mechanism on the ferromagnetic layer. To account for these phenomena we also describe spin torques within the generalized circuit theory. The additional effects included in this generalized circuit theory suggest modifications in the interpretations of experiments involving spin-orbit torques, spin pumping, spin memory loss, the Rashba-Edelstein effect, and the spin Hall magnetoresistance.

  9. Transport and mixing in strongly coupled dusty plasma medium

    NASA Astrophysics Data System (ADS)

    Dharodi, Vikram; Das, Amita; Patel, Bhavesh

    2016-10-01

    The generalized hydrodynamic (GHD) fluid model has been employed to study the transport and mixing properties of Dusty plasma medium in strong coupling limit. The response of lighter electron and ion species to the dust motion is taken to be instantaneous i.e. inertia-less. Thus the electron and ion density are presumed to follow the Boltzman relation. In the incompressible limit (i-GHD) the model supports Transverse Shear wave in contrast to the Hydrodynamic fluids. It has been shown that the presence of these waves leads to a better mixing of fluid in this case. Several cases of flow configuration have been considered for the study. The transport and mixing attributes have been quantified by studying the dynamical evolution of tracer particles in the system. The diffusion and clustering of these test particles are directly linked to the mixing characteristic of a medium. The displacement of these particles provides for a quantitative estimate of the diffusion coefficient of the medium. It is shown that these test particles often organize themselves in spatially inhomogeneous pattern leading to the phenomena of clustering.

  10. Coupling of hydrologic transport and chemical reactions in a stream affected by acid mine drainage

    USGS Publications Warehouse

    Kimball, B.A.; Broshears, R.E.; Bencala, K.E.; McKnight, Diane M.

    1994-01-01

    Experiments in St. Kevin Gulch, an acid mine drainage stream, examined the coupling of hydrologic transport to chemical reactions affecting metal concentrations. Injection of LiCl as a conservative tracer was used to determine discharge and residence time along a 1497-m reach. Transport of metals downstream from inflows of acidic, metal-rich water was evaluated based on synoptic samples of metal concentrations and the hydrologic characteristics of the stream. Transport of SO4 and Mn was generally conservative, but in the subreaches most affected by acidic inflows, transport was reactive. Both 0.1-??m filtered and particulate Fe were reactive over most of the stream reach. Filtered Al partitioned to the particulate phase in response to high instream concentrations. Simulations that accounted for the removal of SO4, Mn, Fe, and Al with first-order reactions reproduced the steady-state profiles. The calculated rate constants for net removal used in the simulations embody several processes that occur on a stream-reach scale. The comparison between rates of hydrologie transport and chemical reactions indicates that reactions are only important over short distances in the stream near the acidic inflows, where reactions occur on a comparable time scale with hydrologic transport and thus affect metal concentrations.

  11. Transport of organelles by elastically coupled motor proteins.

    PubMed

    Bhat, Deepak; Gopalakrishnan, Manoj

    2016-07-01

    Motor-driven intracellular transport is a complex phenomenon where multiple motor proteins simultaneously attached on to a cargo engage in pulling activity, often leading to tug-of-war, displaying bidirectional motion. However, most mathematical and computational models ignore the details of the motor-cargo interaction. A few studies have focused on more realistic models of cargo transport by including elastic motor-cargo coupling, but either restrict the number of motors and/or use purely phenomenological forms for force-dependent hopping rates. Here, we study a generic model in which N motors are elastically coupled to a cargo, which itself is subjected to thermal noise in the cytoplasm and to an additional external applied force. The motor-hopping rates are chosen to satisfy detailed balance with respect to the energy of elastic stretching. With these assumptions, an (N + 1) -variable master equation is constructed for dynamics of the motor-cargo complex. By expanding the hopping rates to linear order in fluctuations in motor positions, we obtain a linear Fokker-Planck equation. The deterministic equations governing the average quantities are separated out and explicit analytical expressions are obtained for the mean velocity and diffusion coefficient of the cargo. We also study the statistical features of the force experienced by an individual motor and quantitatively characterize the load-sharing among the cargo-bound motors. The mean cargo velocity and the effective diffusion coefficient are found to be decreasing functions of the stiffness. While the increase in the number of motors N does not increase the velocity substantially, it decreases the effective diffusion coefficient which falls as 1/N asymptotically. We further show that the cargo-bound motors share the force exerted on the cargo equally only in the limit of vanishing elastic stiffness; as stiffness is increased, deviations from equal load sharing are observed. Numerical simulations agree with

  12. Generic Procedure for Coupling the PHREEQC Geochemical Modeling Framework with Flow and Solute Transport Simulators

    NASA Astrophysics Data System (ADS)

    Wissmeier, L. C.; Barry, D. A.

    2009-12-01

    Computer simulations of water availability and quality play an important role in state-of-the-art water resources management. However, many of the most utilized software programs focus either on physical flow and transport phenomena (e.g., MODFLOW, MT3DMS, FEFLOW, HYDRUS) or on geochemical reactions (e.g., MINTEQ, PHREEQC, CHESS, ORCHESTRA). In recent years, several couplings between both genres of programs evolved in order to consider interactions between flow and biogeochemical reactivity (e.g., HP1, PHWAT). Software coupling procedures can be categorized as ‘close couplings’, where programs pass information via the memory stack at runtime, and ‘remote couplings’, where the information is exchanged at each time step via input/output files. The former generally involves modifications of software codes and therefore expert programming skills are required. We present a generic recipe for remotely coupling the PHREEQC geochemical modeling framework and flow and solute transport (FST) simulators. The iterative scheme relies on operator splitting with continuous re-initialization of PHREEQC and the FST of choice at each time step. Since PHREEQC calculates the geochemistry of aqueous solutions in contact with soil minerals, the procedure is primarily designed for couplings to FST’s for liquid phase flow in natural environments. It requires the accessibility of initial conditions and numerical parameters such as time and space discretization in the input text file for the FST and control of the FST via commands to the operating system (batch on Windows; bash/shell on Unix/Linux). The coupling procedure is based on PHREEQC’s capability to save the state of a simulation with all solid, liquid and gaseous species as a PHREEQC input file by making use of the dump file option in the TRANSPORT keyword. The output from one reaction calculation step is therefore reused as input for the following reaction step where changes in element amounts due to advection

  13. Modeling coupled nanoparticle aggregation and transport in porous media: A Lagrangian approach

    NASA Astrophysics Data System (ADS)

    Taghavy, Amir; Pennell, Kurt D.; Abriola, Linda M.

    2015-01-01

    Changes in nanoparticle size and shape due to particle-particle interactions (i.e., aggregation or agglomeration) may significantly alter particle mobility and retention in porous media. To date, however, few modeling studies have considered the coupling of transport and particle aggregation processes. The majority of particle transport models employ an Eulerian modeling framework and are, consequently, limited in the types of collisions and aggregate sizes that can be considered. In this work, a more general Lagrangian modeling framework is developed and implemented to explore coupled nanoparticle aggregation and transport processes. The model was verified through comparison of model simulations to published results of an experimental and Eulerian modeling study (Raychoudhury et al., 2012) of carboxymethyl cellulose (CMC)-modified nano-sized zero-valent iron particle (nZVI) transport and retention in water-saturated sand columns. A model sensitivity analysis reveals the influence of influent particle concentration (ca. 70 to 700 mg/L), primary particle size (10-100 nm) and pore water velocity (ca. 1-6 m/day) on particle-particle, and, consequently, particle-collector interactions. Model simulations demonstrate that, when environmental conditions promote particle-particle interactions, neglecting aggregation effects can lead to under- or over-estimation of nanoparticle mobility. Results also suggest that the extent to which higher order particle-particle collisions influence aggregation kinetics will increase with the fraction of primary particles. This work demonstrates the potential importance of time-dependent aggregation processes on nanoparticle mobility and provides a numerical model capable of capturing/describing these interactions in water-saturated porous media.

  14. Highly efficient optical coupling and transport phenomena in chains of dielectric microspheres

    NASA Astrophysics Data System (ADS)

    Chen, Zhigang; Taflove, Allen; Backman, Vadim

    2006-02-01

    Using the generalized multiparticle Mie theory, we investigate optical coupling and transport through chains of dielectric microspheres. We identify two distinct coupling mechanisms of optical transport in terms of the coupling efficiency between neighboring microspheres, namely, evanescent coupling and nanojet coupling. We demonstrate that perfect whispering gallery mode propagation through a chain of evanescently coupled microspheres can be achieved. However, optical coupling and transport through a chain of nanojet-inducing microspheres is less efficient due to the radiative nature of photonic nanojets. Understanding these two optical coupling mechanisms is critical for selecting appropriate microspheres to build coupled resonator optical waveguides and other photon-manipulation devices for effective and low-loss guiding of photons.

  15. Highly efficient optical coupling and transport phenomena in chains of dielectric microspheres.

    PubMed

    Chen, Zhigang; Taflove, Allen; Backman, Vadim

    2006-02-01

    Using the generalized multiparticle Mie theory, we investigate optical coupling and transport through chains of dielectric microspheres. We identify two distinct coupling mechanisms of optical transport in terms of the coupling efficiency between neighboring microspheres, namely, evanescent coupling and nanojet coupling. We demonstrate that perfect whispering gallery mode propagation through a chain of evanescently coupled microspheres can be achieved. However, optical coupling and transport through a chain of nanojet-inducing microspheres is less efficient due to the radiative nature of photonic nanojets. Understanding these two optical coupling mechanisms is critical for selecting appropriate microspheres to build coupled resonator optical waveguides and other photon-manipulation devices for effective and low-loss guiding of photons.

  16. Mesoscopic modeling of liquid water transport in polymer electrolyte fuel cells

    SciTech Connect

    Mukherjee, Partha P; Wang, Chao Yang

    2008-01-01

    A key performance limitation in polymer electrolyte fuel cells (PEFC), manifested in terms of mass transport loss, originates from liquid water transport and resulting flooding phenomena in the constituent components. Liquid water leads to the coverage of the electrochemically active sites in the catalyst layer (CL) rendering reduced catalytic activity and blockage of the available pore space in the porous CL and fibrous gas diffusion layer (GDL) resulting in hindered oxygen transport to the active reaction sites. The cathode CL and the GDL therefore playa major role in the mass transport loss and hence in the water management of a PEFC. In this article, we present the development of a mesoscopic modeling formalism coupled with realistic microstructural delineation to study the profound influence of the pore structure and surface wettability on liquid water transport and interfacial dynamics in the PEFC catalyst layer and gas diffusion layer.

  17. Neutron Transport Models and Methods for HZETRN and Coupling to Low Energy Light Ion Transport

    NASA Technical Reports Server (NTRS)

    Blattnig, S.R.; Slaba, T.C.; Heinbockel, J.H.

    2008-01-01

    Exposure estimates inside space vehicles, surface habitats, and high altitude aircraft exposed to space radiation are highly influenced by secondary neutron production. The deterministic transport code HZETRN has been identified as a reliable and efficient tool for such studies, but improvements to the underlying transport models and numerical methods are still necessary. In this paper, the forward-backward (FB) and directionally coupled forward-backward (DC) neutron transport models are derived, numerical methods for the FB model are reviewed, and a computationally efficient numerical solution is presented for the DC model. Both models are compared to the Monte Carlo codes HETCHEDS and FLUKA, and the DC model is shown to agree closely with the Monte Carlo results. Finally, it is found in the development of either model that the decoupling of low energy neutrons from the light ion (A<4) transport procedure adversely affects low energy light ion fluence spectra and exposure quantities. A first order correction is presented to resolve the problem, and it is shown to be both accurate and efficient.

  18. CFEST Coupled Flow, Energy & Solute Transport Version CFEST005 User’s Guide

    SciTech Connect

    Freedman, Vicky L.; Chen, Yousu; Gilca, Alex; Cole, Charles R.; Gupta, Sumant K.

    2006-07-20

    The CFEST (Coupled Flow, Energy, and Solute Transport) simulator described in this User’s Guide is a three-dimensional finite-element model used to evaluate groundwater flow and solute mass transport. Confined and unconfined aquifer systems, as well as constant and variable density fluid flows can be represented with CFEST. For unconfined aquifers, the model uses a moving boundary for the water table, deforming the numerical mesh so that the uppermost nodes are always at the water table. For solute transport, changes in concentra¬tion of a single dissolved chemical constituent are computed for advective and hydrodynamic transport, linear sorption represented by a retardation factor, and radioactive decay. Although several thermal parameters described in this User’s Guide are required inputs, thermal transport has not yet been fully implemented in the simulator. Once fully implemented, transport of thermal energy in the groundwater and solid matrix of the aquifer can also be used to model aquifer thermal regimes. The CFEST simulator is written in the FORTRAN 77 language, following American National Standards Institute (ANSI) standards. Execution of the CFEST simulator is controlled through three required text input files. These input file use a structured format of associated groups of input data. Example input data lines are presented for each file type, as well as a description of the structured FORTRAN data format. Detailed descriptions of all input requirements, output options, and program structure and execution are provided in this User’s Guide. Required inputs for auxillary CFEST utilities that aide in post-processing data are also described. Global variables are defined for those with access to the source code. Although CFEST is a proprietary code (CFEST, Inc., Irvine, CA), the Pacific Northwest National Laboratory retains permission to maintain its own source, and to distribute executables to Hanford subcontractors.

  19. Water transport in graphene nano-channels

    NASA Astrophysics Data System (ADS)

    Wagemann, Enrique; Oyarzua, Elton; Walther, J. H.; Zambrano, Harvey

    2015-11-01

    The transport of water in nanopores is of both fundamental and practical interest. Graphene Channels (GCs) are potential building blocks for nanofluidic devices due to their molecularly smooth walls and exceptional mechanical properties. Numerous studies have found a significant flow rate enhancement, defined as the ratio of the computed flow rate to that predicted from the classical Poiseuille model. Moreover, these studies point to the fact that the flow enhancement is a function of channel height and the fluid-wall physical-chemistry. In spite of the intensive research, an explicit relation between the chirality of the graphene walls and the slip length has not been established. In this study, we perform non-equilibrium molecular dynamics simulations of water flow in single- and multi-walled GCs. We examine the influence on the flow rates of dissipating the viscous heat produced by connecting the thermostat to the water molecules, the CNT wall atoms or both of them. From the atomic trajectories, we compute the fluid flow rates in GCs with zig-zag and armchair walls, heights from 1 to 4 nm and different number of graphene layers on the walls. A relation between the chirality, slip length, and flow enhancement is found. We aknowledge partial support from Fondecyt project 11130559 and Redoc udec.

  20. Atmospheric Heat Transport Feedbacks to Freshwater Forcing in the Coupled GCM GISS Model

    NASA Astrophysics Data System (ADS)

    Legrande, A. N.; Schmidt, G. A.

    2005-12-01

    We perform a range of North Atlantic fresh water forcing simulations in the GISS ModelE coupled GCM. Here we present results from two sets of experiments designed to explore the sensitivity of the model to varying fresh water pulses: (1) 12 relatively small simulations emulate the magnitude and placement of 8kyr event and (2) much larger and longer PhosMIP2 hosing experiments (0.1 Sv rate and 1 Sv rate). We find that within the first set of simulations, the modeled THC response to the freshwater forcing is stochastic - the largest volume of fresh water produces neither the largest response, nor the longest perturbation of THC. We evaluate the nature of modeled THC response given (1) a range of volumes, rates, and lengths of freshwater forcing; (2) two locations of fresh water input; and (3) two base states prior to the freshwater forcing. In all simulations, reduced overturning circulation in the Atlantic results in reduced northward heat transport by the ocean (OHT); we evaluate the response of heat transport in the atmosphere (AHT) and address to what extent the rest of the climate system compensates for the reduced OHT.

  1. Development of a three-dimensional, regional, coupled wave, current, and sediment-transport model

    USGS Publications Warehouse

    Warner, J.C.; Sherwood, C.R.; Signell, R.P.; Harris, C.K.; Arango, H.G.

    2008-01-01

    We are developing a three-dimensional numerical model that implements algorithms for sediment transport and evolution of bottom morphology in the coastal-circulation model Regional Ocean Modeling System (ROMS v3.0), and provides a two-way link between ROMS and the wave model Simulating Waves in the Nearshore (SWAN) via the Model-Coupling Toolkit. The coupled model is applicable for fluvial, estuarine, shelf, and nearshore (surfzone) environments. Three-dimensional radiation-stress terms have been included in the momentum equations, along with effects of a surface wave roller model. The sediment-transport algorithms are implemented for an unlimited number of user-defined non-cohesive sediment classes. Each class has attributes of grain diameter, density, settling velocity, critical stress threshold for erosion, and erodibility constant. Suspended-sediment transport in the water column is computed with the same advection-diffusion algorithm used for all passive tracers and an additional algorithm for vertical settling that is not limited by the CFL criterion. Erosion and deposition are based on flux formulations. A multi-level bed framework tracks the distribution of every size class in each layer and stores bulk properties including layer thickness, porosity, and mass, allowing computation of bed morphology and stratigraphy. Also tracked are bed-surface properties including active-layer thickness, ripple geometry, and bed roughness. Bedload transport is calculated for mobile sediment classes in the top layer. Bottom-boundary layer submodels parameterize wave-current interactions that enhance bottom stresses and thereby facilitate sediment transport and increase bottom drag, creating a feedback to the circulation. The model is demonstrated in a series of simple test cases and a realistic application in Massachusetts Bay. ?? 2008 Elsevier Ltd. All rights reserved.

  2. A Coupling Kinetics Model for Pollutant Release and Transport in the Process of Landfill Settlement

    PubMed Central

    Zhao, Ying; Xue, Qiang; Liu, Lei

    2012-01-01

    A coupling kinetics model is developed to simulate the release and transport of landfill leachate pollutants in a deformable municipal solid waste landfill by taking into account of landfill settlement, seepage of leachate water, hydrolyse of insoluble and degradable organic pollutants in solid phase, biodegradation of soluble and degradable organic pollutants in solid phase and aqueous one, growth of aerobic and anaerobic microorganism, and consumption of dissolved oxygen. The release and transport of organic pollutants and microorganisms in landfills in the process of landfill settlement was simulated by considering no hydraulic effect. Simulation results demonstrated that the interaction between landfill settlement and the release, transport and biodegradation of landfill leachate pollutants was significant. Porosity and saturated hydraulic conductivity were not constants because of the landfill settlement, which affected the release, transport and biodegradation of landfill leachate pollutants, and furthermore acted on the landfill settlement. The simulation results accorded with the practical situation, which preliminarily verified the reliability of the mathematical model and the numerical program in this paper. PMID:23202755

  3. A coupling kinetics model for pollutant release and transport in the process of landfill settlement.

    PubMed

    Zhao, Ying; Xue, Qiang; Liu, Lei

    2012-09-27

    A coupling kinetics model is developed to simulate the release and transport of landfill leachate pollutants in a deformable municipal solid waste landfill by taking into account of landfill settlement, seepage of leachate water, hydrolyse of insoluble and degradable organic pollutants in solid phase, biodegradation of soluble and degradable organic pollutants in solid phase and aqueous one, growth of aerobic and anaerobic microorganism, and consumption of dissolved oxygen. The release and transport of organic pollutants and microorganisms in landfills in the process of landfill settlement was simulated by considering no hydraulic effect. Simulation results demonstrated that the interaction between landfill settlement and the release, transport and biodegradation of landfill leachate pollutants was significant. Porosity and saturated hydraulic conductivity were not constants because of the landfill settlement, which affected the release, transport and biodegradation of landfill leachate pollutants, and furthermore acted on the landfill settlement. The simulation results accorded with the practical situation, which preliminarily verified the reliability of the mathematical model and the numerical program in this paper.

  4. Numerical Investigation of Laser Propulsion for Transport in Water Environment

    SciTech Connect

    Han Bing; Li Beibei; Zhang Hongchao; Chen Jun; Shen Zhonghua; Lu Jian; Ni Xiaowu

    2010-10-08

    Problems that cumber the development of the laser propulsion in atmosphere and vacuum are discussed. Based on the theory of interaction between high-intensity laser and materials, as air and water, it is proved that transport in water environment can be impulsed by laser. The process of laser propulsion in water is investigated theoretically and numerically. It shows that not only the laser induced plasma shock wave, but also the laser induced bubble oscillation shock waves and the pressure induced by the collapsing bubble can be used. Many experimental results show that the theory and the numerical results are valid. The numerical result of the contribution of every propulsion source is given in percentage. And the maximum momentum coupling coefficient Cm is given. Laser propulsion in water environment can be applied in many fields. For example, it can provide highly controllable forces of the order of micro-Newton ({mu}N) in microsystems, such as the MEMS (Micro-electromechanical Systems). It can be used as minimally invasive surgery tools of high temporal and spatial resolution. It can be used as the propulsion source in marine survey and exploitation.

  5. Water electrolyte transport through corrugated carbon nanopores.

    PubMed

    Moghimi Kheirabadi, A; Moosavi, A

    2014-07-01

    We investigate the effect of wall roughness on water electrolyte transport characteristics at different temperatures through carbon nanotubes by using nonequilibrium molecular dynamics simulations. Our results reveal that shearing stress and the nominal viscosity increase with ion concentration in corrugated carbon nanotubes (CNTs), in contrast to cases in smooth CNTs. Also, the temperature increase leads to the reduction of shearing stress and the nominal viscosity at moderate degrees of wall roughness. At high degrees of wall roughness, the temperature increase will enhance radial movements and increases resistance against fluid motion. As the fluid velocity increases, the particles do not have enough time to fully adjust their positions to minimize system energy, which causes shearing stress and the nominal viscosity to increase. By increasing roughness amplitude or decreasing roughness wavelength, the shearing stress will increase. Synergistic effects of such parameters (wall roughness, velocity, ion concentration, and temperature) inside corrugated CNTs are studied and compared with each other. The molecular mechanisms are considered by investigating the radial density profile and the radial velocity profile of confined water inside modified CNT.

  6. The transport of 'suspended' sediment by water

    NASA Astrophysics Data System (ADS)

    Parsons, Anthony; Cooper, James; Wainwright, John; Sekiguichi, Tomohiro

    2013-04-01

    Coherent turbulent flow structures, such as eddy-like, macro-turbulent structures and smaller scale bursting events, cause a two-way vertical exchange of momentum between the sediment bed and the water surface. Thus movement of suspended particles in open channel flows has a strong correlation with the advection and propagation of these turbulent flow structures, controlling entrainment , travel and deposition. Consequently, there is an argument in favour of the view that suspended sediment merely travels in suspension, but that its distance of travel is finite, and that between periods of travel it is at rest on the bed of the river. To test his hypothesis we added 25 kg of fluorescent sand, fine enough to be transported in suspension, into a steady flow discharge of 0.95 cumecs in the 160-m-long flume at Tsukuba University. After the flow event, a few grains of the sand were identified less than 5 m from the point of introduction and progressively (but irregularly) more downflume. Although our results are both limited and preliminary due to the nature of the existing flume, they clearly show that suspended sediment has a virtual velocity that is less than that of the flow in which the sediment is suspended. For the sediment-size range and flow velocity used in our experiment this virtual velocity is of the order of 50% of the water velocity.

  7. Radiation transport within oceanic (case 1) water

    NASA Astrophysics Data System (ADS)

    Morel, André; Gentili, Bernard

    2004-06-01

    A spectral model of the inherent optical properties (IOP) of oceanic case 1 waters, as previously developed for studying the near-surface bidirectional reflectance, provides the input parameters for the present computations of radiative transport (RT), now extended throughout the water column (three times the euphotic zone). All spectral apparent optical properties (AOP) are computed at each of the levels (30) for six chlorophyll values (from 0.03 to 10 mg m-3) and for six values of the zenith Sun angle (from 0° to 75°). The Raman emission is accounted for. From the irradiances and radiances values the various attenuation coefficients (K), the average cosines (?), and the reflectance (R) are derived for all depths and layers. Their variations resulting from the Sun's position are also studied, which removes the static character of previous empirical models inasmuch as the diurnal changes of the parameters describing the in-water light field can be predicted. The AOPs observed within the deepest levels are also compared to values independently derived from an asymptotic (iterative) solution of the RT. The rate of approach to the asymptotic regime is numerically analyzed; this rate is actually governed by τb, i.e., this fraction of τ (the optical thickness) that corresponds only to scattering. Practical applications of these systematic computations are examined, such as the change (with solar position) of the euphotic depth, the time- and wavelength-dependent scalar irradiance that controls during the day the energy available for photosynthesis (or the heating rate), and the interpretation of radiometric field experiments involving upward and downward irradiance measurements. Some approximate expressions relating AOPs to IOPs are examined in the light of exact computations.

  8. How LeuT shapes our understanding of the mechanisms of sodium-coupled neurotransmitter transporters.

    PubMed

    Penmatsa, Aravind; Gouaux, Eric

    2014-03-01

    Neurotransmitter transporters are ion-coupled symporters that drive the uptake of neurotransmitters from neural synapses. In the past decade, the structure of a bacterial amino acid transporter, leucine transporter (LeuT), has given valuable insights into the understanding of architecture and mechanism of mammalian neurotransmitter transporters. Different conformations of LeuT, including a substrate-free state, inward-open state, and competitive and non-competitive inhibitor-bound states, have revealed a mechanistic framework for the transport and transport inhibition of neurotransmitters. The current review integrates our understanding of the mechanistic and pharmacological properties of eukaryotic neurotransmitter transporters obtained through structural snapshots of LeuT.

  9. Vapor Transport Modeling of Continental Water Isotope Gradients

    NASA Astrophysics Data System (ADS)

    Ritch, A. J.; Caves, J. K.; Ibarra, D. E.; Winnick, M. J.; Chamberlain, C. P.

    2015-12-01

    Stable isotopes have been widely used to reconstruct past climatic conditions and topographic histories of mountain belts. However, many studies do not account for the influences of evapotranspiration and vapor recycling on downstream meteoric water isotopic compositions. Here we present a case study of the modern Sierra Nevada and Basin and Range to illustrate the value of using process-based models across larger spatial scales to reconstruct the conditions driving local- to regional-scale water isotopic compositions. We use a one-dimensional reactive vapor transport model, driven by the National Centers for Environmental Prediction (NCEP) high-resolution North American Regional Reanalysis (NARR) dataset, to simulate the isotopic composition of modern meteoric waters (δ18O and δD) along storm tracks across the Sierra Nevada and Basin and Range. Storm track pathways are generated using NOAA's Air Resources Laboratory's Hybrid Single Particle Lagrangian Integrated Trajectory (HYSPLIT) model. In addition, we couple the vapor transport model with a soil moisture model to simulate depth profiles of the oxygen isotopic composition of authigenic carbonate along our storm tracks. We show that, given reasonable estimates of the modern partitioning between evaporation and transpiration, our model output is in agreement with modern isotopic data both from compilations of published meteoric water samples and from newly collected soil carbonate samples along a transect across the northern Sierra Nevada and Basin and Range (~38-42° N). These results demonstrate that our modeling approach can be used to analyze the relative contributions of climate and topography to observed isotopic gradients. Future studies can apply this modeling framework to isotopes preserved in the geologic record to provide a quantitative means of understanding the paleoclimatic influences on spatial isotopic distributions.

  10. A two-dimensional coupled flow-mass transport model based on an improved unstructured finite volume algorithm.

    PubMed

    Zhou, Jianzhong; Song, Lixiang; Kursan, Suncana; Liu, Yi

    2015-05-01

    A two-dimensional coupled water quality model is developed for modeling the flow-mass transport in shallow water. To simulate shallow flows on complex topography with wetting and drying, an unstructured grid, well-balanced, finite volume algorithm is proposed for numerical resolution of a modified formulation of two-dimensional shallow water equations. The slope-limited linear reconstruction method is used to achieve second-order accuracy in space. The algorithm adopts a HLLC-based integrated solver to compute the flow and mass transport fluxes simultaneously, and uses Hancock's predictor-corrector scheme for efficient time stepping as well as second-order temporal accuracy. The continuity and momentum equations are updated in both wet and dry cells. A new hybrid method, which can preserve the well-balanced property of the algorithm for simulations involving flooding and recession, is proposed for bed slope terms approximation. The effectiveness and robustness of the proposed algorithm are validated by the reasonable good agreement between numerical and reference results of several benchmark test cases. Results show that the proposed coupled flow-mass transport model can simulate complex flows and mass transport in shallow water.

  11. Proton-coupled sugar transport in the prototypical major facilitator superfamily protein XylE.

    PubMed

    Wisedchaisri, Goragot; Park, Min-Sun; Iadanza, Matthew G; Zheng, Hongjin; Gonen, Tamir

    2014-08-04

    The major facilitator superfamily (MFS) is the largest collection of structurally related membrane proteins that transport a wide array of substrates. The proton-coupled sugar transporter XylE is the first member of the MFS that has been structurally characterized in multiple transporting conformations, including both the outward and inward-facing states. Here we report the crystal structure of XylE in a new inward-facing open conformation, allowing us to visualize the rocker-switch movement of the N-domain against the C-domain during the transport cycle. Using molecular dynamics simulation, and functional transport assays, we describe the movement of XylE that facilitates sugar translocation across a lipid membrane and identify the likely candidate proton-coupling residues as the conserved Asp27 and Arg133. This study addresses the structural basis for proton-coupled substrate transport and release mechanism for the sugar porter family of proteins.

  12. Kumada–Grignard-type biaryl couplings on water

    PubMed Central

    Bhattacharjya, Anish; Klumphu, Piyatida; Lipshutz, Bruce H.

    2015-01-01

    Well-established, traditional Kumada cross-couplings involve preformed Grignard reagents in dry ethereal solvent that typically react, e.g., with aryl halides via Pd catalysis to afford products of net substitution. Therefore, in the work described, which appears to be counterintuitive, exposure of these same aromatic halides to catalytic amounts of Pd(II) and excess magnesium metal in pure water leads to symmetrical/unsymmetrical biaryls, indicative of a net Kumada-like biaryl coupling. Evidence is presented suggesting that Grignard reagents, formed in situ in water, may be involved. PMID:26084774

  13. K9 water searches: scent and scent transport considerations.

    PubMed

    Osterkamp, Tom

    2011-07-01

    Increased use of water search dogs for detecting submerged bodies has created the need for a better understanding of scent emanating from the bodies and how it transits the water to the dog's nose. A review of recent literature identifies likely scent sources, potential scent transport processes, and research needs. Scent sources include gases in bubbles or dissolved in the water, liquids as buoyant plumes and droplets or dissolved in the water, and solids consisting of buoyant particulates with secretions, bacteria, and body fluids. Potential transport processes through the water include buoyancy, entrainment, and turbulence. Transport processes from the water surface into the air include volatilization and evaporation enhanced by bubble bursting, breaking waves, splashing, and wind spray. Implications for the use of water search dogs are examined. Observations of submerged, decomposing bodies are needed to quantify the physical and chemical characteristics of the scent and scent transport processes.

  14. Water transport inside carbon nanotubes mediated by phonon-induced oscillating friction

    NASA Astrophysics Data System (ADS)

    Ma, Ming; Grey, François; Shen, Luming; Urbakh, Michael; Wu, Shuai; Liu, Jefferson Zhe; Liu, Yilun; Zheng, Quanshui

    2015-08-01

    The emergence of the field of nanofluidics in the last decade has led to the development of important applications including water desalination, ultrafiltration and osmotic energy conversion. Most applications make use of carbon nanotubes, boron nitride nanotubes, graphene and graphene oxide. In particular, understanding water transport in carbon nanotubes is key for designing ultrafiltration devices and energy-efficient water filters. However, although theoretical studies based on molecular dynamics simulations have revealed many mechanistic features of water transport at the molecular level, further advances in this direction are limited by the fact that the lowest flow velocities accessible by simulations are orders of magnitude higher than those measured experimentally. Here, we extend molecular dynamics studies of water transport through carbon nanotubes to flow velocities comparable with experimental ones using massive crowd-sourced computing power. We observe previously undetected oscillations in the friction force between water and carbon nanotubes and show that these oscillations result from the coupling between confined water molecules and the longitudinal phonon modes of the nanotube. This coupling can enhance the diffusion of confined water by more than 300%. Our results may serve as a theoretical framework for the design of new devices for more efficient water filtration and osmotic energy conversion devices.

  15. Transport of Water in Semicrystalline Block Copolymer Membranes

    NASA Astrophysics Data System (ADS)

    Hallinan, Daniel; Oparaji, Onyekachi

    Poly(styrene)-block-poly(ethylene oxide) (PS- b-PEO) is a semicrystalline block copolymer (BCP) with interesting properties. It is mechanically tough, amphiphilic, and has a polar phase. The mechanical toughness is due to the crystallinity of PEO and the high glass transition temperature of PS, as well as the morphological structure of the BCP. The polymer has high CO2, water, and salt solubility that derive from the polar PEO component. Potential applications include CO2 separation, water purification, and lithium air batteries. In all of the aforementioned applications, water transport is an important parameter. The presence of water can also affect thermal and mechanical properties. Water transport and thermal and mechanical properties of a lamellar PS- b-PEO copolymer have been measured as a function of water activity. Water transport can be affected by the heterogeneous nature of a semicrystalline BCP. Therefore, Fourier transform infrared - attenuated total reflectance (FTIR-ATR) spectroscopy has been employed, because water transport and polymer swelling can be measured simultaneously. The effect of BCP structure on transport has been investigated by comparing water transport in PS- b-PEO to a PEO homopolymer. The crystalline content of the PEO and the presence of glassy PS lamellae will be used to explain the transport results.

  16. Water Alignment, Dipolar Interactions, and Multiple Proton Occupancy during Water-Wire Proton Transport

    PubMed Central

    Chou, Tom

    2004-01-01

    A discrete multistate kinetic model for water-wire proton transport is constructed and analyzed using Monte Carlo simulations. In the model, each water molecule can be in one of three states: oxygen lone-pairs pointing leftward, pointing rightward, or protonated (H3O+). Specific rules for transitions among these states are defined as protons hop across successive water oxygens. Our model also includes water-channel interactions that preferentially align the water dipoles, nearest-neighbor dipolar coupling interactions, and Coulombic repulsion. Extensive Monte Carlo simulations were performed and the observed qualitative physical behaviors discussed. We find the parameters that allow the model to exhibit superlinear and sublinear current-voltage relationships, and show why alignment fields, whether generated by interactions with the pore interior or by membrane potentials, always decrease the proton current. The simulations also reveal a “lubrication” mechanism that suppresses water dipole interactions when the channel is multiply occupied by protons. This effect can account for an observed sublinear-to-superlinear transition in the current-voltage relationship. PMID:15111400

  17. Modeling substrate-bacteria-grazer interactions coupled to substrate transport in groundwater

    NASA Astrophysics Data System (ADS)

    Bajracharya, Bijendra M.; Lu, Chuanhe; Cirpka, Olaf A.

    2014-05-01

    Models of microbial dynamics coupled to solute transport in aquifers typically require the introduction of a bacterial capacity term to prevent excessive microbial growth close to substrate-injection boundaries. The factors controlling this carrying capacity, however, are not fully understood. In this study, we propose that grazers or bacteriophages may control the density of bacterial biomass in continuously fed porous media. We conceptualize the flow-through porous medium as a series of retentostats, in which the dissolved substrate is advected with water flow whereas the biomasses of bacteria and grazers are considered essentially immobile. We first model a single retentostat with Monod kinetics of bacterial growth and a second-order grazing law, which shows that the system oscillates but approaches a stable steady state with nonzero concentrations of substrate, bacteria, and grazers. The steady state concentration of the bacteria biomass is independent of the substrate concentration in the inflow. When coupling several retentostats in a series to mimic a groundwater column, the steady state bacteria concentrations thus remain at a constant level over a significant travel distance. The one-dimensional reactive transport model also accounts for substrate dispersion and a random walk of grazers influenced by the bacteria concentration. These dispersive-diffusive terms affect the oscillations until steady state is reached, but hardly the steady state value itself. We conclude that grazing, or infection by bacteriophages, is a possible explanation of the maximum biomass concentration frequently needed in bioreactive transport models. Its value depends on parameters related to the grazers or bacteriophages and is independent of bacterial growth parameters or substrate concentration, provided that there is enough substrate to sustain bacteria and grazers.

  18. Effect of spin rotation coupling on spin transport

    SciTech Connect

    Chowdhury, Debashree Basu, B.

    2013-12-15

    We have studied the spin rotation coupling (SRC) as an ingredient to explain different spin-related issues. This special kind of coupling can play the role of a Dresselhaus like coupling in certain conditions. Consequently, one can control the spin splitting, induced by the Dresselhaus like term, which is unusual in a semiconductor heterostructure. Within this framework, we also study the renormalization of the spin-dependent electric field and spin current due to the k{sup →}⋅p{sup →} perturbation, by taking into account the interband mixing in the rotating system. In this paper we predict the enhancement of the spin-dependent electric field resulting from the renormalized spin rotation coupling. The renormalization factor of the spin electric field is different from that of the SRC or Zeeman coupling. The effect of renormalized SRC on spin current and Berry curvature is also studied. Interestingly, in the presence of this SRC-induced SOC it is possible to describe spin splitting as well as spin galvanic effect in semiconductors. -- Highlights: •Studied effect of spin rotation coupling on the spin electric field, spin current and Berry curvature. •In the k{sup →}⋅p{sup →} framework we study the renormalization of spin electric field and spin current. •For an inertial system we have discussed the spin splitting. •Expression for the Berry phase in the inertial system is discussed. •The inertial spin galvanic effect is studied.

  19. Water Transport through Cohesion-Tension in Porous Structures

    NASA Astrophysics Data System (ADS)

    Kosaraju, Srinivas

    2015-11-01

    The predominant theory to explain water transport through plant xylem is the cohesion-tension theory. According to the theory, negative pressure is created due to water evaporation through millions of microscopic capillary pores from tree leaves. The negative pressures are large enough to lift water hundreds of feet against gravity. In an attempt to replicate the process, multiple structures with varying porosity are tested to create negative pressures through water evaporation. The negative pressure created is used to support a water column. The current research is aimed to create artificial leaves using porous structures and be able to transport water in high rise buildings using renewable energy sources such as solar power.

  20. Temperature influence on water transport in hardened cement pastes

    SciTech Connect

    Drouet, Emeline; Poyet, Stéphane; Torrenti, Jean-Michel

    2015-10-15

    Describing water transport in concrete is an important issue for the durability assessment of radioactive waste management reinforced concrete structures. Due to the waste thermal output such structures would be submitted to moderate temperatures (up to 80 °C). We have then studied the influence of temperature on water transport within hardened cement pastes of four different formulations. Using a simplified approach (describing only the permeation of liquid water) we characterized the properties needed to describe water transport (up to 80 °C) using dedicated experiments. For each hardened cement paste the results are presented and discussed.

  1. Numerical Modeling of Coupled Groundwater and Surface Water Interactions in an Urban Setting

    SciTech Connect

    Rihani, J F; Maxwell, R M

    2007-09-26

    balance and hydrology of DCW, a parallel, distributed watershed model that treats flow in groundwater and surface water in a dynamically coupled manner will be used to build a flow model of the watershed. This coupled model forms the basis for modeling and understanding the transport of contaminants through the Dominguez Channel Watershed, which can be used in designing and implementing TMDLs to manage the water quality in this basin. In this report, the coupled surface water-groundwater flow model of DCW will be presented. This flow model was calibrated against a storm that occurred in February 21st, 2004. The model and approach are explained further in the following sections.

  2. Coupling of Volatile Transport and Internal Heatflow on Triton

    NASA Technical Reports Server (NTRS)

    Brown, R. H.; Kirk, R. L.

    1993-01-01

    Recently Brown et al. (Science 250, 1991) showed that Trition's internal heat source could amount to 5-20% of the absorbed insolation on Trition, thus significantly affecting volatile transport and stmospheric pressure.

  3. Impact of pore size variability and network coupling on electrokinetic transport in porous media

    NASA Astrophysics Data System (ADS)

    Alizadeh, Shima; Bazant, Martin Z.; Mani, Ali

    2016-11-01

    We have developed and validated an efficient and robust computational model to study the coupled fluid and ion transport through electrokinetic porous media, which are exposed to external gradients of pressure, electric potential, and concentration. In our approach a porous media is modeled as a network of many pores through which the transport is described by the coupled Poisson-Nernst-Planck-Stokes equations. When the pore sizes are random, the interactions between various modes of transport may provoke complexities such as concentration polarization shocks and internal flow circulations. These phenomena impact mixing and transport in various systems including deionization and filtration systems, supercapacitors, and lab-on-a-chip devices. In this work, we present simulations of massive networks of pores and we demonstrate the impact of pore size variation, and pore-pore coupling on the overall electrokinetic transport in porous media.

  4. Coupled modeling of transport and biogeochemical processes in aquifers - Model requirements, strength and limitations

    NASA Astrophysics Data System (ADS)

    Mayer, K.

    2003-12-01

    Microbially mediated geochemical changes in aquifers may trigger a series of secondary reactions that include aqueous and surface complexation, ion exchange, and mineral dissolution-precipitation. Due to the coupled nature and the multitude of processes involved it is often difficult to identify the reactions controlling the system's overall evolution. Numerical models can be a useful component for identifying gaps and inconsistencies in conceptual models and for performing a more quantitative investigation of these systems. Suitable computer codes must allow for a general description of transport and reaction processes to facilitate the investigation of site-specific conditions. In recent years significant advances have been made in terms of model generality and applicability. Major advances include the consideration of mass balance equations for reactants and reaction products, the integration of biodegradation and thermodynamic models, and the development of novel approaches for simulating biogeochemical processes and reactive transport under variably saturated conditions. MIN3P is one of the codes capable of simulating coupled biogeochemical and hydrological processes on an increasingly mechanistic level. The simulation of column experiments and a hypothetical case study at the field scale illustrate how reactive transport modeling can be used. Modeling column experiments can be particularly fruitful, because detailed data can be collected to support the mechanistic approach. However, analysis of conceptual models is also beneficial on the field scale. The case study considered here describes natural attenuation of a petroleum hydrocarbon spill in an unconfined aquifer by multiple electron acceptors. The simulations also consider geochemical reactions triggered by contaminant degradation including the re-oxidation of reaction products during transport away from the source area. Comparing the results to contaminant plumes described in the literature suggests

  5. Crystal Structure of a Phosphorylation-coupled Saccharide Transporter

    SciTech Connect

    Y Cao; X Jin; E Levin; H Huang; Y Zong; W Hendrickson; J Javitch; K Rajashankar; M Zhou; et al.

    2011-12-31

    Saccharides have a central role in the nutrition of all living organisms. Whereas several saccharide uptake systems are shared between the different phylogenetic kingdoms, the phosphoenolpyruvate-dependent phosphotransferase system exists almost exclusively in bacteria. This multi-component system includes an integral membrane protein EIIC that transports saccharides and assists in their phosphorylation. Here we present the crystal structure of an EIIC from Bacillus cereus that transports diacetylchitobiose. The EIIC is a homodimer, with an expansive interface formed between the amino-terminal halves of the two protomers. The carboxy-terminal half of each protomer has a large binding pocket that contains a diacetylchitobiose, which is occluded from both sides of the membrane with its site of phosphorylation near the conserved His250 and Glu334 residues. The structure shows the architecture of this important class of transporters, identifies the determinants of substrate binding and phosphorylation, and provides a framework for understanding the mechanism of sugar translocation.

  6. Coupling ANIMO and MT3DMS for 3D regional-scale modeling of nutrient transport in soil and groundwater

    NASA Astrophysics Data System (ADS)

    Janssen, G.; Del Val Alonso, L.; Groenendijk, P.; Griffioen, J.

    2012-12-01

    We developed an on-line coupling between the 1D/quasi-2D nutrient transport model ANIMO and the 3D groundwater transport model code MT3DMS. ANIMO is a detailed, process-oriented model code for the simulation of nitrate leaching to groundwater, N- and P-loads on surface waters and emissions of greenhouse gasses. It is the leading nutrient fate and transport code in the Netherlands where it is used primarily for the evaluation of fertilization related legislation. In addition, the code is applied frequently in international research projects. MT3DMS is probably the most commonly used groundwater solute transport package worldwide. The on-line model coupling ANIMO-MT3DMS combines the state-of-the-art descriptions of the biogeochemical cycles in ANIMO with the advantages of using a 3D approach for the transport through the saturated domain. These advantages include accounting for regional lateral transport, considering groundwater-surface water interactions more explicitly, and the possibility of using MODFLOW to obtain the flow fields. An additional merit of the on-line coupling concept is that it preserves feedbacks between the saturated and unsaturated zone. We tested ANIMO-MT3DMS by simulating nutrient transport for the period 1970-2007 in a Dutch agricultural polder catchment covering an area of 118 km2. The transient groundwater flow field had a temporal resolution of one day and was calculated with MODFLOW-MetaSWAP. The horizontal resolution of the model grid was 100x100m and consisted of 25 layers of varying thickness. To keep computation times manageable, we prepared MT3DMS for parallel computing, which in itself is a relevant development for a large community of groundwater transport modelers. For the parameterization of the soil, we applied a standard classification approach, representing the area by 60 units with unique combinations of soil type, land use and geohydrological setting. For the geochemical parameterization of the deeper subsurface, however, we

  7. Hybrid Upwind Discretization for the Implicit Simulation of Three-Phase Coupled Flow and Transport with Gravity

    NASA Astrophysics Data System (ADS)

    Hamon, F. P.; Mallison, B.; Tchelepi, H.

    2015-12-01

    The systems of algebraic equations arising from implicit (backward-Euler) finite-volume discretization of the conservation laws governing multiphase flow in porous media are quite challenging for nonlinear solvers. In the presence of counter-current flow due to buoyancy, the coupling between flow (pressure) and transport (saturations) is often the cause of nonlinear problems when single-point Phase-Potential Upwinding (PPU) is used. To overcome such convergence problems in practice, the time step is reduced and Newton's method is restarted from the solution at the previous converged time step. Here, we generalize the work of Lee, Efendiev and Tchelepi [Advances in Water Resources, 2015] to propose an Implicit Hybrid Upwinding (IHU) scheme for coupled flow and transport. In the pure transport problem, we show that the numerical flux obtained with IHU is differentiable, monotone and consistent for two and three-phase flow. For coupled flow and transport, we prove saturation physical bounds as well as the existence of a solution to our scheme. Challenging two- and three-phase heterogeneous multi-dimensional numerical tests confirm that the new scheme is non-oscillatory and convergent, and illustrate the superior convergence rate of our IHU-based Newton solver for large time steps.

  8. Transport behavior of water molecules through two-dimensional nanopores

    SciTech Connect

    Zhu, Chongqin; Li, Hui; Meng, Sheng

    2014-11-14

    Water transport through a two-dimensional nanoporous membrane has attracted increasing attention in recent years thanks to great demands in water purification and desalination applications. However, few studies have been reported on the microscopic mechanisms of water transport through structured nanopores, especially at the atomistic scale. Here we investigate the microstructure of water flow through two-dimensional model graphene membrane containing a variety of nanopores of different size by using molecular dynamics simulations. Our results clearly indicate that the continuum flow transits to discrete molecular flow patterns with decreasing pore sizes. While for pores with a diameter ≥15 Å water flux exhibits a linear dependence on the pore area, a nonlinear relationship between water flux and pore area has been identified for smaller pores. We attribute this deviation from linear behavior to the presence of discrete water flow, which is strongly influenced by the water-membrane interaction and hydrogen bonding between water molecules.

  9. FY05 LDRD Final Report Coupled Turbulenc/Transport Model for Edge-Plasmas

    SciTech Connect

    Rognlien, T; Cohen, R; LoDestro, L; Palasek, R; Umansky, M; Xu, X

    2006-02-09

    An edge-plasma simulation for tokamak fusion devices is developed that couples 3D turbulence and 2D transport, including detailed sources and sinks, to determine self-consistent steady-state plasma profiles. Relaxed iterative coupling is shown to be effective when edge turbulence is partially suppressed, for example, by shear E x B shear flow as occurs during the favorable H-mode region. Unsuppressed turbulence is found to lead to large, intermittent edge transport events where the coupling procedure can lead to substantial inaccuracies in describing the true time-averaged plasma behavior.

  10. Substrate-bound outward-open state of the betaine transporter BetP provides insights into Na+ coupling

    NASA Astrophysics Data System (ADS)

    Perez, Camilo; Faust, Belinda; Mehdipour, Ahmad Reza; Francesconi, Kevin A.; Forrest, Lucy R.; Ziegler, Christine

    2014-07-01

    The Na+-coupled betaine symporter BetP shares a highly conserved fold with other sequence unrelated secondary transporters, for example, with neurotransmitter symporters. Recently, we obtained atomic structures of BetP in distinct conformational states, which elucidated parts of its alternating-access mechanism. Here, we report a structure of BetP in a new outward-open state in complex with an anomalous scattering substrate, adding a fundamental piece to an unprecedented set of structural snapshots for a secondary transporter. In combination with molecular dynamics simulations these structural data highlight important features of the sequential formation of the substrate and sodium-binding sites, in which coordinating water molecules play a crucial role. We observe a strictly interdependent binding of betaine and sodium ions during the coupling process. All three sites undergo progressive reshaping and dehydration during the alternating-access cycle, with the most optimal coordination of all substrates found in the closed state.

  11. Allosteric Mechanisms of Molecular Machines at the Membrane: Transport by Sodium-Coupled Symporters.

    PubMed

    LeVine, Michael V; Cuendet, Michel A; Khelashvili, George; Weinstein, Harel

    2016-06-08

    Solute transport across cell membranes is ubiquitous in biology as an essential physiological process. Secondary active transporters couple the unfavorable process of solute transport against its concentration gradient to the energetically favorable transport of one or several ions. The study of such transporters over several decades indicates that their function involves complex allosteric mechanisms that are progressively being revealed in atomistic detail. We focus on two well-characterized sodium-coupled symporters: the bacterial amino acid transporter LeuT, which is the prototype for the "gated pore" mechanism in the mammalian synaptic monoamine transporters, and the archaeal GltPh, which is the prototype for the "elevator" mechanism in the mammalian excitatory amino acid transporters. We present the evidence for the role of allostery in the context of a quantitative formalism that can reconcile biochemical and biophysical data and thereby connects directly to recent insights into the molecular structure and dynamics of these proteins. We demonstrate that, while the structures and mechanisms of these transporters are very different, the available data suggest a common role of specific models of allostery in their functions. We argue that such allosteric mechanisms appear essential not only for sodium-coupled symport in general but also for the function of other types of molecular machines in the membrane.

  12. Quantification of osmotic water transport in vivo using fluorescent albumin.

    PubMed

    Morelle, Johann; Sow, Amadou; Vertommen, Didier; Jamar, François; Rippe, Bengt; Devuyst, Olivier

    2014-10-15

    Osmotic water transport across the peritoneal membrane is applied during peritoneal dialysis to remove the excess water accumulated in patients with end-stage renal disease. The discovery of aquaporin water channels and the generation of transgenic animals have stressed the need for novel and accurate methods to unravel molecular mechanisms of water permeability in vivo. Here, we describe the use of fluorescently labeled albumin as a reliable indicator of osmotic water transport across the peritoneal membrane in a well-established mouse model of peritoneal dialysis. After detailed evaluation of intraperitoneal tracer mass kinetics, the technique was validated against direct volumetry, considered as the gold standard. The pH-insensitive dye Alexa Fluor 555-albumin was applied to quantify osmotic water transport across the mouse peritoneal membrane resulting from modulating dialysate osmolality and genetic silencing of the water channel aquaporin-1 (AQP1). Quantification of osmotic water transport using Alexa Fluor 555-albumin closely correlated with direct volumetry and with estimations based on radioiodinated ((125)I) serum albumin (RISA). The low intraperitoneal pressure probably accounts for the negligible disappearance of the tracer from the peritoneal cavity in this model. Taken together, these data demonstrate the appropriateness of pH-insensitive Alexa Fluor 555-albumin as a practical and reliable intraperitoneal volume tracer to quantify osmotic water transport in vivo.

  13. Coupled ion Binding and Structural Transitions Along the Transport Cycle of Glutamate Transporters

    SciTech Connect

    Verdon, Gregory; Oh, SeCheol; Serio, Ryan N.; Boudker, Olga

    2014-05-19

    Membrane transporters that clear the neurotransmitter glutamate from synapses are driven by symport of sodium ions and counter-transport of a potassium ion. Previous crystal structures of a homologous archaeal sodium and aspartate symporter showed that a dedicated transport domain carries the substrate and ions across the membrane. We report new crystal structures of this homologue in ligand-free and ions-only bound outward- and inward-facing conformations. We then show that after ligand release, the apo transport domain adopts a compact and occluded conformation that can traverse the membrane, completing the transport cycle. Sodium binding primes the transport domain to accept its substrate and triggers extracellular gate opening, which prevents inward domain translocation until substrate binding takes place. Moreover, we describe a new cation-binding site ideally suited to bind a counter-transported ion. We suggest that potassium binding at this site stabilizes the translocation-competent conformation of the unloaded transport domain in mammalian homologues.

  14. Two-dimensional transport model of coupled Brownian particles driven by biharmonic forces and constant forces

    NASA Astrophysics Data System (ADS)

    Wu, Weixia; Meng, Tao

    2017-01-01

    A directed transport model of coupled Brownian particles in a two-dimensional potential is established. In this model, the system of Brownian particles is driven by biharmonic forces and constant forces. By numerical simulation, the cooperative transport behaviours of the system are investigated. The results show that the average velocity of the system is significantly independent of the frequencies and intensities of the harmonic forces, the barrier height of the ratchet potential, coupling strength and noise intensity. The average velocity increases monotonically with increasing the intensities of the harmonic forces, and can reach some maximum values when the two frequencies are equal. In addition, the average velocity presents stochastic resonance and generalized resonance for noise intensity, coupling strength and the barrier height of the ratchet potential. Moreover, when a constant force is exerted on the ratchet potential direction, it will promote the directed transport of the system. But, when on the non-ratchet potential direction, the transport will not be affected.

  15. TICKET-UWM: a coupled kinetic, equilibrium, and transport screening model for metals in lakes.

    PubMed

    Farley, Kevin J; Carbonaro, Richard F; Fanelli, Christopher J; Costanzo, Robert; Rader, Kevin J; Di Toro, Dominic M

    2011-06-01

    The tableau input coupled kinetic equilibrium transport-unit world model (TICKET-UWM) has been developed as a screening model for assessing potential environmental risks associated with the release of metals into lakes. The model is based on a fully implicit, one-step solution algorithm that allows for simultaneous consideration of dissolved and particulate phase transport; metal complexation to organic matter and inorganic ligands; precipitation of metal hydroxides, carbonates, and sulfides; competitive interactions of metals and major cations with biotic ligands; a simplified description of biogeochemical cycling of organic carbon and sulfur; and dissolution kinetics for metal powders, massives, and other solid forms. Application of TICKET-UWM to a generalized lake in the Sudbury area of the Canadian Shield is presented to demonstrate the overall cycling of metals in lakes and the nonlinear effects of chemical speciation on metal responses. In addition, the model is used to calculate critical loads for metals, with acute toxicity of Daphnia magna as the final endpoint. Model results show that the critical loads for Cu, Ni, Pb, and Zn varied from 2.5 to 39.0 g metal/m(2) -year and were found to be one or more orders of magnitude higher than comparable loads for pesticides (lindane, 4,4'-DDT) and several polyaromatic hydrocarbon (PAH) compounds. In sensitivity calculations, critical metal-loading rates were found to vary significantly as a function of the hydraulic detention time, water hardness, and metal dissolution kinetic rates.

  16. Analysis of Porphyra membrane transporters demonstrates gene transfer among photosynthetic eukaryotes and numerous sodium-coupled transport systems.

    PubMed

    Chan, Cheong Xin; Zäuner, Simone; Wheeler, Glen; Grossman, Arthur R; Prochnik, Simon E; Blouin, Nicolas A; Zhuang, Yunyun; Benning, Christoph; Berg, Gry Mine; Yarish, Charles; Eriksen, Renée L; Klein, Anita S; Lin, Senjie; Levine, Ira; Brawley, Susan H; Bhattacharya, Debashish

    2012-04-01

    Membrane transporters play a central role in many cellular processes that rely on the movement of ions and organic molecules between the environment and the cell, and between cellular compartments. Transporters have been well characterized in plants and green algae, but little is known about transporters or their evolutionary histories in the red algae. Here we examined 482 expressed sequence tag contigs that encode putative membrane transporters in the economically important red seaweed Porphyra (Bangiophyceae, Rhodophyta). These contigs are part of a comprehensive transcriptome dataset from Porphyra umbilicalis and Porphyra purpurea. Using phylogenomics, we identified 30 trees that support the expected monophyly of red and green algae/plants (i.e. the Plantae hypothesis) and 19 expressed sequence tag contigs that show evidence of endosymbiotic/horizontal gene transfer involving stramenopiles. The majority (77%) of analyzed contigs encode transporters with unresolved phylogenies, demonstrating the difficulty in resolving the evolutionary history of genes. We observed molecular features of many sodium-coupled transport systems in marine algae, and the potential for coregulation of Porphyra transporter genes that are associated with fatty acid biosynthesis and intracellular lipid trafficking. Although both the tissue-specific and subcellular locations of the encoded proteins require further investigation, our study provides red algal gene candidates associated with transport functions and novel insights into the biology and evolution of these transporters.

  17. Momentum transport from nonlinear mode coupling of magnetic fluctuations

    PubMed

    Hansen; Almagri; Craig; Den Hartog DJ; Hegna; Prager; Sarff

    2000-10-16

    A cause of observed anomalous plasma momentum transport in a reversed-field pinch is determined experimentally. Magnetohydrodynamic theory predicts that nonlinear interactions involving triplets of tearing modes produce internal torques that redistribute momentum. Evidence for the nonlinear torque is acquired by detecting the correlation of momentum redistribution with the mode triplets, with the elimination of one of the modes in the triplet, and with the external driving of one of the modes.

  18. Formation of a ravine network by seepage: coupling groundwater to sediment transport

    NASA Astrophysics Data System (ADS)

    Devauchelle, O.; Petroff, A. P.; Abrams, D. M.; Rothman, D.

    2009-12-01

    The formation of a ravine network by seepage of an aquifer can produce a highly complex pattern, even when sediment properties and precipitation are uniform. The steephead streams of the Apalachicola Bluffs and Ravines Preserve on the Florida Panhandle are a simple example of this type of landscape. We report comparisons of theoretical predictions for stream elevation profiles against field observations and analyses of high resolution LIDAR maps of this system. An initially flat seepage face is prone to develop channels due to water sapping, in a way that is similar to the fluid-dynamical interfacial instability that occurs when a non-viscous fluid is pushed into a viscous one. However there are significant differences. We investigate this mechanism by means of a two-dimensional model for the water table. The higher the curvature of a ravine tip, the more groundwater it attracts, causing tips to be unstable. However, ravines are stabilized by the requirement that all the sediment detached from the head must be removed by the stream. This analysis reproduces the 20 m spacing between nascent tips. Once a tip is formed, water flowing through it transports sediment removed from the tip, thus allowing the ravine to grow forward. Although the size and discharge of the streams vary considerably across the ravine networks, the hydraulic force exerted on the bed remains close to the minimum value required to move a sand grain. This equilibrium condition imposes a strong constraint on the stream elevation profile, thus coupling the sediment transport process to the groundwater flow. From this model we show that, in the neighborhood of the channel head, stream elevation profiles increase with the distance from the tip to the power two thirds. This result, supported by field data, relates the shape of the stream to the amount of water captured by its tip. In particular, sediment transport into the stream influences not only the landscape around the head, but also the ravine

  19. Electron transfer activation of a second water channel for proton transport in [FeFe]-hydrogenase

    SciTech Connect

    Sode, Olaseni; Voth, Gregory A.

    2014-12-14

    Hydrogenase enzymes are important because they can reversibly catalyze the production of molecular hydrogen. Proton transport mechanisms have been previously studied in residue pathways that lead to the active site of the enzyme via residues Cys299 and Ser319. The importance of this pathway and these residues has been previously exhibited through site-specific mutations, which were shown to interrupt the enzyme activity. It has been shown recently that a separate water channel (WC2) is coupled with electron transport to the active site of the [FeFe]-hydrogenase. The water-mediated proton transport mechanisms of the enzyme in different electronic states have been studied using the multistate empirical valence bond reactive molecular dynamics method, in order to understand any role WC2 may have in facilitating the residue pathway in bringing an additional proton to the enzyme active site. In a single electronic state A{sup 2−}, a water wire was formed through which protons can be transported with a low free energy barrier. The remaining electronic states were shown, however, to be highly unfavorable to proton transport in WC2. A double amino acid substitution is predicted to obstruct proton transport in electronic state A{sup 2-} by closing a cavity that could otherwise fill with water near the proximal Fe of the active site.

  20. Low-pressure water-cooled inductively coupled plasma torch

    DOEpatents

    Seliskar, C.J.; Warner, D.K.

    1984-02-16

    An inductively coupled plasma torch is provided which comprises an inner tube, including a sample injection port to which the sample to be tested is supplied and comprising an enlarged central portion in which the plasma flame is confined; an outer tube surrounding the inner tube and containing water therein for cooling the inner tube, the outer tube including a water inlet port to which water is supplied and a water outlet port spaced from the water inlet port and from which water is removed after flowing through the outer tube; and an rf induction coil for inducing the plasma in the gas passing into the tube through the sample injection port. The sample injection port comprises a capillary tube including a reduced diameter orifice, projecting into the lower end of the inner tube. The water inlet is located at the lower end of the outer tube and the rf heating coil is disposed around the outer tube above and adjacent to the water inlet.

  1. Low-pressure water-cooled inductively coupled plasma torch

    DOEpatents

    Seliskar, Carl J.; Warner, David K.

    1988-12-27

    An inductively coupled plasma torch is provided which comprises an inner tube, including a sample injection port to which the sample to be tested is supplied and comprising an enlarged central portion in which the plasma flame is confined; an outer tube surrounding the inner tube and containing water therein for cooling the inner tube, the outer tube including a water inlet port to which water is supplied and a water outlet port spaced from the water inlet port and from which water is removed after flowing through the outer tube; and an r.f. induction coil for inducing the plasma in the gas passing into the tube through the sample injection port. The sample injection port comprises a capillary tube including a reduced diameter orifice, projecting into the lower end of the inner tube. The water inlet is located at the lower end of the outer tube and the r.f. heating coil is disposed around the outer tube above and adjacent to the water inlet.

  2. Impact of inflow transport approximation on light water reactor analysis

    NASA Astrophysics Data System (ADS)

    Choi, Sooyoung; Smith, Kord; Lee, Hyun Chul; Lee, Deokjung

    2015-10-01

    The impact of the inflow transport approximation on light water reactor analysis is investigated, and it is verified that the inflow transport approximation significantly improves the accuracy of the transport and transport/diffusion solutions. A methodology for an inflow transport approximation is implemented in order to generate an accurate transport cross section. The inflow transport approximation is compared to the conventional methods, which are the consistent-PN and the outflow transport approximations. The three transport approximations are implemented in the lattice physics code STREAM, and verification is performed for various verification problems in order to investigate their effects and accuracy. From the verification, it is noted that the consistent-PN and the outflow transport approximations cause significant error in calculating the eigenvalue and the power distribution. The inflow transport approximation shows very accurate and precise results for the verification problems. The inflow transport approximation shows significant improvements not only for the high leakage problem but also for practical large core problem analyses.

  3. A model for radionuclide transport in the Cooling Water System

    SciTech Connect

    Kahook, S.D.

    1992-08-01

    A radionuclide transport model developed to assess radiological levels in the K-reactor Cooling Water System (CWS) in the event of an inadvertent process water (PW) leakage to the cooling water (CW) in the heat exchangers (HX) is described. During and following a process water leak, the radionuclide transport model determines the time-dependent release rates of radionuclide from the cooling water system to the environment via evaporation to the atmosphere and blow-down to the Savannah River. The developed model allows for delay times associated with the transport of the cooling water radioactivity through cooling water system components. Additionally, this model simulates the time-dependent behavior of radionuclides levels in various CWS components. The developed model is incorporated into the K-reactor Cooling Tower Activity (KCTA) code. KCTA allows the accident (heat exchanger leak rate) and the cooling tower blow-down and evaporation rates to be described as time-dependent functions. Thus, the postulated leak and the consequence of the assumed leak can be modelled realistically. This model is the first of three models to be ultimately assembled to form a comprehensive Liquid Pathway Activity System (LPAS). LPAS will offer integrated formation, transport, deposition, and release estimates for radionuclides formed in a SRS facility. Process water and river water modules are forthcoming as input and downstream components, respectively, for KCTA.

  4. Scaling behaviour for the water transport in nanoconfined geometries

    PubMed Central

    Chiavazzo, Eliodoro; Fasano, Matteo; Asinari, Pietro; Decuzzi, Paolo

    2014-01-01

    The transport of water in nanoconfined geometries is different from bulk phase and has tremendous implications in nanotechnology and biotechnology. Here molecular dynamics is used to compute the self-diffusion coefficient D of water within nanopores, around nanoparticles, carbon nanotubes and proteins. For almost 60 different cases, D is found to scale linearly with the sole parameter θ as D(θ)=DB[1+(DC/DB−1)θ], with DB and DC the bulk and totally confined diffusion of water, respectively. The parameter θ is primarily influenced by geometry and represents the ratio between the confined and total water volumes. The D(θ) relationship is interpreted within the thermodynamics of supercooled water. As an example, such relationship is shown to accurately predict the relaxometric response of contrast agents for magnetic resonance imaging. The D(θ) relationship can help in interpreting the transport of water molecules under nanoconfined conditions and tailoring nanostructures with precise modulation of water mobility. PMID:24699509

  5. Electric field geometries dominate quantum transport coupling in silicon nanoring

    SciTech Connect

    Lee, Tsung-Han E-mail: sfhu.hu@gmail.com; Hu, Shu-Fen E-mail: sfhu.hu@gmail.com

    2014-03-28

    Investigations on the relation between the geometries of silicon nanodevices and the quantum phenomenon they exhibit, such as the Aharonov–Bohm (AB) effect and the Coulomb blockade, were conducted. An arsenic doped silicon nanoring coupled with a nanowire by electron beam lithography was fabricated. At 1.47 K, Coulomb blockade oscillations were observed under modulation from the top gate voltage, and a periodic AB oscillation of ΔB = 0.178 T was estimated for a ring radius of 86 nm under a high sweeping magnetic field. Modulating the flat top gate and the pointed side gate was performed to cluster and separate the many electron quantum dots, which demonstrated that quantum confinement and interference effects coexisted in the doped silicon nanoring.

  6. Coupling of solute transport and cell expansion in pea stems

    NASA Technical Reports Server (NTRS)

    Schmalstig, J. G.; Cosgrove, D. J.

    1990-01-01

    As cells expand and are displaced through the elongation zone of the epicotyl of etiolated pea (Pisum sativum L. var Alaska) seedlings, there is little net dilution of the cell sap, implying a coordination between cell expansion and solute uptake from the phloem. Using [14C] sucrose as a phloem tracer (applied to the hypogeous cotyledons), the pattern of label accumulation along the stem closely matched the growth rate pattern: high accumulation in the growing zone, little accumulation in nongrowing regions. Several results suggest that a major portion of phloem contents enters elongating cells through the symplast. We propose that the coordination between phloem transport and cell expansion is accomplished via regulatory pathways affecting both plasmodesmata conductivity and cell expansion.

  7. Quantum transport in chains with noisy off-diagonal couplings.

    PubMed

    Pereverzev, Andrey; Bittner, Eric R

    2005-12-22

    We present a model for conductivity and energy diffusion in a linear chain described by a quadratic Hamiltonian with Gaussian noise. We show that when the correlation matrix is diagonal, the noise-averaged Liouville-von Neumann equation governing the time evolution of the system reduces to the [Lindblad, Commun. Math. Phys. 48, 119 (1976)] equation with Hermitian Lindblad operators. We show that the noise-averaged density matrix for the system expectation values of the energy density and the number density satisfies discrete versions of the heat and diffusion equations. Transport coefficients are given in terms of model Hamiltonian parameters. We discuss conditions on the Hamiltonian under which the noise-averaged expectation value of the total energy remains constant. For chains placed between two heat reservoirs, the gradient of the energy density along the chain is linear.

  8. Edge and coupled core/edge transport modeling in tokamak

    SciTech Connect

    Pearlstein, L D; Casper, T A; Cohen, R H; LoDestro, L L; Mattor, N; Porter, G D; Rensink, M E; Rognlien, T D; Ryutov, D D; Scott, H A; Wan, A

    1998-10-14

    Recent advances in the theory and modelling of tokamak edge, scrape-off-layer and divertor plasmas are described. The effects of the poloidal ExB drift on inner/outer divertor-plate asymmetries within a 1D analysis are shown to be in good agreement with experimental observations; above a critical v ExB, the model predicts transitions to supersonic SOL flow at the inboard midplane. Two-dimensional simulations show the importance of ExB flow in the private-flux region and B-drift effects. A theory of rough plasma-facing surfaces is given, and interesting effects, some traveling back up the magnetic field-lines to the SOL plasma, are predicted. The parametric dependence of detached-plasma states in slab geometry has been explored; with sufficient pumping, the location of the ionization front can be controlled; otherwise only fronts at the plate or the X-point are stable. Studies with a more accurate Monte-Carlo neutrals model and a detailed non-LTE radiation-transport code indicate various effects are important for quantitative rnodelling. Long-lived oscillatory UEDGE solutions in both ITER and DIII-D are reported. Detailed simulations of the DIII-D core and edge are presented; impurity and plasma flow are shown to be well modelled with UEDGE, and the roles of impurity and neutral transport in the edge and SOL are discussed.

  9. Modeling multispecies reactive transport in ground water

    SciTech Connect

    Clement, T.P.; Sun, Y.; Hooker, B.S.; Petersen, J.N.

    1998-12-31

    In this paper, the details of RT3D, a general purpose, multispecies, reactive transport code, are presented. The code uses MODFLOW to simulate flow and several MT3D sub-programs to simulate advection and dispersion. A set of reaction modules were developed and incorporated into RT3D to simulate various types of multispecies reactive transport. This new computer model can be used for analyzing different types of subsurface contaminant reactions, microbial metabolisms, and microbial transport kinetics. Details of the model and numerical solution procedure are presented. The numerical formulation of the code is general enough to allow description of any type of reaction with any number of mobile/immobile species. Several example problems are presented to test the performance of the code, and to illustrate its features. The presented numerical model is shown to be a useful tool for analyzing different types of subsurface bioremediation systems. Prediction based on this model can be used for screening remediation alternatives including natural attenuation and/or for forecasting contaminant exposure levels and environmental risks at sensitive, downgradient receptors.

  10. Crystal structure of a folate energy-coupling factor transporter from Lactobacillus brevis.

    PubMed

    Xu, Ke; Zhang, Minhua; Zhao, Qin; Yu, Fang; Guo, Hui; Wang, Chengyuan; He, Fangyuan; Ding, Jianping; Zhang, Peng

    2013-05-09

    ATP-binding cassette (ABC) transporters, composed of importers and exporters, form one of the biggest protein superfamilies that transport a variety of substrates across the membrane, powered by ATP hydrolysis. Most ABC transporters are composed of two transmembrane domains and two cytoplasmic nucleotide-binding domains. Also, importers from prokaryotes usually have extra solute-binding proteins in the periplasm that are responsible for the binding of substrates. Structures of importers have been reported that suggested a two-state model for the transport mechanism. Energy-coupling factor (ECF) transporters belong to a new class of ATP-binding cassette importers. Each ECF transporter comprises an energy-coupling module consisting of a transmembrane T protein (EcfT), two nucleotide-binding proteins (EcfA and EcfA'), and another transmembrane substrate-specific binding S protein (EcfS). Despite the similarities with ABC transporters, ECF transporters have different organizational and functional properties. The lack of solute-binding proteins in ECF transporters differentiates them clearly from the canonical ABC importers. Previously reported structures of the EcfS proteins RibU and ThiT clearly demonstrated the binding site of substrate riboflavin and thiamine, respectively. However, the organization of the four different components and the transport mechanism of ECF transporters remain unknown. Here we present the structure of an intact folate ECF transporter from Lactobacillus brevis at a resolution of 3 Å. This structure was captured in an inward-facing, nucleotide-free conformation with no bound substrate. The folate-binding protein FolT is nearly parallel to the membrane and is bound almost entirely by EcfT, which adopts an L shape and connects to EcfA and EcfA' through two coupling helices. Two conserved XRX motifs from the coupling helices of EcfT have a vital role in energy coupling by docking into EcfA-EcfA'. We propose a transport model that involves a

  11. Arctic warming induced by atmospheric transport of water vapour

    NASA Astrophysics Data System (ADS)

    Grand Graversen, Rune

    2015-04-01

    The atmospheric northward energy transport plays a crucial role for the Arctic climate; the transport brings to the Arctic an amount of energy comparable to that provided directly by the sun. During recent decades warming of the Arctic surface air has been more than twice as large as the warming averaged over the Northern Hemisphere. This is known as Arctic amplification. Climate models predict that Arctic amplification will continue during the 21st century. The models also show that the atmospheric energy transport to the Arctic will remain almost unchanged or will even decrease in the future. This has led to the conclusion that atmospheric energy transport does not contribute but rather opposes Arctic amplification. Here we show that the atmospheric energy transport will indeed contribute to Arctic amplification even while decreasing. A split of the transport into latent and dry-static components reveals that a change of the latent transport compared to a change of the dry-static has a much larger effect on the Arctic climate. This is because the latent transport brings not only energy, but also water vapour into the Arctic. This water vapour enhances the local greenhouse effect, both in itself and through the formation of clouds. An increase of the latent transport at the Arctic boundary therefore causes Arctic warming, both directly due to latent heat release, and indirectly due to an enhancement of the local greenhouse effect. Climate models tend to agree that the latent energy transport will increase on the expense of the dry-static transport in future simulations. Our results imply that the Arctic cooling caused by the reduction of the dry-static transport is more than compensated for by the warming induced by the latent transport.

  12. Aquaporin-4-dependent K(+) and water transport modeled in brain extracellular space following neuroexcitation.

    PubMed

    Jin, Byung-Ju; Zhang, Hua; Binder, Devin K; Verkman, A S

    2013-01-01

    Potassium (K(+)) ions released into brain extracellular space (ECS) during neuroexcitation are efficiently taken up by astrocytes. Deletion of astrocyte water channel aquaporin-4 (AQP4) in mice alters neuroexcitation by reducing ECS [K(+)] accumulation and slowing K(+) reuptake. These effects could involve AQP4-dependent: (a) K(+) permeability, (b) resting ECS volume, (c) ECS contraction during K(+) reuptake, and (d) diffusion-limited water/K(+) transport coupling. To investigate the role of these mechanisms, we compared experimental data to predictions of a model of K(+) and water uptake into astrocytes after neuronal release of K(+) into the ECS. The model computed the kinetics of ECS [K(+)] and volume, with input parameters including initial ECS volume, astrocyte K(+) conductance and water permeability, and diffusion in astrocyte cytoplasm. Numerical methods were developed to compute transport and diffusion for a nonstationary astrocyte-ECS interface. The modeling showed that mechanisms b-d, together, can predict experimentally observed impairment in K(+) reuptake from the ECS in AQP4 deficiency, as well as altered K(+) accumulation in the ECS after neuroexcitation, provided that astrocyte water permeability is sufficiently reduced in AQP4 deficiency and that solute diffusion in astrocyte cytoplasm is sufficiently low. The modeling thus provides a potential explanation for AQP4-dependent K(+)/water coupling in the ECS without requiring AQP4-dependent astrocyte K(+) permeability. Our model links the physical and ion/water transport properties of brain cells with the dynamics of neuroexcitation, and supports the conclusion that reduced AQP4-dependent water transport is responsible for defective neuroexcitation in AQP4 deficiency.

  13. A process-based evapotranspiration model incorporating coupled soil water-atmospheric controls

    NASA Astrophysics Data System (ADS)

    Haghighi, Erfan; Kirchner, James

    2016-04-01

    Despite many efforts to develop evapotranspiration models (in the framework of the Penman-Monteith equation) with improved parametrizations of various resistance terms to water vapor transfer into the atmosphere, evidence suggests that estimates of evapotranspiration and its partitioning are prone to bias. Much of this bias could arise from the exclusion of surface hydro-thermal properties and of physical interactions close to the surface where heat and water vapor fluxes originate. Recent progress has been made in mechanistic modeling of surface-turbulence interactions, accounting for localized heat and mass exchange rates from bare soil surfaces covered by protruding obstacles. We seek to extend these results partially vegetated surfaces, to improve predictive capabilities and accuracy of remote sensing techniques quantifying evapotranspiration fluxes. The governing equations of liquid water, water vapor, and energy transport dynamics in the soil-plant-atmosphere system are coupled to resolve diffusive vapor fluxes from isolated pores (plant stomata and soil pores) across a near-surface viscous sublayer, explicitly accounting for pore-scale transport mechanisms and environmental forcing. Preliminary results suggest that this approach offers unique opportunities for directly linking transport properties in plants and adjacent bare soil with resulting plant transpiration and localized bare soil evaporation rates. It thus provides an essential building block for interpreting and upscaling results to field and landscape scales for a range of vegetation cover and atmospheric conditions.

  14. Models of Fate and Transport of Pollutants in Surface Waters

    ERIC Educational Resources Information Center

    Okome, Gloria Eloho

    2013-01-01

    There is the need to answer very crucial questions of "what happens to pollutants in surface waters?" This question must be answered to determine the factors controlling fate and transport of chemicals and their evolutionary state in surface waters. Monitoring and experimental methods are used in establishing the environmental states.…

  15. Water footprint of U.S. transportation fuels.

    PubMed

    Scown, Corinne D; Horvath, Arpad; McKone, Thomas E

    2011-04-01

    In the modern global economy, water and energy are fundamentally connected. Water already plays a major role in electricity generation and, with biofuels and electricity poised to gain a significant share of the transportation fuel market, water will become significantly more important for transportation energy as well. This research provides insight into the potential changes in water use resulting from increased biofuel or electricity production for transportation energy, as well as the greenhouse gas and freshwater implications. It is shown that when characterizing the water impact of transportation energy, incorporating indirect water use and defensible allocation techniques have a major impact on the final results, with anywhere between an 82% increase and a 250% decrease in the water footprint if evaporative losses from hydroelectric power are excluded. The greenhouse gas impact results indicate that placing cellulosic biorefineries in areas where water must be supplied using alternative means, such as desalination, wastewater recycling, or importation can increase the fuel's total greenhouse gas footprint by up to 47%. The results also show that the production of ethanol and petroleum fuels burden already overpumped aquifers, whereas electricity production is far less dependent on groundwater.

  16. Water and heat transport in hilly red soil of southern China: I. Experiment and analysis.

    PubMed

    Lu, Jun; Huang, Zhi-Zhen; Han, Xiao-Fei

    2005-05-01

    Studies on coupled transfer of soil moisture and heat have been widely carried out for decades. However, little work has been done on red soils, widespread in southern China. The simultaneous transfer of soil moisture and heat depended on soil physical properties and the climate conditions. Red soil is heavy clay and high content of free iron and aluminum oxide. The climate conditions are characterized by the clear four seasons and the serious seasonal drought. The great air temperature differences annually and diurnally result in significant fluctuation in soil temperature in top layer. The closed and evaporating columns experiments with red soil were conducted to simulate the coupled transfer of soil water and heat under the overlaying and opening fields' conditions, and to analyze the effects of soil temperature gradient on the water transfer and the effects of initial soil water contents on the transfer of soil water and heat. The closed and evaporating columns were designed similarly with about 18 degrees C temperatures differences between the top and bottom boundary, except of the upper end closed or exposed to the air, respectively. Results showed that in the closed column, water moved towards the cold end driven by temperature gradient, while the transported water decreased with the increasing initial soil water content until the initial soil water content reached to field capacity equivalent, when almost no changes for the soil moisture profile. In the evaporating column, the net transport of soil water was simultaneously driven by evaporation and temperature gradients, and the drier soil was more influenced by temperature gradient than by evaporation. In drier soil, it took a longer time for the temperature to reach equilibrium, because of more net amount of transported water.

  17. Evaluation of the Water Vapor Transport over the Yellow River Basin in CMIP5 Models

    NASA Astrophysics Data System (ADS)

    Bao, Jiawei; Feng, Jinming

    2014-05-01

    Temperature, precipitation and water vapor transport in China, particularly in the Yellow River Basin simulated by the 16 models participating in phase 5 of the Coupled Model Inter-comparison Project (CMIP5) were evaluated for the period 1979-2005. Results suggest that most CMIP5 models are able to capture the climatological distribution patterns and inter-annual variations of surface air temperature, but with cold bias. Most models reproduce the spatial distribution pattern of warming trends identical with observations. Models tend to overestimate precipitation with relative biases ranging from 4.59 % to 61.46 %. Compared with observations, most models simulate more precipitation over the east of Tibetan Plateau and less in southeastern coastal regions. The spatial distribution of precipitation trends displayed in the observations cannot be well simulated by most models. The underestimation of temperature and the overestimation of precipitation simulated by some models over the east of Tibetan Plateau may be related to the anomalously strong western Pacific subtropical high and sufficient water vapor transport from Indian Ocean and western Pacific Ocean. In terms of the Yellow River Basin, modeled water vapor mainly flows in from eastern boundary and out from the western boundary. Water vapor also flows in through the southern boundary, but with smaller intensity. Owing to the overestimation of water vapor convergence, some models tend to exaggerate the climatological precipitation. Additionally, we found that the summer water vapor budget and precipitation keep pace with each other, which is well reflected by the FIO-ESM model. Models can also reproduce this relation in the lower reaches, with the total water vapor budget correlated strongly with water vapor transport from eastern, western and southern boundaries, indicating that water vapor budget and even the precipitation are strongly influenced by the water vapor transport from Indian Ocean and western

  18. Understanding Surface water Ground water Interactions in Arkansas-Red River Basin using Coupled Modeling

    NASA Astrophysics Data System (ADS)

    Joshi, C.; Mohanty, B. P.

    2006-12-01

    Subsurface water exists primarily as groundwater and also in small quantity as soil water in the unsaturated zone. This soil water plays a vital role in the hydrologic cycle by supporting plant growth, regulating the amount of water lost to evapo-transpiration and affecting the surface water groundwater interaction to a certain extent. As such, the interaction between surface water and groundwater is complex and little understood. This study aims at investigating the surface water groundwater interaction in the Arkansas-Red river basin, using a coupled modeling platform. For this purpose, an ecohydrological model (SWAP) has been coupled with the groundwater model (MODFLOW). Inputs to this coupled model are collected from NEXRAD precipitation data at a resolution of ~4 km, meteorological forcings from Oklahoma mesonet and NCDC sites, STATSGO soil property data, LAI (Leaf Area Index) data from MODIS at a resolution of ~1 km, and DEM (Digital Elevation Model). For numerical modeling, a spatial resolution of ~1 km and a temporal resolution of one day is used. The modeled base flow and total groundwater storage change would be tested using ground water table observation data. The modeled ground water storage is further improved using GRACE (Gravity Recovery and Climate Experiment) satellite data at a resolution of ~400 km, with the help of appropriate data assimilation technique.

  19. Methane oxidation coupled to oxygenic photosynthesis in anoxic waters.

    PubMed

    Milucka, Jana; Kirf, Mathias; Lu, Lu; Krupke, Andreas; Lam, Phyllis; Littmann, Sten; Kuypers, Marcel M M; Schubert, Carsten J

    2015-09-01

    Freshwater lakes represent large methane sources that, in contrast to the Ocean, significantly contribute to non-anthropogenic methane emissions to the atmosphere. Particularly mixed lakes are major methane emitters, while permanently and seasonally stratified lakes with anoxic bottom waters are often characterized by strongly reduced methane emissions. The causes for this reduced methane flux from anoxic lake waters are not fully understood. Here we identified the microorganisms and processes responsible for the near complete consumption of methane in the anoxic waters of a permanently stratified lake, Lago di Cadagno. Interestingly, known anaerobic methanotrophs could not be detected in these waters. Instead, we found abundant gamma-proteobacterial aerobic methane-oxidizing bacteria active in the anoxic waters. In vitro incubations revealed that, among all the tested potential electron acceptors, only the addition of oxygen enhanced the rates of methane oxidation. An equally pronounced stimulation was also observed when the anoxic water samples were incubated in the light. Our combined results from molecular, biogeochemical and single-cell analyses indicate that methane removal at the anoxic chemocline of Lago di Cadagno is due to true aerobic oxidation of methane fuelled by in situ oxygen production by photosynthetic algae. A similar mechanism could be active in seasonally stratified lakes and marine basins such as the Black Sea, where light penetrates to the anoxic chemocline. Given the widespread occurrence of seasonally stratified anoxic lakes, aerobic methane oxidation coupled to oxygenic photosynthesis might have an important but so far neglected role in methane emissions from lakes.

  20. Methane oxidation coupled to oxygenic photosynthesis in anoxic waters

    PubMed Central

    Milucka, Jana; Kirf, Mathias; Lu, Lu; Krupke, Andreas; Lam, Phyllis; Littmann, Sten; Kuypers, Marcel MM; Schubert, Carsten J

    2015-01-01

    Freshwater lakes represent large methane sources that, in contrast to the Ocean, significantly contribute to non-anthropogenic methane emissions to the atmosphere. Particularly mixed lakes are major methane emitters, while permanently and seasonally stratified lakes with anoxic bottom waters are often characterized by strongly reduced methane emissions. The causes for this reduced methane flux from anoxic lake waters are not fully understood. Here we identified the microorganisms and processes responsible for the near complete consumption of methane in the anoxic waters of a permanently stratified lake, Lago di Cadagno. Interestingly, known anaerobic methanotrophs could not be detected in these waters. Instead, we found abundant gamma-proteobacterial aerobic methane-oxidizing bacteria active in the anoxic waters. In vitro incubations revealed that, among all the tested potential electron acceptors, only the addition of oxygen enhanced the rates of methane oxidation. An equally pronounced stimulation was also observed when the anoxic water samples were incubated in the light. Our combined results from molecular, biogeochemical and single-cell analyses indicate that methane removal at the anoxic chemocline of Lago di Cadagno is due to true aerobic oxidation of methane fuelled by in situ oxygen production by photosynthetic algae. A similar mechanism could be active in seasonally stratified lakes and marine basins such as the Black Sea, where light penetrates to the anoxic chemocline. Given the widespread occurrence of seasonally stratified anoxic lakes, aerobic methane oxidation coupled to oxygenic photosynthesis might have an important but so far neglected role in methane emissions from lakes. PMID:25679533

  1. Coupled modeling of groundwater flow solute transport, chemical reactions and microbial processes in the 'SP' island

    SciTech Connect

    Samper, Javier; Molinero, Jorg; Changbing, Yang; Zhang, Guoxiang

    2003-12-01

    The Redox Zone Experiment was carried out at the Aespoe HRL in order to study the redox behavior and the hydrochemistry of an isolated vertical fracture zone disturbed by the excavation of an access tunnel. Overall results and interpretation of the Redox Zone Project were reported by /Banwart et al, 1995/. Later, /Banwart et al, 1999/ presented a summary of the hydrochemistry of the Redox Zone Experiment. Coupled groundwater flow and reactive transport models of this experiment were carried out by /Molinero, 2000/ who proposed a revised conceptual model for the hydrogeology of the Redox Zone Experiment which could explain simultaneously measured drawdown and salinity data. The numerical model was found useful to understand the natural system. Several conclusions were drawn about the redox conditions of recharge waters, cation exchange capacity of the fracture zone and the role of mineral phases such as pyrite, calcite, hematite and goethite. This model could reproduce the measured trends of dissolved species, except for bicarbonate and sulfate which are affected by microbially-mediated processes. In order to explore the role of microbial processes, a coupled numerical model has been constructed which accounts for water flow, reactive transport and microbial processes. The results of this model is presented in this report. This model accounts for groundwater flow and reactive transport in a manner similar to that of /Molinero, 2000/ and extends the preliminary microbial model of /Zhang, 2001/ by accounting for microbially-driven organic matter fermentation and organic matter oxidation. This updated microbial model considers simultaneously the fermentation of particulate organic matter by yeast and the oxidation of dissolved organic matter, a product of fermentation. Dissolved organic matter is produced by yeast and serves also as a substrate for iron-reducing bacteria. Model results reproduce the observed increase in bicarbonate and sulfate concentration, thus

  2. A multi-substrate single-file model for ion-coupled transporters.

    PubMed Central

    Su, A; Mager, S; Mayo, S L; Lester, H A

    1996-01-01

    Ion-coupled transporters are simulated by a model that differs from contemporary alternating-access schemes. Beginning with concepts derived from multi-ion pores, the model assumes that substrates (both inorganic ions and small organic molecules) hop a) between the solutions and binding sites and b) between binding sites within a single-file pore. No two substrates can simultaneously occupy the same site. Rate constants for hopping can be increased both a) when substrates in two sites attract each other into a vacant site between them and b) when substrates in adjacent sites repel each other. Hopping rate constants for charged substrates are also modified by the membrane field. For a three-site model, simulated annealing yields parameters to fit steady-state measurements of flux coupling, transport-associated currents, and charge movements for the GABA transporter GAT1. The model then accounts for some GAT1 kinetic data as well. The model also yields parameters that describe the available data for the rat 5-HT transporter and for the rabbit Na(+)-glucose transporter. The simulations show that coupled fluxes and other aspects of ion transport can be explained by a model that includes local substrate-substrate interactions but no explicit global conformational changes. Images FIGURE 1 FIGURE 2 FIGURE 9 PMID:8789093

  3. Single photon transport in two waveguides chirally coupled by a quantum emitter.

    PubMed

    Cheng, Mu-Tian; Ma, Xiao-San; Zhang, Jia-Yan; Wang, Bing

    2016-08-22

    We investigate single photon transport in two waveguides coupled to a two-level quantum emitter (QE). With the deduced analytical scattering amplitudes, we show that under condition of the chiral coupling between the QE and the photon in the two waveguides, the QE can play the role of ideal quantum router to redirect a single photon incident from one waveguide into the other waveguide with a probability of 100% in the ideal condition. The influences of cross coupling between two waveguides and dissipations on the routing are also shown.

  4. Coupling biological processes and gaseous transport in models describing GHG emission from soils

    NASA Astrophysics Data System (ADS)

    Blagodatsky, S.; Smith, P.

    2012-04-01

    The precise coupling of gaseous transport and biochemistry in models describing the emission of greenhouse gases (GHG) from soil is necessary because CH4 and N2O can be both produced and consumed in soil. Eventual fluxes to the atmosphere depends on the position of reaction sites and the escape pathways for these gases. The CO2 production rate depends in turn on the efficiency of oxygen transport in the soil. Basing on models published in literature and our own experience the main principles leading to the best simulation results can be summarized as: 1) keeping a balanced level of detail in coupled model systems describing biochemical reactions and transport; 2) reduction of unnecessary complexity by means of using the most essential relationships elucidated by comprehensive statistical model testing; 3) consideration of all transport mechanisms in relation to prevailing ecological conditions. We will show examples of the successful application of coupled model systems for the prediction of three main GHG: CO2, N2O and CH4 as well as results of application of our model MICNIT designed for the simulation of CO2 and N2O emission and microbial C and N turnover in soil. We conclude that coupled gas transport and decomposition models lack the latest findings in modelling microbial growth in soil. So, models including an explicit description of microbial growth, i.e. growth rate and efficiency, humification ratios and their relationship with N availability (Blagodatsky, Richter, 1998; Moorhead and Sinsabaugh, 2006; Eliasson, and Ågren, 2011) need to be coupled with well-developed soil physics models with appropriate description of transport processes.

  5. Coupled Particle Transport and Pattern Formation in a Nonlinear Leaky-Box Model

    NASA Technical Reports Server (NTRS)

    Barghouty, A. F.; El-Nemr, K. W.; Baird, J. K.

    2009-01-01

    Effects of particle-particle coupling on particle characteristics in nonlinear leaky-box type descriptions of the acceleration and transport of energetic particles in space plasmas are examined in the framework of a simple two-particle model based on the Fokker-Planck equation in momentum space. In this model, the two particles are assumed coupled via a common nonlinear source term. In analogy with a prototypical mathematical system of diffusion-driven instability, this work demonstrates that steady-state patterns with strong dependence on the magnetic turbulence but a rather weak one on the coupled particles attributes can emerge in solutions of a nonlinearly coupled leaky-box model. The insight gained from this simple model may be of wider use and significance to nonlinearly coupled leaky-box type descriptions in general.

  6. A new look at water transport regulation in plants.

    PubMed

    Martínez-Vilalta, Jordi; Poyatos, Rafael; Aguadé, David; Retana, Javier; Mencuccini, Maurizio

    2014-10-01

    Plant function requires effective mechanisms to regulate water transport at a variety of scales. Here, we develop a new theoretical framework describing plant responses to drying soil, based on the relationship between midday and predawn leaf water potentials. The intercept of the relationship (Λ) characterizes the maximum transpiration rate per unit of hydraulic transport capacity, whereas the slope (σ) measures the relative sensitivity of the transpiration rate and plant hydraulic conductance to declining water availability. This framework was applied to a newly compiled global database of leaf water potentials to estimate the values of Λ and σ for 102 plant species. Our results show that our characterization of drought responses is largely consistent within species, and that the parameters Λ and σ show meaningful associations with climate across species. Parameter σ was ≤1 in most species, indicating a tight coordination between the gas and liquid phases of water transport, in which canopy transpiration tended to decline faster than hydraulic conductance during drought, thus reducing the pressure drop through the plant. The quantitative framework presented here offers a new way of characterizing water transport regulation in plants that can be used to assess their vulnerability to drought under current and future climatic conditions.

  7. Investigating water transport through the xylem network in vascular plants.

    PubMed

    Kim, Hae Koo; Park, Joonghyuk; Hwang, Ildoo

    2014-04-01

    Our understanding of physical and physiological mechanisms depends on the development of advanced technologies and tools to prove or re-evaluate established theories, and test new hypotheses. Water flow in land plants is a fascinating phenomenon, a vital component of the water cycle, and essential for life on Earth. The cohesion-tension theory (CTT), formulated more than a century ago and based on the physical properties of water, laid the foundation for our understanding of water transport in vascular plants. Numerous experimental tools have since been developed to evaluate various aspects of the CTT, such as the existence of negative hydrostatic pressure. This review focuses on the evolution of the experimental methods used to study water transport in plants, and summarizes the different ways to investigate the diversity of the xylem network structure and sap flow dynamics in various species. As water transport is documented at different scales, from the level of single conduits to entire plants, it is critical that new results be subjected to systematic cross-validation and that findings based on different organs be integrated at the whole-plant level. We also discuss the functional trade-offs between optimizing hydraulic efficiency and maintaining the safety of the entire transport system. Furthermore, we evaluate future directions in sap flow research and highlight the importance of integrating the combined effects of various levels of hydraulic regulation.

  8. Coupled binding mechanism of three sodium ions and aspartate in the glutamate transporter homologue GltTk

    PubMed Central

    Guskov, Albert; Jensen, Sonja; Faustino, Ignacio; Marrink, Siewert J.; Slotboom, Dirk Jan

    2016-01-01

    Glutamate transporters catalyse the thermodynamically unfavourable transport of anionic amino acids across the cell membrane by coupling it to the downhill transport of cations. This coupling mechanism is still poorly understood, in part because the available crystal structures of these transporters are of relatively low resolution. Here we solve crystal structures of the archaeal transporter GltTk in the presence and absence of aspartate and use molecular dynamics simulations and binding assays to show how strict coupling between the binding of three sodium ions and aspartate takes place. PMID:27830699

  9. Transport of Cryptosporidium parvum in Surface Waters: Interplay of Hydrodynamic Processes, Sediments, and Biofilms

    NASA Astrophysics Data System (ADS)

    Searcy, K. E.; Packman, A. I.; Atwill, E. R.; Harter, T.

    2005-05-01

    Understanding the movement of pathogens in the environment is necessary to ensure the safety and protection of municipal water supply systems. Cryptosporidium parvum is a human pathogen of particular concern as it is common in surface waters of the United States, it can survive for long periods of time in the environment, and it is difficult to disinfect in water treatment plants. The transport of oocysts through watersheds can be mediated by interactions with the stream channel and suspended particles in the water column. For example, the association of C. parvum oocysts with suspended particles can alter the effective physical properties of the oocysts and increase their settling velocity. The hydrodynamic coupling of the overlying water with the pore water of the sediment bed can carry oocysts from the surface water into the sediment bed. Surface-attached communities of microorganisms, called biofilms, are ubiquitous in surface water systems and can capture C. parvum oocysts. Laboratory experiments were conducted at multiple scales (flowcell, batch, and flume) to determine the association of oocysts with sediments and biofilm communities and to assess the impact of this association on C. parvum transport. The effects of flow conditions, water chemistry, sediment composition, biofilm composition, and biofilm structure on these associations were all evaluated. The experimental results demonstrate that oocyst-sediment-biofilm interactions have significant implications for the propagation of C. parvum oocysts through watersheds and should generally be considered when predicting the fate of pathogens in the environment.

  10. Meridional energy transport in the coupled atmosphere-ocean system: Compensation and partitioning

    NASA Astrophysics Data System (ADS)

    Farneti, R.; Vallis, G. K.

    2012-04-01

    The variability and compensation of the energy transport in the atmosphere and ocean are discussed with a hierarchy of coupled models. A state-of-the-art Coupled Model (GFDL CM2.1), an Intermediate Complexity Climate Model (GFDL ICCM) and a simple Energy Balance Model (EBM) are used in this study. For decadal time scales, a high degree of compensation is found for the transport in the Northern Hemisphere in the Atlantic sector. The variability of the total, or planetary, heat transport (PHT) is much smaller than the variability in either the atmosphere (AHT) or ocean (OHT) alone, a feature sometimes referred to as `Bjerknes compensation'. In the coupled models used, natural decadal variability stems from the Atlantic meridional overturning circulation (AMOC), and variations in the strength of the AMOC tend to lead the variability in the OHT. Furthermore, the PHT is positively correlated with the OHT, implying that the atmosphere is compensating, but imperfectly, for variations in the ocean transport. In the Southern Hemisphere no significant anticorrelation is found between OHT and AHT, consistent with the absence of decadal scale variability in the ocean. For both coupled models, the strongest anticorrelation between transports is found at the period of AMOC variability and decreases as the time scale decreases. Unlike the AHT and AMOC, the AHT and the transport in the oceanic gyres are positively correlated, suggesting that coupling between the wind-driven ocean circulation and the atmosphere militates against long-term variability involving the wind-driven flow. Moisture and sensible heat transports in the atmosphere are also positively correlated at decadal time scales. In the Northern Hemisphere compensation is weaker at low latitudes than at high. This is consistent with the notion that at low latitudes a larger fraction of the oceanic transport is due to the wind-driven warm cell, and the atmospheric and wind-driven oceanic energy transports vary in unison

  11. Barriers to superfast water transport in carbon nanotube membranes.

    PubMed

    Walther, Jens H; Ritos, Konstantinos; Cruz-Chu, Eduardo R; Megaridis, Constantine M; Koumoutsakos, Petros

    2013-05-08

    Carbon nanotube (CNT) membranes hold the promise of extraordinary fast water transport for applications such as energy efficient filtration and molecular level drug delivery. However, experiments and computations have reported flow rate enhancements over continuum hydrodynamics that contradict each other by orders of magnitude. We perform large scale molecular dynamics simulations emulating for the first time the micrometer thick CNTs membranes used in experiments. We find transport enhancement rates that are length dependent due to entrance and exit losses but asymptote to 2 orders of magnitude over the continuum predictions. These rates are far below those reported experimentally. The results suggest that the reported superfast water transport rates cannot be attributed to interactions of water with pristine CNTs alone.

  12. Coupling Radar Rainfall to Hydrological Models for Water Abstraction Management

    NASA Astrophysics Data System (ADS)

    Asfaw, Alemayehu; Shucksmith, James; Smith, Andrea; MacDonald, Ken

    2015-04-01

    The impacts of climate change and growing water use are likely to put considerable pressure on water resources and the environment. In the UK, a reform to surface water abstraction policy has recently been proposed which aims to increase the efficiency of using available water resources whilst minimising impacts on the aquatic environment. Key aspects to this reform include the consideration of dynamic rather than static abstraction licensing as well as introducing water trading concepts. Dynamic licensing will permit varying levels of abstraction dependent on environmental conditions (i.e. river flow and quality). The practical implementation of an effective dynamic abstraction strategy requires suitable flow forecasting techniques to inform abstraction asset management. Potentially the predicted availability of water resources within a catchment can be coupled to predicted demand and current storage to inform a cost effective water resource management strategy which minimises environmental impacts. The aim of this work is to use a historical analysis of UK case study catchment to compare potential water resource availability using modelled dynamic abstraction scenario informed by a flow forecasting model, against observed abstraction under a conventional abstraction regime. The work also demonstrates the impacts of modelling uncertainties on the accuracy of predicted water availability over range of forecast lead times. The study utilised a conceptual rainfall-runoff model PDM - Probability-Distributed Model developed by Centre for Ecology & Hydrology - set up in the Dove River catchment (UK) using 1km2 resolution radar rainfall as inputs and 15 min resolution gauged flow data for calibration and validation. Data assimilation procedures are implemented to improve flow predictions using observed flow data. Uncertainties in the radar rainfall data used in the model are quantified using artificial statistical error model described by Gaussian distribution and

  13. The Transportation of Debris by Running Water

    USGS Publications Warehouse

    Gilbert, Grove Karl; Murphy, Edward Charles

    1914-01-01

    Scope.-The finer debris transported by a stream is borne in suspension. The coarser is swept along the channel bed. The suspended load is readily sampled and estimated, and much is known as to its quantity. The bed load is inaccessible and we are without definite information as to its amount. The primary purpose of the investigation was to learn the laws which control the movement of bed load, and especially to determine how the quantity of load is related to the stream's slope and discharge and to the degree of comminution of the debris. Method.-To this end a laboratory was equipped at Berkeley, Cal., and experiments were performed in which each of the three conditions mentioned was separately varied and the resulting variations of load were observed and measured. Sand and gravel were sorted by sieves into grades of uniform size. Determinate discharges were used. In each experiment a specific load was fed to a stream of specific width and discharge, and measurement was made of the slope to which the stream automatically adjusted its bed so as to enable the current to transport the load. The slope factor.-For each combination of discharge, width, and grade of debris there is a slope, called competent slope, which limits transportation. With lower slopes there is no load, or the stream has no capacity for load. With higher slopes capacity exists; and increase of slope gives increase of capacity. The value of capacity is approximately proportional to a power of the excess of slope above competent slope. If S equal the stream's slope and sigma equal competent slope, then the stream's capacity varies as (S - sigma)n. This is not a deductive, but an empiric law. The exponent n has not a fixed value, but an indefinite series of values depending on conditions. Its range of values in the experience of the laboratory is from 0.93 to 2.37, the values being greater as the discharges are smaller or the debris is coarser. The discharge factor.-For each combination of width

  14. Coupled Factors Influencing Concentration Dependent Colloid Transport and Retention in Saturated Porous Media

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The coupled influence of input suspension concentration (Ci), ionic strength (IS) and hydrodynamics on the transport and retention of 1.1 'm carboxyl modified latex colloids in saturated quartz sand (150 'm) was investigated. Results from batch experiments and interaction energy calculations indica...

  15. Second order transport coefficient from the chiral anomaly at weak coupling: Diagrammatic resummation

    NASA Astrophysics Data System (ADS)

    Jimenez-Alba, Amadeo; Yee, Ho-Ung

    2015-07-01

    We compute one of the second order transport coefficients arising from the chiral anomaly in a high-temperature weakly coupled regime of quark-gluon plasma. This transport coefficient is responsible for the C P -odd current that is proportional to the time derivative of the magnetic field, and can be considered as a first correction to the chiral magnetic conductivity at finite, small frequency. We observe that this transport coefficient has a nonanalytic dependence on the coupling as ˜1 /(g4log (1 /g )) at the weak coupling regime, which necessitates a resummation of infinite ladder diagrams with leading pinch singularities to get a correct leading log result, a feature quite similar to what one finds in the computation of electric conductivity. We formulate and solve the relevant C P -odd Schwinger-Dyson equation in real-time perturbation theory that reduces to a coupled set of second order differential equations at leading log order. Our result for this second order transport coefficient indicates that chiral magnetic current has some resistance to the time change of the magnetic field; this shall be called the "chiral induction effect." We also discuss the case of color current induced by a color magnetic field.

  16. Coupled Factors Influencing the Transport and Retention of Cryptosporidium Parvum Oocysts in Saturated Porous Media

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The coupled role of solution ionic strength (IS), system hydrodynamics and pore structure on the transport and retention of viable Cryptosporidium parvum oocyst was investigated via batch, packed-bed column, and micromodel systems. The experiments were conducted over a wide range of IS (0.1-100 mM)...

  17. NUTRIENT SOUIRCES, TRANSPORT, AND FATE IN COUPLED WATERSHED-ESTUARINE SYSTEMS OF COASTAL ALABAMA

    EPA Science Inventory

    The processes regulating sources, transport, and fate of nutrients were studied in 3 coupled watershed-estuarine systems that varied mainly by differences in the dominant land use-land cover (LULC), i.e. Weeks Bay -- agriculture, Dog River -- urban, and Fowl River -- forest. Mea...

  18. Coupling Seepage and Radionuclide Transport in and Around Emplacement Drifts at Yucca Mountain

    NASA Astrophysics Data System (ADS)

    Zhang, G.; Spycher, N.; Sonnenthal, E.; Steefel, C.

    2007-12-01

    The proposed nuclear waste repository of the United States is located at Yucca Mountain, Nevada. Waste packages will be placed in deep (~350 m) underground drifts in volcanic tuff. Seepage may potentially occur at the repository drifts when the drifts get rewetted after a dryout period. The potential seepage water will be quickly evaporated or boiled to near dryness as long as it falls on the top of the hot waste package leading to formation of brine, precipitation of salts and volatilization of gases. These processes may potentially impact the long-term safety of waste packages in the drift. The objectives of this study are to: (1) develop a quantitative model of coupled thermal, hydrological, and chemical (THC) processes potentially leading to brine formation, salt precipitation and gas volatilization on top of waste packages and/or a drip shield and (2) dynamically integrate such a model into the larger-scale models of processes within and around waste emplacement drifts, as well as into the smaller-scale waste-package corrosion models. Process models were implemented into an existing reactive transport numerical simulator, TOUGHREACT, to allow modeling of (1) evaporative concentration to very high ionic strength (up to 40 molal), (2) boiling point elevation due to dissolved salts, (3) boiling/evaporation to dryness, and (4) salt deliquescence. An integrated near-field and in-drift THC simulation was run using a vertical 2-D grid extending from near the ground surface to the groundwater table, and covering a width equal to half the design drift spacing of 81 m. The integrated model was then used to simulate a discrete dripping event within the drift. The model considered the release of radionuclides into seepage water as this water contacts the waste package and flows through the invert. The precipitation of uranophane and Np-uranophane was also considered. These minerals form in the invert from the neutralization of mildly acidic seepage water by clay minerals

  19. Incomplete water securitization in coupled hydro-human production sytems

    NASA Astrophysics Data System (ADS)

    van den Boom, B.; Pande, S.

    2012-04-01

    Due to the dynamics, the externalities and the contingencies involved in managing local water resource for production, the water allocation at basin-level is a subtle balance between laws of nature (gravity; flux) and laws of economics (price; productivity). We study this balance by looking at inter-temporal basin-level water resource allocations in which subbasins enjoy a certain degree of autonomy. Each subbasin is represented as an economic agent i, following a gravity ordering with i=1 representing the most upstream area and i=I the downstream boundary. The water allocation is modeled as a decentralized equilibrium in a coupled conceptual hydro-human production system. Agents i=1,2,...,I in the basin produce a composite good according to a technology that requires water as a main input and that is specific to the subbasin. Agent i manages her use Xi and her storage Si, conceptualizing surface and subsurface water, of water with the purpose of maximizing the utility derived from consumption Ci of the composite good, where Ci is a scalar and Xi and Si are vectors which are composed of one element for each time period and for each contingency. A natural way to consume the good would be to absorb the own production. Yet, the agent may have two more option, namely, she might get a social transfer from other agents or she could use an income from trading water securities with her contiguous neighbors. To study these options, we compare water allocations (Ci, Xi, Si) all i=1,2,...,I for three different settings. We look at allocations without water securitization (water autarky equilibrium EA) first. Next, we describe the imaginary case of full securitization (contingent water markets equilibrium ECM) and, in between, we study limited securitization (incomplete water security equilibrium EWS). We show that allocations under contingent water markets ECM are efficient in the sense that, for the prevailing production technologies, no other allocation exists that is at

  20. Coupling Hyporheic Nitrification-Denitrification: Evaluating Net Nitrate Source-Sink Dynamics as a Function of Transport and Reaction Kinetics

    NASA Astrophysics Data System (ADS)

    Zarnetske, J. P.; Haggerty, R.; Wondzell, S. M.; Bokil, V. A.; Gonzalez Pinzon, R. A.

    2011-12-01

    The fate of biologically-available nitrogen (N) and carbon (C) in stream ecosystems is controlled by the coupling of physical transport and biogeochemical reaction kinetics. However, determining the relative role of physical and biogeochemical controls at different temporal and spatial scales is difficult. Hyporheic and riparian zones, where ground waters and stream waters mix, can be important locations controlling N and C transformations because they create strong gradients in both the physical and biogeochemical conditions that control redox biogeochemistry. We evaluated the coupling of physical transport and biogeochemical redox reactions by linking an advection, dispersion, and residence time model with a multiple Monod kinetics model simulating the concentrations of oxygen (O2), ammonium (NH4), nitrate (NO3), and dissolved organic carbon (DOC). The model successfully simulated the O2, NH4, NO3 and DOC concentration profiles observed in the hyporheic zone at our study site. We then used global Monte Carlo sensitivity analyses with a nondimensional form of the model to examine coupled nitrification-denitrification dynamics across many scales of transport and reaction conditions. Results demonstrated that the residence time of water in hyporheic systems and the uptake rate of O2 from either respiration and/or nitrification determined whether a hyporheic system was a source or a sink of NO3 to the stream. We further show that the net NO3 source or sink function of a hyporheic system is determined by the ratio of characteristic transport time to the characteristic reaction time of O2 (i.e., the Damköhler number, DaO2), where hyporheic systems with DaO2 < 1 will be net nitrification environments and hyporheic systems with DaO2 >> 1 will be net denitrification environments. Our coupling of the hydrologic and biogeochemical limitations of N transformations across different temporal and spatial scales within hyporheic zones allows us to explain the widely contrasting

  1. Spatiotemporal Coupling of cAMP Transporter to CFTR Chloride Channel Function in the Gut Epithelia

    PubMed Central

    Li, Chunying; Krishnamurthy, Partha C.; Penmatsa, Himabindu; Marrs, Kevin L.; Wang, Xue Qing; Zaccolo, Manuela; Jalink, Kees; Li, Min; Nelson, Deborah J.; Schuetz, John D.; Naren, Anjaparavanda P.

    2007-01-01

    SUMMARY Cystic fibrosis transmembrane conductance regulator (CFTR) is a cAMP-regulated chloride channel localized at apical cell membranes and exists in macromolecular complexes with a variety of signaling and transporter molecules. Here we report that the multidrug resistance protein 4 (MRP4), a cAMP transporter, is functionally and physically associates with CFTR. Adenosine-stimulated CFTR-mediated chloride currents are potentiated by MRP4 inhibition, and this potentiation is directly coupled to attenuated cAMP efflux through the apical cAMP transporter. CFTR single-channel recordings and FRET-based intracellular cAMP dynamics suggest that a compartmentalized coupling of cAMP transporter and CFTR occurs via the PDZ scaffolding protein, PDZK1, forming a macromolecular complex at apical surfaces of gut epithelia. Disrupting this complex abrogates the functional coupling of cAMP transporter activity to CFTR function. MRP4 knockout mice are more prone to CFTR-mediated secretory diarrhea. Our findings have important implications for disorders such as inflammatory bowel disease and secretory diarrhea. PMID:18045536

  2. Spatiotemporal coupling of cAMP transporter to CFTR chloride channel function in the gut epithelia.

    PubMed

    Li, Chunying; Krishnamurthy, Partha C; Penmatsa, Himabindu; Marrs, Kevin L; Wang, Xue Qing; Zaccolo, Manuela; Jalink, Kees; Li, Min; Nelson, Deborah J; Schuetz, John D; Naren, Anjaparavanda P

    2007-11-30

    Cystic fibrosis transmembrane conductance regulator (CFTR) is a cAMP-regulated chloride channel localized at apical cell membranes and exists in macromolecular complexes with a variety of signaling and transporter molecules. Here, we report that the multidrug resistance protein 4 (MRP4), a cAMP transporter, functionally and physically associates with CFTR. Adenosine-stimulated CFTR-mediated chloride currents are potentiated by MRP4 inhibition, and this potentiation is directly coupled to attenuated cAMP efflux through the apical cAMP transporter. CFTR single-channel recordings and FRET-based intracellular cAMP dynamics suggest that a compartmentalized coupling of cAMP transporter and CFTR occurs via the PDZ scaffolding protein, PDZK1, forming a macromolecular complex at apical surfaces of gut epithelia. Disrupting this complex abrogates the functional coupling of cAMP transporter activity to CFTR function. Mrp4 knockout mice are more prone to CFTR-mediated secretory diarrhea. Our findings have important implications for disorders such as inflammatory bowel disease and secretory diarrhea.

  3. Coupling Substrate and Ion Binding to Extracellular Gate of a Sodium-Dependent Aspartate Transporter

    SciTech Connect

    Boudker,O.; Ryan, R.; Yernool, D.; Shimamoto, K.; Gouaux, E.

    2007-01-01

    Secondary transporters are integral membrane proteins that catalyze the movement of substrate molecules across the lipid bilayer by coupling substrate transport to one or more ion gradients, thereby providing a mechanism for the concentrative uptake of substrates. Here we describe crystallographic and thermodynamic studies of Glt{sub Ph}, a sodium (Na{sup +})-coupled aspartate transporter, defining sites for aspartate, two sodium ions and D,L-threo-{beta}-benzyloxyaspartate, an inhibitor. We further show that helical hairpin 2 is the extracellular gate that controls access of substrate and ions to the internal binding sites. At least two sodium ions bind in close proximity to the substrate and these sodium-binding sites, together with the sodium-binding sites in another sodium-coupled transporter, LeuT, define an unwound {alpha}-helix as the central element of the ion-binding motif, a motif well suited to the binding of sodium and to participation in conformational changes that accompany ion binding and unbinding during the transport cycle.

  4. Computational study of effect of water finger on ion transport through water-oil interface.

    PubMed

    Kikkawa, Nobuaki; Wang, Lingjian; Morita, Akihiro

    2016-07-07

    When an ion transports from water to oil through water-oil interface, it accompanies hydrated water molecules and transiently forms a chain of water, called "water finger." We thoroughly investigated the role of the water finger in chloride ion transport through water-dichloromethane interface by using molecular dynamics technique. We developed a proper coordinate w to describe the water finger structure and calculated the free energy landscape and the friction for the ion transport as a function of ion position z and the water finger coordinate w. It is clearly shown that the formation and break of water finger accompanies an activation barrier for the ion transport, which has been overlooked in the conventional free energy curve along the ion position z. The present analysis of the friction does not support the hypothesis of augmented local friction (reduced local diffusion coefficient) at the interface. These results mean that the experimentally observed rate constants of interfacial ion transfer are reduced from the diffusion-limited one because of the activation barrier associated to the water finger, not the anomalous local diffusion. We also found that the nascent ion just after the break of water finger has excessive hydration water than that in the oil phase.

  5. Computational study of effect of water finger on ion transport through water-oil interface

    NASA Astrophysics Data System (ADS)

    Kikkawa, Nobuaki; Wang, Lingjian; Morita, Akihiro

    2016-07-01

    When an ion transports from water to oil through water-oil interface, it accompanies hydrated water molecules and transiently forms a chain of water, called "water finger." We thoroughly investigated the role of the water finger in chloride ion transport through water-dichloromethane interface by using molecular dynamics technique. We developed a proper coordinate w to describe the water finger structure and calculated the free energy landscape and the friction for the ion transport as a function of ion position z and the water finger coordinate w. It is clearly shown that the formation and break of water finger accompanies an activation barrier for the ion transport, which has been overlooked in the conventional free energy curve along the ion position z. The present analysis of the friction does not support the hypothesis of augmented local friction (reduced local diffusion coefficient) at the interface. These results mean that the experimentally observed rate constants of interfacial ion transfer are reduced from the diffusion-limited one because of the activation barrier associated to the water finger, not the anomalous local diffusion. We also found that the nascent ion just after the break of water finger has excessive hydration water than that in the oil phase.

  6. Aquarius, a reusable water-based interplanetary human spaceflight transport

    NASA Astrophysics Data System (ADS)

    Adamo, Daniel R.; Logan, James S.

    2016-11-01

    Attributes of a reusable interplanetary human spaceflight transport are proposed and applied to example transits between the Earth/Moon system and Deimos, the outer moon of Mars. Because the transport is 54% water by mass at an interplanetary departure, it is christened Aquarius. In addition to supporting crew hydration/hygiene, water aboard Aquarius serves as propellant and as enhanced crew habitat radiation shielding during interplanetary transit. Key infrastructure and technology supporting Aquarius operations include pre-emplaced consumables and subsurface habitat at Deimos with crew radiation shielding equivalent to sea level on Earth, resupply in a selenocentric distant retrograde orbit, and nuclear thermal propulsion.

  7. Correlation-driven transport asymmetries through coupled spins in a tunnel junction

    NASA Astrophysics Data System (ADS)

    Muenks, Matthias; Jacobson, Peter; Ternes, Markus; Kern, Klaus

    2017-01-01

    Spin-spin correlations can be the driving force that favours certain ground states and are key in numerous models that describe the behaviour of strongly correlated materials. While the sum of collective correlations usually lead to a macroscopically measurable change in properties, a direct quantification of correlations in atomic scale systems is difficult. Here we determine the correlations between a strongly hybridized spin impurity on the tip of a scanning tunnelling microscope and its electron bath by varying the coupling to a second spin impurity weakly hybridized to the sample surface. Electronic transport through these coupled spins reveals an asymmetry in the differential conductance reminiscent of spin-polarized transport in a magnetic field. We show that at zero field, this asymmetry can be controlled by the coupling strength and is related to either ferromagnetic or antiferromagnetic spin-spin correlations in the tip.

  8. Correlation-driven transport asymmetries through coupled spins in a tunnel junction

    PubMed Central

    Muenks, Matthias; Jacobson, Peter; Ternes, Markus; Kern, Klaus

    2017-01-01

    Spin–spin correlations can be the driving force that favours certain ground states and are key in numerous models that describe the behaviour of strongly correlated materials. While the sum of collective correlations usually lead to a macroscopically measurable change in properties, a direct quantification of correlations in atomic scale systems is difficult. Here we determine the correlations between a strongly hybridized spin impurity on the tip of a scanning tunnelling microscope and its electron bath by varying the coupling to a second spin impurity weakly hybridized to the sample surface. Electronic transport through these coupled spins reveals an asymmetry in the differential conductance reminiscent of spin-polarized transport in a magnetic field. We show that at zero field, this asymmetry can be controlled by the coupling strength and is related to either ferromagnetic or antiferromagnetic spin–spin correlations in the tip. PMID:28074832

  9. Transport and sorption of volatile organic compounds and water vapor in porous media

    SciTech Connect

    Lin, Tsair-Fuh

    1995-07-01

    To gain insight on the controlling mechanisms for VOC transport in porous media, the relations among sorbent properties, sorption equilibrium and intraparticle diffusion processes were studied at the level of individual sorbent particles and laboratory columns for soil and activated carbon systems. Transport and sorption of VOCs and water vapor were first elucidated within individual dry soil mineral grains. Soil properties, sorption capacity, and sorption rates were measured for 3 test soils; results suggest that the soil grains are porous, while the sorption isotherms are nonlinear and adsorption-desorption rates are slow and asymmetric. An intragranular pore diffusion model coupled with the nonlinear Freundlich isotherm was developed to describe the sorption kinetic curves. Transport of benzene and water vapor within peat was studied; partitioning and sorption kinetics were determined with an electrobalance. A dual diffusion model was developed. Transport of benzene in dry and moist soil columns was studied, followed by gaseous transport and sorption in activated carbon. The pore diffusion model provides good fits to sorption kinetics for VOCs to soil and VOC to granular activated carbon and activated carbon fibers. Results of this research indicate that: Intraparticle diffusion along with a nonlinea sorption isotherm are responsible for the slow, asymmetric sorption-desorption. Diffusion models are able to describe results for soil and activated carbon systems; when combined with mass transfer equations, they predict column breakthrough curves for several systems. Although the conditions are simplified, the mechanisms should provide insight on complex systems involving transport and sorption of vapors in porous media.

  10. Water and heat transport in hilly red soil of southern China: II. Modeling and simulation.

    PubMed

    Lu, Jun; Huang, Zhi-Zhen; Han, Xiao-Fei

    2005-05-01

    Simulation models of heat and water transport have not been rigorously tested for the red soils of southern China. Based on the theory of nonisothermal water-heat coupled transfer, a simulation model, programmed in Visual Basic 6.0, was developed to predict the coupled transfer of water and heat in hilly red soil. A series of soil column experiments for soil water and heat transfer, including soil columns with closed and evaporating top end, were used to test the simulation model. Results showed that in the closed columns, the temporal and spatial distribution of moisture and heat could be very well predicted by the model, while in the evaporating columns, the simulated soil water contents were somewhat different from the observed ones. In the heat flow equation from Taylor and Lary (1964), the effects of soil water evaporation on the heat flow is not involved, which may be the main reason for the differences between simulated and observed results. The predicted temperatures were not in agreement with the observed one with thermal conductivities calculated by de Vries and Wierenga equations, so that it is suggested that K(h), soil heat conductivity, be multiplied by 8.0 for the first 6.5 h and by 1.2 later on. Sensitivity analysis of soil water and heat coefficients showed that the saturated hydraulic conductivity, K(S), and the water diffusivity, D(theta), had great effects on soil water transport; the variation of soil porosity led to the difference of soil thermal properties, and accordingly changed temperature redistribution, which would affect water redistribution.

  11. Well-to-Wheels Water Consumption: Tracking the Virtual Flow of Water into Transportation

    NASA Astrophysics Data System (ADS)

    Lampert, D. J.; Elgowainy, A.; Hao, C.

    2015-12-01

    Water and energy resources are fundamental to life on Earth and essential for the production of consumer goods and services in the economy. Energy and water resources are heavily interdependent—energy production consumes water, while water treatment and distribution consume energy. One example of this so-called energy-water nexus is the consumption of water associated with the production of transportation fuels. The Greenhouse Gases, Regulated Emissions, and Energy Use in Transportation (GREET) model is an analytical tool that can be used to compare the environmental impacts of different transportation fuels on a consistent basis. In this presentation, the expansion of GREET to perform life cycle water accounting or the "virtual flow" of water into transportation and other energy sectors and the associated implications will be discussed. The results indicate that increased usage of alternative fuels may increase freshwater resource consumption. The increased water consumption must be weighed against the benefits of decreased greenhouse gas and fossil energy consumption. Our analysis highlights the importance of regionality, co-product allocation, and consistent system boundaries when comparing the water intensity of alternative transportation fuel production pathways such as ethanol, biodiesel, compressed natural gas, hydrogen, and electricity with conventional petroleum-based fuels such as diesel and gasoline.

  12. Water transport within carbon nanotubes on a wave.

    PubMed

    Li, Jin-Yi; Wu, Zeng-Qiang; Xu, Jing-Juan; Chen, Hong-Yuan; Xia, Xing-Hua

    2016-12-07

    Water molecules possess discontinuous properties in confined surroundings as compared to the bulk, their transport velocity shows a step change with the increase in the radius of hydrophobic carbon nanotubes (CNTs). Here, we report that the chain of water molecules in CNTs behaves as a "spring" owing to hydrogen bonding. Thus, the transport of water molecules in confined systems proceeds as a wave motion with eigen frequencies in the terahertz region which is determined by the CNT size. Water velocities derived from molecular dynamics (MD) fit well with the ones from finite element methods (FEM) on consideration of both the no-slip and slip boundary conditions for CNT diameters less than 1 nm and more than 1 nm, respectively. The present work helps clarify the features of mass and momentum transfers in confined surroundings, and provides perspectives for mass transfer applications.

  13. Water and Molecular Transport across Nanopores in Monolayer Graphene Membranes

    NASA Astrophysics Data System (ADS)

    Jang, Doojoon; O'Hern, Sean; Kidambi, Piran; Boutilier, Michael; Song, Yi; Idrobo, Juan-Carlos; Kong, Jing; Laoui, Tahar; Karnik, Rohit

    2015-11-01

    Graphene's atomic thickness and high tensile strength allow it to outstand as backbone material for next-generation high flux separation membrane. Molecular dynamics simulations predicted that a single-layer graphene membrane could exhibit high permeability and selectivity for water over ions/molecules, qualifying as novel water desalination membranes. However, experimental investigation of water and molecular transport across graphene nanopores had remained barely explored due to the presence of intrinsic defects and tears in graphene. We introduce two-step methods to seal leakage across centimeter scale single-layer graphene membranes create sub-nanometer pores using ion irradiation and oxidative etching. Pore creation parameters were varied to explore the effects of created pore structures on water and molecular transport driven by forward osmosis. The results demonstrate the potential of nanoporous graphene as a reliable platform for high flux nanofiltration membranes.

  14. Heat and water transport in a polymer electrolyte fuel cell electrode

    SciTech Connect

    Mukherjee, Partha P; Mukundan, Rangachary; Borup, Rod L; Ranjan, Devesh

    2010-01-01

    In the present scenario of a global initiative toward a sustainable energy future, the polymer electrolyte fuel cell (PEFC) has emerged as one of the most promising alternative energy conversion devices for various applications. Despite tremendous progress in recent years, a pivotal performance limitation in the PEFC comes from liquid water transport and the resulting flooding phenomena. Liquid water blocks the open pore space in the electrode and the fibrous diffusion layer leading to hindered oxygen transport. The electrode is also the only component in the entire PEFC sandwich which produces waste heat from the electrochemical reaction. The cathode electrode, being the host to several competing transport mechanisms, plays a crucial role in the overall PEFC performance limitation. In this work, an electrode model is presented in order to elucidate the coupled heat and water transport mechanisms. Two scenarios are specifically considered: (1) conventional, Nafion{reg_sign} impregnated, three-phase electrode with the hydrated polymeric membrane phase as the conveyer of protons where local electro-neutrality prevails; and (2) ultra-thin, two-phase, nano-structured electrode without the presence of ionomeric phase where charge accumulation due to electro-statics in the vicinity of the membrane-CL interface becomes important. The electrode model includes a physical description of heat and water balance along with electrochemical performance analysis in order to study the influence of electro-statics/electro-migration and phase change on the PEFC electrode performance.

  15. Role of water states on water uptake and proton transport in Nafion using molecular simulations and bimodal network

    SciTech Connect

    Hwang, Gi Suk; Kaviany, Massoud; Gostick, Jeffrey T.; Kientiz, Brian; Weber, Adam Z.; Kim, Moo Hwan

    2011-04-07

    In this paper, using molecular simulations and a bimodal-domain network, the role of water state on Nafion water uptake and water and proton transport is investigated. Although the smaller domains provide moderate transport pathways, their effectiveness remains low due to strong, resistive water molecules/domain surface interactions. Finally, the water occupancy of the larger domains yields bulk-like water, and causes the observed transition in the water uptake and significant increases in transport properties.

  16. Coupled effects of solution chemistry and hydrodynamics on the mobility and transport of quantum dot nanomaterials in the vadose zone

    NASA Astrophysics Data System (ADS)

    Uyusur, Burcu; Darnault, Christophe J. G.; Snee, Preston T.; Kokën, Emre; Jacobson, Astrid R.; Wells, Robert R.

    2010-11-01

    To investigate the coupled effects of solution chemistry and hydrodynamics on the mobility of quantum dot (QD) nanoparticles in the vadose zone, laboratory scale transport experiments involving single and/or sequential infiltrations of QDs in unsaturated and saturated porous media, and computations of total interaction and capillary potential energies were performed. As ionic strength increased, QD retention in the unsaturated porous media increased; however, this retention was significantly suppressed in the presence of a non-ionic surfactant in the infiltration suspensions as indicated by surfactant enhanced transport of QDs. In the vadose zone, the non-ionic surfactant limited the formation of QD aggregates, enhanced QD mobility and transport, and lowered the solution surface tension, which resulted in a decrease in capillary forces that not only led to a reduction in the removal of QDs, but also impacted the vadose zone flow processes. When chemical transport conditions were favorable (ionic strength of 5 × 10 -4 M and 5 × 10 -3 M, or ionic strengths of 5 × 10 -2 M and 0.5 M with surfactant), the dominating phenomena controlling the mobility and transport of QDs in the vadose zone were meso-scale processes, where infiltration by preferential flow results in the rapid transport of QDs. When chemical transport conditions were unfavorable (ionic strength of 5 × 10 -2 M and 0.5 M) the dominating phenomena controlling the mobility and transport of QDs in the vadose zone were pore-scale processes governed by gas-water interfaces (GWI) that impact the mobility of QDs. The addition of surfactant enhanced the transport of QDs both in favorable and unfavorable chemical transport conditions. The mobility and retention of QDs was controlled by interaction and capillary forces, with the latter being the most influential. GWI were found to be the dominant mechanism and site for QD removal compared with solid-water interfaces (SWI) and pore straining. Additionally

  17. Coupled electrochemical and heat/mass transport characteristics in passive direct methanol fuel cells

    NASA Astrophysics Data System (ADS)

    Chen, Rong

    indicated that the thermal management is a key factor for improving the performance of the passive DMFC. To enhance oxygen transport on the air-breathing cathode and to reduce the heat loss from the cathode, a porous current collector for the passive DMFC was proposed to replace conventional perforated-plate current collectors. Because of its high specific area of transport and effectiveness in removing the liquid water as a result of the capillary action in the porous structure, the porous current collector enables a significant enhancement of oxygen supply to the fuel cell. In addition, because of the lower effective thermal conductivity of the porous structure, the heat loss from the fuel cell to ambient air can be reduced. The experimental results showed that the passive DMFC having the porous current collector yielded much higher and much more stable performance than did the cell having the conventional perforated-plate current collector with high methanol concentration operation. As a following up to oxygen transport enhancement, a new design of membrane electrode assembly (MEA) was proposed, in which the conventional cathode gas diffusion layer (CGDL) is eliminated while utilizing a porous metal structure for transporting oxygen and collecting current. We show theoretically that the new MEA enables a higher mass transfer rate of oxygen and thus better performance. Moreover, the measured polarization and constant-current discharging behavior showed that the passive DMFC with the new MEA yielded higher and much more stable performance than did the cell having the conventional MEA. Besides the experimental investigations, to further theoretically study the thermal effect on the cell performance, a one-dimension single-phase model is developed by considering inherently coupled heat and mass transport along with the electrochemical reactions occurring in passive DMFCs. The analytical solutions predicting the performance of this type of fuel cell operating with different

  18. Eolian transport of geogenic hexavalent chromium to ground water

    USGS Publications Warehouse

    Wood, W.W.; Clark, D.; Imes, J.L.; Councell, T.B.

    2010-01-01

    A conceptual model of eolian transport is proposed to address the widely distributed, high concentrations of hexavalent chromium (Cr+6) observed in ground water in the Emirate of Abu Dhabi, United Arab Emirates. Concentrations (30 to more than 1000 μg/L Cr+6) extend over thousands of square kilometers of ground water systems. It is hypothesized that the Cr is derived from weathering of chromium-rich pyroxenes and olivines present in ophiolite sequence of the adjacent Oman (Hajar) Mountains. Cr+3 in the minerals is oxidized to Cr+6 by reduction of manganese and is subsequently sorbed on iron and manganese oxide coatings of particles. When the surfaces of these particles are abraded in this arid environment, they release fine, micrometer-sized, coated particles that are easily transported over large distances by wind and subsequently deposited on the surface. During ground water recharge events, the readily soluble Cr+6 is mobilized by rain water and transported by advective flow into the underlying aquifer. Chromium analyses of ground water, rain, dust, and surface (soil) deposits are consistent with this model, as are electron probe analyses of clasts derived from the eroding Oman ophiolite sequence. Ground water recharge flux is proposed to exercise some control over Cr+6 concentration in the aquifer.

  19. CFD Model of Water Droplet Transport for ISS Hygiene Activity

    NASA Technical Reports Server (NTRS)

    Son, Chang H.

    2011-01-01

    The goal of the study is to assess the impacts of free water propagation in the Waste and Hygiene Compartment (WHC). Free water can be generated inside the WHC in small quantities due to crew hygiene activity. To mitigate potential impact of free water in Node 3 cabin the WHC doorway is enclosed by a waterproof bump-out, Kabin, with openings at the top and bottom. At the overhead side of the rack, there is a screen that prevents large drops of water from exiting. However, as the avionics fan in the WHC causes airflow toward the deck side of the rack, small quantities of free water may exit at the bottom of the Kabin. A Computational Fluid Dynamics (CFD) analysis of Node 3 cabin airflow made possible to identify the paths of water transport. The Node 3 airflow was computed for several ventilation scenarios. To simulate the droplet transport the Lagrangian discrete phase approach was used. Various initial droplet distributions were considered in the study. The droplet diameter was varied in the range of 2-20 mm. The results of the computations showed that most of the drops fall to the rack surface not far from the WHC curtain. The probability of the droplet transport to the adjacent rack surface with electronic equipment was predicted.

  20. Structural insight in the toppling mechanism of an energy-coupling factor transporter

    PubMed Central

    Swier, Lotteke J. Y. M.; Guskov, Albert; Slotboom, Dirk J.

    2016-01-01

    Energy-coupling factor (ECF) transporters mediate uptake of micronutrients in prokaryotes. The transporters consist of an S-component that binds the transported substrate and an ECF module (EcfAA′T) that binds and hydrolyses ATP. The mechanism of transport is poorly understood but presumably involves an unusual step in which the membrane-embedded S-component topples over to carry the substrate across the membrane. In many ECF transporters, the S-component dissociates from the ECF module after transport. Subsequently, substrate-bound S-components out-compete the empty proteins for re-binding to the ECF module in a new round of transport. Here we present crystal structures of the folate-specific transporter ECF–FolT from Lactobacillus delbrueckii. Interaction of the ECF module with FolT stabilizes the toppled state, and simultaneously destroys the high-affinity folate-binding site, allowing substrate release into the cytosol. We hypothesize that differences in the kinetics of toppling can explain how substrate-loaded FolT out-competes apo-FolT for association with the ECF module. PMID:27026363

  1. Quantum transport through a Coulomb blockaded quantum emitter coupled to a plasmonic dimer.

    PubMed

    Goker, A; Aksu, H

    2016-01-21

    We study the electron transmission through a Coulomb blockaded quantum emitter coupled to metal nanoparticles possessing plasmon resonances by employing the time-dependent non-crossing approximation. We find that the coupling of the nanoparticle plasmons with the excitons results in a significant enhancement of the conductance through the discrete state with higher energy beyond the unitarity limit while the other discrete state with lower energy remains Coulomb blockaded. We show that boosting the plasmon-exciton coupling well below the Kondo temperature increases the enhancement adding another quantum of counductance upon saturation. Finite bias and increasing emitter resonance energy tend to reduce this enhancement. We attribute these observations to the opening of an additional transport channel via the plasmon-exciton coupling.

  2. Transport through an impurity tunnel coupled to a Si/SiGe quantum dot

    SciTech Connect

    Foote, Ryan H. Ward, Daniel R.; Thorgrimsson, Brandur; Savage, D. E.; Friesen, Mark; Coppersmith, S. N.; Eriksson, M. A.; Prance, J. R.; Gamble, John King; Nielsen, Erik; Saraiva, A. L.

    2015-09-07

    Achieving controllable coupling of dopants in silicon is crucial for operating donor-based qubit devices, but it is difficult because of the small size of donor-bound electron wavefunctions. Here, we report the characterization of a quantum dot coupled to a localized electronic state and present evidence of controllable coupling between the quantum dot and the localized state. A set of measurements of transport through the device enable the determination that the most likely location of the localized state is consistent with a location in the quantum well near the edge of the quantum dot. Our results are consistent with a gate-voltage controllable tunnel coupling, which is an important building block for hybrid donor and gate-defined quantum dot devices.

  3. Sodium-coupled and electrogenic transport of B-complex vitamin nicotinic acid by slc5a8, a member of the Na/glucose co-transporter gene family

    PubMed Central

    Gopal, Elangovan; Fei, You-Jun; Miyauchi, Seiji; Zhuang, Lina; Prasad, Puttur D.; Ganapathy, Vadivel

    2005-01-01

    SMCT (sodium-coupled monocarboxylate transporter; slc5a8) is a Na+-coupled transporter for lactate, pyruvate and short-chain fatty acids. Similar to these already known substrates of SMCT, the water-soluble B-complex vitamin nicotinic acid also exists as a monocarboxylate anion (nicotinate) under physiological conditions. Therefore we evaluated the ability of SMCT to mediate the uptake of nicotinate. In mammalian cells, the cloned mouse SMCT (slc5a8) induced the uptake of nicotinate. The SMCT-induced uptake was Na+-dependent. The Michaelis constant for the uptake process was 296±88 μM. The Na+-activation kinetics indicated that at least two Na+ ions are involved in the process. Among the various structural analogues tested, nicotinate was the most effective substrate. Nicotinamide and methylnicotinate were not recognized by the transporter. 2-Pyrazine carboxylate and isonicotinate interacted with the transporter to a moderate extent. SMCT-mediated uptake of nicotinate was inhibited by lactate and pyruvate. In the Xenopus laevis oocyte expression system, SMCT-mediated nicotinate transport was electrogenic, as evident from the nicotinate-induced inward currents under voltage-clamp conditions. Substrate-induced currents in this expression system corroborated the substrate specificity determined in the mammalian cell expression system. The kinetic parameters with regard to the affinity of the transporter for nicotinate and the Hill coefficient for Na+ activation, determined by using the oocyte expression system, were also similar to those obtained from the mammalian cell expression system. We conclude that SMCT functions not only as a Na+-coupled transporter for short-chain fatty acids and lactate but also as a Na+-coupled transporter for the water-soluble vitamin nicotinic acid. PMID:15651982

  4. Molecular transport through surfactant-covered oil-water interfaces: role of physical properties of solutes and surfactants in creating energy barriers for transport.

    PubMed

    Ahn, Yong Nam; Gupta, Ashish; Chauhan, Anuj; Kopelevich, Dmitry I

    2011-03-15

    Mechanisms of molecular transport across oil-water interfaces covered by nonionic surfactants are investigated using coarse-grained molecular dynamics simulations. Resistance of the surfactant monolayer to the solute transport is shown to be controlled by dense regions in the monolayer. The dense regions are formed on both sides of the dividing surface and the barrier to the solute transport is created by those of them experiencing unfavorable interactions with the solute. Resistance to the transport of a hydrophobic (hydrophilic) solute increases with the excess density of the head (tail) group region of the monolayer, which in turn increases with the length of the surfactant head (tail) group. Barriers for solute transport through surfactant monolayers are also influenced by the solute size. However, the extent of this influence is determined by the monolayer thickness and the solute structure and composition. For example, it is shown that resistance offered by thin monolayers to transport of linear oligomers is relatively insensitive to the solute length. The barrier sensitivity to the length of these solutes increases with the monolayer thickness. In addition to the static barriers, the solute transport is shown to be affected by dynamic barriers due to a nonadiabatic coupling of the monolayer surface with the solute position and configuration. This coupling leads to deviations of the system dynamics from the minimum energy path. The deviations are most significant in the neighborhood of the static energy barrier, which effectively leads to an increase of the barrier for the solute transport.

  5. Coupled atmospheric, land surface, and subsurface modeling: Exploring water and energy feedbacks in three-dimensions

    NASA Astrophysics Data System (ADS)

    Davison, Jason H.; Hwang, Hyoun-Tae; Sudicky, Edward A.; Lin, John C.

    2015-12-01

    Human activities amplified by climate change pose a significant threat to the sustainability of water resources. Coupled climate-hydrologic simulations commonly predict these threats by combining shallow 1-D land surface models (LSMs) with traditional 2-D and 3-D hydrology models. However, these coupled models limit the moisture and energy-feedback dynamics to the shallow near-surface. This paper presents a novel analysis by applying an integrated variably-saturated subsurface/surface hydrology and heat transport model, HydroGeoSphere (HGS), as a land surface model (LSM). Furthermore, this article demonstrates the coupling of HGS to a simple 0-D atmospheric boundary layer (ABL) model. We then applied our coupled HGS-ABL model to three separate test cases and reproduced the strong correlation between the atmospheric energy balance to the depth of the groundwater table. From our simulations, we found that conventional LSMs may overestimate surface temperatures for extended drought periods because they underestimate the heat storage in the groundwater zone. Our final test case of the atmospheric response to drought conditions illustrated that deeper roots buffered the atmosphere better than shallow roots by maintaining higher latent heat fluxes, lower sensible heat fluxes, and lower surface and atmospheric temperatures.

  6. Classroom Techniques to Illustrate Water Transport in Plants

    ERIC Educational Resources Information Center

    Lakrim, Mohamed

    2013-01-01

    The transport of water in plants is among the most difficult and challenging concepts to explain to students. It is even more difficult for students enrolled in an introductory general biology course. An easy approach is needed to demonstrate this complex concept. I describe visual and pedagogical examples that can be performed quickly and easily…

  7. Water Transport in Trees--An Artificial Laboratory Tree

    ERIC Educational Resources Information Center

    Susman, K.; Razpet, N.; Cepic, M.

    2011-01-01

    Water transport in tall trees is an everyday phenomenon, seldom noticed and not completely understood even by scientists. As a topic of current research in plant physiology it has several advantages for presentation within school physics lectures: it is interdisciplinary and clearly shows the connection between physics and biology; the…

  8. Pupils' Response to a Model for Water Transport.

    ERIC Educational Resources Information Center

    Johnstone, A. H.; Mahmoud, N. A.

    1981-01-01

    Described is a model, based on the physical sciences, designed to teach secondary students about water transport through the use of an animated film. Pupils (N=440) taught by this method developed a self-consistent, although reduced, picture and understanding of osmosis. (Author/DC)

  9. Sediment Transport at Density Fronts in Shallow Water

    DTIC Science & Technology

    2012-09-30

    1 DISTRIBUTION STATEMENT A. Approved for public release; distribution is unlimited. Sediment Transport at Density Fronts in Shallow Water...tidal inundation cycle as it travels across the intertidal zone, and - combine the observations and model results to (1) quantify sediment suspension...S) 12. DISTRIBUTION /AVAILABILITY STATEMENT Approved for public release, distribution unlimited 13. SUPPLEMENTARY NOTES The original document

  10. Conformational cycle and ion-coupling mechanism of the Na+/hydantoin transporter Mhp1

    PubMed Central

    Kazmier, Kelli; Sharma, Shruti; Islam, Shahidul M.; Roux, Benoît; Mchaourab, Hassane S.

    2014-01-01

    Ion-dependent transporters of the LeuT-fold couple the uptake of physiologically essential molecules to transmembrane ion gradients. Defined by a conserved 5-helix inverted repeat that encodes common principles of ion and substrate binding, the LeuT-fold has been captured in outward-facing, occluded, and inward-facing conformations. However, fundamental questions relating to the structural basis of alternating access and coupling to ion gradients remain unanswered. Here, we used distance measurements between pairs of spin labels to define the conformational cycle of the Na+-coupled hydantoin symporter Mhp1 from Microbacterium liquefaciens. Our results reveal that the inward-facing and outward-facing Mhp1 crystal structures represent sampled intermediate states in solution. Here, we provide a mechanistic context for these structures, mapping them into a model of transport based on ion- and substrate-dependent conformational equilibria. In contrast to the Na+/leucine transporter LeuT, our results suggest that Na+ binding at the conserved second Na+ binding site does not change the energetics of the inward- and outward-facing conformations of Mhp1. Comparative analysis of ligand-dependent alternating access in LeuT and Mhp1 lead us to propose that different coupling schemes to ion gradients may define distinct conformational mechanisms within the LeuT-fold class. PMID:25267652

  11. Conformational cycle and ion-coupling mechanism of the Na+/hydantoin transporter Mhp1.

    PubMed

    Kazmier, Kelli; Sharma, Shruti; Islam, Shahidul M; Roux, Benoît; Mchaourab, Hassane S

    2014-10-14

    Ion-dependent transporters of the LeuT-fold couple the uptake of physiologically essential molecules to transmembrane ion gradients. Defined by a conserved 5-helix inverted repeat that encodes common principles of ion and substrate binding, the LeuT-fold has been captured in outward-facing, occluded, and inward-facing conformations. However, fundamental questions relating to the structural basis of alternating access and coupling to ion gradients remain unanswered. Here, we used distance measurements between pairs of spin labels to define the conformational cycle of the Na(+)-coupled hydantoin symporter Mhp1 from Microbacterium liquefaciens. Our results reveal that the inward-facing and outward-facing Mhp1 crystal structures represent sampled intermediate states in solution. Here, we provide a mechanistic context for these structures, mapping them into a model of transport based on ion- and substrate-dependent conformational equilibria. In contrast to the Na(+)/leucine transporter LeuT, our results suggest that Na(+) binding at the conserved second Na(+) binding site does not change the energetics of the inward- and outward-facing conformations of Mhp1. Comparative analysis of ligand-dependent alternating access in LeuT and Mhp1 lead us to propose that different coupling schemes to ion gradients may define distinct conformational mechanisms within the LeuT-fold class.

  12. Experimental and modeling analysis of coupled non-Fickian transport and sorption in natural soils

    NASA Astrophysics Data System (ADS)

    Rubin, Shira; Dror, Ishai; Berkowitz, Brian

    2012-05-01

    We present experimental breakthrough curve (BTC) data and a modeling investigation of conservative and sorbing tracer transport in natural soils. By analyzing the data using the continuous time random walk (CTRW) model, we probe the traditional approach of using conservative tracer model parameters as a basis for quantifying the transport of sorbing solutes in the same domain when non-Fickian transport is present. Many known contaminants in groundwater are sorbed to the host solid porous medium, to varying extents, while being transported; this enhances the long tailing of BTCs which often already occurs because of the inherent non-Fickian nature of the transport. The CTRW framework has been shown to account very well for non-Fickian conservative (nonsorbing) transport. Here, we examine two BTC data sets in laboratory columns packed with natural soils; the first (previously analyzed by Mao and Ren (2004)) comprises transport of (conservative) bromide and (sorbing) atrazine tracers, while the second presents new data with bromide and tribromoneopentyl alcohol (TBNPA), a key flame retardant, as a sorbing solute. TBNPA has received little attention in the past, and is shown to be sorbed onto Bet Dagan soil in a nonlinear manner. We find that the transport behavior of bromide is non-Fickian in all cases, which is caused by the heterogeneity of the soil. Comparative model analysis of the non-Fickian BTCs of the conservative, and sorbing tracers and examination of the fitting parameters, exemplify the coupling between transport and adsorption/desorption processes. The difference in transport parameters used to match the conservative and sorbing data sets shows that conservative tracer parameters (average velocity and dispersion coefficient) are not valid for the transport of reactive tracers.

  13. Experimental and modeling analysis of coupled non-Fickian transport and sorption in natural soils

    NASA Astrophysics Data System (ADS)

    Rubin, S.; Berkowitz, B.

    2011-12-01

    We present experimental breakthrough curve (BTC) data and a modeling investigation of conservative and sorbing tracer transport in natural soils. By analyzing the data using the continuous time random walk (CTRW) model, we probe the traditional approach of using conservative tracer model parameters as a basis for quantifying the transport of sorbing solutes in the same domain. Many known contaminants in groundwater are sorbed to the host solid porous medium, to varying extents, while being transported; this enhances the long tailing of BTCs which already arise because of the inherent non-Fickian nature of the transport. The CTRW framework has been shown to account very well for non-Fickian conservative (nonsorbing) transport. Here, we examine two BTC data sets in laboratory columns packed with natural soils; the first (previously published) comprises transport of (conservative) bromide and (sorbing) atrazine tracers, while the second comprises new data with bromide and tribromoneopentyl alcohol (TBNPA), a common flame retardant, as a sorbing solute. We find that the transport behavior of bromide is non-Fickian in all cases, which is caused by the heterogeneity of the soil. Analysis of the relation between the non-Fickian transport of the conservative and sorbing tracers demonstrates the coupling between transport and adsorption/desorption, and the result that transport parameters (average velocity and dispersion coefficient) calibrated for the conservative tracer parameters are not applicable to the transport of reactive tracers. Our analyses further confirm the relevance and applicability of CTRW theory to the case of laboratory-scale observations of sorbing solutes.

  14. External forces influence the elastic coupling effects during cargo transport by molecular motors.

    PubMed

    Berger, Florian; Keller, Corina; Klumpp, Stefan; Lipowsky, Reinhard

    2015-02-01

    Cellular transport is achieved by the cooperative action of molecular motors which are elastically linked to a common cargo. When the motors pull on the cargo at the same time, they experience fluctuating elastic strain forces induced by the stepping of the other motors. These elastic coupling forces can influence the motors' stepping and unbinding behavior and thereby the ability to transport cargos. Based on a generic single motor description, we introduce a framework that explains the response of two identical molecular motors to a constant external force. In particular, we relate the single motor parameters, the coupling strength and the external load force to the dynamics of the motor pair. We derive four distinct transport regimes and determine how the crossover lines between the regimes depend on the load force. Our description of the overall cargo dynamics takes into account relaxational displacements of the cargo caused by the unbinding of one motor. For large forces and weak elastic coupling these back-shifts dominate the displacements. To develop an intuitive understanding about motor cooperativity during cargo transport, we introduce a time scale for load sharing. This time scale allows us to predict how the regulation of single motor parameters influences the cooperativity. As an example, we show that up-regulating the single motor processivity enhances load sharing of the motor pair.

  15. Transport of quantum excitations coupled to spatially extended nonlinear many-body systems

    NASA Astrophysics Data System (ADS)

    Iubini, Stefano; Boada, Octavi; Omar, Yasser; Piazza, Francesco

    2015-11-01

    The role of noise in the transport properties of quantum excitations is a topic of great importance in many fields, from organic semiconductors for technological applications to light-harvesting complexes in photosynthesis. In this paper we study a semi-classical model where a tight-binding Hamiltonian is fully coupled to an underlying spatially extended nonlinear chain of atoms. We show that the transport properties of a quantum excitation are subtly modulated by (i) the specific type (local versus non-local) of exciton-phonon coupling and by (ii) nonlinear effects of the underlying lattice. We report a non-monotonic dependence of the exciton diffusion coefficient on temperature, in agreement with earlier predictions, as a direct consequence of the lattice-induced fluctuations in the hopping rates due to long-wavelength vibrational modes. A standard measure of transport efficiency confirms that both nonlinearity in the underlying lattice and off-diagonal exciton-phonon coupling promote transport efficiency at high temperatures, preventing the Zeno-like quench observed in other models lacking an explicit noise-providing dynamical system.

  16. A COMSOL-GEMS interface for modeling coupled reactive-transport geochemical processes

    NASA Astrophysics Data System (ADS)

    Azad, Vahid Jafari; Li, Chang; Verba, Circe; Ideker, Jason H.; Isgor, O. Burkan

    2016-07-01

    An interface was developed between COMSOL MultiphysicsTM finite element analysis software and (geo)chemical modeling platform, GEMS, for the reactive-transport modeling of (geo)chemical processes in variably saturated porous media. The two standalone software packages are managed from the interface that uses a non-iterative operator splitting technique to couple the transport (COMSOL) and reaction (GEMS) processes. The interface allows modeling media with complex chemistry (e.g. cement) using GEMS thermodynamic database formats. Benchmark comparisons show that the developed interface can be used to predict a variety of reactive-transport processes accurately. The full functionality of the interface was demonstrated to model transport processes, governed by extended Nernst-Plank equation, in Class H Portland cement samples in high pressure and temperature autoclaves simulating systems that are used to store captured carbon dioxide (CO2) in geological reservoirs.

  17. Plasmodium falciparum chloroquine resistance transporter is a H+-coupled polyspecific nutrient and drug exporter

    PubMed Central

    Juge, Narinobu; Moriyama, Sawako; Miyaji, Takaaki; Kawakami, Mamiyo; Iwai, Haruka; Fukui, Tomoya; Nelson, Nathan; Omote, Hiroshi; Moriyama, Yoshinori

    2015-01-01

    Extrusion of chloroquine (CQ) from digestive vacuoles through the Plasmodium falciparum CQ resistance transporter (PfCRT) is essential to establish CQ resistance of the malaria parasite. However, the physiological relevance of PfCRT and how CQ-resistant PfCRT gains the ability to transport CQ remain unknown. We prepared proteoliposomes containing purified CQ-sensitive and CQ-resistant PfCRTs and measured their transport activities. All PfCRTs tested actively took up tetraethylammonium, verapamil, CQ, basic amino acids, polypeptides, and polyamines at the expense of an electrochemical proton gradient. CQ-resistant PfCRT exhibited decreased affinity for CQ, resulting in increased CQ uptake. Furthermore, CQ competitively inhibited amino acid transport. Thus, PfCRT is a H+-coupled polyspecific nutrient and drug exporter. PMID:25733858

  18. Coupling mechanical forces to electrical signaling: molecular motors and the intracellular transport of ion channels.

    PubMed

    Barry, Joshua; Gu, Chen

    2013-04-01

    Proper localization of various ion channels is fundamental to neuronal functions, including postsynaptic potential plasticity, dendritic integration, action potential initiation and propagation, and neurotransmitter release. Microtubule-based forward transport mediated by kinesin motors plays a key role in placing ion channel proteins to correct subcellular compartments. PDZ- and coiled-coil-domain proteins function as adaptor proteins linking ionotropic glutamate and GABA receptors to various kinesin motors, respectively. Recent studies show that several voltage-gated ion channel/transporter proteins directly bind to kinesins during forward transport. Three major regulatory mechanisms underlying intracellular transport of ion channels are also revealed. These studies contribute to understanding how mechanical forces are coupled to electrical signaling and illuminating pathogenic mechanisms in neurodegenerative diseases.

  19. The Origin of Coupled Chloride and Proton Transport in a Cl–/H+ Antiporter

    PubMed Central

    2016-01-01

    The ClC family of transmembrane proteins functions throughout nature to control the transport of Cl– ions across biological membranes. ClC-ec1 from Escherichia coli is an antiporter, coupling the transport of Cl– and H+ ions in opposite directions and driven by the concentration gradients of the ions. Despite keen interest in this protein, the molecular mechanism of the Cl–/H+ coupling has not been fully elucidated. Here, we have used multiscale simulation to help identify the essential mechanism of the Cl–/H+ coupling. We find that the highest barrier for proton transport (PT) from the intra- to extracellular solution is attributable to a chemical reaction, the deprotonation of glutamic acid 148 (E148). This barrier is significantly reduced by the binding of Cl– in the “central” site (Cl–cen), which displaces E148 and thereby facilitates its deprotonation. Conversely, in the absence of Cl–cen E148 favors the “down” conformation, which results in a much higher cumulative rotation and deprotonation barrier that effectively blocks PT to the extracellular solution. Thus, the rotation of E148 plays a critical role in defining the Cl–/H+ coupling. As a control, we have also simulated PT in the ClC-ec1 E148A mutant to further understand the role of this residue. Replacement with a non-protonatable residue greatly increases the free energy barrier for PT from E203 to the extracellular solution, explaining the experimental result that PT in E148A is blocked whether or not Cl–cen is present. The results presented here suggest both how a chemical reaction can control the rate of PT and also how it can provide a mechanism for a coupling of the two ion transport processes. PMID:27783900

  20. Electrical coupling between the human serotonin transporter and voltage-gated Ca(2+) channels.

    PubMed

    Ruchala, Iwona; Cabra, Vanessa; Solis, Ernesto; Glennon, Richard A; De Felice, Louis J; Eltit, Jose M

    2014-07-01

    Monoamine transporters have been implicated in dopamine or serotonin release in response to abused drugs such as methamphetamine or ecstasy (MDMA). In addition, monoamine transporters show substrate-induced inward currents that may modulate excitability and Ca(2+) mobilization, which could also contribute to neurotransmitter release. How monoamine transporters modulate Ca(2+) permeability is currently unknown. We investigate the functional interaction between the human serotonin transporter (hSERT) and voltage-gated Ca(2+) channels (CaV). We introduce an excitable expression system consisting of cultured muscle cells genetically engineered to express hSERT. Both 5HT and S(+)MDMA depolarize these cells and activate the excitation-contraction (EC)-coupling mechanism. However, hSERT substrates fail to activate EC-coupling in CaV1.1-null muscle cells, thus implicating Ca(2+) channels. CaV1.3 and CaV2.2 channels are natively expressed in neurons. When these channels are co-expressed with hSERT in HEK293T cells, only cells expressing the lower-threshold L-type CaV1.3 channel show Ca(2+) transients evoked by 5HT or S(+)MDMA. In addition, the electrical coupling between hSERT and CaV1.3 takes place at physiological 5HT concentrations. The electrical coupling between monoamine neurotransmitter transporters and Ca(2+) channels such as CaV1.3 is a novel mechanism by which endogenous substrates (neurotransmitters) or exogenous substrates (like ecstasy) could modulate Ca(2+)-driven signals in excitable cells.

  1. Electron transporting water-gated thin film transistors

    NASA Astrophysics Data System (ADS)

    Al Naim, Abdullah; Grell, Martin

    2012-10-01

    We demonstrate an electron-transporting water-gated thin film transistor, using thermally converted precursor-route zinc-oxide (ZnO) intrinsic semiconductors with hexamethyldisilazene (HMDS) hydrophobic surface modification. Water gated HMDS-ZnO thin film transistors (TFT) display low threshold and high electron mobility. ZnO films constitute an attractive alternative to organic semiconductors for TFT transducers in sensor applications for waterborne analytes. Despite the use of an electrolyte as gate medium, the gate geometry (shape of gate electrode and distance between gate electrode and TFT channel) is relevant for optimum performance of water-gated TFTs.

  2. Water transport in limestone by X-ray CAT scanning

    USGS Publications Warehouse

    Mossoti, Victor G.; Castanier, Louis M.

    1989-01-01

    The transport of water through the interior of Salem limestone test briquettes can be dynamically monitored by computer aided tomography (commonly called CAT scanning in medical diagnostics). Most significantly, unless evaporation from a particular face of the briquette is accelerated by forced air flow (wind simulation), the distribution of water in the interior of the briquette remains more or less uniform throughout the complete drying cycle. Moreover, simulated solar illumination of the test briquette does not result in the production of significant water gradients in the briquette under steady-state drying conditions.

  3. Electron-vibron coupling effects on electron transport via a single-molecule magnet

    NASA Astrophysics Data System (ADS)

    McCaskey, Alexander; Yamamoto, Yoh; Warnock, Michael; Burzurí, Enrique; van der Zant, Herre S. J.; Park, Kyungwha

    2015-03-01

    We investigate how the electron-vibron coupling influences electron transport via an anisotropic magnetic molecule, such as a single-molecule magnet (SMM) Fe4, by using a model Hamiltonian with parameter values obtained from density-functional theory (DFT). The magnetic anisotropy parameters, vibrational energies, and electron-vibron coupling strengths of the Fe4 are computed using DFT. A giant spin model is applied to the Fe4 with only two charge states, specifically a neutral state with a total spin S =5 and a singly charged state with S =9 /2 , which is consistent with our DFT result and experiments on Fe4 single-molecule transistors. In sequential electron tunneling, we find that the magnetic anisotropy gives rise to new features in the conductance peaks arising from vibrational excitations. In particular, the peak height shows a strong, unusual dependence on the direction as well as magnitude of applied B field. The magnetic anisotropy also introduces vibrational satellite peaks whose position and height are modified with the direction and magnitude of applied B field. Furthermore, when multiple vibrational modes with considerable electron-vibron coupling have energies close to one another, a low-bias current is suppressed, independently of gate voltage and applied B field, although that is not the case for a single mode with a similar electron-vibron coupling. In the former case, the conductance peaks reveal a stronger B -field dependence than in the latter case. The new features appear because the magnetic anisotropy barrier is of the same order of magnitude as the energies of vibrational modes with significant electron-vibron coupling. Our findings clearly show the interesting interplay between magnetic anisotropy and electron-vibron coupling in electron transport via the Fe4. Similar behavior can be observed in transport via other anisotropic magnetic molecules.

  4. Simulation of atmospheric carbon dioxide variability with a global coupled Eulerian-Lagrangian transport model

    NASA Astrophysics Data System (ADS)

    Koyama, Y.; Maksyutov, S.; Mukai, H.; Thoning, K.; Tans, P.

    2010-11-01

    This study assesses the advantages of using a coupled atmospheric-tracer transport model, comprising a global Eulerian model and a global Lagrangian particle dispersion model, for reproducibility of tracer gas variation affected by near field around observation sites. The ability to resolve variability in atmospheric composition on an hourly time scale and a spatial scale of several kilometers would be beneficial for analyzing data from continuous ground-based monitoring and upcoming space-based observations. The coupled model yields increased horizontal resolution of transport and fluxes, and has been tested in regional-scale studies of atmospheric chemistry. By applying the Lagrangian component to the global domain, we extend this approach to the global scale, thereby enabling global inverse modeling and data assimilation. To validate the coupled model, we compare model-simulated CO2 concentrations with continuous observations at two sites operated by the National Oceanic and Atmospheric Administration, USA and one site operated by National Institute for Environmental Studies, Japan. As the purpose of this study is limited to demonstration of the new modeling approach, we select a small subset of 3 sites to highlight use of the model in various geographical areas. To explore the capability of the coupled model in simulating synoptic-scale meteorological phenomena, we calculate the correlation coefficients and variance ratios between deseasonalized model-simulated and observed CO2 concentrations. Compared with the Eulerian model alone, the coupled model yields improved agreement between modeled and observed CO2 concentrations.

  5. Renewable Water: Direct Contact Membrane Distillation Coupled With Solar Ponds

    NASA Astrophysics Data System (ADS)

    Suarez, F. I.; Tyler, S. W.; Childress, A. E.

    2010-12-01

    The exponential population growth and the accelerated increase in the standard of living have increased significantly the global consumption of two precious resources: water and energy. These resources are intrinsically linked and are required to allow a high quality of human life. With sufficient energy, water may be harvested from aquifers, treated for potable reuse, or desalinated from brackish and seawater supplies. Even though the costs of desalination have declined significantly, traditional desalination systems still require large quantities of energy, typically from fossil fuels that will not allow these systems to produce water in a sustainable way. Recent advances in direct contact membrane distillation can take advantage of low-quality or renewable heat to desalinate brackish water, seawater or wastewater. Direct contact membrane distillation operates at low pressures and can use small temperature differences between the feed and permeate water to achieve a significant freshwater production. Therefore, a much broader selection of energy sources can be considered to drive thermal desalination. A promising method for providing renewable source of heat for direct contact membrane distillation is a solar pond, which is an artificially stratified water body that captures solar radiation and stores it as thermal energy at the bottom of the pond. In this work, a direct contact membrane distillation/solar pond coupled system is modeled and tested using a laboratory-scale system. Freshwater production rates on the order of 2 L day-1 per m2 of solar pond (1 L hr-1 per m2 of membrane area) can easily be achieved with minimal operating costs and under low pressures. While these rates are modest, they are six times larger than those produced by other solar pond-powered desalination systems - and they are likely to be increased if heat losses in the laboratory-scale system are reduced. Even more, this system operates at much lower costs than traditional desalination

  6. Channel morphology effect on water transport through graphene bilayers

    NASA Astrophysics Data System (ADS)

    Liu, Bo; Wu, Renbing; Law, Adrian Wing-Keung; Feng, Xi-Qiao; Bai, Lichun; Zhou, Kun

    2016-12-01

    The application of few-layered graphene-derived functional thin films for molecular filtration and separation has recently attracted intensive interests. In practice, the morphology of the nanochannel formed by the graphene (GE) layers is not ideally flat and can be affected by various factors. This work investigates the effect of channel morphology on the water transport behaviors through the GE bilayers via molecular dynamics simulations. The simulation results show that the water flow velocity and transport resistance highly depend on the curvature of the graphene layers, particularly when they are curved in non-synergic patterns. To understand the channel morphology effect, the distributions of water density, dipole moment orientation and hydrogen bonds inside the channel are investigated, and the potential energy surface with different distances to the basal GE layer is analyzed. It shows that the channel morphology significantly changes the distribution of the water molecules and their orientation and interaction inside the channel. The energy barrier for water molecules transport through the channel also significantly depends on the channel morphology.

  7. Interfacial Water-Transport Effects in Proton-Exchange Membranes

    SciTech Connect

    Kienitz, Brian; Yamada, Haruhiko; Nonoyama, Nobuaki; Weber, Adam

    2009-11-19

    It is well known that the proton-exchange membrane is perhaps the most critical component of a polymer-electrolyte fuel cell. Typical membranes, such as Nafion(R), require hydration to conduct efficiently and are instrumental in cell water management. Recently, evidence has been shown that these membranes might have different interfacial morphology and transport properties than in the bulk. In this paper, experimental data combined with theoretical simulations will be presented that explore the existence and impact of interfacial resistance on water transport for Nafion(R) 21x membranes. A mass-transfer coefficient for the interfacial resistance is calculated from experimental data using different permeation cells. This coefficient is shown to depend exponentially on relative humidity or water activity. The interfacial resistance does not seem to exist for liquid/membrane or membrane/membrane interfaces. The effect of the interfacial resistance is to flatten the water-content profiles within the membrane during operation. Under typical operating conditions, the resistance is on par with the water-transport resistance of the bulk membrane. Thus, the interfacial resistance can be dominant especially in thin, dry membranes and can affect overall fuel-cell performance.

  8. Channel morphology effect on water transport through graphene bilayers

    PubMed Central

    Liu, Bo; Wu, Renbing; Law, Adrian Wing-Keung; Feng, Xi-Qiao; Bai, Lichun; Zhou, Kun

    2016-01-01

    The application of few-layered graphene-derived functional thin films for molecular filtration and separation has recently attracted intensive interests. In practice, the morphology of the nanochannel formed by the graphene (GE) layers is not ideally flat and can be affected by various factors. This work investigates the effect of channel morphology on the water transport behaviors through the GE bilayers via molecular dynamics simulations. The simulation results show that the water flow velocity and transport resistance highly depend on the curvature of the graphene layers, particularly when they are curved in non-synergic patterns. To understand the channel morphology effect, the distributions of water density, dipole moment orientation and hydrogen bonds inside the channel are investigated, and the potential energy surface with different distances to the basal GE layer is analyzed. It shows that the channel morphology significantly changes the distribution of the water molecules and their orientation and interaction inside the channel. The energy barrier for water molecules transport through the channel also significantly depends on the channel morphology. PMID:27929106

  9. Evidence for a Revised Ion/Substrate Coupling Stoichiometry of GABA Transporters.

    PubMed

    Willford, Samantha L; Anderson, Cynthia M; Spencer, Shelly R; Eskandari, Sepehr

    2015-08-01

    Plasma membrane γ-aminobutyric acid (GABA) transporters (GATs) are electrogenic transport proteins that couple the cotranslocation of Na(+), Cl(-), and GABA across the plasma membrane of neurons and glia. A fundamental property of the transporter that determines its ability to concentrate GABA in cells and, hence, regulate synaptic and extra-synaptic GABA concentrations, is the ion/substrate coupling stoichiometry. Here, we scrutinized the currently accepted 2 Na(+):1 Cl(-):1 GABA stoichiometry because it is inconsistent with the measured net charge translocated per co-substrate (Na(+), Cl(-), and GABA). We expressed GAT1 and GAT3 in Xenopus laevis oocytes and utilized thermodynamic and uptake under voltage-clamp measurements to determine the stoichiometry of the GABA transporters. Voltage-clamped GAT1-expressing oocytes were internally loaded with GABA, and the reversal potential (V rev) of the transporter-mediated current was recorded at different external concentrations of Na(+), Cl(-), or GABA. The shifts in V rev for a tenfold change in the external Na(+), Cl(-), and GABA concentration were 84 ± 4, 30 ± 1, and 29 ± 1 mV, respectively. To determine the net charge translocated per Na(+), Cl(-), and GABA, we measured substrate fluxes under voltage clamp in cells expressing GAT1 or GAT3. Charge flux to substrate flux ratios were 0.7 ± 0.1 charge/Na(+), 2.0 ± 0.2 charges/Cl(-), and 2.1 ± 0.1 charges/GABA. Altogether, our results strongly suggest a 3 Na(+):1 Cl(-):1 GABA coupling stoichiometry for the GABA transporters. The revised stoichiometry has important implications for understanding the contribution of GATs to GABAergic signaling in health and disease.

  10. GoAmazon – Scaling Amazon Carbon Water Couplings

    SciTech Connect

    Dubey, Manvendra Krishna

    2016-09-06

    Forests soak up 25% of the carbon dioxide (CO2) emitted by anthropogenic fossil energy use (10 Gt C y-1) moderating its atmospheric accumulation. How this terrestrial CO2 uptake will evolve with climate change in the 21st century is largely unknown. Rainforests are the most active ecosystems with the Amazon basin storing 120 Gt C as biomass and exchanging 18 Gt C y-1 of CO2 via photosynthesis and respiration and fixing carbon at 2-3 kg C m-2 y-1. Furthermore, the intense hydrologic and carbon cycles are tightly coupled in the Amazon where about half of the water is recycled by evapotranspiration and the other half imported from the ocean by Northeasterly trade winds. Climate models predict a drying in the Amazon with reduced carbon uptake while observationally guided assessments indicate sustained uptake. We will resolve this huge discrepancy in the size and sign of the future Amazon carbon cycle by performing the first simultaneous regional scale high frequency measurements of atmospheric CO2, H2O, HOD, CH4, N2O and CO at the T3 site in Manacupuru, Brazil as part of DOE's GoAmazon project. Our data will be used to inform and develop DOE's CLM on the tropical carbon-water couplings at the appropriate grid scale (10-50km). Our measurements will also validate the CO2 data from Japan's GOSAT and NASA's imminent OCO-2 satellite (launch date July 2014).

  11. Pore Water PAH Transport in Amended Sediment Caps

    NASA Astrophysics Data System (ADS)

    Gidley, P. T.; Kwon, S.; Ghosh, U.

    2009-05-01

    Capping is a common remediation strategy for contaminated sediments that creates a physical barrier between contaminated sediments and the water column. Diffusive flux of contaminants through a sediment cap is small. However, under certain hydrodynamic conditions such as groundwater potential and tidal pumping, groundwater advection can accelerate contaminant transport. Hydrophobic organic contaminants such as polycyclic aromatic hydrocarbons (PAHs) could be transported through the cap under advective conditions. To better understand PAH migration under these conditions, physical models of sediment caps were evaluated in the laboratory through direct measurement of pore water using solid phase micro-extraction with gas chromatography and mass spectrometry. Contaminated sediment and capping material was obtained from an existing Superfund site that was capped at Eagle Harbor, Washington. A PAH dissolution model linked to an advection-dispersion equation with retardation using published organic carbon-water partitioning coefficients (Koc) was compared to measured PAHs in the sediment and cap porewater of the physical model.

  12. Combined effect of boron and salinity on water transport

    PubMed Central

    del Carmen Martínez-Ballesta, Maria; Bastías, Elizabeth

    2008-01-01

    Boron toxicity is an important disorder that can limit plant growth on soils of arid and semi arid environments throughout the world. Although there are several reports about the combined effect of salinity and boron toxicity on plant growth and yield, there is no consensus about the experimental results. A general antagonistic relationship between boron excess and salinity has been observed, however the mechanisms for this interaction is not clear and several options can be discussed. In addition, there is no information, concerning the interaction between boron toxicity and salinity with respect to water transport and aquaporins function in the plants. We recently documented in the highly boron- and salt-tolerant the ecotype of Zea mays L. amylacea from Lluta valley in Northern Chile that under salt stress, the activity of specific membrane components can be influenced directly by boron, regulating the water uptake and water transport through the functions of certain aquaporin isoforms. PMID:19704850

  13. Nonequilibrium steady state transport of collective-qubit system in strong coupling regime

    NASA Astrophysics Data System (ADS)

    Wang, Chen; Sun, Ke-Wei

    2015-11-01

    We investigate the steady state photon transport in a nonequilibrium collective-qubit model. By adopting the noninteracting blip approximation, which is applicable in the strong photon-qubit coupling regime, we describe the essential contribution of indirect qubit-qubit interaction to the population distribution, mediated by the photonic baths. The linear relations of both the optimal flux and noise power with the qubits system size are obtained. Moreover, the inversed power-law style for the finite-size scaling of the optimal photon-qubit coupling strength is exhibited, which is proposed to be universal.

  14. Energy Conservation Tests of a Coupled Kinetic-kinetic Plasma-neutral Transport Code

    SciTech Connect

    Stotler, D. P.; Chang, C. S.; Ku, S. H.; Lang, J.; Park, G.

    2012-08-29

    A Monte Carlo neutral transport routine, based on DEGAS2, has been coupled to the guiding center ion-electron-neutral neoclassical PIC code XGC0 to provide a realistic treatment of neutral atoms and molecules in the tokamak edge plasma. The DEGAS2 routine allows detailed atomic physics and plasma-material interaction processes to be incorporated into these simulations. The spatial pro le of the neutral particle source used in the DEGAS2 routine is determined from the uxes of XGC0 ions to the material surfaces. The kinetic-kinetic plasma-neutral transport capability is demonstrated with example pedestal fueling simulations.

  15. Differentiation of transport for particulate and dissolved water chemistry load indices in rainfall runoff from urban source area watersheds

    NASA Astrophysics Data System (ADS)

    Sheng, Y.; Ying, G.; Sansalone, J.

    2008-10-01

    SummaryControl of coupled hydrology and pollutant transport from urban areas generally specify a runoff (or rainfall) depth for treatment. Incarnations of such coupled transport and control include the "first flush" and recent, albeit similar, "water quality volume" (WQV) concepts. For a century the first flush, a mass limited behavior, has been held as the singular transport phenomena for urban areas. In contrast, this study hypothesizes that load transport can have two classifications; mass or flow limited for pollutant phases (dissolved and particulate). Recognition, quantification, and differentiation of two limiting behaviors and phases, is less common. Differentiation is defined physically (exponential or linear); and examined statistically (logistical regression, discriminant analysis); deriving load transport rules using only calibrated hydrologic parameters. The study is supported by 28 Baton Rouge and 14 Cincinnati events; both urban, paved source areas. Once calibrated with pollutant data, statistical approaches for such rules provide promise for transport differentiation based on more economical hydrologic data. Results demonstrate load transport from source areas can be differentiated into mass or flow limited behavior. Results also indicate that within a given event, pollutant phases exhibit differing transport. With hydrologic and chemical pollutant phase transport data, calibrated event-based differentiation rules can be combined with continuous simulations in tools such as SWMM. Such a combination allows time series differentiation of load transport behavior and unit operation volumetric requirements for urban source areas.

  16. A turbulent transport network model in MULTIFLUX coupled with TOUGH2

    SciTech Connect

    Danko, G.; Bahrami, D.; Birkholzer, J.T.

    2011-02-15

    A new numerical method is described for the fully iterated, conjugate solution of two discrete submodels, involving (a) a transport network model for heat, moisture, and airflows in a high-permeability, air-filled cavity; and (b) a variably saturated fractured porous medium. The transport network submodel is an integrated-parameter, computational fluid dynamics solver, describing the thermal-hydrologic transport processes in the flow channel system of the cavity with laminar or turbulent flow and convective heat and mass transport, using MULTIFLUX. The porous medium submodel, using TOUGH2, is a solver for the heat and mass transport in the fractured rock mass. The new model solution extends the application fields of TOUGH2 by integrating it with turbulent flow and transport in a discrete flow network system. We present demonstrational results for a nuclear waste repository application at Yucca Mountain with the most realistic model assumptions and input parameters including the geometrical layout of the nuclear spent fuel and waste with variable heat load for the individual containers. The MULTIFLUX and TOUGH2 model elements are fully iterated, applying a programmed reprocessing of the Numerical Transport Code Functionalization model-element in an automated Outside Balance Iteration loop. The natural, convective airflow field and the heat and mass transport in a representative emplacement drift during postclosure are explicitly solved in the new model. The results demonstrate that the direction and magnitude of the air circulation patterns and all transport modes are strongly affected by the heat and moisture transport processes in the surrounding rock, justifying the need for a coupled, fully iterated model solution such as the one presented in the paper.

  17. Osmotic water transport with glucose in GLUT2 and SGLT.

    PubMed

    Naftalin, Richard J

    2008-05-15

    Carrier-mediated water cotransport is currently a favored explanation for water movement against an osmotic gradient. The vestibule within the central pore of Na(+)-dependent cotransporters or GLUT2 provides the necessary precondition for an osmotic mechanism, explaining this phenomenon without carriers. Simulating equilibrative glucose inflow via the narrow external orifice of GLUT2 raises vestibular tonicity relative to the external solution. Vestibular hypertonicity causes osmotic water inflow, which raises vestibular hydrostatic pressure and forces water, salt, and glucose into the outer cytosolic layer via its wide endofacial exit. Glucose uptake via GLUT2 also raises oocyte tonicity. Glucose exit from preloaded cells depletes the vestibule of glucose, making it hypotonic and thereby inducing water efflux. Inhibiting glucose exit with phloretin reestablishes vestibular hypertonicity, as it reequilibrates with the cytosolic glucose and net water inflow recommences. Simulated Na(+)-glucose cotransport demonstrates that active glucose accumulation within the vestibule generates water flows simultaneously with the onset of glucose flow and before any flow external to the transporter caused by hypertonicity in the outer cytosolic layers. The molar ratio of water/glucose flow is seen now to relate to the ratio of hydraulic and glucose permeability rather than to water storage capacity of putative water carriers.

  18. Quantized Water Transport: Ideal Desalination through Graphyne-4 Membrane

    PubMed Central

    Zhu, Chongqin; Li, Hui; Zeng, Xiao Cheng; Wang, E. G.; Meng, Sheng

    2013-01-01

    Graphyne sheet exhibits promising potential for nanoscale desalination to achieve both high water permeability and salt rejection rate. Extensive molecular dynamics simulations on pore-size effects suggest that γ-graphyne-4, with 4 acetylene bonds between two adjacent phenyl rings, has the best performance with 100% salt rejection and an unprecedented water permeability, to our knowledge, of ~13 L/cm2/day/MPa, 3 orders of magnitude higher than prevailing commercial membranes based on reverse osmosis, and ~10 times higher than the state-of-the-art nanoporous graphene. Strikingly, water permeability across graphyne exhibits unexpected nonlinear dependence on the pore size. This counter-intuitive behavior is attributed to the quantized nature of water flow at the nanoscale, which has wide implications in controlling nanoscale water transport and designing highly effective membranes. PMID:24196437

  19. Linear coupling of alignment with transport in a polymer electrolyte membrane

    NASA Astrophysics Data System (ADS)

    Li, Jing; Park, Jong Keun; Moore, Robert B.; Madsen, Louis A.

    2011-07-01

    Polymer electrolyte membranes (PEMs) selectively transport ions and polar molecules in a robust yet formable solid support. Tailored PEMs allow for devices such as solid-state batteries,‘artificial muscle’ actuators and reverse-osmosis water purifiers. Understanding how PEM structure and morphology relate to mobile species transport presents a challenge for designing next-generation materials. Material length scales from subnanometre to 1 μm (refs , ) influence bulk properties such as ion conductivity and water transport. Here we employ multi-axis pulsed-field-gradient NMR (ref. ) to measure diffusion anisotropy, and 2H NMR spectroscopy and synchrotron small-angle X-ray scattering to probe orientational order as a function of water content and of membrane stretching. Strikingly, transport anisotropy linearly depends on the degree of alignment, signifying that membrane stretching affects neither the nanometre-scale channel dimensions nor the defect structure,causing only domain reorientation. The observed reorientation of anisotropic domains without perturbation of the inherent nematic-like domain character parallels the behaviour of nematic elastomers, promises tailored membrane conduction and potentially allows understanding of tunable shape-memory effects in PEM materials. This quantitative understanding will drive PEM design efforts towardsoptimal membrane transport, thus enabling more efficient polymeric batteries, fuel cells, mechanical actuators and water purification.

  20. Gas production and transport during bench-scale electrical resistance heating of water and trichloroethene.

    PubMed

    Hegele, P R; Mumford, K G

    2014-09-01

    The effective remediation of chlorinated solvent source zones using in situ thermal treatment requires successful capture of gas that is produced. Replicate electrical resistance heating experiments were performed in a thin bench-scale apparatus, where water was boiled and pooled dense non-aqueous phase liquid (DNAPL) trichloroethene (TCE) and water were co-boiled in unconsolidated silica sand. Quantitative light transmission visualization was used to assess gas production and transport mechanisms. In the water boiling experiments, nucleation, growth and coalescence of the gas phase into connected channels were observed at critical gas saturations of Sgc=0.233±0.017, which allowed for continuous gas transport out of the sand. In experiments containing a colder region above a target heated zone, condensation prevented the formation of steam channels and discrete gas clusters that mobilized into colder regions were trapped soon after discontinuous transport began. In the TCE-water experiments, co-boiling at immiscible fluid interfaces resulted in discontinuous gas transport above the DNAPL pool. Redistribution of DNAPL was also observed above the pool and at the edge of the vapor front that propagated upwards through colder regions. These results suggest that the subsurface should be heated to water boiling temperatures to facilitate gas transport from specific locations of DNAPL to extraction points and reduce the potential for DNAPL redistribution. Decreases in electric current were observed at the onset of gas phase production, which suggests that coupled electrical current and temperature measurements may provide a reliable metric to assess gas phase development.

  1. Gas production and transport during bench-scale electrical resistance heating of water and trichloroethene

    NASA Astrophysics Data System (ADS)

    Hegele, P. R.; Mumford, K. G.

    2014-09-01

    The effective remediation of chlorinated solvent source zones using in situ thermal treatment requires successful capture of gas that is produced. Replicate electrical resistance heating experiments were performed in a thin bench-scale apparatus, where water was boiled and pooled dense non-aqueous phase liquid (DNAPL) trichloroethene (TCE) and water were co-boiled in unconsolidated silica sand. Quantitative light transmission visualization was used to assess gas production and transport mechanisms. In the water boiling experiments, nucleation, growth and coalescence of the gas phase into connected channels were observed at critical gas saturations of Sgc = 0.233 ± 0.017, which allowed for continuous gas transport out of the sand. In experiments containing a colder region above a target heated zone, condensation prevented the formation of steam channels and discrete gas clusters that mobilized into colder regions were trapped soon after discontinuous transport began. In the TCE-water experiments, co-boiling at immiscible fluid interfaces resulted in discontinuous gas transport above the DNAPL pool. Redistribution of DNAPL was also observed above the pool and at the edge of the vapor front that propagated upwards through colder regions. These results suggest that the subsurface should be heated to water boiling temperatures to facilitate gas transport from specific locations of DNAPL to extraction points and reduce the potential for DNAPL redistribution. Decreases in electric current were observed at the onset of gas phase production, which suggests that coupled electrical current and temperature measurements may provide a reliable metric to assess gas phase development.

  2. Quantifying impacts of coupled chemical and physical heterogeneity on water quality evolution during Aquifer Storage and Recovery

    NASA Astrophysics Data System (ADS)

    Deng, H.; Descourvieres, C.; Seibert, S.; Harris, B.; Atteia, O.; Siade, A. J.; Prommer, H.

    2014-12-01

    Aquifer storage and recovery (ASR) is an important water management option in water-scarce regions. During wet periods surplus water is injected into suitable aquifers for storage and later recovery. ASR sites are, however, also ideal natural laboratories that provide opportunities for studying coupled physical and geochemical processes and water quality evolution at field-scale under well-controlled hydrological conditions. In this study, we use reactive transport modelling to assess the impacts of physical and chemical heterogeneities on the water quality evolution during the injection of oxic surface water into the anoxic, pyrite-bearing Leederville aquifer in Perth, Western Australia. Physical heterogeneity was identified from geophysical well logs and time lapse temperature logs. Those data were used to define the spatial, depth-varying alternation of three lithofacies (sandstone, siltstone and clay). Chemical heterogeneity was incorporated through distinct chemical zones, based on data derived from a comprehensive pre-trial geochemical characterization and from dedicated laboratory respirometer experiments. Calibration of flow and conservative transport parameters was constrained by the spatially varying measured chloride breakthrough behavior. Subsequent reactive transport modeling discerned the key geochemical processes that affected the water quality evolution during ASR. Clearly identified processes included oxidation of pyrite, mineralization of sedimentary organic carbon, ion exchange, dissolution of calcite and precipitation of ferrihydrite and siderite. We use the calibrated model to analyze the individual and the combined effects of the physical and chemical heterogeneities on the chemical composition of the recovered water during ASR.

  3. Coupling lattice Boltzmann and continuum equations for flow and reactive transport in porous media.

    SciTech Connect

    Coon, Ethan; Porter, Mark L.; Kang, Qinjun; Moulton, John D.; Lichtner, Peter C.

    2012-06-18

    In spatially and temporally localized instances, capturing sub-reservoir scale information is necessary. Capturing sub-reservoir scale information everywhere is neither necessary, nor computationally possible. The lattice Boltzmann Method for solving pore-scale systems. At the pore-scale, LBM provides an extremely scalable, efficient way of solving Navier-Stokes equations on complex geometries. Coupling pore-scale and continuum scale systems via domain decomposition. By leveraging the interpolations implied by pore-scale and continuum scale discretizations, overlapping Schwartz domain decomposition is used to ensure continuity of pressure and flux. This approach is demonstrated on a fractured medium, in which Navier-Stokes equations are solved within the fracture while Darcy's equation is solved away from the fracture Coupling reactive transport to pore-scale flow simulators allows hybrid approaches to be extended to solve multi-scale reactive transport.

  4. Phase controlled swapping effect in electron transport through asymmetric parallel coupled quantum dot system

    NASA Astrophysics Data System (ADS)

    Brogi, Bharat Bhushan; Chand, Shyam; Ahluwalia, P. K.

    2015-03-01

    We present a theoretical study of the role of asymmetry and magnetic flux on electronic transport through various configurations of coupled quantum dot system, by using Non-Equilibrium Green Function formalism. Transport properties (Transmission Probability, Current-Voltage Characteristics and Differential Conductance) of the different configurations of coupled quantum dot system have been studied by self-consistent approach, in the presence of on-dot Coulomb interaction. Fano effect, appearing in Transmission probability, has been explored during transition of the system from series to symmetric parallel configuration and in response to the variation in magnetic flux threading the system. The results show Fano peaks for asymmetric and symmetric parallel configurations. By adjusting the magnetic flux, swapping effect in Fano peaks appears due to the exchange of states, which sustains despite strong Coulomb blockade effect. The transmission probability spectrum shows mirror symmetry whenever the sum of two values of magnetic flux threading the system is 2 π.

  5. Nanoscale transport of electrons and ions in water

    NASA Astrophysics Data System (ADS)

    Boynton, Paul Christopher

    The following dissertation discusses the theoretical study of water on the nanoscale, often involved with essential biological molecules such as DNA and proteins. First I introduce the study of water on the nanoscale and how experimentalists approach confinement with nanopores and nanogaps. Then I discuss the theoretical method we choose for understanding this important biological medium on the molecular level, namely classical molecular dynamics. This leads into transport mechanisms that utilize water on the nanoscale, in our case electronic and ionic transport. On the scale of mere nanometers or less electronic transport in water enters the tunneling regime, requiring the use of a quantum treatment. In addition, I discuss the importance of water in ionic transport and its known effects on biological phenomena such as ion selectivity. Water also has great influence over DNA and proteins, which are both introduced in the context of nanopore sequencing. Several techniques for nanopore sequencing are examined and the importance of protein sequencing is explained. In Chapter 2, we study the effect of volumetric constraints on the structure and electronic transport properties of distilled water in a nanopore with embedded electrodes. Combining classical molecular dynamics simulations with quantum scattering theory, we show that the structural motifs water assumes inside the pore can be probed directly by tunneling. In Chapter 3, we propose an improvement to the original sequencing by tunneling method, in which N pairs of electrodes are built in series along a synthetic nanochannel. Each current time series for each nucleobase is cross-correlated together, reducing noise in the signals. We show using random sampling of data from classical molecular dynamics, that indeed the sequencing error is significantly reduced as the number of pairs of electrodes, N, increases. In Chapter 4, we propose a new technique for de novo protein sequencing that involves translocating a

  6. Simulation of variability in atmospheric carbon dioxide using a global coupled Eulerian - Lagrangian transport model

    NASA Astrophysics Data System (ADS)

    Koyama, Y.; Maksyutov, S.; Mukai, H.; Thoning, K.; Tans, P.

    2011-04-01

    This study assesses the advantages of using a coupled atmospheric-tracer transport model, comprising a global Eulerian model and a global Lagrangian particle dispersion model, to improve the reproducibility of tracer-gas variations affected by the near-field surface emissions and transport around observation sites. The ability to resolve variability in atmospheric composition on an hourly time-scale and a spatial scale of several kilometers would be beneficial for analyzing data from continuous ground-based monitoring and from upcoming space-based observations. The coupled model yields an increase in the horizontal resolution of transport and fluxes, and has been tested in regional-scale studies of atmospheric chemistry. By applying the Lagrangian component to the global domain, we extend this approach to the global scale, thereby enabling computationally efficient global inverse modeling and data assimilation. To validate the coupled model, we compare model-simulated CO2 concentrations with continuous observations at three sites: two operated by the National Oceanic and Atmospheric Administration, USA, and one operated by the National Institute for Environmental Studies, Japan. As the goal of this study is limited to introducing the new modeling approach, we selected a transport simulation at these three sites to demonstrate how the model may perform at various geographical areas. The coupled model provides improved agreement between modeled and observed CO2 concentrations in comparison to the Eulerian model. In an area where variability in CO2 concentration is dominated by a fossil fuel signal, the correlation coefficient between modeled and observed concentrations increases by between 0.05 to 0.1 from the original values of 0.5-0.6 achieved with the Eulerian model.

  7. Benchmark solutions for the galactic heavy-ion transport equations with energy and spatial coupling

    NASA Technical Reports Server (NTRS)

    Ganapol, Barry D.; Townsend, Lawrence W.; Lamkin, Stanley L.; Wilson, John W.

    1991-01-01

    Nontrivial benchmark solutions are developed for the galactic heavy ion transport equations in the straightahead approximation with energy and spatial coupling. Analytical representations of the ion fluxes are obtained for a variety of sources with the assumption that the nuclear interaction parameters are energy independent. The method utilizes an analytical LaPlace transform inversion to yield a closed form representation that is computationally efficient. The flux profiles are then used to predict ion dose profiles, which are important for shield design studies.

  8. Long-Distance Water Transport in Aquatic Plants.

    PubMed Central

    Pedersen, O.

    1993-01-01

    Acropetal mass flow of water is demonstrated in two submerged angiosperms, Lobelia dortmanna L. and Sparganium emersum Rehman by means of guttation measurements. Transpiration is absent in truly submerged plants, but the presence of guttation verifies that long-distance water transport takes place. Use of tritiated water showed that the water current arises from the roots, and the main flow of water is channeled to the youngest leaves. This was confirmed by measurement of guttation, which showed the highest rates in young leaves. Guttation rates were 10-fold larger in the youngest leaf of S. emersum (2.1 [mu]L leaf-1 h-1) compared with the youngest leaf of L. dortmanna (0.2 [mu]L leaf-1 h-1). This is probably due to profound species differences in the hydraulic conductance (2.7 x 10-17 m4 Pa-1 s-1 for S. emersum and 1.4 x 10-19 m4 Pa-1 s-1 for L. dortmanna). Estimates derived from the modified Hagen-Poiseuille equation showed that the maximum flow velocity in xylem vessels was 23 to 84 cm h-1, and the required root pressure to drive the flow was small compared to that commonly found in terrestrial plants. In S. emersum long-distance transport of water was shown to be dependent on energy conversion in the roots. The leaves ceased to guttate when the roots were cooled to 4[deg]C from the acclimatization level at 15[deg]C, whereas the guttation was stimulated when the temperature was increased to 25[deg]C. Also, the guttation rate decreased significantly when vanadate was added to the root medium. The observed water transport is probably a general phenomenon in submerged plants, where it can act as a translocation system for nutrients taken up from the rich root medium and thereby assure maximum growth. PMID:12232030

  9. Coupling between geochemical reactions and multicomponent gas and solute transport in unsaturated media: A reactive transport modeling study

    NASA Astrophysics Data System (ADS)

    Molins, S.; Mayer, K. U.

    2007-05-01

    The two-way coupling that exists between biogeochemical reactions and vadose zone transport processes, in particular gas phase transport, determines the composition of soil gas. To explore these feedback processes quantitatively, multicomponent gas diffusion and advection are implemented into an existing reactive transport model that includes a full suite of geochemical reactions. Multicomponent gas diffusion is described on the basis of the dusty gas model, which accounts for all relevant gas diffusion mechanisms. The simulation of gas attenuation in partially saturated landfill soil covers, methane production, and oxidation in aquifers contaminated by organic compounds (e.g., an oil spill site) and pyrite oxidation in mine tailings demonstrate that both diffusive and advective gas transport can be affected by geochemical reactions. Methane oxidation in landfill covers reduces the existing upward pressure gradient, thereby decreasing the contribution of advective methane emissions to the atmosphere and enhancing the net flux of atmospheric oxygen into the soil column. At an oil spill site, methane oxidation causes a reversal in the direction of gas advection, which results in advective transport toward the zone of oxidation both from the ground surface and the deeper zone of methane production. Both diffusion and advection contribute to supply atmospheric oxygen into the subsurface, and methane emissions to the atmosphere are averted. During pyrite oxidation in mine tailings, pressure reduction in the reaction zone drives advective gas flow into the sediment column, enhancing the oxidation process. In carbonate-rich mine tailings, calcite dissolution releases carbon dioxide, which partly offsets the pressure reduction caused by O2 consumption.

  10. Coupling between geochemical reactions and multicomponent gas and solute transport in unsaturated media: A reactive transport modeling study

    USGS Publications Warehouse

    Molins, S.; Mayer, K.U.

    2007-01-01

    The two-way coupling that exists between biogeochemical reactions and vadose zone transport processes, in particular gas phase transport, determines the composition of soil gas. To explore these feedback processes quantitatively, multicomponent gas diffusion and advection are implemented into an existing reactive transport model that includes a full suite of geochemical reactions. Multicomponent gas diffusion is described on the basis of the dusty gas model, which accounts for all relevant gas diffusion mechanisms. The simulation of gas attenuation in partially saturated landfill soil covers, methane production, and oxidation in aquifers contaminated by organic compounds (e.g., an oil spill site) and pyrite oxidation in mine tailings demonstrate that both diffusive and advective gas transport can be affected by geochemical reactions. Methane oxidation in landfill covers reduces the existing upward pressure gradient, thereby decreasing the contribution of advective methane emissions to the atmosphere and enhancing the net flux of atmospheric oxygen into the soil column. At an oil spill site, methane oxidation causes a reversal in the direction of gas advection, which results in advective transport toward the zone of oxidation both from the ground surface and the deeper zone of methane production. Both diffusion and advection contribute to supply atmospheric oxygen into the subsurface, and methane emissions to the atmosphere are averted. During pyrite oxidation in mine tailings, pressure reduction in the reaction zone drives advective gas flow into the sediment column, enhancing the oxidation process. In carbonate-rich mine tailings, calcite dissolution releases carbon dioxide, which partly offsets the pressure reduction caused by O2 consumption.

  11. Production and pipeline transport of oil-water dispersions

    SciTech Connect

    Carniani, E.; Celsi, A.; Ercolani, D.

    1997-07-01

    Oil-water dispersions are becoming increasingly important for their potential application in the economical exploitation of heavy-oil fields and as novel fuels to be utilized for gasification in industrial power plants and in small heating systems. Snamprogetti in co-operation with Agip and Eniricerche is involved in a research project, partially supported by the Holding Company ENI and Europen Union (Thermie project), for the developing of a new integrated process to produce heavy crude oil from the marginal fields located in the Adriatic Sea as oil-water dispersions. The process scheme provides the multiphase pipeline transportation of the oil in reservoir water dispersion (primary dispersion) from the platform to the onshore processing Oil Centre for oil production and for the preparation of a very stable dispersion of oil in fresh water (secondary dispersion) to be utilized for direct burning. To obtain the necessary information for the design of the production, transportation and processing systems Snamprogetti has equipped a pilot plant to perform dispersion preparations and characterizations, single phase and multiphase transportation tests. The present work provides experimental data relevant to pumping tests of primary and secondary dispersions showing a stable flow configuration for the secondary and a tendency to stratification for the primary in certain flow conditions. During multiphase pumping tests of primary dispersions a markedly non-newtonian behavior has been observed when strong segregation phenomena occur. A comparison with results obtained by one-phase and multiphase flow programs is also presented.

  12. Water transport and cell survival in cryobiological procedures.

    PubMed

    Farrant, J

    1977-03-29

    Living cells may be cooled to 77 K (liquid nitrogen) either to destroy them selectively or to store them for long periods. Water transport across the cell membranes during freezing and thawing is a primary factor determining whether the cells survive. These water movements are controlled by phase changes both intracellular and extracellular and by other factors such as the nature of any cryoprotective agent present, and the rates of cooling and thawing. The relation between cooling procedure, water transport and cell survival is discussed. In particular, the crucial rôle of dilution shock is emphasized: this is the damage to cells induced during the dilution that occurs both as ice melts during rewarming and when any cryoprotective additives are removed after thawing. Apart from the usefulness of understanding these processes for maximizing preservation or controlling selective destruction, the diverse responses of cells to different combinations of water transport and temperature changes appear likely to provide basic information on the properties of cell membranes.

  13. The Transport of Salt and Water across Isolated Rat Ileum

    PubMed Central

    Clarkson, T. W.

    1967-01-01

    The flows of sodium, potassium, and chloride under electrical and chemical gradients and of salt and water in the presence of osmotic pressure gradients are described by phenomenological equations based on the thermodynamics of irreversible processes. The aim was to give the simplest possible description, that is to postulate the least number of active transport processes and the least number of separate pathways across the intestine. On this basis, the results were consistent with the following picture of the intestine: Two channels exist across this tissue, one allowing only passive transport of ions and the other only active. In the passive channel, the predominant resistance to ion flow is friction with the water in the channel. The electroosmotic flow indicates that the passive channel is lined with negative fixed charged groups having a surface charge density of 3000 esu cm-2. The values of the ion-water frictional coefficients, and the relationship between ionic concentrations and flows indicate that the passive channel is extracellular. The active channel behaves as two membranes in series, the first membrane being semipermeable but allowing active transport of sodium, and the second membrane being similar to the passive channel. Friction with the ions in the second "membrane" is the predominant resistance to water flow. PMID:11526854

  14. Investigation of hurricane Ivan using the coupled ocean-atmosphere-wave-sediment transport (COAWST) model

    USGS Publications Warehouse

    Zambon, Joseph B.; He, Ruoying; Warner, John C.

    2014-01-01

    The coupled ocean–atmosphere–wave–sediment transport (COAWST) model is used to hindcast Hurricane Ivan (2004), an extremely intense tropical cyclone (TC) translating through the Gulf of Mexico. Sensitivity experiments with increasing complexity in ocean–atmosphere–wave coupled exchange processes are performed to assess the impacts of coupling on the predictions of the atmosphere, ocean, and wave environments during the occurrence of a TC. Modest improvement in track but significant improvement in intensity are found when using the fully atmosphere–ocean-wave coupled configuration versus uncoupled (e.g., standalone atmosphere, ocean, or wave) model simulations. Surface wave fields generated in the fully coupled configuration also demonstrates good agreement with in situ buoy measurements. Coupled and uncoupled model-simulated sea surface temperature (SST) fields are compared with both in situ and remote observations. Detailed heat budget analysis reveals that the mixed layer temperature cooling in the deep ocean (on the shelf) is caused primarily by advection (equally by advection and diffusion).

  15. Quantized Water Transport: Ideal Desalination through Graphyne-4 Membrane

    NASA Astrophysics Data System (ADS)

    Zhu, Chongqin; Li, Hui; Zeng, Xiao Cheng; Wang, E. G.; Meng, Sheng

    2014-03-01

    The shortage of clean and fresh water is one of most pervasive problems afflicting human being's life in the world. Desalination is one viable solution to produce clean water, since 98% of the available water in the form of salty water. Using molecular dynamics simulations, we demonstrate that graphyne sheet exhibits promising potential for nanoscale desalination to achieve both high water permeability and salt rejection rate. In addition, Graphyne sheets also are mechanically robust with high tolerance to deformation. Especially, γ-graphyne-4 has the best performance with 100% slat rejection and an unprecedented water permeability of ~ 13L/cm2/day/MPa. 3 orders of magnitude higher than prevailing commercial membranes based on reverse osmosis, and ~ 10 times higher than the state-of-the-art nanoporous graphene. Strikingly, water permeability across graphyne exhibits unexpected nonlinear dependence on the pore area. This counter-intuitive behavior is attributed to the quantized nature of water flow at the nanoscale, which has wide implications in controlling nanoscale water transport and designing highly effective membrane.

  16. Water transport by the bacterial channel alpha-hemolysin

    NASA Technical Reports Server (NTRS)

    Paula, S.; Akeson, M.; Deamer, D.

    1999-01-01

    This study is an investigation of the ability of the bacterial channel alpha-hemolysin to facilitate water permeation across biological membranes. alpha-Hemolysin channels were incorporated into rabbit erythrocyte ghosts at varying concentrations, and water permeation was induced by mixing the ghosts with hypertonic sucrose solutions. The resulting volume decrease of the ghosts was followed by time-resolved optical absorption at pH 5, 6, and 7. The average single-channel permeability coefficient of alpha-hemolysin for water ranged between 1.3x10-12 cm/s and 1.5x10-12 cm/s, depending on pH. The slightly increased single-channel permeability coefficient at lower pH-values was attributed to an increase in the effective pore size. The activation energy of water transport through the channel was low (Ea=5.4 kcal/mol), suggesting that the properties of water inside the alpha-hemolysin channel resemble those of bulk water. This conclusion was supported by calculations based on macroscopic hydrodynamic laws of laminar water flow. Using the known three-dimensional structure of the channel, the calculations accurately predicted the rate of water flow through the channel. The latter finding also indicated that water permeation data can provide a good estimate of the pore size for large channels.

  17. Stochastic analysis of transverse dispersion in density-coupled transport in aquifers

    USGS Publications Warehouse

    Welty, C.; Kane, A. C.; Kauffman, L.J.

    2003-01-01

    Spectral perturbation techniques have been used previously to derive integral expressions for dispersive mixing in concentration-dependent transport in three-dimensional, heterogeneous porous media, where fluid density and viscosity are functions of solute concentration. Whereas earlier work focused on evaluating longitudinal dispersivity in isotropic media and incorporating the result in a mean one-dimensional transport model, the emphasis of this paper is on evaluation of the complete dispersion tensor, including the more general case of anisotropic media. Approximate analytic expressions for all components of the macroscopic dispersivity tensor are derived, and the tensor is shown to be asymmetric. The tensor is separated into its symmetric and antisymmetric parts, where the symmetric part is used to calculate the principal components and principal directions of dispersivity, and the antisymmetric part of the tensor is shown to modify the velocity of the solute body compared to that of the background fluid. An example set of numerical simulations incorporating the tensor illustrates the effect of density-coupled dispersivity on a sinking plume in an aquifer. The simulations show that the effective transverse vertical spreading in a sinking plume to be significantly greater than would be predicted by a standard density-coupled transport model that does not incorporate the coupling in the dispersivity tensor.

  18. Coupled porohyperelastic mass transport (PHEXPT) finite element models for soft tissues using ABAQUS.

    PubMed

    Vande Geest, Jonathan P; Simon, B R; Rigby, Paul H; Newberg, Tyler P

    2011-04-01

    Finite element models (FEMs) including characteristic large deformations in highly nonlinear materials (hyperelasticity and coupled diffusive/convective transport of neutral mobile species) will allow quantitative study of in vivo tissues. Such FEMs will provide basic understanding of normal and pathological tissue responses and lead to optimization of local drug delivery strategies. We present a coupled porohyperelastic mass transport (PHEXPT) finite element approach developed using a commercially available ABAQUS finite element software. The PHEXPT transient simulations are based on sequential solution of the porohyperelastic (PHE) and mass transport (XPT) problems where an Eulerian PHE FEM is coupled to a Lagrangian XPT FEM using a custom-written FORTRAN program. The PHEXPT theoretical background is derived in the context of porous media transport theory and extended to ABAQUS finite element formulations. The essential assumptions needed in order to use ABAQUS are clearly identified in the derivation. Representative benchmark finite element simulations are provided along with analytical solutions (when appropriate). These simulations demonstrate the differences in transient and steady state responses including finite deformations, total stress, fluid pressure, relative fluid, and mobile species flux. A detailed description of important model considerations (e.g., material property functions and jump discontinuities at material interfaces) is also presented in the context of finite deformations. The ABAQUS-based PHEXPT approach enables the use of the available ABAQUS capabilities (interactive FEM mesh generation, finite element libraries, nonlinear material laws, pre- and postprocessing, etc.). PHEXPT FEMs can be used to simulate the transport of a relatively large neutral species (negligible osmotic fluid flux) in highly deformable hydrated soft tissues and tissue-engineered materials.

  19. Effect of wind forcing on the meridional heat transport in a coupled climate model: equilibrium response

    NASA Astrophysics Data System (ADS)

    Yang, Haijun; Dai, Haijin

    2015-09-01

    The effect of the ocean surface winds on the meridional heat transports is studied in a coupled model. Shutting down the global surface winds causes significant reductions in both wind-driven and thermohaline ocean circulations, resulting in a remarkable decrease in the poleward oceanic heat transport (OHT). The sea surface temperature responds with significant warming in the equator and cooling off the equator, causing an enhancement and equatorward shift in the Hadley cell. This increases the poleward atmospheric heat transport (AHT), which in turn compensates the decrease in the OHT. This compensation implies a fundamental constraint in changes of ocean-atmosphere energy transports. Several other compensation changes are also identified. For the OHT components, the changes in the Eulerian mean and bolus OHT are compensated with each other in the Southern Ocean, since a stronger wind driven Ekman transport is associated with a stronger meridional density gradient (stronger bolus circulation) and vice versa. For the AHT components, the changes in the dry static energy (DSE) and latent energy transports are compensated within the tropics (30°N/S), because a stronger Hadley cell causes a stronger equatorward convergence of moisture. In the extratropics, the changes in the mean and eddy DSE transports show perfect compensation, as a result of the equatorward shift of the Ferrell Cell and enhancement of atmospheric baroclinicity in mid-high latitudes, particularly over the North Atlantic. This work also shows how the Earth's climate is trying to maintain the balance between two hemispheres: the ocean in the Northern Hemisphere is colder than that in the Southern Hemisphere due to much reduced northward heat transports cross the Equator in the Atlantic, therefore, the atmosphere responds to the ocean with temperature colder in the Southern Hemisphere than in the Northern Hemisphere by transporting more heat northward cross the equator over the Pacific, in association

  20. Fano effect dominance over Coulomb blockade in transport properties of parallel coupled quantum dot system

    NASA Astrophysics Data System (ADS)

    Brogi, Bharat Bhushan; Chand, Shyam; Ahluwalia, P. K.

    2015-06-01

    Theoretical study of the Coulomb blockade effect on transport properties (Transmission Probability and I-V characteristics) for varied configuration of coupled quantum dot system has been studied by using Non Equilibrium Green Function(NEGF) formalism and Equation of Motion(EOM) method in the presence of magnetic flux. The self consistent approach and intra-dot Coulomb interaction is being taken into account. As the key parameters of the coupled quantum dot system such as dot-lead coupling, inter-dot tunneling and magnetic flux threading through the system can be tuned, the effect of asymmetry parameter and magnetic flux on this tuning is being explored in Coulomb blockade regime. The presence of the Coulomb blockade due to on-dot Coulomb interaction decreases the width of transmission peak at energy level ɛ + U and by adjusting the magnetic flux the swapping effect in the Fano peaks in asymmetric and symmetric parallel configuration sustains despite strong Coulomb blockade effect.

  1. Momentum transport in strongly coupled anisotropic plasmas in the presence of strong magnetic fields

    NASA Astrophysics Data System (ADS)

    Finazzo, Stefano Ivo; Critelli, Renato; Rougemont, Romulo; Noronha, Jorge

    2016-09-01

    We present a holographic perspective on momentum transport in strongly coupled, anisotropic non-Abelian plasmas in the presence of strong magnetic fields. We compute the anisotropic heavy quark drag forces and Langevin diffusion coefficients and also the anisotropic shear viscosities for two different holographic models, namely, a top-down deformation of strongly coupled N =4 super-Yang-Mills theory triggered by an external Abelian magnetic field, and a bottom-up Einstein-Maxwell-dilaton (EMD) model which is able to provide a quantitative description of lattice QCD thermodynamics with (2 +1 ) flavors at both zero and nonzero magnetic fields. We find that, in general, energy loss and momentum diffusion through strongly coupled anisotropic plasmas are enhanced by a magnetic field being larger in transverse directions than in the direction parallel to the magnetic field. Moreover, the anisotropic shear viscosity coefficient is smaller in the direction of the magnetic field than in the plane perpendicular to the field, which indicates that strongly coupled anisotropic plasmas become closer to the perfect fluid limit along the magnetic field. We also present, in the context of the EMD model, holographic predictions for the entropy density and the crossover critical temperature in a wider region of the (T , B ) phase diagram that has not yet been covered by lattice simulations. Our results for the transport coefficients in the phenomenologically realistic magnetic EMD model could be readily used as inputs in numerical codes for magnetohydrodynamics.

  2. SUPG and discontinuity-capturing methods for coupled fluid mechanics and electrochemical transport problems

    NASA Astrophysics Data System (ADS)

    Kler, Pablo A.; Dalcin, Lisandro D.; Paz, Rodrigo R.; Tezduyar, Tayfun E.

    2013-02-01

    Electrophoresis is the motion of charged particles relative to the surrounding liquid under the influence of an external electric field. This electrochemical transport process is used in many scientific and technological areas to separate chemical species. Modeling and simulation of electrophoretic transport enables a better understanding of the physicochemical processes developed during the electrophoretic separations and the optimization of various parameters of the electrophoresis devices and their performance. Electrophoretic transport is a multiphysics and multiscale problem. Mass transport, fluid mechanics, electric problems, and their interactions have to be solved in domains with length scales ranging from nanometers to centimeters. We use a finite element method for the computations. Without proper numerical stabilization, computation of coupled fluid mechanics, electrophoretic transport, and electric problems would suffer from spurious oscillations that are related to the high values of the local Péclet and Reynolds numbers and the nonzero divergence of the migration field. To overcome these computational challenges, we propose a stabilized finite element method based on the Streamline-Upwind/Petrov-Galerkin (SUPG) formulation and discontinuity-capturing techniques. To demonstrate the effectiveness of the stabilized formulation, we present test computations with 1D, 2D, and 3D electrophoretic transport problems of technological interest.

  3. Rapid water transportation through narrow one-dimensional channels by restricted hydrogen bonds.

    PubMed

    Ohba, Tomonori; Kaneko, Katsumi; Endo, Morinobu; Hata, Kenji; Kanoh, Hirofumi

    2013-01-29

    Water plays an important role in controlling chemical reactions and bioactivities. For example, water transportation through water channels in a biomembrane is a key factor in bioactivities. However, molecular-level mechanisms of water transportation are as yet unknown. Here, we investigate water transportation through narrow and wide one-dimensional (1D) channels on the basis of water-vapor adsorption rates and those determined by molecular dynamics simulations. We observed that water in narrow 1D channels was transported 3-5 times faster than that in wide 1D channels, although the narrow 1D channels provide fewer free nanospaces for water transportation. This rapid transportation is attributed to the formation of fewer hydrogen bonds between water molecules adsorbed in narrow 1D channels. The water-transportation mechanism provides the possibility of rapid communication through 1D channels and will be useful in controlling reactions and activities in water systems.

  4. Upregulation of Na-coupled glucose transporter SGLT1 by Tau tubulin kinase 2.

    PubMed

    Alesutan, Ioana; Sopjani, Mentor; Dërmaku-Sopjani, Miribane; Munoz, Carlos; Voelkl, Jakob; Lang, Florian

    2012-01-01

    The Tau-tubulin-kinase 2 (TTBK2) is a serine/threonine kinase expressed in various tissues including tumors. Up-regulation of TTBK2 increases resistance of tumor cells against antiangiogenic treatment and confers cell survival. Tumor cell survival critically depends on cellular uptake of glucose, which is partially accomplished by SGLT1 (SLC5A1) mediated Na(+)-coupled glucose transport. The present study explored whether TTBK2 participates in the regulation of SGLT1 activity. To this end, electrogenic glucose transport was determined in Xenopus oocytes expressing SGLT1 with or without wild-type TTBK2, truncated TTBK2([1-450]) or kinase inactive mutants TTBK2-KD and TTBK2-KD([1-450]). TTBK2, but not TTBK2([1-450]), TTBK2-KD or TTBK2-KD([1-450]), increased membrane carrier protein abundance and electrogenic glucose transport capacity in SGLT1-expressing Xenopus oocytes. Thus TTBK2 is a completely novel regulator of Na(+)-coupled glucose transport.

  5. The Effect of Yaw Coupling in Turning Maneuvers of Large Transport Aircraft

    NASA Technical Reports Server (NTRS)

    McNeill, Walter E.; Innis, Robert C.

    1965-01-01

    A study has been made, using a piloted moving simulator, of the effects of the yaw-coupling parameters N(sub p) and N(sub delta(sub a) on the lateral-directional handling qualities of a large transport airplane at landing-approach airspeed. It is shown that the desirable combinations of these parameters tend to be more proverse when compared with values typical of current aircraft. Results of flight tests in a large variable-stability jet transport showed trends which were similar to those of the simulator data. Areas of minor disagreement, which were traced to differences in airplane geometry, indicate that pilot consciousness of side acceleration forces can be an important factor in handling qualities of future long-nosed transport aircraft.

  6. EmrE, a model for studying evolution and mechanism of ion-coupled transporters.

    PubMed

    Schuldiner, Shimon

    2009-05-01

    EmrE is a small (110 residues) SMR transporter from Escherichia coli that extrudes positively charged aromatic drugs in exchange for two protons, thus rendering bacteria resistant to a variety of toxic compounds. Due to its size, stability and retention of its function upon solubilization in detergent, EmrE provides a unique experimental paradigm for the biochemical and biophysical studies of membrane based ion-coupled transporters. In addition, EmrE has been in center stage in the past two years because it provides also a paradigm for the study of the evolution of membrane proteins. Controversy around this topic is still going on and some novel concepts are surfacing that may contribute to our understanding of evolution of topology of membrane proteins. Furthermore, based on the findings that the cell multidrug transporters interact functionally we introduce the concept of a cell Resistosome.

  7. Large-voltage behavior of charge transport characteristics in nanosystems with weak electron–vibration coupling

    PubMed Central

    Belzig, Wolfgang

    2015-01-01

    Summary We study analytically the Full Counting Statistics of the charge transport through a nanosystem consisting of a few electronic levels weakly coupled to a discrete vibrational mode. In the limit of large transport voltage bias the cumulant generating function can be evaluated explicitly based solely on the intuitive physical arguments and classical master equation description of the vibration mode. We find that for the undamped vibrational modes mutual dynamical interplay between electronic and vibronic degrees of freedom leads to strongly nonlinear (in voltage) transport characteristics of the nanosystem. In particular, we find that for large voltages the k-th cumulant of the current grows as V 2k to be contrasted with the linear dependence in case of more strongly externally damped and thus thermalized vibrational modes. PMID:26425436

  8. Structural basis of water-specific transport through the AQP1 water channel

    NASA Astrophysics Data System (ADS)

    Sui, Haixin; Han, Bong-Gyoon; Lee, John K.; Walian, Peter; Jap, Bing K.

    2001-12-01

    Water channels facilitate the rapid transport of water across cell membranes in response to osmotic gradients. These channels are believed to be involved in many physiological processes that include renal water conservation, neuro-homeostasis, digestion, regulation of body temperature and reproduction. Members of the water channel superfamily have been found in a range of cell types from bacteria to human. In mammals, there are currently 10 families of water channels, referred to as aquaporins (AQP): AQP0-AQP9. Here we report the structure of the aquaporin 1 (AQP1) water channel to 2.2Å resolution. The channel consists of three topological elements, an extracellular and a cytoplasmic vestibule connected by an extended narrow pore or selectivity filter. Within the selectivity filter, four bound waters are localized along three hydrophilic nodes, which punctuate an otherwise extremely hydrophobic pore segment. This unusual combination of a long hydrophobic pore and a minimal number of solute binding sites facilitates rapid water transport. Residues of the constriction region, in particular histidine 182, which is conserved among all known water-specific channels, are critical in establishing water specificity. Our analysis of the AQP1 pore also indicates that the transport of protons through this channel is highly energetically unfavourable.

  9. Water generation and transport below Europa's strike-slip faults

    NASA Astrophysics Data System (ADS)

    Kalousová, Klára; Souček, Ondřej; Tobie, Gabriel; Choblet, Gaël.; Čadek, Ondřej

    2016-12-01

    Jupiter's moon Europa has a very young surface with the abundance of unique terrains that indicate recent endogenic activity. Morphological models as well as spectral observations suggest that it might possess shallow lenses of liquid water within its outer ice shell. Here we investigate the generation and possible accumulation of liquid water below the tidally activated strike-slip faults using a numerical model of two-phase ice-water mixture in two-dimensional Cartesian geometry. Our results suggest that generation of shallow partially molten regions underneath Europa's active strike-slip faults is possible, but their lifetime is constrained by the formation of Rayleigh-Taylor instabilities due to the negative buoyancy of the melt. Once formed, typically within a few million years, these instabilities efficiently transport the meltwater through the shell. Consequently, the maximum water content in the partially molten regions never exceeds 10% which challenges their possible detection by future exploration mission.

  10. Studies of soil-water transport by MRI.

    PubMed

    Amin, M H; Richards, K S; Chorley, R J; Gibbs, S J; Carpenter, T A; Hall, L D

    1996-01-01

    Sequential spin-echo spin-warp MRI pulse sequences have been used to study soil-water transport processes including infiltration, redistribution, and drainage of water in soil columns. Those images provide a means for monitoring and quantifying spatial and temporal changes of soil-water distributions and the movement of wetting fronts. In addition, temporal-geometric changes of unstable wetting fronts during water redistribution were estimated from 2D images and the temporal development of the longest length of finger was described by a fractal relation t approximately L1.38. Bulk dispersion-time-dependent displacement and velocity spectra, as well as 2D maps of flow velocities and dispersion coefficients in soil macropores during saturated steady-state flow, were reconstructed from data obtained using the alternating-pulsed-field-gradient (APFG) pulse sequences.

  11. The evolution of water transport in plants: an integrated approach.

    PubMed

    Pittermann, J

    2010-03-01

    This review examines the evolution of the plant vascular system from its beginnings in the green algae to modern arborescent plants, highlighting the recent advances in developmental, organismal, geochemical and climatological research that have contributed to our understanding of the evolution of xylem. Hydraulic trade-offs in vascular structure-function are discussed in the context of canopy support and drought and freeze-thaw stress resistance. This qualitative and quantitative neontological approach to palaeobotany may be useful for interpreting the water-transport efficiencies and hydraulic limits in fossil plants. Large variations in atmospheric carbon dioxide levels are recorded in leaf stomatal densities, and may have had profound impacts on the water conservation strategies of ancient plants. A hypothesis that links vascular function with stomatal density is presented and examined in the context of the evolution of wood and/or vessels. A discussion of the broader impacts of plant transport on hydrology and climate concludes this review.

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

    NASA Astrophysics Data System (ADS)

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

    2015-12-01

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

  13. Coupled Hydrogeophysical Inversion for Characterizing Heterogeneous Permeability Field at a Groundwater-River Water Interaction Zone

    NASA Astrophysics Data System (ADS)

    Chen, X.; Johnson, T. C.; Hammond, G. E.; Zachara, J. M.

    2014-12-01

    The hydrological and biogeochemical processes at the groundwater and river water interface are largely controlled by the exchange dynamics between the two water bodies. Accurate characterization of the heterogeneous permeability field at such interface is critical for modeling the bulk flow as well as the biogeochemical processes that are coupled with the flow. Taking advantage of the distinct conductivities in groundwater and rive water, time lapse electrical resistivity tomography (ERT) can provide rich spatial and temporal data for characterizing the permeability field, by imaging the change in subsurface electric conductivity driven by river water intrusion and retreat. We installed a large-scale (300 m by 300 m) 3-dimensional ERT array to monitor river water intrusion and retreat through time at a major river corridor, and the 4-dimensional electrical geophysical data is assimilated to invert for the underlying permeability field using ensemble-based algorithms (e.g., ensemble Kalman filter and ensemble smoother). We developed a new high-performance hydrogeophysical code by coupling an ERT imaging code E4D (Johnson et al., 2010) with a site-scale flow and transport code, PFLOTRAN (Hammond et al., 2012). The coupled code provides the key modeling capability of multi-physics processes, parallel efficiency, and multi-realization simulation capability for hydrogeophysical inversion. We assimilated both well-based point measurements of water table and specific conductance and spatially continuous ERT images in a sequential Bayesian way. Our study demonstrates the effectiveness of joint hydrogeophysical inversion for large-scale characterization of subsurface properties in the groundwater and river water interaction zone. Our investigation of spatial versus temporal data assimilation strategies have inspired systematic data worth analyses to identify the most valuable data sets for hydrogeophysical inversion. The high performance computing is performed on the Hopper

  14. Cost Analysis of Water Transport for Climate Change Impact Assessment

    NASA Astrophysics Data System (ADS)

    Szaleniec, V.; Buytaert, W.

    2012-04-01

    It is expected that climate change will have a strong impact on water resources worldwide. Many studies exist that couple the output of global climate models with hydrological models to assess the impact of climate change on physical water availability. However, the water resources topology of many regions and especially that of cities can be very complex. Changes in physical water availability do therefore not translate easily into impacts on water resources for cities. This is especially the case for cities with a complex water supply topology, for instance because of geographical barriers, strong gradients in precipitation patterns, or competing water uses. In this study we explore the use of cost maps to enable the inclusion of water supply topologies in climate change impact studies. We use the city of Lima as a case study. Lima is the second largest desert city in the world. Although Peru as a whole has no water shortage, extreme gradients exist. Most of the economic activities including the city of Lima are located in the coastal desert. This region is geographically disconnected from the wet Amazon basin because of the Andes mountain range. Hence, water supply is precarious, provided by a complex combination of high mountain ecosystems including wetlands and glaciers, as well as groundwater aquifers depending on recharge from the mountains. We investigate the feasibility and costs of different water abstraction scenarios and the impact of climate change using cost functions for different resources. The option of building inter basins tunnels across the Andes is compared to the costs of desalinating seawater from the Pacific Ocean under different climate change scenarios and population growth scenarios. This approach yields recommendations for the most cost-effective options for the future.

  15. Geoelectrical Evidence of Bicontinuum Transport in Ground Water

    NASA Astrophysics Data System (ADS)

    Singha, K.; Day-Lewis, F. D.; Lane, J. W.

    2007-12-01

    The fate and transport of chemicals in ground water is commonly described by advection and dispersion processes. In many settings, however, observed transport behavior appears inconsistent with the standard advective-dispersive model; instead, concentration histories show long tailing behavior, non-Gaussian breakthrough, and/or rebound after pumping for mass removal has ceased. These phenomena have prompted the consideration of dual-domain, rate-limited mass transfer (RLMT) as a controlling process. Determination of parameters describing mass-transfer between mobile and immobile domains - or even verifying the occurrence of RLMT - is problematic because geochemical data-collection methods preferentially sample the mobile component of the pore space. We present direct evidence of RLMT at the field scale during an aquifer storage and recovery experiment. We observe a hysteretic relation between measurements of pore-fluid conductivity (from borehole fluid samples) and bulk earth conductivity (from borehole electrical-resistivity). This hysteresis contradicts advective-dispersive transport and the standard petrophysical model relating pore-fluid and bulk conductivity, but can be explained by bicontinuum transport models that include first-order RLMT. Using a simple model, we demonstrate that geoelectrical methods can be used to bound estimates of mass transfer-rates and immobile porosity that are otherwise difficult to estimate in situ. These findings suggest that RLMT is one of the fundamental processes controlling solute transport and the efficiency of aquifer remediation, and suggest that similar analyses in other geologic settings may help evaluate the prevalence of RLMT.

  16. Proton transport in photooxidation of water: A new perspective on photosynthesis

    PubMed Central

    Arnon, Daniel I.; Tsujimoto, Harry Y.; Tang, George M.-S.

    1981-01-01

    The currently prevalent concept of the generation of photosynthetic reducing power in oxygen-evolving cells envisions a linear (noncyclic) electron flow from water to ferredoxin (and thence to NADP+) that requires the collaboration of photosystems I and II (PSI and PSII) joined by plastoquinone and other electron carriers (the Z scheme). The essence of the Z scheme is that only PSI can reduce ferredoxin—i.e., that, after being energized to an intermediate reducing potential by PSII, electrons from water are transported via plastoquinone to PSI which energizes the electrons to their ultimate reducing potential adequate for the reduction of ferredoxin. Basic to the Z scheme is the function of plastoquinone as the obligatory link in electron transport from PSII to PSI. However, we have found that, when plastoquinone function was inhibited, ferredoxin was photoreduced by water without the collaboration of PSI. We now report evidence for an important function of plastoquinone in the translocation of protons liberated inside the thylakoid membrane by photooxidation of water. When the oxygenic photoreduction (i.e., by water) of ferredoxin was blocked by plastoquinone inhibitors, dibromothymoquinone or dinitrophenol ether of iodonitrothymol, the photoreduction of ferredoxin was restored by each of four chemically diverse uncouplers, similar only in their ability to facilitate proton movement across membranes. Similar results were obtained for the oxygenic reduction of NADP+. Our results suggest that the light-induced electron flow from water cannot be maintained unless the simultaneously liberated protons are removed from inside the membrane via plastoquinone. The new evidence is embodied in a concept of an oxygenic photosystem for photosynthetic electron and proton transport, which we propose as an alternative to the Z scheme, to account for photoreduction of ferredoxin-NADP+ by water and the coupled oxygenic (formerly noncyclic) ATP formation without involving PSI. The

  17. Co-regulation of water and K(+) transport in sunflower plants during water stress recovery.

    PubMed

    Benlloch, Manuel; Benlloch-González, María

    2016-06-01

    16-day-old sunflower (Helianthus annuus L.) plants were subjected to deficit irrigation for 12 days. Following this period, plants were rehydrated for 2 days to study plant responses to post-stress recovery. The moderate water stress treatment applied reduced growth in all plant organs and the accumulation of K(+) in the shoot. After the rehydration period, the stem recovered its growth and reached a similar length to the control, an effect which was not observed in either root or leaves. Moreover, plant rehydration after water stress favored the accumulation of K(+) in the apical zone of the stem and expanding leaves. In the roots of plants under water stress, watering to field capacity, once the plants were de- topped, rapidly favored K(+) and water transport in the excised roots. This quick and short-lived response was not observed in roots of plants recovered from water stress for 2 days. These results suggest that the recovery of plant growth after water stress is related to coordinated water and K(+) transport from the root to the apical zone of the ​​stem and expanding leaves. This stimulation of K(+) transport in the root and its accumulation in the cells of the growing zones of the ​​stem must be one of the first responses induced in the plant during water stress recovery.

  18. Evaluation of bremsstrahlung contribution to photon transport in coupled photon-electron problems

    NASA Astrophysics Data System (ADS)

    Fernández, Jorge E.; Scot, Viviana; Di Giulio, Eugenio; Salvat, Francesc

    2015-11-01

    The most accurate description of the radiation field in x-ray spectrometry requires the modeling of coupled photon-electron transport. Compton scattering and the photoelectric effect actually produce electrons as secondary particles which contribute to the photon field through conversion mechanisms like bremsstrahlung (which produces a continuous photon energy spectrum) and inner-shell impact ionization (ISII) (which gives characteristic lines). The solution of the coupled problem is time consuming because the electrons interact continuously and therefore, the number of electron collisions to be considered is always very high. This complex problem is frequently simplified by neglecting the contributions of the secondary electrons. Recent works (Fernández et al., 2013; Fernández et al., 2014) have shown the possibility to include a separately computed coupled photon-electron contribution like ISII in a photon calculation for improving such a crude approximation while preserving the speed of the pure photon transport model. By means of a similar approach and the Monte Carlo code PENELOPE (coupled photon-electron Monte Carlo), the bremsstrahlung contribution is characterized in this work. The angular distribution of the photons due to bremsstrahlung can be safely considered as isotropic, with the point of emission located at the same place of the photon collision. A new photon kernel describing the bremsstrahlung contribution is introduced: it can be included in photon transport codes (deterministic or Monte Carlo) with a minimal effort. A data library to describe the energy dependence of the bremsstrahlung emission has been generated for all elements Z=1-92 in the energy range 1-150 keV. The bremsstrahlung energy distribution for an arbitrary energy is obtained by interpolating in the database. A comparison between a PENELOPE direct simulation and the interpolated distribution using the data base shows an almost perfect agreement. The use of the data base increases

  19. Dispersive transport dynamics in a strongly coupled groundwater-brine flow system

    SciTech Connect

    Oldenburg, C.M.; Pruess, K.

    1995-02-01

    Many problems in subsurface hydrology involve the flow and transport of solutes that affect liquid density. When density variations are large (>5%), the flow and transport are strongly coupled. Density variations in excess of 20% occur in salt dome and bedded-salt formations which are currently being considered for radioactive waste repositories. The widely varying results of prior numerical simulation efforts of salt dome groundwater-brine flow problems have underscored the difficulty of solving strongly coupled flow and transport equations. We have implemented a standard model for hydrodynamic dispersion in our general purpose integral finite difference simulator, TOUGH2. The residual formulation used in TOUGH2 is efficient for the strongly coupled flow problem and allows the simulation to reach a verifiable steady state. We use the model to solve two classic coupled flow problems as verification. We then apply the model to a salt dome flow problem patterned after the conditions present at the Gorleben salt dome, Germany, a potential site for high-level nuclear waste disposal. Our transient simulations reveal the presence of two flow regimes: (1) recirculating and (2) swept forward. The flow dynamics are highly sensitive to the strength of molecular diffusion, with recirculating flows arising for large values of molecular diffusivity. For pure hydrodynamic dispersion with parameters approximating those at Gorleben, we find a swept-forward flow field at steady state rather than the recirculating flows found in previous investigations. The time to steady state is very sensitive to the initial conditions, with long time periods required to sweep out an initial brine pool in the lower region of the domain. Dimensional analysis is used to demonstrate the tendency toward brine recirculation. An analysis based on a dispersion timescale explains the observed long time to steady state when the initial condition has a brine pool in the lower part of the system.

  20. Tunable transport through a quantum dot chain with side-coupled Majorana bound states

    NASA Astrophysics Data System (ADS)

    Jiang, Cui; Lu, Gang; Gong, Wei-Jiang

    2014-09-01

    We investigate the transport properties of a quantum dot (QD) chain side-coupled to a pair of Majorana bound states (MBSs). It is found that the zero-bias conductance is tightly dependent on the parity of QD number. First, if a Majorana zero mode is introduced to couple to one QD of the odd-numbered QD structure, the zero-bias conductance is equal to e/22h, but the zero-bias conductance will experience a valley-to-peak transition if the Majorana zero mode couples to the different QDs of the even-numbered QD structure. On the other hand, when the inter-MBS coupling is nonzero, the zero-bias conductance spectrum shows a peak in the odd-numbered QD structure, and in the even-numbered QD structure one conductance valley appears at the zero-bias limit. These results show the feasibility to manipulate the current in a multi-QD structure based on the QD-MBS coupling. Also, such a system can be a candidate for detecting the MBSs.

  1. Tunable transport through a quantum dot chain with side-coupled Majorana bound states

    SciTech Connect

    Jiang, Cui; Lu, Gang; Gong, Wei-Jiang

    2014-09-14

    We investigate the transport properties of a quantum dot (QD) chain side-coupled to a pair of Majorana bound states (MBSs). It is found that the zero-bias conductance is tightly dependent on the parity of QD number. First, if a Majorana zero mode is introduced to couple to one QD of the odd-numbered QD structure, the zero-bias conductance is equal to (e{sup 2})/(2h) , but the zero-bias conductance will experience a valley-to-peak transition if the Majorana zero mode couples to the different QDs of the even-numbered QD structure. On the other hand, when the inter-MBS coupling is nonzero, the zero-bias conductance spectrum shows a peak in the odd-numbered QD structure, and in the even-numbered QD structure one conductance valley appears at the zero-bias limit. These results show the feasibility to manipulate the current in a multi-QD structure based on the QD-MBS coupling. Also, such a system can be a candidate for detecting the MBSs.

  2. Full counting statistics of transport electrons through a two-level quantum dot with spin–orbit coupling

    SciTech Connect

    Wang, Z.M.; Xue, H.B.; Xue, N.T.; Liang, J.-Q.

    2015-02-15

    We study the full counting statistics of transport electrons through a semiconductor two-level quantum dot with Rashba spin–orbit (SO) coupling, which acts as a nonabelian gauge field and thus induces the electron transition between two levels along with the spin flip. By means of the quantum master equation approach, shot noise and skewness are obtained at finite temperature with two-body Coulomb interaction. We particularly demonstrate the crucial effect of SO coupling on the super-Poissonian fluctuation of transport electrons, in terms of which the SO coupling can be probed by the zero-frequency cumulants. While the charge currents are not sensitive to the SO coupling.

  3. Carbon dioxide and climate: The effects of water transport in radiative-convective models

    NASA Astrophysics Data System (ADS)

    Hummel, John R.; Reck, Ruth A.

    1981-12-01

    Considerable attention is being focused on the possible climatic effects resulting from increases in the concentration of atmospheric carbon dioxide. In calculating CO2 influence on the thermal structure of the atmosphere, the role of clouds is critically important. Not only are the cloud properties, such as amount, numbers of clouds, altitudes, and optical properties important but also whether or not these properties are fixed or coupled to model temperatures. The transport of water vapor determines whether or not a region has clouds, the cloud properites, and the water vapor profiles appropriate for clear and cloudy skies. Results are presented of the change in surface temperature with changes in carbon dioxide content for two radiative-convective models with three different cloud coverages. We used (1) the Manabe-Wetherald radiative-convective model in which three clouds with fixed pressures, thicknesses, and optical properties and a single water vapor profile are inputed and (2) the Hummel-Kuhn model, which couples radiative heating, convection, and water vapor transport in order to calculate locations and thicknesses. The Hummel-Kuhn model yields temperature increases for doubled CO2 larger than the Manabe-Wetherald model for various assumed total cloud cover amounts. For assumed standard cloud cover amounts the Hummel-Kuhn estimate is 20% larger than the Manabe-Wetherald estimate. For reduced and enhanced cloud cover amounts the Hummel-Kuhn estimates are 37% and 17% larger, respectively. The calculated cloud locations and thicknesses did not change in the calculations; therefore the increased sensitivity in the Hummel-Kuhn model is due to the larger water vapor amounts in the Hummel-Kuhn model and the added infrared absorption by the water vapor dimer.

  4. Water flow and multicomponent solute transport in drip-irrigated lysimeters

    NASA Astrophysics Data System (ADS)

    Raij, Iael; Šimûnek, Jiří; Ben-Gal, Alon; Lazarovitch, Naftali

    2016-08-01

    Controlled experiments and modeling are crucial components in the evaluation of the fate of water and solutes in environmental and agricultural research. Lysimeters are commonly used to determine water and solute balances and assist in making sustainable decisions with respect to soil reclamation, fertilization, or irrigation with low-quality water. While models are cost-effective tools for estimating and preventing environmental damage by agricultural activities, their value is highly dependent on the accuracy of their parameterization, often determined by calibration. The main objective of this study was to use measured major ion concentrations collected from drip-irrigated lysimeters to calibrate the variably saturated water flow model HYDRUS (2D/3D) coupled with the reactive transport model UNSATCHEM. Irrigation alternated between desalinated and brackish waters. Lysimeter drainage and soil solution samples were collected for chemical analysis and used to calibrate the model. A second objective was to demonstrate the potential use of the calibrated model to evaluate lower boundary design options of lysimeters with respect to leaching fractions determined using drainage water fluxes, chloride concentrations, and overall salinity of drainage water, and exchangeable sodium percentage (ESP) in the profile. The model showed that, in the long term, leaching fractions calculated with electrical conductivity values would be affected by the lower boundary condition pressure head, while those calculated with chloride concentrations and water fluxes would not be affected. In addition, clear dissimilarities in ESP profiles were found between lysimeters with different lower boundary conditions, suggesting a potential influence on hydraulic conductivities and flow patterns.

  5. A Local Incident Flux Response Expansion Transport Method for Coupling to the Diffusion Method in Cylindrical Geometry

    SciTech Connect

    Dingkang Zhang; Farzad Rahnema; Abderrafi M. Ougouag

    2013-09-01

    A local incident flux response expansion transport method is developed to generate transport solutions for coupling to diffusion theory codes regardless of their solution method (e.g., fine mesh, nodal, response based, finite element, etc.) for reactor core calculations in both two-dimensional (2-D) and three-dimensional (3-D) cylindrical geometries. In this approach, a Monte Carlo method is first used to precompute the local transport solution (i.e., response function library) for each unique transport coarse node, in which diffusion theory is not valid due to strong transport effects. The response function library is then used to iteratively determine the albedo coefficients on the diffusion-transport interfaces, which are then used as the coupling parameters within the diffusion code. This interface coupling technique allows a seamless integration of the transport and diffusion methods. The new method retains the detailed heterogeneity of the transport nodes and naturally constructs any local solution within them by a simple superposition of local responses to all incoming fluxes from the contiguous coarse nodes. A new technique is also developed for coupling to fine-mesh diffusion methods/codes. The local transport method/module is tested in 2-D and 3-D pebble-bed reactor benchmark problems consisting of an inner reflector, an annular fuel region, and a controlled outer reflector. It is found that the results predicted by the transport module agree very well with the reference fluxes calculated directly by MCNP in both benchmark problems.

  6. Integrating Water Flow, Solute Transport and Crop Production Models At The Farm-scale

    NASA Astrophysics Data System (ADS)

    Assinck, F. B. T.; de Vos, J. A.

    Minimising nitrate pollution of ground and surface water and optimising agricultural yields are problems which have to be addressed at the farm-scale. However, simulation models usually operate at the field-scale. We coupled the subsurface hydrology model SWAP with other existing deterministic (sub)models for solute transport, organic mat- ter dynamics, crop growth, and dairy farm management at the farm-scale, resulting in the model WATERPAS. The (sub)models are coupled in a Framework environment obeying the principles of object oriented modelling. Based on daily weather data, groundwater regimes, soil and farm characteristics WATERPAS is able to simulate the water and nutrient balances, grass production, economical benefits, nitrate leaching and greenhouse gas emissions at a farm. Problems of coupling, such as data-transfer, quality checks, over-parameterisation, complexity and sensitivity of the systems are discussed. Application of deducted simpler models and expert judgement can be use- ful for practical use. However, we believe that integrated models are a powerful tool to understand the complex relationships between the different processes. It also gives opportunities to perform scenario analysis for future boundary conditions, i.e. due to changing farm management, (sea) water levels and climate change.

  7. Molecular level water and solute transport in reverse osmosis membranes

    NASA Astrophysics Data System (ADS)

    Lueptow, Richard M.; Shen, Meng; Keten, Sinan

    2015-11-01

    The water permeability and rejection characteristics of six solutes, methanol, ethanol, 2-propanol, urea, Na+, and Cl-, were studied for a polymeric reverse osmosis (RO) membrane using non-equilibrium molecular dynamics simulations. Results indicate that water flux increases with an increasing fraction of percolated free volume in the membrane polymer structure. Solute molecules display Brownian motion and hop from pore to pore as they pass through the membrane. The solute rejection depends on both the size of the solute molecule and the chemical interaction of the solute with water and the membrane. When the open spaces in the polymeric structure are such that solutes have to shed at least one water molecule from their solvation shell to pass through the membrane molecular structure, the water-solute pair interaction energy governs solute rejection. Organic solutes more easily shed water molecules than ions to more readily pass through the membrane. Hydrogen-bonding sites for molecules like urea also lead to a higher rejection. These findings underline the importance of the solute's solvation shell and solute-water-membrane chemistry in solute transport and rejection in RO membranes. Funded by the Institute for Sustainability and Energy at Northwestern with computing resources from XSEDE (NSF grant ACI-1053575).

  8. Water mass structure and transport in the Tourbillon eddy

    NASA Astrophysics Data System (ADS)

    Harvey, John; Glynn, Simon

    1985-06-01

    CTD data collected during the Tourbillon Experiment have been used to identify the water masses present in a mesoscale eddy in the eastern North Atlantic, and their transports during the 50-day period of the Experiment. The core of the eddy was found to comprise North Atlantic Central Water within the temperature range 10 to 11°C, and evidence of downward movement of this water between 150 and 700 db and upward movement between 750 and 820 db is presented. Mediterranean Water (MW) was drawn around the eddy in a tongue which broke into separate patches during the Experiment. There is evidence of this MW having a dynamical role in the eddy: whilst it was present as a continuous tongue it did not progress around the eddy as fast as other water. There is also an indication of upward movement of this MW. The distribution of Labrador Sea Water showed some positive relationship to the location of the eddy centre, whilst low concentrations were noted beneath the MW tongue. Both θ-S analysis and charts of the planetary component of potential vorticity are used in an attempt to identify the source region of the eddy; it is concluded that the eddy had not moved far (perhaps 200 km) from its place of origin, and that the homogeneous water in its core may have been formed by deep winter convection somewhere between north and west of the area where the Experiment was conducted.

  9. Spectroscopic study of optical confinement and transport effects in coupled microspheres and pillar cavities

    NASA Astrophysics Data System (ADS)

    Yang, Seungmoo

    In this thesis we investigated the spatial and spectral mode profiles, and the optical transport properties of single and multiple coupled cavities. We performed numerical modeling of whispering gallery modes (WGMs) in such cavities in order to explain recent experiments on semiconductor micropillars. High quality (Q up to 20 000) WGMs with small mode volumes V ˜0.3 mum 3 in 4-5 mum micropillars were reproduced. The WGM spectra were found to be in a good agreement with the experimental data. The coupling between size-matched spheres from 2.9 to 6.0 mum in diameter was characterized using spectroscopy. We observed peculiar kites in the spectral images of such coherently coupled bispheres. The origin of these kites was explained due to the coupling of multiple pairs of azimuthal modes. We quantified the coupling constant for WGMs located in the equatorial plane of spheres parallel to the substrate which plays the most important role in the transport of WGMs in such structures. It was shown that in long (>10 spheres) chains of size-disordered polystyrene microspheres the transmission properties are dominated by photonic nanojet-induced modes (NIMs) leading to periodic focusing of light along the chain. In the transmission spectra of such chains we observed Fabry-Perot fringes with propagation losses of only 0.08 dB per sphere at the maxima of the transmission peaks. The fringes of NIMs are found to be in a good agreement with the results of numerical modeling. These modes can be used in various biomedical applications requiring tight focusing of the beams.

  10. Water, heat and salt transport through the Strait of Otranto

    NASA Astrophysics Data System (ADS)

    Yari, Sadegh; Gačić, Miroslav; Kovačević, Vedrana; Cardin, Vanessa

    2010-05-01

    The water, heat and salt transports through the Strait of Otranto are estimated applying direct method to historical current and hydrographical data (from December 94 through November 95). A variational inverse method based on a variational principle and a finite element solver is used to reconstruct the current, temperature and salinity fields across the Strait section from sparse measurements. The mean annual inflow and outflow water transport rates are estimated as 0.901±0.039 Sv and -0.939±0.315 Sv, respectively, and the net transport for the period of study is equal to -0.032±0.208 Sv. Thus, on a yearly time interval, the inflow and the outflow are practically compensated. The heat and salt transports due to advection process are estimated for five monthly periods, namely December 1994, February, May, August and November 1995. Considering these five periods representative of the seasonal cycle during the year, their average values show that there is a net heat advection into the Adriatic Sea on a yearly basis. The estimated value of advected heat and the corresponding error are 2.408±0.490 TW, which is equivalent to a heat gain of 17.37±3.53 W m-2 for the whole basin. This value is compared to the heat loss of -36±152 (std) W m-2 through the air-sea interface calculated by means of bulk formulas over the Adriatic Sea. The two values are expected to be balance each other in order to close the heat budget of the basin. The possible reasons for this difference to occur are discussed. On a yearly basis, the salt transport is estimated as an input of salt equal to 0.05×106 Kg s-1. The average annual fresh water budget is estimated as -0.002 Sv, equivalent to the mass of fresh water of 2.00×106Kg s-1 or to the level of 0.45 m yr-1 for the entire Adriatic Sea. The import of salt that is less than the gain of fresh water is in agreement with the fact that the Adriatic Sea is a dilution basin.

  11. Modeling the coupled mechanics, transport, and growth processes in collagen tissues.

    SciTech Connect

    Holdych, David J.; Nguyen, Thao D.; Klein, Patrick A.; in't Veld, Pieter J.; Stevens, Mark Jackson

    2006-11-01

    The purpose of this project is to develop tools to model and simulate the processes of self-assembly and growth in biological systems from the molecular to the continuum length scales. The model biological system chosen for the study is the tendon fiber which is composed mainly of Type I collagen fibrils. The macroscopic processes of self-assembly and growth at the fiber scale arise from microscopic processes at the fibrillar and molecular length scales. At these nano-scopic length scales, we employed molecular modeling and simulation method to characterize the mechanical behavior and stability of the collagen triple helix and the collagen fibril. To obtain the physical parameters governing mass transport in the tendon fiber we performed direct numerical simulations of fluid flow and solute transport through an idealized fibrillar microstructure. At the continuum scale, we developed a mixture theory approach for modeling the coupled processes of mechanical deformation, transport, and species inter-conversion involved in growth. In the mixture theory approach, the microstructure of the tissue is represented by the species concentration and transport and material parameters, obtained from fibril and molecular scale calculations, while the mechanical deformation, transport, and growth processes are governed by balance laws and constitutive relations developed within a thermodynamically consistent framework.

  12. Chancellor Water Colloids: Characterization and Radionuclide Associated Transport

    SciTech Connect

    Reimus, Paul William; Boukhalfa, Hakim

    2014-09-26

    Column transport experiments were conducted in which water from the Chancellor nuclear test cavity was transported through crushed volcanic tuff from Pahute Mesa. In one experiment, the cavity water was spiked with solute 137Cs, and in another it was spiked with 239/240Pu(IV) nanocolloids. A third column experiment was conducted with no radionuclide spike at all, although the 137Cs concentrations in the water were still high enough to quantify in the column effluent. The radionuclides strongly partitioned to natural colloids present in the water, which were characterized for size distribution, mass concentration, zeta potential/surface charge, critical coagulation concentration, and qualitative mineralogy. In the spiked water experiments, the unanalyzed portion of the high-concentration column effluent samples were combined and re-injected into the respective columns as a second pulse. This procedure was repeated again for a third injection. Measurable filtration of the colloids was observed after each initial injection of the Chancellor water into the columns, but the subsequent injections (spiked water experiments only) exhibited no apparent filtration, suggesting that the colloids that remained mobile after relatively short transport distances were more resistant to filtration than the initial population of colloids. It was also observed that while significant desorption of 137Cs from the colloids occurred after the first injection in both the spiked and unspiked waters, subsequent injections of the spiked water exhibited much less 137Cs desorption (much greater 137Cs colloid-associated transport). This result suggests that the 137Cs that remained associated with colloids during the first injection represented a fraction that was more strongly adsorbed to the mobile colloids than the initial 137Cs associated with the colloids. A greater amount of the 239/240

  13. Modeling greenhouse gas emissions and nutrient transport in managed arable soils with a fully coupled hydrology-biogeochemical modeling system

    NASA Astrophysics Data System (ADS)

    Haas, Edwin; Klatt, Steffen; Kiese, Ralf; Butterbach-Bahl, Klaus; Kraft, Philipp; Breuer, Lutz

    2015-04-01

    The use of mineral nitrogen fertilizer sustains the global food production and therefore the livelihood of human kind. The rise in world population will put pressure on the global agricultural system to increase its productivity leading most likely to an intensification of mineral nitrogen fertilizer use. The fate of excess nitrogen and its distribution within landscapes is manifold. Process knowledge on the site scale has rapidly grown in recent years and models have been developed to simulate carbon and nitrogen cycling in managed ecosystems on the site scale. Despite first regional studies, the carbon and nitrogen cycling on the landscape or catchment scale is not fully understood. In this study we present a newly developed modelling approach by coupling the fully distributed hydrology model CMF (catchment modelling framework) to the process based regional ecosystem model LandscapeDNDC for the investigation of hydrological processes and carbon and nitrogen transport and cycling, with a focus on nutrient displacement and resulting greenhouse gas emissions in various virtual landscapes / catchment to demonstrate the capabilities of the modelling system. The modelling system was applied to simulate water and nutrient transport at the at the Yanting Agro-ecological Experimental Station of Purple Soil, Sichuan province, China. The catchment hosts cypress forests on the outer regions, arable fields on the sloping croplands cultivated with wheat-maize rotations and paddy rice fields in the lowland. The catchment consists of 300 polygons vertically stratified into 10 soil layers. Ecosystem states (soil water content and nutrients) and fluxes (evapotranspiration) are exchanged between the models at high temporal scales (hourly to daily) forming a 3-dimensional model application. The water flux and nutrients transport in the soil is modelled using a 3D Richards/Darcy approach for subsurface fluxes with a kinematic wave approach for surface water runoff and the

  14. Woody debris transport modelling by a coupled DE-SW approach

    NASA Astrophysics Data System (ADS)

    Persi, Elisabetta; Petaccia, Gabriella; Sibilla, Stefano

    2016-04-01

    The presence of wood in rivers is gaining more and more attention: on one side, the inclusion of woody debris in streams is emphasized for its ecological benefits; on the other hand, particular attention must be paid to its management, not to affect hydraulic safety. Recent events have shown that wood can be mobilized during floodings (Comiti et al. 2008, Lange and Bezzola 2006), aggravating inundations, in particular near urban areas. For this reason, the inclusion of woody debris influence on the prediction of flooded areas is an important step toward the reduction of hydraulic risk. Numerical modelling plays an important role to this purpose. Ruiz-Villanueva et al. (2014) use a two-dimensional numerical model to calculate the kinetics of cylindrical woody debris transport, taking into account also the hydrodynamic effects of wood. The model here presented couples a Discrete Element approach (DE) for the calculation of motion of a cylindrical log with the solution of the Shallow Water Equations (SW), in order to simulate woody debris transport in a two-dimensional stream. In a first step, drag force, added mass force and side force are calculated from flow and log velocities, assuming a reference area and hydrodynamic coefficients taken from literature. Then, the equations of dynamics are solved to model the planar roto-translation of the wooden cylinder. Model results and its physical reliability are clearly affected by the values of the drag and side coefficients, which in turn depend upon log submergence and angle towards the flow direction. Experimental studies to evaluate drag and side coefficients can be found for a submerged cylinder, with various orientations (Gippel et al. 1996; Hoang et al. 2015). To extend such results to the case of a floating (non-totally submerged) cylinder, the authors performed a series of laboratory tests whose outcomes are implemented in the proposed DE-SW model, to assess the effects of these values on the dynamic of woody

  15. Use of boundary fluxes when simulating solute transport with the MODFLOW ground-water transport process

    USGS Publications Warehouse

    Konikow, L.F.; Hornberger, G.Z.

    2003-01-01

    This report describes modifications to a U.S. Geological Survey (USGS) threedimensional solute-transport model (MODFLOWGWT), which is incorporated into the USGS MODFLOW ground-water model as the Ground- Water Transport (GWT) Process. The modifications improve the capability of MODFLOW-GWT to accurately simulate solute transport in simulations that represent a nonzero flux across an aquifer boundary. In such situations, the new Boundary Flux Package (BFLX) will allow the user flexibility to assign the flux to specific cell faces, although that flexibility is limited for certain types of fluxes (such as recharge and evapotranspiration, which can only be assigned to the top face if either is to be represented as a boundary flux). The approach is consistent with that used in the MODPATH model. The application of the BFLX Package was illustrated using a test case in which the Lake Package was active. The results using the BFLX Package showed noticeably higher magnitudes of velocity in the cells adjacent to the lake than previous results without the BFLX Package. Consequently, solute was transported slightly faster through the lake-aquifer system when the BFLX Package is active. However, the overall solute distributions did not differ greatly from simulations made without using the BFLX Package.

  16. Coupled Reactive Transport Modeling of CO2 Injection in Mt. Simon Sandstone Formation, Midwest USA

    NASA Astrophysics Data System (ADS)

    Liu, F.; Lu, P.; Zhu, C.; Xiao, Y.

    2009-12-01

    CO2 sequestration in deep geological formations is one of the promising options for CO2 emission reduction. While several large scale CO2 injections in saline aquifers have shown to be successful for the short-term, there is still a lack of fundamental understanding on key issues such as CO2 storage capacity, injectivity, and security over multiple spatial and temporal scales that need to be addressed. To advance these understandings, we applied multi-phase coupled reactive mass transport modeling to investigate the fate of injected CO2 and reservoir responses to the injection into Mt. Simon Formation. We developed both 1-D and 2-D reactive transport models in a radial region of 10,000 m surrounding a CO2 injection well to represent the Mt. Simon sandstone formation, which is a major regional deep saline reservoir in the Midwest, USA. Supercritical CO2 is injected into the formation for 100 years, and the modeling continues till 10,000 years to monitor both short-term and long-term behavior of injected CO2 and the associated rock-fluid interactions. CO2 co-injection with H2S and SO2 is also simulated to represent the flue gases from coal gasification and combustion in the Illinois Basin. The injection of CO2 results in acidified zones (pH ~3 and 5) adjacent to the wellbore, causing progressive water-rock interactions in the surrounding region. In accordance with the extensive dissolution of authigenic K-feldspar, sequential precipitations of secondary carbonates and clay minerals are predicted in this zone. The vertical profiles of CO2 show fingering pattern from the top of the reservoir to the bottom due to the density variation of CO2-impregnated brine, which facilitate convection induced mixing and solubility trapping. Most of the injected CO2 remains within a radial distance of 2500 m at the end of 10,000 years and is sequestered and immobilized by solubility and residual trapping. Mineral trapping via secondary carbonates, including calcite, magnesite

  17. Applications of the compensating pressure theory of water transport.

    PubMed

    Canny, M

    1998-07-01

    Some predictions of the recently proposed theory of long-distance water transport in plants (the Compensating Pressure Theory) have been verified experimentally in sunflower leaves. The xylem sap cavitates early in the day under quite small water stress, and the compensating pressure P (applied as the tissue pressure of turgid cells) pushes water into embolized vessels, refilling them during active transpiration. The water potential, as measured by the pressure chamber or psychrometer, is not a measure of the pressure in the xylem, but (as predicted by the theory) a measure of the compensating pressure P. As transpiration increases, P is increased to provide more rapid embolism repair. In many leaf petioles this increase in P is achieved by the hydrolysis of starch in the starch sheath to soluble sugars. At night P falls as starch is reformed. A hypothesis is proposed to explain these observations by pressure-driven reverse osmosis of water from the ground parenchyma of the petiole. Similar processes occur in roots and are manifested as root pressure. The theory requires a pump to transfer water from the soil into the root xylem. A mechanism is proposed by which this pump may function, in which the endodermis acts as a one-way valve and a pressure-confining barrier. Rays and xylem parenchyma of wood act like the xylem parenchyma of petioles and roots to repair embolisms in trees. The postulated root pump permits a re-appraisal of the work done by evaporation during transpiration, leading to the proposal that in tall trees there is no hydrostatic gradient to be overcome in lifting water. Some published observations are re-interpreted in terms of the theory: doubt is cast on the validity of measurements of hydraulic conductance of wood; vulnerability curves are found not to measure the cavitation threshold of water in the xylem, but the osmotic pressure of the xylem parenchyma; if measures of xylem pressure and of hydraulic conductance are both suspect, the accepted

  18. Ion and water transport in charge-modified graphene nanopores

    NASA Astrophysics Data System (ADS)

    Qiu, Ying-Hua; Li, Kun; Chen, Wei-Yu; Si, Wei; Tan, Qi-Yan; Chen, Yun-Fei

    2015-10-01

    Porous graphene has a high mechanical strength and an atomic-layer thickness that makes it a promising material for material separation and biomolecule sensing. Electrostatic interactions between charges in aqueous solutions are a type of strong long-range interaction that may greatly influence fluid transport through nanopores. In this study, molecular dynamic simulations were conducted to investigate ion and water transport through 1.05-nm diameter monolayer graphene nanopores, with their edges charge-modified. Our results indicated that these nanopores are selective to counterions when they are charged. As the charge amount increases, the total ionic currents show an increase-decrease profile while the co-ion currents monotonically decrease. The co-ion rejection can reach 76.5% and 90.2% when the nanopores are negatively and positively charged, respectively. The Cl- ion current increases and reaches a plateau, and the Na+ current decreases as the charge amount increases in systems in which Na+ ions act as counterions. In addition, charge modification can enhance water transport through nanopores. This is mainly due to the ion selectivity of the nanopores. Notably, positive charges on the pore edges facilitate water transport much more strongly than negative charges. Project supported by the National Basic Research Program of China (Grant Nos. 2011CB707601 and 2011CB707605), the National Natural Science Foundation of China (Grant No. 50925519), the Fundamental Research Funds for the Central Universities, Funding of Jiangsu Provincial Innovation Program for Graduate Education, China (Grant No. CXZZ13_0087), and the Scientific Research Foundation of Graduate School of Southeast University (Grant No. YBJJ 1322).

  19. Structures of a Na+-coupled, substrate-bound MATE multidrug transporter.

    PubMed

    Lu, Min; Symersky, Jindrich; Radchenko, Martha; Koide, Akiko; Guo, Yi; Nie, Rongxin; Koide, Shohei

    2013-02-05

    Multidrug transporters belonging to the multidrug and toxic compound extrusion (MATE) family expel dissimilar lipophilic and cationic drugs across cell membranes by dissipating a preexisting Na(+) or H(+) gradient. Despite its clinical relevance, the transport mechanism of MATE proteins remains poorly understood, largely owing to a lack of structural information on the substrate-bound transporter. Here we report crystal structures of a Na(+)-coupled MATE transporter NorM from Neisseria gonorrheae in complexes with three distinct translocation substrates (ethidium, rhodamine 6G, and tetraphenylphosphonium), as well as Cs(+) (a Na(+) congener), all captured in extracellular-facing and drug-bound states. The structures revealed a multidrug-binding cavity festooned with four negatively charged amino acids and surprisingly limited hydrophobic moieties, in stark contrast to the general belief that aromatic amino acids play a prominent role in multidrug recognition. Furthermore, we discovered an uncommon cation-π interaction in the Na(+)-binding site located outside the drug-binding cavity and validated the biological relevance of both the substrate- and cation-binding sites by conducting drug resistance and transport assays. Additionally, we uncovered potential rearrangement of at least two transmembrane helices upon Na(+)-induced drug export. Based on our structural and functional analyses, we suggest that Na(+) triggers multidrug extrusion by inducing protein conformational changes rather than by directly competing for the substrate-binding amino acids. This scenario is distinct from the canonical antiport mechanism, in which both substrate and counterion compete for a shared binding site in the transporter. Collectively, our findings provide an important step toward a detailed and mechanistic understanding of multidrug transport.

  20. Structural and mechanistic basis of proton-coupled metal ion transport in the SLC11/NRAMP family

    PubMed Central

    Ehrnstorfer, Ines A.; Manatschal, Cristina; Arnold, Fabian M.; Laederach, Juerg; Dutzler, Raimund

    2017-01-01

    Secondary active transporters of the SLC11/NRAMP family catalyse the uptake of iron and manganese into cells. These proteins are highly conserved across all kingdoms of life and thus likely share a common transport mechanism. Here we describe the structural and functional properties of the prokaryotic SLC11 transporter EcoDMT. Its crystal structure reveals a previously unknown outward-facing state of the protein family. In proteoliposomes EcoDMT mediates proton-coupled uptake of manganese at low micromolar concentrations. Mutants of residues in the transition-metal ion-binding site severely affect transport, whereas a mutation of a conserved histidine located near this site results in metal ion transport that appears uncoupled to proton transport. Combined with previous results, our study defines the conformational changes underlying transition-metal ion transport in the SLC11 family and it provides molecular insight to its coupling to protons. PMID:28059071

  1. Structural and mechanistic basis of proton-coupled metal ion transport in the SLC11/NRAMP family.

    PubMed

    Ehrnstorfer, Ines A; Manatschal, Cristina; Arnold, Fabian M; Laederach, Juerg; Dutzler, Raimund

    2017-01-06

    Secondary active transporters of the SLC11/NRAMP family catalyse the uptake of iron and manganese into cells. These proteins are highly conserved across all kingdoms of life and thus likely share a common transport mechanism. Here we describe the structural and functional properties of the prokaryotic SLC11 transporter EcoDMT. Its crystal structure reveals a previously unknown outward-facing state of the protein family. In proteoliposomes EcoDMT mediates proton-coupled uptake of manganese at low micromolar concentrations. Mutants of residues in the transition-metal ion-binding site severely affect transport, whereas a mutation of a conserved histidine located near this site results in metal ion transport that appears uncoupled to proton transport. Combined with previous results, our study defines the conformational changes underlying transition-metal ion transport in the SLC11 family and it provides molecular insight to its coupling to protons.

  2. A faster numerical scheme for a coupled system modeling soil erosion and sediment transport

    NASA Astrophysics Data System (ADS)

    Le, M.-H.; Cordier, S.; Lucas, C.; Cerdan, O.

    2015-02-01

    Overland flow and soil erosion play an essential role in water quality and soil degradation. Such processes, involving the interactions between water flow and the bed sediment, are classically described by a well-established system coupling the shallow water equations and the Hairsine-Rose model. Numerical approximation of this coupled system requires advanced methods to preserve some important physical and mathematical properties; in particular, the steady states and the positivity of both water depth and sediment concentration. Recently, finite volume schemes based on Roe's solver have been proposed by Heng et al. (2009) and Kim et al. (2013) for one and two-dimensional problems. In their approach, an additional and artificial restriction on the time step is required to guarantee the positivity of sediment concentration. This artificial condition can lead the computation to be costly when dealing with very shallow flow and wet/dry fronts. The main result of this paper is to propose a new and faster scheme for which only the CFL condition of the shallow water equations is sufficient to preserve the positivity of sediment concentration. In addition, the numerical procedure of the erosion part can be used with any well-balanced and positivity preserving scheme of the shallow water equations. The proposed method is tested on classical benchmarks and also on a realistic configuration.

  3. Inter-strand coupling and base pairing sequences in DNA charge transport.

    NASA Astrophysics Data System (ADS)

    Yudiarsah, Efta; Ulloa, Sergio

    2006-03-01

    The electronic transport properties of double-stranded DNA are studied using a tight-binding Hamiltonian. Transfer and scattering matrix methods for double strands are employed simultaneously in the calculation, guaranteeing numerical stability. Realistic on-site energies [1] and hopping constants are used in the model [2]. The role of inter-strand coupling is shown to be extremely important for random sequences typical of genetic DNA. In contrast, inter-strand coupling only changes slightly the charge transport properties for more periodic sequences. The effect of base-pairing across strands and details of the sequences were investigated. Our model shows that the resistance of DNA depends on the sequences and the ratio of the bases. This agrees with previous results by Roche [3]. The resistance is also shown to increase with the concentration of different bases in a homogenous strand, and we find that for certain sequences only short-range electronic transport is possible.[1] H. Sugiyama and I. Saito, J. Am. Chem. Soc. 118, 7063 (1996).[2] A. A. Voityuk, J. Jortner, M. Bixon, and N. Rosch, J. Chem. Phys. 114, 5614 (2001).[3] S. Roche, Phys. Rev. Lett. 91, 108101 (2003).

  4. Control of unidirectional transport of single-file water molecules through carbon nanotubes in an electric field.

    PubMed

    Su, Jiaye; Guo, Hongxia

    2011-01-25

    The transport of water molecules through nanopores is not only crucial to biological activities but also useful for designing novel nanofluidic devices. Despite considerable effort and progress that has been made, a controllable and unidirectional water flow is still difficult to achieve and the underlying mechanism is far from being understood. In this paper, using molecular dynamics simulations, we systematically investigate the effects of an external electric field on the transport of single-file water molecules through a carbon nanotube (CNT). We find that the orientation of water molecules inside the CNT can be well-tuned by the electric field and is strongly coupled to the water flux. This orientation-induced water flux is energetically due to the asymmetrical water-water interaction along the CNT axis. The wavelike water density profiles are disturbed under strong field strengths. The frequency of flipping for the water dipoles will decrease as the field strength is increased, and the flipping events vanish completely for the relatively large field strengths. Most importantly, a critical field strength E(c) related to the water flux is found. The water flux is increased as E is increased for E ≤ E(c), while it is almost unchanged for E > E(c). Thus, the electric field offers a level of governing for unidirectional water flow, which may have some biological applications and provides a route for designing efficient nanopumps.

  5. Transport of Escherichia coli strains isolated from natural spring water.

    PubMed

    Lutterodt, G; Foppen, J W A; Uhlenbrook, S

    2012-10-01

    We present a new methodology to scale up bacteria transport experiments carried out in the laboratory to practical field situations. The key component of the methodology is to characterize bacteria transport not by a constant sticking efficiency, but by a range of sticking efficiency values determined from laboratory column experiments. In this study, initially, we harvested six Escherichia coli strains from springs in Kampala, the capital of Uganda, and then we carried out a number of experiments with 1.5m high columns of quartz sand with various sampling ports in order to determine the fraction of bacteria as a function of sticking efficiency. Furthermore, we developed a simple mathematical formulation, based on the steady-state analytical solution for the transport of mass in the subsurface, to arrive at bacteria concentrations as a function of transport distance. The results of the quartz sand column experiments indicated that the fractional bacteria mass and sticking efficiency of most of the strains we harvested could be adequately described by a power law. When applying the power distributions to the field situation in Kampala, we found that the transport distance required to reduce bacteria concentrations with five log units ranged from 1.5 to 23m, and this was up to three times more than when using a constant sticking efficiency. The methodology we describe is simple, can be carried out in a spreadsheet, and in addition to parameters describing transport, like pore water flow velocity and dispersion, only two constants are required, which define the relation between sticking efficiency and percentage of bacteria mass.

  6. 41 CFR 302-10.5 - May I transport a mobile home over water?

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... 41 Public Contracts and Property Management 4 2010-07-01 2010-07-01 false May I transport a mobile home over water? 302-10.5 Section 302-10.5 Public Contracts and Property Management Federal Travel... transport a mobile home over water? Yes, you may transport a mobile home over water when both the points...

  7. 41 CFR 302-10.5 - May I transport a mobile home over water?

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... 41 Public Contracts and Property Management 4 2013-07-01 2012-07-01 true May I transport a mobile home over water? 302-10.5 Section 302-10.5 Public Contracts and Property Management Federal Travel... transport a mobile home over water? Yes, you may transport a mobile home over water when both the points...

  8. 41 CFR 302-10.5 - May I transport a mobile home over water?

    Code of Federal Regulations, 2012 CFR

    2012-07-01

    ... 41 Public Contracts and Property Management 4 2012-07-01 2012-07-01 false May I transport a mobile home over water? 302-10.5 Section 302-10.5 Public Contracts and Property Management Federal Travel... transport a mobile home over water? Yes, you may transport a mobile home over water when both the points...

  9. Formation and transport of deethylatrazine and deisopropylatrazine in surface water

    USGS Publications Warehouse

    Thurman, E.M.; Meyer, M.T.; Mills, M.S.; Zimmerman, L.R.; Perry, C.A.; Goolsby, D.A.

    1994-01-01

    Field disappearance studies and a regional study of nine rivers in the Midwest Corn Belt show that deethylatrazine (DEA; 2-amino-4-chloro-6-isopropylamino-s-triazine) and deisopropylatrazine (DIA; 2-amino-4-chloro-6-ethylaminos-triazine) occur frequently in surface water that has received runoff from two parent triazine herbicides, atrazine (2-chloro-4-ethylamino-6-isopropylamino-s-triazine) and cyanazine (2-chloro-4-ethylamino-6-methylpropionitrileamino-s-triazine). The concentration of DEA and DIA in surface water varies with the hydrologic conditions of the basin and the timing of runoff, with maximum concentrations reaching 5 ??g/L (DEA + DIA). Early rainfall followed by a dry summer will result in an early peak concentration of metabolites in surface water. A wet summer will delay the maximum concentrations of metabolites and increase their runoff into surface water, occasionally resulting in a slight separation of the parent atrazine maximum concentrations from the metabolite maximum concentrations, giving a "second flush?? of triazine metabolites to surface water. Replicated field dissipation studies of atrazine and cyanazine indicate that DIA/DEA ratios will vary from 0.4 ?? 0.1 when atrazine is the major triazine present to 0.6 ?? 0.1 when significant amounts of cyanazine are present. A comparison of transport time of DEA and DIA from field plots to their appearance in surface water indicates that storage and dilution are occurring in the alluvial aquifers of the basin.

  10. Greenhouse gas simulations with a coupled meteorological and transport model: the predictability of CO2

    NASA Astrophysics Data System (ADS)

    Polavarapu, Saroja M.; Neish, Michael; Tanguay, Monique; Girard, Claude; de Grandpré, Jean; Semeniuk, Kirill; Gravel, Sylvie; Ren, Shuzhan; Roche, Sébastien; Chan, Douglas; Strong, Kimberly

    2016-09-01

    A new model for greenhouse gas transport has been developed based on Environment and Climate Change Canada's operational weather and environmental prediction models. When provided with realistic posterior fluxes for CO2, the CO2 simulations compare well to NOAA's CarbonTracker fields and to near-surface continuous measurements, columns from the Total Carbon Column Observing Network (TCCON) and NOAA aircraft profiles. This coupled meteorological and tracer transport model is used to study the predictability of CO2. Predictability concerns the quantification of model forecast errors and thus of transport model errors. CO2 predictions are used to compute model-data mismatches when solving flux inversion problems and the quality of such predictions is a major concern. Here, the loss of meteorological predictability due to uncertain meteorological initial conditions is shown to impact CO2 predictability. The predictability of CO2 is shorter than that of the temperature field and increases near the surface and in the lower stratosphere. When broken down into spatial scales, CO2 predictability at the very largest scales is mainly due to surface fluxes but there is also some sensitivity to the land and ocean surface forcing of meteorological fields. The predictability due to the land and ocean surface is most evident in boreal summer when biospheric uptake produces large spatial gradients in the CO2 field. This is a newly identified source of uncertainty in CO2 predictions but it is expected to be much less significant than uncertainties in fluxes. However, it serves as an upper limit for the more important source of transport error and loss of predictability, which is due to uncertain meteorological analyses. By isolating this component of transport error, it is demonstrated that CO2 can only be defined on large spatial scales due to the presence of meteorological uncertainty. Thus, for a given model, there is a spatial scale below which fluxes cannot be inferred simply

  11. Mathematical Model Formulation And Validation Of Water And Solute Transport In Whole Hamster Pancreatic Islets

    PubMed Central

    Benson, Charles T.; Critser, John K.

    2014-01-01

    Optimization of cryopreservation protocols for cells and tissues requires accurate models of heat and mass transport. Model selection often depends on the configuration of the tissue. Here, a mathematical and conceptual model of water and solute transport for whole hamster pancreatic islets has been developed and experimentally validated incorporating fundamental biophysical data from previous studies on individual hamster islet cells while retaining whole-islet structural information. It describes coupled transport of water and solutes through the islet by three methods: intracellularly, intercellularly, and in combination. In particular we use domain decomposition techniques to couple a transmembrane flux model with an interstitial mass transfer model. The only significant undetermined variable is the cellular surface area which is in contact with the intercellularly transported solutes, Ais. The model was validated and Ais determined using a 3 × 3 factorial experimental design blocked for experimental day. Whole islet physical experiments were compared with model predictions at three temperatures, three perfusing solutions, and three islet size groups. A mean of 4.4 islets were compared at each of the 27 experimental conditions and found to correlate with a coefficient of determination of 0.87 ± 0.06 (mean ± S.D.). Only the treatment variable of perfusing solution was found to be significant (p < 0.05). We have devised a model that retains much of the intrinsic geometric configuration of the system, and thus fewer laboratory experiments are needed to determine model parameters and thus to develop new optimized cryopreservation protocols. Additionally, extensions to ovarian follicles and other concentric tissue structures may be made. PMID:24950195

  12. Dehydration, stress, and water consumption of horses during long-distance commercial transport.

    PubMed

    Friend, T H

    2000-10-01

    The aim of this study was to characterize progressive dehydration, stress responses, and water consumption patterns of horses transported long distances in hot weather and to estimate recovery time after 30 h of transport. Thirty adult mares and geldings were deprived of access to feed and water for 6 h, blocked by age, sex, breed, and body condition score, and assigned to one of the following treatments: penned, offered water (Penned/Watered, n = 5); penned, no water (Penned, n = 5); transported, offered water (Transported/Watered, two groups of n = 5); or transported, no water (Transported, two groups of n = 5). None of the horses had access to feed while on treatment. A commercial, single-deck, open-top, 15.8-m-long trailer was divided into four compartments to accommodate the two Transported/Watered and two Transported groups at 1.77 m2 per horse. At 8, 17, 22, 27, 30, and 33 h after initiation of transport, the truck returned and stopped for 1 h to allow for data collection and to give the Transported/Watered and Penned/Watered horses 10 min of access to water in individual buckets. Treatments for the non-watered horses (Penned and Transported) were terminated after 30 h due to dehydration and fatigue, whereas the watered horses (Penned/Watered and Transported/Watered) could continue for another 2 h. Mean weight loss after 30 h was greater in the Penned (57.1 kg, 12.8%) and Transported (52.2 kg, 10.3%) groups than in the Transported/Watered (20.7 kg, 4.0%) and Penned/Watered (17 kg, 3.5%) groups (P < 0.0001). Respiration, heart rate, sodium, chloride, total protein, and osmolality were significantly elevated in the non-watered horses (P < 0.0001), and sodium, chloride, total protein, and osmolality greatly exceeded normal reference ranges, indicating severe dehydration. Although not statistically significant, the horses penned in full sun, with or without water, had a dehydration response that was slightly greater than that of the transported horses. Plasma

  13. Improved algorithms and coupled neutron-photon transport for auto-importance sampling method

    NASA Astrophysics Data System (ADS)

    Wang, Xin; Li, Jun-Li; Wu, Zhen; Qiu, Rui; Li, Chun-Yan; Liang, Man-Chun; Zhang, Hui; Gang, Zhi; Xu, Hong

    2017-01-01

    The Auto-Importance Sampling (AIS) method is a Monte Carlo variance reduction technique proposed for deep penetration problems, which can significantly improve computational efficiency without pre-calculations for importance distribution. However, the AIS method is only validated with several simple examples, and cannot be used for coupled neutron-photon transport. This paper presents improved algorithms for the AIS method, including particle transport, fictitious particle creation and adjustment, fictitious surface geometry, random number allocation and calculation of the estimated relative error. These improvements allow the AIS method to be applied to complicated deep penetration problems with complex geometry and multiple materials. A Completely coupled Neutron-Photon Auto-Importance Sampling (CNP-AIS) method is proposed to solve the deep penetration problems of coupled neutron-photon transport using the improved algorithms. The NUREG/CR-6115 PWR benchmark was calculated by using the methods of CNP-AIS, geometry splitting with Russian roulette and analog Monte Carlo, respectively. The calculation results of CNP-AIS are in good agreement with those of geometry splitting with Russian roulette and the benchmark solutions. The computational efficiency of CNP-AIS for both neutron and photon is much better than that of geometry splitting with Russian roulette in most cases, and increased by several orders of magnitude compared with that of the analog Monte Carlo. Supported by the subject of National Science and Technology Major Project of China (2013ZX06002001-007, 2011ZX06004-007) and National Natural Science Foundation of China (11275110, 11375103)

  14. Coupled Aerodynamic and Structural Sensitivity Analysis of a High-Speed Civil Transport

    NASA Technical Reports Server (NTRS)

    Mason, B. H.; Walsh, J. L.

    2001-01-01

    An objective of the High Performance Computing and Communication Program at the NASA Langley Research Center is to demonstrate multidisciplinary shape and sizing optimization of a complete aerospace vehicle configuration by using high-fidelity, finite-element structural analysis and computational fluid dynamics aerodynamic analysis. In a previous study, a multi-disciplinary analysis system for a high-speed civil transport was formulated to integrate a set of existing discipline analysis codes, some of them computationally intensive, This paper is an extension of the previous study, in which the sensitivity analysis for the coupled aerodynamic and structural analysis problem is formulated and implemented. Uncoupled stress sensitivities computed with a constant load vector in a commercial finite element analysis code are compared to coupled aeroelastic sensitivities computed by finite differences. The computational expense of these sensitivity calculation methods is discussed.

  15. Electrical and thermal transport in the quasiatomic limit of coupled Luttinger liquids

    NASA Astrophysics Data System (ADS)

    Szasz, Aaron; Ilan, Roni; Moore, Joel E.

    2017-02-01

    We introduce a new model for quasi-one-dimensional materials, motivated by intriguing but not yet well-understood experiments that have shown two-dimensional polymer films to be promising materials for thermoelectric devices. We consider a two-dimensional material consisting of many one-dimensional systems, each treated as a Luttinger liquid, with weak (incoherent) coupling between them. This approximation of strong interactions within each one-dimensional chain and weak coupling between them is the "quasiatomic limit." We find integral expressions for the (interchain) transport coefficients, including the electrical and thermal conductivities and the thermopower, and we extract their power law dependencies on temperature. Luttinger liquid physics is manifested in a violation of the Wiedemann-Franz law; the Lorenz number is larger than the Fermi liquid value by a factor between γ2 and γ4, where γ ≥1 is a measure of the electron-electron interaction strength in the system.

  16. Structural basis of GDP release and gating in G protein coupled Fe2+ transport

    PubMed Central

    Guilfoyle, Amy; Maher, Megan J; Rapp, Mikaela; Clarke, Ronald; Harrop, Stephen; Jormakka, Mika

    2009-01-01

    G proteins are key molecular switches in the regulation of membrane protein function and signal transduction. The prokaryotic membrane protein FeoB is involved in G protein coupled Fe2+ transport, and is unique in that the G protein is directly tethered to the membrane domain. Here, we report the structure of the soluble domain of FeoB, including the G protein domain, and its assembly into an unexpected trimer. Comparisons between nucleotide free and liganded structures reveal the closed and open state of a central cytoplasmic pore, respectively. In addition, these data provide the first observation of a conformational switch in the nucleotide-binding G5 motif, defining the structural basis for GDP release. From these results, structural parallels are drawn to eukaryotic G protein coupled membrane processes. PMID:19629046

  17. EPW: Electron-phonon coupling, transport and superconducting properties using maximally localized Wannier functions

    NASA Astrophysics Data System (ADS)

    Poncé, S.; Margine, E. R.; Verdi, C.; Giustino, F.

    2016-12-01

    The EPW (Electron-Phonon coupling using Wannier functions) software is a Fortran90 code that uses density-functional perturbation theory and maximally localized Wannier functions for computing electron-phonon couplings and related properties in solids accurately and efficiently. The EPW v4 program can be used to compute electron and phonon self-energies, linewidths, electron-phonon scattering rates, electron-phonon coupling strengths, transport spectral functions, electronic velocities, resistivity, anisotropic superconducting gaps and spectral functions within the Migdal-Eliashberg theory. The code now supports spin-orbit coupling, time-reversal symmetry in non-centrosymmetric crystals, polar materials, and k and q-point parallelization. Considerable effort was dedicated to optimization and parallelization, achieving almost a ten times speedup with respect to previous releases. A computer test farm was implemented to ensure stability and portability of the code on the most popular compilers and architectures. Since April 2016, version 4 of the EPW code is fully integrated in and distributed with the Quantum ESPRESSO package, and can be downloaded through QE-forge at http://qe-forge.org/gf/project/q-e.

  18. Coupled Geochemical and Reactive Transport Modeling of Organic Contaminants in a Pyrite-Rich Aquifer

    NASA Astrophysics Data System (ADS)

    Sarioglu, S. M.; Copty, N. K.

    2004-12-01

    Although pH is recognized as a key factor influencing bacterial activity, existing groundwater transport models generally do not directly account for the effect of pH on the biodegradation of organic compounds. The purpose of this study is to develop a coupled reactive transport and geochemical model that explicitly incorporates the effect of spatial and temporal variations of the pH on the biodegradation of organic contaminants. The model consists of two modules: a transport module and a geochemical module. The transport module uses a Crank-Nicholson finite-difference formulation to solve the groundwater flow and transport equations for the hydrocarbon, dissolved oxygen, microbial mass and all reactive groundwater species influencing the hydrocarbon biodegradation and pH distribution. The geochemical module allows for the simulation of both kinetically defined as well as geochemical equilibrium reactions. The governing non-linear system of equations is solved using an iterative multi-step operator-splitting algorithm. Both modules account for heterogeneity in the definition of the hydrogeological and biochemical parameters. For demonstration, the model is applied to a hypothetical pyrite-rich aquifer contaminated with petroleum hydrocarbons. A commonly used practice for the remediation of aquifers contaminated with petroleum hydrocarbons is the delivery of oxygen for the enhanced aerobic biodegradation of the organic contaminant. However, the presence of pyrite may interfere with the intended purpose of the supplied oxygen, leading to undesirable side effects. Specifically, oxygen readily reacts with the sulfide minerals leading to depletion of oxygen and acidification of the subsurface environment and, subsequently, the inadvertent inhibition of the microbial activity. The developed coupled geochemical and reactive transport model is used to quantify these processes and assess the dominance of the various chemical reactions. Both abiotic and biotic pyrite

  19. Water Transport and the Evolution of CM Parent Bodies

    NASA Technical Reports Server (NTRS)

    Coker, R.; Cohen, B.

    2014-01-01

    Extraterrestrial water-bearing minerals are of great importance both for understanding the formation and evolution of the solar system and for supporting future human activities in space. Asteroids are the primary source of meteorites, many of which show evidence of an early heating episode and varying degrees of aqueous alteration. The origin and characterization of hydrated minerals (minerals containing H2O or OH) among both the main-belt and near-earth asteroids is important for understanding a wide range of solar system formation and evolutionary processes, as well as for planning for human exploration. Current hypotheses postulate asteroids began as mixtures of water ice and anhydrous silicates. A heating event early in solar system history was then responsible for melting the ice and driving aqueous alteration. The link between asteroids and meteorites is forged by reflectance spectra, which show 3-µm bands indicative of bound OH or H2O on the C-class asteroids, which are believed to be the parent bodies of the carbonaceous chondrites in our collections. The conditions at which aqueous alteration occurred in the parent bodies of carbonaceous chondrites are thought to be well-constrained: at 0-25 C for less than 15 Myr after asteroid formation. In previous models, many scenarios exhibit peak temperatures of the rock and co-existing liquid water in more than 75 percent of the asteroid's volume rising to 150 C and higher, due to the exothermic hydration reactions triggering a thermal runaway effect. However, even in a high porosity, water-saturated asteroid very limited liquid water flow is predicted (distances of 100's nm at most). This contradiction has yet to be resolved. Still, it may be possible for water to become liquid even in the near-surface environment, for a long enough time to drive aqueous alteration before vaporizing or freezing then subliming. Thus, we are using physics- and chemistry-based models that include thermal and fluid transport as well

  20. Discrete and continuum links to a nonlinear coupled transport problem of interacting populations

    NASA Astrophysics Data System (ADS)

    Duong, M. H.; Muntean, A.; Richardson, O. M.

    2017-02-01

    We are interested in exploring interacting particle systems that can be seen as microscopic models for a particular structure of coupled transport flux arising when different populations are jointly evolving. The scenarios we have in mind are inspired by the dynamics of pedestrian flows in open spaces and are intimately connected to cross-diffusion and thermo-diffusion problems holding a variational structure. The tools we use include a suitable structure of the relative entropy controlling TV-norms, the construction of Lyapunov functionals and particular closed-form solutions to nonlinear transport equations, a hydrodynamics limiting procedure due to Philipowski, as well as the construction of numerical approximates to both the continuum limit problem in 2D and to the original interacting particle systems.

  1. Hormonal regulation of ion and water transport in anuran amphibians.

    PubMed

    Uchiyama, Minoru; Konno, Norifumi

    2006-05-15

    Amphibians occupy a wide variety of ecological habitats, and their adaptation is made possible through the specialization of the epithelia of their osmoregulatory organs, such as the skin, kidney, and urinary bladder, which control the hydromineral and acid-base balance of their internal medium. Amphibians can change drastically plasma Na+, Cl-, and urea levels and excretion rates in response to environmental stimuli such as acute desiccation and changes in external salinity. Several hormones and the autonomic nervous system act to control osmoregulation. Several ion channels including an epithelial sodium channel (ENaC), a urea transporter (UT), and water channels (AQPs) are found in epithelial tissues of their osmoregulatory organs. This mini review examines the currents status of our knowledge about hormone receptors for arginine vasotocin, angiotensin II and aldosterone, and membrane ion channels and transporters, such as ENaC, UT, and AQPs in amphibians.

  2. Modeling strongly coupled quark gluon plasmas: hydro vs transport vs general relativity

    NASA Astrophysics Data System (ADS)

    Gyulassy, Miklos

    2008-04-01

    The discovery of near perfect fluid flow and very high jet opacity in nuclear collisions at 200 AGeV at RHIC/BNL have challenged traditional weak coupling perturbative QCD modeling of quark gluon plasmas. A critical assessment of current theoretical uncertainties facing competing approaches based on relativistic hydrodynamics, quasi-parton transport dynamics, and novel string theory inspired general relativity modeling will be presented. Special focus will be on identified (charm and bottom) heavy quark jets that will serve as powerful probes in upcoming RHIC and LHC experiments to better constrain the initial conditions as well as energy loss mechanisms leading to rapid equilibration in ultra-relativistic nuclear collisions.

  3. Method and apparatus for measuring coupled flow, transport, and reaction processes under liquid unsaturated flow conditions

    DOEpatents

    McGrail, Bernard P.; Martin, Paul F.; Lindenmeier, Clark W.

    1999-01-01

    The present invention is a method and apparatus for measuring coupled flow, transport and reaction processes under liquid unsaturated flow conditions. The method and apparatus of the present invention permit distinguishing individual precipitation events and their effect on dissolution behavior isolated to the specific event. The present invention is especially useful for dynamically measuring hydraulic parameters when a chemical reaction occurs between a particulate material and either liquid or gas (e.g. air) or both, causing precipitation that changes the pore structure of the test material.

  4. Parallel processing implementation for the coupled transport of photons and electrons using OpenMP

    NASA Astrophysics Data System (ADS)

    Doerner, Edgardo

    2016-05-01

    In this work the use of OpenMP to implement the parallel processing of the Monte Carlo (MC) simulation of the coupled transport for photons and electrons is presented. This implementation was carried out using a modified EGSnrc platform which enables the use of the Microsoft Visual Studio 2013 (VS2013) environment, together with the developing tools available in the Intel Parallel Studio XE 2015 (XE2015). The performance study of this new implementation was carried out in a desktop PC with a multi-core CPU, taking as a reference the performance of the original platform. The results were satisfactory, both in terms of scalability as parallelization efficiency.

  5. Virus fate and transport during artificial recharge with recycled water

    NASA Astrophysics Data System (ADS)

    Anders, Robert; Chrysikopoulos, C. V.

    2005-10-01

    A field-scale experiment was conducted at a research site using bacterial viruses (bacteriophage) MS2 and PRD1 as surrogates for human viruses, bromide as a conservative tracer, and tertiary-treated municipal wastewater (recycled water) to investigate the fate and transport of viruses during artificial recharge. Observed virus concentrations were fitted using a mathematical model that simulates virus transport in one-dimensional, homogeneous, water-saturated porous media accounting for virus sorption (or filtration), virus inactivation, and time-dependent source concentration. The fitted time-dependent clogging rate constants were used to estimate the collision efficiencies for bacteriophage MS2 and PRD1 during vertical fully saturated flow. Furthermore, the corresponding time-dependent collision efficiencies for both bacteriophage asymptotically reached similar values at the various sampling locations. These results can be used to develop an optimal management scenario to maximize the amount of recycled water that can be applied to the spreading grounds while still maintaining favorable attachment conditions for virus removal.

  6. Virus fate and transport during artificial recharge with recycled water

    USGS Publications Warehouse

    Anders, R.; Chrysikopoulos, C.V.

    2005-01-01

    [1] A field-scale experiment was conducted at a research site using bacterial viruses (bacteriophage) MS2 and PRD1 as surrogates for human viruses, bromide as a conservative tracer, and tertiary-treated municipal wastewater (recycled water) to investigate the fate and transport of viruses during artificial recharge. Observed virus concentrations were fitted using a mathematical model that simulates virus transport in one-dimensional, homogeneous, water-saturated porous media accounting for virus sorption (or filtration), virus inactivation, and time-dependent source concentration. The fitted time-dependent clogging rate constants were used to estimate the collision efficiencies for bacteriophage MS2 and PRD1 during vertical fully saturated flow. Furthermore, the corresponding time-dependent collision efficiencies for both bacteriophage asymptotically reached similar values at the various sampling locations. These results can be used to develop an optimal management scenario to maximize the amount of recycled water that can be applied to the spreading grounds while still maintaining favorable attachment conditions for virus removal. Copyright 2005 by the American Geophysical Union.

  7. Interstitial Fibrosis Restricts Osmotic Water Transport in Encapsulating Peritoneal Sclerosis.

    PubMed

    Morelle, Johann; Sow, Amadou; Hautem, Nicolas; Bouzin, Caroline; Crott, Ralph; Devuyst, Olivier; Goffin, Eric

    2015-10-01

    Encapsulating peritoneal sclerosis (EPS) is a rare but severe complication of peritoneal dialysis (PD) characterized by extensive fibrosis of the peritoneum. Changes in peritoneal water transport may precede EPS, but the mechanisms and potential predictive value of that transport defect are unknown. Among 234 patients with ESRD who initiated PD at our institution over a 20-year period, 7 subsequently developed EPS. We evaluated changes in peritoneal transport over time on PD in these 7 patients and in 28 matched controls using 3.86% glucose peritoneal equilibration tests. Compared with long-term PD controls, patients with EPS showed early loss of ultrafiltration capacity and sodium sieving before the onset of overt EPS. Multivariate analysis revealed that loss of sodium sieving was the most powerful predictor of EPS. Compared with long-term PD control and uremic peritoneum, EPS peritoneum showed thicker submesothelial fibrosis, with increased collagen density and a greater amount of thick collagen fibers. Reduced osmotic conductance strongly correlated with the degree of peritoneal fibrosis, but not with vasculopathy. Peritoneal fibrosis was paralleled by an excessive upregulation of vascular endothelial growth factor and endothelial nitric oxide synthase, but the expression of endothelial aquaporin-1 water channels was unaltered. Our findings suggest that an early and disproportionate reduction in osmotic conductance during the course of PD is an independent predictor of EPS. This functional change is linked to specific alterations of the collagen matrix in the peritoneal membrane of patients with EPS, thereby validating the serial three-pore membrane/fiber matrix and distributed models of peritoneal transport.

  8. Theory of electron-vibration coupling in the electron transport of molecular bridges

    NASA Astrophysics Data System (ADS)

    Tsukada, Masaru; Mitsutake, Kunihiro

    2006-03-01

    Electron transport through molecules connecting nano-electrodes is the key issue for molecular devices. The competition and coexistence of the coherent and dissipative transport are unresolved issue, in spite of its importance. In this work, this problem is investigated by a novel theoretical approach of an ab initio molecular orbital model with combining polaron effect. When carriers are injected into molecules from electrodes, the structure of the molecule changes, which leads the coupling term of the electron/hole and the molecular vibration. The model Hamiltonian for the thiophene oligomer is solved by a variational approach, and a mixed states of dressed polaron with molecular orbital states mediated by the phonon cloud is found. The former and latter are predominant for small or large transfer integral, respectively. The excited states can be calculated in the same framework as the ground state. The overall carrier transport properties can be analyzed by solving the master equation with the transition rate estimated by the golden rule including the phonon degrees of freedom. In this theoretical approach, the coherent and dissipative electron transport through molecular bridges can be described in a uniform systematic way.

  9. Role of inter-tube coupling and quantum interference on electrical transport in carbon nanotube junctions

    NASA Astrophysics Data System (ADS)

    Tripathy, Srijeet; Bhattacharyya, Tarun Kanti

    2016-09-01

    Due to excellent transport properties, Carbon nanotubes (CNTs) show a lot of promise in sensor and interconnect technology. However, recent studies indicate that the conductance in CNT/CNT junctions are strongly affected by the morphology and orientation between the tubes. For proper utilization of such junctions in the development of CNT based technology, it is essential to study the electronic properties of such junctions. This work presents a theoretical study of the electrical transport properties of metallic Carbon nanotube homo-junctions. The study focuses on discerning the role of inter-tube interactions, quantum interference and scattering on the transport properties on junctions between identical tubes. The electronic structure and transport calculations are conducted with an Extended Hückel Theory-Non Equilibrium Green's Function based model. The calculations indicate conductance to be varying with a changing crossing angle, with maximum conductance corresponding to lattice registry, i.e. parallel configuration between the two tubes. Further calculations for such parallel configurations indicate onset of short and long range oscillations in conductance with respect to changing overlap length. These oscillations are attributed to inter-tube coupling effects owing to changing π orbital overlap, carrier scattering and quantum interference of the incident, transmitted and reflected waves at the inter-tube junction.

  10. Ab initio transport calculations of molecular wires with electron-phonon couplings

    NASA Astrophysics Data System (ADS)

    Hirose, Kenji; Kobayashi, Nobuhiko

    2009-03-01

    Understanding of electron transport through nanostructures becomes important with the advancement of fabrication process to construct atomic-scale devices. Due to the drastic change of transport properties by contact conditions to electrodes in local electric fields, first-principles calculation approaches are indispensable to understand and characterize the transport properties of nanometer-scale molecular devices. Here we study the transport properties of molecular wires between metallic electrodes, especially focusing on the effects of contacts to electrodes and of the electron-phonon interactions. We use an ab initio calculation method based on the scattering waves, which are obtained by the recursion-transfer-matrix (RTM) method, combined with non-equilibrium Green's function (NEGF) method including the electron-phonon scatterings. We find that conductance shows exponential behaviors as a function of the length of molecular wires due to tunneling process determined by the HOMO-LUMO energy gap. From the voltage drop behaviors inside the molecular wires, we show that the contact resistances are dominant source for the bias drop and thus are related to local heating. We will present the electron-phonon coupling effects at contact on the inelastic scattering and discuss on the local heating and local temperature, comparing them with those of metallic atomic wires.

  11. Proton-coupled electron transfer: the mechanistic underpinning for radical transport and catalysis in biology.

    PubMed

    Reece, Steven Y; Hodgkiss, Justin M; Stubbe, JoAnne; Nocera, Daniel G

    2006-08-29

    Charge transport and catalysis in enzymes often rely on amino acid radicals as intermediates. The generation and transport of these radicals are synonymous with proton-coupled electron transfer (PCET), which intrinsically is a quantum mechanical effect as both the electron and proton tunnel. The caveat to PCET is that proton transfer (PT) is fundamentally limited to short distances relative to electron transfer (ET). This predicament is resolved in biology by the evolution of enzymes to control PT and ET coordinates on highly different length scales. In doing so, the enzyme imparts exquisite thermodynamic and kinetic controls over radical transport and radical-based catalysis at cofactor active sites. This discussion will present model systems containing orthogonal ET and PT pathways, thereby allowing the proton and electron tunnelling events to be disentangled. Against this mechanistic backdrop, PCET catalysis of oxygen-oxygen bond activation by mono-oxygenases is captured at biomimetic porphyrin redox platforms. The discussion concludes with the case study of radical-based quantum catalysis in a natural biological enzyme, class I Escherichia coli ribonucleotide reductase. Studies are presented that show the enzyme utilizes both collinear and orthogonal PCET to transport charge from an assembled diiron-tyrosyl radical cofactor to the active site over 35A away via an amino acid radical-hopping pathway spanning two protein subunits.

  12. Coupled effects of solution chemistry and hydrodynamics on the mobility and transport of quantum dot nanomaterials in the Vadose Zone

    Technology Transfer Automated Retrieval System (TEKTRAN)

    To investigate the coupled effects of solution chemistry and vadose zone processes on the mobility of quantum dot (QD) nanoparticles, laboratory scale transport experiments were performed. The complex coupled effects of ionic strength, size of QD aggregates, surface tension, contact angle, infiltrat...

  13. Water flow and solute transport in floating fen root mats

    NASA Astrophysics Data System (ADS)

    Stofberg, Sija F.; EATM van der Zee, Sjoerd

    2015-04-01

    be very similar and likely functionally related. Our experimental field data were used for modelling water flow and solute transport in floating fens, using HYDRUS 2D. Fluctuations of surface water and root mat, as well as geometry and unsaturated zone parameters can have a major influence on groundwater fluctuations and the exchange between rain and surface water and the water in the root mats. In combination with the duration of salt pulses in surface water, and sensitivity of fen plants to salinity (Stofberg et al. 2014, submitted), risks for rare plants can be anticipated.

  14. Aluminum in acidic surface waters: chemistry, transport, and effects.

    PubMed Central

    Driscoll, C T

    1985-01-01

    Ecologically significant concentrations of Al have been reported in surface waters draining "acid-sensitive" watersheds that are receiving elevated inputs of acidic deposition. It has been hypothesized that mineral acids from atmospheric deposition have remobilized Al previously precipitated within the soil during soil development. This Al is then thought to be transported to adjacent surface waters. Dissolved mononuclear Al occurs as aquo Al, as well as OH-, F-, SO4(2-), and organic complexes. Although past investigations have often ignored non-hydroxide complexes of Al, it appears that organic and F complexes are the predominant forms of Al in dilute (low ionic strength) acidic surface waters. The concentration of inorganic forms of Al increases exponentially with decreases in solution pH. This response is similar to the theoretical pH dependent solubility of Al mineral phases. The concentration of organic forms of Al, however, is strongly correlated with variations in organic carbon concentration of surface waters rather than pH. Elevated concentrations of Al in dilute acidic waters are of interest because: Al is an important pH buffer; Al may influence the cycling of important elements like P, organic carbon, and trace metals; and Al is potentially toxic to aquatic organisms. An understanding of the aqueous speciation of Al is essential for an evaluation of these processes. PMID:3935428

  15. Experimental investigation of dynamical coupling between turbulent transport and parallel flows in the JET plasma-boundary region.

    PubMed

    Hidalgo, C; Gonçalves, B; Silva, C; Pedrosa, M A; Erents, K; Hron, M; Matthews, G F

    2003-08-08

    The dynamical coupling between turbulent transport and parallel flows has been investigated in the plasma boundary region of the Joint European Torus tokamak. Experimental results show that there is a dynamical relationship between transport and parallel flows. As the size of transport events increases, parallel flows also increase. These results show that turbulent transport can drive parallel flows in the plasma boundary of fusion plasmas. This new type of measurement is an important element to unravel the overall picture connecting radial transport and flows in fusion plasmas.

  16. Dynamically coupled 3D pollutant dispersion model for assessing produced water discharges in the Canadian offshore area.

    PubMed

    Zhao, Lin; Chen, Zhi; Lee, Kenneth

    2013-02-05

    Produced water is the contaminated water that is brought to the surface in the process of recovering oil and gas. On the basis of discharge volume, this type of contaminated water is the largest contributor to the offshore waste stream. Modeling studies of large amounts of wastewater discharge into offshore areas have helped in the understanding of pollutant dispersion behaviors in marine environments and in further evaluating the potential environmental effects resulting from produced water discharges. This study presents an integrated three-dimensional (3D) approach for the simulation of produced water discharges in offshore areas. Specifically, an explicit second-order finite difference method was used to model the far-field pollutant dispersion behavior, and this method was coupled with the jet-plume model JETLAG with an extension of the 3D cross-flow conditions to simulate the near-field mixing processes. A dynamic coupling technique with full consideration of the interaction between the discharged fluids and receiving waters was employed in the model. A case study was conducted on the Grand Banks of Newfoundland, Canada. The field validation of the modeling results was conducted for both the near-field and far-field dispersion processes, and the modeling results were in good agreement with the field observations. This study provides an integrated system tool for the simulation of complex transport processes in offshore areas, and the results from such modeling systems can be further used for the risk assessment analysis of the surface water environment.

  17. Substrate-modulated gating dynamics in a Na+-coupled neurotransmitter transporter homologue.

    PubMed

    Zhao, Yongfang; Terry, Daniel S; Shi, Lei; Quick, Matthias; Weinstein, Harel; Blanchard, Scott C; Javitch, Jonathan A

    2011-06-02

    Neurotransmitter/Na(+) symporters (NSSs) terminate neuronal signalling by recapturing neurotransmitter released into the synapse in a co-transport (symport) mechanism driven by the Na(+) electrochemical gradient. NSSs for dopamine, noradrenaline and serotonin are targeted by the psychostimulants cocaine and amphetamine, as well as by antidepressants. The crystal structure of LeuT, a prokaryotic NSS homologue, revealed an occluded conformation in which a leucine (Leu) and two Na(+) are bound deep within the protein. This structure has been the basis for extensive structural and computational exploration of the functional mechanisms of proteins with a LeuT-like fold. Subsequently, an 'outward-open' conformation was determined in the presence of the inhibitor tryptophan, and the Na(+)-dependent formation of a dynamic outward-facing intermediate was identified using electron paramagnetic resonance spectroscopy. In addition, single-molecule fluorescence resonance energy transfer imaging has been used to reveal reversible transitions to an inward-open LeuT conformation, which involve the movement of transmembrane helix TM1a away from the transmembrane helical bundle. We investigated how substrate binding is coupled to structural transitions in LeuT during Na(+)-coupled transport. Here we report a process whereby substrate binding from the extracellular side of LeuT facilitates intracellular gate opening and substrate release at the intracellular face of the protein. In the presence of alanine, a substrate that is transported ∼10-fold faster than leucine, we observed alanine-induced dynamics in the intracellular gate region of LeuT that directly correlate with transport efficiency. Collectively, our data reveal functionally relevant and previously hidden aspects of the NSS transport mechanism that emphasize the functional importance of a second substrate (S2) binding site within the extracellular vestibule. Substrate binding in this S2 site appears to act cooperatively

  18. Subsurface Transport Over Reactive Multiphases (STORM): A general, coupled, nonisothermal multiphase flow, reactive transport, and porous medium alteration simulator, Version 2 user's guide

    SciTech Connect

    DH Bacon; MD White; BP McGrail

    2000-03-07

    The Hanford Site, in southeastern Washington State, has been used extensively to produce nuclear materials for the US strategic defense arsenal by the Department of Energy (DOE) and its predecessors, the US Atomic Energy Commission and the US Energy Research and Development Administration. A large inventory of radioactive and mixed waste has accumulated in 177 buried single- and double shell tanks. Liquid waste recovered from the tanks will be pretreated to separate the low-activity fraction from the high-level and transuranic wastes. Vitrification is the leading option for immobilization of these wastes, expected to produce approximately 550,000 metric tons of Low Activity Waste (LAW) glass. This total tonnage, based on nominal Na{sub 2}O oxide loading of 20% by weight, is destined for disposal in a near-surface facility. Before disposal of the immobilized waste can proceed, the DOE must approve a performance assessment, a document that described the impacts, if any, of the disposal facility on public health and environmental resources. Studies have shown that release rates of radionuclides from the glass waste form by reaction with water determine the impacts of the disposal action more than any other independent parameter. This report describes the latest accomplishments in the development of a computational tool, Subsurface Transport Over Reactive Multiphases (STORM), Version 2, a general, coupled non-isothermal multiphase flow and reactive transport simulator. The underlying mathematics in STORM describe the rate of change of the solute concentrations of pore water in a variably saturated, non-isothermal porous medium, and the alteration of waste forms, packaging materials, backfill, and host rocks.

  19. A coupled model of soil water-heat-solute movement under the mulched drip irrigation condition

    NASA Astrophysics Data System (ADS)

    Hu, H.; Tian, F.; Gao, L.; Hu, H.

    2010-12-01

    : The mulched drip irrigation (MDI), first developed in northwestern part of China (Xinjiang Province) in the cotton field in 1996, can obtain higher yield while at the lower cost of water consumption and thus becomes popular rapidly. However, it has the potential risk of salinizing the arable soil. Also, plastic film can alter the energy balance at the ground surface and invoke the regime shifting of soil heat transfer. It is, therefore, necessary to simulate the inter-related movement of water, heat, and dissolvable solute in the soil under the MDI condition for the purpose of sustainable agricultural production as well as of climate change issue. With the different boundary condition and irrigation rate, the transportation and distribution features of water-heat-salt under the MDI condition are significantly different from those under the other irrigation methods. The existing tools such as HYDRUS and VS2DH(T) could not set up the special boundary condition relevant to MDI, e.g., the moving ponded area. A new two-dimensional numerical model of Richard’s equation and Convection-Dispersion equations was developed which coupled soil water, solute, and heat together. For the homogenous and isotropic porous media, the soil water-heat-solute movement under the MDI condition is considered as 2D problem. The Richards and solute convection-diffusive equations are transformed into ordinary differential equations (ODEs) through spatial semi-discretization, and so do the corresponding boundary conditions. The resultant ODEs are solved using a state-of-the-art solver, CVODE developed at the Lawrence Livermore National Laboratory. The model is validated against the numerical examples as well as the field data. The results show the high numerical efficiency, the high simulation accuracy, and the flexibility of the model to mimic changing boundary conditions. Key words: numerical model, Richard’s equation, Convection-Diffusive equation, CVODE

  20. THE IMPACT OF GROUND WATER-SURFACE WATER INTERACTIONS ON CONTAMINANT TRANSPORT AT CONTAMINATED SITES

    EPA Science Inventory

    The purpose of this document is to provide an overview of the dynamics of chemical processes that govern contaminant transport and speciation during water exchange across the GW/SW transition zone. A conceptual model of the GW/SW transition zone is defined to serve as a starting...

  1. Computational implementation of interfacial kinetic transport theory for water vapour transport in porous media.

    PubMed

    Albaalbaki, Bashar; Hill, Reghan J

    2014-01-08

    A computational framework is developed for applying interfacial kinetic transport theory to predict water vapour permeability of porous media. Modified conservation equations furnish spatially periodic disturbances from which the average flux and, thus, the effective diffusivity is obtained. The equations are solved exactly for a model porous medium comprising parallel layers of gas and solid with arbitrary solid volume fraction. From the microscale effective diffusivity, a two-point boundary-value problem is solved at the macroscale to furnish the water vapour transport rate in membranes subjected to a finite RH differential. Then, the microscale model is implemented using a computational framework (extended finite-element method) to examine the role of particle size, aspect ratio and positioning for periodic arrays of aligned super-ellipses (model particles that pack with high density). We show that the transverse water vapour permeability can be reduced by an order of magnitude only when fibres with a high-aspect ratio cross section are packed in a periodic staggered configuration. Maximum permeability is achieved at intermediate micro-structural length scales, where gas-phase diffusion is enhanced by surface diffusion, but not limited by interfacial-exchange kinetics. The two-dimensional computations demonstrated here are intended to motivate further efforts to develop efficient computational solutions for realistic three-dimensional microstructures.

  2. Projections of Horizontal Water Vapor Transport across Europe

    NASA Astrophysics Data System (ADS)

    Lavers, D. A.

    2015-12-01

    With a warming Earth's atmosphere, the global water cycle is expected to intensify, a process that is likely to yield changes in the frequency and intensity of hydrological extremes. To quantify such changes over Europe, most previous research has been based upon precipitation scenarios. However, seldom has the horizontal water vapor transport (integrated vapor transport IVT) been investigated, a key variable responsible for heavy precipitation events and one that links water source and sink regions. It is hence the aim of this study to assess the projections of IVT across Europe. The Climate Model Intercomparison Project Phase 5 (CMIP5) is the source of the climate model projections. The historical simulations (1979-2005) and two emissions scenarios (2073-2099), or representative concentration pathways (RCP4.5 and RCP8.5) from 22 global circulation models were retrieved and evaluated. In particular, at model grid points across Europe the mean, standard deviation, and the 95th percentile of IVT were calculated for December, January, and February (Boreal winter); and for June, July, and August (Austral winter). The CMIP5 historical multi-model mean closely resembles the ECMWF ERA-Interim reanalysis. In the future under the two emissions scenarios, the IVT increases in magnitude, with the highest percentage changes occurring in the extreme emissions (RCP8.5) scenario; for example, multi-model mean IVT increases of 30% are found in the domain. An evaluation of the low-altitude moisture and winds indicates that higher atmospheric water vapor content is the primary cause of these projected changes.

  3. Particle Communication and Domain Neighbor Coupling: Scalable Domain Decomposed Algorithms for Monte Carlo Particle Transport

    SciTech Connect

    O'Brien, M. J.; Brantley, P. S.

    2015-01-20

    In order to run Monte Carlo particle transport calculations on new supercomputers with hundreds of thousands or millions of processors, care must be taken to implement scalable algorithms. This means that the algorithms must continue to perform well as the processor count increases. In this paper, we examine the scalability of:(1) globally resolving the particle locations on the correct processor, (2) deciding that particle streaming communication has finished, and (3) efficiently coupling neighbor domains together with different replication levels. We have run domain decomposed Monte Carlo particle transport on up to 221 = 2,097,152 MPI processes on the IBM BG/Q Sequoia supercomputer and observed scalable results that agree with our theoretical predictions. These calculations were carefully constructed to have the same amount of work on every processor, i.e. the calculation is already load balanced. We also examine load imbalanced calculations where each domain’s replication level is proportional to its particle workload. In this case we show how to efficiently couple together adjacent domains to maintain within workgroup load balance and minimize memory usage.

  4. Mass-corrections for the conservative coupling of flow and transport on collocated meshes

    SciTech Connect

    Waluga, Christian; Wohlmuth, Barbara; Rüde, Ulrich

    2016-01-15

    Buoyancy-driven flow models demand a careful treatment of the mass-balance equation to avoid spurious source and sink terms in the non-linear coupling between flow and transport. In the context of finite-elements, it is therefore commonly proposed to employ sufficiently rich pressure spaces, containing piecewise constant shape functions to obtain local or even strong mass-conservation. In three-dimensional computations, this usually requires nonconforming approaches, special meshes or higher order velocities, which make these schemes prohibitively expensive for some applications and complicate the implementation into legacy code. In this paper, we therefore propose a lean and conservatively coupled scheme based on standard stabilized linear equal-order finite elements for the Stokes part and vertex-centered finite volumes for the energy equation. We show that in a weak mass-balance it is possible to recover exact conservation properties by a local flux-correction which can be computed efficiently on the control volume boundaries of the transport mesh. We discuss implementation aspects and demonstrate the effectiveness of the flux-correction by different two- and three-dimensional examples which are motivated by geophysical applications.

  5. Mass-corrections for the conservative coupling of flow and transport on collocated meshes

    NASA Astrophysics Data System (ADS)

    Waluga, Christian; Wohlmuth, Barbara; Rüde, Ulrich

    2016-01-01

    Buoyancy-driven flow models demand a careful treatment of the mass-balance equation to avoid spurious source and sink terms in the non-linear coupling between flow and transport. In the context of finite-elements, it is therefore commonly proposed to employ sufficiently rich pressure spaces, containing piecewise constant shape functions to obtain local or even strong mass-conservation. In three-dimensional computations, this usually requires nonconforming approaches, special meshes or higher order velocities, which make these schemes prohibitively expensive for some applications and complicate the implementation into legacy code. In this paper, we therefore propose a lean and conservatively coupled scheme based on standard stabilized linear equal-order finite elements for the Stokes part and vertex-centered finite volumes for the energy equation. We show that in a weak mass-balance it is possible to recover exact conservation properties by a local flux-correction which can be computed efficiently on the control volume boundaries of the transport mesh. We discuss implementation aspects and demonstrate the effectiveness of the flux-correction by different two- and three-dimensional examples which are motivated by geophysical applications.

  6. Testing of a benchscale Reverse Osmosis/Coupled Transport system for treating contaminated groundwater

    SciTech Connect

    Hodgson, K.M.; Lunsford, T.R.; Panjabi, G.

    1994-01-01

    The Reverse Osmosis/Coupled Transport process is a innovative means of removing radionuclides from contaminated groundwater at the Hanford Site. Specifically, groundwater in the 200 West Area of the Hanford Site has been contaminated with uranium, technetium, and nitrate. Investigations are proceeding to determine the most cost effective method to remove these contaminants. The process described in this paper combines three different membrane technologies (reverse osmosis, coupled transport, and nanofiltration to purify the groundwater while extracting and concentrating uranium, technetium, and nitrate into separate solutions. This separation allows for the future use of the radionuclides, if needed, and reduces the amount of waste that will need to be disposed of. This process has the potential to concentrate the contaminants into solutions with volumes in a ratio of 1/10,000 of the feed volume. This compares to traditional volume reductions of 10 to 100 for ion exchange and stand-alone reverse osmosis. The successful demonstration of this technology could result in significant savings in the overall cost of decontaminating the groundwater.

  7. A mathematical model of water and nutrient transport in xylem vessels of a wheat plant.

    PubMed

    Payvandi, S; Daly, K R; Jones, D L; Talboys, P; Zygalakis, K C; Roose, T

    2014-03-01

    At a time of increasing global demand for food, dwindling land and resources, and escalating pressures from climate change, the farming industry is undergoing financial strain, with a need to improve efficiency and crop yields. In order to improve efficiencies in farming, and in fertiliser usage in particular, understanding must be gained of the fertiliser-to-crop-yield pathway. We model one aspect of this pathway; the transport of nutrients within the vascular tissues of a crop plant from roots to leaves. We present a mathematical model of the transport of nutrients within the xylem vessels in response to the evapotranspiration of water. We determine seven different classes of flow, including positive unidirectional flow, which is optimal for nutrient transport from the roots to the leaves; and root multidirectional flow, which is similar to the hydraulic lift process observed in plants. We also investigate the effect of diffusion on nutrient transport and find that diffusion can be significant at the vessel termini especially if there is an axial efflux of nutrient, and at night when transpiration is minimal. Models such as these can then be coupled to whole-plant models to be used for optimisation of nutrient delivery scenarios.

  8. Electrogenic, proton-coupled, intestinal dipeptide transport in herbivorous and carnivorous teleosts.

    PubMed

    Thamotharan, M; Gomme, J; Zonno, V; Maffia, M; Storelli, C; Ahearn, G A

    1996-05-01

    In both herbivorous tilapia (Oreochromis mossambicus) and carnivorous rockfish (Sebastes caurinus) intestinal and pyloric cecal brush-border membrane vesicles (BBMV), [14C]glycylsarcosine ([14C]Gly-Sar) uptake was stimulated by a transmembrane proton gradient. A transmembrane K(+)-diffusion potential (inside negative) stimulated [14C]Gly-Sar uptake above that observed with short-circuited vesicles, whereas an inwardly directed Na+ gradient in both fishes had no effect on peptide uptake. In tilapia, [14C]Gly-Sar influx occurred by the combination of 1) a high-affinity, saturable, proton gradient-dependent carrier system [Kt [concentration that equals one-half of maximum influx (Jmax)] = 0.56 +/- 0.08 mM; Jmax = 1,945.0 +/- 174.6 pmol.mg protein-1.10 s-1]; 2) a low-affinity, nonsaturable (within 1-10 mM), proton gradient-dependent carrier system (nonsaturable carrier-mediated transport component = 4,514.0 +/- 28.1 pmol.mg protein-1.10 s-1.mM-1); and 3) a diffusional component accounting for < 10% of total influx within the concentration range tested. Influx (10 s) of 1-10 mM [14C]Gly-Sar in tilapia intestine was significantly (P < 0.01) inhibited by 10 mM diethylpyrocarbonate, a specific inhibitor of proton-coupled peptide transport systems. [14C]Gly-Sar influx into tilapia BBMV showed cis-inhibition and trans-stimulation by Gly-Pro, suggesting that [14C]Gly-Sar and Gly-Pro shared the same mucosal peptide transporter in fish. These observations strongly suggest that intestinal transport of peptides in herbivorous and carnivorous fishes is proton gradient dependent, electrogenic, sodium independent, and qualitatively resembles the peptide transport paradigm proposed for mammals.

  9. Motor coupling through lipid membranes enhances transport velocities for ensembles of myosin Va

    PubMed Central

    Nelson, Shane R.; Trybus, Kathleen M.; Warshaw, David M.

    2014-01-01

    Myosin Va is an actin-based molecular motor responsible for transport and positioning of a wide array of intracellular cargoes. Although myosin Va motors have been well characterized at the single-molecule level, physiological transport is carried out by ensembles of motors. Studies that explore the behavior of ensembles of molecular motors have used nonphysiological cargoes such as DNA linkers or glass beads, which do not reproduce one key aspect of vesicular systems—the fluid intermotor coupling of biological lipid membranes. Using a system of defined synthetic lipid vesicles (100- to 650-nm diameter) composed of either 1,2-dioleoyl-sn-glycero-3-phosphocholine (DOPC) (fluid at room temperature) or 1,2-dipalmitoyl-sn-glycero-3-phosphocholine (DPPC) (gel at room temperature) with a range of surface densities of myosin Va motors (32–125 motors per μm2), we demonstrate that the velocity of vesicle transport by ensembles of myosin Va is sensitive to properties of the cargo. Gel-state DPPC vesicles bound with multiple motors travel at velocities equal to or less than vesicles with a single myosin Va (∼450 nm/s), whereas surprisingly, ensembles of myosin Va are able to transport fluid-state DOPC vesicles at velocities significantly faster (>700 nm/s) than a single motor. To explain these data, we developed a Monte Carlo simulation that suggests that these reductions in velocity can be attributed to two distinct mechanisms of intermotor interference (i.e., load-dependent modulation of stepping kinetics and binding-site exclusion), whereas faster transport velocities are consistent with a model wherein the normal stepping behavior of the myosin is supplemented by the preferential detachment of the trailing motor from the actin track. PMID:25201964

  10. Dispersive Transport Dynamics in a Strongly Coupled Groundwater-Brine Flow System

    NASA Astrophysics Data System (ADS)

    Oldenburg, Curtis M.; Pruess, Karsten

    1995-02-01

    Many problems in subsurface hydrology involve the flow and transport of solutes that affect liquid density. When density variations are large (>5%), the flow and transport are strongly coupled. Density variations in excess of 20% occur in salt dome and bedded-salt formations which are currently being considered for radioactive waste repositories. The widely varying results of prior numerical simulation efforts of salt dome groundwater-brine flow problems have underscored the difficulty of solving strongly coupled flow and transport equations. We have implemented a standard model for hydrodynamic dispersion in our general purpose integral finite difference simulator, TOUGH2. The residual formulation used in TOUGH2 is efficient for the strongly coupled flow problem and allows the simulation to reach a verifiable steady state. We use the model to solve two classic coupled flow problems as verification. We then apply the model to a salt dome flow problem patterned after the conditions present at the Gorleben salt dome, Germany, a potential site for high-level nuclear waste disposal. Our transient simulations reveal the presence of two flow regimes: (1) recirculating and (2) swept forward. The flow dynamics are highly sensitive to the strength of molecular diffusion, with recirculating flows arising for large values of molecular diffusivity. For pure hydrodynamic dispersion with parameters approximating those at Gorleben, we find a swept-forward flow field at steady state rather than the recirculating flows found in previous investigations. The time to steady state is very sensitive to the initial conditions, with long time periods required to sweep out an initial brine pool in the lower region of the domain. Dimensional analysis is used to demonstrate the tendency toward brine recirculation. An analysis based on a dispersion timescale explains the observed long time to steady state when the initial condition has a brine pool in the lower part of the system. The

  11. Transport Phenomena of Water in Molecular Fluidic Channels

    PubMed Central

    Vo, Truong Quoc; Kim, BoHung

    2016-01-01

    In molecular-level fluidic transport, where the discrete characteristics of a molecular system are not negligible (in contrast to a continuum description), the response of the molecular water system might still be similar to the continuum description if the time and ensemble averages satisfy the ergodic hypothesis and the scale of the average is enough to recover the classical thermodynamic properties. However, even in such cases, the continuum description breaks down on the material interfaces. In short, molecular-level liquid flows exhibit substantially different physics from classical fluid transport theories because of (i) the interface/surface force field, (ii) thermal/velocity slip, (iii) the discreteness of fluid molecules at the interface and (iv) local viscosity. Therefore, in this study, we present the result of our investigations using molecular dynamics (MD) simulations with continuum-based energy equations and check the validity and limitations of the continuum hypothesis. Our study shows that when the continuum description is subjected to the proper treatment of the interface effects via modified boundary conditions, the so-called continuum-based modified-analytical solutions, they can adequately predict nanoscale fluid transport phenomena. The findings in this work have broad effects in overcoming current limitations in modeling/predicting the fluid behaviors of molecular fluidic devices. PMID:27650138

  12. Development and verification of a water and sugar transport model using measured stem diameter variations.

    PubMed

    De Schepper, Veerle; Steppe, Kathy

    2010-05-01

    In trees, water and sugars are transported by xylem and phloem conduits which are hydraulically linked. A simultaneous study of both flows is interesting, since they concurrently influence important processes such as stomatal regulation and growth. A few mathematical models have already been developed to investigate the influence of both hydraulically coupled flows. However, none of these models has so far been tested using real measured field data. In the present study, a comprehensive whole-tree model is developed that enables simulation of the stem diameter variations driven by both the water and sugar transport. Stem diameter variations are calculated as volume changes of both the xylem and the phloem tissue. These volume changes are dependent on: (i) water transport according to the cohesion-tension theory; (ii) sugar transport according to the Münch hypothesis; (iii) loading and unloading of sugars; and (iv) irreversible turgor-driven growth. The model considers three main compartments (crown, stem, and roots) and is verified by comparison with actual measured stem diameter variations and xylem sap flow rates. These measurements were performed on a young oak (Quercus robur L.) tree in controlled conditions and on an adult beech (Fagus sylvatica L.) tree in a natural forest. A good agreement was found between simulated and measured data. Hence, the model seemed to be a realistic representation of the processes observed in reality. Furthermore, the model is able to simulate several physiological variables which are relatively difficult to measure: phloem turgor, phloem osmotic pressure, and Münch's counterflow. Simulation of these variables revealed daily dynamics in their behaviour which were mainly induced by transpiration. Some of these dynamics are experimentally confirmed in the literature, while others are not.

  13. Microbubble transport in water-saturated porous media

    NASA Astrophysics Data System (ADS)

    Ma, Y.; Kong, X.-Z.; Scheuermann, A.; Galindo-Torres, S. A.; Bringemeier, D.; Li, L.

    2015-06-01

    Laboratory experiments were conducted to investigate flow of discrete microbubbles through a water-saturated porous medium. During the experiments, bubbles, released from a diffuser, moved upward through a quasi-2-D flume filled with transparent water-based gelbeads and formed a distinct plume that could be well registered by a calibrated camera. Outflowing bubbles were collected on the top of the flume using volumetric burettes for flux measurements. We quantified the scaling behaviors between the gas (bubble) release rates and various characteristic parameters of the bubble plume, including plume tip velocity, plume width, and breakthrough time of the plume front. The experiments also revealed circulations of ambient pore water induced by the bubble flow. Based on a simple momentum exchange model, we showed that the relationship between the mean pore water velocity and gas release rate is consistent with the scaling solution for the bubble plume. These findings have important implications for studies of natural gas emission and air sparging, as well as fundamental research on bubble transport in porous media.

  14. How Does Leaf Anatomy Influence Water Transport outside the Xylem?

    PubMed

    Buckley, Thomas N; John, Grace P; Scoffoni, Christine; Sack, Lawren

    2015-08-01

    Leaves are arguably the most complex and important physicobiological systems in the ecosphere. Yet, water transport outside the leaf xylem remains poorly understood, despite its impacts on stomatal function and photosynthesis. We applied anatomical measurements from 14 diverse species to a novel model of water flow in an areole (the smallest region bounded by minor veins) to predict the impact of anatomical variation across species on outside-xylem hydraulic conductance (Kox). Several predictions verified previous correlational studies: (1) vein length per unit area is the strongest anatomical determinant of Kox, due to effects on hydraulic pathlength and bundle sheath (BS) surface area; (2) palisade mesophyll remains well hydrated in hypostomatous species, which may benefit photosynthesis, (3) BS extensions enhance Kox; and (4) the upper and lower epidermis are hydraulically sequestered from one another despite their proximity. Our findings also provided novel insights: (5) the BS contributes a minority of outside-xylem resistance; (6) vapor transport contributes up to two-thirds of Kox; (7) Kox is strongly enhanced by the proximity of veins to lower epidermis; and (8) Kox is strongly influenced by spongy mesophyll anatomy, decreasing with protoplast size and increasing with airspace fraction and cell wall thickness. Correlations between anatomy and Kox across species sometimes diverged from predicted causal effects, demonstrating the need for integrative models to resolve causation. For example, (9) Kox was enhanced far more in heterobaric species than predicted by their having BS extensions. Our approach provides detailed insights into the role of anatomical variation in leaf function.

  15. A fully coupled Monte Carlo/discrete ordinates solution to the neutron transport equation. Final report

    SciTech Connect

    Filippone, W.L.; Baker, R.S.

    1990-12-31

    The neutron transport equation is solved by a hybrid method that iteratively couples regions where deterministic (S{sub N}) and stochastic (Monte Carlo) methods are applied. Unlike previous hybrid methods, the Monte Carlo and S{sub N} regions are fully coupled in the sense that no assumption is made about geometrical separation or decoupling. The hybrid method provides a new means of solving problems involving both optically thick and optically thin regions that neither Monte Carlo nor S{sub N} is well suited for by themselves. The fully coupled Monte Carlo/S{sub N} technique consists of defining spatial and/or energy regions of a problem in which either a Monte Carlo calculation or an S{sub N} calculation is to be performed. The Monte Carlo region may comprise the entire spatial region for selected energy groups, or may consist of a rectangular area that is either completely or partially embedded in an arbitrary S{sub N} region. The Monte Carlo and S{sub N} regions are then connected through the common angular boundary fluxes, which are determined iteratively using the response matrix technique, and volumetric sources. The hybrid method has been implemented in the S{sub N} code TWODANT by adding special-purpose Monte Carlo subroutines to calculate the response matrices and volumetric sources, and linkage subrountines to carry out the interface flux iterations. The common angular boundary fluxes are included in the S{sub N} code as interior boundary sources, leaving the logic for the solution of the transport flux unchanged, while, with minor modifications, the diffusion synthetic accelerator remains effective in accelerating S{sub N} calculations. The special-purpose Monte Carlo routines used are essentially analog, with few variance reduction techniques employed. However, the routines have been successfully vectorized, with approximately a factor of five increase in speed over the non-vectorized version.

  16. Transport across an Anderson quantum dot in the intermediate coupling regime

    NASA Astrophysics Data System (ADS)

    Kern, Johannes; Grifoni, Milena

    2013-09-01

    We describe linear and nonlinear transport across a strongly interacting single impurity Anderson model quantum dot with intermediate coupling to the leads, i.e. with tunnel coupling Γ of the order of the thermal energy k B T. The coupling is large enough that sequential tunneling processes (second order in the tunneling Hamiltonian) alone do not suffice to properly describe the transport characteristics. Upon applying a density matrix approach, the current is expressed in terms of rates obtained by considering a very small class of diagrams which dress the sequential tunneling processes by charge fluctuations. We call this the "dressed second order" (DSO) approximation. One advantage of the DSO is that, still in the Coulomb blockade regime, it can describe the crossover from thermally broadened to tunneling broadened conductance peaks. When the temperature is decreased even further ( k B T < Γ), the DSO captures Kondesque behaviours of the Anderson quantum dot qualitatively: we find a zero bias anomaly of the differential conductance versus applied bias, an enhancement of the conductance with decreasing temperature as well as universality of the shape of the conductance as function of the temperature. We can without complications address the case of a spin degenerate level split energetically by a magnetic field. In case spin dependent chemical potentials are assumed and only one of the four chemical potentials is varied, the DSO yields in principle only one resonance. This seems to be in agreement with experiments with pseudo spin [U. Wilhelm, J. Schmid, J. Weis, K.V. Klitzing, Physica E 14, 385 (2002)]. Furthermore, we get qualitative agreement with experimental data showing a cross-over from the Kondo to the empty orbital regime.

  17. Quantum close coupling calculation of transport and relaxation properties for Hg-H2 system

    NASA Astrophysics Data System (ADS)

    Nemati-Kande, Ebrahim; Maghari, Ali

    2016-11-01

    Quantum mechanical close coupling calculation of the state-to-state transport and relaxation cross sections have been done for Hg-H2 molecular system using a high-level ab initio potential energy surface. Rotationally averaged cross sections were also calculated to obtain the energy dependent Senftleben-Beenakker cross sections at the energy range of 0.005-25,000 cm-1. Boltzmann averaging of the energy dependent Senftleben-Beenakker cross sections showed the temperature dependency over a wide temperature range of 50-2500 K. Interaction viscosity and diffusion coefficients were also calculated using close coupling cross sections and full classical Mason-Monchick approximation. The results were compared with each other and with the available experimental data. It was found that Mason-Monchick approximation for viscosity is more reliable than diffusion coefficient. Furthermore, from the comparison of the experimental diffusion coefficients with the result of the close coupling and Mason-Monchick approximation, it was found that the Hg-H2 potential energy surface used in this work can reliably predict diffusion coefficient data.

  18. Reactive Transport and Coupled THM Processes in Engineering Barrier Systems (EBS)

    SciTech Connect

    Steefel, Carl; Rutqvist, Jonny; Tsang, Chin-Fu; Liu, Hui-Hai; Sonnenthal, Eric; Houseworth, Jim; Birkholzer, Jens

    2010-08-31

    Geological repositories for disposal of high-level nuclear wastes generally rely on a multi-barrier system to isolate radioactive wastes from the biosphere. The multi-barrier system typically consists of a natural barrier system, including repository host rock and its surrounding subsurface environment, and an engineering barrier system (EBS). EBS represents the man-made, engineered materials placed within a repository, including the waste form, waste canisters, buffer materials, backfill and seals (OECD, 2003). EBS plays a significant role in the containment and long-term retardation of radionuclide release. EBS is involved in complex thermal, hydrogeological, mechanical, chemical and biological processes, such as heat release due to radionuclide decay, multiphase flow (including gas release due to canister corrosion), swelling of buffer materials, radionuclide diffusive transport, waste dissolution and chemical reactions. All these processes are related to each other. An in-depth understanding of these coupled processes is critical for the performance assessment (PA) for EBS and the entire repository. Within the EBS group of Used Fuel Disposition (UFD) Campaign, LBNL is currently focused on (1) thermal-hydraulic-mechanical-chemical (THMC) processes in buffer materials (bentonite) and (2) diffusive transport in EBS associated with clay host rock, with a long-term goal to develop a full understanding of (and needed modeling capabilities to simulate) impacts of coupled processes on radionuclide transport in different components of EBS, as well as the interaction between near-field host rock (e.g., clay) and EBS and how they effect radionuclide release. This final report documents the progress that LBNL has made in its focus areas. Specifically, Section 2 summarizes progress on literature review for THMC processes and reactive-diffusive radionuclide transport in bentonite. The literature review provides a picture of the state-of-the-art of the relevant research areas

  19. Water Transport through Nanotubes with Varying Interaction Strength between Tube Wall and Water

    PubMed Central

    Melillo, Matthew; Zhu, Fangqiang; Snyder, Mark A.; Mittal, Jeetain

    2014-01-01

    We present the results from extensive molecular dynamics simulations to study the effect of varying interaction strength, εNT–OW, between the nanotube atoms and water’s oxygen atom. We find the existence of a narrow transition region (εNT–OW ≈ 0.05 - 0.075 kcal/mol) in which water occupancy within a nanotube and flux through it increases dramatically with increasing εNT–OW, with the exact location defined by nanotube diameter and length. This transition region narrows with increasing nanotube diameter to nearly a step-change in water transport from no flow to high water flux between εNT–OW= 0.05 kcal/mol to 0.055 kcal/mol for tube diameter 1.6 nm. Interestingly, this transition region (εNT–OW= 0.05 – 0.075 kcal/mol) also coincides with water contact angles close to 90° on an unrolled nanotube surface hinting at a fundamental link between nanotube wetting characteristics and water transport through it. Finally, we find that the observed water flux is proportional to the average water occupancy divided by the average residence time within the nanotube, with a proportionality constant found to be 0.36, independent of the nanotube diameter and length. PMID:25606067

  20. The Divergence, Actions, Roles, and Relatives of Sodium-Coupled Bicarbonate Transporters

    PubMed Central

    Boron, Walter F.

    2013-01-01

    The mammalian Slc4 (Solute carrier 4) family of transporters is a functionally diverse group of 10 multi-spanning membrane proteins that includes three Cl-HCO3 exchangers (AE1–3), five Na+-coupled HCO3− transporters (NCBTs), and two other unusual members (AE4, BTR1). In this review, we mainly focus on the five mammalian NCBTs-NBCe1, NBCe2, NBCn1, NDCBE, and NBCn2. Each plays a specialized role in maintaining intracellular pH and, by contributing to the movement of HCO3− across epithelia, in maintaining whole-body pH and otherwise contributing to epithelial transport. Disruptions involving NCBT genes are linked to blindness, deafness, proximal renal tubular acidosis, mental retardation, and epilepsy. We also review AE1–3, AE4, and BTR1, addressing their relevance to the study of NCBTs. This review draws together recent advances in our understanding of the phylogenetic origins and physiological relevance of NCBTs and their progenitors. Underlying these advances is progress in such diverse disciplines as physiology, molecular biology, genetics, immunocytochemistry, proteomics, and structural biology. This review highlights the key similarities and differences between individual NCBTs and the genes that encode them and also clarifies the sometimes confusing NCBT nomenclature. PMID:23589833

  1. Coupled turbulent flow, heat, and solute transport in continuous casting processes

    NASA Astrophysics Data System (ADS)

    Aboutalebi, M. Reza; Hasan, M.; Guthrie, R. I. L.

    1995-08-01

    A fully coupled fluid flow, heat, and solute transport model was developed to analyze turbulent flow, solidification, and evolution of macrosegregation in a continuous billet caster. Transport equations of total mass, momentum, energy, and species for a binary iron-carbon alloy system were solved using a continuum model, wherein the equations are valid for the solid, liquid, and mushy zones in the casting. A modified version of the low-Reynolds number k-ɛ model was adopted to incorporate turbulence effects on transport processes in the system. A control-volume-based finite-difference procedure was employed to solve the conservation equations associated with appropriate boundary conditions. Because of high nonlinearity in the system of equations, a number of techniques were used to accelerate the convergence process. The effects of the parameters such as casting speed, steel grade, nozzle configuration on flow pattern, solidification profile, and carbon segregation were investigated. From the computed flow pattern, the trajectory of inclusion particles, as well as the density distribution of the particles, was calculated. Some of the computed results were compared with available experimental measurements, and reasonable agreements were obtained.

  2. ITS Version 6 : the integrated TIGER series of coupled electron/photon Monte Carlo transport codes.

    SciTech Connect

    Franke, Brian Claude; Kensek, Ronald Patrick; Laub, Thomas William

    2008-04-01

    ITS is a powerful and user-friendly software package permitting state-of-the-art Monte Carlo solution of lineartime-independent coupled electron/photon radiation transport problems, with or without the presence of macroscopic electric and magnetic fields of arbitrary spatial dependence. Our goal has been to simultaneously maximize operational simplicity and physical accuracy. Through a set of preprocessor directives, the user selects one of the many ITS codes. The ease with which the makefile system is applied combines with an input scheme based on order-independent descriptive keywords that makes maximum use of defaults and internal error checking to provide experimentalists and theorists alike with a method for the routine but rigorous solution of sophisticated radiation transport problems. Physical rigor is provided by employing accurate cross sections, sampling distributions, and physical models for describing the production and transport of the electron/photon cascade from 1.0 GeV down to 1.0 keV. The availability of source code permits the more sophisticated user to tailor the codes to specific applications and to extend the capabilities of the codes to more complex applications. Version 6, the latest version of ITS, contains (1) improvements to the ITS 5.0 codes, and (2) conversion to Fortran 90. The general user friendliness of the software has been enhanced through memory allocation to reduce the need for users to modify and recompile the code.

  3. Transport and trapping of dust particles in a potential well created by inductively coupled diffused plasmas.

    PubMed

    Choudhary, Mangilal; Mukherjee, S; Bandyopadhyay, P

    2016-05-01

    A versatile linear dusty (complex) plasma device is designed to study the transport and dynamical behavior of dust particles in a large volume. Diffused inductively coupled plasma is generated in the background of argon gas. A novel technique is used to introduce the dust particles in the main plasma by striking a secondary direct current glow discharge. These dust particles are found to get trapped in an electrostatic potential well, which is formed due to the combination of the ambipolar electric field caused by diffusive plasma and the field produced by the charged glass wall of the vacuum chamber. According to the requirements, the volume of the dust cloud can be controlled very precisely by tuning the plasma and discharge parameters. The present device can be used to address the underlying physics behind the transport of dust particles, self-excited dust acoustic waves, and instabilities. The detailed design of this device, plasma production and characterization, trapping and transport of the dust particle, and some of the preliminary experimental results are presented.

  4. Transport and trapping of dust particles in a potential well created by inductively coupled diffused plasmas

    NASA Astrophysics Data System (ADS)

    Choudhary, Mangilal; Mukherjee, S.; Bandyopadhyay, P.

    2016-05-01

    A versatile linear dusty (complex) plasma device is designed to study the transport and dynamical behavior of dust particles in a large volume. Diffused inductively coupled plasma is generated in the background of argon gas. A novel technique is used to introduce the dust particles in the main plasma by striking a secondary direct current glow discharge. These dust particles are found to get trapped in an electrostatic potential well, which is formed due to the combination of the ambipolar electric field caused by diffusive plasma and the field produced by the charged glass wall of the vacuum chamber. According to the requirements, the volume of the dust cloud can be controlled very precisely by tuning the plasma and discharge parameters. The present device can be used to address the underlying physics behind the transport of dust particles, self-excited dust acoustic waves, and instabilities. The detailed design of this device, plasma production and characterization, trapping and transport of the dust particle, and some of the preliminary experimental results are presented.

  5. Generic reactive transport codes as flexible tools to integrate soil organic matter degradation models with water, transport and geochemistry in soils

    NASA Astrophysics Data System (ADS)

    Jacques, Diederik; Gérard, Fréderic; Mayer, Uli; Simunek, Jirka; Leterme, Bertrand

    2016-04-01

    A large number of organic matter degradation, CO2 transport and dissolved organic matter models have been developed during the last decades. However, organic matter degradation models are in many cases strictly hard-coded in terms of organic pools, degradation kinetics and dependency on environmental variables. The scientific input of the model user is typically limited to the adjustment of input parameters. In addition, the coupling with geochemical soil processes including aqueous speciation, pH-dependent sorption and colloid-facilitated transport are not incorporated in many of these models, strongly limiting the scope of their application. Furthermore, the most comprehensive organic matter degradation models are combined with simplified representations of flow and transport processes in the soil system. We illustrate the capability of generic reactive transport codes to overcome these shortcomings. The formulations of reactive transport codes include a physics-based continuum representation of flow and transport processes, while biogeochemical reactions can be described as equilibrium processes constrained by thermodynamic principles and/or kinetic reaction networks. The flexibility of these type of codes allows for straight-forward extension of reaction networks, permits the inclusion of new model components (e.g.: organic matter pools, rate equations, parameter dependency on environmental conditions) and in such a way facilitates an application-tailored implementation of organic matter degradation models and related processes. A numerical benchmark involving two reactive transport codes (HPx and MIN3P) demonstrates how the process-based simulation of transient variably saturated water flow (Richards equation), solute transport (advection-dispersion equation), heat transfer and diffusion in the gas phase can be combined with a flexible implementation of a soil organic matter degradation model. The benchmark includes the production of leachable organic matter

  6. DETERMINATION OF BROMATE IN DRINKING WATERS BY ION CHROMATOGRAPHY WITH INDUCTIVELY COUPLED PLASMA MASS SPECTROMETRIC DETECTION

    EPA Science Inventory

    Bromate is a disinfection by-product in drinking water, formed during the ozonation of source water containing bromide. An inductively coupled plasma mass spectrometer is combined with an ion chromatograph for the analysis of bromate in drinking waters. Three chromatographic colu...

  7. Coupled inverse geochemical and microbial reactive transport models in porous media

    NASA Astrophysics Data System (ADS)

    Samper, J.; Yang, C.

    2007-12-01

    Microbial processes play a major role in controlling geochemical conditions in subsurface systems. Various laboratory and in situ experiments have been performed to evaluate the relevance of microbial processes and derive key microbial parameters. Such experiments are often interpreted by suboptimal trial-and-error curve fitting. Here we present an inverse model for coupled flow, reactive solute transport, geochemical and microbial processes which overcomes the limitations of trial-and-error methods by making data interpretation in a systematic, objective, and efficient manner. It extends the capabilities of existing inverse models which deal mostly with flow and chemically-reactive solute transport. Our inverse model relies on the microbial reactive transport code BIOCORE of Samper et al. (2006a) and improves the inverse reactive transport model INVERSE- CORE of Dai and Samper (2004) by allowing the simultaneous estimation of geochemical and microbial parameters. The inverse model has been implemented in a finite element code, INVERSE-BIOCORE2D and its capabilities have been verified and tested with a synthetic experiment involving equilibrium speciation, kinetic sorption/desorption and kinetic biodegradation reactions. Model results indicate that both chemical and microbial parameters can be estimated accurately for error-free data. Estimation errors of microbial parameters are larger than those of kinetic sorption parameters and generally increase with increasing standard deviation of data noise. Estimation error of yield coefficient is the smallest among all microbial parameter and which does not depend on data noise. The inverse model has been used also to estimate microbial parameters of a laboratory experiment involving sucrose fermentation by yeast. Inverse estimation improves significantly the fit to measured data.

  8. Modeling climate change impacts on maize growth with the focus on plant internal water transport

    NASA Astrophysics Data System (ADS)

    Heinlein, Florian; Biernath, Christian; Klein, Christian; Thieme, Christoph; Priesack, Eckart

    2015-04-01

    Based on climate change experiments in chambers and on field measurements, the scientific community expects regional and global changes of crop biomass production and yields. In central Europe one major aspect of climate change is the shift of precipitation towards winter months and the increase of extreme events, e.g. heat stress and heavy precipitation, during the main growing season in summer. To understand water uptake, water use, and transpiration rates by plants numerous crop models were developed. We tested the ability of two existing canopy models (CERES-Maize and SPASS) embedded in the model environment Expert-N5.0 to simulate the water balance, water use efficiency and crop growth. Additionally, sap flow was measured using heat-ratio measurement devices at the stem base of individual plants. The models were tested against data on soil water contents, as well as on evaporation and transpiration rates of Maize plants, which were grown on lysimeters at Helmholtz Zentrum München and in the field at the research station Scheyern, Germany, in summer 2013 and 2014. We present the simulation results and discuss observed shortcomings of the models. CERES-Maize and SPASS could simulate the measured dynamics of xylem sap flow. However, these models oversimplify plant water transport, and thus, cannot explain the underlying mechanisms. Therefore, to overcome these shortcomings, we additionally propose a new model, which is based on two coupled 1-D Richards equations, describing explicitly the plant and soil water transport. This model, which has previously successfully been applied to simulate water flux of 94 individual beech trees of an old-grown forest, will lead to a more mechanistic representation of the soil-plant-water-flow-continuum. This xylem water flux model was now implemented into the crop model SPASS and adjusted to simulate water flux of single maize plants. The modified version is presented and explained. Basic model input requirements are the plant

  9. Role of direct electron-phonon coupling across metal-semiconductor interfaces in thermal transport via molecular dynamics

    SciTech Connect

    Lin, Keng-Hua; Strachan, Alejandro

    2015-07-21

    Motivated by significant interest in metal-semiconductor and metal-insulator interfaces and superlattices for energy conversion applications, we developed a molecular dynamics-based model that captures the thermal transport role of conduction electrons in metals and heat transport across these types of interface. Key features of our model, denoted eleDID (electronic version of dynamics with implicit degrees of freedom), are the natural description of interfaces and free surfaces and the ability to control the spatial extent of electron-phonon (e-ph) coupling. Non-local e-ph coupling enables the energy of conduction electrons to be transferred directly to the semiconductor/insulator phonons (as opposed to having to first couple to the phonons in the metal). We characterize the effect of the spatial e-ph coupling range on interface resistance by simulating heat transport through a metal-semiconductor interface to mimic the conditions of ultrafast laser heating experiments. Direct energy transfer from the conduction electrons to the semiconductor phonons not only decreases interfacial resistance but also increases the ballistic transport behavior in the semiconductor layer. These results provide new insight for experiments designed to characterize e-ph coupling and thermal transport at the metal-semiconductor/insulator interfaces.

  10. Analysis of the influence of coupled diffusion on transport in protein crystal growth for different gravity levels.

    PubMed

    Castagnolo, D; Vergara, A; Paduano, L; Sartorio, R; Annunziata, O

    2002-10-01

    Diffusion has a central role in protein crystal growth both in microgravity conditions and on ground. Recently several reports have been focused on the importance to use the generalized Fick's equations in n-component systems where crystals grow. In these equations the total flux of each component is produced by the own concentration gradient (main flow) and by the concentration gradient of the other components (cross-flow) present in the system. However in literature the latter effect is often neglected, and the so-called pseudo-binary approximation is used. Lin et al. (1995) proposed a mathematical model to evaluate the concentration profile of the species present around a growing protein crystal. Although the model is reliable, it suffers of the pseudo-binary approximation (neglecting cross term diffusion coefficients and using binary diffusion coefficients), probably because of the lack of multicomponent diffusion data. The present model is based on the experimental set-up proposed by Lin et al. (1995). Nevertheless we have included the coupled diffusion effects, according to the correct description of the matter transport through the generalized Fick's equations. The crystal growth rate is calculated for different gravity levels. The model has been applied to the ternary lysozyme-NaCl-water and quaternary lysozyme-poly(ethylene glycol) (PEG)-NaCl-water systems using recent diffusion data.

  11. Modeling of coupled heat transfer and reactive transport processesin porous media: Application to seepage studies at Yucca Mountain, Nevada

    SciTech Connect

    Mukhopadhyay, S.; Sonnenthal, E.L.; Spycher, N.

    2007-01-15

    When hot radioactive waste is placed in subsurface tunnels, a series of complex changes occurs in the surrounding medium. The water in the pore space of the medium undergoes vaporization and boiling. Subsequently, vapor migrates out of the matrix pore space, moving away from the tunnel through the permeable fracture network. This migration is propelled by buoyancy, by the increased vapor pressure caused by heating and boiling, and through local convection. In cooler regions, the vapor condenses on fracture walls, where it drains through the fracture network. Slow imbibition of water thereafter leads to gradual rewetting of the rock matrix. These thermal and hydrological processes also bring about chemical changes in the medium. Amorphous silica precipitates from boiling and evaporation, and calcite from heating and CO{sub 2} volatilization. The precipitation of amorphous silica, and to a much lesser extent calcite, results in long-term permeability reduction. Evaporative concentration also results in the precipitation of gypsum (or anhydrite), halite, fluorite and other salts. These evaporative minerals eventually redissolve after the boiling period is over, however, their precipitation results in a significant temporary decrease in permeability. Reduction of permeability is also associated with changes in fracture capillary characteristics. In short, the coupled thermal-hydrological-chemical (THC) processes dynamically alter the hydrological properties of the rock. A model based on the TOUGHREACT reactive transport software is presented here to investigate the impact of THC processes on flow near an emplacement tunnel at Yucca Mountain, Nevada. We show how transient changes in hydrological properties caused by THC processes often lead to local flow channeling and saturation increases above the tunnel. For models that include only permeability changes to fractures, such local flow channeling may lead to seepage relative to models where THC effects are ignored

  12. Modeling of coupled heat transfer and reactive transport processesin porous media: Application to seepage studies at Yucca Mountain, Nevada

    SciTech Connect

    Mukhopadhyay, Sumit; Sonnenthal, Eric L.; Spycher, Nicolas

    2007-01-15

    When hot radioactive waste is placed in subsurface tunnels, a series of complex changes occurs in the surrounding medium. The water in the pore space of the medium undergoes vaporization and boiling. Subsequently, vapor migrates out of the matrix pore space, moving away from the tunnel through the permeable fracture network. This migration is propelled by buoyancy, by the increased vapor pressure caused by heating and boiling, and through local convection. In cooler regions, the vapor condenses on fracture walls, where it drains through the fracture network. Slow imbibition of water thereafter leads to gradual rewetting of the rock matrix. These thermal and hydrological processes also bring about chemical changes in the medium. Amorphous silica precipitates from boiling and evaporation, and calcite from heating and CO2 volatilization. The precipitation of amorphous silica, and to a much lesser extent calcite, results in long-term permeability reduction. Evaporative concentration also results in the precipitation of gypsum (or anhydrite), halite, fluorite and other salts. These evaporative minerals eventually redissolve after the boiling period is over, however, their precipitation results in a significant temporary decrease in permeability. Reduction of permeability is also associated with changes in fracture capillary characteristics. In short, the coupled thermal-hydrological-chemical (THC) processes dynamically alter the hydrological properties of the rock. A model based on the TOUGHREACT reactive transport software is presented here to investigate the impact of THC processes on flow near an emplacement tunnel at Yucca Mountain, Nevada. We show how transient changes in hydrological properties caused by THC processes often lead to local flow channeling and saturation increases above the tunnel. For models that include only permeability changes to fractures, such local flow channeling may lead to seepage relative to models where THC effects are ignored. However

  13. The Mars Dust and Water Cycles: Investigating the Influence of Clouds on the Vertical Distribution and Meridional Transport of Dust and Water.

    NASA Technical Reports Server (NTRS)

    Kahre, M. A.; Haberle, R. M.; Hollingsworth, J. L.; Brecht, A. S.; Urata, R.

    2015-01-01

    The dust and water cycles are critical to the current Martian climate, and they interact with each other through cloud formation. Dust modulates the thermal structure of the atmosphere and thus greatly influences atmospheric circulation. Clouds provide radiative forcing and control the net hemispheric transport of water through the alteration of the vertical distributions of water and dust. Recent advancements in the quality and sophistication of both climate models and observations enable an increased understanding of how the coupling between the dust and water cycles (through cloud formation) impacts the dust and water cycles. We focus here on the effects of clouds on the vertical distributions of dust and water and how those vertical distributions control the net meridional transport of water. We utilize observations of temperature, dust and water ice from the Mars Climate Sounder (MCS) on the Mars Reconnaissance Orbiter (MRO) and the NASA ARC Mars Global Climate Model (MGCM) to show that the magnitude and nature of the hemispheric exchange of water during NH summer is sensitive to the vertical structure of the simulated aphelion cloud belt. Further, we investigate how clouds influence atmospheric temperatures and thus the vertical structure of the cloud belt. Our goal is to isolate and understand the importance of radiative/dynamic feedbacks due to the physical processes involved with cloud formation and evolution on the current climate of Mars.

  14. U(VI) transport under the condition of water table fluctuations

    NASA Astrophysics Data System (ADS)

    Yin, J.; Haggerty, R.; Rockhold, M. L.; Kent, D. B.; Istok, J. D.; Zachara, J. M.

    2010-12-01

    U(VI) transport at the 300 Area Hanford IFRC site, WA appears to be strongly related to water table fluctuations resulting from rapid changes of Column River stage. In the “smear zone” (zone through which the water table sweeps) at the IFRC site, sediment can experience more than one saturation cycle every day. This unique phenomenon complicates the current understanding of U(VI) transport because the smear zone is likely a persistent source of long-term U(VI) contamination. In our study, two comparison column (4.28 cm × 44.4 cm) experiments are conducted to exam the U(VI) desorption affected by occasional, partially unsaturated conditions. In the experiment, one column remains saturated and the other one experiences three saturation-desaturation cycles. Less than 8 mm composite sediments collected from the Hanford IFRC site are packed into the column. TDRs and tensiometers are built into the column to measure both water contents and metric potentials at different depths. U-free synthetic ground water (SGW) is used to desorb U(VI) in both columns. In the experiment, both columns are initially saturated and SGW is injected in at a constant rate to desorb U(VI). Three stop flow events are embedded into desorption. Before each stop flow event, one of the columns is freely drained and the sediment represents the smear zone with the water table at the bottom of the column. After each stop flow, the column is re-saturated and regular desorption continues in both columns. During desorption and drainage, the pH in the effluent is continuously monitored. In addition, U(VI), major ions and alkalinity are measured in all samples. Previous studies show that aqueous U(VI) concentration increases due to the kinetic behavior of U(VI) desorption. If the column remains unsaturated during the stop flow, it is expected that the kinetic behavior of U(VI) will cause a much higher U(VI) concentration in less mobile pore water . Therefore, a lower U(VI) spike and a longer U(VI) tail

  15. A coupled field study of subsurface fracture flow and colloid transport

    NASA Astrophysics Data System (ADS)

    Zhang, Wei; Tang, Xiang-Yu; Weisbrod, Noam; Zhao, Pei; Reid, Brian J.

    2015-05-01

    Field studies of subsurface transport of colloids, which may act as carriers of contaminants, are still rare. This is particularly true for heterogeneous and fractured matrices. To address this knowledge gap, a 30-m long monitoring trench was constructed at the lower end of sloping farmland in central Sichuan, southwest China. During the summer of 2013, high resolution dynamic and temporal fracture flow discharging from the interface between fractured mudrock and impermeable sandstone was obtained at intervals of 5 min (for fast rising stages), 30-60 min (for slow falling stages) or 15 min (at all other times). This discharge was analyzed to elucidate fracture flow and colloid transport in response to rainfall events. Colloid concentrations were observed to increase quickly once rainfall started (∼15-90 min) and reached peak values of up to 188 mg/L. Interestingly, maximum colloid concentration occurred prior to the arrival of flow discharge peak (i.e. maximum colloid concentration was observed before saturation of the soil layer). Rainfall intensity (rather than its duration) was noted to be the main factor controlling colloid response and transport. Dissolved organic carbon concentration and δ18O dynamics in combination with soil water potential were used to apportion water sources of fracture flow at different stages. These approaches suggested the main source of the colloids discharged to be associated with the flushing of colloids from the soil mesopores and macropores. Beyond the scientific interest of colloid mobilization and transport at the field scale, these results have important implications for a region of about 160,000 km2 in southwest China that featured similar hydrogeologic settings as the experimental site. In this agriculture-dominated area, application of pesticides and fertilizers to farmland is prevalent. These results highlight the need to avoid such applications immediately before rainfall events in order to reduce rapid migration to

  16. Charge transport in organic donor-acceptor mixed-stack crystals: the role of nonlocal electron-phonon couplings.

    PubMed

    Zhu, Lingyun; Geng, Hua; Yi, Yuanping; Wei, Zhixiang

    2017-02-08

    The charge-transport properties in C8BTBT-FnTCNQ and DMQtT-F4TCNQ mixed-stack crystals have been investigated by means of density functional theory, molecular dynamics and kinetic Monte Carlo simulations. The super-exchange nature of charge transport in these crystals is elucidated by the Larsson partition-based electronic coupling method that was developed recently by us. Compared with hole transport, in addition to the donor HOMO-acceptor LUMO interaction, the interaction between the donor HOMO-1 and the acceptor LUMO will also make an important contribution to electron transport. Moreover, this additional interaction plays an opposite role and results in electron-dominant and hole-dominant transport in the C8BTBT-FnTCNQ and DMQtT-F4TCNQ crystals, respectively. Most importantly, our calculations point out that the nonlocal electron-phonon couplings are very weak and much smaller than the electronic couplings in all the studied crystals. This implies that the nonlocal couplings have little influence on charge transport. In contrast to the experimental measurements, the external reorganization energies are thus expected to play an essential role in determining charge carrier mobilities. These findings pave the way for rational design of high performance organic donor-acceptor mixed-stack semiconductors.

  17. Coupled thermohaline groundwater flow and single-species reactive solute transport in fractured porous media

    NASA Astrophysics Data System (ADS)

    Graf, Thomas; Therrien, René

    2007-04-01

    SummaryA 3D numerical model has been developed to solve coupled fluid flow, heat and single-species reactive mass transport with variable fluid density and viscosity. We focus on a single reaction between quartz and its aqueous form silica. The fluid density and viscosity and the dissolution rate constant, equilibrium constant and activity coefficient are calculated as a function of the concentrations of major ions and temperature. Reaction and flow parameters, such as mineral surface area and permeability, are updated at the end of each time step with explicitly calculated reaction rates. Adaptive time stepping is used to increase or decrease the time step size according to the rate of temporal variation of the solution to prevent physically unrealistic results. The time step size depends on maximum changes in matrix porosity and/or fracture aperture. The model is verified against existing analytical solutions of heat transfer and reactive transport in fractured porous media. The complexity of the model formulation allows studying chemical reactions and variable-density flow in a more realistic way than done previously. The newly developed model has been used to simulate illustrative examples of coupled thermohaline flow and reactive transport in fractured porous media. Simulations indicate that thermohaline (double-diffusive) transport impacts both buoyancy-driven flow and chemical reactions. Hot zones correspond to upwelling and to quartz dissolution while in cooler zones, the plume sinks and silica precipitates. The silica concentration is inversely proportional to salinity in high-salinity regions and proportional to temperature in low-salinity regions. Density contrasts are generally small and fractures do not act like preferential pathways but contribute to transverse dispersion of the plume. Results of a long-term (100 years) simulation indicate that the coexistence of dissolution and precipitation leads to self-sealing of fractures. Salt mass fluxes

  18. Colon water transport in transgenic mice lacking aquaporin-4 water channels

    PubMed Central

    WANG, KASPER S.; MA, TONGHUI; FILIZ, FERDA; VERKMAN, A. S.; BASTIDAS, J. AUGUSTO

    2012-01-01

    Transgenic null mice were used to test the hypothesis that water channel aquaporin-4 (AQP4) is involved in colon water transport and fecal dehydration. AQP4 was immunolocalized to the basolateral membrane of colonic surface epithelium of wild-type (+/+) mice and was absent in AQP4 null (−/−) mice. The transepithelial osmotic water permeability coefficient (Pf) of in vivo perfused colon of +/+ mice, measured using the volume marker 14C-labeled polyethylene glycol, was 0.016 ± 0.002 cm/s. Pf of proximal colon was greater than that of distal colon (0.020 ± 0.004 vs. 0.009 ± 0.003 cm/s, P < 0.01). Pf was significantly lower in −/− mice when measured in full-length colon (0.009 ± 0.002 cm/s, P < 0.05) and proximal colon (0.013 ± 0.002 cm/s, P < 0.05) but not in distal colon. There was no difference in water content of cecal stool from +/+ vs. −/− mice (0.80 ± 0.01 vs. 0.81 ± 0.01), but there was a slightly higher water content in defecated stool from +/+ mice (0.68 ± 0.01 vs. 0.65 ± 0.01, P < 0.05). Despite the differences in water permeability with AQP4 deletion, theophylline-induced secretion was not impaired (50 ± 9 vs. 51 ± 8 μl · min−1 · g−1). These results provide evidence that transcellular water transport through AQP4 water channels in colonic epithelium facilitates transepithelial osmotic water permeability but has little or no effect on colonic fluid secretion or fecal dehydration. PMID:10915657

  19. Monte Carlo electron-photon transport using GPUs as an accelerator: Results for a water-aluminum-water phantom

    SciTech Connect

    Su, L.; Du, X.; Liu, T.; Xu, X. G.

    2013-07-01

    An electron-photon coupled Monte Carlo code ARCHER - Accelerated Radiation-transport Computations in Heterogeneous Environments - is being developed at Rensselaer Polytechnic Institute as a software test bed for emerging heterogeneous high performance computers that utilize accelerators such as GPUs. In this paper, the preliminary results of code development and testing are presented. The electron transport in media was modeled using the class-II condensed history method. The electron energy considered ranges from a few hundred keV to 30 MeV. Moller scattering and bremsstrahlung processes above a preset energy were explicitly modeled. Energy loss below that threshold was accounted for using the Continuously Slowing Down Approximation (CSDA). Photon transport was dealt with using the delta tracking method. Photoelectric effect, Compton scattering and pair production were modeled. Voxelised geometry was supported. A serial ARHCHER-CPU was first written in C++. The code was then ported to the GPU platform using CUDA C. The hardware involved a desktop PC with an Intel Xeon X5660 CPU and six NVIDIA Tesla M2090 GPUs. ARHCHER was tested for a case of 20 MeV electron beam incident perpendicularly on a water-aluminum-water phantom. The depth and lateral dose profiles were found to agree with results obtained from well tested MC codes. Using six GPU cards, 6x10{sup 6} histories of electrons were simulated within 2 seconds. In comparison, the same case running the EGSnrc and MCNPX codes required 1645 seconds and 9213 seconds, respectively, on a CPU with a single core used. (authors)

  20. NBCe1 as a Model Carrier for Understanding the Structure-Function Properties of Na+-Coupled SLC4 Transporters in Health and Disease

    PubMed Central

    Kurtz, Ira

    2014-01-01

    SLC4 transporters are membrane proteins that in general mediate the coupled transport of bicarbonate (carbonate) and share amino acid sequence homology. These proteins differ as to whether they also transport Na+ and/or Cl−, in addition to their charge transport stoichiometry, membrane targeting, substrate affinities, developmental expression, regulatory motifs, and protein-protein interactions. These differences account in part for the fact that functionally, SLC4 transporters have various physiological roles in mammals including transepithelial bicarbonate transport, intracellular pH regulation, transport of Na+ and/or Cl−, and possibly water. Bicarbonate transport is not unique to the SLC4 family since the structurally unrelated SLC26 family has at least three proteins that mediate Cl−-HCO3− exchange. The present review focuses on the first of the sodium-dependent SLC4 transporters that was identified whose structure has been most extensively studied: the electrogenic Na+-base cotransporter NBCe1. Mutations in NBCe1 cause proximal renal tubular acidosis (pRTA) with neurologic and ophthalmologic extrarenal manifestations. Recent studies have characterized important structure-function properties of the transporter and how they are perturbed as a result of mutations that cause pRTA. It has become increasingly apparent that the structure of NBCe1 differs in several key features from the SLC4 Cl−-HCO3− exchanger AE1 whose structural properties have been well-studied. In this review, the structure-function properties and regulation of NBCe1 will be highlighted and its role in health and disease will be reviewed in detail. PMID:24515290

  1. Uncertanity Analysis in Parameter Estimation of Coupled Bacteria-Sediment Fate and Transport in Streams

    NASA Astrophysics Data System (ADS)

    Massoudieh, A.; Le, T.; Pachepsky, Y. A.

    2014-12-01

    E. coli is widely used as an fecal indicator bacteria in streams. It has been shown that the interaction between sediments and the bacteria is an important factor in determining its fate and transport in water bodies. In this presentation parameter estimation and uncertainty analysis of a mechanistic model of bacteria-sediment interaction respectively using a hybrid genetic algorithm and Makov-Chain Monte Carlo (MCMC) approach will be presented. The physically-based model considers the advective-dispersive transport of sediments as well as both free-floating and sediment-associated bacteria in the water column and also the fate and transport of bacteria in the bed sediments in a small stream. The bed sediments are treated as a distributed system which allows modeling the evolution of the vertical distribution of bacteria as a result of sedimentation and resuspension, diffusion and bioturbation in the sediments. One-dimensional St. Venant's equation is used to model flow in the stream. The model is applied to sediment and E. coli concentration data collected during a high flow event in a small stream historically receiving agricultural runoff. Measured total suspended sediments and total E. coli concentrations in the water column at three sections of the stream are used for the parameter estimation. The data on the initial distribution of E. coli in the sediments was available and was used as the initial conditions. The MCMC method is used to estimate the joint probability distribution of model parameters including sediment deposition and erosion rates, critical shear stress for deposition and erosion, attachment and detachment rate constants of E. coli to/from sediments and also the effective diffusion coefficients of E. coli in the bed sediments. The uncertainties associated with the estimated parameters are quantified via the MCMC approach and the correlation between the posterior distribution of parameters have been used to assess the model adequacy and

  2. Bioelectrochemical systems-driven directional ion transport enables low-energy water desalination, pollutant removal, and resource recovery.

    PubMed

    Chen, Xi; Liang, Peng; Zhang, Xiaoyuan; Huang, Xia

    2016-09-01

    Bioelectrochemical systems (BESs) are integrated water treatment technologies that generate electricity using organic matter in wastewater. In situ use of bioelectricity can direct the migration of ionic substances in a BES, thereby enabling water desalination, resource recovery, and valuable substance production. Recently, much attention has been placed on the microbial desalination cells in BESs to drive water desalination, and various configurations have optimized electricity generation and desalination performance and also coupled hydrogen production, heavy metal reduction, and other reactions. In addition, directional transport of other types of charged ions can remediate polluted groundwater, recover nutrient, and produce valuable substances. To better promote the practical application, the use of BESs as directional drivers of ionic substances requires further optimization to improve energy use efficiency and treatment efficacy. This article reviews existing researches on BES-driven directional ion transport to treat wastewater and identifies a few key factors involved in efficiency optimization.

  3. Two-scale approach for the coupled heat and moisture transport

    NASA Astrophysics Data System (ADS)

    Kruis, Jaroslav; Krejčí, Tomáš

    2016-06-01

    This paper describes two-level approach for coupled heat and moisture transport in masonry structures. Motivation for two-level description comes from two major difficulties connected with masonry. First, the size of stone blocks is much larger than the size of mortar layers and very fine mesh has to be used. Second, the masonry composition is always random and therefore the concept of representative volume is reasonable. In two-level approach, the macro-scale level deals with a structure while the meso-scale level is concentrated on detailed composition of the masonry. Connection between the macro and meso level will be described. This two-level approach is suitable for parallel computers.

  4. Secondary fusion coupled deuteron/triton transport simulation and thermal-to-fusion neutron convertor measurement

    SciTech Connect

    Wang, G. B.; Wang, K.; Liu, H. G.; Li, R. D.

    2013-07-01

    A Monte Carlo tool RSMC (Reaction Sequence Monte Carlo) was developed to simulate deuteron/triton transportation and reaction coupled problem. The 'Forced particle production' variance reduction technique was used to improve the simulation speed, which made the secondary product play a major role. The mono-energy 14 MeV fusion neutron source was employed as a validation. Then the thermal-to-fusion neutron convertor was studied with our tool. Moreover, an in-core conversion efficiency measurement experiment was performed with {sup 6}LiD and {sup 6}LiH converters. Threshold activation foils was used to indicate the fast and fusion neutron flux. Besides, two other pivotal parameters were calculated theoretically. Finally, the conversion efficiency of {sup 6}LiD is obtained as 1.97x10{sup -4}, which matches well with the theoretical result. (authors)

  5. Fluctuation-induced transport of two coupled particles: Effect of the interparticle interaction

    NASA Astrophysics Data System (ADS)

    Makhnovskii, Yurii A.; Rozenbaum, Viktor M.; Sheu, Sheh-Yi; Yang, Dah-Yen; Trakhtenberg, Leonid I.; Lin, Sheng Hsien

    2014-06-01

    We consider a system of two coupled particles fluctuating between two states, with different interparticle interaction potentials and particle friction coefficients. An external action drives the interstate transitions that induces reciprocating motion along the internal coordinate x (the interparticle distance). The system moves unidirectionally due to rectification of the internal motion by asymmetric friction fluctuations and thus operates as a dimeric motor that converts input energy into net movement. We focus on how the law of interaction between the particles affects the dimer transport and, in particular, the role of thermal noise in the motion inducing mechanism. It is argued that if the interaction potential behaves at large distances as xα, depending on the value of the exponent α, the thermal noise plays a constructive (α > 2), neutral (α = 2), or destructive (α < 2) role. In the case of α = 1, corresponding piecewise linear potential profiles, an exact solution is obtained and discussed in detail.

  6. TART97 a coupled neutron-photon 3-D, combinatorial geometry Monte Carlo transport code

    SciTech Connect

    Cullen, D.E.

    1997-11-22

    TART97 is a coupled neutron-photon, 3 Dimensional, combinatorial geometry, time dependent Monte Carlo transport code. This code can on any modern computer. It is a complete system to assist you with input preparation, running Monte Carlo calculations, and analysis of output results. TART97 is also incredibly FAST; if you have used similar codes, you will be amazed at how fast this code is compared to other similar codes. Use of the entire system can save you a great deal of time and energy. TART97 is distributed on CD. This CD contains on- line documentation for all codes included in the system, the codes configured to run on a variety of computers, and many example problems that you can use to familiarize yourself with the system. TART97 completely supersedes all older versions of TART, and it is strongly recommended that users only use the most recent version of TART97 and its data riles.

  7. Lattice Boltzmann technique for heat transport phenomena coupled with melting process

    NASA Astrophysics Data System (ADS)

    Ibrahem, A. M.; El-Amin, M. F.; Mohammadein, A. A.; Gorla, Rama Subba Reddy

    2017-01-01

    In this work, the heat transport phenomena coupled with melting process are studied by using the enthalpy-based lattice Boltzmann method (LBM). The proposed model is a modified version of thermal LB model, where could avoid iteration steps and ensures high accuracy. The Bhatnagar-Gross-Krook (BGK) approximation with a D1Q2 lattice was used to determine the temperature field for one-dimensional melting by conduction and multi-distribution functions (MDF) with D2Q9 lattice was used to determine the density, velocity and temperature fields for two-dimensional melting by natural convection. Different boundary conditions including Dirichlet, adiabatic and bounce-back boundary conditions were used. The influence of increasing Rayleigh number (from 103 to 105) on temperature distribution and melting process is studied. The obtained results show that a good agreement with the analytical solution for melting by conduction case and with the benchmark solution for melting by convection.

  8. Universal transport dynamics in a quenched tunnel-coupled Luttinger liquid

    NASA Astrophysics Data System (ADS)

    Gambetta, F. M.; Cavaliere, F.; Citro, R.; Sassetti, M.

    2016-07-01

    The transport dynamics of a quenched Luttinger liquid tunnel-coupled to a fermionic reservoir is investigated. In the transient dynamics, we show that for a sudden quench of the electron interaction universal power-law decay in time of the tunneling current occurs, ascribed to the presence of entangled compound excitations created by the quench. In sharp contrast to the usual nonuniversal power-law behavior of a zero-temperature nonquenched Luttinger liquid, the steady-state tunneling current is Ohmic and can be explained in terms of an effective quench-activated heating of the system. Our study unveils an unconventional dynamics for a quenched Luttinger liquid that could be identified in quenched cold Fermi gases.

  9. Anomalous quantum heat transport in a one-dimensional harmonic chain with random couplings.

    PubMed

    Yan, Yonghong; Zhao, Hui

    2012-07-11

    We investigate quantum heat transport in a one-dimensional harmonic system with random couplings. In the presence of randomness, phonon modes may normally be classified as ballistic, diffusive or localized. We show that these modes can roughly be characterized by the local nearest-neighbor level spacing distribution, similarly to their electronic counterparts. We also show that the thermal conductance G(th) through the system decays rapidly with the system size (G(th) ∼ L(-α)). The exponent α strongly depends on the system size and can change from α < 1 to α > 1 with increasing system size, indicating that the system undergoes a transition from a heat conductor to a heat insulator. This result could be useful in thermal control of low-dimensional systems.

  10. Thermal monitoring of transport infrastructures by infrared thermography coupled with inline local atmospheric conditions survey

    NASA Astrophysics Data System (ADS)

    Dumoulin, J.

    2013-09-01

    An infrared system architecture (software and hardware) has been studied and developed to allow long term monitoring of transport infrastructures in a standalone configuration. It is based on the implementation of low cost infrared thermal cameras (equipped with uncooled microbolometer focal plane array) available on the market coupled with other measurement systems. All data collected feed simplified radiative models running on GPU available on small PC to produce corrected thermal map of the surveyed structure at selected time step. Furthermore, added Web-enabled capabilities of this new infrared measurement system are also presented and discussed. A prototype of this system was tested and evaluated on real infrastructure opened to traffic. Results obtained by image and signal processing are presented. Finally, conclusions and perspectives for new implementation and new functionalities are presented and discussed.

  11. Transport through a strongly coupled graphene quantum dot in perpendicular magnetic field

    PubMed Central

    2011-01-01

    We present transport measurements on a strongly coupled graphene quantum dot in a perpendicular magnetic field. The device consists of an etched single-layer graphene flake with two narrow constrictions separating a 140 nm diameter island from source and drain graphene contacts. Lateral graphene gates are used to electrostatically tune the device. Measurements of Coulomb resonances, including constriction resonances and Coulomb diamonds prove the functionality of the graphene quantum dot with a charging energy of approximately 4.5 meV. We show the evolution of Coulomb resonances as a function of perpendicular magnetic field, which provides indications of the formation of the graphene specific 0th Landau level. Finally, we demonstrate that the complex pattern superimposing the quantum dot energy spectra is due to the formation of additional localized states with increasing magnetic field. PMID:21711781

  12. Electronic transport in DNA sequences: The role of correlations and inter-strand coupling

    NASA Astrophysics Data System (ADS)

    Albuquerque, E. L.; Lyra, M. L.; de Moura, F. A. B. F.

    2006-10-01

    We investigate the electronic properties in sequences of single and double-strand DNA molecules made up from the nucleotides guanine G, adenine A, cytosine C and thymine T. Using a tight-binding formulation we solve the time-dependent Schrödinger equation to compute the spread of initially localized wave packets. We also compute the localization length in finite segments by employing a Green's function recursion method. We compare the results for the genomic DNA sequence with those of two artificial sequences, namely the quasiperiodic Rudin-Shapiro one, which has long-range correlations, and a intra-strand pair correlated DNA sequence. We found that the short-range character of the intra-strand correlations suffices for a quantitative description of the one-electron wave-packet dynamics in the double-strand real DNA sequences. Further, the inter-strand coupling promotes electronic transport over a longer segment.

  13. MODELING COUPLING OF EEL GRASS ZOSTRA MARINA AND WATER FLOW

    EPA Science Inventory

    Ecological effects caused by submerged aquatic vegetation not only depend on the plants and their morphology but also on the flow and transport patterns of dissolved and suspended constituents near the canopy. The height of the canopy is a major parameter in any quantitative an...

  14. Modeling multicomponent ionic transport in groundwater with IPhreeqc coupling: Electrostatic interactions and geochemical reactions in homogeneous and heterogeneous domains

    NASA Astrophysics Data System (ADS)

    Muniruzzaman, Muhammad; Rolle, Massimo

    2016-12-01

    The key role of small-scale processes like molecular diffusion and electrochemical migration has been increasingly recognized in multicomponent reactive transport in saturated porous media. In this study, we propose a two-dimensional multicomponent reactive transport model taking into account the electrostatic interactions during transport of charged ions in physically and chemically heterogeneous porous media. The modeling approach is based on the local charge balance and on the description of compound-specific and spatially variable diffusive/dispersive fluxes. The multicomponent ionic transport code is coupled with the geochemical code PHREEQC-3 by utilizing the IPhreeqc module, thus enabling to perform the geochemical calculations included in the PHREEQC's reaction package. The multicomponent reactive transport code is benchmarked with different 1-D and 2-D transport problems. Successively, conservative and reactive transport examples are presented to demonstrate the capability of the proposed model to simulate transport of charged species in heterogeneous porous media with spatially variable physical and chemical properties. The results reveal that the Coulombic cross-coupling between dispersive fluxes can significantly influence conservative as well as reactive transport of charged species both at the laboratory and at the field scale.

  15. Dynamic simulation of multicomponent reaction transport in water distribution systems.

    PubMed

    Munavalli, G R; Mohan Kumar, M S M S

    2004-04-01

    Given the presence of nutrients, regrowth of bacteria within a distribution system is possible. The bacterial growth phenomena, which can be studied by developing a multicomponent (substrate, biomass and disinfectant) reaction transport model, is governed by its relationship with the substrate (organic carbon) and disinfectant (chlorine). The multicomponent reaction transport model developed in the present study utilizes the simplified expressions for the basic processes (in bulk flow and at pipe wall) such as bacterial growth and decay, attachment to and detachment from the surface, substrate utilization and disinfectant action involved in the model. The usefulness of the model is further enhanced by the incorporation of an expression for bulk reaction parameter relating it with the organic carbon. The model is validated and applied to study the sensitive behavior of the components using a hypothetical network. The developed model is able to simulate the biodegradable organic carbon threshold in accordance with the values reported in the literature. The spread of contaminant intruded into the system at any location can also be simulated by the model. The multicomponent model developed is useful for water supply authorities in identifying the locations with high substrate concentrations, bacterial growth and lower chlorine residuals.

  16. DYNAMICS OF WATER TRANSPORT AND STORAGE IN CONIFERS STUDIED WITH DEUTERIUM AND HEAT TRACING TECHNIQUES

    EPA Science Inventory

    The volume and complexity of their vascular systems make the dynamics of long-distance water transport difficult to study. We used heat and deuterated water (D2O) as tracers to characterize whole-tree water transport and storage properties in individual trees belonging to the co...

  17. Reduction of Auxin Transport Capacity with Age and Internal Water Deficits in Cotton Petioles 1

    PubMed Central

    Davenport, Thomas L.; Morgan, Page W.; Jordan, Wayne R.

    1980-01-01

    Auxin transport was examined in leaf petioles taken from the upper, middle, and lower leaf canopy of large cotton plants. The ability of petioles to transport auxin decreased with age (position) of the leaves. Plant water deficit reduced transport regardless of age. These correlations support the view that reduced transport capacity of petioles plays a significant role in the induction of abscission of lower or older leaves during water deficits. PMID:16661278

  18. Single-photon transport through an atomic chain coupled to a one-dimensional nanophotonic waveguide

    NASA Astrophysics Data System (ADS)

    Liao, Zeyang; Zeng, Xiaodong; Zhu, Shi-Yao; Zubairy, M. Suhail

    2015-08-01

    We study the dynamics of a single-photon pulse traveling through a linear atomic chain coupled to a one-dimensional (1D) single mode photonic waveguide. We derive a time-dependent dynamical theory for this collective many-body system which allows us to study the real time evolution of the photon transport and the atomic excitations. Our analytical result is consistent with previous numerical calculations when there is only one atom. For an atomic chain, the collective interaction between the atoms mediated by the waveguide mode can significantly change the dynamics of the system. The reflectivity of a photon can be tuned by changing the ratio of coupling strength and the photon linewidth or by changing the number of atoms in the chain. The reflectivity of a single-photon pulse with finite bandwidth can even approach 100 % . The spectrum of the reflected and transmitted photon can also be significantly different from the single-atom case. Many interesting physical phenomena can occur in this system such as the photonic band-gap effects, quantum entanglement generation, Fano-like interference, and superradiant effects. For engineering, this system may serve as a single-photon frequency filter, single-photon modulation, and may find important applications in quantum information.

  19. Transport of water into the lower mantle: Role of stishovite

    SciTech Connect

    Panero, W.R.; Benedetti, L.R.; Jeanloz, R.

    2010-12-01

    When subjected to lower-mantle pressures and temperatures, natural 'anhydrous' basalt containing 0.2 wt.% H{sub 2}O forms a phase assemblage in which SiO{sub 2} stishovite is a significant carrier of hydrogen (up to 500 ppm H{sub 2}O by weight, as hydroxide), whereas the coexisting (Mg, Fe, Al, Ca)SiO{sub 3} perovskite appears to be not (upper bound of 50 ppm (wt) H{sub 2}O). Contrary to the devolatilization characteristically observed at lower pressures, we find that the abundance of H{sub 2}O in residual stishovite increases from {approx}100 to {approx}400 ppm by weight upon partially melting the high-pressure mineral assemblage at 28-60 GPa. We infer that the trace concentration of Al within residual stishovite increases upon partial melting, thereby increasing the coupled abundance of H in this crystalline phase. The 'anhydrous' component of subducted oceanic crust can thus recycle a significant amount of water into the lower mantle over the age of the Earth, with subducted stishovite potentially returning {approx} 10{sup 2} times the amount of water present in today's atmosphere.

  20. Coupled plasma-neutral transport model for the scrape-off region

    SciTech Connect

    Galambos, J.D.; Peng, Y.K.M.; Heifetz, D.

    1985-03-01

    Analysis of the scrape-off region requires treatment of the plasma transport along and across the field lines and inclusion of the neutral transport effects. A method for modeling the scrape-off region that is presented here uses separate models for each of these aspects that are coupled together through an iteration procedure that requires only minimal numerical effort. The method is applied here to estimate the neutral pumping rates in the pump-limiter and divertor options for a proposed deuterium-tritium (D-T) ignition experiment. High neutral recycling in the vicinity of the neutralizer plate dramatically affects pumping rates for both the pump-limiter and divertor. In both cases, the plasma flow into the channel surrounding the neutralizer plate is greatly reduced by the neutral recycling. The fraction of this flow that is pumped can be large (> 50%), but in general it is dependent on the particular geometry and plasma conditions. It is estimated that pumping speeds approximately greater than 10/sup 5/ L/s are adequate for the exhaust requirements in the pump-limiter and the divertor cases. Also, high neutral recycling on the front surface of the limiter tends to increase the neutral pumping rate.

  1. Novel macrocyclic carriers for proton-coupled liquid membrane transport. Final report

    SciTech Connect

    Lamb, J.D.; Izatt, R.M.; Bradshaw, J.S.; Shirts, R.B.

    1996-08-24

    The objective of this research program is to elucidate the chemical principles which are responsible for the cation selectivity and permeability of liquid membranes containing macrocyclic carriers. Several new macrocyclic carriers were synthesized during the last three year period. In addition, new, more convenient synthetic routes were achieved for several nitrogen-containing bicyclic and tricyclic macrocycles. The cation binding properties of these macrocycles were investigated by potentiometric titration, calorimetric titration, solvent extraction and NMR techniques. In addition, hydrophobic macrocycles were incorporated into dual hollow fiber and other membrane systems to investigate their membrane performance, especially in the proton-coupled transport mode. A study of the effect of methoxyalkyl macrocycle substituents on metal ion transport was completed. A new calorimeter was constructed which made it possible to study the thermodynamics of macrocycle-cation binding to very high temperatures. Measurements of thermodynamic data for the interaction of crown ethers with alkali and alkaline earth cations were achieved to 473 K. Molecular modeling work was begun for the first time on this project and fundamental principles were identified and developed for the establishment of working models in the future.

  2. Suppression of Baryon Diffusion and Transport in a Baryon Rich Strongly Coupled Quark-Gluon Plasma.

    PubMed

    Rougemont, Romulo; Noronha, Jorge; Noronha-Hostler, Jacquelyn

    2015-11-13

    Five dimensional black hole solutions that describe the QCD crossover transition seen in (2+1)-flavor lattice QCD calculations at zero and nonzero baryon densities are used to obtain predictions for the baryon susceptibility, baryon conductivity, baryon diffusion constant, and thermal conductivity of the strongly coupled quark-gluon plasma in the range of temperatures 130  MeV≤T≤300  MeV and baryon chemical potentials 0≤μ(B)≤400  MeV. Diffusive transport is predicted to be suppressed in this region of the QCD phase diagram, which is consistent with the existence of a critical end point at larger baryon densities. We also calculate the fourth-order baryon susceptibility at zero baryon chemical potential and find quantitative agreement with recent lattice results. The baryon transport coefficients computed in this Letter can be readily implemented in state-of-the-art hydrodynamic codes used to investigate the dense QGP currently produced at RHIC's low energy beam scan.

  3. Spin transport study in a Rashba spin-orbit coupling system

    NASA Astrophysics Data System (ADS)

    Mei, Fuhong; Zhang, Shan; Tang, Ning; Duan, Junxi; Xu, Fujun; Chen, Yonghai; Ge, Weikun; Shen, Bo

    2014-02-01

    One of the most important topics in spintronics is spin transport. In this work, spin transport properties of two-dimensional electron gas in AlxGa1-xN/GaN heterostructure were studied by helicity-dependent photocurrent measurements at room temperature. Spin-related photocurrent was detected under normal incidence of a circularly polarized laser with a Gaussian distribution. On one hand, spin polarized electrons excited by the laser generate a diffusive spin polarization current, which leads to a vortex charge current as a result of anomalous circular photogalvanic effect. On the other hand, photo-induced spin polarized electrons driven by a longitudinal electric field give rise to a transverse current via anomalous Hall Effect. Both of these effects originated from the Rashba spin-orbit coupling. By analyzing spin-related photocurrent varied with laser position, the contributions of the two effects were differentiated and the ratio of the spin diffusion coefficient to photo-induced anomalous spin Hall mobility Ds/μs = 0.08 V was extracted at room temperature.

  4. Model of polar auxin transport coupled to mechanical forces retrieves robust morphogenesis along the Arabidopsis root

    NASA Astrophysics Data System (ADS)

    Romero-Arias, J. Roberto; Hernández-Hernández, Valeria; Benítez, Mariana; Alvarez-Buylla, Elena R.; Barrio, Rafael A.

    2017-03-01

    Stem cells are identical in many scales, they share the same molecular composition, DNA, genes, and genetic networks, yet they should acquire different properties to form a functional tissue. Therefore, they must interact and get some external information from their environment, either spatial (dynamical fields) or temporal (lineage). In this paper we test to what extent coupled chemical and physical fields can underlie the cell's positional information during development. We choose the root apical meristem of Arabidopsis thaliana to model the emergence of cellular patterns. We built a model to study the dynamics and interactions between the cell divisions, the local auxin concentration, and physical elastic fields. Our model recovers important aspects of the self-organized and resilient behavior of the observed cellular patterns in the Arabidopsis root, in particular, the reverse fountain pattern observed in the auxin transport, the PIN-FORMED (protein family of auxin transporters) polarization pattern and the accumulation of auxin near the region of maximum curvature in a bent root. Our model may be extended to predict altered cellular patterns that are expected under various applied auxin treatments or modified physical growth conditions.

  5. Water recycling by Amazonian vegetation: coupled versus uncoupled vegetation-climate interactions.

    PubMed

    Cowling, S A; Shin, Y; Pinto, E; Jones, C D

    2008-05-27

    To demonstrate the relationship between Amazonian vegetation and surface water dynamics, specifically, the recycling of water via evapotranspiration (ET), we compare two general circulation model experiments; one that couples the IS92a scenario of future CO2 emissions to a land-surface scheme with dynamic vegetation (coupled) and the other to fixed vegetation (uncoupled). Because the only difference between simulations involves vegetation coupling, any alterations to surface energy and water balance must be due to vegetation feedbacks. The proportion of water recycled back to the atmosphere is relatively conserved through time for both experiments. Absolute value of recycled water is lower in our coupled relative to our uncoupled simulation as a result of increasing atmospheric CO2 that in turn promotes lowering of stomatal conductance and increase in water-use efficiency. Bowen ratio increases with decreasing per cent broadleaf cover, with the greatest rate of change occurring at high vegetation cover (above 70% broadleaf cover). Over the duration of the climate change simulation, precipitation is reduced by an extra 30% in the coupled relative to the uncoupled simulations. Lifting condensation level (proxy for base height of cumulus cloud formation) is 520m higher in our coupled relative to uncoupled simulations.

  6. Lifetime Prediction of Polyethylene Pipes Transporting Drinking Water in the Presence of Chlorine Dioxide

    NASA Astrophysics Data System (ADS)

    Colin, X.; Audouin, L.; Verdu, J.

    2008-08-01

    A kinetic model for lifetime prediction of polyethylene pipes transporting pressurized water disinfected by chlorine dioxide (DOC) has been elaborated. This model is composed of three sub-models: —A system of differential equations, derived from a realistic mechanistic scheme for radical chain oxidation in the presence of DOC of stabilized polyethylene (PE), giving access to the spatial distribution of structural changes in the pipe wall and its evolution against time of exposure; —The classical Saito's equation to predict the profiles of average molar masses from the spatial distribution of chain scissions and crosslinking events; —An empirical creep equation and an empirical fracture criterion derived from regression curves obtained in pure water. It is assumed that chemical degradation modifies only the time to transition tc between ductile and brittle regimes of failure, and that tc is linked to the weight average molar mass by a power law. By combining these three sub-models, it is possible to predict the time to failure tF under the coupled effects of pressure and chemical degradation. In current use conditions (under 3-12 bars water pressure, at 15 °C, in the presence of 0.15 mg of DOC per liter of water), the model predicts a tF of the order of 15 years against more than 50 years expected lifetime, that agrees well with experimental results.

  7. Reactive chemical transport in ground-water hydrology: Challenges to mathematical modeling

    SciTech Connect

    Narasimhan, T.N.; Apps, J.A.

    1990-07-01

    For a long time, earth scientists have qualitatively recognized that mineral assemblages in soils and rocks conform to established principles of chemistry. In the early 1960's geochemists began systematizing this knowledge by developing quantitative thermodynamic models based on equilibrium considerations. These models have since been coupled with advective-dispersive-diffusive transport models, already developed by ground-water hydrologists. Spurred by a need for handling difficult environmental issues related to ground-water contamination, these models are being improved, refined and applied to realistic problems of interest. There is little doubt that these models will play an important role in solving important problems of engineering as well as science over the coming years. Even as these models are being used practically, there is scope for their improvement and many challenges lie ahead. In addition to improving the conceptual basis of the governing equations, much remains to be done to incorporate kinetic processes and biological mediation into extant chemical equilibrium models. Much also remains to be learned about the limits to which model predictability can be reasonably taken. The purpose of this paper is to broadly assess the current status of knowledge in modeling reactive chemical transport and to identify the challenges that lie ahead.

  8. Integrated TIGER Series of Coupled Electron/Photon Monte Carlo Transport Codes System.

    SciTech Connect

    VALDEZ, GREG D.

    2012-11-30

    Version: 00 Distribution is restricted to US Government Agencies and Their Contractors Only. The Integrated Tiger Series (ITS) is a powerful and user-friendly software package permitting state-of-the-art Monte Carlo solution of linear time-independent coupled electron/photon radiation transport problems, with or without the presence of macroscopic electric and magnetic fields of arbitrary spatial dependence. The goal has been to simultaneously maximize operational simplicity and physical accuracy. Through a set of preprocessor directives, the user selects one of the many ITS codes. The ease with which the makefile system is applied combines with an input scheme based on order-independent descriptive keywords that makes maximum use of defaults and internal error checking to provide experimentalists and theorists alike with a method for the routine but rigorous solution of sophisticated radiation transport problems. Physical rigor is provided by employing accurate cross sections, sampling distributions, and physical models for describing the production and transport of the electron/photon cascade from 1.0 GeV down to 1.0 keV. The availability of source code permits the more sophisticated user to tailor the codes to specific applications and to extend the capabilities of the codes to more complex applications. Version 6, the latest version of ITS, contains (1) improvements to the ITS 5.0 codes, and (2) conversion to Fortran 95. The general user friendliness of the software has been enhanced through memory allocation to reduce the need for users to modify and recompile the code.

  9. On the coupling between the dynamics of protein and water.

    PubMed

    Gavrilov, Yulian; Leuchter, Jessica D; Levy, Yaakov

    2017-03-09

    Interactions between water and biomolecules can significantly change the former's structural, dynamic, and thermodynamic properties relative to the bulk. Experimental, theoretical, and computational studies show that changes in water properties can be observed at distances of more than 10 Å from a biomolecule. The effects of biopolymers on hydration water molecules can be attributed to several factors: the chemical nature of the amino acid residues involved, the spatial arrangement of the biomolecule, and its conformational flexibility. In the current study, we concentrate on the effect of protein chain flexibility on the properties of hydration water, using short peptides as a model. We constructed 18 linear peptides with the sequence (XXGG) × 5, where X represents one of the common amino acids, other than glycine and proline. Using molecular dynamics (MD) simulations, we studied how restricting the chain flexibility can affect the structural, dynamic, and thermodynamic properties of hydration water. We found that restricting the peptide dynamics can slow down the translational motions of water molecules to a distance of at least 12-13 Å. Analysis of the 'slow' water molecules (residence time ≥ 100 ps) together with a thermodynamic analysis of water within 4.5 Å of the peptide revealed significant differences between the hydration properties of the peptides. The balance between the entropic and enthalpic solvation effects defines the final contribution to the hydration free energy of the restricted system. Our study implies that different regions of the proteins that have different configurational entropies may also have different solvation entropies and therefore different contributions to the overall thermodynamic stability. Therefore, mutations of a solvent exposed residue may modify the thermodynamic stability depending solely on the flexibility of the mutated sites due to their different solvation characteristics.

  10. Energy and water vapor transport in a turbulent stratified environment

    NASA Astrophysics Data System (ADS)

    Gallana, Luca; de Santi, Francesca; Iovieno, Michele; Richiardone, Renzo; Tordella, Daniela

    2015-11-01

    We present direct numerical simulations about the transport of kinetic energy and unsaturated water vapor across a thin layer which separates two decaying turbulent flows with different energy. This interface lies in a shearless stratified environment modeled by means of Boussinesq's approximation. Water vapor is treated as a passive scalar (Kumar et al. 2014). Initial conditions have Fr2 between 0.64 and 64 (stable case) and between -3.2 and -19 (unstable case) and Reλ = 250 . Dry air is in the lower half of the domain and has a higher turbulent energy, seven times higher than the energy of moist air in the upper half. In the early stage of evolution, as long as | F r2 | > 1 , stratification plays a minor role and the flows follows closely neutral stratification mixing. As the buoyancy terms grows, Fr2 ~ O (1) , the mixing process deeply changes. A stable stratification generates a separation layer which blocks the entrainment of dry air into the moist one, characterized by a relative increment of the turbulent dissipation rate compared to the local turbulent energy. On the contrary, an unstable stratification sligthy enhances the entrainment. Growth-decay of energy and mixing layer thichness are discussed and compared with laboratory and numerical experiments.

  11. A Nanoscale Hydrodynamical Model for Transport of Water

    NASA Astrophysics Data System (ADS)

    Bhadauria, Ravi; Sanghi, Tarun; Aluru, N. R.

    2015-11-01

    We present here a one-dimensional isothermal hydrodynamic transport model for SPC/E water. Two separate mechanisms of flow, viz. viscous and slip are incorporated in the present formulation. Spatially varying viscosity is modeled using the local average density method. Slip velocity is provided as a form of the boundary condition which in turn depends upon the macroscopic interfacial friction coefficient. The friction coefficient bridges the atomistic and continuum descriptions of the problem. The value of this friction coefficient is computed using particle-based wall-fluid force autocorrelations and wall-fluid force-velocity cross correlations, where the particle trajectory is generated using a Generalized Langevin Equation formulation. To test the accuracy of the model, gravity driven flow of SPC/E water confined between graphene and silicon slit shaped nanochannels are considered as examples for low and high friction cases. The proposed model yields good quantitative agreement with the velocity profiles obtained from non-equilibrium molecular dynamics simulations. Furthermore, we demonstrate that the slip length is constant for different channel widths for a fixed thermodynamic state under the linear response regime.

  12. MODFLOW-Based Coupled Surface Water Routing and Groundwater-Flow Simulation.

    PubMed

    Hughes, J D; Langevin, C D; White, J T

    2015-01-01

    In this paper, we present a flexible approach for simulating one- and two-dimensional routing of surface water using a numerical surface water routing (SWR) code implicitly coupled to the groundwater-flow process in MODFLOW. Surface water routing in SWR can be simulated using a diffusive-wave approximation of the Saint-Venant equations and/or a simplified level-pool approach. SWR can account for surface water flow controlled by backwater conditions caused by small water-surface gradients or surface water control structures. A number of typical surface water control structures, such as culverts, weirs, and gates, can be represented, and it is possible to implement operational rules to manage surface water stages and streamflow. The nonlinear system of surface water flow equations formulated in SWR is solved by using Newton methods and direct or iterative solvers. SWR was tested by simulating the (1) Lal axisymmetric overland flow, (2) V-catchment, and (3) modified Pinder-Sauer problems. Simulated results for these problems compare well with other published results and indicate that SWR provides accurate results for surface water-only and coupled surface water/groundwater problems. Results for an application of SWR and MODFLOW to the Snapper Creek area of Miami-Dade County, Florida, USA are also presented and demonstrate the value of coupled surface water and groundwater simulation in managed, low-relief coastal settings.

  13. MODFLOW-based coupled surface water routing and groundwater-flow simulation

    USGS Publications Warehouse

    Hughes, Joseph D.; Langevin, Christian D.; White, Jeremy T.

    2015-01-01

    In this paper, we present a flexible approach for simulating one- and two-dimensional routing of surface water using a numerical surface water routing (SWR) code implicitly coupled to the groundwater-flow process in MODFLOW. Surface water routing in SWR can be simulated using a diffusive-wave approximation of the Saint-Venant equations and/or a simplified level-pool approach. SWR can account for surface water flow controlled by backwater conditions caused by small water-surface gradients or surface water control structures. A number of typical surface water control structures, such as culverts, weirs, and gates, can be represented, and it is possible to implement operational rules to manage surface water stages and streamflow. The nonlinear system of surface water flow equations formulated in SWR is solved by using Newton methods and direct or iterative solvers. SWR was tested by simulating the (1) Lal axisymmetric overland flow, (2) V-catchment, and (3) modified Pinder-Sauer problems. Simulated results for these problems compare well with other published results and indicate that SWR provides accurate results for surface water-only and coupled surface water/groundwater problems. Results for an application of SWR and MODFLOW to the Snapper Creek area of Miami-Dade County, Florida, USA are also presented and demonstrate the value of coupled surface water and groundwater simulation in managed, low-relief coastal settings.

  14. Mechanobiology of low-density lipoprotein transport within an arterial wall--impact of hyperthermia and coupling effects.

    PubMed

    Chung, Stephen; Vafai, Kambiz

    2014-01-03

    The effects of hyperthermia, coupling attributes and property variations on Low-density lipoprotein (LDL) transport within a multi-layered wall while accounting for the fluid structure interaction (FSI) is analyzed in this work. To understand the potential impact of the hyperthermia process, thermo-induced attributes are incorporated, accounting for the plasma flow, mass transfer, as well as the elastic wall structure. The coupling effect of osmotic pressure, Soret and Dufour diffusion is discussed and their influence on LDL transport is examined, demonstrating that only the Soret effect needs to be accounted for. The effect of thermal expansion on changing the behavior of flow, mass transport, and elastic structure is illustrated and analyzed while incorporating the variations in the effective LDL diffusivity and consumption rate, as well as other dominating parameters. It is shown that hyperthermia results in an enhancement in LDL transport by increasing the concentration levels within the arterial wall.

  15. Slip effects on mixed convective peristaltic transport of copper-water nanofluid in an inclined channel.

    PubMed

    Abbasi, Fahad Munir; Hayat, Tasawar; Ahmad, Bashir; Chen, Guo-Qian

    2014-01-01

    Peristaltic transport of copper-water nanofluid in an inclined channel is reported in the presence of mixed convection. Both velocity and thermal slip conditions are considered. Mathematical modelling has been carried out using the long wavelength and low Reynolds number approximations. Resulting coupled system of equations is solved numerically. Quantities of interest are analyzed through graphs. Numerical values of heat transfer rate at the wall for different parameters are obtained and examined. Results showed that addition of copper nanoparticles reduces the pressure gradient, axial velocity at the center of channel, trapping and temperature. Velocity slip parameter has a decreasing effect on the velocity near the center of channel. Temperature of nanofluid increases with increase in the Grashoff number and channel inclination angle. It is further concluded that the heat transfer rate at the wall increases considerably in the presence of copper nanoparticles.

  16. Slip Effects on Mixed Convective Peristaltic Transport of Copper-Water Nanofluid in an Inclined Channel

    PubMed Central

    Abbasi, Fahad Munir; Hayat, Tasawar; Ahmad, Bashir; Chen, Guo-Qian

    2014-01-01

    Peristaltic transport of copper-water nanofluid in an inclined channel is reported in the presence of mixed convection. Both velocity and thermal slip conditions are considered. Mathematical modelling has been carried out using the long wavelength and low Reynolds number approximations. Resulting coupled system of equations is solved numerically. Quantities of interest are analyzed through graphs. Numerical values of heat transfer rate at the wall for different parameters are obtained and examined. Results showed that addition of copper nanoparticles reduces the pressure gradient, axial velocity at the center of channel, trapping and temperature. Velocity slip parameter has a decreasing effect on the velocity near the center of channel. Temperature of nanofluid increases with increase in the Grashoff number and channel inclination angle. It is further concluded that the heat transfer rate at the wall increases considerably in the presence of copper nanoparticles. PMID:25170908

  17. Description of fluid dynamics and coupled transports in models of a laminar flow diffusion chamber.

    PubMed

    Trávníčková, Tereza; Havlica, Jaromír; Ždímal, Vladimír

    2013-08-14

    The aim of this study is to assess how much the results of nucleation experiments in a laminar flow diffusion chamber (LFDC) are influenced by the complexity of the model of the transport properties. The effects of the type of fluid dynamic model (the steady state compressible Navier-Stokes system for an ideal gas/parabolic profile approximation) and the contributions of the coupled terms describing the Dufour effects and thermodiffusion on the predicted magnitude of the nucleation maxima and its location were investigated. This study was performed on the model of the homogeneous nucleation of an n-butanol-He vapor mixture in a LFDC. The isothermal dependencies of the nucleation rate on supersaturation were determined at three nucleation temperatures: 265 K, 270 K, and 280 K. For this purpose, the experimental LFDC data measured by A. P. Hyvärinen et al. [J. Chem. Phys. 124, 224304 (2006)] were reevaluated using transport models at different levels of complexity. Our results indicate that the type of fluid dynamical model affects both the position of the nucleation maxima in the LFDC and the maximum value of the nucleation rate. On the other hand, the Dufour effects and thermodiffusion perceptibly influence only the value of the maximal nucleation rate. Its position changes only marginally. The dependence of the maximum experimental nucleation rate on the saturation ratio and nucleation temperature was acquired for each case. Based on this dependence, we presented a method for the comparison and evaluation of the uncertainties of simpler models' solutions for the results, where we assumed that the model with Navier-Stokes equations and both coupled effects taken into account was the basis. From this comparison, it follows that an inappropriate choice of mathematical models could lead to relative errors of the order of several hundred percent in the maximum experimental nucleation rate. In the conclusion of this study, we also provide some general recommendations

  18. Description of fluid dynamics and coupled transports in models of a laminar flow diffusion chamber

    NASA Astrophysics Data System (ADS)

    Trávníčková, Tereza; Havlica, Jaromír; Ždímal, Vladimír

    2013-08-01

    The aim of this study is to assess how much the results of nucleation experiments in a laminar flow diffusion chamber (LFDC) are influenced by the complexity of the model of the transport properties. The effects of the type of fluid dynamic model (the steady state compressible Navier-Stokes system for an ideal gas/parabolic profile approximation) and the contributions of the coupled terms describing the Dufour effects and thermodiffusion on the predicted magnitude of the nucleation maxima and its location were investigated. This study was performed on the model of the homogeneous nucleation of an n-butanol-He vapor mixture in a LFDC. The isothermal dependencies of the nucleation rate on supersaturation were determined at three nucleation temperatures: 265 K, 270 K, and 280 K. For this purpose, the experimental LFDC data measured by A. P. Hyvärinen et al. [J. Chem. Phys. 124, 224304 (2006), 10.1063/1.2200341] were reevaluated using transport models at different levels of complexity. Our results indicate that the type of fluid dynamical model affects both the position of the nucleation maxima in the LFDC and the maximum value of the nucleation rate. On the other hand, the Dufour effects and thermodiffusion perceptibly influence only the value of the maximal nucleation rate. Its position changes only marginally. The dependence of the maximum experimental nucleation rate on the saturation ratio and nucleation temperature was acquired for each case. Based on this dependence, we presented a method for the comparison and evaluation of the uncertainties of simpler models' solutions for the results, where we assumed that the model with Navier-Stokes equations and both coupled effects taken into account was the basis. From this comparison, it follows that an inappropriate choice of mathematical models could lead to relative errors of the order of several hundred percent in the maximum experimental nucleation rate. In the conclusion of this study, we also provide some

  19. Micro and nanoscale electrochemical systems for reagent generation, coupled electrokinetic transport and enhanced detection

    NASA Astrophysics Data System (ADS)

    Contento, Nicholas M.

    Chemical analysis is being performed in devices operated at ever decreasing length scales in order to harness the fundamental benefits of micro and nanoscale phenomena while minimizing operating footprint and sample size. The advantages of moving traditional sample or chemical processing steps (e.g. separation, detection, and reaction) into micro- and nanofluidic devices have been demonstrated, and they arise from the relatively rapid rates of heat and mass transport at small length scales. The use of electrochemical methods in micro/nanoscale systems to control and improve these processes holds great promise. Unfortunately, much is still not understood about the coupling of multiple electrode driven processes in a confined environment nor about the fundamental changes in device performance that occur as geometries approach the nanoscale regime. At the nanoscale a significant fraction of the sample volume is in close contact with the device surface, i.e. most of the sample is contained within electronic or diffusion layers associated with surface charge or surface reactions, respectively. The work presented in this thesis aims to understand some fundamental different behaviors observed in micro/nanofluidic structures, particularly those containing one or more embedded, metallic electrode structures. First, a quantitative method is devised to describe the impact of electric fields on electrochemistry in multi-electrode micro/nanofluidic systems. Next the chemical manipulation of small volumes (≤ 10-13 L) in micro/nanofluidic structures is explored by creating regions of high pH and high dissolved gas (H 2) concentration through the electrolysis of H2O. Massively parallel arrays of nanochannel electrodes, or embedded annular nanoband electrodes (EANEs), are then studied with a focus on achieving enhanced signals due to coupled electrokinetic and electrochemical effects. In EANE devices, electroosmotic flow results from the electric field generated between the

  20. Bedload Transport on Steep Slopes with Coupled Modeling Based on the Discrete Element Method

    NASA Astrophysics Data System (ADS)

    Chauchat, J.; Maurin, R.; Chareyre, B.; Frey, P.

    2014-12-01

    After more than a century of research, a clear understanding of the physical processes involved in sediment transport problems is still lacking. In particular, modeling of intergranular interactions and fluid-particle interactions in bedload transport need to be improved. In this contribution, we propose a simple numerical model coupling a Discrete Element Method (DEM) for the grain dynamics with a simple 1D vertical fluid phase model inspired from the two-phase approach [1] in order to contribute to this open question. The Reynolds stress is parameterized by a mixing length model which depends on the integral of the grain volume fraction. The coupling between the grains and the fluid phase is essentially achieved through buoyancy and drag forces. The open source DEM code Yade [2] is used with a linear spring-dashpot contact law that allows the description of the behavior of the particles from the quasi-static to the dynamical state. The model is compared with classical results [3] and with particle-scale experimental results obtained in the quasi-2D flume at IRSTEA, Grenoble [4]. We discuss the closures of the model and the sensitivity to the different physical and numerical parameters. [1] Revil-Baudard, T. and J. Chauchat. A two-phase model for sheet flow regime based on dense granular flow rheology. Journal of Geophysical Research: Oceans, 118(2):619-634, 2013. [2] Šmilauer V. , E. Catalano, B. Chareyre, S. Dorofeenko, J. Duriez, A. Gladky, J. Kozicki, C . Modenese, L. Scholtès, L. Sibille, J. Str.nský, and K. Thoeni. Yade Documentation (V. Šmilauer, ed.), The Yade Project, 1st ed., http://yade-dem.org/doc/., 2010. [3] Meyer-Peter, E. and R. Müller. Formulas for bed-load transport. In Proc. 2nd Meeting, pages 39-64. IAHR, 1948. [4] Frey, P. Particle velocity and concentration profiles in bedload experiments on a steep slope. Earth Surface Processes and Landforms, 39(5):646-655, 2014.

  1. Coupling Mars' Dust and Water Cycles: Effects on Dust Lifting Vigor, Spatial Extent and Seasonality

    NASA Technical Reports Server (NTRS)

    Kahre, M. A.; Hollingsworth, J. L.; Haberle, R. M.; Montmessin, F.

    2012-01-01

    The dust cycle is an important component of Mars' current climate system. Airborne dust affects the radiative balance of the atmosphere, thus greatly influencing the thermal and dynamical state of the atmosphere. Dust raising events on Mars occur at spatial scales ranging from meters to planet-wide. Although the occurrence and season of large regional and global dust storms are highly variable from one year to the next, there are many features of the dust cycle that occur year after year. Generally, a low-level dust haze is maintained during northern spring and summer, while elevated levels of atmospheric dust occur during northern autumn and winter. During years without global-scale dust storms, two peaks in total dust loading were observed by MGS/TES: one peak occurred before northern winter solstice at Ls 200-240, and one peak occurred after northern winter solstice at L(sub s) 305-340. These maxima in dust loading are thought to be associated with transient eddy activity in the northern hemisphere, which has been observed to maximize pre- and post-solstice. Interactive dust cycle studies with Mars General Circulation Models (MGCMs) have included the lifting, transport, and sedimentation of radiatively active dust. Although the predicted global dust loadings from these simulations capture some aspects of the observed dust cycle, there are marked differences between the simulated and observed dust cycles. Most notably, the maximum dust loading is robustly predicted by models to occur near northern winter solstice and is due to dust lifting associated with down slope flows on the flanks of the Hellas basin. Thus far, models have had difficulty simulating the observed pre- and post- solstice peaks in dust loading. Interactive dust cycle studies typically have not included the formation of water ice clouds or their radiative effects. Water ice clouds can influence the dust cycle by scavenging dust from atmosphere and by interacting with solar and infrared radiation

  2. Epithelial fluid transport: protruding macromolecules and space charges can bring about electro-osmotic coupling at the tight junctions.

    PubMed

    Rubashkin, A; Iserovich, P; Hernández, J A; Fischbarg, J

    2005-12-01

    The purpose of the present work is to investigate whether the idea of epithelial fluid transport based on electro-osmotic coupling at the level of the leaky tight junction (TJ) can be further supported by a plausible theoretical model. We develop a model for fluid transport across epithelial layers based on electro-osmotic coupling at leaky tight junctions (TJ) possessing protruding macromolecules and fixed electrical charges. The model embodies systems of electro-hydrodynamic equations for the intercellular pathway, namely the Brinkman and the Poisson-Boltzmann differential equations applied to the TJ. We obtain analytical solutions for a system of these two equations, and are able to derive expressions for the fluid velocity profile and the electrostatic potential. We illustrate the model by employing geometrical parameters and experimental data from the corneal endothelium, for which we have previously reported evidence for a central role for electro-osmosis in translayer fluid transport. Our results suggest that electro-osmotic coupling at the TJ can account for fluid transport by the corneal endothelium. We conclude that electro-osmotic coupling at the tight junctions could represent one of the basic mechanisms driving fluid transport across some leaky epithelia, a process that remains unexplained.

  3. Breakdown of water transport and resilient xylem structure in vascular plants

    NASA Astrophysics Data System (ADS)

    Ryu, Jeongeun; Kim, Wonjung; Lee, Sang Joon

    2016-11-01

    Plants can transport sap water without using a mechanical pump by exploiting a metastable state of water. However, sap water in a metastable state is vulnerable to cavitation and embolism, disrupting water transport in xylem vessels. We note that under this paradox, plants have been evolved to have resilient xylem network against breakdown of water transport as a survival strategy. In this study, we directly observe the onset of embolism and its spreading dynamics in live plants to establish a synthetic tree model. We also rationalize our experimental findings with a model describing embolism propagation under a metastable state of water and an interconnected xylem network structure which can minimize damages from cavitation and embolism. This study would shed light on the design of complex networks with resilience for effective transport as well as the physical understanding on the transport of metastable water.

  4. The application of water coupled nonlinear ultrasonics to quantify the dislocation density in aluminum 1100

    NASA Astrophysics Data System (ADS)

    Mostavi, Amir; Tehrani, N.; Kamali, N.; Ozevin, D.; Chi, S. W.; Indacochea, J. E.

    2017-02-01

    This article investigates water coupled nonlinear ultrasonic method to measure the dislocation density in aluminum 1100 specimens. The different levels of dislocation densities are introduced to the samples by applying different levels of plastic strains by tensile loading. The ultrasonic testing includes 2.25 MHz transducer as transmitter and 5.0 MHz transducer as receiver in an immersion tank. The results of immersion experiments are compared with oil-coupled experiments. While water has significant nonlinearity within itself, the immersion ultrasound results agree with the literature of oil coupled ultrasound results of the specimens that the nonlinearity coefficient increases with the increase of dislocation density in aluminum.

  5. Potential risk of microplastics transportation into ground water

    NASA Astrophysics Data System (ADS)

    Huerta, Esperanza; Gertsen, Hennie; Gooren, Harm; Peters, Piet; Salánki, Tamás; van der Ploeg, Martine; Besseling, Ellen; Koelmans, Albert A.; Geissen, Violette

    2016-04-01

    Microplastics, are plastics particles with a size smaller than 5mm. They are formed by the fragmentation of plastic wastes. They are present in the air, soil and water. But only in aquatic systems (ocean and rivers) are studies over their distribution, and the effect of microplastics on organisms. There is a lack of information of what is the distribution of microplastics in the soil, and in the ground water. This study tries to estimate the potential risk of microplastics transportation into the ground water by the activity of earthworms. Earthworms can produce burrows and/or galleries inside the soil, with the presence of earthworms some ecosystem services are enhanced, as infiltration. In this study we observed after 14 days with 5 treatments (0, 7, 28 and 60% w/w microplastics mixed with Populus nigra litter) and the anecic earthworm Lumbricus terrestris, in microcosms (3 replicas per treatment) that macroplastics are indeed deposit inside earthworms burrows, with 7% microplastics on the surface is possible to find 1.8 g.kg-1 microplastics inside the burrows, with a bioaumentation factor of 0.65. Burrows made by earthworms under 60% microplastics, are significant bigger (p<0.05) than the burrows of those earthworms without microplastics in their soil surface. The amount of litter that is deposit inside the burrows is significant higher (p<0.05) with the presence of microplastics on the surface than without microplastics. The microplastics size distribution is smaller inside the burrows than on the surface, with an abundance of particles under 63 μm.

  6. Solar geoengineering, atmospheric water vapor transport, and land plants

    NASA Astrophysics Data System (ADS)

    Caldeira, Ken; Cao, Long

    2015-04-01

    This work, using the GeoMIP database supplemented by additional simulations, discusses how solar geoengineering, as projected by the climate models, affects temperature and the hydrological cycle, and how this in turn is related to projected changes in net primary productivity (NPP). Solar geoengineering simulations typically exhibit reduced precipitation. Solar geoengineering reduces precipitation because solar geoengineering reduces evaporation. Evaporation precedes precipitation, and, globally, evaporation equals precipitation. CO2 tends to reduce evaporation through two main mechanisms: (1) CO2 tends to stabilize the atmosphere especially over the ocean, leading to a moister atmospheric boundary layer over the ocean. This moistening of the boundary layer suppresses evaporation. (2) CO2 tends to diminish evapotranspiration, at least in most land-surface models, because higher atmospheric CO2 concentrations allow leaves to close their stomata and avoid water loss. In most high-CO2 simulations, these effects of CO2 which tend to suppress evaporation are masked by the tendency of CO2-warming effect to increase evaporation. In a geoengineering simulation, with the warming effect of CO2 largely offset by the solar geoengineering, the evaporation suppressing characteristics of CO2 are no longer masked and are clearly exhibited. Decreased precipitation in solar geoengineering simulations is a bit like ocean acidification - an effect of high CO2 concentrations that is not offset by solar geoengineering. Locally, precipitation ultimately either evaporates (much of that through the leaves of plants) or runs off through groundwater to streams and rivers. On long time scales, runoff equals precipitation minus evaporation, and thus, water runoff generated at a location is equal to the net atmospheric transport of water to that location. Runoff typically occurs where there is substantial soil moisture, at least seasonally. Locations where there is enough water to maintain

  7. Ab initio calculation of the deuterium quadrupole coupling in liquid water

    NASA Astrophysics Data System (ADS)

    Eggenberger, Rolf; Gerber, Stefan; Huber, Hanspeter; Searles, Debra; Welker, Marc

    1992-10-01

    The quadrupole coupling constant and asymmetry parameter for the deuteron in liquid heavy water was determined using purely theoretical methods. Molecular-dynamics simulations with the ab initio potential-energy surface of Lie and Clementi were used to generate snapshots of the liquid. The electric-field gradient at the deuteron was then calculated for these configurations and averaged to obtain the liquid quadrupole coupling constant. At 300 K a quadrupole coupling constant of 256±5 kHz and an asymmetry parameter of 0.164±0.003 were obtained. The temperature dependence of the quadrupole coupling constant was investigated.

  8. Does water content or flow rate control colloid transport in unsaturated porous media?

    PubMed

    Knappenberger, Thorsten; Flury, Markus; Mattson, Earl D; Harsh, James B

    2014-04-01

    Mobile colloids can play an important role in contaminant transport in soils: many contaminants exist in colloidal form, and colloids can facilitate transport of otherwise immobile contaminants. In unsaturated soils, colloid transport is, among other factors, affected by water content and flow rate. Our objective was to determine whether water content or flow rate is more important for colloid transport. We passed negatively charged polystyrene colloids (220 nm diameter) through unsaturated sand-filled columns under steady-state flow at different water contents (effective water saturations Se ranging from 0.1 to 1.0, with Se = (θ - θr)/(θs - θr)) and flow rates (pore water velocities v of 5 and 10 cm/min). Water content was the dominant factor in our experiments. Colloid transport decreased with decreasing water content, and below a critical water content (Se < 0.1), colloid transport was inhibited, and colloids were strained in water films. Pendular ring and water film thickness calculations indicated that colloids can move only when pendular rings are interconnected. The flow rate affected retention of colloids in the secondary energy minimum, with less colloids being trapped when the flow rate increased. These results confirm the importance of both water content and flow rate for colloid transport in unsaturated porous media and highlight the dominant role of water content.

  9. Does Water Content or Flow Rate Control Colloid Transport in Unsaturated Porous Media?

    SciTech Connect

    Thorsten Knappenberger; Markus Flury; Earl D. Mattson; James B. Harsh

    2014-03-01

    Mobile colloids can play an important role in contaminant transport in soils: many contaminants exist in colloidal form, and colloids can facilitate transport of otherwise immobile contaminants. In unsaturated soils, colloid transport is, among other factors, affected by water content and flow rate. Our objective was to determine whether water content or flow rate is more important for colloid transport. We passed negatively charged polystyrene colloids (220 nm diameter) through unsaturated sand-filled columns under steady-state flow at different water contents (effective water saturations Se ranging from 0.1 to 1.0, with Se = (? – ?r)/(?s – ?r)) and flow rates (pore water velocities v of 5 and 10 cm/min). Water content was the dominant factor in our experiments. Colloid transport decreased with decreasing water content, and below a critical water content (Se < 0.1), colloid transport was inhibited, and colloids were strained in water films. Pendular ring and water film thickness calculations indicated that colloids can move only when pendular rings are interconnected. The flow rate affected retention of colloids in the secondary energy minimum, with less colloids being trapped when the flow rate increased. These results confirm the importance of both water content and flow rate for colloid transport in unsaturated porous media and highlight the dominant role of water content.

  10. [Research of coupling effects among various water quality components].

    PubMed

    Zhou, Guan-Hua; Tian, Guo-Liang; Chen, Jun; Li, Jing; Gong, A-Du

    2010-02-01

    Based on aquatic optics Monte Carlo hyperspectral simulation, the interactions between spectral characteristics of chlorophyll a, total suspended matter (TSM) and colored dissolved organic matter (CDOM) were discussed. The result shows that the nonlinear and spectrally varying interactions between different water components are extremely highly asymmetric. The existing of chlorophyll a and CDOM has little effects on the characteristic wavebands selection and information retrieval of TSM, while the effects of TSM on chlorophyll a are obvious. With the stepwise additions of TSM, the response of chlorophyll a to its concentration becomes weak. When the concentration of TSM increases to a certain degree, the spectral response of chlorophyll a concentration will disappear. Even at the sensitivity waveband of chlorophyll a such as 670 nm, when the TSM is in high concentration, the spectral reflectance will not change with chlorophyll a concentration, which lead to difficulty to extract the chlorophyll a concentration in turbid water dominated by suspended matter. The existing of CDOM causes the blue and green band ratio algorithm to fail when the chlorophyll a is in middle to high concentration. The spectral effects on CDOM of the water body dominated by TSM are more obvious than that dominated by chlorophyll a. There are strong inhibition effects of TSM on the CDOM spectral properties in the short bands. The research results can provide theoretical basis for characteristic waveband selection, the application scope of water component concentration inversion algorithm and the waveband setting for case 2 water remote sensing.

  11. Heat and Water Transport in Soils and Across the Soil-Atmosphere Interface: Comparison of Model Concepts.

    NASA Astrophysics Data System (ADS)

    Smits, K. M.; Vanderborght, J.; Mosthaf, K.; Fetzer, T.; Shahraeeni, E.; Helmig, R.

    2014-12-01

    Evaporation from the soil surface represents a water flow and transport process in a porous medium that is coupled with free air flow and with heat fluxes in the system. We give an overview of different model concepts that are used to describe this process. These range from non-isothermal two-phase flow two-component transport in the porous medium that is coupled with one-phase flow two-component transport in the free air to isothermal water flow in the porous with upper boundary conditions defined by a potential evaporation flux when available energy and transfer to the free air flow are limiting or by a critical threshold water pressure when soil water availability is limiting. The latter approach corresponds with the classical Richards equation with mixed boundary conditions. We formulated the different equations and identified assumptions behind simplified forms. Conditions for which lateral and up and downward air flow in the porous medium and vapor diffusion in the pore space play an important role were identified using simulations for a set of scenarios. When comparing cumulative evaporation fluxes from initially wet soil profiles, only small differences between the different models were found. The effect of vapor flow in the porous medium on cumulative evaporation could be evaluated using the desorptivity, Sevap, which represents a weighted average of liquid and vapor diffusivity over the range of soil water contents between the soil surface water content and the initial soil water content. Vapor flow influences the shape of the moisture front close to the soil surface. Simulated evaporation fluxes under dynamic forcing, e.g. due to diurnal variations in net radiation, differed considerably between the models. Experimental methods that allow monitoring of diurnal evaporation fluxes are therefore essential for model discrimination and parameterization.

  12. Effect of river discharge and geometry on tides and net water transport in an estuarine network, an idealized model applied to the Yangtze Estuary

    NASA Astrophysics Data System (ADS)

    Alebregtse, N. C.; de Swart, H. E.

    2016-07-01

    Tidal propagation in, and division of net water transport over different channels in an estuarine network are analyzed using a newly developed idealized model. The water motion in this model is governed by the cross-sectionally averaged shallow water equations and is forced by tides at the seaward boundaries and by river discharge. Approximate analytical solutions are constructed by means of a harmonic truncation and a perturbation expansion in a small parameter, being the ratio of tidal amplitude and depth. The net water transport results from an imposed river discharge and from residual water transport generated by nonlinear tidal rectification. Two new drivers are identified that contribute to the net water transport in tidal estuarine networks, viz. the generation of residual water transport due to gradients in dynamic pressure and due to a coupling between the tidally averaged and quarter diurnal currents through the quadratic bottom stress. The model is applied in a case study on the Yangtze Estuary, to investigate tides and division of net water transport over its multiple channels during the wet and dry season, as well as before and after the construction of the Deepwater Navigation Channel. Model results agree fairly well with observations. Process analysis reveals that the decrease in tides from dry to wet season is due to enhanced bottom stress generated by river-tide interactions. Also, the seasonal variations in net water transport are explained. It is furthermore shown and explained that due to the Deepwater Navigation Channel tidal currents have increased and net water transport has decreased in the North Passage. These changes have profound implications for net sediment transport and salinity intrusion.

  13. Microphysics of mass-transport in coupled droplet-pairs at low Reynolds number and the role of convective dynamics

    NASA Astrophysics Data System (ADS)

    Dong, Qingming; Sau, Amalendu

    2016-06-01

    Interfacial mass-transport and redistribution in the micro-scale liquid droplets are important in diverse fields of research interest. The role of the "inflow" and the "outflow" type convective eddy-pairs in the entrainment of outer solute and internal relocation are examined for different homogeneous and heterogeneous water droplet pairs appearing in a tandem arrangement. Two micro-droplets of pure (rain) water interact with an oncoming outer air stream (Re ≤ 100) contaminated by uniformly distributed SO2. By virtue of separation/attachment induced non-uniform interfacial shear-stress gradient, the well-defined inflow/outflow type pairs of recirculating eddy-based convective motion quickly develops, and the eddies effectively attract/repel the accumulated outer solute and control the physical process of mass-transport in the droplet-pair. The non-uniformly shear-driven flow interaction and bifurcation of the circulatory internal flow lead to growth of important micro-scale "secondary" eddies which suitably regroup with the adjacent "primary" one to create the sustained inflow/outflow type convective dynamics. The presently derived flow characteristics and in-depth analysis help to significantly improve our understanding of the micro-droplet based transport phenomena in a wider context. By tuning "Re" (defined in terms of the droplet diameter and the average oncoming velocity of the outer air) and gap-ratio "α," the internal convective forcing and the solute entrainment efficiency could be considerably enhanced. The quantitative estimates for mass entrainment, convective strength, and saturation characteristics for different coupled micro-droplet pairs are extensively examined here for 0.2 ≤ α ≤ 2.0 and 30 ≤ Re ≤ 100. Interestingly, for the compound droplets, with suitably tuned radius-ratio "B" (of upstream droplet with respect to downstream one) the generated "inflow" type coherent convective dynamics helped to significantly augment the centre

  14. Bioclogging of dune sediments by coupled nutrient transport and microbial evolution: a numerical modeling study

    NASA Astrophysics Data System (ADS)

    Boano, Fulvio; Ridolfi, Luca; Packman, Aaron; Vidali, Cristina

    2014-05-01

    Streambeds are biogeochemical hotspots for a number of reactions that influence the fate of nutrients in streams and groundwater and that are performed by microorganisms attached to the hyporheic sediments. It is well known that in nutrient-enriched streams the metabolic activity of hyporheic microbes relies on water-borne solutes that are supplied by water exchanged with the stream. However, microbes also exert feedbacks on nutrient fluxes through the process of bioclogging, i.e., the reduction of water-filled pore volume and sediment permeability caused by biofilm growth and gas production. Unfortunately, the present understanding of this process is limited by the difficulty of data collection within streambed sediments. In order to better understand the dynamics of bioclogging, we have performed a numerical modeling study on the coupling between water fluxes, nutrient reactions, and permeability variations due to microbial growth. We have updated a previously published hydro-biogeochemical model with the addition of two microbial components representing autotrophic (nitrifying) bacteria and heterotrophic (facultative aerobic) bacteria. We assume that biofilm grows and occupies pore space, thus altering hydraulic conductivity and modifying the fluxes of water and nutrients which support microbial metabolism. The simulation results show that the system eventually attains an equilibrium between microbial growth and nutrient fluxes that is characterized by a vertical stratification of the microbial species and by a strong reduction of permeability near the stream-sediment interface. These findings denote the existence of an equilibrium configuration and provide insights on how microbial reaction rates are constrained by sediment properties, hydrodynamic factors, and nutrient availability.

  15. Coupled Heat and Moisture Transport Simulation on the Re-saturation of Engineered Clay Barrier

    NASA Astrophysics Data System (ADS)

    Huang, W. H.; Chuang, Y. F.

    2014-12-01

    Engineered clay barrier plays a major role for the isolation of radioactive wastes in a underground repository. This paper investigates the resaturation processes of clay barrier, with emphasis on the coupling effects of heat and moisture during the intrusion of groundwater to the repository. A reference bentonite and a locally available clay were adopted in the laboratory program. Soil suction of clay specimens was measured by psychrometers embedded in clay specimens and by vapor equilibrium technique conducted at varying temperatures so as to determine the soil water characteristic curves of the two clays at different temperatures. And water uptake tests were conducted on clay specimens compacted at various densities to simulate the intrusion of groundwater into the clay barrier. Using the soil water characteristic curve, an integration scheme was introduced to estimate the hydraulic conductivity of unsaturated clay. It was found that soil suction decreases as temperature increases, resulting in a reduction in water retention capability. The finite element method was then employed to carry out the numerical simulation of the saturation process in the near field of a repository. Results of the numerical simulation were validated using the degree of saturation profile obtained from the water uptake tests on the clays. The numerical scheme was then extended to establish a model simulating the resaturation process after the closure of a repository. Finally, the model was then used to evaluate the effect of clay barrier thickness on the time required for groundwater to penetrate the clay barrier and approach saturation. Due to the variation in clay suction and thermal conductivity with temperature of clay barrier material, the calculated temperature field shows a reduction as a result of incorporating the hydro-properties in the calculations.

  16. Influence of coupling of sorption and photosynthetic processes on trace element cycles in natural waters

    USGS Publications Warehouse

    Fuller, C.C.; Davis, J.A.

    1989-01-01

    Chemical and biological processes have important roles in the transport and cycling of trace elements in natural waters, but their complex interactions are often not well understood. Trace-element concentrations may, for example, be controlled by adsorption-desorption reactions at mineral surfaces, with the equilibrium strongly influenced by pH. Variations in pH due to photosynthetic activity should result in concentration fluctuations as the adsorption-desorption equilibrium shifts with pH. To investigate these interactions, we have studied the effect of diurnal cycling of pH on dissolved arsenate in a perennial stream contaminated with arsenic. As expected, a diurnal cycle in arsenate concentration was observed, but surprisingly, the arsenate cycle lags several hours behind the pH cycle. Laboratory experiments show that the lag results from a slow approach to sorption equilibrium. Our observations demonstrate that the coupling of photosynthesis and sorption processes may have an important influence on the cycling of many trace elements and emphasize the importance of understanding sorption kinetics in modelling these processes.

  17. A computerized coal-water slurry transportation model

    SciTech Connect

    Ljubicic, B.R.; Trostad, B.; Bukurov, Z.; Cvijanovic, P.

    1995-12-01

    Coal-water fuel (CWF) technology has been developed to the point where full-scale commercialization is just a matter of gaining sufficient market confidence in the price stability of alternate fossil fuels. In order to generalize alternative fuel cost estimates for the desired combinations of processing and/or transportation, a great deal of flexibility is required owing to the understood lack of precision in many of the newly emerging coal technologies. Previously, decisions regarding the sequential and spatial arrangement of the various process steps were made strictly on the basis of experience, simplified analysis, and intuition. Over the last decade, computer modeling has progressed from empirically based correlation to that of intricate mechanistic analysis. Nomograms, charts, tables, and many simple rules of thumb have been made obsolete by the availability of complex computer models. Given the ability to view results graphically in real or near real time, the engineer can immediately verify, from a practical standpoint, whether the initial assumptions and inputs were indeed valid. If the feasibility of a project is being determined in the context of a lack of specific data, the ability to provide a dynamic software-based solution is crucial. Furthermore, the resulting model can be used to establish preliminary operating procedures, test control logic, and train plant/process operators. Presented in this paper is a computerized model capable of estimating the delivered cost of CWF. The model uses coal-specific values, process and transport requirements, terrain factors, and input costs to determine the final operating configuration, bill of materials, and, ultimately, the capital, operating, and unit costs.

  18. Reactive Transport Modeling of Induced Calcite Precipitation Reaction Fronts in Porous Media Using A Parallel, Fully Coupled, Fully Implicit Approach

    NASA Astrophysics Data System (ADS)

    Guo, L.; Huang, H.; Gaston, D.; Redden, G. D.; Fox, D. T.; Fujita, Y.

    2010-12-01

    Inducing mineral precipitation in the subsurface is one potential strategy for immobilizing trace metal and radionuclide contaminants. Generating mineral precipitates in situ can be achieved by manipulating chemical conditions, typically through injection or in situ generation of reactants. How these reactants transport, mix and react within the medium controls the spatial distribution and composition of the resulting mineral phases. Multiple processes, including fluid flow, dispersive/diffusive transport of reactants, biogeochemical reactions and changes in porosity-permeability, are tightly coupled over a number of scales. Numerical modeling can be used to investigate the nonlinear coupling effects of these processes which are quite challenging to explore experimentally. Many subsurface reactive transport simulators employ a de-coupled or operator-splitting approach where transport equations and batch chemistry reactions are solved sequentially. However, such an approach has limited applicability for biogeochemical systems with fast kinetics and strong coupling between chemical reactions and medium properties. A massively parallel, fully coupled, fully implicit Reactive Transport simulator (referred to as “RAT”) based on a parallel multi-physics object-oriented simulation framework (MOOSE) has been developed at the Idaho National Laboratory. Within this simulator, systems of transport and reaction equations can be solved simultaneously in a fully coupled, fully implicit manner using the Jacobian Free Newton-Krylov (JFNK) method with additional advanced computing capabilities such as (1) physics-based preconditioning for solution convergence acceleration, (2) massively parallel computing and scalability, and (3) adaptive mesh refinements for 2D and 3D structured and unstructured mesh. The simulator was first tested against analytical solutions, then applied to simulating induced calcium carbonate mineral precipitation in 1D columns and 2D flow cells as analogs

  19. Coupled dynamics of the co-evolution of gravel bed topography, flow turbulence and sediment transport in an experimental channel

    NASA Astrophysics Data System (ADS)

    Singh, Arvind; Foufoula-Georgiou, Efi; Porté-Agel, Fernando; Wilcock, Peter R.

    2012-12-01

    A series of flume experiments were conducted in a large experimental channel at the St. Anthony Falls Laboratory to understand the coupled dynamics of flow and bed forms above the sediment-water interface. Simultaneous high resolution measurements of velocity fluctuations, bed elevations and sediment flux at the downstream end of the channel, were made for a range of discharges. The probability density functions (pdfs) of bed elevation increments and instantaneous Reynolds stress reveal a power law tail behavior and a wavelet cross-correlation analysis depicts a strong dependence of these series across a range of scales, indicating a feedback between bed form dynamics and near-bed turbulence. These results complement our previous findings in which the signature of bed form evolution on the near-bed velocity fluctuations was confirmed via the presence of a spectral gap and two distinct power law scaling regimes in the spectral density of velocity fluctuations. We report herein a strong asymmetry in the probability distribution of bed elevation increments and instantaneous Reynolds stresses, the latter being further analyzed and interpreted via a quadrant analysis of velocity fluctuations in the longitudinal and vertical directions. We also report the presence of intermittency (multifractality) in bed elevation increments and interpret it, in view of the asymmetric nature of the pdfs, as the result of scale coupling. In other words, the geometric asymmetry at the bed form scale gets transferred down to a probabilistic asymmetry at all smaller scales indicating a local anisotropy in the energy transfer. Finally, we propose a predictive relationship between bed form averaged sediment transport rates and bed form averaged instantaneous Reynolds stress and validate it using our experimental data.

  20. Transport of thermal water from well to thermal baths

    NASA Astrophysics Data System (ADS)

    Montegrossi, Giordano; Vaselli, Orlando; Tassi, Franco; Nocentini, Matteo; Liccioli, Caterina; Nisi, Barbara

    2013-04-01

    The main problem in building a thermal bath is having a hot spring or a thermal well located in an appropriate position for customer access; since Roman age, thermal baths were distributed in the whole empire and often road and cities were built all around afterwards. Nowadays, the perspectives are changed and occasionally the thermal resource is required to be transported with a pipeline system from the main source to the spa. Nevertheless, the geothermal fluid may show problems of corrosion and scaling during transport. In the Ambra valley, central Italy, a geothermal well has recently been drilled and it discharges a Ca(Mg)-SO4, CO2-rich water at the temperature of 41 °C, that could be used for supplying a new spa in the surrounding areas of the well itself. The main problem is that the producing well is located in a forest tree ca. 4 km far away from the nearest structure suitable to host the thermal bath. In this study, we illustrate the pipeline design from the producing well to the spa, constraining the physical and geochemical parameters to reduce scaling and corrosion phenomena. The starting point is the thermal well that has a flow rate ranging from 22 up to 25 L/sec. The thermal fluid is heavily precipitating calcite (50-100 ton/month) due to the calcite-CO2 equilibrium in the reservoir, where a partial pressure of 11 bar of CO2 is present. One of the most vexing problems in investigating scaling processed during the fluid transport in the pipeline is that there is not a proper software package for multiphase fluid flow in pipes characterized by such a complex chemistry. As a consequence, we used a modified TOUGHREACT with Pitzer database, arranged to use Darcy-Weisbach equation, and applying "fictitious" material properties in order to give the proper y- z- velocity profile in comparison to the analytical solution for laminar fluid flow in pipes. This investigation gave as a result the lowest CO2 partial pressure to be kept in the pipeline (nearly 2

  1. Transport and fate of nitrate at the ground-water/surface-water interface

    USGS Publications Warehouse

    Puckett, L.J.; Zamora, C.; Essaid, H.; Wilson, J.T.; Johnson, H.M.; Brayton, M.J.; Vogel, J.R.

    2008-01-01

    Although numerous studies of hyporheic exchange and denitrification have been conducted in pristine, high-gradient streams, few studies of this type have been conducted in nutrient-rich, low-gradient streams. This is a particularly important subject given the interest in nitrogen (N) inputs to the Gulf of Mexico and other eutrophic aquatic systems. A combination of hydrologic, mineralogical, chemical, dissolved gas, and isotopic data, were used to determine the processes controlling transport and fate of NO3- in streambeds at five sites across the USA. Water samples were collected from streambeds at depths ranging from 0.3 to 3 m at three to five points across the stream and in two to five separate transects. Residence times of water ranging from 0.28 to 34.7 d m-1 in the streambeds of N-rich watersheds played an important role in allowing denitrification to decrease NO3- concentrations. Where potential electron donors were limited and residence times were short, denitrification was limited. Consequently, in spite of reducing conditions at some sites, NO3- was transported into the stream. At two of the five study sites, NO3- in surface water infiltrated the streambeds and concentrations decreased, supporting current models that NO3- would be retained in N-rich streams. At the other three study sites, hydrogeologic controls limited or prevented infiltration of surface water into the streambed, and ground-water discharge contributed to NO 3- loads. Our results also show that in these low hydrologic-gradient systems, storm and other high-flow events can be important factors for increasing surface-water movement into streambeds. Copyright ?? 2008 by the American Society of Agronomy, Crop Science Society of America, and Soil Science Society of America. All rights reserved.

  2. Coupled modelling of subsurface water flux for an integrated flood risk management

    NASA Astrophysics Data System (ADS)

    Sommer, T.; Karpf, C.; Ettrich, N.; Haase, D.; Weichel, T.; Peetz, J.-V.; Steckel, B.; Eulitz, K.; Ullrich, K.

    2009-07-01

    Flood events cause significant damage not only on the surface but also underground. Infiltration of surface water into soil, flooding through the urban sewer system and, in consequence, rising groundwater are the main causes of subsurface damage. The modelling of flooding events is an important part of flood risk assessment. The processes of subsurface discharge of infiltrated water necessitate coupled modelling tools of both, surface and subsurface water fluxes. Therefore, codes for surface flooding, for discharge in the sewerage system and for groundwater flow were coupled with each other. A coupling software was used to amalgamate the individual programs in terms of mapping between the different model geometries, time synchronization and data exchange. The coupling of the models was realized on two scales in the Saxon capital of Dresden (Germany). As a result of the coupled modelling it could be shown that surface flooding dominates processes of any flood event. Compared to flood simulations without coupled modelling no substantial changes of the surface inundation area could be determined. Regarding sewerage, the comparison between the influx of groundwater into sewerage and the loading due to infiltration by flood water showed infiltration of surface flood water to be the main reason for sewerage overloading. Concurrent rainfalls can intensify the problem. The infiltration of the sewerage system by rising groundwater contributes only marginally to the loading of the sewerage and the distribution of water by sewerage has only local impacts on groundwater rise. However, the localization of risk areas due to rising groundwater requires the consideration of all components of the subsurface water fluxes. The coupled modelling has shown that high groundwater levels are the result of a multi-causal process that occurs before and during the flood event.

  3. Voltage coupling of primary H+ V-ATPases to secondary Na+- or K+-dependent transporters.

    PubMed

    Harvey, William R

    2009-06-01

    and other evidence provide convincing support for Kell's electrodic view yet Mitchell's chemiosmotic theory is the one that is accepted by most bioenergetics experts today. First we discuss the interaction between H(+) V-ATPase and the K(+)/2H(+) antiporter that forms the caterpillar K(+) pump, and use the Kell electrodic view to explain how the H(+)s at the outer fluid-membrane interface can drive two H(+) from lumen to cell and one K(+) from cell to lumen via the antiporter even though the pH in the bulk fluid of the lumen is highly alkaline. Exchange of outer bulk fluid K(+) (or Na(+)) with outer interface H(+) in conjunction with (K(+) or Na(+))/2H(+) antiport, transforms the hydrogen ion electrochemical potential difference, mu(H), to a K(+) electrochemical potential difference, mu(K) or a Na(+) electrochemical potential difference, mu(Na). The mu(K) or mu(Na) drives K(+)- or Na(+)-coupled nutrient amino acid transporters (NATs), such as KAAT1 (K(+) amino acid transporter 1), which moves Na(+) and an amino acid into the cell with no H(+)s involved. Examples in which the voltage coupling model is used to interpret ion and amino acid transport in caterpillar and larval mosquito midgut are discussed.

  4. COUPLING

    DOEpatents

    Frisch, E.; Johnson, C.G.

    1962-05-15

    A detachable coupling arrangement is described which provides for varying the length of the handle of a tool used in relatively narrow channels. The arrangement consists of mating the key and keyhole formations in the cooperating handle sections. (AEC)

  5. The significance of water co-transport for sustaining transpirational water flow in plants: a quantitative approach.

    PubMed

    Fricke, Wieland

    2015-02-01

    In a recent Opinion paper, Wegner (Journal of Experimental Botany 65, 381-392, 2014) adapts a concept developed for water flow in animal tissues to propose a model, which can explain the loading of water into the root xylem against a difference in water potential (Ψ) between the xylem parenchyma cell (more negative Ψ) and the xylem vessel (less negative Ψ). In this model, the transport of water is energized through the co-transport of ions such as K(+) and Cl(-) through plasma membrane-located transporters. The emphasis of the model is on the thermodynamic feasibility of the co-transport mechanism per se. However, what is lacking is a quantitative evaluation of the energy input required at the organismal level to sustain such a co-transport mechanism in the face of considerable net (transpirational) flows of water through the system. Here, we use a ratio of 500 water molecules being co-transported for every pair of K(+) and Cl(-) ions, as proposed for the animal system, to calculate the energy required to sustain daytime and night-time transpirational water flow in barley plants through a water co-transport mechanism. We compare this energy with the total daily net input of energy through photosynthetic carbon assimilation. Water co-transport can facilitate the filling of xylem against a difference in Ψ of 1.0MPa and puts a minor drain on the energy budget of the plant. Based on these findings it cannot be excluded that water co-transport in plants contributes significantly to xylem filling during night-time and possibly also daytime transpiration.

  6. Water transport mechanism through open capillaries analyzed by direct surface modifications on biological surfaces

    NASA Astrophysics Data System (ADS)

    Ishii, Daisuke; Horiguchi, Hiroko; Hirai, Yuji; Yabu, Hiroshi; Matsuo, Yasutaka; Ijiro, Kuniharu; Tsujii, Kaoru; Shimozawa, Tateo; Hariyama, Takahiko; Shimomura, Masatsugu

    2013-10-01

    Some small animals only use water transport mechanisms passively driven by surface energies. However, little is known about passive water transport mechanisms because it is difficult to measure the wettability of microstructures in small areas and determine the chemistry of biological surfaces. Herein, we developed to directly analyse the structural effects of wettability of chemically modified biological surfaces by using a nanoliter volume water droplet and a hi-speed video system. The wharf roach Ligia exotica transports water only by using open capillaries in its legs containing hair- and paddle-like microstructures. The structural effects of legs chemically modified with a self-assembled monolayer were analysed, so that the wharf roach has a smart water transport system passively driven by differences of wettability between the microstructures. We anticipate that this passive water transport mechanism may inspire novel biomimetic fluid manipulations with or without a gravitational field.

  7. Water transport mechanism through open capillaries analyzed by direct surface modifications on biological surfaces.

    PubMed

    Ishii, Daisuke; Horiguchi, Hiroko; Hirai, Yuji; Yabu, Hiroshi; Matsuo, Yasutaka; Ijiro, Kuniharu; Tsujii, Kaoru; Shimozawa, Tateo; Hariyama, Takahiko; Shimomura, Masatsugu

    2013-10-23

    Some small animals only use water transport mechanisms passively driven by surface energies. However, little is known about passive water transport mechanisms because it is difficult to measure the wettability of microstructures in small areas and determine the chemistry of biological surfaces. Herein, we developed to directly analyse the structural effects of wettability of chemically modified biological surfaces by using a nanoliter volume water droplet and a hi-speed video system. The wharf roach Ligia exotica transports water only by using open capillaries in its legs containing hair- and paddle-like microstructures. The structural effects of legs chemically modified with a self-assembled monolayer were analysed, so that the wharf roach has a smart water transport system passively driven by differences of wettability between the microstructures. We anticipate that this passive water transport mechanism may inspire novel biomimetic fluid manipulations with or without a gravitational field.

  8. The Role of Plant Water Storage on Water Fluxes within the Coupled Soil-Plant-Atmosphere System

    NASA Astrophysics Data System (ADS)

    Huang, C. W.; Duman, T.; Parolari, A.; Katul, G. G.

    2015-12-01

    Plant water storage (PWS) contributes to whole-plant transpiration (up to 50%), especially in large trees and during severe drought conditions. PWS also can impact water-carbon economy as well as the degree of resistance to drought. A 1-D porous media model is employed to accommodate transient water flow through the plant hydraulic system. This model provides a mechanistic representation of biophysical processes constraining water transport, accounting for plant hydraulic architecture and the nonlinear relation between stomatal aperture and leaf water potential when limited by soil water availability. Water transport within the vascular system from the stem base to the leaf-lamina is modeled using Richards's equation, parameterized with the hydraulic properties of the plant tissues. For simplicity, the conducting flow in the radial direction is not considered here and the capacitance at the leaf-lamina is assumed to be independent of leaf water potential. The water mass balance in the leaf lamina sets the upper boundary condition for the flow system, which links the leaf-level transpiration to the leaf water potential. Thus, the leaf-level gas exchange can be impacted by soil water availability through the water potential gradient from the leaf lamina to the soil, and vice versa. The root water uptake is modeled by a multi-layered macroscopic scheme to account for possible hydraulic redistribution (HR) in certain conditions. The main findings from the model calculations are that (1) HR can be diminished by the residual water potential gradient from roots to leaves at night due to aboveground capacitance, tree height, nocturnal transpiration or the combination of the three. The degree of reduction depends on the magnitude of residual water potential gradient; (2) nocturnal refilling to PWS elevates the leaf water potential that subsequently delays the onset of drought stress at the leaf; (3) Lifting water into the PWS instead of HR can be an advantageous strategy

  9. Kinetic modeling of microbially-driven redox chemistry of radionuclides in subsurface environments: Coupling transport, microbial metabolism and geochemistry

    SciTech Connect

    WANG,YIFENG; PAPENGUTH,HANS W.

    2000-05-04

    Microbial degradation of organic matter is a driving force in many subsurface geochemical systems, and therefore may have significant impacts on the fate of radionuclides released into subsurface environments. In this paper, the authors present a general reaction-transport model for microbial metabolism, redox chemistry, and radionuclide migration in subsurface systems. The model explicitly accounts for biomass accumulation and the coupling of radionuclide redox reactions with major biogeochemical processes. Based on the consideration that the biomass accumulation in subsurface environments is likely to achieve a quasi-steady state, they have accordingly modified the traditional microbial growth kinetic equation. They justified the use of the biogeochemical models without the explicit representation of biomass accumulation, if the interest of modeling is in the net impact of microbial reactions on geochemical processes. They then applied their model to a scenario in which an oxic water flow containing both uranium and completing organic ligands is recharged into an oxic aquifer in a carbonate formation. The model simulation shows that uranium can be reduced and therefore immobilized in the anoxic zone created by microbial degradation.

  10. Fluid Transport in Porous Rocks. II. Hydrodynamic Model of Flow and Intervoxel Coupling

    NASA Astrophysics Data System (ADS)

    Mansfield, P.; Issa, B.

    In a preceding paper [P. Mansfield and B. Issa, J. Magn. Reson. A122, 137-148 (1996)], a stochastic model of fluid flow in porous rocks based upon the experimental observation of water flow through a Bentheimer sandstone core was proposed. The flow maps were measured by NMR-imaging techniques. The stochastic theory led to a Gaussian velocity distribution with a mean value in accord with Darcy's law. Also predicted was a linear relationship between flow variance and mean fluid flow through rock, the Mansfield-Issa equation, originally proposed as an empirical relationship. In the present work a flow coupling mechanism between voxels is proposed. Examination of the flow coupling between isolated voxel pairs leads to a complementary explanation of the Gaussian velocity distribution, and also gives further details of the Mansfield-Issa equation. These details lead to a new expression for the connectivity, < C>, between voxels with an experimental value of < C> = 5.64 × 10 -9for Bentheimer sandstone.

  11. Simulation of the coupling between nucleotide binding and transmembrane domains in the ATP binding cassette transporter BtuCD.

    PubMed

    Sonne, Jacob; Kandt, Christian; Peters, Günther H; Hansen, Flemming Y; Jensen, Morten Ø; Tieleman, D Peter

    2007-04-15

    The nucleotide-induced structural rearrangements in ATP binding cassette (ABC) transporters, leading to substrate translocation, are largely unknown. We have modeled nucleotide binding and release in the vitamin B(12) importer BtuCD using perturbed elastic network calculations and biased molecular dynamics simulations. Both models predict that nucleotide release decreases the tilt between the two transmembrane domains and opens the cytoplasmic gate. Nucleotide binding has the opposite effect. The observed coupling may be relevant for all ABC transporters because of the conservation of nucleotide binding domains and the shared role of ATP in ABC transporters. The rearrangements in the cytoplasmic gate region do not provide enough space for B(12) to diffuse from the transporter pore into the cytoplasm, which could suggest that peristaltic forces are needed to exclude B(12) from the transporter pore.

  12. Transport of high intensity laser-generated hot electrons in cone coupled wire targets

    NASA Astrophysics Data System (ADS)

    Beg, Farhat

    2008-04-01

    In this talk, we present results from a series of experiments where cone-wire targets were employed both to assess hot electron coupling efficiency, and to reveal the source temperature of the hot electrons. Experiments were performed on the petawatt laser at the Rutherford Appleton Laboratory. A 500J, 1ps laser (I ˜ 4 x 10^20 W/cm-2) was focused by an f/3 off-axis parabolic mirror into hollow aluminum cones joined at their tip to Cu wires of diameters from 10 to 40 μm. The three main diagnostics fielded were a copper Kalpha Bragg crystal imager, a single hit CCD camera spectrometer and a Highly Oriented Pyrolytic Graphite (HOPG) spectrometer. The resulting data were cross-calibrated to obtain the absolute Kalpha yield. Comparison of the axially diminishing absolute Cu Kα intensity with modeling shows that the penetration of the hot electrons is consistent with one dimensional ohmic potential limited transport (1/e length ˜ 100 μm). The laser coupling efficiency to electron energy within the wire is shown to be proportional to the cross sectional area of the wire, reaching 15% for 40 μm wires. We find that the hot electron temperature within the wire was <=750 keV, significantly lower than that predicted by the ponderomotive scaling. A comparison of the experimental results with 2D hybrid PIC simulations using e-PLAS code will be presented and relevance to Fast Ignition will