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

Ivarson, Kristine A.; Miller, Charles W.; Arola, Craig C.

Groundwater contamination by hexavalent chromium and other nuclear reactor operation-related contaminants has resulted in the need for groundwater remedial actions within the Hanford Site reactor areas (the Hanford Site 100 Area). The large geographic extent of the resultant contaminant plumes requires an extensive level of understanding of the aquifer structure, characteristics, and configuration to support assessment and design of remedial alternatives within the former 100-D, 100-H, and 100-K reactor areas. The authors have prepared two- and three-dimensional depictions of the key subsurface geologic structures at two Hanford Site reactor operable units (100-K and 100-D/H). These depictions, prepared using commercial-off-the-shelf (COTS)more » visualization software, provide a basis for expanding the understanding of groundwater contaminant migration pathways, including identification of geologically-defined preferential groundwater flow pathways. These identified preferential flow pathways support the conceptual site model and help explain both historical and current contaminant distribution and transport. (authors)« less

Soil, Water, Plants and Preferred Flow in All Directions: A Biosphere-2 Experiment

NASA Astrophysics Data System (ADS)

McDonnell, J.; Evaristo, J. A.; Kim, M.; Van Haren, J. L. M.; Pangle, L. A.; Harman, C. J.; Troch, P. A. A.

2016-12-01

Measuring, understanding and predicting preferential flow in the critical zone is impossibly difficult, but we must try. While past work has focused on specific features of preferential flow pathways and model parameterizations, the resultant effect of preferential flow is often difficult to detect because we do not know the boundary conditions of our flow domain. Here we take a holistic view of preferential flow at the ecosystem level. We present new results from the tropical rainforest biome at Biosphere 2. We test the null hypothesis that the ecohydrological system is well mixed and that water forming groundwater recharge and plant transpiration is from a common pool. Our specific research question is what is the nature of preferential flow and partitioning of groundwater recharge, soil water recharge, and transpiration water after rainfall events? We performed a 10-week drought experiment and then added 66 mm of labelled rainfall with 152‰ deuterium (D), distributed over four events (mean 16.5 mm per event). This was followed by a total of 87 mm of rainfall (-60‰ D) distributed over 13 events that were spaced every 2-3 days. Our results show that flow in all ecohydrological domains (soil water, groundwater recharge and plant transpiration) was preferential. With known boundary conditions, we found that groundwater recharge was 3-8 times younger ( 8 days) than transpired water (range 24-64 days). The "age" of transpired water showed strong dependence on species and was intimately linked to driving force (difference between soil matric potential and midday leaf water potential). These results suggest that preferential flow in the critical zone is one whereby transpiration is strongly species-dependent, and groundwater recharge is controlled by inherent subsurface heterogeneity. The marked difference in the ages associated with these two fluxes supports the concept of ecohydrological separation—in this case, in a `time-based' context.

Preferential flow in connected soil structures and the principle of "maximum energy dissipation": A thermodynamic perspective

NASA Astrophysics Data System (ADS)

Zehe, E.; Blume, T.; Bloeschl, G.

2009-04-01

"There is preferential flow at all scales"? This was a key message in a talk on ?Idle thoughts on a unifying theory of catchment hydrology? given by Bloeschl (2006). In this context ?preferential flow? was used to address rapid water flow along spatially connected flow paths of minimum flow resistance. Preferential flow seems in fact rather the rule than the exception. It occurs locally in non capillary macropores, at the hillslope scale in surface rills or through subsurface pipes. Rapid flow in connected biopores or sometimes shrinkage cracks is today accepted to play a key role for transport of agrochemicals in cohesive soils. The spatial distribution of worm burrows in the landscape may, furthermore, exert crucial control on rainfall runoff response and sediment yields at the hillslope and catchment scales. However, even if the population of connected biopores/macropores is known in soil we struggle in predicting onset, timing and strength of preferential flow events. Preferential flow is an intermittent, threshold phenomenon. Onset and intensity seems to be determined by the strength of the rainfall forcing and the wetness state of the soil. Furthermore, burrows of deep digging aenecic earthworms can ? even when being abandoned ? persist over decades as suggested by accumulation of clay particles or even radio nuclides. Thus, these structures ?survive? severe rainfall and subsurface flow events and still remain functional in the hydrological system. Why is it sometimes ?favourable? to take flow paths of minimum flow resistance and sometimes not? Why do these flow paths/ structures persist such a long time? Following Kleidon and Schimansky (2008) we suggest that a thermodynamic perspective ? looking at soil water flow as dissipative process in an open, non equilibrium thermodynamic system ? may help unrevealing these questions. However, we suggest a complementary perspective on soil water flow focusing rather on entropy production but on dissipation of Helmholtz free energy. Thermodynamic equilibrium is a state of minimum free energy. The latter is determined by potential energy and capillary energy in soil, which in turn strongly depends on soil moisture, pore size distribution and depth to groundwater. The objective of this study is threefold. First, we will introduce the necessary theoretical background. Second we suggest ? based on simulations with a physically based hydrological model ? that water flow in connected preferential pathways assures a faster relaxation towards thermodynamic equilibrium through a faster drainage of ?excess water? and a faster redistribution of ?capillary water? within the soil. The latter process is of prime importance in case of cohesive soils where the pore size distribution is dominated by medium and small pores. Third, an application of a physically based hydrological model to predict water flow and runoff response from a pristine catchment in the Chilenean Andes underpins this hypothesis. Behavioral model structures that allow a good match of the observed hydrographs turned out to be most efficient in dissipating free energy by means of preferential flow. It seems that a population of connected preferential pathways is favourable both for resilience and stability of these soils during extreme events and to retain water resources for the ecosystem at the same time. We suggest that this principle of ?maximum energy dissipation? may on the long term help us to better understand why soil structures remain stable, threshold nature of preferential as well as offer a means to further reduce model structural uncertainty. Bloeschl, G. 2006. Idle thoughts on a unifying theory of catchment Hydrology. Geophysical Research Abstracts, Vol. 8, 10677, 2006 SRef-ID: 1607-7962/gra/EGU06-A-10677 European Geosciences Union 2006 Kleidon, A., and S. Schymanski (2008), Thermodynamics and optimality of the water budget on land: A review, Geophys. Res. Lett., 35, L20404, doi:10.1029/ 2008GL035393.

Vadose zone process that control landslide initiation and debris flow propagation

NASA Astrophysics Data System (ADS)

Sidle, Roy C.

2015-04-01

Advances in the areas of geotechnical engineering, hydrology, mineralogy, geomorphology, geology, and biology have individually advanced our understanding of factors affecting slope stability; however, the interactions among these processes and attributes as they affect the initiation and propagation of landslides and debris flows are not well understood. Here the importance of interactive vadose zone processes is emphasized related to the mechanisms, initiation, mode, and timing of rainfall-initiated landslides that are triggered by positive pore water accretion, loss of soil suction and increase in overburden weight, and long-term cumulative rain water infiltration. Both large- and small-scale preferential flow pathways can both contribute to and mitigate instability, by respectively concentrating and dispersing subsurface flow. These mechanisms are influenced by soil structure, lithology, landforms, and biota. Conditions conducive to landslide initiation by infiltration versus exfiltration are discussed relative to bedrock structure and joints. The effects of rhizosphere processes on slope stability are examined, including root reinforcement of soil mantles, evapotranspiration, and how root structures affect preferential flow paths. At a larger scale, the nexus between hillslope landslides and in-channel debris flows is examined with emphasis on understanding the timing of debris flows relative to chronic and episodic infilling processes, as well as the episodic nature of large rainfall and related stormflow generation in headwater streams. The hydrogeomorphic processes and conditions that determine whether or not landslides immediately mobilize into debris flows is important for predicting the timing and extent of devastating debris flow runout in steep terrain. Given the spatial footprint of individual landslides, it is necessary to assess vadose zone processes at appropriate scales to ascertain impacts on mass wasting phenomena. Articulating the appropriate level of detail of small-scale vadose zone processes into landslide models is a particular challenge. As such, understanding flow pathways in regoliths susceptible to mass movement is critical, including distinguishing between conditions conducive to vertical recharge of water through relatively homogeneous soil mantles and conditions where preferential flow dominates - either by rapid infiltration and lateral flow through interconnected preferential flow networks or via exfiltration through bedrock fractures. These different hydrologic scenarios have major implications for the occurrence, timing, and mode of slope failures.

Identification of Preferential Groundwater Flow Pathways from Local Tracer Breakthrough Curves

NASA Astrophysics Data System (ADS)

Kokkinaki, A.; Sleep, B. E.; Dearden, R.; Wealthall, G.

2009-12-01

Characterizing preferential groundwater flow paths in the subsurface is a key factor in the design of in situ remediation technologies. When applying reaction-based remediation methods, such as enhanced bioremediation, preferential flow paths result in fast solute migration and potentially ineffective delivery of reactants, thereby adversely affecting treatment efficiency. The presence of such subsurface conduits was observed at the SABRe (Source Area Bioremediation) research site. Non-uniform migration of contaminants and electron donor during the field trials of enhanced bioremediation supported this observation. To better determine the spatial flow field of the heterogeneous aquifer, a conservative tracer test was conducted. Breakthrough curves were obtained at a reference plane perpendicular to the principal groundwater flow direction. The resulting dataset was analyzed using three different methods: peak arrival times, analytical solution fitting and moment analysis. Interpretation using the peak arrival time method indicated areas of fast plume migration. However, some of the high velocities are supported by single data points, thus adding considerable uncertainty to the estimated velocity distribution. Observation of complete breakthrough curves indicated different types of solute breakthrough, corresponding to different transport mechanisms. Sharp peaks corresponded to high conductivity preferential flow pathways, whereas more dispersed breakthrough curves with long tails were characteristic of significant dispersive mixing and dilution. While analytical solutions adequately quantified flow characteristics for the first type of curves, they failed to do so for the second type, in which case they gave unrealistic results. Therefore, a temporal moment analysis was performed to obtain complete spatial distributions of mass recovery, velocity and dispersivity. Though the results of moment analysis qualitatively agreed with the results of previous methods, more realistic estimates of velocities were obtained and the presence of one major preferential flow pathway was confirmed. However, low mass recovery and deviations from the 10% scaling rule for dispersivities indicate that insufficient spatial and temporal monitoring, as well as interpolation and truncation errors introduced uncertainty in the flow and transport parameters estimated by the method of moments. The results of the three analyses are valuable for enhancing the understanding of mass transport and remediation performance. Comparing the different interpretation methods, increasing the amount of concentration data considered in the analysis, the derived velocity fields were smoother and the estimated local velocities and dispersivities became more realistic. In conclusion, moment analysis is a method that represents a smoothed average of the velocity across the entire breakthrough curve, whereas the peak arrival time, which may be a less well constrained estimate, represents the physical peak arrival and typically yields a higher velocity than the moment analysis. This is an important distinction when applying the results of the tracer test to field sites.

Imaging Preferential Flow Pathways of Contaminants from Passive Acid Mine Drainage Mitigation Sites Using Electrical Resistivity

NASA Astrophysics Data System (ADS)

Kelley, N.; Mount, G.; Terry, N.; Herndon, E.; Singer, D. M.

2017-12-01

The Critical Zone represents the surficial and shallow layer of rock, air, water, and soil where most interactions between living organisms and the Earth occur. Acid mine drainage (AMD) resulting from coal extraction can influence both biological and geochemical processes across this zone. Conservative estimates suggest that more than 300 million gallons of AMD are released daily, making this acidic solution of water and contaminants a common issue in areas with legacy or current coal extraction. Electrical resistivity imaging (ERI) provides a rapid and minimally invasive method to identify and monitor contaminant pathways from AMD remediation systems in the subsurface of the Critical Zone. The technique yields spatially continuous data of subsurface resistivity that can be inverted to determine electrical conductivity as a function of depth. Since elevated concentrations of heavy metals can directly influence soil conductivity, ERI data can be used to trace the flow pathways or perhaps unknown mine conduits and transport of heavy metals through the subsurface near acid mine drainage sources. This study aims to examine preferential contaminant migration from those sources through substrate pores, fractures, and shallow mine workings in the near subsurface surrounding AMD sites in eastern Ohio and western Pennsylvania. We utilize time lapse ERI measures during different hydrologic conditions to better understand the variability of preferential flow pathways in relation to changes in stage and discharge within the remediation systems. To confirm ERI findings, and provide constraint to geochemical reactions occurring in the shallow subsurface, we conducted Inductively Coupled Plasma (ICP) spectrometry analysis of groundwater samples from boreholes along the survey transects. Through these combined methods, we can provide insight into the ability of engineered systems to contain and isolate metals in passive acid mine drainage treatment systems.

Estimation of Unsaturated Zone Traveltimes for Rainier Mesa and Shoshone Mountain, Nevada Test Site, Nevada, Using a Source-Responsive Preferential-Flow Model

USGS Publications Warehouse

Ebel, Brian A.; Nimmo, John R.

2009-01-01

Traveltimes for contaminant transport by water from a point in the unsaturated zone to the saturated zone are a concern at Rainier Mesa and Shoshone Mountain in the Nevada Test Site, Nevada. Where nuclear tests were conducted in the unsaturated zone, contaminants must traverse hundreds of meters of variably saturated rock before they enter the saturated zone in the carbonate rock, where the regional groundwater system has the potential to carry them substantial distances to a location of concern. The unsaturated-zone portion of the contaminant transport path may cause a significant delay, in addition to the time required to travel within the saturated zone, and thus may be important in the overall evaluation of the potential hazard from contamination. Downward contaminant transport through the unsaturated zone occurs through various processes and pathways; this can lead to a broad distribution of contaminant traveltimes, including exceedingly slow and unexpectedly fast extremes. Though the bulk of mobile contaminant arrives between the time-scale end members, the fastest contaminant transport speed, in other words the speed determined by the combination of possible processes and pathways that would bring a measureable quantity of contaminant to the aquifer in the shortest time, carries particular regulatory significance because of its relevance in formulating the most conservative hazard-prevention scenarios. Unsaturated-zone flow is usually modeled as a diffusive process responding to gravity and pressure gradients as mediated by the unsaturated hydraulic properties of the materials traversed. The mathematical formulation of the diffuse-flow concept is known as Richards' equation, which when coupled to a solute transport equation, such as the advection-dispersion equation, provides a framework to simulate contaminant migration in the unsaturated zone. In recent decades awareness has increased that much fluid flow and contaminant transport within the unsaturated zone takes place as preferential flow, faster than would be predicted by the coupled Richards' and advection-dispersion equations with hydraulic properties estimated by traditional means. At present the hydrologic community has not achieved consensus as to whether a modification of Richards' equation, or a fundamentally different formulation, would best quantify preferential flow. Where the fastest contaminant transport speed is what needs to be estimated, there is the possibility of simplification of the evaluation process. One way of doing so is by a two-step process in which the first step is to evaluate whether significant preferential flow and solute transport is possible for the media and conditions of concern. The second step is to carry out (a) a basic Richards' and advection-dispersion equation analysis if it is concluded that preferential flow is not possible or (b) an analysis that considers only the fastest possible preferential-flow processes, if preferential flow is possible. For the preferential-flow situation, a recently published model describable as a Source-Responsive Preferential-Flow (SRPF) model is an easily applied option. This report documents the application of this two-step process to flow through the thick unsaturated zones of Rainier Mesa and Shoshone Mountain in the Nevada Test Site. Application of the SRPF model involves distinguishing between continuous and intermittent water supply to preferential flow paths. At Rainier Mesa and Shoshone Mountain this issue is complicated by the fact that contaminant travel begins at a location deep in the subsurface, where there may be perched water that may or may not act like a continuous supply, depending on such features as the connectedness of fractures and the nature of impeding layers. We have treated this situation by hypothesizing both continuous and intermittent scenarios for contaminant transport to the carbonate aquifer and reporting estimation of the fastest speed for both of th

Estimation of unsaturated zone traveltimes for Rainier Mesa and Shoshone Mountain, Nevada Test Site, Nevada, using a source-responsive preferential-flow model

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

Brian A. Ebel; John R. Nimmo

2009-09-11

Traveltimes for contaminant transport by water from a point in the unsaturated zone to the saturated zone are a concern at Rainier Mesa and Shoshone Mountain in the Nevada Test Site, Nevada. Where nuclear tests were conducted in the unsaturated zone, contaminants must traverse hundreds of meters of variably saturated rock before they enter the saturated zone in the carbonate rock, where the regional groundwater system has the potential to carry them substantial distances to a location of concern. The unsaturated-zone portion of the contaminant transport path may cause a significant delay, in addition to the time required to travelmore » within the saturated zone, and thus may be important in the overall evaluation of the potential hazard from contamination. Downward contaminant transport through the unsaturated zone occurs through various processes and pathways; this can lead to a broad distribution of contaminant traveltimes, including exceedingly slow and unexpectedly fast extremes. Though the bulk of mobile contaminant arrives between the time-scale end members, the fastest contaminant transport speed, in other words the speed determined by the combination of possible processes and pathways that would bring a measureable quantity of contaminant to the aquifer in the shortest time, carries particular regulatory significance because of its relevance in formulating the most conservative hazard-prevention scenarios. Unsaturated-zone flow is usually modeled as a diffusive process responding to gravity and pressure gradients as mediated by the unsaturated hydraulic properties of the materials traversed. The mathematical formulation of the diffuse-flow concept is known as Richards' equation, which when coupled to a solute transport equation, such as the advection-dispersion equation, provides a framework to simulate contaminant migration in the unsaturated zone. In recent decades awareness has increased that much fluid flow and contaminant transport within the unsaturated zone takes place as preferential flow, faster than would be predicted by the coupled Richards' and advection-dispersion equations with hydraulic properties estimated by traditional means. At present the hydrologic community has not achieved consensus as to whether a modification of Richards' equation, or a fundamentally different formulation, would best quantify preferential flow. Where the fastest contaminant transport speed is what needs to be estimated, there is the possibility of simplification of the evaluation process. One way of doing so is by a two-step process in which the first step is to evaluate whether significant preferential flow and solute transport is possible for the media and conditions of concern. The second step is to carry out (a) a basic Richards' and advection-dispersion equation analysis if it is concluded that preferential flow is not possible or (b) an analysis that considers only the fastest possible preferential-flow processes, if preferential flow is possible. For the preferential-flow situation, a recently published model describable as a Source-Responsive Preferential-Flow (SRPF) model is an easily applied option. This report documents the application of this two-step process to flow through the thick unsaturated zones of Rainier Mesa and Shoshone Mountain in the Nevada Test Site. Application of the SRPF model involves distinguishing between continuous and intermittent water supply to preferential flow paths. At Rainier Mesa and Shoshone Mountain this issue is complicated by the fact that contaminant travel begins at a location deep in the subsurface, where there may be perched water that may or may not act like a continuous supply, depending on such features as the connectedness of fractures and the nature of impeding layers. We have treated this situation by hypothesizing both continuous and intermittent scenarios for contaminant transport to the carbonate aquifer and reporting estimation of the fastest speed for both of these end members.« less

Macropore system characteristics controls on non-reactive solute transport at different flow rates

NASA Astrophysics Data System (ADS)

Larsbo, Mats; Koestel, John

2014-05-01

Preferential flow and transport in macroporous soils are important pathways for the leaching of agrochemicals through soils. Preferential solute transport in soil is to a large extent determined by the macropore system characteristics and the water flow conditions. The importance of different characteristics of the macropore system is likely to vary with the flow conditions. The objective of this study was to determine which properties of the macropore system that control the shape of non-reactive tracer solute breakthrough curves at different steady-state flow rates. We sampled five undisturbed columns (20 cm high, 20 cm diameter) from the soil surface of four soils with clay contents between 21 and 50 %. Solute transport experiments were carried out under unsaturated conditions at 2, 4, 6, 8 and 12 mm h-1 flow rates. For each flow rate a pulse of potassium bromide solution was applied at the soil surface and the electrical conductivity was measured with high temporal resolution in the column effluent. We used the 5 % arrival time and the holdback factor to estimate the degree of preferential transport from the resulting breakthrough curves. Unsaturated hydraulic conductivities were measured at the soil surface of the columns using a tension disc infiltrometer. The macropore system was imaged by industrial X-ray computed tomography at a resolution of 125 μm in all directions. Measures of the macropore system characteristics including measures of pore continuity were calculated from these images using the ImageJ software. Results show that the degree of preferential transport is generally increasing with flow rate when larger pores become active in the transport. The degree of preferential flow was correlated to measures of macropore topology. This study show that conclusions drawn from experiments carried out at one flow rate should generally not be extrapolated to other flow rates.

Hydrogeophysical imaging of deposit heterogeneity and groundwater chemistry changes during DNAPL source zone bioremediation.

PubMed

Chambers, J E; Wilkinson, P B; Wealthall, G P; Loke, M H; Dearden, R; Wilson, R; Allen, D; Ogilvy, R D

2010-10-21

Robust characterization and monitoring of dense nonaqueous phase liquid (DNAPL) source zones is essential for designing effective remediation strategies, and for assessing the efficacy of treatment. In this study high-resolution cross-hole electrical resistivity tomography (ERT) was evaluated as a means of monitoring a field-scale in-situ bioremediation experiment, in which emulsified vegetable oil (EVO) electron donor was injected into a trichloroethene source zone. Baseline ERT scans delineated the geometry of the interface between the contaminated alluvial aquifer and the underlying mudstone bedrock, and also the extent of drilling-induced physical heterogeneity. Time-lapse ERT images revealed major preferential flow pathways in the source and plume zones, which were corroborated by multiple lines of evidence, including geochemical monitoring and hydraulic testing using high density multilevel sampler arrays within the geophysical imaging planes. These pathways were shown to control the spatial distribution of the injected EVO, and a bicarbonate buffer introduced into the cell for pH control. Resistivity signatures were observed within the preferential flow pathways that were consistent with elevated chloride levels, providing tentative evidence from ERT of the biodegradation of chlorinated solvents. Copyright © 2010 S. Yamamoto. Published by Elsevier B.V. All rights reserved.

Hydrology of paraglacial catchments: preferential flow sustaining biodiversity hotspots in a changing climate

NASA Astrophysics Data System (ADS)

Grocott, M.; Kettridge, N.; Bradley, C.; Milner, A.

2015-12-01

Groundwater-fed streams are important biodiversity hotspots on paraglacial floodplains supporting a rich and abundant fauna. However, paraglacial systems in arctic, sub-arctic, and alpine regions are changing profoundly as a consequence of climate change. Glacial retreat, increasing permafrost melt, declining winter snowpacks, earlier spring melt, and shifting summer precipitation patterns are modifying the water balance in these areas and increasing environmental vulnerability. Here, we determine the hydrological functioning of groundwater-fed stream networks in Denali National Park, Alaska, demonstrating the importance of hillslope runoff through talus deposits and the significance of preferential flow pathways (PFPs) in supporting the stream networks. We used geochemical (major ions) and stable isotopic (δ2H & δ18O) tracers to identify key water sources, determine flow paths, and highlight spatial and temporal variations in the relative contributions of individual water sources and pathways to streamflow. Multiple flow paths are shown to support streams, with the relative contribution of water sources varying on both inter-annual and seasonal scales. Hydrograph separations confirm hillslope runoff as a key contributor of flow to groundwater fed stream networks. Further, they establish the importance of talus deposits on valley sides as conduits of flow, and their potential importance as headwater aquifers. The implications are that the effects of changing climates within paraglacial environments on hillslope runoff sources will have a greater impact on these biodiversity hotspots than up-valley glacial retreat and associated changes.

Investigation of Preferential Flow in Low Impact Development Practice

NASA Astrophysics Data System (ADS)

Liu, L.; Cao, R.; Wang, C.; Jiang, W.; Wang, J.; Xia, Z.

2016-12-01

The characteristics of preferential flow in soil affect Low Impact Development (LID) practices in two aspects. On the one hand, preferential flow may facilitate drainage of stormwater by causing non-uniform movement of water through a small portion of media (such as cracks and holes), and thus leading to much faster transport of water and solutes in one specific direction than others. On the other hand, within a certain ranges, preferential flow may weaken the subgrade capacity of pressure and/or shear stress resistance. Therefore, for the purpose of improving LID practices, there may exist an optimum scenario with a high allowable flowrate and least negative impact of resistance capacity for a soil layer. This project aims to assist the LID design by exploring the features of preferential flow in different soil compositions, studying how different flow paths affect the stability of subgrade, preliminarily analyzing the sensitivity of preferential flow impacting on drainage capacity and subgrade stability in the LID, and further optimizing LID practices. Accordingly, the concepts of Essential Direction Path, Unessential Direction Path and the Sensitivity Coefficient are defined and analyzed to simulate a hypothetical funneling scenario in LID practice. Both irrigation apparatus experiments and numerical models are utilized in this research to investigate the features of preferential flow, effective strength and overall shear strength. The main conclusions include: (1) Investigation of preferential flow characteristics in essential direction path and unessential direction path, respectively; (2) Optimum design of preferential flow in LID practice; (3) Transport capacity determination of preferential flow path in different soils; (4) Study of preferential flow impact on roadbed stability. KEY WORDS: Preferential Flow, Subgrade stability, LID, Sensitivity Coefficient, Funneling Preferential Flow Path

A multiscale computational approach to dissect early events in the Erb family receptor mediated activation, differential signaling, and relevance to oncogenic transformations.

PubMed

Liu, Yingting; Purvis, Jeremy; Shih, Andrew; Weinstein, Joshua; Agrawal, Neeraj; Radhakrishnan, Ravi

2007-06-01

We describe a hierarchical multiscale computational approach based on molecular dynamics simulations, free energy-based molecular docking simulations, deterministic network-based kinetic modeling, and hybrid discrete/continuum stochastic dynamics protocols to study the dimer-mediated receptor activation characteristics of the Erb family receptors, specifically the epidermal growth factor receptor (EGFR). Through these modeling approaches, we are able to extend the prior modeling of EGF-mediated signal transduction by considering specific EGFR tyrosine kinase (EGFRTK) docking interactions mediated by differential binding and phosphorylation of different C-terminal peptide tyrosines on the RTK tail. By modeling signal flows through branching pathways of the EGFRTK resolved on a molecular basis, we are able to transcribe the effects of molecular alterations in the receptor (e.g., mutant forms of the receptor) to differing kinetic behavior and downstream signaling response. Our molecular dynamics simulations show that the drug sensitizing mutation (L834R) of EGFR stabilizes the active conformation to make the system constitutively active. Docking simulations show preferential characteristics (for wildtype vs. mutant receptors) in inhibitor binding as well as preferential enhancement of phosphorylation of particular substrate tyrosines over others. We find that in comparison to the wildtype system, the L834R mutant RTK preferentially binds the inhibitor erlotinib, as well as preferentially phosphorylates the substrate tyrosine Y1068 but not Y1173. We predict that these molecular level changes result in preferential activation of the Akt signaling pathway in comparison to the Erk signaling pathway for cells with normal EGFR expression. For cells with EGFR over expression, the mutant over activates both Erk and Akt pathways, in comparison to wildtype. These results are consistent with qualitative experimental measurements reported in the literature. We discuss these consequences in light of how the network topology and signaling characteristics of altered (mutant) cell lines are shaped differently in relationship to native cell lines.

Reactive transport simulations of alternative flow pathways in the ambient unsaturated zone at Yucca Mountain, Nevada

NASA Astrophysics Data System (ADS)

Browning, L.; Murphy, W.; Manepally, C.; Fedors, R.

2003-04-01

Uncertainties in simulated ambient system unsaturated zone flow could have a significant impact on performance evaluations of the proposed nuclear waste repository at Yucca Mountain, Nevada. In addition to determining variations in the quantity of water available to corrode engineered materials and transport radionuclides, model assumptions regarding flow pathways may significantly affect estimates of groundwater chemistry. The manner and extent to which groundwater compositions evolve along a flow pathway are determined mainly by thermohydrologic conditions, the types of reactive materials encountered, and the interaction times with those materials. Simulated groundwater compositions can thus vary significantly depending on whether or not the flow model includes lateral diversion of infiltrating waters, or preferential flow pathways in variably-saturated materials. To assist a regulatory review of a potential license application for a geologic repository for high-level waste, we developed a reactive transport model for the ambient hydrogeochemical system at Yucca Mountain. The model simulates two phase, nonisothermal, advective and diffusive flow and transport through a one dimensional, matrix and fracture continua (dual permeability) containing ten kinetically reactive hydrostatigraphic layers in the vicinity of the SD-9 borehole at Yucca Mountain. In this presentation, we describe how the model was used to evaluate alternative ambient unsaturated zone flow pathways proposed by the U.S. Department of Energy. This abstract is an independent product of the CNWRA and does not necessarily reflect the views or regulatory position of the NRC.

Preferential Flow and Transport of Cryptosporidium Parvum Oocysts Through Vadose Zone: Experiments and Modeling

NASA Astrophysics Data System (ADS)

Darnault, C. J.; Darnault, C. J.; Garnier, P.; Kim, Y.; Oveson, K.; Jenkins, M.; Ghiorse, W.; Baveye, P.; Parlange, J.; Steenhuis, T.

2001-12-01

Oocysts of the protozoan Cryptosporidium parvum, when they contaminate drinking water supplies, can cause outbreaks of Cryptosporidiosis, a common waterborne disease. Of the different pathways by which oocysts can wind up in drinking water, one has received very little attention to date; because soils are often considered to be perfect filters, the transport of oocysts through the subsoil to groundwater by preferential flow is generally ignored. To evaluate its significance, three set of laboratory experiments investigated transport of oocysts through vadose zone. Experiment set I was carried out in a vertical 50 cm-long column filled with silica sand, under conditions known to foster fingered flow. Experiment set II investigates the effect of gas-water interfaces by modifying the hydrodynamical conditions in the sand columns with water-repellent sand barriers. Experiment III involved undisturbed soil columns subjected to macropores flow. The sand and soil columns were subjected to artificial rainfall and were allowed to reach steady-state. At that point, feces of contaminated calves were applied at the surface, along with a known amount of KCl to serve as tracer, and rainfall was continued at the same rate. The breakthrough of oocysts and Cl-, monitored in the effluent, demonstrate the importance of preferential flow - fingered flow and macropore flow - on the transport of oocysts through vadose zone. Peak oocyst concentrations were not appreciably delayed, compared to Cl-, and in some cases, occurred even before the Cl- peak. However, the numbers of oocysts present in the effluents were still orders of magnitude higher than the 5 to 10 oocysts per liter that are considerable sufficient to cause cryptosporidiosis in healthy adults. The transport of oocysts was simulated based on a partitioning the soil profile in both a distribution zone and a preferential zone, In particular, the model simulates accurately the markedly asymmetric breakthrough patterns, and the long exponential tailing. The spatial distribution of oocysts suggest a close relationship between oocyst retention and the extent of gas-water interfaces; sharp increases in oocyst numbers are consistently observed in regions of the sand where the water content has steep gradients, and therefore where one expects capillary meniscii to have maximal extent. These observations imply that oocyst transport in the vadose zone is likely to be very limited in the absence of preferential flow. However, experimental results suggest that the transport of oocysts in the subsurface via preferential flow may create a significant risk of groundwater contamination in some situations.

Characterization of preferential flow pathways in a siliciclastic aquifer system using human enteric viruses and groundwater geochemistry

USDA-ARS?s Scientific Manuscript database

Human enteric viruses have been recognized as an emerging groundwater contaminant and are found only in human waste. In urban environments the most likely source of human waste is from sanitary sewers. Determining the travel time for near-surface contaminants to reach deep public supply wells is i...

The influence of terracettes on surface hydrology and erosion on vegetated Alpine, mountain and steep-sloping environments

NASA Astrophysics Data System (ADS)

Kuhn, Nikolaus; (Phil) Greenwood, Philip

2014-05-01

Alpine and mountain slopes represent important pathways that link high altitude grazing areas to meadows and rangelands at lower elevations. Given the often acute gradient of mountain slopes, they represent a convenient and potentially highly efficient runoff conveyance route that facilitates the downslope transfer of fine-sediment and sediment-bound nutrients and contaminants during erosion events. Above a certain gradient, many slopes host small steps, or `terracettes`. As these are generally orientated across slope, their genesis is usually attributed to a combination of soil creep, coupled with (and often accentuated by) grazing animals. Motivated by the prevalence of these distinct landform features and lack of information on their role as runoff conveyance routes, this communication reports preliminary results from an investigation to explore the possibility that terracettes may act as preferential flow-paths, with an as yet undocumented ability to greatly influence surface hydrology in mountainous and steeply-sloping environments. A ca. 40 m2 area of vegetated terracettes and section of adjacent thalweg, with gradients ranging from approximately 25-35o, were scanned using an automated Topcon IS03 Total Station at a resolution of 0.1 * 0.1 m. Data were converted to a Digital Elevation Model (DEM) in ArcGIS 10 Geographical Information System (GIS), and queried using Spatial Analyst (Surface Hydrology; Flow Accumulation function) to identify slope-sections that could act as preferential flow-pathways during runoff events. These data were supplemented by information on soil physical properties that included grain size composition, bulk density and porosity, in order to establish spatial variations in soil characteristics associated with the vertical and horizontal terracette features. Combining the digital and in-situ data indicate that the technique is able to identify preferential surface flow-paths. Such information could greatly benefit the future management of grazing and rangelands in Alpine, mountain and steeply sloping environments. With higher resolution data covering larger areas, as well as the possibility of using fallout radionuclide data to establish sediment residence times on depositional areas, it is envisioned that runoff and transportation of fine-sediment and sediment-associated nutrients and contaminants down these flow pathways could be modeled, predicted and their effects mitigated and perhaps eventually reduced.

Integrated Geophysical Investigation of Preferential Flow Paths at the Former Tyson Valley Powder Farm near Eureka, Missouri, May 2006

USGS Publications Warehouse

Burton, Bethany L.; Ball, Lyndsay B.; Stanton, Gregory P.; Hobza, Christopher M.

2009-01-01

In May 2006, the U.S. Geological Survey, in cooperation with the U.S. Army Corps of Engineers, conducted surface and borehole geophysical surveys at the former Tyson Valley Powder Farm near Eureka, Mo., to identify preferential pathways for potential contaminant transport along the bedrock surface and into dissolution-enhanced fractures. The Tyson Valley Powder Farm was formerly used as a munitions storage and disposal facility in the 1940s and 1950s, and the site at which the surveys were performed was a disposal area for munitions and waste solvents such as trichloroethylene and dichloroethylene. Direct-current resistivity and seismic refraction data were acquired on the surface; gamma, electromagnetic induction, and full waveform sonic logs were acquired in accessible boreholes. Through the combined interpretation of the seismic refraction tomographic and resistivity inversion results and borehole logs, inconsistencies in the bedrock surface were identified that may provide horizontal preferential flow paths for dense nonaqueous phase liquid contaminants. These results, interpreted and displayed in georeferenced three-dimensional space, should help to establish more effective monitoring and remediation strategies.

Selection of Two-Phase Flow Patterns at a Simple Junction in Microfluidic Devices

NASA Astrophysics Data System (ADS)

Engl, W.; Ohata, K.; Guillot, P.; Colin, A.; Panizza, P.

2006-04-01

We study the behavior of a confined stream made of two immiscible fluids when it reaches a T junction. Two flow patterns are witnessed: the stream is either directed in only one sidearm, yielding a preferential flow pathway for the dispersed phase, or splits between both. We show that the selection of these patterns is not triggered by the shape of the junction nor by capillary effects, but results from confinement. It can be anticipated in terms of the hydrodynamic properties of the flow. A simple model yielding universal behavior in terms of the relevant adimensional parameters of the problem is presented and discussed.

Non-invasive flow path characterization in a mining-impacted wetland

USGS Publications Warehouse

Bethune, James; Randell, Jackie; Runkel, Robert L.; Singha, Kamini

2015-01-01

Time-lapse electrical resistivity (ER) was used to capture the dilution of a seasonal pulse of acid mine drainage (AMD) contamination in the subsurface of a wetland downgradient of the abandoned Pennsylvania mine workings in central Colorado. Data were collected monthly from mid-July to late October of 2013, with an additional dataset collected in June of 2014. Inversion of the ER data shows the development through time of multiple resistive anomalies in the subsurface, which corroborating data suggest are driven by changes in total dissolved solids (TDS) localized in preferential flow pathways. Sensitivity analyses on a synthetic model of the site suggest that the anomalies would need to be at least several meters in diameter to be adequately resolved by the inversions. The existence of preferential flow paths would have a critical impact on the extent of attenuation mechanisms at the site, and their further characterization could be used to parameterize reactive transport models in developing quantitative predictions of remediation strategies.

Susceptibility to enhanced chemical migration from depression-focused preferential flow, High Plains aquifer

USGS Publications Warehouse

Gurdak, Jason J.; Walvoord, Michelle Ann; McMahon, Peter B.

2008-01-01

Aquifer susceptibility to contamination is controlled in part by the inherent hydrogeologic properties of the vadose zone, which includes preferential-flow pathways. The purpose of this study was to investigate the importance of seasonal ponding near leaky irrigation wells as a mechanism for depression-focused preferential flow and enhanced chemical migration through the vadose zone of the High Plains aquifer. Such a mechanism may help explain the widespread presence of agrichemicals in recently recharged groundwater despite estimates of advective chemical transit times through the vadose zone from diffuse recharge that exceed the historical period of agriculture. Using a combination of field observations, vadose zone flow and transport simulations, and probabilistic neural network modeling, we demonstrated that vadose zone transit times near irrigation wells range from 7 to 50 yr, which are one to two orders of magnitude faster than previous estimates based on diffuse recharge. These findings support the concept of fast and slow transport zones and help to explain the previous discordant findings of long vadose zone transit times and the presence of agrichemicals at the water table. Using predictions of aquifer susceptibility from probabilistic neural network models, we delineated approximately 20% of the areal extent of the aquifer to have conditions that may promote advective chemical transit times to the water table of <50 yr if seasonal ponding and depression-focused flow exist. This aquifer-susceptibility map may help managers prioritize areas for groundwater monitoring or implementation of best management practices.

Microcirculation of the pancreas. A quantitative study of physiology and changes in pancreatitis.

PubMed

Klar, E; Endrich, B; Messmer, K

1990-02-01

A rabbit model was designed to study the microcirculation of the pancreas with special reference to changes occurring during acute pancreatitis. Intravital microscopy was used in conjunction with video techniques allowing for continuous observation and off-line evaluation of microvessel diameters and blood cell velocities. Based on the microvessel geometry a functional microvascular unit could be defined at the level of the pancreatic lobule consisting of intralobular arteries and veins and an arcade-like preferential pathway framing the capillary network. Experimental acute pancreatitis resulted in immediate leakage of the macromolecular plasma marker (FITC-Dextran 70) from the microvasculature suggesting increased permeability. In contrast to control conditions, pancreatic capillaries were excluded from the circulation during acute pancreatitis starting 30 min after induction with only single capillaries remaining perfused after 3 hours. At the same time, there was constant blood flow through the preferential pathways representing shunt perfusion.

Water movement and isoproturon behaviour in a drained heavy clay soil: 1. Preferential flow processes

NASA Astrophysics Data System (ADS)

Haria, A. H.; Johnson, A. C.; Bell, J. P.; Batchelor, C. H.

1994-12-01

The processes and mechanisms that control pesticide transport from drained heavy clay catchments are being studied at Wytham Farm (Oxford University) in southern England. In the first field season field-drain water contained high concentrations of pesticide. Soil studies demonstrated that the main mechanism for pesticide translocation was by preferential flow processes, both over the soil surface and through the soil profile via a macropore system that effectively by-passed the soil matrix. This macropore system included worm holes, shrinkage cracks and cracks resulting from ploughing. Rainfall events in early winter rapidly created a layer of saturation in the A horizon perched above a B horizon of very low hydraulic conductivity. Drain flow was initiated when the saturated layer in the A horizon extended into the upper 0.06m of the soil profile; thereafter water moved down slope via horizontal macropores possibly through a band of incorporated straw residues. These horizontal pathways for water movement connected with the fracture system of the mole drains, thus feeding the drains. Overland flow occurred infrequently during the season.

Determining the frequency, depth and velocity of preferential flow by high frequency soil moisture monitoring

NASA Astrophysics Data System (ADS)

Hardie, Marcus; Lisson, Shaun; Doyle, Richard; Cotching, William

2013-01-01

Preferential flow in agricultural soils has been demonstrated to result in agrochemical mobilisation to shallow ground water. Land managers and environmental regulators need simple cost effective techniques for identifying soil - land use combinations in which preferential flow occurs. Existing techniques for identifying preferential flow have a range of limitations including; often being destructive, non in situ, small sampling volumes, or are subject to artificial boundary conditions. This study demonstrated that high frequency soil moisture monitoring using a multi-sensory capacitance probe mounted within a vertically rammed access tube, was able to determine the occurrence, depth, and wetting front velocity of preferential flow events following rainfall. Occurrence of preferential flow was not related to either rainfall intensity or rainfall amount, rather preferential flow occurred when antecedent soil moisture content was below 226 mm soil moisture storage (0-70 cm). Results indicate that high temporal frequency soil moisture monitoring may be used to identify soil type - land use combinations in which the presence of preferential flow increases the risk of shallow groundwater contamination by rapid transport of agrochemicals through the soil profile. However use of high frequency based soil moisture monitoring to determine agrochemical mobilisation risk may be limited by, inability to determine the volume of preferential flow, difficulty observing macropore flow at high antecedent soil moisture content, and creation of artificial voids during installation of access tubes in stony soils.

Not all water becomes wine: Sulfur inputs as an opportune tracer of hydrochemical losses from vineyards

USGS Publications Warehouse

Hinckley, Eve-Lyn S.; Kendall, Carol; Loague, Keith

2009-01-01

California's widespread and economically important vineyards offer substantial opportunities to understand the interface between hydrology and biogeochemistry in agricultural soils. The common use of native sulfur (S) as a fumigant or soil additive provides a novel way to isotopically differentiate among sulfate (SO42−) pools, allowing the estimation of water and SO42− budgets. The objectives of this study were (1) to characterize the near‐surface hydrological flow paths in a vineyard during irrigation and storm events and (2) to determine how those flow paths affect the fate and transport of SO42− across seasons. Integrating hydrological theory with measurements of SO42−concentration and sulfate‐S isotopic ratios (expressed as [SO42−] and δ34S, respectively) in inputs, soil water, and leachate provided a means of determining flow paths. Low [SO42−] and δ34S in leachate during 4‐h irrigation events reflect minimal engagement of the soil matrix, indicating that preferential flow was the dominant path for water in the near surface. In contrast, high [SO42−] and δ34S values during 8‐h irrigation and storm events reflect near‐complete engagement of the soil matrix, indicating that lateral flow was the dominant pathway. Because hydrologic response and SO42− mobility are tightly coupled in these soils, the magnitude of water fluxes through the near surface controls S cycling both on and off site. These results indicate that preferential flow is an important loss pathway to consider in managing both water resources and water quality (reactive elements) in vineyard land use systems.

Dynamics of Phosphorus export from small forested catchments in low mountain ranges in Germany

NASA Astrophysics Data System (ADS)

Julich, Stefan; Julich, Dorit; Benning, Raphael; Feger, Karl-Heinz

2017-04-01

Phosphorus (P) plays an important role in the nutrition of forest ecosystem. The transport of P in forest soils predominantly occurs along preferential water flow pathways bypassing large parts of the soil matrix. Therefore, rapid flow processes by preferential flow and/or during storm events may lead to significant P losses from forest soils. However only little knowledge about the dynamics, magnitude and driving processes of P exports into surface water exist. In this contribution, we present the results of two studies where two small forested catchments have been monitored for a period around 3 years. Both catchments are situated in low mountain ranges in Saxony (catchment size 21 ha) and Thuringia (catchment size 5 ha) representing medium P contents in the topsoil of 1142 mg kg-1 and 834 mg kg-1 respectively. During the regular sampling (monthly to weekly sampling frequency), the mean Total-P concentrations of 23 μg L-1(Thuringian Site) and 8 μg L-1(Saxonian Site) have been measured. However, during single storm events Total-P concentrations increased considerably with maximum concentrations of 134 μg L-1(Thuringian Site) and 203 μg L-1(Saxonian Site). Our findings indicate that during storm events, especially after longer dry periods, significant amounts of phosphorus can be exported from forest ecosystems. Comparison of discharge-concentration patterns of Total-P, Nitrogen and DOC, as well as dye tracer experiments, suggest that preferential flow along biopores and stone surfaces, and the interface between mineral soil and litter layer are main pathways of export from forests. For the site in Saxony we calculated mean annual export rates of 32.8 to 33.5 g ha-1 a-1 based on the weekly sampling with different load calculation methods (flow weighted methods up to linear regression models). If the events are included into the annual load calculation the mean annual export fluxes increase from 47.8 to 58.6 g ha-1 a-1 based on the different load calculation methods. This implies that the estimation of P-exports from forested catchments need to be based on appropriate monitoring schemes and load estimation methods.

Characterization of TCE DNAPL and Dissolved Phase Transport in Karst Media

NASA Astrophysics Data System (ADS)

Carmona, M.; Padilla, I. Y.

2015-12-01

Trichloroethylene (TCE) contaminated sites are a threat to the environment and human health. Of particular concerns is the contamination of karst groundwater systems (KGWSs). Their heterogeneous character, rapid flow through conduits, high permeability zones, and strong storage capacity in the rock porous-matrix pose a high risk of exposure over large areas and temporal scales. To achieve effective remedial actions for TCE removal, it is important to understand and quantify the fate and transport process of trichloroethylene in these systems. This research studies the fate, transport, and distribution of TCE Non-Aqueous Phase Liquids (NAPLs) and associated dissolved species in KGWSs. Experiments are conducted in a karstified limestone physical model, a limestone rock mimicking a saturated confined karst aquifer. After injecting TCE solvent into a steady groundwater flow field, samples are taken spatially and temporally and analyzed for TCE NAPL and dissolved phases. Data analysis shows the rapid detection of TCE NAPL and high aqueous concentrations along preferential pathway, even at distances far away from the injection point. Temporal distribution curves exhibit spatial variations related to the limestone rock heterogeneity. Rapid response to TCE concentrations is associated with preferential flow paths. Slow response with long tailing indicates rate-limited diffusive transport in the rock matrix. Overall, results indicate that karstified limestone has a high capacity to rapidly transport pure and dissolved TCE along preferential flow paths, and to store and slowly release TCE over long periods of time.

Connectivity in modelling subsurface stormflow and tracer transport in a forested hillslope

NASA Astrophysics Data System (ADS)

Laine-Kaulio, Hanne; Koivusalo, Harri

2016-04-01

Preferential flow characterizes subsurface water movement in forested hillslopes. Connectivity of preferential flowpaths in soil, as well as connections between the preferential flowpaths and the soil matrix, control the flow patterns in hillslopes. We simulated subsurface stormflow and tracer transport within a forested hillslope section in Eastern Finland with a modifiable and detailed, physically-based 3-D dual-permeability model. The objective was to investigate the role of flowpath connectivity in capturing the observed migration velocity and concentration status of a tracer plume during the different stages of an irrigation experiment. Hypotheses to explain the observed transport behaviour were formulated based on observed spatial variations in the soil properties. The hypotheses were then tested by running corresponding model versions against spatial high-frequency data from the irrigation experiment. The 3-D distribution of preferential flowpaths, and the connections and disconnections between them, had the most crucial role in capturing the observed transport event with the model. Lateral by-pass flow in the preferential flow network and the transmissivity feedback phenomenon dominated the tracer transport. However, disconnections in lateral preferential flow restrained the transport, making the transport route devious instead of being directly lateral. These disconnections were caused by spots of cemented soil material. Stones had an opposite effect on the flow route formation compared to the cemented spots because preferential flowpaths were present on stone surfaces. Preferential flowpaths related to stones were linked with other types of preferential flowpaths in soil, facilitating the connectivity of preferential flowpaths within the entire hillslope. To take into account the discontinuity in lateral preferential flow and the tortuosity of the dominant flow routes in the model, an explicit representation of the 3-D distribution of saturated hydraulic conductivity in the preferential flow network was required. In addition, with-depth changing porosity values of both pore domains of soil, i.e., the preferential flowpaths and the soil matrix, as well as explicit descriptions of local water losses into the underlying bedrock, were found important for successful simulations. Other investigated model features, including complexity in the values of the rest of the model parameters and in the calculation routines used in describing the flow connections between the preferential flowpaths and the soil matrix, were not found beneficial for the model outcome.

Investigating low flow process controls, through complex modelling, in a UK chalk catchment

NASA Astrophysics Data System (ADS)

Lubega Musuuza, Jude; Wagener, Thorsten; Coxon, Gemma; Freer, Jim; Woods, Ross; Howden, Nicholas

2017-04-01

The typical streamflow response of Chalk catchments is dominated by groundwater contributions due the high degree of groundwater recharge through preferential flow pathways. The groundwater store attenuates the precipitation signal, which causes a delay between the corresponding high and low extremes in the precipitation and the stream flow signals. Streamflow responses can therefore be quite out of phase with the precipitation input to a Chalk catchment. Therefore characterising such catchment systems, including modelling approaches, clearly need to reproduce these percolation and groundwater dominated pathways to capture these dominant flow pathways. The simulation of low flow conditions for chalk catchments in numerical models is especially difficult due to the complex interactions between various processes that may not be adequately represented or resolved in the models. Periods of low stream flows are particularly important due to competing water uses in the summer, including agriculture and water supply. In this study we apply and evaluate the physically-based Pennstate Integrated Hydrologic Model (PIHM) to the River Kennet, a sub-catchment of the Thames Basin, to demonstrate how the simulations of a chalk catchment are improved by a physically-based system representation. We also use an ensemble of simulations to investigate the sensitivity of various hydrologic signatures (relevant to low flows and droughts) to the different parameters in the model, thereby inferring the levels of control exerted by the processes that the parameters represent.

Can a fractured caprock self-heal?

NASA Astrophysics Data System (ADS)

Elkhoury, Jean E.; Detwiler, Russell L.; Ameli, Pasha

2015-05-01

The ability of geologic seals to prevent leakage of fluids injected into the deep subsurface is critical for mitigating risks associated with greenhouse-gas sequestration and natural-gas production. Fractures caused by tectonic or injection-induced stresses create potential leakage pathways that may be further enhanced by mineral dissolution. We present results from reactive-flow experiments in fractured caprock (dolomitic anhydrite), where additional dissolution occurs in the rock matrix adjacent to the fracture surfaces. Preferential dissolution of anhydrite left a compacted layer of dolomite in the fractures. At lower flow rate, rock-fluid reactions proceeded to near equilibrium within the fracture with preferential flow paths persisting over the 6-month duration of the experiment and a negligible change in permeability. At higher flow rate, permeability decreased by a dramatic two orders of magnitude. This laboratory-scale observation of self-healing argues against the likelihood of runaway permeability growth in fractured porous caprock composed of minerals with different solubilities and reaction kinetics. However, scaling arguments suggest that at larger length scales this self-healing process may be offset by the formation of dissolution channels. Our results have relevance beyond the greenhouse-gas sequestration problem. Chemical disequilibrium at waste injection sites and in hydrothermal reservoirs will lead to reactive flows that may also significantly alter formation permeability.

Use of geophysical methods to characterize groundwater in karstic rocks near Puerto Morelos, Yucatan Peninsula, Mexico

NASA Astrophysics Data System (ADS)

cerda Garcia, C. G.; Carpenter, P. J.; Leal-Bautista, R. M.

2017-12-01

Geophysical surveys were used to determine the depth of the freshwater/saltwater interface and groundwater preferential flow pathways along the Ruta de los Cenotes, near Puerto Morelos (northeast part of the Yucatán peninsula). The Yucatán Peninsula is a limestone platform that allows quick recharge of the aquifer, the main supply of water for this region. The water in the aquifer is divided into freshwater and saltwater zones. A Schlumberger resistivity sounding along the road near one cenote suggests the water table is 5 meters deep and the freshwater/saltwater interface is 38 meters deep. A time-domain electromagnetic (TEM) sounding suggests the freshwater/saltwater interface is 45 meters deep. The depth of the interface determines the volume of fresh water available. Preferential flow pathways in the vadose and saturated zones are karst conduits where groundwater percolates downward in the vadose zone. These were identified using resistivity profiling and spontaneous self-potential (SP) geophysical methods. Interpretation of SP profile Line SP1, located 3 m south of the cenote, suggests two fractures, which appear to extend south as far as SP profile Line SP2, 15 m south of the cenote; both lines are parallel to each other. SP anomalies suggest water flow along these fractures. The use of noninvasive geophysical methods, specifically SP, resistivity and TEM are useful for exploring the karst system in the Yucatán peninsula.

Preferential flow in municipal solid waste and implications for long-term leachate quality: valuation of laboratory-scale experiments.

PubMed

Rosqvist, N H; Dollar, L H; Fourie, A B

2005-08-01

In this paper, we study and quantify pollutant concentrations after long-term leaching at relatively low flow rates and residual concentrations after heavy flushing of a 0.14 m3 municipal solid waste sample. Moreover, water flow and solute transport through preferential flow paths are studied by model interpretation of experimental break-through curves (BTCs), generated by tracer tests. In the study it was found that high concentrations of chloride remain after several pore volumes of water have percolated through the waste sample. The residual concentration was found to be considerably higher than can be predicted by degradation models. For model interpretations of the experimental BTCs, two probabilistic model approaches were applied, the transfer function model and the Lagrangian transport formulation. The experimental BTCs indicated the presence of preferential flow through the waste mass and the model interpretation of the BTCs suggested that between 19 and 41% of the total water content participated in the transport of solute through preferential flow paths. In the study, the occurrence of preferential flow was found to be dependent on the flow rate in the sense that a high flow rate enhances the preferential flow. However, to fully quantify the possible dependence between flow rate and preferential flow, experiments on a broader range of experimental conditions are suggested. The chloride washout curve obtained over the 4-year study period shows that as a consequence of the water flow in favoured flow paths, bypassing other parts of the solid waste body, the leachate quality may reflect only the flow paths and their surroundings. The results in this study thus show that in order to improve long-term prediction of the leachate quality and quantity the magnitude of the preferential water flow through a landfill must be taken into account.

Tracer Tests in the Fractured Rock to Investigate Preferential Groundwater Flow

NASA Astrophysics Data System (ADS)

Chan, W.; Chung, L.; Lee, T.; Liu, C.; Chia, Y.; Teng, M.

2012-12-01

Hydraulic tests are often used to obtain hydraulic conductivity in the aquifer. Test results usually reflect the average hydraulic conductivity in the surrounding strat. However, in fractured rock, groundwater flows primarily through a few fractures. Saltwater tracer test can be used to detect the direction of groundwater flow, but it was difficult to know the hydraulic connectivity between fractures. In this study, we use a variety of field tests, including tracer test, hydraulic test, and heat-pulse flowmeter test, to locate the permeable fractures and detect the hydraulic connections between boreholes. There are eight test wells and two observation wells on field experimental site in central Taiwan. Geological survey results show that there are at least three sets of joint planes. In order to realize the location of the preferential pathway of groundwater flow, heat-pulse flowmeter measurement was adopted to identify the depth of permeable fractures. Multi-well pumping test was also performed to investigate the hydraulic connectivity between these wells. Tracer tests were then used to detect the hydraulic connectivity of permeable fractures between two wells. Injection of nano zero valent iron in one well and and collection of iron tracer with a magnet array in the other well can specifically locate the permeable fracture and determine the connectivity. Saltwater tracer test result can be used to support that of nano-iron tracer test, and verify the relationship between well water conductivity increases and rock fracture location. The results show that tracer test is a useful tool to investigate the preferential groundwater flow in the fractured rock, but it is essential to flush the mud in fractures prior to the test.

A Hybrid Analytical/Numerical Model for the Characterization of Preferential Flow Path with Non-Darcy Flow

PubMed Central

Wang, Sen; Feng, Qihong; Han, Xiaodong

2013-01-01

Due to the long-term fluid-solid interactions in waterflooding, the tremendous variation of oil reservoir formation parameters will lead to the widespread evolution of preferential flow paths, thereby preventing the further enhancement of recovery efficiency because of unstable fingering and premature breakthrough. To improve oil recovery, the characterization of preferential flow paths is essential and imperative. In efforts that have been previously documented, fluid flow characteristics within preferential paths are assumed to obey Darcy's equation. However, the occurrence of non-Darcy flow behavior has been increasingly suggested. To examine this conjecture, the Forchheimer number with the inertial coefficient estimated from different empirical formulas is applied as the criterion. Considering a 10% non-Darcy effect, the fluid flow in a preferential path may do experience non-Darcy behavior. With the objective of characterizing the preferential path with non-Darcy flow, a hybrid analytical/numerical model has been developed to investigate the pressure transient response, which dynamically couples a numerical model describing the non-Darcy effect of a preferential flow path with an analytical reservoir model. The characteristics of the pressure transient behavior and the sensitivities of corresponding parameters have also been discussed. In addition, an interpretation approach for pressure transient testing is also proposed, in which the Gravitational Search Algorithm is employed as a non-linear regression technology to match measured pressure with this hybrid model. Examples of applications from different oilfields are also presented to illustrate this method. This cost-effective approach provides more accurate characterization of a preferential flow path with non-Darcy flow, which will lay a solid foundation for the design and operation of conformance control treatments, as well as several other Enhanced Oil Recovery projects. PMID:24386224

Integration of Multi-Tension Permeametry and Photogrammetric Textural Segmentation for Estimating Directional Permeability

DTIC Science & Technology

2010-04-01

this heterogeneity, for the purpose of predicting water flow and reactive transport behavior at the field scale, has proven quite difficult. This...potential (soil water pressure) at the outlet and at offset points in response injections at different inlet pressure heads. 13 Task 2: Development...preferential pathways (Wu et al., 1993). A viable solution to this problem is to supply water under tension using an inflatable borehole

Near-Vent, Fissure-Fed Lava Channel Network Morphologies in the Kīlauea December 1974 Flow: Implications for Differentiating Lava Construction From Fluvial Erosion on Planets

NASA Astrophysics Data System (ADS)

Bleacher, J. E.

2015-12-01

Streamlined islands are often assumed to be the product of erosion by water and are cited as evidence of aqueous flows on Mars. However, lava can build streamlined islands in a manner that is more easily explained by flow thickening followed by partial drainage of preferred lava pathways. Kīlauea's December 1974 (D1974) flow was emplaced as a broad sheet-like flow from a series of en echelon fissures across an older hummocky pāhoehoe tumulus field. The lavas surrounded the tumuli and coalesced to fill a topographic low near the basal scarp of the Koae Fault System. As these obstacles were inundated by the D1974 flow, the lava preferentially cooled around the tumuli to form a higher viscosity zone beneath a smooth crust. Stagnation of these thinner, cooler, and more viscous zones focused the flow into a series of preferred lava pathways located between the stagnant islands. Changes in the local discharge rate disrupted the crust of the flow above the lower viscosity pathways. Older tumuli adjacent to the D1974 flow display the same relief as the flow's islands and uncovered portions of this older flow are exposed at the tops of many islands, supporting an interpretation that islands were anchored by high-standing pre-flow tumuli. As the local lava supply waned, partial drainage of the preferred pathways occurred between the higher-standing surfaces anchored to the older tumuli. The resulting morphology consists of a relatively smooth flow field with thin margins that is dissected by depressed pathways or channels. This morphology resembles an erosional surface incised into a smooth plain, but actually represents an initial constructional process followed by partial drainage within a viscous lava flow. Many other Hawaiian rift zone, fissure-fed flow fields display comparable morphologies in the near vent facies, including islands, terraces, thin flow margins and a lack of well defined topographic levees along channels. Thus, branching channel networks and streamlined islands within fissure-fed flow fields on Mars could have resulted from a combination of initial flow thickening followed by partial drainage of preferred lava pathways, and therefore do not necessarily imply substrate erosion or modification by fluvial processes.

Conceptualization of preferential flow for hillslope stability assessment

NASA Astrophysics Data System (ADS)

Kukemilks, Karlis; Wagner, Jean-Frank; Saks, Tomas; Brunner, Philip

2018-03-01

This study uses two approaches to conceptualize preferential flow with the goal to investigate their influence on hillslope stability. Synthetic three-dimensional hydrogeological models using dual-permeability and discrete-fracture conceptualization were subsequently integrated into slope stability simulations. The slope stability simulations reveal significant differences in slope stability depending on the preferential flow conceptualization applied, despite similar small-scale hydrogeological responses of the system. This can be explained by a local-scale increase of pore-water pressures observed in the scenario with discrete fractures. The study illustrates the critical importance of correctly conceptualizing preferential flow for slope stability simulations. It further demonstrates that the combination of the latest generation of physically based hydrogeological models with slope stability simulations allows for improvement to current modeling approaches through more complex consideration of preferential flow paths.

Hydraulic and geochemical framework of the Idaho National Engineering and Environmental Laboratory vadose zone

USGS Publications Warehouse

Nimmo, John R.; Rousseau, Joseph P.; Perkins, Kim S.; Stollenwerk, Kenneth G.; Glynn, Pierre D.; Bartholomay, Roy C.; Knobel, LeRoy L.

2004-01-01

Questions of major importance for subsurface contaminant transport at the Idaho National Engineering and Environmental Laboratory (INEEL) include (i) travel times to the aquifer, both average or typical values and the range of values to be expected, and (ii) modes of contaminant transport, especially sorption processes. The hydraulic and geochemical framework within which these questions are addressed is dominated by extreme heterogeneity in a vadose zone and aquifer consisting of interbedded basalts and sediments. Hydraulically, major issues include diverse possible types of flow pathways, extreme anisotropy, preferential flow, combined vertical and horizontal flow, and temporary saturation or perching. Geochemically, major issues include contaminant mobility as influenced by redox conditions, the concentration of organic and inorganic complexing solutes and other local variables, the interaction with infiltrating waters and with the contaminant source environment, and the aqueous speciation of contaminants such as actinides. Another major issue is the possibility of colloid transport, which inverts some of the traditional concepts of mobility, as sorbed contaminants on mobile colloids may be transported with ease compared with contaminants that are not sorbed. With respect to the goal of minimizing aquifer concentrations of contaminants, some characteristics of the vadose zone are essentially completely favorable. Examples include the great thickness (200 m) of the vadose zone, and the presence of substantial quantities of fine sediments that can retard contaminant transport both hydraulically and chemically. Most characteristics, however, have both favorable and unfavorable aspects. For example, preferential flow, as promoted by several notable features of the vadose zone at the INEEL, can provide fast, minimally sorbing pathways for contaminants to reach the aquifer easily, but it also leads to a wide dispersal of contaminants in a large volume of subsurface material, thus increasing the opportunity for dilution and sorption.

Can we model solute transfer in heterogeneous soils with MIM model?

NASA Astrophysics Data System (ADS)

Ben Slimene, Erij; Lassabatere, Laurent; Winiarski, Thierry; Gourdon, Remy

2017-04-01

The fate of pollutants in the vadose zone must be understood, in particular, underneath infiltration basins for an optimum management of these plants. Stormwaters carry pollutants (heavy metals, organics, emerging pollutant like nanoparticles, etc.) and thus constitute a risk for groundwater and soil quality. Most infiltration basins are settled over highly permeable soils that exhibit a strong lithological heterogeneity. The impact of such lithological heterogeneity on flow and solute transfer has already been questioned. Previous studies have already proved that lithological heterogeneity was prone to the establishment of preferential flows. In more details, the concomitance of several materials with contrasting hydraulic properties induces funneled flow at the interfaces between less permeable and more permeable lithofacies. Solutes are then carried by water fluxes quickly along preferential flow pathways and have restricted access to zones far from these pathways. It can clearly be imagined that such pattern could be modeled by a MIM model postulating water fraction into two fractions, one mobile and the other immobile, with solute transport by convection and dispersion in mobile water fraction and solute diffusion at the interface between mobile and immobile water fractions. The application of MIM approach to the case of solute transport in strongly heterogeneous soils may be quite advantageous: simplification of the problem, fewer parameters, ease of modeling, numerical computation, gain in computation time, etc. However, such consistency has never been investigated in details. In this paper, we focus on the possibility to model solute transport in a strongly heterogeneous deposit using MIM model. The deposit has been the subject of intensive campaigns of characterization of its lithology and the hydraulic and hydrodispersive properties of its lithofacies. Numerical computations were performed for a section of deposit 13.5 m wide and 2.5 m deep. Numerical results clearly showed the establishment of preferential flows with funneling mostly under unsaturated conditions. Solute elution at 2.5 m depth was characterized and discussed as a function of solute reactivity. Solutes breakthrough curves show clear evidence of MIM like pattern. In this paper, we clearly demonstrate that MIM model accurately reproduces solute elution at 2.5m depths but also at different depths. MIM approach accuracy is ensured provided that related parameters are optimized as a function of depth, hydric and hydraulic conditions and the contrast in hydraulic parameters of the lithofacies that constitute the deposit.

Preferential flow across scales: how important are plot scale processes for a catchment scale model?

NASA Astrophysics Data System (ADS)

Glaser, Barbara; Jackisch, Conrad; Hopp, Luisa; Klaus, Julian

2017-04-01

Numerous experimental studies showed the importance of preferential flow for solute transport and runoff generation. As a consequence, various approaches exist to incorporate preferential flow in hydrological models. However, few studies have applied models that incorporate preferential flow at hillslope scale and even fewer at catchment scale. Certainly, one main difficulty for progress is the determination of an adequate parameterization for preferential flow at these spatial scales. This study applies a 3D physically based model (HydroGeoSphere) of a headwater region (6 ha) of the Weierbach catchment (Luxembourg). The base model was implemented without preferential flow and was limited in simulating fast catchment responses. Thus we hypothesized that the discharge performance can be improved by utilizing a dual permeability approach for a representation of preferential flow. We used the information of bromide irrigation experiments performed on three 1m2 plots to parameterize preferential flow. In a first step we ran 20.000 Monte Carlo simulations of these irrigation experiments in a 1m2 column of the headwater catchment model, varying the dual permeability parameters (15 variable parameters). These simulations identified many equifinal, yet very different parameter sets that reproduced the bromide depth profiles well. Therefore, in the next step we chose 52 parameter sets (the 40 best and 12 low performing sets) for testing the effect of incorporating preferential flow in the headwater catchment scale model. The variability of the flow pattern responses at the headwater catchment scale was small between the different parameterizations and did not coincide with the variability at plot scale. The simulated discharge time series of the different parameterizations clustered in six groups of similar response, ranging from nearly unaffected to completely changed responses compared to the base case model without dual permeability. Yet, in none of the groups the simulated discharge response clearly improved compared to the base case. Same held true for some observed soil moisture time series, although at plot scale the incorporation of preferential flow was necessary to simulate the irrigation experiments correctly. These results rejected our hypothesis and open a discussion on how important plot scale processes and heterogeneities are at catchment scale. Our preliminary conclusion is that vertical preferential flow is important for the irrigation experiments at the plot scale, while discharge generation at the catchment scale is largely controlled by lateral preferential flow. The lateral component, however, was already considered in the base case model with different hydraulic conductivities in different soil layers. This can explain why the internal behavior of the model at single spots seems not to be relevant for the overall hydrometric catchment response. Nonetheless, the inclusion of vertical preferential flow improved the realism of internal processes of the model (fitting profiles at plot scale, unchanged response at catchment scale) and should be considered depending on the intended use of the model. Furthermore, we cannot exclude with certainty yet that the quantitative discharge performance at catchment scale cannot be improved by utilizing a dual permeability approach, which will be tested in parameter optimization process.

The effect of trees on preferential flow and soil infiltrability in an agroforestry parkland in semiarid Burkina Faso.

PubMed

Bargués Tobella, A; Reese, H; Almaw, A; Bayala, J; Malmer, A; Laudon, H; Ilstedt, U

2014-04-01

Water scarcity constrains the livelihoods of millions of people in tropical drylands. Tree planting in these environments is generally discouraged due to the large water consumption by trees, but this view may neglect their potential positive impacts on water availability. The effect of trees on soil hydraulic properties linked to groundwater recharge is poorly understood. In this study, we performed 18 rainfall simulations and tracer experiments in an agroforestry parkland in Burkina Faso to investigate the effect of trees and associated termite mounds on soil infiltrability and preferential flow. The sampling points were distributed in transects each consisting of three positions: (i) under a single tree, (ii) in the middle of an open area, and (iii) under a tree associated with a termite mound. The degree of preferential flow was quantified through parameters based on the dye infiltration patterns, which were analyzed using image analysis of photographs. Our results show that the degree of preferential flow was highest under trees associated with termite mounds, intermediate under single trees, and minimal in the open areas. Tree density also had an influence on the degree of preferential flow, with small open areas having more preferential flow than large ones. Soil infiltrability was higher under single trees than in the open areas or under trees associated with a termite mound. The findings from this study demonstrate that trees have a positive impact on soil hydraulic properties influencing groundwater recharge, and thus such effects must be considered when evaluating the impact of trees on water resources in drylands. Trees in dryland landscapes increase soil infiltrability and preferential flow Termite mounds in association with trees further enhance preferential flow.

The effect of trees on preferential flow and soil infiltrability in an agroforestry parkland in semiarid Burkina Faso

PubMed Central

Bargués Tobella, A; Reese, H; Almaw, A; Bayala, J; Malmer, A; Laudon, H; Ilstedt, U

2014-01-01

Water scarcity constrains the livelihoods of millions of people in tropical drylands. Tree planting in these environments is generally discouraged due to the large water consumption by trees, but this view may neglect their potential positive impacts on water availability. The effect of trees on soil hydraulic properties linked to groundwater recharge is poorly understood. In this study, we performed 18 rainfall simulations and tracer experiments in an agroforestry parkland in Burkina Faso to investigate the effect of trees and associated termite mounds on soil infiltrability and preferential flow. The sampling points were distributed in transects each consisting of three positions: (i) under a single tree, (ii) in the middle of an open area, and (iii) under a tree associated with a termite mound. The degree of preferential flow was quantified through parameters based on the dye infiltration patterns, which were analyzed using image analysis of photographs. Our results show that the degree of preferential flow was highest under trees associated with termite mounds, intermediate under single trees, and minimal in the open areas. Tree density also had an influence on the degree of preferential flow, with small open areas having more preferential flow than large ones. Soil infiltrability was higher under single trees than in the open areas or under trees associated with a termite mound. The findings from this study demonstrate that trees have a positive impact on soil hydraulic properties influencing groundwater recharge, and thus such effects must be considered when evaluating the impact of trees on water resources in drylands. Key Points Trees in dryland landscapes increase soil infiltrability and preferential flow Termite mounds in association with trees further enhance preferential flow PMID:25641996

Balancing practicality and hydrologic realism: a parsimonious approach for simulating rapid groundwater recharge via unsaturated-zone preferential flow

USGS Publications Warehouse

Mirus, Benjamin B.; Nimmo, J.R.

2013-01-01

The impact of preferential flow on recharge and contaminant transport poses a considerable challenge to water-resources management. Typical hydrologic models require extensive site characterization, but can underestimate fluxes when preferential flow is significant. A recently developed source-responsive model incorporates film-flow theory with conservation of mass to estimate unsaturated-zone preferential fluxes with readily available data. The term source-responsive describes the sensitivity of preferential flow in response to water availability at the source of input. We present the first rigorous tests of a parsimonious formulation for simulating water table fluctuations using two case studies, both in arid regions with thick unsaturated zones of fractured volcanic rock. Diffuse flow theory cannot adequately capture the observed water table responses at both sites; the source-responsive model is a viable alternative. We treat the active area fraction of preferential flow paths as a scaled function of water inputs at the land surface then calibrate the macropore density to fit observed water table rises. Unlike previous applications, we allow the characteristic film-flow velocity to vary, reflecting the lag time between source and deep water table responses. Analysis of model performance and parameter sensitivity for the two case studies underscores the importance of identifying thresholds for initiation of film flow in unsaturated rocks, and suggests that this parsimonious approach is potentially of great practical value.

Which key properties controls the preferential transport in the vadose zone under transient hydrological conditions

NASA Astrophysics Data System (ADS)

Groh, J.; Vanderborght, J.; Puetz, T.; Gerke, H. H.; Rupp, H.; Wollschlaeger, U.; Stumpp, C.; Priesack, E.; Vereecken, H.

2015-12-01

Understanding water flow and solute transport in the unsaturated zone is of great importance for an appropriate land use management strategy. The quantification and prediction of water and solute fluxes through the vadose zone can help to improve management practices in order to limit potential risk on our fresh water resources. Water related solute transport and residence time is strongly affected by preferential flow paths in the soil. Water flow in soils depends on soil properties and site factors (climate or experiment conditions, land use) and are therefore important factors to understand preferential solute transport in the unsaturated zone. However our understanding and knowledge of which on-site properties or conditions define and enhance preferential flow and transport is still poor and mostly limited onto laboratory experimental conditions (small column length and steady state boundary conditions). Within the TERENO SOILCan lysimeter network, which was designed to study the effects of climate change on soil functions, a bromide tracer was applied on 62 lysimeter at eight different test sites between Dec. 2013 and Jan. 2014. The TERENO SOILCan infrastructure offers the unique possibility to study the occurrence of preferential flow and transport of various soil types under different natural transient hydrological conditions and land use (crop, bare and grassland) at eight TERENO SOILCan observatories. Working with lysimeter replicates at each observatory allows defining the spatial variability of preferential transport and flow. Additionally lysimeters in the network were transferred within and between observatories in order to subject them to different rainfall and temperature regimes and enable us to relate the soil type susceptibility of preferential flow and transport not only to site specific physical and land use properties, but also to different transient boundary conditions. Comparison and statistical analysis between preferential flow indicators 5% arrival time and potential key soil properties, site factors and boundary conditions will be presented in order to identify key properties which control the preferential transport in the vadose zone under transient hydrological conditions.

CCK receptors-related signaling involved in nitric oxide production caused by gastrin 17 in porcine coronary endothelial cells.

PubMed

Grossini, Elena; Caimmi, Philippe; Molinari, Claudio; Uberti, Francesca; Mary, David; Vacca, Giovanni

2012-03-05

In anesthetized pigs gastrin-17 increased coronary blood flow through CCK1/CCK2 receptors and β(2)-adrenoceptors-related nitric oxide (NO) release. Since the intracellular pathway has not been investigated the purpose of this study was to examine in coronary endothelial cells the CCK1/CCK2 receptors-related signaling involved in the effects of gastrin-17 on NO release. Gastrin-17 caused a concentration-dependent increase of NO production (17.3-62.6%; p<0.05), which was augmented by CCK1/CCK2 receptors agonists (p<0.05). The effect of gastrin-17 was amplified by the adenylyl-cyclase activator and β(2)-adrenoceptors agonist (p<0.05), abolished by cAMP/PKA and β(2)-adrenoceptors and CCK1/CCK2 receptors blockers, and reduced by PLC/PKC inhibitor. Finally, Western-blot revealed the preferential involvement of PKA vs. PKC as downstream effectors of CCK1/CCK2 receptors activation leading to Akt, ERK, p38 and endothelial NOS (eNOS) phosphorylation. In conclusion, in coronary endothelial cells, gastrin-17 induced eNOS-dependent NO production through CCK1/CCK2 receptors- and β(2)-adrenoceptors-related pathway. The intracellular signaling involved a preferential PKA pathway over PKC. Copyright © 2011 Elsevier Ireland Ltd. All rights reserved.

Preferential flow in the vadose zone and interface dynamics: Impact of microbial exudates

NASA Astrophysics Data System (ADS)

Li, Biting; Pales, Ashley R.; Clifford, Heather M.; Kupis, Shyla; Hennessy, Sarah; Liang, Wei-Zhen; Moysey, Stephen; Powell, Brian; Finneran, Kevin T.; Darnault, Christophe J. G.

2018-03-01

In the hydrological cycle, the infiltration process is a critical component in the distribution of water into the soil and in the groundwater system. The nonlinear dynamics of the soil infiltration process yield preferential flow which affects the water distribution in soil. Preferential flow is influenced by the interactions between water, soil, plants, and microorganisms. Although the relationship among the plant roots, their rhizodeposits and water transport in soil has been the subject of extensive study, the effect of microbial exudates has been studied in only a few cases. Here the authors investigated the influence of two artificial microbial exudates-catechol and riboflavin-on the infiltration process, particularly unstable fingered flow, one form of preferential flow. Flow experiments investigating the effects of types and concentrations of microbial exudates on unstable fingered flow were conducted in a two-dimensional tank that was filled with ASTM

Geo-Hydro Statistical Characterization of Preferential Flow and Transport Processes in Karst Groundwater Systems

NASA Astrophysics Data System (ADS)

Anaya, A. A.; Padilla, I. Y.; Macchiavelli, R. E.

2011-12-01

Karst groundwater systems are highly productive and provide an important fresh water resource for human development and ecological integrity. Their high productivity is often associated with conduit flow and high matrix permeability. The same characteristics that make these aquifers productive also make them highly vulnerable to contamination and a likely for contaminant exposure. Of particular interest are chlorinated organic contaminants and phthalates derived from industrial solvents and plastic by-products. These chemicals have been identified as potential precursors of pre-term birth, a leading cause of neonatal complications with a significant health and societal cost. The general objectives of this work are to: (1) develop fundamental knowledge and determine the processes controlling the release, mobility, persistence, and possible pathways of contaminants in karst groundwater systems, and (2) characterize transport processes in conduit and diffusion-dominated flow under base flow and storm flow conditions. The work presented herein focuses on the development of geo-hydro statistical tools to characterize flow and transport processes under different flow regimes. Multidimensional, laboratory-scale Geo-Hydrobed models were developed and tested for this purpose. The models consist of stainless-steel tanks containing karstified limestone blocks collected from the karst aquifer formation of northern Puerto Rico. The models a network of sampling wells to monitor flow, pressure, and solute concentrations temporally and spatially. Experimental work entailed making a series of point injections in wells while monitoring the hydraulic response in other wells. Statistical mixed models were applied to spatial probabilities of hydraulic response and weighted injected volume data, and were used to determinate the best spatial correlation structure to represent paths of preferential flow in the limestone units under different groundwater flow regimes. Preliminary testing of the karstified models show that the system can be used to represent the variable transport regime characterized by conduit and diffuses flow in the karst systems. Initial hydraulic characterization indicates a highly heterogeneous system resulting in large preferential flow components. Future works involve characterization of dual porosity system using conservative tracers, fate and transport experiments using phthalates and chlorinated solvents, geo-temporal statistical modeling, and the testing of "green" remediation technologies in karst groundwater. This work is supported by the U.S. Department of Energy, Savannah River (Grant Award No. DE-FG09-07SR22571), and the National Institute of Environmental Health Sciences (NIEHS, Grant Award No. P42ES017198).

Temporal and Spatial Patterns of Preferential Flow Occurrence in the Shale Hills Catchment: From the Hillslope to the Catchment Scales

NASA Astrophysics Data System (ADS)

Liu, H.; Lin, H.

2013-12-01

Understanding temporal and spatial patterns of preferential flow (PF) occurrence is important in revealing hillslope and catchment hydrologic and biogeochemical processes. Quantitative assessment of the frequency and control of PF occurrence in the field, however, has been limited, especially at the landscape scale of hillslope and catchment. By using 5.5-years' (2007-2012) real-time soil moisture at 10 sites response to 323 precipitation events, we tested the temporal consistency of PF occurrence at the hillslope scale in the forested Shale Hills Catchment; and by using 25 additional sites with at least 1-year data (2011-2012), we evaluated the spatial patterns of PF occurrence across the catchment. To explore the potential effects of PF occurrence on catchment hydrology, wavelet analysis was performed on the recorded time series of hydrological signals (i.e., precipitation, soil moisture, catchment discharge). Considerable temporal consistence was observed in both the frequency and the main controls of PF occurrence at the hillslope scale, which was attributed largely to the statistical stability of precipitation pattern over the monitoring period and the relatively stable subsurface preferential pathways. Preferential flow tended to occur more often in response to intense rainfall events, and favored the conditions at dry hilltop or wet valley floor sites. When upscaling to the entire catchment, topographic control on the PF occurrence was amplified remarkably, leading to the identification of a subsurface PF network in the catchment. Higher frequency of PF occurrence was observed at the valley floor (average 48%), hilltop (average 46%), and swales/hillslopes near the stream (average 40%), while the hillslopes in the eastern part of the catchment were least likely to experience PF (0-20%). No clear relationship, however, was observed between terrain attributes and PF occurrence, because the initiation and persistency of PF in this catchment was controlled jointly by complex interactions among landform units, soil types, initial soil moisture, precipitation features, and season. Through the wavelet method (coherence spectrum and phase differences), dual-pore filtering effects of soil system were proven, rendering it possible to further infer characteristic properties of the underlying hydrological processes in the subsurface. We found that preferential flow dominates the catchment discharge response at short-time periods (< 3 days), while the matrix flow may dominate the discharge response at the time scales of around 10-12 days. The temporal and spatial patterns of PF occurrence revealed in this study can help advance the modeling and prediction of complex PF dynamics in this and other similar landscapes.

Modeling preferential water flow and solute transport in unsaturated soil using the active region model

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

Sheng, F.; Wang, K.; Zhang, R.

2009-03-15

Preferential flow and solute transport are common processes in the unsaturated soil, in which distributions of soil water content and solute concentrations are often characterized as fractal patterns. An active region model (ARM) was recently proposed to describe the preferential flow and transport patterns. In this study, ARM governing equations were derived to model the preferential soil water flow and solute transport processes. To evaluate the ARM equations, dye infiltration experiments were conducted, in which distributions of soil water content and Cl{sup -} concentration were measured. Predicted results using the ARM and the mobile-immobile region model (MIM) were compared withmore » the measured distributions of soil water content and Cl{sup -} concentration. Although both the ARM and the MIM are two-region models, they are fundamental different in terms of treatments of the flow region. The models were evaluated based on the modeling efficiency (ME). The MIM provided relatively poor prediction results of the preferential flow and transport with negative ME values or positive ME values less than 0.4. On the contrary, predicted distributions of soil water content and Cl- concentration using the ARM agreed reasonably well with the experimental data with ME values higher than 0.8. The results indicated that the ARM successfully captured the macroscopic behavior of preferential flow and solute transport in the unsaturated soil.« less

Are preferential flow paths perpetuated by microbial activity in the soil matrix? A review

NASA Astrophysics Data System (ADS)

Morales, Verónica L.; Parlange, J.-Yves; Steenhuis, Tammo S.

2010-10-01

SummaryRecently, the interactions between soil structure and microbes have been associated with water transport, retention and preferential or column flow development. Of particular significance is the potential impact of microbial extracellular polymeric substances (EPS) on soil porosity (i.e., hydraulic conductivity reduction or bioclogging) and of exudates from biota, including bacteria, fungi, roots and earthworms on the degree of soil water repellency. These structural and surface property changes create points of wetting instability, which under certain infiltrating conditions can often result in the formation of persistent preferential flow paths. Moreover, distinct differences in physical and chemical properties between regions of water flow (preferential flow paths) and no-flow (soil matrix) provide a unique set of environmental living conditions for adaptable microorganisms to exist. In this review, special consideration is given to: (1) the functional significance of microbial activity in the host porous medium in terms of feedback mechanisms instigated by irregular water availability and (2) the related physical and chemical conditions that force the organization and formation of unique microbial habitats in unsaturated soils that prompt and potentially perpetuate the formation of preferential flow paths in the vadose zone.

Impact of rainfall intensity on the transport of two herbicides in undisturbed grassed filter strip soil cores

NASA Astrophysics Data System (ADS)

Pot, V.; Šimůnek, J.; Benoit, P.; Coquet, Y.; Yra, A.; Martínez-Cordón, M.-J.

2005-12-01

Two series of displacement experiments with isoproturon and metribuzin herbicides were performed on two undisturbed grassed filter strip soil cores, under unsaturated steady-state flow conditions. Several rainfall intensities (0.070, 0.147, 0.161, 0.308 and 0.326 cm h - 1 ) were used. A water tracer (bromide) was simultaneously injected in each displacement experiment. A descriptive analysis of experimental breakthrough curves of bromide and herbicides combined with a modeling analysis showed an impact of rainfall intensity on the solute transport. Two contrasting physical non-equilibrium transport processes occurred. Multiple (three) porosity domains contributed to flow at the highest rainfall intensities, including preferential flow through macropore pathways. Macropores were not active any longer at intermediate and lowest velocities, and the observed preferential transport was described using dual-porosity-type models with a zero or low flow in the matrix domain. Chemical non-equilibrium transport of herbicides was found at all rainfall intensities. Significantly higher estimated values of degradation rate parameters as compared to batch data were correlated with the degree of non-equilibrium sorption. Experimental breakthrough curves were analyzed using different physical and chemical equilibrium and non-equilibrium transport models: convective-dispersive model (CDE), dual-porosity model (MIM), dual-permeability model (DP), triple-porosity, dual permeability model (DP-MIM); each combined with both chemical instantaneous and kinetic sorption.

Sampling silica and ferrihydrite colloids with fiberglass wicks under unsaturated conditions.

PubMed

Shira, Jason M; Williams, Barbara C; Flury, Markus; Czigány, Szabolcs; Tuller, Markus

2006-01-01

The suitability of passive capillary samplers (PCAPS) for collection of representative colloid samples under partially saturated conditions was evaluated by investigating the transport of negatively and positively charged colloids in fiberglass wicks. A synthetic pore water solution was used to suspend silica microspheres (330 nm in diameter) and ferrihydrite (172 nm in diameter) for transport experiments on fiberglass wicks. Breakthrough curves were collected for three unsaturated flow rates with silica microspheres and one unsaturated flow rate with ferrihydrite colloids. A moisture characteristic curve, relating tensiometer measurements of matric potential to moisture content, was developed for the fiberglass wick. Results indicate that retention of the silica and the ferrihydrite on the wick occurred; that is, the wicks did not facilitate quantitative sampling of the colloids. For silica microspheres, 90% of the colloids were transmitted through the wicks. For ferrihydrite, 80 to 90% of the colloids were transmitted. The mechanisms responsible for the retention of the colloids on the fiberglass wicks appeared to be physicochemical attachment and not thin-film, triple-phase entrapment, or mechanical straining. Visualization of pathways by iron staining indicates that flow is preferential at the center of twisted bundles of filaments. Although axial preferential flow in PCAPS may enhance their hydraulic suitability for sampling mobile colloids, we conclude that without specific preparation to reduce attachment or retention, fiberglass wicks should only be used for qualitative sampling of pore water colloids.

Characterization of Preferential Flow Path in Fractured Rock Using Heat-pulse Flowmeter

NASA Astrophysics Data System (ADS)

Lee, Tsai-Ping; Lin, Ming-Hsuan; Chuang, Po-Yu; Chia, Yeeping

2015-04-01

Rigorous thinking on how to dispose radioactive wastes safely is essential to mankind and living environment. The concepts of multiple barriers and deep geologic disposal remain the preferred option to retard the radionuclide migration in most countries. However, the investigation of preferential groundwater flow path in a fractured rock is a challenge to the characterization of potential disposal site. Heat-pulse flowmeter is a developing logging tool for measuring the vertical flow velocity in a borehole under a constant pumping or injection rate and provides a promising direct measurement method for determining the vertical distribution of hydraulic conductivity of formation. As heat-pulse flowmeter is a potential technique to measure low-velocity borehole flow, we adopted it to test the feasibility of detecting permeable fractures. Besides, a new magnetic tracer made by nano-iron particles is developed to identify the possible flow path precisely and to verify the permeable section detected by the heat-pulse flowmeter. The magnetic tracer was received by a magnet array and can also be detected by a sensor of electric conductivity. The test site is located in the Heshe of Taiwan. Eight wells were established in a fractured sandy siltstone for characterizing the fracture network. The test wells are 25 to 45 m depth and opened ranging from 15 to 45 m. Prior to the heat-pulse flowmeter measurement, we also performed surface geological investigation, pumping test, geophysical logging, and salt tracer test. Field measurements using heat-pulse flowmeter were then conducted at a constant pumping rate. The measurement interval is 50 to 100 cm in depth but improved to 25 cm near the relatively permeable zone. Based on the results of heat-pulse flowmeter, several permeable sections were identified. The magnetic tracer tests were then conducted to verify the potential preferential flow pathway between adjacent wells. Test results indicated that water flow in borehole is produced primarily from a few fractures. However, the large aperture and high density of fractures did not certainly correlate well to the permeable section. Integration of heat-pulse flowmeter measurement with other in-situ tests, it is possible to identify the exact location of the highly permeable fractures.

Preliminary Test Results of Heshe Hydrogeological Experimental Well Station in Taiwan

NASA Astrophysics Data System (ADS)

Chuang, P.; Liu, C.; Lin, M.; Chan, W.; Lee, T.; Chia, Y.; Teng, M.; Liu, C.

2013-12-01

Safe disposal of radioactive waste is a critical issue for the development of nuclear energy. The design of final disposal system is based on the concept of multiple barriers which integrate the natural barriers and engineering barriers for long-term isolation of radioactive wastes. As groundwater is the major medium that can transport radionuclides to our living environment, it is essential to characterize groundwater flow at the disposal site. Taiwan is located at the boundary between the Eurasian plate and the Philippine Sea plate. Geologic formations are often fractured due to tectonic compression and extension. In this study, a well station for the research and development of hydrogeological techniques was established at the Experimental Forest of the National Taiwan University in central Taiwan. There are 10 testing wells, ranging in depth from 25 m to 100 m, at the station. The bedrock beneath the regolith is highly fractured mudstone. As fracture is the preferential pathway of the groundwater flow, the focus of in-situ tests is to investigate the location of permeable fractures and the connection of permeable fractures. Several field tests have been conducted, including geophysical logging, heat-pulse flowmeter, hydraulic test, tracer test and double packer test, for the development of advanced technologies to detect the preferential groundwater flow in fractured rocks.

How does the wetting dynamics affect capillary trapping in heterogeneous soil: Neutron imaging study

NASA Astrophysics Data System (ADS)

Sacha, Jan; Snehota, Michal; Trtik, Pavel; Vontobel, Peter

2017-04-01

The wetting dynamics of the water infiltration into a porous soil system has a strong influence on the amount of entrapped air inside the soil. Simultaneously, a higher volume of entrapped air obstructs a water flow in the medium. This effect is more noticeable in soils with preferential pathways because the soil matrix has a higher capillary forces and therefore the air is accumulated in preferential pathways. In the presented study, two experiments were conducted on the same sample. The first experiment was performed under the constant water level condition (CWL) and the second experiment was carried out under the constant water flux condition (CWF) at the top of the sample. The sample was composed of coarse and medium coarse fractions of sand and fine porous ceramics. Materials were packed into the quartz glass column of the inner diameter of 29 mm. The coarse sand represented a highly conductive region connected from the top to the bottom of the sample with the exception of three thin (2-3 mm) separation layers made up of the medium coarse sand. Three discs of fine ceramics formed slow flow regions. Infiltration experiments were monitored by neutron radiography at two different beamlines to produce two-dimensional (2D) projections. The CWL experiment was monitored at NEUTRA station with an acquisition time of 16 seconds per projection and the CWF experiment was visualized at BOA station with an acquisition time of 0.25 seconds per projection. Both stations are located at the Paul Scherrer Institut, Switzerland. The acquired radiograms of the dry sample were subtracted from all subsequent radiograms to determine the water thickness in projections. From series of corrected radiograms taken at the different angles three-dimensional (3D) image was reconstructed for steady state stage of the CWL experiment and for the entire CWF experiment. Then the series of 3D images mapped the wetting of the porous system over the corresponding phase of infiltration process. The results show a higher steady state infiltration rate during the CWL experiment. In this case, the air was mostly pushed out from the sample by the moving wetting front. The infiltration rate was continuously decreasing during the infiltration up to the value of steady state infiltration rate. When the wetting front has reached the bottom of the sample the air was moving from matrix domain to preferential domain. Infiltration rate was still higher than during CWF. On the contrary, during the CWF the water infiltrated into the fine ceramics first and then into the medium coarse sand attracted by forces that were stronger in comparison to the coarse sand. Due to this effect a significant amount of air was trapped in preferential pathways, and consequently blocked the water flow primarily due to the presence of medium coarse sand regions.

Current challenges in quantifying preferential flow through the vadose zone

NASA Astrophysics Data System (ADS)

Koestel, John; Larsbo, Mats; Jarvis, Nick

2017-04-01

In this presentation, we give an overview of current challenges in quantifying preferential flow through the vadose zone. A review of the literature suggests that current generation models do not fully reflect the present state of process understanding and empirical knowledge of preferential flow. We believe that the development of improved models will be stimulated by the increasingly widespread application of novel imaging technologies as well as future advances in computational power and numerical techniques. One of the main challenges in this respect is to bridge the large gap between the scales at which preferential flow occurs (pore to Darcy scales) and the scale of interest for management (fields, catchments, regions). Studies at the pore scale are being supported by the development of 3-D non-invasive imaging and numerical simulation techniques. These studies are leading to a better understanding of how macropore network topology and initial/boundary conditions control key state variables like matric potential and thus the strength of preferential flow. Extrapolation of this knowledge to larger scales would require support from theoretical frameworks such as key concepts from percolation and network theory, since we lack measurement technologies to quantify macropore networks at these large scales. Linked hydro-geophysical measurement techniques that produce highly spatially and temporally resolved data enable investigation of the larger-scale heterogeneities that can generate preferential flow patterns at pedon, hillslope and field scales. At larger regional and global scales, improved methods of data-mining and analyses of large datasets (machine learning) may help in parameterizing models as well as lead to new insights into the relationships between soil susceptibility to preferential flow and site attributes (climate, land uses, soil types).

Preferential flow from pore to landscape scales

NASA Astrophysics Data System (ADS)

Koestel, J. K.; Jarvis, N.; Larsbo, M.

2017-12-01

In this presentation, we give a brief personal overview of some recent progress in quantifying preferential flow in the vadose zone, based on our own work and those of other researchers. One key challenge is to bridge the gap between the scales at which preferential flow occurs (i.e. pore to Darcy scales) and the scales of interest for management (i.e. fields, catchments, regions). We present results of recent studies that exemplify the potential of 3-D non-invasive imaging techniques to visualize and quantify flow processes at the pore scale. These studies should lead to a better understanding of how the topology of macropore networks control key state variables like matric potential and thus the strength of preferential flow under variable initial and boundary conditions. Extrapolation of this process knowledge to larger scales will remain difficult, since measurement technologies to quantify macropore networks at these larger scales are lacking. Recent work suggests that the application of key concepts from percolation theory could be useful in this context. Investigation of the larger Darcy-scale heterogeneities that generate preferential flow patterns at the soil profile, hillslope and field scales has been facilitated by hydro-geophysical measurement techniques that produce highly spatially and temporally resolved data. At larger regional and global scales, improved methods of data-mining and analyses of large datasets (machine learning) may help to parameterize models as well as lead to new insights into the relationships between soil susceptibility to preferential flow and site attributes (climate, land uses, soil types).

Rapid runoff via shallow throughflow and deeper preferential flow in a boreal catchment underlain by frozen silt (Alaska, USA)

USGS Publications Warehouse

Koch, Joshua C.; Ewing, Stephanie A.; Striegl, Robert G.; McKnight, Diane M.

2013-01-01

In high-latitude catchments where permafrost is present, runoff dynamics are complicated by seasonal active-layer thaw, which may cause a change in the dominant flowpaths as water increasingly contacts mineral soils of low hydraulic conductivity. A 2-year study, conducted in an upland catchment in Alaska (USA) underlain by frozen, well-sorted eolian silt, examined changes in infiltration and runoff with thaw. It was hypothesized that rapid runoff would be maintained by flow through shallow soils during the early summer and deeper preferential flow later in the summer. Seasonal changes in soil moisture, infiltration, and runoff magnitude, location, and chemistry suggest that transport is rapid, even when soils are thawed to their maximum extent. Between June and September, a shift occurred in the location of runoff, consistent with subsurface preferential flow in steep and wet areas. Uranium isotopes suggest that late summer runoff erodes permafrost, indicating that substantial rapid flow may occur along the frozen boundary. Together, throughflow and deep preferential flow may limit upland boreal catchment water and solute storage, and subsequently biogeochemical cycling on seasonal to annual timescales. Deep preferential flow may be important for stream incision, network drainage development, and the release of ancient carbon to ecosystems

Assessing the Ability of Vegetation Indices to Identify Shallow Subsurface Water Flow Pathways from Hyperspectral Imagery Using Machine Learning: Application

NASA Astrophysics Data System (ADS)

Doctor, K.; Byers, J. M.

2017-12-01

Shallow underground water flow pathways expressed as slight depressions are common in the land surface. Under conditions of saturated overland flow, such as during heavy rain or snow melt, these areas of preferential flow might appear on the surface as very shallow flowing streams. When there is no water flowing in these ephemeral channels it can be difficult to identify them. It is especially difficult to discern the slight depressions above the subsurface water flow pathways (SWFP) when the area is covered by vegetation. Since the soil moisture content in these SWFP is often greater than the surrounding area, the vegetation growing on top of these channels shows different vigor and moisture content than the vegetation growing above the non-SWFP area. Vegetation indices (VI) are used in visible and near infrared (VNIR) hyperspectral imagery to enhance biophysical properties of vegetation, and so the brightness values between vegetation atop SWFP and the surrounding vegetation were highlighted. We performed supervised machine learning using ground-truth class labels to determine the conditional probability of a SWFP at a given pixel given either the spectral distribution or VI at that pixel. The training data estimates the probability distributions to a determined finite sampling accuracy for a binary Naïve Bayes classifier between SWFP and non-SWFP. The ground-truth data provides a test bed for understanding the ability to build SWFP classifiers using hyperspectral imagery. SWFP were distinguishable in the imagery within corn and grass fields and in areas with low-lying vegetation. However, the training data is limited to particular types of terrain and vegetation cover in the Shenandoah Valley, Virginia and this would limit the resulting classifier. Further training data could extend its use to other environments.

When and where does preferential flow matter - from observation to large scale modelling

NASA Astrophysics Data System (ADS)

Weiler, Markus; Leistert, Hannes; Steinbrich, Andreas

2017-04-01

Preferential flow can be of relevance in a wide range of soils and the interaction of different processes and factors are still difficult to assess. As most studies (including our own studies) focusing on the effect of preferential flow are based on relatively high precipitation rates, there is always the question how relevant preferential flow is under natural conditions, considering the site specific precipitation characteristics, the effect of the drying and wetting cycle on the initial soil water condition and shrinkage cracks, the site specific soil properties, soil structure and rock fragments, and the effect of plant roots and soil fauna (e.g. earthworm channels). In order to assess this question, we developed the distributed, process-based model RoGeR (Runoff Generation Research) to include a large number relevant features and processes of preferential flow in soils. The model was developed from a large number of process based research and experiments and includes preferential flow in roots, earthworm channels, along rock fragments and shrinkage cracks. We parameterized the uncalibrated model at a high spatial resolution of 5x5m for the whole state of Baden-Württemberg in Germany using LiDAR data, degree of sealing, landuse, soil properties and geology. As the model is an event based model, we derived typical event based precipitation characteristics based on rainfall duration, mean intensity and amount. Using the site-specific variability of initial soil moisture derived from a water balance model based on the same dataset, we simulated the infiltration and recharge amounts of all event classes derived from the event precipitation characteristics and initial soil moisture conditions. The analysis of the simulation results allowed us to extracts the relevance of preferential flow for infiltration and recharge considering all factors above. We could clearly see a strong effect of the soil properties and land-use, but also, particular for clay rich soils a strong effect of the initial conditions due to the development of soil cracks. Not too surprisingly, the relevance of preferential flow was much lower when considering the whole range of precipitation events as only considering events with a high rainfall intensity. Also, the influence on infiltration and recharge were different. Despite the model can still be improved in particular considering more realistic information about the spatial and temporal variability of preferential flow by soil fauna and plants, the model already shows under what situation we need to be very careful when predicting infiltration and recharge with models considering only longer time steps (daily) or only matrix flow.

Brain Networks Shaping Religious Belief

PubMed Central

Deshpande, Gopikrishna; Krueger, Frank; Thornburg, Matthew P.; Grafman, Jordan Henry

2014-01-01

Abstract We previously demonstrated with functional magnetic resonance imaging (fMRI) that religious belief depends upon three cognitive dimensions, which can be mapped to specific brain regions. In the present study, we considered these co-activated regions as nodes of three networks each one corresponding to a particular dimension, corresponding to each dimension and examined the causal flow within and between these networks to address two important hypotheses that remained untested in our previous work. First, we hypothesized that regions involved in theory of mind (ToM) are located upstream the causal flow and drive non-ToM regions, in line with theories attributing religion to the evolution of ToM. Second, we hypothesized that differences in directional connectivity are associated with differences in religiosity. To test these hypotheses, we performed a multivariate Granger causality-based directional connectivity analysis of fMRI data to demonstrate the causal flow within religious belief-related networks. Our results supported both hypotheses. Religious subjects preferentially activated a pathway from inferolateral to dorsomedial frontal cortex to monitor the intent and involvement of supernatural agents (SAs; intent-related ToM). Perception of SAs engaged pathways involved in fear regulation and affective ToM. Religious beliefs are founded both on propositional statements for doctrine, but also on episodic memory and imagery. Beliefs based on doctrine engaged a pathway from Broca's to Wernicke's language areas. Beliefs related to everyday life experiences engaged pathways involved in imagery. Beliefs implying less involved SAs and evoking imagery activated a pathway from right lateral temporal to occipital regions. This pathway was more active in non-religious compared to religious subjects, suggesting greater difficulty and procedural demands for imagining and processing the intent of SAs. Insights gained by Granger connectivity analysis inform us about the causal binding of individual regions activated during religious belief processing. PMID:24279687

Brain networks shaping religious belief.

PubMed

Kapogiannis, Dimitrios; Deshpande, Gopikrishna; Krueger, Frank; Thornburg, Matthew P; Grafman, Jordan Henry

2014-02-01

We previously demonstrated with functional magnetic resonance imaging (fMRI) that religious belief depends upon three cognitive dimensions, which can be mapped to specific brain regions. In the present study, we considered these co-activated regions as nodes of three networks each one corresponding to a particular dimension, corresponding to each dimension and examined the causal flow within and between these networks to address two important hypotheses that remained untested in our previous work. First, we hypothesized that regions involved in theory of mind (ToM) are located upstream the causal flow and drive non-ToM regions, in line with theories attributing religion to the evolution of ToM. Second, we hypothesized that differences in directional connectivity are associated with differences in religiosity. To test these hypotheses, we performed a multivariate Granger causality-based directional connectivity analysis of fMRI data to demonstrate the causal flow within religious belief-related networks. Our results supported both hypotheses. Religious subjects preferentially activated a pathway from inferolateral to dorsomedial frontal cortex to monitor the intent and involvement of supernatural agents (SAs; intent-related ToM). Perception of SAs engaged pathways involved in fear regulation and affective ToM. Religious beliefs are founded both on propositional statements for doctrine, but also on episodic memory and imagery. Beliefs based on doctrine engaged a pathway from Broca's to Wernicke's language areas. Beliefs related to everyday life experiences engaged pathways involved in imagery. Beliefs implying less involved SAs and evoking imagery activated a pathway from right lateral temporal to occipital regions. This pathway was more active in non-religious compared to religious subjects, suggesting greater difficulty and procedural demands for imagining and processing the intent of SAs. Insights gained by Granger connectivity analysis inform us about the causal binding of individual regions activated during religious belief processing.

Stokes Approach to Preferential Flow at the Darcy-Scale

NASA Astrophysics Data System (ADS)

Germann, Peter; Bogner, Christina

2017-04-01

Preferential Flow in soils is fast, limited to infiltration and occupies but a small portion of porosity. However, how fast is it, how much water is involved, what is its flow rate, and how far is it carried? Supported with numerous measurements a Stokes approach to preferential flow provides the answers at the operational Darcy-scale. The approach to preferential flow in permeable media (pm) stresses momentum dissipation during viscous flow. Thus, a laminar water film percolates through a pm. The dynamic film is initially determined by the thickness F (m) and the specific contact area L (m2 m-3) per unit volume of the medium. Input to the medium's surface is a pulse with volume flux density q (ms-1) that starts and ends at times TB and TE. A specific pulse and the intrinsic properties of a pm determine F and L. A water content wave (WCW) envelops the spatio-temporal evolution of a water film. A WCW is completely described with a set of analytical relationships that are based on F, L, and the water's viscosity. The approach is an extension of Hagen-Poiseuille's law of flow in concentric conduits. It also evolves seamlessly from extending Darcy's law into non-saturated pm. Experimental determination of F and L follows either from drainage flow or from rapid soil moisture recordings during the passing of a WCW, for instance, with TDR-equipment. Parameters from numerous infiltration experiments in the field, in soil columns, in sand boxes, and lysimeters demonstrate the approach's broad applicability, thus framing the spatio-temporal extensions, velocities and volume flux densities of preferential flows. The specific contact area L is considered the locus of water, heat, particle and solute transfer between a WCW and the sessile parts of a pm. A recent analysis of delayed Br-breakthrough with respect to drainage flow supports the feasibility of the Stokes approach to preferential flow at the Darcy-scale. A perspective of modeling sequences of input pulses will conclude the presentation.

The Influence of Preferential Flow on Pressure Propagation and Landslide Triggering of the Rocca Pitigliana Landslide

NASA Astrophysics Data System (ADS)

Shao, W.; Bogaard, T.; Bakker, M.; Berti, M.; Savenije, H. H. G.

2016-12-01

The fast pore water pressure response to rain events is an important triggering factor for slope instability. The fast pressure response may be caused by preferential flow that bypasses the soil matrix. Currently, most of the hydro-mechanical models simulate pore water pressure using a single-permeability model, which cannot quantify the effects of preferential flow on pressure propagation and landslide triggering. Previous studies showed that a model based on the linear-diffusion equation can simulate the fast pressure propagation in near-saturated landslides such as the Rocca Pitigliana landslide. In such a model, the diffusion coefficient depends on the degree of saturation, which makes it difficult to use the model for predictions. In this study, the influence of preferential flow on pressure propagation and slope stability is investigated with a 1D dual-permeability model coupled with an infinite-slope stability approach. The dual-permeability model uses two modified Darcy-Richards equations to simultaneously simulate the matrix flow and preferential flow in hillslopes. The simulated pressure head is used in an infinite-slope stability analysis to identify the influence of preferential flow on the fast pressure response and landslide triggering. The dual-permeability model simulates the height and arrival of the pressure peak reasonably well. Performance of the dual-permeability model is as good as or better than the linear-diffusion model even though the dual-permeability model is calibrated for two single pulse rain events only, while the linear-diffusion model is calibrated for each rain event separately.

Quantitative framework for preferential flow initiation and partitioning

USGS Publications Warehouse

Nimmo, John R.

2016-01-01

A model for preferential flow in macropores is based on the short-range spatial distribution of soil matrix infiltrability. It uses elementary areas at two different scales. One is the traditional representative elementary area (REA), which includes a sufficient heterogeneity to typify larger areas, as for measuring field-scale infiltrability. The other, called an elementary matrix area (EMA), is smaller, but large enough to represent the local infiltrability of soil matrix material, between macropores. When water is applied to the land surface, each EMA absorbs water up to the rate of its matrix infiltrability. Excess water flows into a macropore, becoming preferential flow. The land surface then can be represented by a mesoscale (EMA-scale) distribution of matrix infiltrabilities. Total preferential flow at a given depth is the sum of contributions from all EMAs. Applying the model, one case study with multi-year field measurements of both preferential and diffuse fluxes at a specific depth was used to obtain parameter values by inverse calculation. The results quantify the preferential–diffuse partition of flow from individual storms that differed in rainfall amount, intensity, antecedent soil water, and other factors. Another case study provided measured values of matrix infiltrability to estimate parameter values for comparison and illustrative predictions. These examples give a self-consistent picture from the combination of parameter values, directions of sensitivities, and magnitudes of differences caused by different variables. One major practical use of this model is to calculate the dependence of preferential flow on climate-related factors, such as varying soil wetness and rainfall intensity.

Evaluation of the interaction between plant roots and preferential flow paths

NASA Astrophysics Data System (ADS)

Zhang, Yinghu; Niu, Jianzhi; Zhang, Mingxiang; Xiao, Zixing; Zhu, Weili

2017-04-01

Introduction Preferential flow causing environmental issues by carrying contaminants to the groundwater resources level, occurs throughout the world. Soil water flow and solute transportation via preferential flow paths with little resistance could bypass soil matrix quickly. It is necessary to characterize preferential flow phenomenon because of its understanding of ecological functions of soil, including the degradation of topsoil, the low activity of soil microorganisms, the loss of soil nutrients, and the serious source of pollution of groundwater resources (Brevik et al., 2015; Singh et al., 2015). Studies on the interaction between plant roots and soil water flow in response to preferential flow is promising increasingly. However, it is complicated to evaluate soil hydrology when plant roots are associated with the mechanisms of soil water flow and solute transportation, especially preferential flow (Ola et al., 2015). Root channels formed by living/decayed plant roots and root-soil interfaces affect soil hydrology (Tracy et al., 2011). For example, Jørgensen et al. (2002) stated that soil water flow was more obvious in soil profiles with plant roots than in soil profiles without plant roots. The present study was conducted to investigate the interaction between plant roots and soil water flow in response to preferential flow in stony soils. Materials and methods Field experiments: field dye tracing experiments centered on experimental plants (S. japonica Linn, P. orientalis (L.) Franco, and Q. dentata Thunb) were conducted to characterize the root length density, preferential flow paths (stained areas), and soil matrix (unstained areas). Brilliant Blue FCF (C.I. Food Blue 2) as dye solution (50 L) was applied to the experimental plots. Laboratory analyses: undisturbed soil columns (7-cm diameter, 10 cm high) obtained from soil depths of 0-20, 20-40, and 40-60 cm, respectively, were conducted with breakthrough curves experiments under different conditions maintaining (1) a constant hydraulic head of 1ṡ0 cm of water with various solution concentrations of 0ṡ5, 1ṡ0, and 1ṡ5 g L-1, and (2) a constant solution concentration of 1ṡ0 g L-1 with various hydraulic heads of 0ṡ5, 1ṡ0, and 1ṡ5 cm of water, and those columns were conducted under saturated and unsaturated soil conditions, respectively. The effluent samples were measured with an ultraviolet spectrometer subsystem to determine the relative concentration. The plant root-water interaction (PRWI) was recognized as an indicator of the influences of plant roots on soil water flow. Results Our study showed that (1) fine plant roots in preferential flow paths decreased with soil depth and was mostly recorded in the upper soil layers to a depth of 20 cm for all experimental plots. The root length density of preferential flow paths made up at least 50% of the total root length density at each soil depth; (2) preferential flow effects were most apparent on soil water flow at the 0-20-cm soil depth compared with the other depths (20-40 and 40-60 cm); (3) positive correlations between fine plant roots and the plant root-water interaction (PRWI) were observed. References Brevik EC, Cerdà A, Mataix-Solera J, Pereg L, Quinton JN, Six J, Van Oost K. 2015. The interdisciplinary nature of SOIL. SOIL 1: 117-129. DOI: 10.5194/soil-1-117-2015. Singh YP, Nayak AK, Sharma DK, Singh G, Mishra VK, Singh D. 2015. Evaluation of Jatropha curcas genotypes for rehabilitation of degraded sodic lands. Land Degradation & Development 26(5): 510-520. DOI: 10.1002/ldr.2398. Ola A, Dodd IC, Quinton JN. 2015. Can we manipulate root system architecture to control soil erosion? SOIL 1: 603-612. DOI: 10.5194/soild-2-265-2015. Tracy SR, Black CR, Roberts JA, Mooney SJ. 2011. Soil compaction: a review of past and present techniques for investigating effects on root growth. Journal of the Science of Food & Agriculture 91: 1528-1537. DOI: 10.1002/jsfa.4424. Jørgensen PR, Hoffmann M, Kistrup JP, Bryde C, Bossi R, Villholth KG. 2002. Preferential flow and pesticide transport in a clay-rich till: field, laboratory, and modeling analysis. Water Resources Research 38: 1246-1261. DOI: 10.1029/2001WR000494.

Effect of flow on bacterial transport and biofilm formation in saturated porous media

NASA Astrophysics Data System (ADS)

Rusconi, R.

2016-12-01

Understanding the transport of bacteria in saturated porous media is crucial for many applications ranging from the management of pumping wells subject to bio-clogging to the design of new bioremediation schemes for subsurface contamination. However, little is known about the spatial distribution of bacteria at the pore scale, particularly when small-scale heterogeneities - always present even in seemingly homogeneous aquifers - lead to preferential pathways for groundwater flow. In particular, the coupling of flow and motility has recently been shown to strongly affect bacterial transport1, and this leads us to predict that subsurface flow may strongly affect the dispersal of bacteria and the formation of biofilms in saturated aquifers. I present here microfluidic experiments combined with numerical simulations to show how the topological features of the flow correlate with bacterial concentration and promote the attachment of bacteria to specific regions of the pore network, which will ultimately influence the formations of biofilms. These results highlight the intimate link between small-scale biological processes and transport in porous media.

Modeling of leachate generation from MSW landfills by a 2-dimensional 2-domain approach

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

Fellner, Johann, E-mail: j.fellner@tuwien.ac.a; Brunner, Paul H., E-mail: paul.h.brunner@tuwien.ac.a

2010-11-15

The flow of water through Municipal Solid Waste (MSW) landfills is highly non-uniform and dominated by preferential pathways. Thus, concepts to simulate landfill behavior require that a heterogeneous flow regime is considered. Recent models are based on a 2-domain approach, differentiating between channel domain with high hydraulic conductivity, and matrix domain of slow water movement with high water retention capacity. These models focus on the mathematical description of rapid water flow in channel domain. The present paper highlights the importance of water exchange between the two domains, and expands the 1-dimensional, 2-domain flow model by taking into account water flowsmore » in two dimensions. A flow field consisting of a vertical path (channel domain) surrounded by the waste mass (matrix domain) is defined using the software HYDRUS-2D. When the new model is calibrated using data sets from a MSW-landfill site the predicted leachate generation corresponds well with the observed leachate discharge. An overall model efficiency in terms of r{sup 2} of 0.76 was determined for a simulation period of almost 4 years. The results confirm that water in landfills follows a preferential path way characterized by high permeability (K{sub s} = 300 m/d) and zero retention capacity, while the bulk of the landfill (matrix domain) is characterized by low permeability (K{sub s} = 0.1 m/d) and high retention capacity. The most sensitive parameters of the model are the hydraulic conductivities of the channel domain and the matrix domain, and the anisotropy of the matrix domain.« less

Effect of volcanic dykes on coastal groundwater flow and saltwater intrusion: A field-scale multiphysics approach and parameter evaluation

NASA Astrophysics Data System (ADS)

Comte, J.-C.; Wilson, C.; Ofterdinger, U.; González-Quirós, A.

2017-03-01

Volcanic dykes are common discrete heterogeneities in aquifers; however, there is a lack of field examples of, and methodologies for, comprehensive in situ characterization of their properties with respect to groundwater flow and solute transport. We have applied an integrated multiphysics approach to quantify the effect of dolerite dykes on saltwater intrusion in a coastal sandstone aquifer. The approach involved ground geophysical imaging (passive magnetics and electrical resistivity tomography), well hydraulic testing, and tidal propagation analysis, which provided constraints on the geometry of the dyke network, the subsurface saltwater distribution, and the sandstone hydrodynamic properties and connectivity. A three-dimensional variable-density groundwater model coupled with a resistivity model was further calibrated using groundwater and geophysical observations. A good agreement of model simulations with tide-induced head fluctuations, geophysically derived pore water salinities, and measured apparent resistivities was obtained when dykes' hydraulic conductivity, storativity, and effective porosity are respectively about 3, 1, and 1 orders of magnitude lower than the host aquifer. The presence of the dykes results in barrier-like alterations of groundwater flow and saltwater intrusion. Preferential flow paths occur parallel to observed dyke orientations. Freshwater inflows from upland recharge areas concentrate on the land-facing side of the dykes and saltwater penetration is higher on their sea-facing side. This has major implications for managing groundwater resources in dyke-intruded aquifers, including in coastal and island regions and provides wider insights on preferential pathways of groundwater flow and transport in highly heterogeneous aquifer systems.

Characterization of fracture connectivity in a siliciclastic bedrock aquifer near a public supply well (Wisconsin, USA)

NASA Astrophysics Data System (ADS)

Gellasch, Christopher A.; Bradbury, Kenneth R.; Hart, David J.; Bahr, Jean M.

2013-03-01

In order to protect public supply wells from a wide range of contaminants, it is imperative to understand physical flow and transport mechanisms in the aquifer system. Although flow through fractures has typically been associated with either crystalline or carbonate rocks, there is growing evidence that it can be an important component of flow in relatively permeable sandstone formations. The objective of this work is to determine the role that fractures serve in the transport of near-surface contaminants such as wastewater from leaking sewers, to public supply wells in a deep bedrock aquifer. A part of the Cambrian aquifer system in Madison, Wisconsin (USA), was studied using a combination of geophysical, geochemical, and hydraulic testing in a borehole adjacent to a public supply well. Data suggest that bedrock fractures are important transport pathways from the surface to the deep aquifer. These fractured intervals have transmissivity values several orders of magnitude higher than non-fractured intervals. With respect to rapid transport of contaminants, high transmissivity values of individual fractures make them the most likely preferential flow pathways. Results suggest that in a siliciclastic aquifer near a public supply well, fractures may have an important role in the transport of sewer-derived wastewater contaminants.

Dissolution-Driven Permeability Reduction of a Fractured Carbonate Caprock

PubMed Central

Ellis, Brian R.; Fitts, Jeffrey P.; Bromhal, Grant S.; McIntyre, Dustin L.; Tappero, Ryan; Peters, Catherine A.

2013-01-01

Abstract Geochemical reactions may alter the permeability of leakage pathways in caprocks, which serve a critical role in confining CO2 in geologic carbon sequestration. A caprock specimen from a carbonate formation in the Michigan sedimentary Basin was fractured and studied in a high-pressure core flow experiment. Inflowing brine was saturated with CO2 at 40°C and 10 MPa, resulting in an initial pH of 4.6, and had a calcite saturation index of −0.8. Fracture permeability decreased during the experiment, but subsequent analyses did not reveal calcite precipitation. Instead, experimental observations indicate that calcite dissolution along the fracture pathway led to mobilization of less soluble mineral particles that clogged the flow path. Analyses of core sections via electron microscopy, synchrotron-based X-ray diffraction imaging, and the first application of microbeam Ca K-edge X-ray absorption near edge structure, provided evidence that these occlusions were fragments from the host rock rather than secondary precipitates. X-ray computed tomography showed a significant loss of rock mass within preferential flow paths, suggesting that dissolution also removed critical asperities and caused mechanical closure of the fracture. The decrease in fracture permeability despite a net removal of material along the fracture pathway demonstrates a nonintuitive, inverse relationship between dissolution and permeability evolution in a fractured carbonate caprock. PMID:23633894

Influence of Hydrological Flow Paths on Rates and Forms of Nitrogen Losses from Mediterranean Watersheds

NASA Astrophysics Data System (ADS)

Lohse, K. A.; Sanderman, J.; Amundson, R. G.

2005-12-01

Patterns of precipitation and runoff in California are changing and likely to influence the structure and functioning of watersheds. Studies have demonstrated that hydrologic flushing during seasonal transitions in Mediterranean ecosystems can exert a strong control on nitrogen (N) export, yet few studies have examined the influence of different hydrological flow paths on rates and forms of nitrogen (N) losses. Here we illuminate the influence of variations in precipitation and hydrological pathways on the rate and form of N export along a toposequence of a well-characterized Mediterranean catchment in northern California. As a part of a larger study examining particulate and dissolved carbon loss, we analyzed seasonal patterns of dissolved organic nitrogen (DON), nitrate and ammonium concentrations in rainfall, throughfall, matrix and preferential flow, and stream samples over the course of one water year. We also analyzed seasonal soil N dynamics along this toposequence. During the transition to the winter rain season, but prior to any soil water displacement to the stream, DON and nitrate moved through near-surface soils as preferential flow. Once hillslope soils became saturated, saturated subsurface flow flushed nitrate from the hollow resulting in high stream nitrate/DON concentrations. Between storms, stream nitrate/DON concentrations were lower and appeared to reflect deep subsurface water flow chemistry. During the transition to the wet season, rates of soil nitrate production were high in the hollow relative to the hillslope soils. In the spring, these rates systematically declined as soil moisture decreased. Results from our study suggest seasonal fluctuations in soil moisture control soil N cycling and seasonal changes in the hydrological connection between hillslope soils and streams control the seasonal production and export of hydrologic N.

Interactions among hydraulic conductivity distributions, subsurface topography, and transport thresholds revealed by a multitracer hillslope irrigation experiment

DOE PAGES

Jackson, C. Rhett; Du, Enhao; Klaus, Julian; ...

2016-08-12

Interactions among hydraulic conductivity distributions, subsurface topography, and lateral flow are poorly understood. We applied 407 mm of water and a suite of tracers over 51 h to a 12 by 16.5 m forested hillslope segment to determine interflow thresholds, preferential pathway pore velocities, large-scale conductivities, the time series of event water fractions, and the fate of dissolved nutrients. The 12% hillslope featured loamy sand A and E horizons overlying a sandy clay loam Bt at 1.25 m average depth. Interflow measured from two drains within an interception trench commenced after 131 and 208 mm of irrigation. Cumulative interflow equaledmore » 49% of applied water. Conservative tracer differences between the collection drains indicated differences in flow paths and storages within the plot. Event water fractions rose steadily throughout irrigation, peaking at 50% sixteen h after irrigation ceased. Data implied that tightly held water exchanged with event water throughout the experiment and a substantial portion of preevent water was released from the argillic layer. Surface-applied dye tracers bypassed the matrix, with peak concentrations measured shortly after flow commencement, indicating preferential network conductivities of 864–2240 mm/h, yet no macropore flow was observed. Near steady-state flow conditions indicated average conductivities of 460 mm/h and 2.5 mm/h for topsoils and the Bt horizon, respectively. Low ammonium and phosphorus concentrations in the interflow suggested rapid uptake or sorption, while higher nitrate concentrations suggested more conservative transport. Lastly, these results reveal how hydraulic conductivity variation and subsurface topographic complexity explain otherwise paradoxical solute and flow behaviors.« less

The influence of preferential flow on pressure propagation and landslide triggering of the Rocca Pitigliana landslide

NASA Astrophysics Data System (ADS)

Shao, Wei; Bogaard, Thom; Bakker, Mark; Berti, Matteo

2016-12-01

The fast pore water pressure response to rain events is an important triggering factor for slope instability. The fast pressure response may be caused by preferential flow that bypasses the soil matrix. Currently, most of the hydro-mechanical models simulate pore water pressure using a single-permeability model, which cannot quantify the effects of preferential flow on pressure propagation and landslide triggering. Previous studies showed that a model based on the linear-diffusion equation can simulate the fast pressure propagation in near-saturated landslides such as the Rocca Pitigliana landslide. In such a model, the diffusion coefficient depends on the degree of saturation, which makes it difficult to use the model for predictions. In this study, the influence of preferential flow on pressure propagation and slope stability is investigated with a 1D dual-permeability model coupled with an infinite-slope stability approach. The dual-permeability model uses two modified Darcy-Richards equations to simultaneously simulate the matrix flow and preferential flow in hillslopes. The simulated pressure head is used in an infinite-slope stability analysis to identify the influence of preferential flow on the fast pressure response and landslide triggering. The dual-permeability model simulates the height and arrival of the pressure peak reasonably well. Performance of the dual-permeability model is as good as or better than the linear-diffusion model even though the dual-permeability model is calibrated for two single pulse rain events only, while the linear-diffusion model is calibrated for each rain event separately. In conclusion, the 1D dual-permeability model is a promising tool for landslides under similar conditions.

The effect of trees on preferential flow and soil infiltrability in an agroforestry parkland in semiarid Burkina Faso

NASA Astrophysics Data System (ADS)

Bargués Tobella, A.; Reese, H.; Almaw, A.; Bayala, J.; Malmer, A.; Laudon, H.; Ilstedt, U.

2014-04-01

Water scarcity constrains the livelihoods of millions of people in tropical drylands. Tree planting in these environments is generally discouraged due to the large water consumption by trees, but this view may neglect their potential positive impacts on water availability. The effect of trees on soil hydraulic properties linked to groundwater recharge is poorly understood. In this study, we performed 18 rainfall simulations and tracer experiments in an agroforestry parkland in Burkina Faso to investigate the effect of trees and associated termite mounds on soil infiltrability and preferential flow. The sampling points were distributed in transects each consisting of three positions: (i) under a single tree, (ii) in the middle of an open area, and (iii) under a tree associated with a termite mound. The degree of preferential flow was quantified through parameters based on the dye infiltration patterns, which were analyzed using image analysis of photographs. Our results show that the degree of preferential flow was highest under trees associated with termite mounds, intermediate under single trees, and minimal in the open areas. Tree density also had an influence on the degree of preferential flow, with small open areas having more preferential flow than large ones. Soil infiltrability was higher under single trees than in the open areas or under trees associated with a termite mound. The findings from this study demonstrate that trees have a positive impact on soil hydraulic properties influencing groundwater recharge, and thus such effects must be considered when evaluating the impact of trees on water resources in drylands.

Physical and Chemical Factors Influencing the Transport and Fate of Microorganisms in Soils with Preferential Flow

NASA Astrophysics Data System (ADS)

Wang, Y.; Bradford, S. A.; Simunek, J.

2011-12-01

Laboratory and numerical studies were conducted to investigate the influence of physical and chemical factors on the transport of E.coli O157:H7 and coliphage φX174 through preferential flow systems. Preferential flow systems were created in 13.2 cm diameter and 20 cm length columns by embedding sand lens of various grain size, length, and vertical position into finer textured matrix sand. Tracer solutions containing bromide and microbes were prepared at different ionic strength (IS) and sprayed onto the surface of the columns at desired steady rates using a rain simulator to achieve saturated or unsaturated conditions. Effluents were collected at the column bottom continuously and analyzed for concentrations of bromide, φX174, and E.coli. Complementary numerical simulations were conducted using the HYDRUS 2D code over a wider range of physical and chemical conditions, and to analyze bromide and microbe transport in the columns. Results indicated that preferential transport of the microbes was dependent on the hydraulic contrasts between the matrix and lens, the length of the lens, the size of microorganism, and the water saturation. The IS also influenced the preferential transport of microbes. In particular, increasing retention with IS decreased the overall microbe transport but increased the relative importance of preferential flow.

Linking soil moisture balance and source-responsive models to estimate diffuse and preferential components of groundwater recharge

USGS Publications Warehouse

Cuthbert, M.O.; Mackay, R.; Nimmo, J.R.

2012-01-01

Results are presented of a detailed study into the vadose zone and shallow water table hydrodynamics of a field site in Shropshire, UK. A conceptual model is developed and tested using a range of numerical models, including a modified soil moisture balance model (SMBM) for estimating groundwater recharge in the presence of both diffuse and preferential flow components. Tensiometry reveals that the loamy sand topsoil wets up via macropore flow and subsequent redistribution of moisture into the soil matrix. Recharge does not occur until near-positive pressures are achieved at the top of the sandy glaciofluvial outwash material that underlies the topsoil, about 1 m above the water table. Once this occurs, very rapid water table rises follow. This threshold behaviour is attributed to the vertical discontinuity in the macropore system due to seasonal ploughing of the topsoil, and a lower permeability plough/iron pan restricting matrix flow between the topsoil and the lower outwash deposits. Although the wetting process in the topsoil is complex, a SMBM is shown to be effective in predicting the initiation of preferential flow from the base of the topsoil into the lower outwash horizon. The rapidity of the response at the water table and a water table rise during the summer period while flow gradients in the unsaturated profile were upward suggest that preferential flow is also occurring within the outwash deposits below the topsoil. A variation of the source-responsive model proposed by Nimmo (2010) is shown to reproduce the observed water table dynamics well in the lower outwash horizon when linked to a SMBM that quantifies the potential recharge from the topsoil. The results reveal new insights into preferential flow processes in cultivated soils and provide a useful and practical approach to accounting for preferential flow in studies of groundwater recharge estimation.

Subsurface phosphorus transport through a no-till field in the semi arid Palouse region

NASA Astrophysics Data System (ADS)

Norby, J. C.; Brooks, E. S.; Strawn, D. G.

2017-12-01

Excess application of fertilizers containing nitrogen and phosphorus for farming use has led to ongoing water quality issues in the United States. When these nutrients leave agronomic systems, and enter water bodies in large quantities, algal bloom and eutrophication can occur. Extensive studies focusing on phosphorus as a pollutant from agronomic systems have been conducted in the many regions of the United States; however, there has been a lack of studies completed in the semiarid Palouse region of eastern Washington and western Idaho. The goal of this research study was to better understand how no-till farm management has altered soil P temporally and the current availability for off-site transport of P throughout an artificially drained catchment at the Cook Agronomy Farm in Pullman, WA. We also attempted to determine the processes responsible for subsurface flow of phosphorus, specifically through preferential flow pathways. Dissolved reactive P (DRP)concentrations of subsurface drainage from a artificial drain exceeded TMDL threshold concentrations during numerous seasonal high flow events over the two-year study time frame. Soil analyses show a highly variable distribution of water-extractable P across the sub-catchment area and initial results suggest a translocation of P species deeper into the soil profile after implementing no-till practices in 1998. We hypothesized that a greater network of macropores from lack of soil disturbance allow for preferential flow of nutrient-laden water deeper into the subsurface and to the artificial drain system. Simulated flow experiments on soil cores from the study site showed large-scale macropore development, extreme variability in soil conductivity, and high P adsorption potential for the soils, suggesting a disconnect between P movement through macropore soil and subsurface drainage water rich in DRP at the artificial drain line outlet.

Preferential transport of isoproturon at a plot scale and a field scale tile-drained site

NASA Astrophysics Data System (ADS)

Zehe, Erwin; Flühler, Hannes

2001-06-01

Irrigation experiments using the tracers Brilliant Blue (BB) and Bromide (Br) were conducted on three plots of 1.4×1.4 m 2 (plot scale) and a field scale subsurface drained test site (900 m 2) to clarify mechanisms causing rapid transport of surface applied Isoproturon (IPU) during preferential flow events. One of the small plots (site 10) and the field scale test site are located on the same field. One day after irrigation of the plot scale sites the Br and IPU concentration in two vertical soil profiles as well as the macroporousity on separate profiles and hydraulic properties of single macropores were determined. During irrigation of the field scale test site discharge, soil moisture as well as the concentration of IPU and Br in the drainage outlet were measured. Preferential flow in deep penetrating earthworm burrows caused a fast breakthrough of IPU and Br into the tile drain (1.2 m depth) at the field scale site as well as leaching of IPU into the subsoil (>0.8 m) at site 10. The results suggest a hierarchy of preconditions for the occurrence of preferential flow events of which a sufficient number of deep penetrating macropores interconnected to the soil surface seems to be the most important one. Moreover there is evidence that facilitated transport of IPU attached to mobile soil particles occurred during the preferential flow events at the field scale site and site 10. The susceptibility for preferential flow as well as the susceptibility for facilitated transport appear to be intrinsic properties of the investigated soil.

Trees influence preferencial flow and water uptake in tropical savanna

NASA Astrophysics Data System (ADS)

Benegas, Laura; Bargues-Tobella, Aida; Hasselquist, Niles; Malmer, Anders; Ilstedt, Ulrik

2017-04-01

To address potential competition between trees and grasses for soil water, and to disentangle the main process responsible for local soil water dynamics in pasture ecosystems, we conducted a study of the soil water content and water source partitioning of grasses and trees within a pasture in the Copan River catchment, Honduras. We used differences in the 2H/1H (δD) isotopic signature of soil water (δSW) and the local meteoric water line (LMWL; δLMWL) as a relative index of evaporation, following a recent model proposed by Hasselquist et al (under review). The model uses Lc-excess calculated as the absolute value of the difference between measured δD and that predicted by the local meteoric water line (lc-excess = ¦δDM - δDP¦). Lc-excess values close to zero indicate little difference between soil water samples and local precipitation, whereas larger values indicate a greater degree of evaporation .()...(adapted from Landwehr and Coplen, 2006). From the relation between Lc-excess and SWC, we can tease apart different processes by which trees influence local soil water dynamics, where one such processes indicate that if preferential flow, i.e quick flows through macropores that by-pass the soil matrix, is the main pathway for water movement in the soil, then the Lc-excess values of soil water at deeper depths will be closer to zero than those of the surface soil, whereas relatively higher Lc-excess values would indicate increasing dominance of matrix flow. We found that soil underneath trees was wetter than underneath grasses at the dry season and we can relate this with a lack of clear relationship between Lc-excess and SWC and with the treés apparent shift to groundwater sources for root uptake especially in the dry season. Due to the positive correlation between Lc-excess and SWC under trees and due to the lower Lc-excess values found at subsoil below trees during the dry season, we can infer that preferential flow is also facilitated by the trees enhancing its contribution to groundwater recharge. The possible water losses via interception linked with trees on the soil water dynamic was counterbalanced by the positive contribution of trees to preferential flow and groundwater recharge.

Evidence for preferential flux flow at the grain boundaries of superconducting RF-quality niobium

NASA Astrophysics Data System (ADS)

Sung, Z.-H.; Lee, P. J.; Gurevich, A.; Larbalestier, D. C.

2018-04-01

The question of whether grain boundaries (GBs) in niobium can be responsible for lowered operating field (B RF) or quality factor (Q 0) in superconducting radio frequency (SRF) cavities is still controversial. Here, we show by direct DC transport across planar GBs isolated from a slice of very large-grain SRF-quality Nb that vortices can preferentially flow along the grain boundary when the external magnetic field lies in the GB plane. However, increasing the misalignment between the GB plane and the external magnetic field vector markedly reduces preferential flux flow along the GB. Importantly, we find that preferential GB flux flow is more prominent for a buffered chemical polished than for an electropolished bi-crystal. The voltage-current characteristics of GBs are similar to those seen in low angle grain boundaries of high temperature superconductors where there is clear evidence of suppression of the superconducting order parameter at the GB. While local weakening of superconductivity at GBs in cuprates and pnictides is intrinsic, deterioration of current transparency of GBs in Nb appears to be extrinsic, since the polishing method clearly affect the local GB degradation. The dependence of preferential GB flux flow on important cavity preparation and experimental variables, particularly the final chemical treatment and the angle between the magnetic field and the GB plane, suggests two more reasons why real cavity performance can be so variable.

The Effect of Initial Irrigation Conditions on Heap Leaching Efficiency

NASA Astrophysics Data System (ADS)

Briseño Arellano, A. D.; Milczarek, M.; Yao, M.; Brusseau, M. L. L.

2017-12-01

Heap leaching is an unsaturated flow metal recovery process, in which mined ore is irrigated with a lixiviant to dissolve metal contained in the ore. The metal is then extracted from solution. Large scale operations involve stacking ore to depths of 6 to 18 meters on pads that may be hundreds of hectares in area. Heterogeneities within the stacked ore can lead to uneven wetting and the formation of preferential flow pathways, which reduces solution contact and lowers metal recovery. Furthermore, mineral dissolution can cause alteration of the porous media structure and loss of ore permeability. Many mine operators believe that slow initial irrigation rates help minimize permeability loss and increase metal recovery rates. However, this phenomenon has not been studied in detail. Experiments were conducted to investigate the effect of varying initial irrigation rates on leach ore stability. These were conducted with large columns (1.5 m high, 0.5 m in diameter) packed with crushed ore samples that are known to have permeability constraints. The columns were highly instrumented to assess potential changes in material properties both spatially and temporally. Water content was measured with three different methods: capacitance soil moisture sensors placed at 20-cm intervals; a neutron probe to periodically log every 30 cm from four different directions; and electrical resistivity sensors to create a 2-dimensional tomography profile of water content over time. Tensiometers were paired with the soil moisture sensors to measure matric suction and characterize moisture retention characteristics. A non-reactive tracer was used to characterize advective-dispersive transport under unsaturated conditions. A dye solution was introduced at the end of each experiment to map preferential pathways. Continuous monitoring of settling at the surface assisted in measuring consolidation and loss in permeability.

Local efficiency in fluvial systems: Lessons from Icicle Bend

NASA Astrophysics Data System (ADS)

Jerin, Tasnuba; Phillips, Jonathan

2017-04-01

Development of fluvial systems is often described and modeled in terms of principles related to maxima, minima, or optima of various hydraulic or energy parameters that can generally be encompassed by a principle of efficiency selection (more efficient flow routes tend to be preferentially selected and enhanced). However, efficiency selection is highly localized, and the cumulative effects of these local events may or may not produce more efficient pathways at a broader scale. This is illustrated by the case of Icicle Bend on Shawnee Run, a limestone bedrock stream in central Kentucky. Field evidence indicates that a paleochannel was abandoned during downcutting of the stream, and the relocation was analyzed using a flow partitioning model. The bend represents abandonment of a steeper, straighter, more efficient channel at the reach scale in favor of a longer, currently less steep and less efficient flow path. This apparently occurred owing to capture of Shawnee Run flow by a subsurface karst flow path that was subsequently exhumed. The development of Icicle Bend illustrates the local nature of efficiency selection and the role of historical contingency in geomorphic evolution.

Electrical coupling between A17 cells enhances reciprocal inhibitory feedback to rod bipolar cells.

PubMed

Elgueta, Claudio; Leroy, Felix; Vielma, Alex H; Schmachtenberg, Oliver; Palacios, Adrian G

2018-02-15

A17 amacrine cells are an important part of the scotopic pathway. Their synaptic varicosities receive glutamatergic inputs from rod bipolar cells (RBC) and release GABA onto the same RBC terminal, forming a reciprocal feedback that shapes RBC depolarization. Here, using patch-clamp recordings, we characterized electrical coupling between A17 cells of the rat retina and report the presence of strongly interconnected and non-coupled A17 cells. In coupled A17 cells, evoked currents preferentially flow out of the cell through GJs and cross-synchronization of presynaptic signals in a pair of A17 cells is correlated to their coupling degree. Moreover, we demonstrate that stimulation of one A17 cell can induce electrical and calcium transients in neighboring A17 cells, thus confirming a functional flow of information through electrical synapses in the A17 coupled network. Finally, blocking GJs caused a strong decrease in the amplitude of the inhibitory feedback onto RBCs. We therefore propose that electrical coupling between A17 cells enhances feedback onto RBCs by synchronizing and facilitating GABA release from inhibitory varicosities surrounding each RBC axon terminal. GJs between A17 cells are therefore critical in shaping the visual flow through the scotopic pathway.

Preferential paths in yield stress fluid flow through a porous medium

NASA Astrophysics Data System (ADS)

Guasto, Jeffrey; Waisbord, Nicolas; Stoop, Norbert; Dunkel, Jörn

2016-11-01

A broad range of biological, geological, and industrial materials with complex rheological properties are subjected to flow through porous media in applications ranging from oil recovery to food manufacturing. In this experimental study, we examine the flow of a model yield stress fluid (Carbopol micro-gel) through a quasi-2D porous medium, fabricated in a microfluidic channel. The flow is driven by applying a precisely-controlled pressure gradient and measured by particle tracking velocimetry, and our observations are complemented by a pore-network model of the yield stress fluid flow. While remaining unyielded at small applied pressure, the micro-gel begins to yield at a critical pressure gradient, exhibiting a single preferential flow path that percolates through the porous medium. As the applied pressure gradient increases, we observe a subsequent coarsening and invasion of the yielded, fluidized network. An examination of both the yielded network topology and pore-scale flow reveal that two cooperative phenomena are involved in sculpting the preferential flow paths: (1) the geometry of the porous microstructure, and (2) the adhesive surface interactions between the micro-gel and substrate. NSF CBET-1511340.

Unsaturated flow processes in structurally-variable pathways in wildfire-affected soils and ash

NASA Astrophysics Data System (ADS)

Ebel, B. A.

2016-12-01

Prediction of flash flood and debris flow generation in wildfire-affected soils and ash hinges on understanding unsaturated flow processes. Water resources issues, such as groundwater recharge, also rely on our ability to quantify subsurface flow. Soil-hydraulic property data provide insight into unsaturated flow processes and timescales. A literature review and synthesis of existing data from the literature for wildfire-affected soils, including ash and unburned soils, facilitated calculating metrics and timescales of hydrologic response related to infiltration and surface runoff generation. Sorptivity (S) and the Green-Ampt wetting front parameter (Ψf) were significantly lower in burned soils compared to unburned soils, while field-saturated hydraulic conductivity (Kfs) was not significantly different. The magnitude and duration of the influence of capillarity was substantially reduced in burned soils, leading to faster ponding times in response to rainfall. Ash had large values of S and Kfs compared to unburned and burned soils but intermediate values of Ψf, suggesting that ash has long ponding times in response to rainfall. The ratio of S2/Kfs was nearly constant ( 100 mm) for unburned soils, but was more variable in burned soils. Post-wildfire changes in this ratio suggested that unburned soils had a balance between gravity and capillarity contributions to infiltration, which may depend on soil organic matter, while burning shifted infiltration more towards gravity contributions by reducing S. Taken together, the changes in post-wildfire soil-hydraulic properties increased the propensity for surface runoff generation and may have enhanced subsurface preferential flow through pathways altered by wildfire.

The significance of slab-crusted lava flows for understanding controls on flow emplacement at Mount Etna, Sicily

NASA Astrophysics Data System (ADS)

Guest, John E.; Stofan, Ellen R.

2005-04-01

Slab-crusted flows on Mount Etna, Sicily are defined here as those whose crust has ridden on the flow core without significant disruption or deformation and have a high length to width ratio. They typically erupt from ephemeral boccas as late-stage products on dominantly aa flow fields, such as that of the 1983 eruption on Mount Etna. Slab-crusted flows tend to inflate mainly as they approach and after they reach the maximum length of slab-crust formation, the flow interior acting as a preferential pathway for injecting lava under a stable crust. Coalescence of vesicles under successive crusts causes separation between core and crust giving a new cooling surface within the flow, on which ropy surfaces (and occasionally aa textures) of limited areal extent may develop. Slab-crusted flows tend to form at ephemeral boccas together with other surface textural types including toes, ropy pahoehoe sheets and aa flows. This suggests that, on Etna, slab-crusted flows form from lava of the same rheological properties as both aa and pahoehoe textured flows. They do not represent a transition between aa and pahoehoe as argued for toothpaste flows in Hawaii. We conclude that slab-crusted flows on Etna owe their morphology to a relatively high critical ratio of effusion rate to advance rate, related to vent cross-sectional area and the slope over which the flow forms.

Modelling rapid subsurface flow at the hillslope scale with explicit representation of preferential flow paths

NASA Astrophysics Data System (ADS)

Wienhöfer, J.; Zehe, E.

2012-04-01

Rapid lateral flow processes via preferential flow paths are widely accepted to play a key role for rainfall-runoff response in temperate humid headwater catchments. A quantitative description of these processes, however, is still a major challenge in hydrological research, not least because detailed information about the architecture of subsurface flow paths are often impossible to obtain at a natural site without disturbing the system. Our study combines physically based modelling and field observations with the objective to better understand how flow network configurations influence the hydrological response of hillslopes. The system under investigation is a forested hillslope with a small perennial spring at the study area Heumöser, a headwater catchment of the Dornbirnerach in Vorarlberg, Austria. In-situ points measurements of field-saturated hydraulic conductivity and dye staining experiments at the plot scale revealed that shrinkage cracks and biogenic macropores function as preferential flow paths in the fine-textured soils of the study area, and these preferential flow structures were active in fast subsurface transport of artificial tracers at the hillslope scale. For modelling of water and solute transport, we followed the approach of implementing preferential flow paths as spatially explicit structures of high hydraulic conductivity and low retention within the 2D process-based model CATFLOW. Many potential configurations of the flow path network were generated as realisations of a stochastic process informed by macropore characteristics derived from the plot scale observations. Together with different realisations of soil hydraulic parameters, this approach results in a Monte Carlo study. The model setups were used for short-term simulation of a sprinkling and tracer experiment, and the results were evaluated against measured discharges and tracer breakthrough curves. Although both criteria were taken for model evaluation, still several model setups produced acceptable matches to the observed behaviour. These setups were selected for long-term simulation, the results of which were compared against water level measurements at two piezometers along the hillslope and the integral discharge response of the spring to reject some non-behavioural model setups and further reduce equifinality. The results of this study indicate that process-based modelling can provide a means to distinguish preferential flow networks on the hillslope scale when complementary measurements to constrain the range of behavioural model setups are available. These models can further be employed as a virtual reality to investigate the characteristics of flow path architectures and explore effective parameterisations for larger scale applications.

Quantifying Preferential Flow and Seasonal Storage in an Unsaturated Fracture-Facial Domain

NASA Astrophysics Data System (ADS)

Nimmo, J. R.; Malek-Mohammadi, S.

2012-12-01

Preferential flow through deep unsaturated zones of fractured rock is hydrologically important to a variety of contaminant transport and water-resource issues. The unsaturated zone of the English Chalk Aquifer provides an important opportunity for a case study of unsaturated preferential flow in isolation from other flow modes. The chalk matrix has low hydraulic conductivity and stays saturated, owing to its fine uniform pores and the wet climate of the region. Therefore the substantial fluxes observed in the unsaturated chalk must be within fractures and interact minimally with matrix material. Price et al. [2000] showed that irregularities on fracture surfaces provide a significant storage capacity in the chalk unsaturated zone, likely accounting for volumes of water required to explain unexpected dry-season water-table stability during substantial continuing streamflow observed by Lewis et al. [1993] In this presentation we discuss and quantify the dynamics of replenishment and drainage of this unsaturated zone fracture-face storage domain using a modification of the source-responsive model of Nimmo [2010]. This model explains the processes in terms of two interacting flow regimes: a film or rivulet preferential flow regime on rough fracture faces, active on an individual-storm timescale, and a regime of adsorptive and surface-tension influences, resembling traditional diffuse formulations of unsaturated flow, effective mainly on a seasonal timescale. The modified model identifies hydraulic parameters for an unsaturated fracture-facial domain lining the fractures. Besides helping to quantify the unsaturated zone storage described by Price et al., these results highlight the importance of research on the topic of unsaturated-flow relations within a near-fracture-surface domain. This model can also facilitate understanding of mechanisms for reinitiation of preferential flow after temporary cessation, which is important in multi-year preferential flow through deep unsaturated zones [Pruess, 1999]. Lewis, M.A., H.K. Jones, D.M.J. Macdonald, M. Price, J.A. Barker, T.R. Shearer, A.J. Wesselink, and D.J. Evans (1993), Groundwater storage in British aquifers--Chalk, National Rivers Authority R&D Note, 169, Bristol, UK. Nimmo, J.R. (2010), Theory for Source-Responsive and Free-Surface Film Modeling of Unsaturated Flow, Vadose Zone Journal, 9(2), 295-306, doi:10.2136/vzj2009.0085. Price, M., R.G. Low, and C. McCann (2000), Mechanisms of water storage and flow in the unsaturated zone of the Chalk aquifer, Journal of Hydrology, 233(1-4), 54-71. Pruess, K. (1999), A mechanistic model for water seepage through thick unsaturated zones in fractured rocks of low matrix permeability, Water Resources Research, 35(4), 1039-1051.

Identifying pathways and processes affecting nitrate and orthophosphate inputs to streams in agricultural watersheds

USGS Publications Warehouse

Tesoriero, A.J.; Duff, J.H.; Wolock, D.M.; Spahr, N.E.; Almendinger, J.E.

2009-01-01

Understanding nutrient pathways to streams will improve nutrient management strategies and estimates of the time lag between when changes in land use practices occur and when water quality effects that result from these changes are observed. Nitrate and orthophosphate (OP) concentrations in several environmental compartments were examined in watersheds having a range of base flow index (BFI) values across the continental United States to determine the dominant pathways for water and nutrient inputs to streams. Estimates of the proportion of stream nitrate that was derived from groundwater increased as BFI increased. Nitrate concentration gradients between groundwater and surface water further supported the groundwater source of nitrate in these high BFI streams. However, nitrate concentrations in stream-bed pore water in all settings were typically lower than stream or upland groundwater concentrations, suggesting that nitrate discharge to streams was not uniform through the bed. Rather, preferential pathways (e.g., springs, seeps) may allow high nitrate groundwater to bypass sites of high biogeochemical transformation. Rapid pathway compartments (e.g., overland flow, tile drains) had OP concentrations that were typically higher than in streams and were important OP conveyers in most of these watersheds. In contrast to nitrate, the proportion of stream OP that is derived from ground water did not systematically increase as BFI increased. While typically not the dominant source of OP, groundwater discharge was an important pathway of OP transport to streams when BFI values were very high and when geochemical conditions favored OP mobility in groundwater. Copyright ?? 2009 by the American Society of Agronomy, Crop Science Society of America, and Soil Science Society of America. All rights reserved.

Near Surface Geophysical Investigations of Potential Direct Recharge Zones in the Biscayne Aquifer within Everglades National Park, Florida.

NASA Astrophysics Data System (ADS)

Mount, G.; Comas, X.

2017-12-01

The karstic Miami Limestone of the Biscayne aquifer is characterized as having water flow that is controlled by the presence of dissolution enhanced porosity and mega-porous features. The dissolution features and other high porosity areas create horizontal preferential flow paths and high rates of ground water velocity, which may not be accurately conceptualized in groundwater flow models. In addition, recent research suggests the presence of numerous vertical dissolution features across Everglades National Park at Long Pine Key Trail, that may act as areas of direct recharge to the aquifer. These vertical features have been identified through ground penetrating radar (GPR) surveys as areas of velocity pull-down which have been modeled to have porosity values higher than the surrounding Miami Limestone. As climate change may induce larger and longer temporal variability between wet and dry times in the Everglades, a more comprehensive understanding of preferential flow pathways from the surface to the aquifer would be a great benefit to modelers and planners. This research utilizes near surface geophysical techniques, such as GPR, to identify these vertical dissolution features and then estimate the spatial variability of porosity using petrophysical models. GPR transects that were collected for several kilometers along the Long Pine Key Trail, show numerous pull down areas that correspond to dissolution enhanced porosity zones within the Miami Limestone. Additional 3D GPR surveys have attempted to delineate the boundaries of these features to elucidate their geometry for future modelling studies. We demonstrate the ability of near surface geophysics and petrophysical models to identify dissolution enhanced porosity in shallow karstic limestones to better understand areas that may act as zones of direct recharge into the Biscayne Aquifer.

Comparing field investigations with laboratory models to predict landfill leachate emissions

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

Fellner, Johann; Doeberl, Gernot; Allgaier, Gerhard

2009-06-15

Investigations into laboratory reactors and landfills are used for simulating and predicting emissions from municipal solid waste landfills. We examined water flow and solute transport through the same waste body for different volumetric scales (laboratory experiment: 0.08 m{sup 3}, landfill: 80,000 m{sup 3}), and assessed the differences in water flow and leachate emissions of chloride, total organic carbon and Kjeldahl nitrogen. The results indicate that, due to preferential pathways, the flow of water in field-scale landfills is less uniform than in laboratory reactors. Based on tracer experiments, it can be discerned that in laboratory-scale experiments around 40% of pore watermore » participates in advective solute transport, whereas this fraction amounts to less than 0.2% in the investigated full-scale landfill. Consequences of the difference in water flow and moisture distribution are: (1) leachate emissions from full-scale landfills decrease faster than predicted by laboratory experiments, and (2) the stock of materials remaining in the landfill body, and thus the long-term emission potential, is likely to be underestimated by laboratory landfill simulations.« less

A difference in the pattern of repair in a large genomic region in UV-irradiated normal human and Cockayne syndrome cells.

PubMed

Shanower, G A; Kantor, G J

1997-11-01

Xeroderma pigmentosum group C cells repair DNA damaged by ultraviolet radiation in an unusual pattern throughout the genome. They remove cyclobutane pyrimidine dimers only from the DNA of transcriptionally active chromatin regions and only from the strand that contains the transcribed strand. The repair proceeds in a manner that creates damage-free islands which are in some cases much larger than the active gene associated with them. For example, the small transcriptionally active beta-actin gene (3.5 kb) is repaired as part of a 50 kb single-stranded region. The repair responsible for creating these islands requires active transcription, suggesting that the two activities are coupled. A preferential repair pathway in normal human cells promotes repair of actively transcribed DNA strands and is coupled to transcription. It is not known if similar large islands, referred to as repair domains, are preferentially created as a result of the coupling. Data are presented showing that in normal cells, preferential repair in the beta-actin region is associated with the creation of a large, completely repaired region in the partially repaired genome. Repair at other genomic locations which contain inactive genes (insulin, 754) does not create similar large regions as quickly. In contrast, repair in Cockayne syndrome cells, which are defective in the preferential repair pathway but not in genome-overall repair, proceeds in the beta-actin region by a mechanism which does not create preferentially a large repaired region. Thus a correlation between the activity required to preferentially repair active genes and that required to create repaired domains is detected. We propose an involvement of the transcription-repair coupling factor in a coordinated repair pathway for removing DNA damage from entire transcription units.

Preferential Use of Carbon Sources in Culturable Aerobic Mesophilic Bacteria of Coptotermes curvignathus's (Isoptera: Rhinotermitidae) Gut and Its Foraging Area.

PubMed

Wong, W Z; H'ng, P S; Chin, K L; Sajap, Ahmad Said; Tan, G H; Paridah, M T; Othman, Soni; Chai, E W; Go, W Z

2015-10-01

The lower termite, Coptotermes curvignathus, is one of the most prominent plantation pests that feed upon, digest, and receive nourishment from exclusive lignocellulose diets. The objective of this study was to examine the utilization of sole carbon sources by isolated culturable aerobic bacteria among communities from the gut and foraging pathway of C. curvignathus. We study the bacteria occurrence from the gut of C. curvignathus and its surrounding feeding area by comparing the obtained phenotypic fingerprint with Biolog's extensive species library. A total of 24 bacteria have been identified mainly from the family Enterobacteriaceae from the identification of Biolog Gen III. Overall, the bacteria species in the termite gut differ from those of foraging pathway within a location, except Acintobacter baumannii, which was the only bacteria species found in both habitats. Although termites from a different study area do not have the same species of bacteria in the gut, they do have a bacterial community with similar role in degrading certain carbon sources. Sugars were preferential in termite gut isolates, while nitrogen carbon sources were preferential in foraging pathway isolates. The preferential use of specific carbon sources by these two bacterial communities reflects the role of bacteria for regulation of carbon metabolism in the termite gut and foraging pathway. © The Authors 2015. Published by Oxford University Press on behalf of Entomological Society of America. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

Joint Use of ERT, Tracer, and Numerical Techniques to Image Preferential Flow Paths in a Fractured Granite Aquifer

NASA Astrophysics Data System (ADS)

Sanaga, S.; Vijay, S.; Kbvn, P.; Peddinti, S. R.; P S L, S.

2017-12-01

Fractured geologic media poses formidable challenges to hydrogeologists due of the strenuous mapping of fracture-matrix system and quantification of flow and transport processes. In this research, we demonstrated the efficacy of tracer-ERT studies coupled with numerical simulations to delineate preferential flow paths in a fractured granite aquifer of Deccan traps in India. A series of natural gradient saline tracer experiments were conducted from a depth window of 18 to 22 m in an injection well located inside the IIT Hyderabad campus. Tracer migration was monitored in a time-lapse mode using two cross-sectional surface ERT profiles placed in the direction of flow gradient. Dynamic changes in sub-surface electrical properties inferred via resistivity anomalies were used to highlight preferential flow paths of the study area. ERT-derived tracer breakthrough curves were in agreement with geochemical sample measurements (R2=0.74). Fracture geometry and hydraulic properties derived from ERT and pumping tests were then used to evaluate two mathematical conceptualizations that are relevant to fractured aquifers. Results of numerical analysis conclude that a dual continuum model that combines matrix and fracture systems through a flow exchange term has outperformed equivalent continuum model in reproducing tracer concentrations at the monitoring wells (evident by decrease in RMSE from 199 mg/l to 65 mg/l). A sensitivity analysis of the model parameters reveals that spatial variability in hydraulic conductivity, local-scale dispersion, and flow exchange at fracture-matrix interface have a profound effect on model simulations. Keywords: saline tracer, ERT, fractured granite, groundwater, preferential flow, numerical simulation

Observations on preferential flow and horizontal transport of nitrogen fertilizer in the unsaturated zone

USGS Publications Warehouse

Wilkison, D.H.; Blevins, D.W.

1999-01-01

A study site underlain by a claypan soil was instrumented to examine the transport of fertilizer nitrogen (N) under corn (Zea mays L.) cultivation. The study was designed to examine N transport within the unsaturated zone and in interflow (the saturated flow of water on top of the claypan). A 15N- labeled fertilizer (labeled N), bromide (Br), and chloride (Cl) were used as field tracers. Rapid or prolonged infiltration events allowed water and dissolved solutes to perch on the claypan for brief periods. However, a well- developed network of preferential flow paths quickly diverted water and solutes through the claypan and into the underlying glacial till aquifer. Excess fertilizer N in the unsaturated zone supplied a continuous, but declining input of N to ground water for a period of 15 mo after a single fertilizer application. Calculated solute velocities through the claypan matrix (6.4 x 10-6 cm s-1) were similar to horizontal transport rates along the claypan (3.5 to 7.3 x 10-6 cm s-1) but much slower than infiltration rates determined for preferential flow paths (1.67 x 10-3 cm s-1). These flow paths accounted for 35% of the transport. A seasonally variable, dual mode of transport (matrix and preferential flow) prevented the claypan from being an effective barrier to vertical transport. Simulations of selected field observations, conducted using the variably saturated two- dimensional flow and transport model, VS2DT, confirmed the presence of a dual flow regime in the claypan.

Colloid Mobilization in a Fractured Soil: Effect of Pore-Water Exchange between Preferential Flow Paths and Soil Matrix.

PubMed

Mohanty, Sanjay K; Saiers, James E; Ryan, Joseph N

2016-03-01

Exchange of water and solutes between contaminated soil matrix and bulk solution in preferential flow paths has been shown to contribute to the long-term release of dissolved contaminants in the subsurface, but whether and how this exchange can affect the release of colloids in a soil are unclear. To examine this, we applied rainfall solutions of different ionic strength on an intact soil core and compared the resulting changes in effluent colloid concentration through multiple sampling ports. The exchange of water between soil matrix and the preferential flow paths leading to each port was characterized on the basis of the bromide (conservative tracer) breakthrough time at the port. At individual ports, two rainfalls of a certain ionic strength mobilized different amounts of colloids when the soil was pre-exposed to a solution of lower or higher ionic strength. This result indicates that colloid mobilization depended on rainfall solution history, which is referred as colloid mobilization hysteresis. The extent of hysteresis was increased with increases in exchange of pore water and solutes between preferential flow paths and matrix. The results indicate that the soil matrix exchanged the old water from the previous infiltration with new infiltrating water during successive infiltration and changed the pore water chemistry in the preferential flow paths, which in turn affected the release of soil colloids. Therefore, rainfall solution history and soil heterogeneity must be considered to assess colloid mobilization in the subsurface. These findings have implications for the release of colloids, colloid-associated contaminants, and pathogens from soils.

Nano-iron Tracer Test for Characterizing Preferential Flow Path in Fractured Rock

NASA Astrophysics Data System (ADS)

Chia, Y.; Chuang, P. Y.

2015-12-01

Deterministic description of the discrete features interpreted from site characterization is desirable for developing a discrete fracture network conceptual model. It is often difficult, however, to delineate preferential flow path through a network of discrete fractures in the field. A preliminary cross-borehole nano-iron tracer test was conducted to characterize the preferential flow path in fractured shale bedrock at a hydrogeological research station. Prior to the test, heat-pulse flowmeter measurements were performed to detect permeable fracture zones at both the injection well and the observation well. While a few fracture zones are found permeable, most are not really permeable. Chemical reduction method was used to synthesize nano zero-valent iron particles with a diameter of 50~150 nm. The conductivity of nano-iron solution is about 3100 μs/cm. The recorded fluid conductivity shows the arrival of nano-iron solution in the observation well 11.5 minutes after it was released from the injection well. The magnetism of zero-valent iron enables it to be absorbed on magnet array designed to locate the depth of incoming tracer. We found nearly all of absorbed iron on the magnet array in the observation well were distributed near the most permeable fracture zone. The test results revealed a preferential flow path through a permeable fracture zone between the injection well and the observation well. The estimated hydraulic conductivity of the connected fracture is 2.2 × 10-3 m/s. This preliminary study indicated that nano-iron tracer test has the potential to characterize preferential flow path in fractured rock.

Identifying variably saturated water-flow patterns in a steep hillslope under intermittent heavy rainfall

USGS Publications Warehouse

El-Kadi, A. I.; Torikai, J.D.

2001-01-01

The objective of this paper is to identify water-flow patterns in part of an active landslide, through the use of numerical simulations and data obtained during a field study. The approaches adopted include measuring rainfall events and pore-pressure responses in both saturated and unsaturated soils at the site. To account for soil variability, the Richards equation is solved within deterministic and stochastic frameworks. The deterministic simulations considered average water-retention data, adjusted retention data to account for stones or cobbles, retention functions for a heterogeneous pore structure, and continuous retention functions for preferential flow. The stochastic simulations applied the Monte Carlo approach which considers statistical distribution and autocorrelation of the saturated conductivity and its cross correlation with the retention function. Although none of the models is capable of accurately predicting field measurements, appreciable improvement in accuracy was attained using stochastic, preferential flow, and heterogeneous pore-structure models. For the current study, continuum-flow models provide reasonable accuracy for practical purposes, although they are expected to be less accurate than multi-domain preferential flow models.

Navigation to the graveyard-induction of various pathways of necrosis and their classification by flow cytometry.

PubMed

Janko, Christina; Munoz, Luis; Chaurio, Ricardo; Maueröder, Christian; Berens, Christian; Lauber, Kirsten; Herrmann, Martin

2013-01-01

Apoptosis and necrosis reflect the program of cell death employed by a dying cell and the final stage of death, respectively. Whereas apoptosis is defined as a physiological, highly organized cell death process, necrosis is commonly considered to be accidental and uncontrolled. Physiological and weak pathological death stimuli preferentially induce apoptosis, while harsh non-physiological insults often immediately instigate (primary) necrosis. If an apoptosing cell transits into a phase of plasma membrane disintegration, this stage of death is referred to as secondary or post-apoptotic necrosis.Here, we present several conditions that stimulate primary and/or secondary necrosis and show that necrosis displays considerably different time courses. For subclassification of necrotic phenotypes we employed a flow cytometric single-tube 4-color staining technique including annexin A5-FITC, propidium iodide, DiIC1(5), and Hoechst 33342.

Identification of runoff formation with two dyes in a mid-latitude mountain headwater

NASA Astrophysics Data System (ADS)

Vlček, Lukáš; Falátková, Kristýna; Schneider, Philipp

2017-06-01

Subsurface flow in peat bog areas and its role in the hydrologic cycle has garnered increased attention as water scarcity and floods have increased due to a changing climate. In order to further probe the mechanisms in peat bog areas and contextualize them at the catchment scale, this experimental study identifies runoff formation at two opposite hillslopes in a peaty mountain headwater; a slope with organic peat soils and a shallow phreatic zone (0.5 m below surface), and a slope with mineral Podzol soils and no detectable groundwater (> 2 m below surface). Similarities and differences in infiltration, percolation and preferential flow paths between both hillslopes could be identified by sprinkling experiments with Brilliant Blue and Fluorescein sodium. To our knowledge, this is the first time these two dyes have been compared in their ability to stain preferential flow paths in soils. Dye-stained soil profiles within and downstream of the sprinkling areas were excavated parallel (lateral profiles) and perpendicular (frontal profiles) to the slopes' gradients. That way preferential flow patterns in the soil could be clearly identified. The results show that biomat flow, shallow subsurface flow in the organic topsoil layer, occurred at both hillslopes; however, at the peat bog hillslope it was significantly more prominent. The dye solutions infiltrated into the soil and continued either as lateral subsurface pipe flow in the case of the peat bog, or percolated vertically towards the bedrock in the case of the Podzol. This study provides evidence that subsurface pipe flow, lateral preferential flow along decomposed tree roots or logs in the unsaturated zone, is a major runoff formation process at the peat bog hillslope and in the adjacent riparian zone.

Impacts of preferential flow on coastal groundwater-surface water interactions: The heterogeneous volcanic aquifer of Hawaii

NASA Astrophysics Data System (ADS)

Geng, X.; Kreyns, P.; Koneshloo, M.; Michael, H. A.

2017-12-01

Groundwater flow and salt transport processes are important for protection of coastal water resources and ecosystems. Geological heterogeneity has been recognized as a key factor affecting rates and patterns of groundwater flow and the evolution of subsurface salinity distributions in coastal aquifers. The hydrogeologic system of the volcanic Hawaiian Islands is characterized by lava flows that can form continuous, connected geologic structures in subsurface. Understanding the role of geological heterogeneity in aquifer salinization and water exchange between aquifers and the ocean is essential for effective assessment and management of water resources in the Hawaii islands. In this study, surface-based geostatistical techniques were adopted to generate geologically-realistic, statistically equivalent model realizations of the hydrogeologic system on the Big Island of Hawaii. The density-dependent groundwater flow and solute transport code SEAWAT was used to perform 3D simulations to investigate subsurface flow and salt transport through these random realizations. Flux across the aquifer-ocean interface, aquifer salinization, and groundwater flow pathways and associated transit times were quantified. Numerical simulations of groundwater pumping at various positions in the aquifers were also conducted, and associated impacts on saltwater intrusion rates were evaluated. Results indicate the impacts of continuous geologic features on large-scale groundwater processes in coastal aquifers.

Evidence for preferential flux flow at the grain boundaries of superconducting RF-quality niobium

DOE PAGES

Sung, Z. -H.; Lee, P. J.; Gurevich, A.; ...

2018-02-19

Here, the question of whether grain boundaries (GBs) in niobium can be responsible for lowered operating field (B RF) or quality factor (Q 0) in superconducting radio-frequency (SRF) cavities is still controversial. Here, we show by direct DC transport across planar grain boundaries isolated from a slice of very large-grain SRF-quality Nb that vortices can preferentially flow along the grain boundary when the external magnetic field lies in the GB plane. However, increasing the misalignment between the GB plane and the external magnetic field vector markedly reduces preferential flux flow along GB. Importantly, we find that preferential GB flux flowmore » is more prominent for a buffered chemical polished than for an electropolished bi-crystal. The voltage-current characteristics of GBs are similar to those seen in low angle grain boundaries of high temperature superconductors where there is clear evidence of suppression of the superconducting order parameter at the GB. While local weakening of superconductivity at GBs in cuprates and pnictides is intrinsic, deterioration of current transparency of GBs in Nb appears to be extrinsic, since the polishing method clearly affect the local GB degradation. The dependence of preferential GB flux flow on important cavity preparation and experimental variables, particularly, the final chemical treatment and the angle between the magnetic field and the GB plane, suggests two more reasons why real cavity performance can be so variable.« less

Evidence for preferential flux flow at the grain boundaries of superconducting RF-quality niobium

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

Sung, Z. -H.; Lee, P. J.; Gurevich, A.

Here, the question of whether grain boundaries (GBs) in niobium can be responsible for lowered operating field (B RF) or quality factor (Q 0) in superconducting radio-frequency (SRF) cavities is still controversial. Here, we show by direct DC transport across planar grain boundaries isolated from a slice of very large-grain SRF-quality Nb that vortices can preferentially flow along the grain boundary when the external magnetic field lies in the GB plane. However, increasing the misalignment between the GB plane and the external magnetic field vector markedly reduces preferential flux flow along GB. Importantly, we find that preferential GB flux flowmore » is more prominent for a buffered chemical polished than for an electropolished bi-crystal. The voltage-current characteristics of GBs are similar to those seen in low angle grain boundaries of high temperature superconductors where there is clear evidence of suppression of the superconducting order parameter at the GB. While local weakening of superconductivity at GBs in cuprates and pnictides is intrinsic, deterioration of current transparency of GBs in Nb appears to be extrinsic, since the polishing method clearly affect the local GB degradation. The dependence of preferential GB flux flow on important cavity preparation and experimental variables, particularly, the final chemical treatment and the angle between the magnetic field and the GB plane, suggests two more reasons why real cavity performance can be so variable.« less

Spatial connectivity in a highly heterogeneous aquifer: From cores to preferential flow paths

USGS Publications Warehouse

Bianchi, M.; Zheng, C.; Wilson, C.; Tick, G.R.; Liu, Gaisheng; Gorelick, S.M.

2011-01-01

This study investigates connectivity in a small portion of the extremely heterogeneous aquifer at the Macrodispersion Experiment (MADE) site in Columbus, Mississippi. A total of 19 fully penetrating soil cores were collected from a rectangular grid of 4 m by 4 m. Detailed grain size analysis was performed on 5 cm segments of each core, yielding 1740 hydraulic conductivity (K) estimates. Three different geostatistical simulation methods were used to generate 3-D conditional realizations of the K field for the sampled block. Particle tracking calculations showed that the fastest particles, as represented by the first 5% to arrive, converge along preferential flow paths and exit the model domain within preferred areas. These 5% fastest flow paths accounted for about 40% of the flow. The distribution of preferential flow paths and particle exit locations is clearly influenced by the occurrence of clusters formed by interconnected cells with K equal to or greater than the 0.9 decile of the data distribution (10% of the volume). The fraction of particle paths within the high-K clusters ranges from 43% to 69%. In variogram-based K fields, some of the fastest paths are through media with lower K values, suggesting that transport connectivity may not require fully connected zones of relatively homogenous K. The high degree of flow and transport connectivity was confirmed by the values of two groups of connectivity indicators. In particular, the ratio between effective and geometric mean K (on average, about 2) and the ratio between the average arrival time and the arrival time of the fastest particles (on average, about 9) are consistent with flow and advective transport behavior characterized by channeling along preferential flow paths. ?? 2011 by the American Geophysical Union.

Laboratory-based observations of capillary barriers and preferential flow in layered snow

NASA Astrophysics Data System (ADS)

Avanzi, F.; Hirashima, H.; Yamaguchi, S.; Katsushima, T.; De Michele, C.

2015-12-01

Several evidences are nowadays available that show how the effects of capillary gradients and preferential flow on water transmission in snow may play a more important role than expected. To observe these processes and to contribute in their characterization, we performed observations on the development of capillary barriers and preferential flow patterns in layered snow during cold laboratory experiments. We considered three different layering (all characterized by a finer-over-coarser texture in grain size) and three different water input rates. Nine samples of layered snow were sieved in a cold laboratory, and subjected to a constant supply of dyed tracer. By means of visual inspection, horizontal sectioning and liquid water content measurements, the processes of ponding and preferential flow were characterized as a function of texture and water input rate. The dynamics of each sample were replicated using the multi-layer physically-based SNOWPACK model. Results show that capillary barriers and preferential flow are relevant processes ruling the speed of liquid water in stratified snow. Ponding is associated with peaks in LWC at the boundary between the two layers equal to ~ 33-36 vol. % when the upper layer is composed by fine snow (grain size smaller than 0.5 mm). The thickness of the ponding layer at the textural boundary is between 0 and 3 cm, depending on sample stratigraphy. Heterogeneity in water transmission increases with grain size, while we do not observe any clear dependency on water input rate. The extensive comparison between observed and simulated LWC profiles by SNOWPACK (using an approximation of Richards Equation) shows high performances by the model in estimating the LWC peak over the boundary, while water speed in snow is underestimated by the chosen water transport scheme.

[Characters of infiltration and preferential flow of black soil in Northeast China under different tillage patterns].

PubMed

Li, Wen-Feng; Zhang, Xiao-Ping; Liang, Ai-Zhen; Shen, Yan; Shi, Xiu-Huan; Luo, Jin-Ming; Yang, Xue-Ming

2008-07-01

By using dye tracer and double-ring infiltrometer techniques, the characters of infiltration and preferential flow of black soil under no-tillage (NT) and fall moldboard plow (MP) were compared after six years continuous management. The results showed that the infiltration rate was higher under NT than under MP. When the infiltration reached steady, the infiltration rate and accumulative infiltration capacity under NT were 1.35 and 1.44 times as high as those under MP, respectively. The penetration depth of methylene blue reached a depth of 43 cm in NT soil, being 16 cm deeper than that in MP soil. Comparing with MP soil, NT soil had better development of pore structure and more biological pores, and presented better preferential flow character, which were of importance for water infiltration and soil and water conservation.

Solute transport along preferential flow paths in unsaturated fractures

USGS Publications Warehouse

Su, Grace W.; Geller, Jil T.; Pruess, Karsten; Hunt, James R.

2001-01-01

Laboratory experiments were conducted to study solute transport along preferential flow paths in unsaturated, inclined fractures. Qualitative aspects of solute transport were identified in a miscible dye tracer experiment conducted in a transparent replica of a natural granite fracture. Additional experiments were conducted to measure the breakthrough curves of a conservative tracer introduced into an established preferential flow path in two different fracture replicas and a rock‐replica combination. The influence of gravity was investigated by varying fracture inclination. The relationship between the travel times of the solute and the relative influence of gravity was substantially affected by two modes of intermittent flow that occurred: the snapping rivulet and the pulsating blob modes. The measured travel times of the solute were evaluated with three transfer function models: the axial dispersion, the reactors‐in‐series, and the lognormal models. The three models described the solute travel times nearly equally well. A mechanistic model was also formulated to describe transport when the pulsating blob mode occurred which assumed blobs of water containing solute mixed with residual pools of water along the flow path.

Nitric oxide production from macrophages is regulated by arachidonic acid metabolites.

PubMed

Imai, Y; Kolb, H; Burkart, V

1993-11-30

In activated macrophages the inducible form of the enzyme nitric oxide (NO) synthase generates high amounts of the toxic mediator NO. After 20 h of treatment with LPS rat peritoneal macrophages release 12-16 nmol NO2-/10(5) cells which is detectable in the culture supernatant by the Griess reaction as a measure of NO formation. The addition of aminoguanidine (1 mM), a preferential inhibitor of the inducible NO-synthase, completely abolished NO2-accumulation. Incubation with indomethacin or acetyl-salicylic acid, preferential inhibitors of the cyclooxygenase pathway of the arachidonic acid metabolism, did not influence NO2- levels. Nordihydro-guaiaretic acid (50 microM), a preferential inhibitor of the lipoxygenase pathway, caused strong reduction of NO2- accumulation to 1.9 +/- 0.3 nmol/200 microliter. Simultaneous inhibition of cyclo- and lipoxygenase by BW755c resulted in an intermediate effect (7.3 +/- 1.1 nmol/200 microliter NO2-). These results show that the induction of NO production in activated macrophages is regulated by products of the lipoxygenase-pathway of the arachidonic acid metabolism.

Tracer and hydrometric study of preferential flow in large undisturbed soil cores from the Georgia Piedmont, USA

USGS Publications Warehouse

McIntosh, Janice; McDonnell, Jeffrey J.; Peters, Norman E.

1999-01-01

We studied the temporal patterns of tracer throughput in the outflow of large (30 cm diameter by 38 cm long) undisturbed cores from the Panola Mountain Research Watershed, Georgia. Tracer breakthrough was affected by soil structure and rainfall intensity. Two rainfall intensities (20 and 40 mm hr-1) for separate Cl- and Br- amended solutions were applied to two cores (one extracted from a hillslope soil and one extracted from a residual clay soil on the ridge). For both low and high rainfall intensity experiments, preferential flow occurred in the clay core, but not in the hillslope core. The preferential flow is attributed to well-developed interpedal macrochannels that are commonly found in structured clay soils, characteristic of the ridge site. However, each rainfall intensity exceeded the matrix infiltration capacity at the top of the hillslope core, but did not exceed the matrix infiltration capacity at the middle and bottom of the hillslope core and at all levels in the clay core. Localized zones of saturation created when rainfall intensity exceeds the matrix infiltration capacity may cause water and tracer to overflow from the matrix into macrochannels, where preferential flow occurs to depth in otherwise unsaturated soil. Copyright © 1999 John Wiley & Sons, Ltd.

Transport and modeling of estrogenic hormones in a dairy farm effluent through undisturbed soil lysimeters.

PubMed

Steiner, Laure D; Bidwell, Vincent J; Di, Hong J; Cameron, Keith C; Northcott, Grant L

2010-04-01

The presence of endocrine-disrupting chemicals, including estrone (E1) and 17beta-estradiol (E2), in surface waters has been associated with physiological dysfunction in a number of aquatic organisms. One source of surface and groundwater contamination with E1 and E2 is the land application of animal wastes. The processes involved in the transport of these hormones in the soil, when applied with animal wastes, are still unclear. Therefore, a field-transport experiment was carried out, where a dairy farm effluent spiked with E1 and E2 was applied on large (50 cm diameter and 70 cm depth) undisturbed soil lysimeters. The concentrations of E1 and E2 in the leachate were monitored over a 3-month period, during which irrigation was applied. The experimental data suggest that E1 and E2 were transported through preferential/macropore flow pathways. The data from the experiment also show that E1 and E2 are leached earlier than the inert tracer (bromide). This observation can be explained either by the presence of antecedent concentrations in the soil or by an enhanced transport of E1 and E2 through the soil. A state-space mixing-cell model was further developed in order to describe the transport of E1 and E2 by three transport processes in parallel. The inverse modeling of the leaching data did not support the hypothesis that antecedent concentrations of estrogens could be responsible for the observed breakthrough curves but confirmed that estrogens were transported mainly via preferential/macropore flow and also via an enhanced transport. The parameter values that characterized this enhanced transport strongly suggest that this enhanced transport is mediated by colloids. For the first time, the simultaneous transport of E1 and E2 was modeled under transient conditions, taking into account the advection-dispersion, preferential/macropore flow, and colloidal-enhanced transport processes as well as E1 and E2 dissipation in the soil. These findings have major implications in terms of management practices to decrease E1 and E2 transport and water contamination.

Dihydroartemisinin induces apoptosis preferentially via a Bim-mediated intrinsic pathway in hepatocarcinoma cells.

PubMed

Qin, Guiqi; Zhao, ChuBiao; Zhang, Lili; Liu, Hongyu; Quan, Yingyao; Chai, Liuying; Wu, Shengnan; Wang, Xiaoping; Chen, Tongsheng

2015-08-01

This report is designed to dissect the detail molecular mechanism by which dihydroartemisinin (DHA), a derivative of artemisinin, induces apoptosis in human hepatocellular carcinoma (HCC) cells. DHA induced a loss of the mitochondrial transmemberane potential (ΔΨm), release of cytochrome c, activation of caspases, and externalization of phosphatidylserine indicative of apoptosis induction. Compared with the modest inhibitory effects of silencing Bax, silencing Bak largely prevented DHA-induced ΔΨm collapse and apoptosis though DHA induced a commensurable activation of Bax and Bak, demonstrating a key role of the Bak-mediated intrinsic apoptosis pathway. DHA did not induce Bid cleavage and translocation from cytoplasm to mitochondria and had little effects on the expressions of Puma and Noxa, but did increase Bim and Bak expressions and decrease Mcl-1 expression. Furthermore, the cytotoxicity of DHA was remarkably reduced by silencing Bim, and modestly but significantly reduced by silencing Puma or Noxa. Silencing Bim or Noxa preferentially reduced DHA-induced Bak activation, while silencing Puma preferentially reduced DHA-induced Bax activation, demonstrating that Bim and to a lesser extent Noxa act as upstream mediators to trigger the Bak-mediated intrinsic apoptosis pathway. In addition, silencing Mcl-1 enhanced DHA-induced Bak activation and apoptosis. Taken together, our data demonstrate a crucial role of Bim in preferentially regulating the Bak/Mcl-1 rheostat to mediate DHA-induced apoptosis in HCC cells.

Connectivity of Secondary Channels in the Floodplain of a Low-Gradient Midwestern U.S. Agricultural River

NASA Astrophysics Data System (ADS)

Czuba, J. A.; David, S. R.; Edmonds, D. A.

2016-12-01

Floodplains of low-gradient Midwestern U.S. agricultural rivers are commonly dissected by a network of secondary channels that convey flow only during flood events. These networks of secondary channels have only recently been revealed by high resolution digital elevation models. Secondary channels, as referred to here, span multiple meander wavelengths and appear fundamentally different from chute channels. While secondary channels have been described to some extent in other river systems, our focus here is on those found in Indiana, which are revealed by state-wide LiDAR data acquired in 2011. In this work, we quantify how the network connectivity of the secondary channels in the floodplain develops as a function of flow stage. Secondary channels begin conveying water at stages just below bankfull, become an interconnected web of flow pathways above bankfull stage, and are completely inundated at higher stages. We construct a two-dimensional numerical model of the river/floodplain system from LiDAR data and from main-channel river bathymetry in order to obtain the extent of floodplain inundation at various flows. The inundated area within the secondary channels is then converted into a river/floodplain flow-channel network and quantified using various network metrics. Future work will explore the morphodynamics of this river/floodplain system extended to 100-1,000 year timescales. The goal is to develop a simple model to test hypotheses about how these floodplain channels evolve. Relevant research questions include: do secondary channels serve as preferential avulsion pathways? Or could secondary channels evolve to create a multi-channeled anabranching system? Furthermore, under what hydrologic and sedimentologic conditions would a river/floodplain system evolve to one state or another?

A novel representation of chalk hydrology in a land surface model

NASA Astrophysics Data System (ADS)

Rahman, Mostaquimur; Rosolem, Rafael

2016-04-01

Unconfined chalk aquifers contain a significant portion of water in the United Kingdom. In order to optimize the assessment and management practices of water resources in the region, modelling and monitoring of soil moisture in the unsaturated zone of the chalk aquifers are of utmost importance. However, efficient simulation of soil moisture in such aquifers is difficult mainly due to the fractured nature of chalk, which creates high-velocity preferential flow paths in the unsaturated zone. In this study, the Joint UK Land Environment Simulator (JULES) is applied on a study area encompassing the Kennet catchment in Southern England. The fluxes and states of the coupled water and energy cycles are simulated for 10 consecutive years (2001-2010). We hypothesize that explicit representation for the soil-chalk layers and the inclusion of preferential flow in the fractured chalk aquifers improves the reproduction of the hydrological processes in JULES. In order to test this hypothesis, we propose a new parametrization for preferential flow in JULES. This parametrization explicitly describes the flow of water in soil matrices and preferential flow paths using a simplified approach which can be beneficial for large-scale hydrometeorological applications. We also define the overlaying soil properties obtained from the Harmonized World Soil Database (HWSD) in the model. Our simulation results are compared across spatial scales with measured soil moisture and river discharge, indicating the importance of accounting for the physical properties of the medium while simulating hydrological processes in the chalk aquifers.

Alternative lengthening of telomeres can be maintained by preferential elongation of lagging strands

PubMed Central

Min, Jaewon; Wright, Woodring E.

2017-01-01

Abstract Alternative lengthening of telomeres (ALT) is a telomerase independent telomere maintenance mechanism that occurs in ∼15% of cancers. The potential mechanism of ALT is homology-directed telomere synthesis, but molecular mechanisms of how ALT maintains telomere length in human cancer is poorly understood. Here, we generated TERC (telomerase RNA) gene knockouts in telomerase positive cell lines that resulted in long-term surviving clones acquiring the ALT pathway but at a very low frequency. By comparing these ALT cells with parental telomerase positive cells, we observed that ALT cells possess excessively long telomeric overhangs derived from telomere elongation processes that mostly occur during S phase. ALT cells exhibited preferential elongation of the telomeric lagging strands, whereas telomerase positive cells exhibited similar elongation between leading and lagging strands. We propose that the ALT pathway preferentially occurs at telomeric lagging strands leading to heterogeneous telomere lengths observed in most ALT cancers. PMID:28082393

Use of soil moisture dynamics and patterns for the investigation of runoff generation processes with emphasis on preferential flow

NASA Astrophysics Data System (ADS)

Blume, T.; Zehe, E.; Bronstert, A.

2007-08-01

Spatial patterns as well as temporal dynamics of soil moisture have a major influence on runoff generation. The investigation of these dynamics and patterns can thus yield valuable information on hydrological processes, especially in data scarce or previously ungauged catchments. The combination of spatially scarce but temporally high resolution soil moisture profiles with episodic and thus temporally scarce moisture profiles at additional locations provides information on spatial as well as temporal patterns of soil moisture at the hillslope transect scale. This approach is better suited to difficult terrain (dense forest, steep slopes) than geophysical techniques and at the same time less cost-intensive than a high resolution grid of continuously measuring sensors. Rainfall simulation experiments with dye tracers while continuously monitoring soil moisture response allows for visualization of flow processes in the unsaturated zone at these locations. Data was analyzed at different spacio-temporal scales using various graphical methods, such as space-time colour maps (for the event and plot scale) and indicator maps (for the long-term and hillslope scale). Annual dynamics of soil moisture and decimeter-scale variability were also investigated. The proposed approach proved to be successful in the investigation of flow processes in the unsaturated zone and showed the importance of preferential flow in the Malalcahuello Catchment, a data-scarce catchment in the Andes of Southern Chile. Fast response times of stream flow indicate that preferential flow observed at the plot scale might also be of importance at the hillslope or catchment scale. Flow patterns were highly variable in space but persistent in time. The most likely explanation for preferential flow in this catchment is a combination of hydrophobicity, small scale heterogeneity in rainfall due to redistribution in the canopy and strong gradients in unsaturated conductivities leading to self-reinforcing flow paths.

Infiltration Processes and Flow Velocities Across the Landscape: When and Where is Macropore Flow Relevant?

NASA Astrophysics Data System (ADS)

Demand, D.; Blume, T.; Weiler, M.

2017-12-01

Preferential flow in macropores significantly affects the distributions of water and solutes in soil and many studies showed its relevance worldwide. Although some models include this process as a second pore domain, little is known about the spatial patterns and temporal dynamics. For example, while flow in the matrix is usually modeled and parameterized based on soil texture, an influence of texture on non-capillary flow for a given land-use class is poorly understood. To investigate the temporal and spatial dynamics on preferential flow we used a four-year soil moisture dataset from the mesoscale Attert catchment (288 km²) in Luxembourg. This dataset contains time series from 126 soil profiles in different textures and two land-use classes (forest, grassland). The soil moisture probes were installed in 10, 30 and 50 cm depth and measured in a 5-minute temporal resolution. Events were defined by a soil moisture increase higher than the instrument noise after a precipitation sum of more than 1 mm. Precipitation was measured next to the profiles so that each location could be associated to its unique precipitation characteristics. For every event and profile the soil moisture reaction was classified in sequential (ordered by depth) and non-sequential response. A non-sequential soil moisture reaction was used as an indicator of preferential flow. For sequential flow, the velocity was determined by the first reaction between two vertically adjacent sensors. The sensor reaction and wetting front velocity was analyzed in the context of precipitation characteristics and initial soil water content. Grassland sites showed a lower proportion of non-sequential flow than forest sites. For forest, non-sequential response is dependent on texture, rainfall intensity and initial water content. This is less distinct for the grassland sites. Furthermore, sequential reactions show higher flow velocities at sites, which also have high percentage of non-sequential response. In contrast, grassland sites show a more homogenous wetting front independent of soil texture. Compared against common modelling approaches of soil water flow, measured velocities show clear evidence of preferential flow, especially for forest soils. The analysis also shows that vegetation can alter the soil properties above the textural properties alone.

Surface geophysics and porewater evaluation at the Lower Darby Creek Area Superfund Site, Philadelphia, Pennsylvania, 2013

USGS Publications Warehouse

Walker, Charles W.; Degnan, James R.; Brayton, Michael J.; Cruz, Roberto M.; Lorah, Michelle M.

2015-01-01

In cooperation with the U.S. Environmental Protection Agency (EPA), Region 3, the U.S. Geological Survey (USGS) is participating in an ongoing study to aid in the identification of subsurface heterogeneities that may act as preferential pathways for contaminant transport in and around the Lower Darby Creek Area (LDCA) Superfund Site, Philadelphia Pa. Lower Darby Creek, which flows into the Delaware River, borders the western part of the former landfill site. In 2013, the USGS conducted surface geophysics measurements and stream porewater sampling to provide additional data for EPA’s site characterization. This report contains data collected from field measurements of direct current (DC) resistivity, frequency-domain electromagnetic (FDEM) surveys, and stream porewater specific conductance (SC).

Fracture sealing caused by mineral precipitation: The role of aperture and mineral heterogeneity on precipitation-induced permeability loss

NASA Astrophysics Data System (ADS)

Jones, T.; Detwiler, R. L.

2017-12-01

Fractures act as dominant pathways for fluid flow in low-permeability rocks. However, in many subsurface environments, fluid rock reactions can lead to mineral precipitation, which alters fracture surface geometry and reduces fracture permeability. In natural fractures, surface mineralogy and roughness are often heterogeneous, leading to variations in both velocity and reactive surface area. The combined effects of surface roughness and mineral heterogeneity can lead to large disparities in local precipitation rates that are difficult to predict due to the strong coupling between dissolved mineral transport and reactions at the fracture surface. Recent experimental observations suggest that mineral precipitation in a heterogeneous fracture may promote preferential flow and focus large dissolved ion concentrations into regions with limited reactive surface area. Here, we build on these observations using reactive transport simulations. Reactive transport is simulated with a quasi-steady-state 2D model that uses a depth-averaged mass-transfer relationship to describe dissolved mineral transport across the fracture aperture and local precipitation reactions. Mineral precipitation-induced changes to fracture surface geometry are accounted for using two different approaches: (1) by only allowing reactive minerals to grow vertically, and (2) by allowing three-dimensional mineral growth at reaction sites. Preliminary results from simulations using (1) suggest that precipitation-induced aperture reduction focuses flow into thin flow paths. This flow focusing causes a reduction in the fracture-scale precipitation rate, and precipitation ceases when the reaction zone extends the entire length of the fracture. This approach reproduces experimental observations at early time reasonably well, but as precipitation proceeds, reaction sites can grow laterally along the fracture surfaces, which is not predicted by (1). To account for three-dimensional mineral growth (2), we have incorporated a level-set-method based approach for tracking the mineral interfaces in three dimensions. This provides a mechanistic approach for simulating the dynamics of the formation, and eventual closing, of preferential flow paths by precipitation-induced aperture alteration, that do not occur using (1).

Effects of preferential concentration on direct radiation transmission in a turbulent duct flow

NASA Astrophysics Data System (ADS)

Villafane, Laura; Banko, Andrew; Kim, Ji Hoon; Elkins, Chris; Eaton, John

2017-11-01

Inertial particles in turbulent flows preferentially concentrate, giving rise to spatial and temporal fluctuations of particle number density that affect radiation transmission through the medium. Positive particle correlations enhance direct transmission when compared to the exponential attenuation predicted by the Beer's Law for randomly distributed particles. In the context of a particle based solar receiver, this work studies the effects of preferential concentration and optical depth on direct transmission through a particle laden turbulent duct flow. Time resolved measurements of transmission through the mixture were performed for various particle loadings and Reynolds numbers, thus varying particle correlation lengths, optical depth and concentration fluctuations. These measurements were made using a photodiode to record the transmission of a collimated laser beam along the wall bisector of the duct. A synchronized high-speed camera provided particle positions along most of the beam path. Average and fluctuating radiation transmission results are compared to predictions derived from the imaged number density fields and to simplified analytical models. Simplified models are able to capture the correct trends with varying loading and preferential concentration. This work is funded by the Department of Energy's National Nuclear Security Administration, Grant #DE-NA0002373-1.

Analysis of TCE Fate and Transport in Karst Groundwater Systems Using Statistical Mixed Models

NASA Astrophysics Data System (ADS)

Anaya, A. A.; Padilla, I. Y.

2012-12-01

Karst groundwater systems are highly productive and provide an important fresh water resource for human development and ecological integrity. Their high productivity is often associated with conduit flow and high matrix permeability. The same characteristics that make these aquifers productive also make them highly vulnerable to contamination and a likely for contaminant exposure. Of particular interest are trichloroethylene, (TCE) and Di-(2-Ethylhexyl) phthalate (DEHP). These chemicals have been identified as potential precursors of pre-term birth, a leading cause of neonatal complications with a significant health and societal cost. Both of these contaminants have been found in the karst groundwater formations in this area of the island. The general objectives of this work are to: (1) develop fundamental knowledge and determine the processes controlling the release, mobility, persistence, and possible pathways of contaminants in karst groundwater systems, and (2) characterize transport processes in conduit and diffusion-dominated flow under base flow and storm flow conditions. The work presented herein focuses on the use of geo-hydro statistical tools to characterize flow and transport processes under different flow regimes, and their application in the analysis of fate and transport of TCE. Multidimensional, laboratory-scale Geo-Hydrobed models (GHM) were used for this purpose. The models consist of stainless-steel tanks containing karstified limestone blocks collected from the karst aquifer formation of northern Puerto Rico. The models integrates a network of sampling wells to monitor flow, pressure, and solute concentrations temporally and spatially. Experimental work entails injecting dissolved CaCl2 tracers and TCE in the upstream boundary of the GHM while monitoring TCE and tracer concentrations spatially and temporally in the limestone under different groundwater flow regimes. Analysis of the temporal and spatial concentration distributions of solutes indicates a highly heterogeneous system resulting in large preferential flow components. The distributions are highly correlated with statistically-developed spatial flow models. High degree of tailing in breakthrough curves indicate significant amount of mass limitations, particularly in diffuse flow regions. Higher flow rates in the system result in increasing preferential flow region volumes, but lower mass transfer limitations. Future work will involve experiments with non-aqueous phase liquid TCE, DEHP, and a mixture of these, and geo-temporal statistical modeling. This work is supported by the U.S. Department of Energy, Savannah River (Grant Award No. DE-FG09-07SR22571), and the National Institute of Environmental Health Sciences (NIEHS, Grant Award No. P42ES017198).

Dissipation of hydrological tracers and the herbicide S-metolachlor in batch and continuous-flow wetlands.

PubMed

Maillard, Elodie; Lange, Jens; Schreiber, Steffi; Dollinger, Jeanne; Herbstritt, Barbara; Millet, Maurice; Imfeld, Gwenaël

2016-02-01

Pesticide dissipation in wetland systems with regard to hydrological conditions and operational modes is poorly known. Here, we investigated in artificial wetlands the impact of batch versus continuous-flow modes on the dissipation of the chiral herbicide S-metolachlor (S-MET) and hydrological tracers (bromide, uranine and sulforhodamine B). The wetlands received water contaminated with the commercial formulation Mercantor Gold(®) (960 g L(-1) of S-MET, 87% of the S-enantiomer). The tracer mass budget revealed that plant uptake, sorption, photo- and presumably biodegradation were prominent under batch mode (i.e. characterized by alternating oxic-anoxic conditions), in agreement with large dissipation of S-MET (90%) under batch mode. Degradation was the main dissipation pathway of S-MET in the wetlands. The degradate metolachlor oxanilic acid (MOXA) mainly formed under batch mode, whereas metolachlor ethanesulfonic acid (MESA) prevailed under continuous-flow mode, suggesting distinct degradation pathways in each wetland. R-enantiomer was preferentially degraded under batch mode, which indicated enantioselective biodegradation. The release of MESA and MOXA by the wetlands as well as the potential persistence of S-MET compared to R-MET under both oxic and anoxic conditions may be relevant for groundwater and ecotoxicological risk assessment. This study shows the effect of batch versus continuous modes on pollutant dissipation in wetlands, and that alternate biogeochemical conditions under batch mode enhance S-MET biodegradation. Copyright © 2015 Elsevier Ltd. All rights reserved.

Evaluation of the hydrological flow paths in a gravel bed filter modeling a horizontal subsurface flow wetland by using a multi-tracer experiment.

PubMed

Birkigt, Jan; Stumpp, Christine; Małoszewski, Piotr; Nijenhuis, Ivonne

2018-04-15

In recent years, constructed wetland systems have become into focus as means of cost-efficient organic contaminant management. Wetland systems provide a highly reactive environment in which several removal pathways of organic chemicals may be present at the same time; however, specific elimination processes and hydraulic conditions are usually separately investigated and thus not fully understood. The flow system in a three dimensional pilot-scale horizontal subsurface constructed wetland was investigated applying a multi-tracer test combined with a mathematical model to evaluate the flow and transport processes. The results indicate the existence of a multiple flow system with two distinct flow paths through the gravel bed and a preferential flow at the bottom transporting 68% of tracer mass resulting from the inflow design of the model wetland system. There the removal of main contaminant chlorobenzene was up to 52% based on different calculation approaches. Determined retention times in the range of 22d to 32.5d the wetland has a heterogeneous flow pattern. Differences between simulated and measured tracer concentrations in the upper sediment indicate diffusion dominated processes due to stagnant water zones. The tracer study combining experimental evaluation with mathematical modeling demonstrated the complexity of flow and transport processes in the constructed wetlands which need to be taken into account during interpretation of the determining attenuation processes. Copyright © 2017 Elsevier B.V. All rights reserved.

AMP and adenosine are both ligands for adenosine 2B receptor signaling.

PubMed

Holien, Jessica K; Seibt, Benjamin; Roberts, Veena; Salvaris, Evelyn; Parker, Michael W; Cowan, Peter J; Dwyer, Karen M

2018-01-15

Adenosine is considered the canonical ligand for the adenosine 2B receptor (A 2B R). A 2B R is upregulated following kidney ischemia augmenting post ischemic blood flow and limiting tubular injury. In this context the beneficial effect of A 2B R signaling has been attributed to an increase in the pericellular concentration of adenosine. However, following renal ischemia both kidney adenosine monophosphate (AMP) and adenosine levels are substantially increased. Using computational modeling and calcium mobilization assays, we investigated whether AMP could also be a ligand for A 2B R. The computational modeling suggested that AMP interacts with more favorable energy to A 2B R compared with adenosine. Furthermore, AMPαS, a non-hydrolyzable form of AMP, increased calcium uptake by Chinese hamster ovary (CHO) cells expressing the human A 2B R, indicating preferential signaling via the G q pathway. Therefore, a putative AMP-A 2B R interaction is supported by the computational modeling data and the biological results suggest this interaction involves preferential G q activation. These data provide further insights into the role of purinergic signaling in the pathophysiology of renal IRI. Copyright © 2017 Elsevier Ltd. All rights reserved.

Modeling flow pathways through pores and cracks in aerated soils

NASA Astrophysics Data System (ADS)

Kumar, Mohi

2011-08-01

Knowledge of how chemical contaminants spread through soil is of vital importance to those who manage groundwater and agricultural resources, superfund sites, landfills, and mines. Of particular interest to contaminant transport studies is crop management—though crops can be victims of pollution from elsewhere, fertilizers and other agricultural chemicals can leach through the soil and infiltrate groundwater. The spread of such contaminants from farmland not only is influenced by the amount of chemicals used for farming but also depends on how agriculture affects soil—activities such as mechanized farming, irrigation scheduling, swelling and shrinking properties, crop-rooting characteristics, and earthworm or other biological activity can influence the amount and size of air pockets in the soil. These “macropores”—so named because they are typically about 1 millimeter or larger in diameter—can allow agricultural contaminants to move through the soil more rapidly, along preferential flow paths. (Water Resources Research, doi:10.1029/2010WR009451, 2011)

Review: Groundwater flow and transport modeling of karst aquifers, with particular reference to the North Coast Limestone aquifer system of Puerto Rico

PubMed Central

Ghasemizadeh, Reza; Hellweger, Ferdinand; Butscher, Christoph; Padilla, Ingrid; Vesper, Dorothy; Field, Malcolm; Alshawabkeh, Akram

2013-01-01

Karst systems have a high degree of heterogeneity and anisotropy, which makes them behave very differently from other aquifers. Slow seepage through the rock matrix and fast flow through conduits and fractures result in a high variation in spring response to precipitation events. Contaminant storage occurs in the rock matrix and epikarst, but contaminant transport occurs mostly along preferential pathways that are typically inaccessible locations, which makes modeling of karst systems challenging. Computer models for understanding and predicting hydraulics and contaminant transport in aquifers make assumptions about the distribution and hydraulic properties of geologic features that may not always apply to karst aquifers. This paper reviews the basic concepts, mathematical descriptions, and modeling approaches for karst systems. The North Coast Limestone aquifer system of Puerto Rico (USA) is introduced as a case study to illustrate and discuss the application of groundwater models in karst aquifer systems to evaluate aquifer contamination. PMID:23645996

A stilbenoid-specific prenyltransferase utilizes dimethylallyl pyrophosphate from the plastidic terpenoid pathway

USDA-ARS?s Scientific Manuscript database

Prenylated stilbenoids found preferentially in a few legume plants exhibit phytoalexin properties and pharmacological activities with potential benefits to human health. Despite their importance, the biosynthetic pathways of these compounds remain to be elucidated. Peanut (Arachis hypogaea) hairy r...

Theory for source-responsive and free-surface film modeling of unsaturated flow

USGS Publications Warehouse

Nimmo, J.R.

2010-01-01

A new model explicitly incorporates the possibility of rapid response, across significant distance, to substantial water input. It is useful for unsaturated flow processes that are not inherently diffusive, or that do not progress through a series of equilibrium states. The term source-responsive is used to mean that flow responds sensitively to changing conditions at the source of water input (e.g., rainfall, irrigation, or ponded infiltration). The domain of preferential flow can be conceptualized as laminar flow in free-surface films along the walls of pores. These films may be considered to have uniform thickness, as suggested by field evidence that preferential flow moves at an approximately uniform rate when generated by a continuous and ample water supply. An effective facial area per unit volume quantitatively characterizes the medium with respect to source-responsive flow. A flow-intensity factor dependent on conditions within the medium represents the amount of source-responsive flow at a given time and position. Laminar flow theory provides relations for the velocity and thickness of flowing source-responsive films. Combination with the Darcy-Buckingham law and the continuity equation leads to expressions for both fluxes and dynamic water contents. Where preferential flow is sometimes or always significant, the interactive combination of source-responsive and diffuse flow has the potential to improve prediction of unsaturated-zone fluxes in response to hydraulic inputs and the evolving distribution of soil moisture. Examples for which this approach is efficient and physically plausible include (i) rainstorm-generated rapid fluctuations of a deep water table and (ii) space- and time-dependent soil water content response to infiltration in a macroporous soil. ?? Soil Science Society of America.

Delayed Early Primary Visual Pathway Development in Premature Infants: High Density Electrophysiological Evidence

PubMed Central

Tremblay, Emmanuel; Vannasing, Phetsamone; Roy, Marie-Sylvie; Lefebvre, Francine; Kombate, Damelan; Lassonde, Maryse; Lepore, Franco; McKerral, Michelle; Gallagher, Anne

2014-01-01

In the past decades, multiple studies have been interested in developmental patterns of the visual system in healthy infants. During the first year of life, differential maturational changes have been observed between the Magnocellular (P) and the Parvocellular (P) visual pathways. However, few studies investigated P and M system development in infants born prematurely. The aim of the present study was to characterize P and M system maturational differences between healthy preterm and fullterm infants through a critical period of visual maturation: the first year of life. Using a cross-sectional design, high-density electroencephalogram (EEG) was recorded in 31 healthy preterms and 41 fullterm infants of 3, 6, or 12 months (corrected age for premature babies). Three visual stimulations varying in contrast and spatial frequency were presented to stimulate preferentially the M pathway, the P pathway, or both systems simultaneously during EEG recordings. Results from early visual evoked potentials in response to the stimulation that activates simultaneously both systems revealed longer N1 latencies and smaller P1 amplitudes in preterm infants compared to fullterms. Moreover, preterms showed longer N1 and P1 latencies in response to stimuli assessing the M pathway at 3 months. No differences between preterms and fullterms were found when using the preferential P system stimulation. In order to identify the cerebral generator of each visual response, distributed source analyses were computed in 12-month-old infants using LORETA. Source analysis demonstrated an activation of the parietal dorsal region in fullterm infants, in response to the preferential M pathway, which was not seen in the preterms. Overall, these findings suggest that the Magnocellular pathway development is affected in premature infants. Although our VEP results suggest that premature children overcome, at least partially, the visual developmental delay with time, source analyses reveal abnormal brain activation of the Magnocellular pathway at 12 months of age. PMID:25268226

Preferential Allele Expression Analysis Identifies Shared Germline and Somatic Driver Genes in Advanced Ovarian Cancer

PubMed Central

Halabi, Najeeb M.; Martinez, Alejandra; Al-Farsi, Halema; Mery, Eliane; Puydenus, Laurence; Pujol, Pascal; Khalak, Hanif G.; McLurcan, Cameron; Ferron, Gwenael; Querleu, Denis; Al-Azwani, Iman; Al-Dous, Eman; Mohamoud, Yasmin A.; Malek, Joel A.; Rafii, Arash

2016-01-01

Identifying genes where a variant allele is preferentially expressed in tumors could lead to a better understanding of cancer biology and optimization of targeted therapy. However, tumor sample heterogeneity complicates standard approaches for detecting preferential allele expression. We therefore developed a novel approach combining genome and transcriptome sequencing data from the same sample that corrects for sample heterogeneity and identifies significant preferentially expressed alleles. We applied this analysis to epithelial ovarian cancer samples consisting of matched primary ovary and peritoneum and lymph node metastasis. We find that preferentially expressed variant alleles include germline and somatic variants, are shared at a relatively high frequency between patients, and are in gene networks known to be involved in cancer processes. Analysis at a patient level identifies patient-specific preferentially expressed alleles in genes that are targets for known drugs. Analysis at a site level identifies patterns of site specific preferential allele expression with similar pathways being impacted in the primary and metastasis sites. We conclude that genes with preferentially expressed variant alleles can act as cancer drivers and that targeting those genes could lead to new therapeutic strategies. PMID:26735499

Simulating the heterogeneity in braided channel belt deposits: 2. Examples of results and comparison to natural deposits

NASA Astrophysics Data System (ADS)

Guin, Arijit; Ramanathan, Ramya; Ritzi, Robert W.; Dominic, David F.; Lunt, Ian A.; Scheibe, Timothy D.; Freedman, Vicky L.

2010-04-01

In part 1 of this paper (Ramanathan et al., 2010b) we presented a methodology and a code for modeling the hierarchical sedimentary architecture in braided channel belt deposits. Here in part 2, the code was used to create a digital model of this architecture and the corresponding spatial distribution of permeability. The simulated architecture was compared to the real stratal architecture observed in an abandoned channel belt. The comparisons included assessments of similarity which were both qualitative and quantitative. The qualitative comparisons show that the geometries of unit types within the synthetic deposits are generally consistent with field observations. The unit types in the synthetic deposits would generally be recognized as representing their counterparts in nature, including cross stratasets, lobate and scroll bar deposits, and channel fills. Furthermore, the synthetic deposits have a hierarchical spatial relationship among these units consistent with observations from field exposures and geophysical images. In quantitative comparisons the proportions and the length, width, and height of unit types at different scales, across all levels of the stratal hierarchy, compare well between the synthetic and the natural deposits. A number of important attributes of the synthetic channel belt deposits are shown to be influenced by more than one level within the hierarchy of stratal architecture. First, the high-permeability open-framework gravels connected across all levels and thus formed preferential flow pathways; open-framework gravels are known to form preferential flow pathways in natural channel belt deposits. The nature of a connected cluster changed across different levels of the stratal hierarchy, and as a result of the geologic structure, the connectivity occurs at proportions of open-framework gravels below the theoretical percolation threshold for random infinite media. Second, when the channel belt model was populated with permeability distributions by lowest-level unit type, the composite permeability semivariogram contained structures that were identifiable at more than one scale, and each of these structures could be directly linked to unit types of different scales existing at different levels within the hierarchy of strata. These collective results are encouraging with respect to our goal that this model be relevant for testing ideas in future research on flow and transport in aquifers and reservoirs with multiscale heterogeneity.

Preferential flow effects on transport and fate of chemicals and microorganisms in soils irrigated with wastewater

NASA Astrophysics Data System (ADS)

Puddu, Rita; Corrias, Roberto; Dessena, Maria Antonietta; Ferralis, Marcella; Marras, Gabriele; Pin, Paola; Spanu, Paola

2010-05-01

This work is part of a multidisciplinary research properly planned by the ENAS (Cagliari-Sardinia-Italy) to verify the consequences of urban wastewater reuse in irrigation practices on chemical, biological and hydrological behavior of agricultural soils of the Had as Soualem area (Morocco). The area consists of Fluventic Haploxerept soils, according to USDA Soil Taxonomy. Undisturbed large soil columns, 70 cm height and 20 cm diameter, were collected from plots, the locations of which were preliminarily individuated through a prior pedological study. The soils are characterized by an apparent structure, suggesting that preferential flow processes may occur in the study area, which may impact usable groundwater at depth. Wastewater reuse for irrigation simultaneously solves water shortage and wastewater disposal problems. Unfortunately, wastewaters generally contain high concentrations of suspended and dissolved solids, both organic and inorganic, and microbial contaminants (virus and bacteria) added to wastewater during domestic and industrial usage. Most of these contaminants are only partially removed during conventional sewage treatment so they remain in the irrigation water. Although adsorbing ions and microbes are relatively immobile within porous media, preferential flow and adsorption to mobile colloids can enhance their transport. There is limited knowledge regarding the role of preferential flow and colloidal transport on adsorbing contaminants. The main aim of this research is to determine the influence of preferential flow and colloids on wastewater contaminant transport. Leaching rates and arrival time of wastewater contaminants will be determined using field and laboratory measurements at the study sites in combination with preferential flow numerical modeling. To achieve these objectives the soil columns were analyzed for physical, chemical, and microbial characterization. At the laboratory, an experimental facility was set up and sensors for monitoring soil water and contaminants concentrations during infiltration experiments were inserted horizontally in each column at different depths. To measure initial distribution of water content in soil columns, as well as water content changes during infiltration, TDR probes were inserted horizontally at 10 cm intervals from the soil surface starting from a depth of 5 cm. Pressure heads were measured by tensiometer cups at the same depths of TDR probes. For monitoring solute and microbial composition of soil water, soil solution extractors were also installed at the same depths on a different vertical line. This work details the initial data collection and analysis during the 1st year of this project and outlines the ongoing modeling and other analysis steps.

Preferential particle concentration in wall-bounded turbulence with zero skin friction

NASA Astrophysics Data System (ADS)

Yang, Kun; Zhao, Lihao; Andersson, Helge I.

2017-11-01

Inertial particles dispersed in turbulence distribute themselves unevenly. Besides their tendency to segregate near walls, they also concentrate preferentially in wall-parallel planes. We explore the latter phenomenon in a tailor-made flow with the view to examine the homogeneity and anisotropy of particle clustering in the absence of mean shear as compared with conventional, i.e., sheared, wall turbulence. Inertial particles with some different Stokes numbers are suspended in a turbulent Couette-Poiseuille flow, in which one of the walls moves such that the shear rate vanishes at that wall. The anisotropies of the velocity and vorticity fluctuations are therefore qualitatively different from those at the opposite non-moving wall, along which quasi-coherent streaky structures prevail, similarly as in turbulent pipe and channel flows. Preferential particle concentration is observed near both walls. The inhomogeneity of the concentration is caused by the strain-vorticity selection mechanism, whereas the anisotropy originates from coherent flow structures. In order to analyse anisotropic clustering, a two-dimensional Shannon entropy method is developed. Streaky particle structures are observed near the stationary wall where the flow field resembles typical wall-turbulence, whereas particle clusters near the moving friction-free wall are similar to randomly oriented clusters in homogeneous isotropic turbulence, albeit with a modest streamwise inclination. In the absence of mean-shear and near-wall streaks, the observed anisotropy is ascribed to the imprint of large-scale flow structures which reside in the bulk flow and are global in nature.

The quality of our Nation's waters: factors affecting public-supply-well vulnerability to contamination: understanding observed water quality and anticipating future water quality

USGS Publications Warehouse

Eberts, Sandra M.; Thomas, Mary Ann; Jagucki, Martha L.

2013-01-01

As part of the U.S. Geological Survey National Water-Quality Assessment (NAWQA) Program, a study was conducted from 2001 to 2011 to shed light on factors that affect the vulnerability of water from public-supply wells to contamination (referred to hereafter as “public-supply-well vulnerability”). The study was designed as a follow-up to earlier NAWQA studies that found mixtures of contaminants at low concentrations in groundwater near the water table in urban areas across the Nation and, less frequently, in deeper groundwater typically used for public supply. Beside the factors affecting public-supply-well vulnerability to contamination, this circular describes measures that can be used to determine which factor (or factors) plays a dominant role at an individual public-supply well. Case-study examples are used throughout to show how such information can be used to improve water quality. In general, the vulnerability of the water from public-supply wells to contamination is a function of contaminant input within the area that contributes water to a well, the mobility and persistence of a contaminant once released to the groundwater, and the ease of groundwater and contaminant movement from the point of recharge to the open interval of a well. The following measures described in this circular are particularly useful for indicating which contaminants in an aquifer might reach an individual public-supply well and when, how, and at what concentration they might arrive: * Sources of recharge—Information on the sources of recharge for a well provides insight into contaminants that might enter the aquifer with the recharge water and potentially reach the well. * Geochemical conditions—Information on the geochemical conditions encountered by groundwater traveling to a well provides insight into contaminants that might persist in the water all the way to the well. * Groundwater-age mixtures—Information on the ages of the different waters that mix in a well provides insight into the time lag between contaminant input at the water table and contaminant arrival at the well. It also provides insight into the potential for in-well dilution of contaminated water by unaffected groundwater of a different age that simultaneously enters the well. Preferential flow pathways—pathways that provide little resistance to flow—can influence how all other factors affect public-supply-well vulnerability to contamination. For example, preferential flow pathways can influence whether a contaminant source is physically linked to a well, whether contaminant concentrations are substantially altered before contaminated groundwater reaches a well, and whether contaminated groundwater can arrive at a well within a timeframe of concern to the well owner. Methods for recognizing the influence of preferential flow pathways on the quality of water from a public-supply well are presented in this circular and can provide opportunities to prevent or mitigate the deterioration of a water supply. Knowing what water-quality variables to measure, what spatial and temporal scales on which to measure them, and how to interpret the resulting data makes it possible for samples from public-supply wells to provide a broad window into a well’s past and present water quality—and possibly future water quality. Such insight can enable resource managers to prioritize actions for sustaining a high-quality groundwater source of drinking water.

A density functional theory study on peptide bond cleavage at aspartic residues: direct vs cyclic intermediate hydrolysis.

PubMed

Sang-aroon, Wichien; Amornkitbamrung, Vittaya; Ruangpornvisuti, Vithaya

2013-12-01

In this work, peptide bond cleavages at carboxy- and amino-sides of the aspartic residue in a peptide model via direct (concerted and step-wise) and cyclic intermediate hydrolysis reaction pathways were explored computationally. The energetics, thermodynamic properties, rate constants, and equilibrium constants of all hydrolysis reactions, as well as their energy profiles were computed at the B3LYP/6-311++G(d,p) level of theory. The result indicated that peptide bond cleavage of the Asp residue occurred most preferentially via the cyclic intermediate hydrolysis pathway. In all reaction pathways, cleavage of the peptide bond at the amino-side occurred less preferentially than at the carboxy-side. The overall reaction rate constants of peptide bond cleavage of the Asp residue at the carboxy-side for the assisted system were, in increasing order: concerted < step-wise < cyclic intermediate.

Physicochemical factors influencing the preferential transport of Escherichia coli in soils

USDA-ARS?s Scientific Manuscript database

Laboratory and numerical studies were conducted to investigate the transport and release of Escherichia coli D21g in preferential flow systems with artificial macropores under different ionic strength (IS) conditions. Macropores were created by embedding coarse sand lenses in a fine sand matrix and ...

Understanding the Geometry of Connected Fracture Flow with Multiperiod Oscillatory Hydraulic Tests.

PubMed

Sayler, Claire; Cardiff, Michael; Fort, Michael D

2018-03-01

An understanding of the spatial and hydraulic properties of fast preferential flow pathways in the subsurface is necessary in applications ranging from contaminant fate and transport modeling to design of energy extraction systems. One method for the characterization of fracture properties over interwellbore scales is Multiperiod Oscillatory Hydraulic (MOH) testing, in which the aquifer response to oscillatory pressure stimulations is observed. MOH tests were conducted on isolated intervals of wells in siliciclastic and carbonate aquifers in southern Wisconsin. The goal was to characterize the spatial properties of discrete fractures over interwellbore scales. MOH tests were conducted on two discrete fractured intervals intersecting two boreholes at one field site, and a nest of three piezometers at another field site. Fracture diffusivity estimates were obtained using analytical solutions that relate diffusivity to observed phase lag and amplitude decay. In addition, MOH tests were used to investigate the spatial extent of flow using different conceptual models of fracture geometry. Results indicated that fracture geometry at both field sites can be approximated by permeable two-dimensional fracture planes, oriented near-horizontally at one site, and near-vertically at the other. The technique used on MOH field data to characterize fracture geometry shows promise in revealing fracture network characteristics important to groundwater flow and transport. © 2017, National Ground Water Association.

Non-invasive water-table imaging with joint DC-resistivity/microgravity/hydrologic-model inversion

NASA Astrophysics Data System (ADS)

Kennedy, J.; Macy, J. P.

2017-12-01

The depth of the water table, and fluctuations thereof, is a primary concern in hydrology. In riparian areas, the water table controls when and where vegetation grows. Fluctuations in the water table depth indicate changes in aquifer storage and variation in ET, and may also be responsible for the transport and degradation of contaminants. In the latter case, installation of monitoring wells is problematic because of the potential to create preferential flow pathways. We present a novel method for non-invasive water table monitoring using combined DC resistivity and repeat microgravity data. Resistivity profiles provide spatial resolution, but a quantifiable relation between resistivity changes and aquifer-storage changes depends on a petrophysical relation (typically, Archie's Law), with additional parameters and therefore uncertainty. Conversely, repeat microgravity data provide a direct, quantifiable measurement of aquifer-storage change but lack depth resolution. We show how these two geophysical measurements, together with an unsaturated-zone flow model (Hydrogeosphere), effectively constrain the water table position and help identify groundwater-flow model parameters. A demonstration of the method is made using field data collected during the historic 2014 pulse flow in the Colorado River Delta, which shows that geophysical data can effectively constrain a coupled surface-water/groundwater model used to simulate the potential for riparian vegetation germination and recruitment.

Comparing dynamic recording of infiltration by X-Ray tomography to the results of a dual porosity model for structured soils

NASA Astrophysics Data System (ADS)

Lissy, Anne-Sophie; Sammartino, Stephane; Di Pietro, Liliana; Lecompte, François; Ruy, Stephane

2017-04-01

With climate change, preferential flow phenomenon in soil could be predominant in Mediterranean zone. Understanding this phenomenon becomes a fundamental issue for preserving the water resource in quantity (drinking water) and quality (pesticide content). Non-invasive imaging technics, as X-ray tomography, allow studying water infiltration in laboratory with time-lapse imaging to visualize preferential flow path in soil columns (Sammartino et al. 2012). The modeling of water flow with a dual porosity model (matrix and macropores) integrates these fast flow phenomena (Ilhem 2014). These models, however needs more explicit links with the soil structure. The comparison of experimental results of infiltration (dynamics images and mass data) and modeling could improve our comprehension of preferential flow phenomenon and allow a better integration of the functional macroporosity (i.e. which drains water infiltration during a rain event) in such mass transfer models (Sammartino et al. 2015). Soil columns (Ø 12 cm - hauteur 13 cm, clay-loamy & medium sandy loam) have been sampled in the field to preserve their structure (field plowed or not). Several rains have been simulated in the laboratory and the last one was performed in an X-ray medical scanner (Siemens Somatom® 128 slices) at the CIRE platform (INRA, Centre - Val de Loire). Total and functional macro porosities were identified from time lapse tridimensional images. Water dynamics in the porosities was characterized from the identification and analysis of voxels filled by water. With an image resolution of 350μm only water in the largest macropores can be identified. The modeling of these experiments was carried out via the VirtualSoil platform (UMR Emmah, Avignon; www6.inra.fr/vsoil) using a water flow model coupling Darcy-Richards and KDW equations (Di Pietro et al., 2003). The simulated water flux drained by macropores is similar to the experimental hydrograph obtained for rainfalls on soils close to the saturation. The model reproduced well the flow dynamics: (1) breakthrough time (arrival time of the first drop at the bottom of the column) and (2) the total drained water quantity. A sensitivity analysis of this model is in progress in order to determine the influence of each KDW parameters (two kinematic parameters and one dispersion parameter) and to probe where the functional soil structure could be accounted for in the model structure or in the model parameters. First results show that the kinematic parameters modify the breakthrough time and the slope of the drainage curve. Keywords: functional macroporosity, modeling, RX tomography, infiltration, Richards and KDW equations. Sammartino et al., 2012. A novel method to visualize and characterize preferential flow in undisturbed soil cores by using multislice helical CT. Vadose Zone Journal. Sammartino et Lissy, 2015. Identifying the functional macropore network related to preferential flow in structured soils, Vadose Zone Journal, vol. 14, no. 10. Di Pietro et al. 2003. Predicting preferential water flow in soils by traveling-dispersive waves. Journal of Hydrology (278), pp.64-75. Adel Ilhem (2014) - Modélisation des transferts d'eau dans les sols hétérogènes (internship report)

Preferential flow pathways revealed by field based stable isotope analysis of CO2 by mid-infrared laser spectroscopy

NASA Astrophysics Data System (ADS)

van Geldern, Robert; Nowak, Martin; Zimmer, Martin; Szizybalski, Alexandra; Myrttinen, Anssi; Barth, Johannes A. C.; Jost, Hj

2016-04-01

A newly developed and commercially available isotope ratio laser spectrometer for CO2 analyses has been tested during a 10-day field monitoring campaign at the Ketzin pilot site for CO2 storage in northern Germany. The laser instrument is based on tunable laser direct absorption in the mid-infrared. The instrument recorded a continuous 10-day carbon stable isotope data set with 30 minutes resolution directly on-site in a field-based laboratory container during a tracer experiment. To test the instruments performance and accuracy the monitoring campaign was accompanied by daily CO2 sampling for laboratory analyses with isotope ratio mass spectrometry (IRMS). The carbon stable isotope ratios measured by conventional IRMS technique and by the new mid-infrared laser spectrometer agree remarkably well within 2σ analytical precision (<0.3 ‰). This proves the capability of the new mid-infrared direct absorption technique to measure high precision and accurate real-time table isotope data directly in the field. The injected CO2 tracer had a distinct δ13C value that was largely different from the reservoir background value. The laser spectroscopy data revealed a prior to this study unknown, intensive dynamic with fast changing δ13C values. The arrival pattern of the tracer suggest that the observed fluctuations were probably caused by migration along separate and distinct preferential flow paths between injection well and observation well. The new technique might contribute to a better tracing of the migration of the underground CO2 plume and help to ensure the long-term integrity of the reservoir.

Soil Moisture Flow and Nitrate Movement Simulation through Deep and Heterogeneous Vadose Zone using Dual-porosity Approach

NASA Astrophysics Data System (ADS)

Yadav, B. K.; Tomar, J.; Harter, T.

2014-12-01

We investigate nitrate movement from non-point sources in deep, heterogeneous vadose zones, using multi-dimensional variably saturated flow and transport simulations. We hypothesize that porous media heterogeneity causes saturation variability that leads to preferential flow systems such that a significant portion of the vadose zone does not significantly contribute to flow. We solve Richards' equation and the advection-dispersion equation to simulate soil moisture and nitrate transport regimes in plot-scale experiments conducted in the San Joaquin Valley, California. We compare equilibrium against non-equilibrium (dual-porosity) approaches. In the equilibrium approach we consider each soil layer to have unique hydraulic properties as a whole, while in the dual-porosity approach we assume that large fractions of the porous flow domain are immobile. However we consider exchange of water and solute between mobile and immobile zone using the appropriate mass transfer terms. The results indicate that flow and transport in a nearly 16 m deep stratified vadose zone comprised of eight layers of unconsolidated alluvium experiences highly non-uniform, localized preferential flow and transport patterns leading to accelerated nitrate transfer. The equilibrium approach largely under-predicted the leaching of nitrate to groundwater while the dual-porosity approach showed higher rates of nitrate leaching, consistent with field observations. The dual-porosity approach slightly over-predicted nitrogen storage in the vadose zone, which may be the result of limited matrix flow or denitrification not accounted for in the model. Results of this study may be helpful to better predict fertilizer and pesticide retention times in deep vadose zone, prior to recharge into the groundwater flow system. Keywords: Nitrate, Preferential flow, Heterogeneous vadose zone, Dual-porosity approach

Evidence of a sewer vapor transport pathway at the USEPA vapor intrusion research duplex

EPA Science Inventory

The role of sewer lines as preferential pathways for vapor intrusion is poorly understood. Although the importance of sewer lines for volatile organic compound (VOC) transport has been documented at a small number of sites with vapor intrusion, sewer lines are not routinely sampl...

Flow Partitioning in Fully Saturated Soil Aggregates

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

Yang, Xiaofan; Richmond, Marshall C.; Scheibe, Timothy D.

2014-03-30

Microbes play an important role in facilitating organic matter decomposition in soils, which is a major component of the global carbon cycle. Microbial dynamics are intimately coupled to environmental transport processes, which control access to labile organic matter and other nutrients that are needed for the growth and maintenance of microorganisms. Transport of soluble nutrients in the soil system is arguably most strongly impacted by preferential flow pathways in the soil. Since the physical structure of soils can be characterized as being formed from constituent micro aggregates which contain internal porosity, one pressing question is the partitioning of the flowmore » among the “inter-aggregate” and “intra-aggregate” pores and how this may impact overall solute transport within heterogeneous soil structures. The answer to this question is particularly important in evaluating assumptions to be used in developing upscaled simulations based on highly-resolved mechanistic models. We constructed a number of diverse multi-aggregate structures with different packing ratios by stacking micro-aggregates containing internal pores and varying the size and shape of inter-aggregate pore spacing between them. We then performed pore-scale flow simulations using computational fluid dynamics methods to determine the flow patterns in these aggregate-of-aggregates structures and computed the partitioning of the flow through intra- and inter-aggregate pores as a function of the spacing between the aggregates. The results of these numerical experiments demonstrate that soluble nutrients are largely transported via flows through inter-aggregate pores. Although this result is consistent with intuition, we have also been able to quantify the relative flow capacity of the two domains under various conditions. For example, in our simulations, the flow capacity through the aggregates (intra-aggregate flow) was less than 2% of the total flow when the spacing between the aggregates was larger than 18 micron. Inter-aggregate pores continued to be the dominant flow pathways even at much smaller spacing; intra-aggregate flow was less than 10% of the total flow when the inter- and intra-aggregate pore sizes were comparable. Such studies are making it possible to identify which model upscaling assumptions are realistic and what computational methods are required for detailed numerical investigation of microbial carbon cycling dynamics in soil systems.« less

Large-Scale 13C Flux Profiling Reveals Conservation of the Entner-Doudoroff Pathway as a Glycolytic Strategy among Marine Bacteria That Use Glucose

PubMed Central

Klingner, Arne; Bartsch, Annekathrin; Dogs, Marco; Wagner-Döbler, Irene; Jahn, Dieter; Simon, Meinhard; Brinkhoff, Thorsten; Becker, Judith

2015-01-01

Marine bacteria form one of the largest living surfaces on Earth, and their metabolic activity is of fundamental importance for global nutrient cycling. Here, we explored the largely unknown intracellular pathways in 25 microbes representing different classes of marine bacteria that use glucose: Alphaproteobacteria, Gammaproteobacteria, and Flavobacteriia of the Bacteriodetes phylum. We used 13C isotope experiments to infer metabolic fluxes through their carbon core pathways. Notably, 90% of all strains studied use the Entner-Doudoroff (ED) pathway for glucose catabolism, whereas only 10% rely on the Embden-Meyerhof-Parnas (EMP) pathway. This result differed dramatically from the terrestrial model strains studied, which preferentially used the EMP pathway yielding high levels of ATP. Strains using the ED pathway exhibited a more robust resistance against the oxidative stress typically found in this environment. An important feature contributing to the preferential use of the ED pathway in the oceans could therefore be enhanced supply of NADPH through this pathway. The marine bacteria studied did not specifically rely on a distinct anaplerotic route, but the carboxylation of phosphoenolpyruvate (PEP) or pyruvate for fueling of the tricarboxylic acid (TCA) cycle was evenly distributed. The marine isolates studied belong to clades that dominate the uptake of glucose, a major carbon source for bacteria in seawater. Therefore, the ED pathway may play a significant role in the cycling of mono- and polysaccharides by bacterial communities in marine ecosystems. PMID:25616803

Numerical modeling of fracking fluid migration through fault zones and fractures in the North German Basin

NASA Astrophysics Data System (ADS)

Pfunt, Helena; Houben, Georg; Himmelsbach, Thomas

2016-09-01

Gas production from shale formations by hydraulic fracturing has raised concerns about the effects on the quality of fresh groundwater. The migration of injected fracking fluids towards the surface was investigated in the North German Basin, based on the known standard lithology. This included cases with natural preferential pathways such as permeable fault zones and fracture networks. Conservative assumptions were applied in the simulation of flow and mass transport triggered by a high pressure boundary of up to 50 MPa excess pressure. The results show no significant fluid migration for a case with undisturbed cap rocks and a maximum of 41 m vertical transport within a permeable fault zone during the pressurization. Open fractures, if present, strongly control the flow field and migration; here vertical transport of fracking fluids reaches up to 200 m during hydraulic fracturing simulation. Long-term transport of the injected water was simulated for 300 years. The fracking fluid rises vertically within the fault zone up to 485 m due to buoyancy. Progressively, it is transported horizontally into sandstone layers, following the natural groundwater flow direction. In the long-term, the injected fluids are diluted to minor concentrations. Despite the presence of permeable pathways, the injected fracking fluids in the reported model did not reach near-surface aquifers, either during the hydraulic fracturing or in the long term. Therefore, the probability of impacts on shallow groundwater by the rise of fracking fluids from a deep shale-gas formation through the geological underground to the surface is small.

Peak Flow Responses to Forest Harvesting and Roads in the Maritime Regions of the Pacific Northwest: A Preferential Hillslope Runoff Perspective

NASA Astrophysics Data System (ADS)

Alila, Y.; Schnorbus, M.

2005-12-01

The debate regarding peak flow responses to forest clearcutting and road building in the maritime regions of the Pacific Northwest has attracted much attention over the past several decades and its outcome is an important scientific and operational concern. Although there appears to be general consensus that small peak discharge events are increased following forest management activities, little conclusive evidence exists regarding the impact of forest management activities on large events. Statistical tests in traditional paired watershed studies have been used to accept or reject hypotheses regarding peak flow responses to clearcutting and roads but provided no insight into watershed processes and other factors leading to their outcome. Furthermore, statistical analyses of peak flow responses to forestry activities in traditional paired watershed studies are confounded by the many factors that may contribute to management effects on watershed hydrology as well as by issues such as shortness of streamflow records and climate variability. To this end, a new perspective is offered in the debate regarding peak flow responses to clearcutting and road building in the maritime regions of the Pacific Northwest by combining numerical modeling with high-quality hydro-meteorological data collected at the 10-km2 Carnation Creek on the west coast of Vancouver Island, British Columbia (BC). In this approach we explicitly account for changes in evapotranspiration loss, forest road construction and, in particular, introduce the concept of the competing influences of matrix versus preferential hillslope runoff. For scenarios involving road construction, forest clearcutting (52% cut rate) and roads and clearcutting combined, peak discharge increases decrease with decreasing event frequency and statistically significant ( = 0.05) increases in peak flow are confined to events with a 1 year or lower return period. For a range of return periods from 0.17 to 20 years, the effect (i.e. increase in peak discharge) of clearcutting alone is more severe than roads alone whereas the combined effect of roads and clearcutting is equal to the addition of the isolated treatments effects. The lower efficiency of the forest canopy in intercepting rainfall for large storms compared to small storms and the increasing proportion of preferential flow in hillslope runoff as event size increases appears to be the main reason for the declining peak flow response to clearcutting. Changes in soil moisture conditions are thought to be relatively unimportant given the significance of preferential hillslope runoff. The weakening response of peak flows to roads with increasing event size is related to higher subsurface flow rates associated with preferential flow coupled with a general lowering of the water table below road cuts; this reduces direct channel interception of hillslope runoff and tends to offset gains in channel flow from direct culvert discharge from the road network.

Phase structure within a fracture network beneath a surface pond: Field experiment

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

GLASS JR.,ROBERT J.; NICHOLL,M.J.

2000-05-09

The authors performed a simple experiment to elucidate phase structure within a pervasively fractured welded tuff. Dyed water was infiltrated from a surface pond over a 36 minute period while a geophysical array monitored the wetted region within vertical planes directly beneath. They then excavated the rock mass to a depth of {approximately}5 m and mapped the fracture network and extent of dye staining in a series of horizontal pavements. Near the pond the network was fully stained. Below, the phase structure immediately expanded and with depth, the structure became fragmented and complicated exhibiting evidence of preferential flow, fingers, irregularmore » wetting patterns, and varied behavior at fracture intersections. Limited transient geophysical data suggested that strong vertical pathways form first followed by increased horizontal expansion and connection within the network. These rapid pathways are also the first to drain. Estimates also suggest that the excavation captured from {approximately}10% to 1% or less of the volume of rock interrogated by the infiltration slug and thus the penetration depth could have been quite large.« less

Groundwater Flow Through a Constructed Treatment Wetland

DTIC Science & Technology

2002-03-01

sediments or has the water found preferential flow paths? (2) Does the behavior of groundwater flow change with varying loading rates or environmental...surface of the wetland. Water flows through a subsurface flow wetland in a similar fashion as groundwater flows through an aquifer. The concept is...circuiting of the wetland media. Groundwater Flow Various physical properties influence the flow of water through soil. In wetlands, the type of soil

The influence of anisotropy on preferential flow in landslides

NASA Astrophysics Data System (ADS)

Cristiano, Elena; Barontini, Stefano; Bogaard, Thom A.; Shao, Wei

2015-04-01

Infiltration is one of the most important landslides triggering mechanisms and it is controlled by the hydraulic characteristics of the soil, which depends on the degree of saturation, the existence of preferential flow paths and by anisotropy. Many soils, indeed, exhibit a certain degree of anisotropy due to the stratification associated with soil forming process. Recently, various authors investigated the effect of rainfall in layered soils and its effect on rainfall triggered landslides by means of experimental, conceptual, numerical and theoretical approaches. However, the combined effect of anisotropy and preferential flow on infiltration process and related to rainfall induced landslides has, according to the authors best knowledge, not been studied yet. Aiming at better understanding the soil hydrological processes which take place during an infiltration process, the stability of a synthetic hill slope is numerically investigated. The geometry we considered for the model is a slope with two different layers: the upper soil layer consists of sandy loam, while the lower soil layer is made out of clay. The geometry was studied using both a single permeability and a dual permeability model. In the first case the hydraulic conductivity at saturation was considered isotropic, equal in all directions. Then the vertical component of the hydraulic conductivity tensor at saturation was reduced, while in the third scenario the horizontal component was reduced. In this way the anisotropy effects on both the principal directions were studied. In the dual permeability model, the influence of the anisotropy was considered only in the preferential flow domain, and the hydraulic conductivity at saturation of the soil matrix domain was defined as being isotropic. In order to evaluate also the effects of rainfall intensity on the slope, two different rainfall events were studied: a low intensity rainfall with a long time duration (2 mmh-1,150 h) and an high intensity rainfall with a short duration (20 mmh-1,15 h). The results show that the anisotropy facilitates the saturation process in the slope and that the vertical component of the soil water flow is set especially in the soil matrix domain, while the lateral component dominates in the preferential flow domain. In some scenarios the patterns of the water content in the unsaturated soil layers suggest the possibility of the onset of a perched water table.

Pilocytic Astrocytoma of the Optic Pathway: A Tumour Deriving from Radial Glia Cells with a Specific Gene Signature

ERIC Educational Resources Information Center

Tchoghandjian, Aurelie; Fernandez, Carla; Colin, Carole; El Ayachi, Ikbale; Voutsinos-Porche, Brigitte; Fina, Frederic; Scavarda, Didier; Piercecchi-Marti, Marie-Dominique; Intagliata, Dominique; Ouafik, L'Houcine; Fraslon-Vanhulle, Caroline; Figarella-Branger, Dominique

2009-01-01

Pilocytic astrocytomas are WHO grade I gliomas that occur predominantly in childhood. They share features of both astroglial and oligodendroglial lineages. These tumours affect preferentially the cerebellum (benign clinical course) and the optic pathway, especially the hypothalamo-chiasmatic region (poor prognosis). Understanding the molecular…

Preferential flow, diffuse flow, and perching in an interbedded fractured-rock unsaturated zone

NASA Astrophysics Data System (ADS)

Nimmo, John R.; Creasey, Kaitlyn M.; Perkins, Kim S.; Mirus, Benjamin B.

2017-03-01

Layers of strong geologic contrast within the unsaturated zone can control recharge and contaminant transport to underlying aquifers. Slow diffuse flow in certain geologic layers, and rapid preferential flow in others, complicates the prediction of vertical and lateral fluxes. A simple model is presented, designed to use limited geological site information to predict these critical subsurface processes in response to a sustained infiltration source. The model is developed and tested using site-specific information from the Idaho National Laboratory in the Eastern Snake River Plain (ESRP), USA, where there are natural and anthropogenic sources of high-volume infiltration from floods, spills, leaks, wastewater disposal, retention ponds, and hydrologic field experiments. The thick unsaturated zone overlying the ESRP aquifer is a good example of a sharply stratified unsaturated zone. Sedimentary interbeds are interspersed between massive and fractured basalt units. The combination of surficial sediments, basalts, and interbeds determines the water fluxes through the variably saturated subsurface. Interbeds are generally less conductive, sometimes causing perched water to collect above them. The model successfully predicts the volume and extent of perching and approximates vertical travel times during events that generate high fluxes from the land surface. These developments are applicable to sites having a thick, geologically complex unsaturated zone of substantial thickness in which preferential and diffuse flow, and perching of percolated water, are important to contaminant transport or aquifer recharge.

Preferential flow, diffuse flow, and perching in an interbedded fractured-rock unsaturated zone

USGS Publications Warehouse

Nimmo, John R.; Creasey, Kaitlyn M; Perkins, Kimberlie; Mirus, Benjamin B.

2017-01-01

Layers of strong geologic contrast within the unsaturated zone can control recharge and contaminant transport to underlying aquifers. Slow diffuse flow in certain geologic layers, and rapid preferential flow in others, complicates the prediction of vertical and lateral fluxes. A simple model is presented, designed to use limited geological site information to predict these critical subsurface processes in response to a sustained infiltration source. The model is developed and tested using site-specific information from the Idaho National Laboratory in the Eastern Snake River Plain (ESRP), USA, where there are natural and anthropogenic sources of high-volume infiltration from floods, spills, leaks, wastewater disposal, retention ponds, and hydrologic field experiments. The thick unsaturated zone overlying the ESRP aquifer is a good example of a sharply stratified unsaturated zone. Sedimentary interbeds are interspersed between massive and fractured basalt units. The combination of surficial sediments, basalts, and interbeds determines the water fluxes through the variably saturated subsurface. Interbeds are generally less conductive, sometimes causing perched water to collect above them. The model successfully predicts the volume and extent of perching and approximates vertical travel times during events that generate high fluxes from the land surface. These developments are applicable to sites having a thick, geologically complex unsaturated zone of substantial thickness in which preferential and diffuse flow, and perching of percolated water, are important to contaminant transport or aquifer recharge.

Revised Multi-Node Well (MNW2) Package for MODFLOW Ground-Water Flow Model

USGS Publications Warehouse

Konikow, Leonard F.; Hornberger, George Z.; Halford, Keith J.; Hanson, Randall T.; Harbaugh, Arlen W.

2009-01-01

Wells that are open to multiple aquifers can provide preferential pathways to flow and solute transport that short-circuit normal fluid flowlines. Representing these features in a regional flow model can produce a more realistic and reliable simulation model. This report describes modifications to the Multi-Node Well (MNW) Package of the U.S. Geological Survey (USGS) three-dimensional ground-water flow model (MODFLOW). The modifications build on a previous version and add several new features, processes, and input and output options. The input structure of the revised MNW (MNW2) is more well-centered than the original verion of MNW (MNW1) and allows the user to easily define hydraulic characteristics of each multi-node well. MNW2 also allows calculations of additional head changes due to partial penetration effects, flow into a borehole through a seepage face, changes in well discharge related to changes in lift for a given pump, and intraborehole flows with a pump intake located at any specified depth within the well. MNW2 also offers an improved capability to simulate nonvertical wells. A new output option allows selected multi-node wells to be designated as 'observation wells' for which changes in selected variables with time will be written to separate output files to facilitate postprocessing. MNW2 is compatible with the MODFLOW-2000 and MODFLOW-2005 versions of MODFLOW and with the version of MODFLOW that includes the Ground-Water Transport process (MODFLOW-GWT).

Preferential flow paths in paraglacial catchments: first order controls on the long-term stability of 'biodiversity hotspots' in a changing climate

NASA Astrophysics Data System (ADS)

Grocott, Michael; Kettridge, Nick; Bradley, Chris; Milner, Alexander

2016-04-01

Groundwater (GW) -fed streams within paraglacial floodplains are considered 'biodiversity hotspots', given their importance as an aquatic ecosystem and role in supporting valuable riverine habitat patches within paraglacial environments. However, it is anticipated that throughout the 21st Century hydrologic regimes of paraglacial systems in arctic, sub-arctic, and alpine regions globally will experience substantial changes, as a consequence of anthropogenic climate change. Declining glacial coverage, shrinking winter snowpack, earlier spring melt, rising permafrost melt and increasing relative importance of groundwater will all cause major changes in the water balance of paraglacial catchments. This research explored the importance of preferential flow pathways (PFPs) as conduits of subsurface flow across paraglacial floodplains, and their role in sustaining 'biodiversity hotspots'. Furthermore, it considered the role of PFPs in hillslope-floodplain connectivity within paraglacial systems and the significance of colluvial deposits as a key water source to GW-fed streams on paraglacial floodplains. An intra-catchment scale field study within ungauged catchments was conducted in Denali National Park & Preserve, Alaska, during 2013 and 2014. The research utilised hydrogeomorphic and hydrochemical field techniques to address the aims outlined above. Surface infiltration and slug tests identified significant spatial heterogeneity in hydraulic conductivity (K) across the surface and subsurface of paraglacial floodplains, indicating the presence of PFPs. Furthermore, spatiotemporal variation in geochemical tracers (major ions) within surface and subsurface flow paths established the role of multiple, discrete flow paths (PFPs) in sustaining GW-fed streamflow on floodplains. Finally, hydrograph separations confirmed the significant contribution made by colluvial deposits (e.g. talus slopes) to sustaining GW-fed streamflow on paraglacial research. This research suggests PFPs are a fundamental first order control upon the occurrence of 'biodiversity hotspots' within paraglacial floodplains, and highlights their role as an important conduit for hillslope-floodplain connectivity. Given the expected changes in the hydrological dynamics of paraglacial catchments this research raises questions about the long-term stability of GW-fed streams, and whether the increasing relative importance of groundwater sources (e.g. from colluvium) can sustain flow of GW-fed streams. In addition glacial retreat and associated long-term declines in sediment yields could have negative implications for the development and renewal of PFPs across paraglacial floodplains, which would be detrimental to the persistence of 'biodiversity hotspots'.

Dispersion Analysis Using Particle Tracking Simulations Through Heterogeneity Based on Outcrop Lidar Imagery

NASA Astrophysics Data System (ADS)

Klise, K. A.; Weissmann, G. S.; McKenna, S. A.; Tidwell, V. C.; Frechette, J. D.; Wawrzyniec, T. F.

2007-12-01

Solute plumes are believed to disperse in a non-Fickian manner due to small-scale heterogeneity and variable velocities that create preferential pathways. In order to accurately predict dispersion in naturally complex geologic media, the connection between heterogeneity and dispersion must be better understood. Since aquifer properties can not be measured at every location, it is common to simulate small-scale heterogeneity with random field generators based on a two-point covariance (e.g., through use of sequential simulation algorithms). While these random fields can produce preferential flow pathways, it is unknown how well the results simulate solute dispersion through natural heterogeneous media. To evaluate the influence that complex heterogeneity has on dispersion, we utilize high-resolution terrestrial lidar to identify and model lithofacies from outcrop for application in particle tracking solute transport simulations using RWHet. The lidar scan data are used to produce a lab (meter) scale two-dimensional model that captures 2-8 mm scale natural heterogeneity. Numerical simulations utilize various methods to populate the outcrop structure captured by the lidar-based image with reasonable hydraulic conductivity values. The particle tracking simulations result in residence time distributions used to evaluate the nature of dispersion through complex media. Particle tracking simulations through conductivity fields produced from the lidar images are then compared to particle tracking simulations through hydraulic conductivity fields produced from sequential simulation algorithms. Based on this comparison, the study aims to quantify the difference in dispersion when using realistic and simplified representations of aquifer heterogeneity. Sandia is a multiprogram laboratory operated by Sandia Corporation, a Lockheed Martin Company, for the United States Department of Energy's National Nuclear Security Administration under contract DE-AC04-94AL85000.

The Influence of Plant Root Systems on Subsurface Flow: Implications for Slope Stability

EPA Science Inventory

Although research has explained how plant roots mechanically stabilize soils, in this article we explore how root systems create networks of preferential flow and thus influence water pressures in soils to trigger landslides. Root systems may alter subsurface flow: Hydrological m...

Unraveling the Nature of Active Sites in Ethanol Electro-oxidation by Site-Specific Marking of a Pt Catalyst with Isotope-Labeled 13CO.

PubMed

Farias, Manuel J S; Cheuquepán, William; Tanaka, Auro A; Feliu, Juan M

2018-03-15

This works deals with the identification of preferential site-specific activation at a model Pt surface during a multiproduct reaction. The (110)-type steps of a Pt(332) surface were selectively marked by attaching isotope-labeled 13 CO molecules to them, and ethanol oxidation was probed by in situ Foureir transfrom infrared spectroscopy in order to precisely determine the specific sites at which CO 2 , acetic acid, and acetaldehyde were preferentially formed. The (110) steps were active for splitting the C-C bond, but unexpectedly, we provide evidence that the pathway of CO 2 formation was preferentially activated at (111) terraces, rather than at (110) steps. Acetaldehyde was formed at (111) terraces at potentials comparable to those for CO 2 formation also at (111) terraces, while the acetic acid formation pathway became active only when the (110) steps were released by the oxidation of adsorbed 13 CO, at potentials higher than for the formation of CO 2 at (111) terraces of the stepped surface.

Insights to Engineered Geothermal System Performance Using Gringarten-Witherspoon-Ohnishi Analytical Solutions and Fracture Network Models

NASA Astrophysics Data System (ADS)

Doe, T.; McLaren, R.; Finilla, A.

2017-12-01

An enduring legacy of Paul Witherspoon and his students and colleagues has been both the development of geothermal energy and the bases of modern fractured-rock hydrogeology. One of the seminal contributions to the geothermal field was Gringarten, Witherspoon, and Ohnishi's analytical models for enhanced geothermal systems. Although discrete fracture network (DFN) modeling developed somewhat independently in the late 1970s, Paul Witherspoon's foresight in promoting underground in situ testing at the Stripa Mine in Sweden was a major driver in Lawrence Berkeley Laboratory's contributions to its development.This presentation looks extensions of Gringarten's analytical model into discrete fracture network modeling as a basis for providing further insights into the challenges and opportunities of engineered geothermal systems. The analytical solution itself has many insightful applications beyond those presented in the original paper. The definition of dimensionless time by itself shows that thermal breakthrough has a second power dependence on surface area and on flow rate. The fracture intensity also plays a strong role, as it both increases the surface area and decrease his flow rate per fracture. The improvement of EGS performance with fracture intensity reaches a limit where thermal depletion of the rock lags only slightly behind the thermal breakthrough of cold water in the fracture network.Simple network models, which couple a DFN generator (FracMan) with a hydrothermally coupled flow solver (HydroGeoSphere) expand on Gringarten's concepts to show that realistic heterogeneity of spacing and transmissivity significantly degrades EGS performance. EGS production in networks of stimulated fractures initially follows Gringarten's type curves, with a later deviation is the smaller rock blocks thermally deplete and the entire stimulated volume acts as a single sink. Three-dimensional models of EGS performance show the critical importance of the relative magnitudes of fluid pressure and stress gradients, preferential growth and aperture enhancement may change with depth creating preferential pathways through rock this cooler than the injection depth.

P-selectin mediates neutrophil adhesion to endothelial cell borders.

PubMed

Burns, A R; Bowden, R A; Abe, Y; Walker, D C; Simon, S I; Entman, M L; Smith, C W

1999-03-01

During an acute inflammatory response, endothelial P-selectin (CD62P) can mediate the initial capture of neutrophils from the free flowing bloodstream. P-selectin is stored in secretory granules (Weibel-Palade bodies) and is rapidly expressed on the endothelial surface after stimulation with histamine or thrombin. Because neutrophil transmigration occurs preferentially at endothelial borders, we wished to determine whether P-selectin-dependent neutrophil capture (adhesion) occurs at endothelial cell borders. Under static or hydrodynamic flow (2 dyn/cm2) conditions, histamine (10(-4) M) or thrombin (0.2 U/mL) treatment induced preferential (> or = 75%) neutrophil adhesion to the cell borders of endothelial monolayers. Blocking antibody studies established that neutrophil adhesion was completely P-selectin dependent. P-selectin surface expression increased significantly after histamine treatment and P-selectin immunostaining was concentrated along endothelial borders. We conclude that preferential P-selectin expression along endothelial borders may be an important mechanism for targeting neutrophil migration at endothelial borders.

Investigating preferential flow processes in soils using anisotropy in electrical resistivity

NASA Astrophysics Data System (ADS)

Al-Hazaimay, S.; Huisman, J. A.; Zimmermann, E.; Kemna, A.; Vereecken, H.

2012-12-01

Macropores occupy a small volume fraction of the pore space in the vadose zone. Water and solutes can quickly bypass the vadose zone through these macropores in a process known as macropore preferential flow. In the last few decades, many efforts were made to improve understanding the macropore preferential flow processes because of their importance in transporting agrochemicals and contaminants to the groundwater. Unfortunately, very few measurement methods provide insights into these preferential flow processes. In this context, the objective of this study is to evaluate whether anisotropy in electrical resistivity can be used to identify the existence of flow in macropores and perhaps even to characterize the exchange between macropores and bulk soil. In a first step, infiltration into a soil column with an artificial macropore was simulated using the HYDRUS software package that solves the pseudo three-dimensional axisymmetric Richards equation. The simulated temporal development of the resistivity anisotropy was obtained by solving the Poisson equation in MATLAB after converting the simulated water content distributions to electrical resistivity distributions. At the beginning of the simulation, a small anisotropy ratio was simulated because of the presence of the empty ('deactivated') macropore in the moist matrix. As soon as the infiltration process started, macropore flow occurred and both the horizontal and vertical resistivity decreased strongly. However, the vertical and horizontal resistivity reacted differently because of the presence of the conductive ('activated') macropore, which led to anisotropy in the resistivity. As soon as infiltration into the macropore stopped, water re-distributed from the macropore to the matrix domain and contrasts in electrical resistivity decreased within the column. To verify the simulation results in the laboratory, we measured the temporal dynamics of the anisotropy in resistivity during water infiltration into a soil column of 9 cm diameter and 40 cm length with an artificial macropore of 2 cm diameter in the center of the column. The first experimental results confirmed that the anisotropy in electrical resistivity can indeed be used to identify and perhaps even quantify macropore flow.

Assessing the Risks to Human Health in Heterogeneous Aquifers under Uncertainty

NASA Astrophysics Data System (ADS)

de Barros, Felipe

2015-04-01

Reliable quantification of human health risk from toxic chemicals present in groundwater is a challenging task. The main difficulty relies on the fact that many of the components that constitute human health risk assessment are uncertain and requires interdisciplinary knowledge. Understanding the impact from each of these components in risk estimation can provide guidance for decision makers to manage contaminated sites and best allocate resources towards minimal prediction uncertainty. This presentation will focus on the impact of aquifer heterogeneity in human health risk. Spatial heterogeneity of the hydrogeological properties can lead to the formation of preferential flow channels which control the plume spreading rates and travel time statistics, both which are critical in assessing the risk level. By making use of an integrated hydrogeological-health stochastic framework, the significance of characteristic length scales (e.g. characterizing flow, transport and sampling devices) in both controlling the uncertainty of health risk and determining data needs is highlighted. Through a series of examples, we show how fundamental knowledge on the main physical mechanisms affecting solute pathways are necessary to understand the human health response to varying drivers.

Seasonal GPR Signal Changes in Two Contrasting Soils in the Shale Hills Catchment

NASA Astrophysics Data System (ADS)

Lin, H.; Zhang, J.; Doolittle, J. A.

2011-12-01

Repeated GPR surveys in different seasons, combined with real-time soil water monitoring, provide a useful methodology to reveal subsurface hydrologic processes and their underlying mechanisms in different soils and hillslopes. This was demonstrated in the Shale Hills Critical Zone Observatory using two contrasting soils over several dry and wet seasons. Our results showed that 1) the radar reflection in the BC-C horizon interface in the deep Rushtown soil became clearer as soil became wetter, which was linked to lateral flow above this horizon interface that increased the contrast, and 2) the reflection in the soil-bedrock interface and the weathered-unweathered rock interface in the shallow Weikert soil become intermittent as soil became wetter, which was attributed to non-uniform distribution of water in bedrock fractures that created locally strong contrast, leading to point scatter of GPR reflection. This study shows the optimal time for using GPR to detect soil horizon interfaces, the value of nondestructive mapping of soil-rock moisture distribution patterns, and the possibility of identifying preferential flow pathways in the subsurface.

Towards a better understanding of the cracking behavior in soils

USDA-ARS?s Scientific Manuscript database

Understanding and modeling shrinkage-induced cracks helps bridge the gap between flow problem in the laboratory and at the field. Modeling flow at the field scale with Darcian fluxes developed at the laboratory scales is challenged with preferential flows attributed to the cracking behavior of soils...

Partitioning of electron flux between the respiratory chains of the yeast Candida parapsilosis: parallel working of the two chains.

PubMed

Guerin, M G; Camougrand, N M

1994-02-08

Partitioning of the electron flux between the classical and the alternative respiratory chains of the yeast Candida parapsilosis, was measured as a function of the oxidation rate and of the Q-pool redox poise. At low respiration rate, electrons from external NADH travelled preferentially through the alternative pathway as indicated by the antimycin A-insensitivity of electron flow. Inhibition of the alternative pathway by SHAM restored full antimycin A-sensitivity to the remaining electro flow. The dependence of the respiratory rate on the redox poise of the quinone pool was investigated when the electron flux was mediated either by the main respiratory chain (growth in the absence of antimycin A) or by the second respiratory chain (growth in the presence of antimycin A). In the former case, a linear relationship was found between these two parameters. In contrast, in the latter case, the relationship between Q-pool reduction level and electron flux was non-linear, but it could be resolved into two distinct curves. This second quinone is not reducible in the presence of antimycin A but only in the presence of high concentrations of myxothiazol or cyanide. Since two quinone species exist in C. parapsilosis, UQ9 and Qx (C33H54O4), we hypothesized that these two curves could correspond to the functioning of the second quinone engaged during the alternative pathway activity. Partitioning of electrons between both respiratory chains could occur upstream of complex III with the second chain functioning in parallel to the main one, and with the additional possibility of merging into the main one at the complex IV level.

The effect of pore-scale geometry and wettability on two-phase relative permeabilities within elementary cells

NASA Astrophysics Data System (ADS)

Bianchi Janetti, Emanuela; Riva, Monica; Guadagnini, Alberto

2017-04-01

We study the relative role of the complex pore space geometry and wettability of the solid matrix on the quantification of relative permeabilities characterizing steady state immiscible two-phase flow in porous media. We do so by considering elementary cells, which are typically employed in upscaling frameworks based on, e.g., homogenization or volume averaging. In this context one typically relies on the solution of pore-scale physics at a scale which is much smaller than that of an investigated porous system. Pressure-driven two-phase flow following simultaneous co-current injection of water and oil is numerically solved for a suite of regular and stochastically generated two-dimensional explicit elementary cells with fixed porosity and sharing main topological/morphological features. We show that relative permeabilities of the randomly generated elementary cells are significantly influenced by the formation of preferential percolation paths (principal pathways), giving rise to a strongly nonuniform distribution of fluid fluxes. These pathways are a result of the spatially variable resistance that the random pore structures exert on the fluid. The overall effect on relative permeabilities of the diverse organization of principal pathways, as driven by a given random realization at the scale of the unit cell, is significantly larger than that of the wettability of the host rock. In contrast to what can be observed for the random cells analyzed, relative permeabilities of regular cells display a clear trend with contact angle at the investigated scale. Our findings suggest the need to perform systematic upscaling studies in a stochastic context, to propagate the effects of uncertain pore space geometries to a probabilistic description of relative permeability curves at the continuum scale.

Dynamic synchronization of ongoing neuronal activity across spinal segments regulates sensory information flow

PubMed Central

Contreras-Hernández, E; Chávez, D; Rudomin, P

2015-01-01

Previous studies on the correlation between spontaneous cord dorsum potentials recorded in the lumbar spinal segments of anaesthetized cats suggested the operation of a population of dorsal horn neurones that modulates, in a differential manner, transmission along pathways mediating Ib non-reciprocal postsynaptic inhibition and pathways mediating primary afferent depolarization and presynaptic inhibition. In order to gain further insight into the possible neuronal mechanisms that underlie this process, we have measured changes in the correlation between the spontaneous activity of individual dorsal horn neurones and the cord dorsum potentials associated with intermittent activation of these inhibitory pathways. We found that high levels of neuronal synchronization within the dorsal horn are associated with states of incremented activity along the pathways mediating presynaptic inhibition relative to pathways mediating Ib postsynaptic inhibition. It is suggested that ongoing changes in the patterns of functional connectivity within a distributed ensemble of dorsal horn neurones play a relevant role in the state-dependent modulation of impulse transmission along inhibitory pathways, among them those involved in the central control of sensory information. This feature would allow the same neuronal network to be involved in different functional tasks. Key points We have examined, in the spinal cord of the anaesthetized cat, the relationship between ongoing correlated fluctuations of dorsal horn neuronal activity and state-dependent activation of inhibitory reflex pathways. We found that high levels of synchronization between the spontaneous activity of dorsal horn neurones occur in association with the preferential activation of spinal pathways leading to primary afferent depolarization and presynaptic inhibition relative to activation of pathways mediating Ib postsynaptic inhibition. It is suggested that changes in synchronization of ongoing activity within a distributed network of dorsal horn neurones play a relevant role in the configuration of structured (non-random) patterns of functional connectivity that shape the interaction of sensory inputs with spinal reflex pathways subserving different functional tasks. PMID:25653206

Modeling the influence of preferential flow on the spatial variability and time-dependence of mineral weathering rates

DOE PAGES

Pandey, Sachin; Rajaram, Harihar

2016-12-05

Inferences of weathering rates from laboratory and field observations suggest significant scale and time-dependence. Preferential flow induced by heterogeneity (manifest as permeability variations or discrete fractures) has been suggested as one potential mechanism causing scale/time-dependence. In this paper, we present a quantitative evaluation of the influence of preferential flow on weathering rates using reactive transport modeling. Simulations were performed in discrete fracture networks (DFNs) and correlated random permeability fields (CRPFs), and compared to simulations in homogeneous permeability fields. The simulations reveal spatial variability in the weathering rate, multidimensional distribution of reactions zones, and the formation of rough weathering interfaces andmore » corestones due to preferential flow. In the homogeneous fields and CRPFs, the domain-averaged weathering rate is initially constant as long as the weathering front is contained within the domain, reflecting equilibrium-controlled behavior. The behavior in the CRPFs was influenced by macrodispersion, with more spread-out weathering profiles, an earlier departure from the initial constant rate and longer persistence of weathering. DFN simulations exhibited a sustained time-dependence resulting from the formation of diffusion-controlled weathering fronts in matrix blocks, which is consistent with the shrinking core mechanism. A significant decrease in the domain-averaged weathering rate is evident despite high remaining mineral volume fractions, but the decline does not follow a math formula dependence, characteristic of diffusion, due to network scale effects and advection-controlled behavior near the inflow boundary. Finally, the DFN simulations also reveal relatively constant horizontally averaged weathering rates over a significant depth range, challenging the very notion of a weathering front.« less

Modeling the influence of preferential flow on the spatial variability and time-dependence of mineral weathering rates

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

Pandey, Sachin; Rajaram, Harihar

Inferences of weathering rates from laboratory and field observations suggest significant scale and time-dependence. Preferential flow induced by heterogeneity (manifest as permeability variations or discrete fractures) has been suggested as one potential mechanism causing scale/time-dependence. In this paper, we present a quantitative evaluation of the influence of preferential flow on weathering rates using reactive transport modeling. Simulations were performed in discrete fracture networks (DFNs) and correlated random permeability fields (CRPFs), and compared to simulations in homogeneous permeability fields. The simulations reveal spatial variability in the weathering rate, multidimensional distribution of reactions zones, and the formation of rough weathering interfaces andmore » corestones due to preferential flow. In the homogeneous fields and CRPFs, the domain-averaged weathering rate is initially constant as long as the weathering front is contained within the domain, reflecting equilibrium-controlled behavior. The behavior in the CRPFs was influenced by macrodispersion, with more spread-out weathering profiles, an earlier departure from the initial constant rate and longer persistence of weathering. DFN simulations exhibited a sustained time-dependence resulting from the formation of diffusion-controlled weathering fronts in matrix blocks, which is consistent with the shrinking core mechanism. A significant decrease in the domain-averaged weathering rate is evident despite high remaining mineral volume fractions, but the decline does not follow a math formula dependence, characteristic of diffusion, due to network scale effects and advection-controlled behavior near the inflow boundary. Finally, the DFN simulations also reveal relatively constant horizontally averaged weathering rates over a significant depth range, challenging the very notion of a weathering front.« less

Using MODFLOW drains to simulate groundwater flow in a karst environment

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

Quinn, J.; Tomasko, D.; Glennon, M.A.

1998-07-01

Modeling groundwater flow in a karst environment is both numerically challenging and highly uncertain because of potentially complex flowpaths and a lack of site-specific information. This study presents the results of MODFLOW numerical modeling in which drain cells in a finite-difference model are used as analogs for preferential flowpaths or conduits in karst environments. In this study, conduits in mixed-flow systems are simulated by assigning connected pathways of drain cells from the locations of tracer releases, sinkholes, or other karst features to outlet springs along inferred flowpaths. These paths are determined by the locations of losing stream segments, ephemeral streammore » beds, geophysical surveys, fracture lineaments, or other surficial characteristics, combined with the results of dye traces. The elevations of the drains at the discharge ends of the inferred flowpaths are estimated from field data and are adjusted when necessary during model calibration. To simulate flow in a free-flowing conduit, a high conductance is assigned to each drain to eliminate the need for drain-specific information that would be very difficult to obtain. Calculations were performed for a site near Hohenfels, Germany. The potentiometric surface produced by the simulations agreed well with field data. The head contours in the vicinity of the karst features behaved in a manner consistent with a flow system having both diffuse and conduit components, and the sum of the volumetric flow out of the drain cells agreed closely with spring discharges and stream flows. Because of the success of this approach, it is recommended for regional studies in which little site-specific information (e.g., location, number, size, and conductivity of fractures and conduits) is available, and general flow characteristics are desired.« less

NMR imaging of fluid exchange between macropores and matrix in eogenetic karst

USGS Publications Warehouse

Florea, L.J.; Cunningham, K.J.; Altobelli, S.

2009-01-01

Sequential time-step images acquired using nuclear magnetic resonance (NMR) show the displacement of deuterated water (D2O) by fresh water within two limestone samples characterized by a porous and permeable limestone matrix of peloids and ooids. These samples were selected because they have a macropore system representative of some parts of the eogenetic karst limestone of the Biscayne Aquifer in southeastern Florida. The macroporosity, created by the trace fossil Ophiomorpha, is principally well connected and of centimeter scale. These macropores occur in broadly continuous stratiform zones that create preferential flow layers within the hydrogeologic units of the Biscayne. This arrangement of porosity is important because in coastal areas, it could produce a preferential pathway for salt water intrusion. Two experiments were conducted in which samples saturated with D2O were placed in acrylic chambers filled with fresh water and examined with NMR. Results reveal a substantial flux of fresh water into the matrix porosity with a simultaneous loss of D 2O. Specifically, we measured rates upward of 0.001 mL/h/g of sample in static conditions, and perhaps as great as 0.07 mL/h/g of sample when fresh water continuously flows past a sample at velocities less than those found within stressed areas of the Biscayne. These experiments illustrate how fresh water and D2O, with different chemical properties, migrate within one type of matrix porosity found in the Biscayne. Furthermore, these experiments are a comparative exercise in the displacement of sea water by fresh water in the matrix of a coastal, karst aquifer since D2O has a greater density than fresh water. ?? 2008 National Ground Water Association.

Water and solute transport parameterization form a soil of semi-arid region of northeast of Brazil

NASA Astrophysics Data System (ADS)

Netto, A. M.; Antonino, A. C. D.; Lima, L. J. S.; Angulo-Jaramillo, R.; Montenegro, S. M. G.

2003-04-01

Water and solute transfer modeling needs the transport parameters as input data. Classical theory, Fickian advection-dispersion, is not successfully applied to account for solute transport along with preferential flow pathways. This transport may be operating at scales smaller than spatial discretization used in a field scale numerical model. An axisymetric infiltration using a single ring infiltrometer along with a conservative tracer (Cl^-) is an efficient and easy method to use in fields tools. Two experiments were accomplished on a Yellow Oxissol in a 4,0 ha area in Centro de Ciências Agrárias, UFPB, Areia City, Paraíba State, Brazil (6^o 58'S, 35o 41'W and 645 m), in a 50 × 50 m grid (16 points): a) cultivated with beans (Vigna Unguinculata (L.) Walp.), and b) bare soil after harvest. The unsaturated hydraulic conductivity K and sorptivity S were estimated from short time or long time analysis of cumulative three dimensional infiltration. Single tracer technique was used for the calculation of mobile water fraction f by measuring the solute concentration underneath the ring infiltrometer, at the end of infiltration. A solute transfer numerical model, based on the mobile-immobile water concept, was used for the determination of the solute transport parameters. The mobile water fraction f, the dispersion coefficient D, and the mass transfer coefficient α, were estimated from both the measured infiltration depth and concentration profile underneath the ring infiltrometer. The presence of preferential flow was due to the soil nature (aggregated soil, macropores, flux instabilities and heterogeneity). The lateral solute transfer is not only diffusive but also convective. The parameters deduced from the numerical model associated to the solute profile concentration are representative of this phenomenon.

Urban nuisance flooding and topographic wetness index: does excess runoff collect where we think it should in urban landscapes?

NASA Astrophysics Data System (ADS)

Kelleher, C.; McPhillips, L. E.

2017-12-01

Urban landscapes translate water in a variety of ways that diverge from more natural systems. In particular, due to the presence of impervious surfaces and alteration of topography, they are prone to nuisance flooding when it rains. To track the locations of areas of minor flooding and other complaints, many cities are now facilitating nuisance reports from residents via information technology services like 311. These reports provide useful information for tracking where in the landscape water may collect during rain events; we sought to use this information to test potential geospatial indices for predictively identifying locations prone to nuisance flooding in urban areas. In this study, we utilized a tool commonly applied in natural systems, topographic indices, to create spatially contiguous estimates of topographic wetness index (TWI), a value that can be used to identify areas within a watershed expected to be preferentially wetter or drier based on topographic slope and surface flow pathways. For several watersheds across Baltimore and New York City (USA), we tested three different resolutions of LiDAR-derived topography and two different methods of flow routing to calculate continuous distributions of TWI. When comparing these values to nuisance flooding locations, we found that distributions of TWI values within a radius of reported nuisance floods were higher, on average, than the distribution of TWI values across each watershed. We also employed a spatial Monte Carlo sampling strategy, randomly selecting grid cells within each watershed to determine if these randomly selected grid cells have preferentially lower TWI values than those near nuisance flooding locations. Overall, we demonstrate that topographic indices may be useful predictors of localized flooding within urban environments.

Characterization of preferential flow paths between boreholes in fractured rock using a nanoscale zero-valent iron tracer test

NASA Astrophysics Data System (ADS)

Chuang, Po-Yu; Chia, Yeeping; Liou, Ya-Hsuan; Teng, Mao-Hua; Liu, Ching-Yi; Lee, Tsai-Ping

2016-11-01

Recent advances in borehole geophysical techniques have improved characterization of cross-hole fracture flow. The direct detection of preferential flow paths in fractured rock, however, remains to be resolved. In this study, a novel approach using nanoscale zero-valent iron (nZVI or `nano-iron') as a tracer was developed for detecting fracture flow paths directly. Generally, only a few rock fractures are permeable while most are much less permeable. A heat-pulse flowmeter can be used to detect changes in flow velocity for delineating permeable fracture zones in the borehole and providing the design basis for the tracer test. When nano-iron particles are released in an injection well, they can migrate through the connecting permeable fracture and be attracted to a magnet array when arriving in an observation well. Such an attraction of incoming iron nanoparticles by the magnet can provide quantitative information for locating the position of the tracer inlet. A series of field experiments were conducted in two wells in fractured rock at a hydrogeological research station in Taiwan, to test the cross-hole migration of the nano-iron tracer through permeable connected fractures. The fluid conductivity recorded in the observation well confirmed the arrival of the injected nano-iron slurry. All of the iron nanoparticles attracted to the magnet array in the observation well were found at the depth of a permeable fracture zone delineated by the flowmeter. This study has demonstrated that integrating the nano-iron tracer test with flowmeter measurement has the potential to characterize preferential flow paths in fractured rock.

Field tracer investigation of unsaturated zone flow paths and mechanisms in agricultural soils of northwestern Mississippi, USA

USGS Publications Warehouse

Perkins, K.S.; Nimmo, J.R.; Rose, C.E.; Coupe, R.H.

2011-01-01

In many farmed areas, intensive application of agricultural chemicals and withdrawal of groundwater for irrigation have led to water quality and supply issues. Unsaturated-zone processes, including preferential flow, play a major role in these effects but are not well understood. In the Bogue Phalia basin, an intensely agricultural area in the Delta region of northwestern Mississippi, the fine-textured soils often exhibit surface ponding and runoff after irrigation and rainfall as well as extensive surface cracking during prolonged dry periods. Fields are typically land-formed to promote surface flow into drainage ditches and streams that feed into larger river ecosystems. Downward flow of water below the root zone is considered minimal; regional groundwater models predict only 5% or less of precipitation recharges the heavily used alluvial aquifer. In this study transport mechanisms within and below the root zone of a fallow soybean field were assessed by performing a 2-m ring infiltration test with tracers and subsurface monitoring instruments. Seven months after tracer application, 48 continuous cores were collected for tracer extraction to define the extent of water movement and quantify preferential flow using a mass-balance approach. Vertical water movement was rapid below the pond indicating the importance of vertical preferential flow paths in the shallow unsaturated zone, especially to depths where agricultural disturbance occurs. Lateral flow of water at shallow depths was extensive and spatially non-uniform, reaching up to 10. m from the pond within 2. months. Within 1. month, the wetting front reached a textural boundary at 4-5. m between the fine-textured soil and sandy alluvium, now a potential capillary barrier which, prior to extensive irrigation withdrawals, was below the water table. Within 10. weeks, tracer was detectable at the water table which is presently about 12. m below land surface. Results indicate that 43% of percolation may be through preferential flow paths and that any water breaking through the capillary barrier (as potential recharge) likely does so in fingers which are difficult to detect with coring methods. In other areas where water levels have declined and soils have similar properties, the potential for transport of agricultural chemicals to the aquifer may be greater than previously assumed. ?? 2010 .

Dynamics of small flexible fibers in turbulent channel flow

NASA Astrophysics Data System (ADS)

Marchioli, Cristian; Dotto, Diego; Soldati, Alfredo

2017-11-01

In this paper we investigate the dynamics of small flexible fibers in turbulent channel flow. Our aim is to examine the effect of local shear and turbulence anisotropy on the translation and rotation of fibers with different elongation and inertia. To these aims, we use a Eulerian-Lagrangian approach based on direct numerical simulation of turbulence in the dilute regime, and we model fibers, which are longer than the Kolmogorov scale, as chains of sub-Kolmogorov rods connected through ball-and-socket joints that enable bending and twisting. Velocity, orientation and concentration statistics, extracted from simulations at Reτ = 300 , are presented to give insights into the complex fibers-turbulence interactions that arise when non-sphericity and deformability add to inertial bias. Compared to fibers that translate and rotate as rigid bodies relative to the surrounding fluid, flexible fibers exhibit a stronger tendency to accumulate in the near-wall region, where they are trapped by the same mechanisms that govern preferential concentration of spherical particles. In such region, the mean shear is strong enough to reduce bending and stretch the fibers. Preferential segregation into low-speed streaks and preferential orientation in the mean flow direction are also observed.

Impact of heterogeneity on groundwater salinization due to coastal pumping

NASA Astrophysics Data System (ADS)

Yu, X.; Michael, H. A.

2017-12-01

Groundwater abstraction causes and accelerates seawater intrusion in many coastal areas. In heterogeneous aquifers, preferential flow paths can lead to fast intrusion, while low permeability layers can serve as barriers. The extent to which different types of heterogeneous aquifers are vulnerable to pumping-induced seawater intrusion has not been well studied. Here we show that the connectedness of pumping location and local boundary condition drive salinization patterns. Salinization patterns in homogeneous aquifers were relatively simple and only related to the hydraulic properties and pumping rate. The salinization rates and patterns in heterogeneous aquifers were much more complicated and related to pumping location, rate and depth, preferential flow path locations, and local boundary conditions. An intrusion classification approach was developed with three types in homogeneous aquifers and four types in heterogeneous aquifers. After classification the main factors of salinized areas, intrusion rates and salinization time could be identified. The ranges of these salinization assessment criteria suggested different aspect of groundwater vulnerability in each class. We anticipate the classification approach to be a starting point for more comprehensive groundwater abstraction vulnerability assessment (including consideration of pumping rates, locations and depths, connectivity, preferential flow paths, etc.), which is critical for coastal water resources management.

Transport of atrazine and dicamba through silt and loam soils

USGS Publications Warehouse

Tindall, James A.; Friedel, Michael J.

2016-01-01

The objectives of this research were to determine the role of preferential flow paths in the transport of atrazine (2-chloro-4-(ethylamino)-6-(isopropylamino)-s-triazine) and dicamba (3-6-dichloro-2-methoxybenzoic acid) through silt and loam soils overlying the High Plains aquifer in Nebraska. In a previous study, 3 of 6 study areas demonstrated high percentages of macropores; those three areas were used in this study for analysis of chemical transport. As a subsequent part of the study, 12 intact soil cores (30-cm diameter by 40-cm height), were excavated sequentially, two from each of the following depths: 0-40cm and 40-80cm. These cores were used to study preferential flow characteristics using dye staining and to determine hydraulic properties. Two undisturbed experimental field plots, each with a 3-m2 surface area, were installed in three study areas in Nebraska. Each was instrumented with suction lysimeters and tensiometers at depths of 10cm to 80cm in 10-cm increments. Additionally, each plot was planted with corn (Zea mays). A neutron probe access tube was installed in each plot to determine soil w ater content at 15-cm intervals. All plots were enclosed w ith a raised frame (of 8-cm height) to prevent surface runoff. All suction lysimeters were purged monthly for three months and were sampled immediately prior to pre-plant herbicide application to obtain background chemical concentrations. Atrazine and dicamba moved rapidly through the soil, but only after a heavy rainfall event, probably owing to the presence of preferential flow paths and lack of microbial degradation in these soil areas. Staining of laboratory cores showed a positive correlation between the percent area stained by depth and the subsequent breakthrough of Br- in the laboratory and leaching of field-applied herbicides owing to large rainfall events. Suction lysimeter samples in the field showed increases in concentrations of herbicides at depths where laboratory data indicated greater percentages of what appeared to be preferential flow paths. Concentrations of atrazine and dicamba exceeding 0.30 and 0.05µg m1-1 were observed at depths of 10-30cm and 50-70cm after two months following heavy rainfall events. It appears from the laboratory experiment that preferential flow paths were a significant factor in transport of atrazine and dicamba.

Contaminant attenuation by shallow aquifer systems under steady flow

NASA Astrophysics Data System (ADS)

Soltani, S. S.; Cvetkovic, V.

2017-10-01

We present a framework for analyzing advection-dominated solute transport and transformation in aquifer systems of boreal catchments that are typically shallow and rest on crystalline bedrock. A methodology is presented for estimating tracer discharge based on particle trajectories from recharge to discharge locations and computing their first passage times assuming that the flow pattern is approximately steady-state. Transformation processes can be included by solving one-dimensional reactive transport with randomized water travel time as the independent variable; the distribution of the travel times incorporates morphological dispersion (due to catchment geometry/topography) as well as macro-dispersion (due to heterogeneity of underlying hydraulic properties). The implementation of the framework is illustrated for the well characterized coastal catchment of Forsmark (Sweden). We find that macro-dispersion has a notable effect on attenuation even though the morphological dispersion is significantly larger. Preferential flow on the catchment scale is found to be considerable with only 5% of the Eulerian velocities contributing to transport over the simulation period of 375 years. Natural attenuation is illustrated as a simple (linear decay) transformation process. Simulated natural attenuation can be estimated analytically reasonably well by using basic hydrological and structural information, the latter being the pathway length distribution and average aquifer depth to the bedrock.

Basic processes and factors determining the evolution of collapse sinkholes: a sensitivity study

NASA Astrophysics Data System (ADS)

Romanov, Douchko; Kaufmann, Georg

2017-04-01

Collapse sinkholes appear as closed depressions at the surface. The origin of these karst features is related to the continuous dissolution of the soluble rock caused by a focussed sub-surface flow. Water flowing along a preferential pathway through fissures and fractures within the phreatic part of a karst aquifer is able to dissolve the rock (limestone, gypsum, anhydrite). With time, the dissolved void volume increases and part of the ceiling above the stream can become unstable, collapses, and accumulates as debris in the flow path. The debris partially blocks the flow and thus activates new pathways. Because of the low compaction of the debris (high hydraulic conductivity), the flow and the dissolution rates within this crushed zone remain high. This allows a relatively fast dissolutional and erosional removal of the crushed material and the development of new empty voids. The void volume expands upwards towards the surface until a collapse sinkhole is formed. The collapse sinkholes exhibit a large variety of shapes (cylindrical, cone-, bowl-shaped), depths (from few to few hundred meters) and diameters (meters up to hundreds of meters). Two major processes are responsible for this diversity: a) the karst evolution of the aquifer - responsible for the dissolutional and erosional removal of material; b) the mechanical evolution of the host rock and the existence of structural features, faults for example, which determine the stability and the magnitude of the subsequent collapses. In this work we demonstrate the influence of the host rock type, the hydrological and geological boundary conditions, the chemical composition of the flowing water, and the geometry and the scale of the crushed zone, on the location and the evolution of the growing sinkhole. We demonstrate the ability of the karst evolution models to explain, at least qualitatively, the growth and the morphology of the collapse sinkholes and to roughly predict their shape and location. Implementing simple rules that describe the mechanical collapse, we come to the conclusion that a complete quantitative and qualitative description of a collapse sinkhole is possible, but for this it is necessary to take into account also the mechanical properties of the rock and the processes determining the mechanics of the collapses.

Effects of turbulence on hydraulic heads and parameter sensitivities in preferential groundwater flow layers

USGS Publications Warehouse

Shoemaker, W. Barclay; Cunningham, Kevin J.; Kuniansky, Eve L.; Dixon, Joann F.

2008-01-01

A conduit flow process (CFP) for the Modular Finite Difference Ground‐Water Flow model, MODFLOW‐2005, has been created by the U.S. Geological Survey. An application of the CFP on a carbonate aquifer in southern Florida is described; this application examines (1) the potential for turbulent groundwater flow and (2) the effects of turbulent flow on hydraulic heads and parameter sensitivities. Turbulent flow components were spatially extensive in preferential groundwater flow layers, with horizontal hydraulic conductivities of about 5,000,000 m d−1, mean void diameters equal to about 3.5 cm, groundwater temperature equal to about 25°C, and critical Reynolds numbers less than or equal to 400. Turbulence either increased or decreased simulated heads from their laminar elevations. Specifically, head differences from laminar elevations ranged from about −18 to +27 cm and were explained by the magnitude of net flow to the finite difference model cell. Turbulence also affected the sensitivities of model parameters. Specifically, the composite‐scaled sensitivities of horizontal hydraulic conductivities decreased by as much as 70% when turbulence was essentially removed. These hydraulic head and sensitivity differences due to turbulent groundwater flow highlight potential errors in models based on the equivalent porous media assumption, which assumes laminar flow in uniformly distributed void spaces.

Use of soil moisture dynamics and patterns at different spatio-temporal scales for the investigation of subsurface flow processes

NASA Astrophysics Data System (ADS)

Blume, T.; Zehe, E.; Bronstert, A.

2009-07-01

Spatial patterns as well as temporal dynamics of soil moisture have a major influence on runoff generation. The investigation of these dynamics and patterns can thus yield valuable information on hydrological processes, especially in data scarce or previously ungauged catchments. The combination of spatially scarce but temporally high resolution soil moisture profiles with episodic and thus temporally scarce moisture profiles at additional locations provides information on spatial as well as temporal patterns of soil moisture at the hillslope transect scale. This approach is better suited to difficult terrain (dense forest, steep slopes) than geophysical techniques and at the same time less cost-intensive than a high resolution grid of continuously measuring sensors. Rainfall simulation experiments with dye tracers while continuously monitoring soil moisture response allows for visualization of flow processes in the unsaturated zone at these locations. Data was analyzed at different spacio-temporal scales using various graphical methods, such as space-time colour maps (for the event and plot scale) and binary indicator maps (for the long-term and hillslope scale). Annual dynamics of soil moisture and decimeter-scale variability were also investigated. The proposed approach proved to be successful in the investigation of flow processes in the unsaturated zone and showed the importance of preferential flow in the Malalcahuello Catchment, a data-scarce catchment in the Andes of Southern Chile. Fast response times of stream flow indicate that preferential flow observed at the plot scale might also be of importance at the hillslope or catchment scale. Flow patterns were highly variable in space but persistent in time. The most likely explanation for preferential flow in this catchment is a combination of hydrophobicity, small scale heterogeneity in rainfall due to redistribution in the canopy and strong gradients in unsaturated conductivities leading to self-reinforcing flow paths.

How important is exact knowledge of preferential flowpath locations and orientations for understanding spatiotemporally integrated spring hydrologic and transport response?

NASA Astrophysics Data System (ADS)

Henson, W.; De Rooij, R.; Graham, W. D.

2016-12-01

The Upper Floridian Aquifer is hydrogeologically complex; limestone dissolution has led to vertical and horizontal preferential flow paths. Locations of karst conduits are unknown and conduit properties are poorly constrained. Uncertainty in effects of conduit location, size, and density, network geometry and connectivity on hydrologic and transport responses is not well quantified, leading to limited use of discrete-continuum models that incorporate conduit networks for regional-scale hydrologic regulatory models. However, conduit networks typically dominate flow and contaminant transport in karst aquifers. We evaluated sensitivity of simulated water and nitrate fluxes and flow paths to karst conduit geometry in a springshed representative of Silver Springs, Florida, using a novel calcite dissolution conduit-generation algorithm coupled with a discrete-continuum flow and transport model (DisCo). Monte Carlo simulations of conduit generation, groundwater flow, and conservative solute transport indicate that, if a first magnitude spring system conduit network developed (i.e., spring flow >2.8 m3/s), the uncertainty in hydraulic and solute pulse response metrics at the spring vent was minimally related to locational uncertainty of network elements. Across the ensemble of realizations for various distributions of conduits, first magnitude spring hydraulic pulse metrics (e.g., steady-flow, peak flow, and recession coefficients) had < 0.01 coefficient of variation (CV). Similarly, spring solute breakthrough curve moments had low CV (<0.08); peak arrival had CV=0.06, mean travel time had CV=0.05, and travel time standard deviation had CV=0.08. Nevertheless, hydraulic and solute pulse response metrics were significantly different than those predicted by an equivalent porous-media model. These findings indicate that regional-scale decision models that incorporate karst preferential flow paths within an uncertainty framework can be used to better constrain aquifer-vulnerability estimates, despite lacking information about actual conduit locations.

The Development of Novel Small Molecule Inhibitors of the Phosphoinositide-3-Kinase Pathway Through High-Throughput Cell-Based Screens

DTIC Science & Technology

2005-02-01

Akt in the P13K pathway. Given the emerging data for a positive feedback loop induced by mTOR inhibition, a bispecific 5 inhibitor might be attractive...cells relatively sensitive to rapamycin are also sensitive to thioridazine. PTEN null cells are known to be preferentially sensitized to mTOR ...a potent mTOR inhibitor, a downstream protein kinase in the Akt pathway. Rapamycin showed strong growth inhibitory effect in PTEN-null cells but 786

Investigation into the effect of water chemistry on corrosion product formation in areas of accelerated flow

NASA Astrophysics Data System (ADS)

McGrady, John; Scenini, Fabio; Duff, Jonathan; Stevens, Nicholas; Cassineri, Stefano; Curioni, Michele; Banks, Andrew

2017-09-01

The deposition of CRUD (Chalk River Unidentified Deposit) in the primary circuit of a Pressurised Water Reactor (PWR) is known to preferentially occur in regions of the circuit where flow acceleration of coolant occurs. A micro-fluidic flow cell was used to recreate accelerated flow under simulated PWR conditions, by flowing water through a disc with a central micro-orifice. CRUD deposition was reproduced on the disc, and CRUD Build-Up Rates (BUR) in various regions of the disc were analysed. The effect of the local environment on BUR was investigated. In particular, the effect of flow velocity, specimen material and Fe concentration were considered. The morphology and composition of the deposits were analysed with respect to experimental conditions. The BUR of CRUD was found to be sensitive to flow velocity and Fe concentration, suggesting that mass transfer is an important factor. The morphology of the deposit was affected by the specimen material indicating a dependence on surface/particle electrostatics meaning surface chemistry plays an important role in deposition. The preferential deposition of CRUD in accelerated flow regions due to electrokinetic effects was observed and it was shown that higher Fe concentrations in solution increased BURs within the orifice whereas increased flow velocity reduced BURs.

Quantifying water flow and retention in an unsaturated fracture-facial domain

USGS Publications Warehouse

Nimmo, John R.; Malek-Mohammadi, Siamak

2015-01-01

Hydrologically significant flow and storage of water occur in macropores and fractures that are only partially filled. To accommodate such processes in flow models, we propose a three-domain framework. Two of the domains correspond to water flow and water storage in a fracture-facial region, in addition to the third domain of matrix water. The fracture-facial region, typically within a fraction of a millimeter of the fracture wall, includes a flowing phase whose fullness is determined by the availability and flux of preferentially flowing water, and a static storage portion whose fullness is determined by the local matric potential. The flow domain can be modeled with the source-responsive preferential flow model, and the roughness-storage domain can be modeled with capillary relations applied on the fracture-facial area. The matrix domain is treated using traditional unsaturated flow theory. We tested the model with application to the hydrology of the Chalk formation in southern England, coherently linking hydrologic information including recharge estimates, streamflow, water table fluctuation, imaging by electron microscopy, and surface roughness. The quantitative consistency of the three-domain matrix-microcavity-film model with this body of diverse data supports the hypothesized distinctions and active mechanisms of the three domains and establishes the usefulness of this framework.

Subsurface imaging of an abandoned solid waste landfill site in Norman, Oklahoma

USGS Publications Warehouse

Zume, J.T.; Tarhule, A.; Christenson, S.

2006-01-01

Leachate plume emanating from an old unlined municipal landfill site near the city of Norman, Oklahoma, is discharging into the underlying alluvial aquifer. Subsurface imaging techniques, electrical resistivity tomography and electrical conductivity (EC) logging, were used on the site to detect and map the position of the leachate plume. Anomalous EC zones, delineated with the two methods, correlated with the occurrence of the plume detected by water chemistry analyses from multilevel monitoring wells. Specific conductance, a potential indicator of leachate contamination, ranged from 1861 to 7710 ??S/cm in contaminated zones and from 465 to 2180 ??S/cm in uncontaminated ground water. Results are in agreement with those from earlier studies that the leachate plume emerges from the landfill along preferential pathways. Additionally, there are indications that the leading edge of the plume has migrated, at least, 200 m away from the landfill in the direction of ground water flow. ?? 2006 National Ground Water Association.

Selective Cytotoxicity of Rhodium Metalloinsertors in Mismatch Repair-Deficient Cells†

PubMed Central

Ernst, Russell J.; Komor, Alexis C.; Barton, Jacqueline K.

2011-01-01

Mismatches in DNA occur naturally during replication and as a result of endogenous DNA damaging agents, but the mismatch repair (MMR) pathway acts to correct mismatches before subsequent rounds of replication. Rhodium metalloinsertors bind to DNA mismatches with high affinity and specificity and represent a promising strategy to target mismatches in cells. Here we examine the biological fate of rhodium metalloinsertors bearing dipyridylamine ancillary ligands in cells deficient in MMR versus those that are MMR-proficient. These complexes are shown to exhibit accelerated cellular uptake which permits the observation of various cellular responses, including disruption of the cell cycle, monitored by flow cytometry assays, and induction of necrosis, monitored by dye exclusion and caspase inhibition assays, that occur preferentially in the MMR-deficient cell line. These cellular responses provide insight into the mechanisms underlying the selective activity of this novel class of targeted anti-cancer agents. PMID:22103240

Effect of faulting on ground-water movement in the Death Valley Region, Nevada and California

USGS Publications Warehouse

Faunt, Claudia C.

1997-01-01

The current crustal stress field was combined with fault orientations to predict potential effects of faults on the regional groundwater flow regime. Numerous examples of faultcontrolled ground-water flow exist within the study area. Hydrologic data provided an independent method for checking some of the assumptions concerning preferential flow paths.

Scaling considerations related to interactions of hydrologic, pedologic and geomorphic processes (Invited)

NASA Astrophysics Data System (ADS)

Sidle, R. C.

2013-12-01

Hydrologic, pedologic, and geomorphic processes are strongly interrelated and affected by scale. These interactions exert important controls on runoff generation, preferential flow, contaminant transport, surface erosion, and mass wasting. Measurement of hydraulic conductivity (K) and infiltration capacity at small scales generally underestimates these values for application at larger field, hillslope, or catchment scales. Both vertical and slope-parallel saturated flow and related contaminant transport are often influenced by interconnected networks of preferential flow paths, which are not captured in K measurements derived from soil cores. Using such K values in models may underestimate water and contaminant fluxes and runoff peaks. As shown in small-scale runoff plot studies, infiltration rates are typically lower than integrated infiltration across a hillslope or in headwater catchments. The resultant greater infiltration-excess overland flow in small plots compared to larger landscapes is attributed to the lack of preferential flow continuity; plot border effects; greater homogeneity of rainfall inputs, topography and soil physical properties; and magnified effects of hydrophobicity in small plots. At the hillslope scale, isolated areas with high infiltration capacity can greatly reduce surface runoff and surface erosion at the hillslope scale. These hydropedologic and hydrogeomorphic processes are also relevant to both occurrence and timing of landslides. The focus of many landslide studies has typically been either on small-scale vadose zone process and how these affect soil mechanical properties or on larger scale, more descriptive geomorphic studies. One of the issues in translating laboratory-based investigations on geotechnical behavior of soils to field scales where landslides occur is the characterization of large-scale hydrological processes and flow paths that occur in heterogeneous and anisotropic porous media. These processes are not only affected by the spatial distribution of soil physical properties and bioturbations, but also by geomorphic attributes. Interactions among preferential flow paths can induce rapid pore water pressure response within soil mantles and trigger landslides during storm peaks. Alternatively, in poorly developed and unstructured soils, infiltration occurs mainly through the soil matrix and a lag time exists between the rainfall peak and development of pore water pressures at depth. Deep, slow-moving mass failures are also strongly controlled by secondary porosity within the regolith with the timing of activation linked to recharge dynamics. As such, understanding both small and larger scale processes is needed to estimate geomorphic impacts, as well as streamflow generation and contaminant migration.

Transit time distributions to assess present and future contamination risk of karst aquifers over Europe and the Mediterranean

NASA Astrophysics Data System (ADS)

Hartmann, Andreas; Gleeson, Tom; Wada, Yoshihide; Wagener, Thorsten

2016-04-01

Karst develops through the dissolution of carbonate rock. Karst groundwater in Europe is a major source of fresh water contributing up to half of the total drinking water supply in some countries. Climate model projections suggest that in the next 100 years, karst regions will experience a strong increase in temperature and a serious decrease of precipitation - especially in the Mediterranean region. Previous work showed that the karstic preferential recharge processes result in enhanced recharge rates and future climate sensitivity. But as there is fast water flow form the surface to the aquifer, there is also an enhanced risk of groundwater contamination. In this study we will assess the contamination risk of karst aquifers over Europe and the Mediterranean using simulated transit time distributions. Using a new type of semi-distributed model that considers the spatial heterogeneity of the karst system by distribution functions we simulated a range of spatially variable pathways of karstic groundwater recharge. The model is driven by the bias-corrected 5 GCMs of the ISI-MIP project (RCP8.5). Transit time distributions are calculated by virtual tracer experiments. These are repeated several times in the present (1991-2010) and the future (2080-2099). We can show that regions with larger fractions of preferential recharge show higher risks of contamination and that spatial patterns of contamination risk change towards the future.

Geophysical Assessment of the Control of a Jetty on a Barrier Beach and Estuary System

NASA Astrophysics Data System (ADS)

Ulrich, C.; Hubbard, S. S.; Peterson, J.; Blom, K.; Black, W.; Delaney, C.; Mendoza, J.

2014-12-01

An evaluation is underway at the Goat Rock State Park, located at the mouth of the Russian River near Jenner, CA, to quantify the influence of a man made jetty on the functioning of a barrier beach and associated implications for estuary fish habitat and flood control. Flow through the beach results from water level differences between the estuary and the ocean. When the estuary is closed or perched, one of the major sources of outflow from the lagoon is seepage flow through the barrier beach. The location and design of the jetty could be altering subsurface flow paths through the jetty and possibly impeding subsurface flow where the jetty is still intact. This will result in unnatural connectivity between the ocean and the estuary leading to atypical surface water elevations and possibly salinity imbalance. We are monitoring seepage through the jetty and beach berm with multiple surface and borehole geophysical methods, including: electrical resistivity (ERT), seismic refraction (SR), ground penetrating radar (GPR), and electromagnetic methods (EM). We use SR data to characterize deeper bedrock controls on beach barrier functioning; ERT and EM methods to characterize the beach sediment layers that could contribute to preferential flow paths during tide cycles in addition to preferential flow paths created by the jetty structure; time-lapse ERT and EM data to monitor moisture changes and mixing of saline and fresh water within the beach berm, and borehole ERT and GPR data to delineate the geometry of the (often buried) jetty. Preliminary ERT and EM results indicate two preferential flow paths through zones of missing jetty structure, while time-lapse borehole ERT data is expected to image saltwater flow impedance in zones of intact jetty structure. All data are being integrated with topography, tidal, borehole, and hydrological information and the results of the assessment will enable the Sonoma County Water Agency to develop the feasibility of alternatives to the existing jetty that may help achieve target estuarine water surface elevations.

EMERGING TECHNOLOGY BULLETIN: A CROSS-FLOW PERVAPORATION SYSTEM FOR REMOVAL OF VOCS FROM CONTAMINATED WASTEWATER

EPA Science Inventory

Pervaporation is a process for removing volatile organic compounds (VOC) from contaminated water. The performance of the cross-flow pervaporation system increases with temperature, with an equipment limitation of 35 degrees Celsius. Permeable membranes that preferentially adsor...

Motile hepatocellular carcinoma cells preferentially secret sugar metabolism regulatory proteins via exosomes.

PubMed

Zhang, Jing; Lu, Shaohua; Zhou, Ye; Meng, Kun; Chen, Zhipeng; Cui, Yizhi; Shi, Yunfeng; Wang, Tong; He, Qing-Yu

2017-07-01

Exosomes are deliverers of critically functional proteins, capable of transforming target cells in numerous cancers, including hepatocellular carcinoma (HCC). We hypothesize that the motility of HCC cells can be featured by comparative proteome of exosomes. Hence, we performed the super-SILAC-based MS analysis on the exosomes secreted by three human HCC cell lines, including the non-motile Hep3B cell, and the motile 97H and LM3 cells. More than 1400 exosomal proteins were confidently quantified in each MS analysis with highly biological reproducibility. We justified that 469 and 443 exosomal proteins represented differentially expressed proteins (DEPs) in the 97H/Hep3B and LM3/Hep3B comparisons, respectively. These DEPs focused on sugar metabolism-centric canonical pathways per ingenuity pathway analysis, which was consistent with the gene ontology analysis on biological process enrichment. These pathways included glycolysis I, gluconeogenesis I and pentose phosphate pathways; and the DEPs enriched in these pathways could form a tightly connected network. By analyzing the relative abundance of proteins and translating mRNAs, we found significantly positive correlation between exosomes and cells. The involved exosomal proteins were again focusing on sugar metabolism. In conclusion, motile HCC cells tend to preferentially export more sugar metabolism-associated proteins via exosomes that differentiate them from non-motile HCC cells. © 2017 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Particulate removal processes and hydraulics of porous gravel media filters

NASA Astrophysics Data System (ADS)

Minto, J. M.; Phoenix, V. R.; Dorea, C. C.; Haynes, H.; Sloan, W. T.

2013-12-01

Sustainable urban Drainage Systems (SuDS) are rapidly gaining acceptance as a low-cost tool for treating urban runoff pollutants close to source. Road runoff water in particular requires treatment due to the presence of high levels of suspended particles and heavy metals adsorbed to these particles. The aim of this research is to elucidate the particle removal processes that occur within gravel filters that have so far been considered as 'black-box' systems. Based on these findings, a better understanding will be attained on what influences gravel filter removal efficiency and how this changes throughout their design life; leading to a more rational design of this useful technology. This has been achieved by tying together three disparate research elements: tracer residence time distribution curves of filters during clogging; 3D magnetic resonance imaging (MRI) of clogging filters and computational fluid dynamics (CFD) modelling of complex filter pore networks. This research relates column average changes in particle removal efficiency and tracer residence time distributions (RTDs) due to clogging with non-invasive measurement of the spatial variability in particle deposition. The CFD modelling provides a link between observed deposition patterns, flow velocities and wall shear stresses as well as the explanations for the change in RTD with clogging and the effect on particle transport. Results show that, as a filter clogs, particles take a longer, more tortuous path through the filter. This is offset by a reduction in filter volume resulting in higher flow velocities and more rapid particle transport. Higher velocities result in higher shear stresses and the development of preferential pathways in which the velocity exceeds the deposition threshold and the overall efficiency of the filter decreases. Initial pore geometry is linked to the pattern of deposition and subsequent formation of preferential pathways. These results shed light on the 'black-box' internal clogging processes of gravel filters and are a considerable improvement on the inflow/outflow data most often available to monitor removal efficiency and clogging. Sub-section of the MRI derived geometry showing gravel (grey), pore space (blue), deposited particles (red) for 1) prior to clogging and 2) after clogging. The pore network skeleton (green) provided a reference point for comparing pore diameter change with clogging.

Role of macropore flow in the transport of Escherichia coli cells in undisturbed cores of a brown leached soil.

PubMed

Martins, Jean M F; Majdalani, Samer; Vitorge, Elsa; Desaunay, Aurélien; Navel, Aline; Guiné, Véronique; Daïan, Jean François; Vince, Erwann; Denis, Hervé; Gaudet, Jean Paul

2013-02-01

The objective of this work was to evaluate the transport of Escherichia coli cells in undisturbed cores of a brown leached soil collected at La Côte St André (France). Two undisturbed soil cores subjected to repeated injections of bacterial cells and/or bromide tracer were used to investigate the effect of soil hydrodynamics and ionic strength on cell mobility. Under the tested experimental conditions, E. coli cells were shown to be transported at the water velocity (retardation factor close to 1) and their retention appeared almost insensitive to water flow and ionic strength variations, both factors being known to control bacterial transport in model saturated porous media. In contrast, E. coli breakthrough curves evolved significantly along with the repetition of the cell injections in each soil core, with a progressive acceleration of their transport. The evolution of E. coli cells BTCs was shown to be due to the evolution of the structure of soil hydraulic pathways caused by the repeated water infiltrations and drainage as may occur in the field. This evolution was demonstrated through mercury intrusion porosimetry (MIP) performed on soil aggregates before and after the repeated infiltrations of bacteria. MIP revealed a progressive and important reduction of the soil aggregate porosity, n, that decreased from approximately 0.5 to 0.3, along with a decrease of the soil percolating step from 27 to 2 μm. From this result a clear compaction of soil aggregates was evidenced that concerned preferentially the pores larger than 2 μm equivalent diameter, i.e. those allowing bacterial cell passage. Since no significant reduction of the global soil volume was observed at the core scale, this aggregate compaction was accompanied by macropore formation that became progressively the preferential hydraulic pathway in the soil cores, leading to transiently bi-modal bacterial BTCs. The evolution of the soil pore structure induced a modification of the main hydrodynamic processes, evolving from a matrix-dominant transfer of water and bacteria to a macropore-dominant transfer. This work points out the importance of using undisturbed natural soils to evaluate the mobility of bacteria in the field, since the evolving hydrodynamic properties of soils appeared to dominate most physicochemical factors.

Differential Interaction of Platelet-Derived Extracellular Vesicles with Leukocyte Subsets in Human Whole Blood.

PubMed

Weiss, René; Gröger, Marion; Rauscher, Sabine; Fendl, Birgit; Eichhorn, Tanja; Fischer, Michael B; Spittler, Andreas; Weber, Viktoria

2018-04-26

Secretion and exchange of biomolecules via extracellular vesicles (EVs) are crucial mechanisms in intercellular communication, and the roles of EVs in infection, inflammation, or thrombosis have been increasingly recognized. EVs have emerged as central players in immune regulation and can enhance or suppress the immune response, depending on the state of donor and recipient cells. We investigated the interaction of blood cell-derived EVs with leukocyte subpopulations (monocytes and their subsets, granulocytes, B cells, T cells, and NK cells) directly in whole blood using a combination of flow cytometry, imaging flow cytometry, cell sorting, and high resolution confocal microscopy. Platelet-derived EVs constituted the majority of circulating EVs and were preferentially associated with granulocytes and monocytes, while they scarcely interacted with lymphocytes. Further flow cytometric differentiation of monocyte subsets provided clear indications for a preferential association of platelet-derived EVs with intermediate (CD14 ++ CD16 + ) monocytes in whole blood.

Geoelectrical monitoring of simulated subsurface leakage to support high-hazard nuclear decommissioning at the Sellafield Site, UK.

PubMed

Kuras, Oliver; Wilkinson, Paul B; Meldrum, Philip I; Oxby, Lucy S; Uhlemann, Sebastian; Chambers, Jonathan E; Binley, Andrew; Graham, James; Smith, Nicholas T; Atherton, Nick

2016-10-01

A full-scale field experiment applying 4D (3D time-lapse) cross-borehole Electrical Resistivity Tomography (ERT) to the monitoring of simulated subsurface leakage was undertaken at a legacy nuclear waste silo at the Sellafield Site, UK. The experiment constituted the first application of geoelectrical monitoring in support of decommissioning work at a UK nuclear licensed site. Images of resistivity changes occurring since a baseline date prior to the simulated leaks revealed likely preferential pathways of silo liquor simulant flow in the vadose zone and upper groundwater system. Geophysical evidence was found to be compatible with historic contamination detected in permeable facies in sediment cores retrieved from the ERT boreholes. Results indicate that laterally discontinuous till units forming localized hydraulic barriers substantially affect flow patterns and contaminant transport in the shallow subsurface at Sellafield. We conclude that only geophysical imaging of the kind presented here has the potential to provide the detailed spatial and temporal information at the (sub-)meter scale needed to reduce the uncertainty in models of subsurface processes at nuclear sites. Copyright © 2016 British Geological Survey, NERC. Published by Elsevier B.V. All rights reserved.

Numerical modeling of NI-monitored 3D infiltration experiment

NASA Astrophysics Data System (ADS)

Dohnal, Michal; Dusek, Jaromir; Snehota, Michal; Sacha, Jan; Vogel, Tomas; Votrubova, Jana

2014-05-01

It is well known that the temporal changes of saturated hydraulic conductivity caused by the occurrence of air phase discontinuities often play an important role in water flow and solute transport experiments. In the present study, a series of infiltration-outflow experiments was conducted to test several working hypotheses about the mechanism of air phase trapping. The experiments were performed on a porous sample with artificial internal structure, using three sandy materials with contrasting hydraulic properties. The sample was axially symmetric with continuous preferential pathways and separate porous matrix blocks (the sample was 3.4 cm in diameter and 8.8 cm high). The infiltration experiments were monitored by neutron imaging (NI). The NI data were then used to quantify the water content of the selected sample regions. The flow regime in the sample was studied using a three-dimensional model based on Richards' equation. The equation was solved by the finite element method. The results of the numerical simulations of the infiltration experiments were compared with the measured outflow rates and with the spatial distribution of water content determined by NI. The research was supported by the Czech Science Foundation Project No. 14-03691S.

The role of porous matrix in water flow regulation within a karst unsaturated zone: an integrated hydrogeophysical approach

NASA Astrophysics Data System (ADS)

Carrière, Simon D.; Chalikakis, Konstantinos; Danquigny, Charles; Davi, Hendrik; Mazzilli, Naomi; Ollivier, Chloé; Emblanch, Christophe

2016-11-01

Some portions of the porous rock matrix in the karst unsaturated zone (UZ) can contain large volumes of water and play a major role in water flow regulation. The essential results are presented of a local-scale study conducted in 2011 and 2012 above the Low Noise Underground Laboratory (LSBB - Laboratoire Souterrain à Bas Bruit) at Rustrel, southeastern France. Previous research revealed the geological structure and water-related features of the study site and illustrated the feasibility of specific hydrogeophysical measurements. In this study, the focus is on hydrodynamics at the seasonal and event timescales. Magnetic resonance sounding (MRS) measured a high water content (more than 10 %) in a large volume of rock. This large volume of water cannot be stored in fractures and conduits within the UZ. MRS was also used to measure the seasonal variation of water stored in the karst UZ. A process-based model was developed to simulate the effect of vegetation on groundwater recharge dynamics. In addition, electrical resistivity tomography (ERT) monitoring was used to assess preferential water pathways during a rain event. This study demonstrates the major influence of water flow within the porous rock matrix on the UZ hydrogeological functioning at both the local (LSBB) and regional (Fontaine de Vaucluse) scales. By taking into account the role of the porous matrix in water flow regulation, these findings may significantly improve karst groundwater hydrodynamic modelling, exploitation, and sustainable management.

Defining the Pathophysiological Role of Tau in Experimental TBI

DTIC Science & Technology

2016-10-01

in AD. This pathway is a major source for excitatory innervation of hippocampus , a structure vital for memory formation. Damage to the EC or...hippocampal input pathway that is both preferentially vulnerable in early-stage AD and critically important for long-term memory . The model confines...structure and function of the hippocampus after single or repetitive mild TBI, and whether mild TBI exacerbates ongoing tauopathy to promote a chronic

Engineering report single-shell tank farms interim measures to limit infiltration through the vadose zone

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

HAASS, C.C.

1999-10-14

Identifies, evaluates and recommends interim measures for reducing or eliminating water sources and preferential pathways within the vadose zone of the single-shell tank farms. Features studied: surface water infiltration and leaking water lines that provide recharge moisture, and wells that could provide pathways for contaminant migration. An extensive data base, maps, recommended mitigations, and rough order of magnitude costs are included.

Fingering and Intermittent Flow in Unsaturated Fractured Porous Media

NASA Astrophysics Data System (ADS)

Or, D.; Ghezzehei, T. A.

2003-12-01

Because of the dominance of gravitational forces over capillary and viscous forces in relatively large fracture apertures, flow processes in unsaturated fractures are considerably different from flow in rock matrix or in unsaturated soils. Additionally, variations in fracture geometry and properties perturb the delicate balance between gravitational, capillary, and viscous forces, leading to liquid fragmentation, fingering and intermittent flows. We developed a quantitative framework for modeling fluid fragmentation and the subsequent flow behavior of discrete fluid elements (slugs). The transition from a slowly growing but stationary liquid cluster to a finger-forming mobile slug in a non horizontal fracture is estimated from the force balance between retarding capillary forces dominated by contact angle hysteresis, and the weight and shape of the cluster. For a steady flux we developed a model for liquid fragmentation within the fracture plane that gives rise to intermittent discharge, as has been observed experimentally. Intermittency is shown to be a result of interplay between capillary, viscous, and gravitational forces, much like internal dripping. Liquid slug size, detachment interval, and travel velocity are dependent primarily on the local fracture-aperture geometry shaping the seed cluster, rock-surface roughness and wetness, and liquid flux feeding the bridge (either by film flow or from the rock matrix). We show that the presence of even a few irregularities in a vertical fracture surface could affect liquid cluster formation and growth, resulting in complicated flux patterns at the fracture bottom. Such chaotic-like behavior has been observed in previous studies involving gravity-driven unsaturated flow. Inferences based on statistical description of fracture-aperture variations and simplified representation of the fragmentation processes yield insights regarding magnitude and frequency of liquid avalanches. The study illustrates that attempts at describing intermittent and preferential flow behavior by adjustment of macroscopic continuum approaches are destined to failure at most local scales. In accordance with recent observations, flow behavior in partially saturated fractures tends to produce highly localize pathways that focus otherwise diffusive fluxes (film flow or matrix seepage).

A Synthetic Interaction Screen Identifies Factors Selectively Required for Proliferation and TERT Transcription in p53-Deficient Human Cancer Cells

PubMed Central

Park, Sung Mi; Zhu, Lihua J.; Debily, Marie-anne; Kittler, Ellen L. W.; Zapp, Maria L.; Lapointe, David; Gobeil, Stephane; Virbasius, Ching-Man; Green, Michael R.

2012-01-01

Numerous genetic and epigenetic alterations render cancer cells selectively dependent on specific genes and regulatory pathways, and represent potential vulnerabilities that can be therapeutically exploited. Here we describe an RNA interference (RNAi)–based synthetic interaction screen to identify genes preferentially required for proliferation of p53-deficient (p53−) human cancer cells. We find that compared to p53-competent (p53+) human cancer cell lines, diverse p53− human cancer cell lines are preferentially sensitive to loss of the transcription factor ETV1 and the DNA damage kinase ATR. In p53− cells, RNAi–mediated knockdown of ETV1 or ATR results in decreased expression of the telomerase catalytic subunit TERT leading to growth arrest, which can be reversed by ectopic TERT expression. Chromatin immunoprecipitation analysis reveals that ETV1 binds to a region downstream of the TERT transcriptional start-site in p53− but not p53+ cells. We find that the role of ATR is to phosphorylate and thereby stabilize ETV1. Our collective results identify a regulatory pathway involving ETV1, ATR, and TERT that is preferentially important for proliferation of diverse p53− cancer cells. PMID:23284306

Groundwater recharge dynamics in unsaturated fractured chalk: a case study

NASA Astrophysics Data System (ADS)

Cherubini, Claudia; Pastore, Nicola; Giasi, Concetta I.; Allegretti, Nicolaetta M.

2016-04-01

The heterogeneity of the unsaturated zone controls its hydraulic response to rainfall and the extent to which pollutants are delayed or attenuated before reaching groundwater. It plays therefore a very important role in the recharge of aquifers and the transfer of pollutants because of the presence of temporary storage zones and preferential flows. A better knowledge of the physical processes in the unsaturated zone would allow an improved assessment of the natural recharge in a heterogeneous aquifer and of its vulnerability to surface-applied pollution. The case study regards the role of the thick unsaturated zone of the Cretaceous chalk aquifer in Picardy (North of France) that controls the hydraulic response to rainfall. In the North Paris Basin, much of the recharge must pass through a regional chalk bed that is composed of a porous matrix with embedded fractures. Different types of conceptual models have been formulated to explain infiltration and recharge processes in the unsaturated fractured rock. The present study analyses the episodic recharge in fractured Chalk aquifer using the kinematic diffusion theory to predict water table fluctuation in response to rainfall. From an analysis of the data, there is the evidence of 1) a seasonal behavior characterized by a constant increase in the water level during the winter/spring period and a recession period, 2) a series of episodic behaviors during the summer/autumn. Kinematic diffusion models are useful for predict preferential fluxes and dynamic conditions. The presented approach conceptualizes the unsaturated flow as a combination of 1) diffusive flow refers to the idealized portion of the pore space of the medium within the flow rate is driven essentially by local gradient of potential; 2) preferential flow by which water moves across macroscopic distances through conduits of macropore length.

On the importance of variable soil depth and process representation in the modeling of shallow landslide initiation

NASA Astrophysics Data System (ADS)

Fatichi, S.; Burlando, P.; Anagnostopoulos, G.

2014-12-01

Sub-surface hydrology has a dominant role on the initiation of rainfall-induced landslides, since changes in the soil water potential affect soil shear strength and thus apparent cohesion. Especially on steep slopes and shallow soils, loss of shear strength can lead to failure even in unsaturated conditions. A process based model, HYDROlisthisis, characterized by high resolution in space and, time is developed to investigate the interactions between surface and subsurface hydrology and shallow landslide initiation. Specifically, 3D variably saturated flow conditions, including soil hydraulic hysteresis and preferential flow, are simulated for the subsurface flow, coupled with a surface runoff routine. Evapotranspiration and specific root water uptake are taken into account for continuous simulations of soil water content during storm and inter-storm periods. The geotechnical component of the model is based on a multidimensional limit equilibrium analysis, which takes into account the basic principles of unsaturated soil mechanics. The model is applied to a small catchment in Switzerland historically prone to rainfall-triggered landslides. A series of numerical simulations were carried out with various boundary conditions (soil depths) and using hydrological and geotechnical components of different complexity. Specifically, the sensitivity to the inclusion of preferential flow and soil hydraulic hysteresis was tested together with the replacement of the infinite slope assumption with a multi-dimensional limit equilibrium analysis. The effect of the different model components on model performance was assessed using accuracy statistics and Receiver Operating Characteristic (ROC) curve. The results show that boundary conditions play a crucial role in the model performance and that the introduced hydrological (preferential flow and soil hydraulic hysteresis) and geotechnical components (multidimensional limit equilibrium analysis) considerably improve predictive capabilities in the presented case study.

Preferential flow paths in fractured rock detected by cross-borehole nano-iron tracer test

NASA Astrophysics Data System (ADS)

Chia, Yeeping; Chuang, Po-Yu

2017-04-01

Characterization of the preferential flow paths and their hydraulic properties is desirable for developing a hydrogeological conceptual model in fractured rock. However, the heterogeneity and anisotropy of the hydraulic property often make it difficult to understand groundwater flow paths through fractures. In this study, we adopted nanoscale zero-valent iron (nZVI) as a tracer to characterize fracture connectivity and hydraulic properties. A magnet array was placed in an observation well to attract arriving nZVI particles for identifying the location of incoming tracer. This novel approach was developed for the investigation of fracture flow at a hydrogeological research station in central Taiwan. A heat-pulse flowmeter test was performed to delineate the vertical distribution of permeable fractures in two boreholes, making it possible to design a field tracer test. The nZVI slurry was released in the sealed injection well. The arrival of the slurry in the observation well was evidenced by a breakthrough curve recorded by the fluid conductivity sensor as well as the nZVI particles attracted to the magnets. The iron nanoparticles attracted to the magnets provide the quantitative criteria for locating the position of tracer inlet in the observation well. The position of the magnet attracting the maximum weight of iron nanoparticles agrees well with the depth of a permeable fracture zone delineated by the flowmeter. Besides, a conventional saline tracer test was conducted in the field, producing a similar outcome as the nZVI tracer test. Our study results indicate that the nano-iron tracer test could be a promising method for the characterization of the preferential flow paths in fractured rock.

Rapid debromination of polybrominated diphenyl ethers (PBDEs) by zero valent metal and bimetals: Mechanisms and pathways assisted by density function theory calculation.

PubMed

Wang, Rui; Tang, Ting; Lu, Guining; Huang, Kaibo; Yin, Hua; Lin, Zhang; Wu, Fengchang; Dang, Zhi

2018-05-17

Polybrominated diphenyl ethers (PBDEs) undergo debromination when they were exposed in zerovalent metal or bimetallic systems. Yet their debromination pathways and mechanisms in these systems were not well understood. Here we reported the debromination pathways of three BDE congeners (BDE-21, 25 and 29) by nano-zerovalent iron (n-ZVI). All these BDE congeners have three bromine substituents that were located in ortho-, meta- and para-positions. Results demonstrated that BDE-21, 25 and 29 preferentially debrominate meta-, ortho- and para-bromines, respectively, suggesting that bromine substituent at each position (i.e. ortho-, meta- or para-) of PBDEs can be preferentially removed. Singly occupied molecular orbitals of BDE anions are well correlated with their actual debromination pathways, which successfully explain why these BDE congeners exhibit certain debromination pathways in n-ZVI system. In addition, microscale zerovalent zinc (m-ZVZ), iron-based bimetals (Fe/Ag and Fe/Pd) were also used to debrominate PBDEs, with BDE-21 as target pollutant. We found that the debromination pathways of BDE-21 in m-ZVZ and Fe/Ag systems are the same to those in n-ZVI system, but were partially different from those in Fe/Pd systems. The debromination of BDE-21 in Pd-H 2 system as well as the solvent kinetic isotope effect in single metal and bimetallic systems suggests that H atom transfer is the dominant mechanism in Fe/Pd system, while e-transfer is still the dominant mechanism in Fe/Ag system. Copyright © 2018 Elsevier Ltd. All rights reserved.

Remedial Amendment Delivery near the Water Table Using Shear Thinning Fluids: Experiments and Numerical Simulations

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

Oostrom, Martinus; Truex, Michael J.; Vermeul, Vincent R.

2014-08-19

The use of shear thinning fluids (STFs) containing xanthan is a potential enhancement for emplacing a solute amendment near the water table and within the capillary fringe. Most research to date related to STF behavior has involved saturated and confined conditions. A series of flow cell experiments were conducted to investigate STF emplacement in variable saturated homogeneous and layered heterogeneous systems. Besides flow visualization using dyes, amendment concentrations and pressure data were obtained at several locations. The experiments showed that injection of STFs considerably improved the subsurface distribution near the water table by mitigating preferential flow through higher permeability zonesmore » compared to no-polymer injections. The phosphate amendment migrated with the xanthan SFT without retardation. Despite the high viscosity of the STF, no excessive mounding or preferential flow were observed in the unsaturated zone. The STOMP simulator was able to predict the experimentally observed fluid displacement and amendment concentrations reasonably well. Cross flow between layers could be interpreted as the main mechanism to transport STFs into lower permeability layers based on the observed pressure gradient and concentration data in layers of differing hydraulic conductivity.« less

Basalt-flow imaging using a high-resolution directional borehole radar

USGS Publications Warehouse

Moulton, C.W.; Wright, D.L.; Hutton, S.R.; Smith, D.V.G.; Abraham, J.D.

2002-01-01

A new high-resolution directional borehole radar-logging tool (DBOR tool) was used to log three wells at the Idaho National Engineering and Environmental Laboratory (INEEL). The radar system uses identical directional cavity-backed monopole transmitting and receiving antennas that can be mechanically rotated while the tool is stationary or moving slowly in a borehole. Faster reconnaissance logging with no antenna rotation was also done to find zones of interest. The microprocessor-controlled motor/encoder in the tool can rotate the antennas azimuthally, to a commanded angle, accurate to a within few degrees. The three logged wells in the unsaturated zone at the INEEL had been cored with good core recovery through most zones. After coring, PVC casing was installed in the wells. The unsaturated zone consists of layered basalt flows that are interbedded with thin layers of coarse-to-fine grained sediments. Several zones were found that show distinctive signatures consistent with fractures in the basalt. These zones may correspond to suspected preferential flow paths. The DBOR data were compared to core, and other borehole log information to help provide better understanding of hydraulic flow and transport in preferential flow paths in the unsaturated zone basalts at the INEEL.

Rheoscopic Fluids in a Post-Kalliroscope World

NASA Astrophysics Data System (ADS)

Borrero-Echeverry, Daniel; Crowley, Christopher J.

2016-11-01

In rheoscopic flow visualization the working fluid is seeded with small plate-shaped particles, which preferentially align in the flow due to their anisotropy. This leads to preferential light scattering, which highlights qualitatively different regions of the flow. For the past four decades, the gold standard in rheoscopic flow visualization has been Kalliroscope, a commercial product consisting of crystalline guanine particles. Guanine is a shiny compound extracted from fish scales and has traditionally been used in cosmetics to provide a pearlescent effect. It stands out among other options for rheoscopic flow visualization (e.g., aluminum flakes or coated mica particles) due to its relatively good density match with water. Guanine extraction, however, is an expensive process and as the cosmetics industry has adopted less expensive alternatives, commercial guanine production has dropped, leading to the closure of the Kalliroscope Corporation in 2014. In this talk, we discuss our recent discovery of a rheoscopic fluid based on stearic acid crystals, which has an overall performance similar to, and in some cases superior to, Kalliroscope. This rheoscopic fluid can be extracted from household items making it very inexpensive and readily accessible to researchers around the world.

Preferential Deposition of Snow in Mountains Revisited

NASA Astrophysics Data System (ADS)

Lehning, M.; Comola, F.

2017-12-01

Inhomogeneous snow accumulation in mountainous terrain is caused by precipitation gradients, spatial deposition differences as well as snow transport. The effect of spatially varying deposition as a function of near-surface flow - particle interactions has had some attention in the last decade but different groups have found conflicting results on both the relative magnitude of the effect as well as the resulting snow distribution patterns. Since in the field and through measurements it is difficult to separate preferential deposition from the other two processes, the investigation needs to rely on modellig. We present a new and complete model of flow - particle dynamics, which combines large eddy flow field simulations (LES) with Lagrangian stochastic modelling (LSM) over topography of varying complexity. Using a non-dimensionalized formulation of flow - particle interactions, we present systematic investigations on how particle properties (inertia, shape), flow properties (wind speed) and topography (height, width) influence the magnitude and distribution pattern of snow deposition. It is shown that dependent on Froude and Stokes numbers, very different deposition patterns can result with maximum deposition either in the windward or lee of a ridge and that dendridic snow is behaving similar to inertialess tracers.

Macropore Flow and Mass Wasting of Gullies in the Loess Plateau, China

USDA-ARS?s Scientific Manuscript database

Due to the extensive gullying from historically excessive erosion in the loess plateau of China, much of this region is being removed from cropping and converted to native grass and shrub vegetation. The effects of this conversion on soil physical properties that result in preferential flow have not...

Direct Numerical Simulations of Particle-Laden Turbulent Channel Flow

NASA Astrophysics Data System (ADS)

Jebakumar, Anand Samuel; Premnath, Kannan; Abraham, John

2017-11-01

In a recent experimental study, Lau and Nathan (2014) reported that the distribution of particles in a turbulent pipe flow is strongly influenced by the Stokes number (St). At St lower than 1, particles migrate toward the wall and at St greater than 10 they tend to migrate toward the axis. It was suggested that this preferential migration of particles is due to two forces, the Saffman lift force and the turbophoretic force. Saffman lift force represents a force acting on the particle as a result of a velocity gradient across the particle when it leads or lags the fluid flow. Turbophoretic force is induced by turbulence which tends to move the particle in the direction of decreasing turbulent kinetic energy. In this study, the Lattice Boltzmann Method (LBM) is employed to simulate a particle-laden turbulent channel flow through Direct Numerical Simulations (DNS). We find that the preferential migration is a function of particle size in addition to the St. We explain the effect of the particle size and St on the Saffman lift force and turbophoresis and present how this affects particle concentration at different conditions.

Induced heterogeneity of soil water content and chemical properties by treated wastewater irrigation and its reclamation by freshwater irrigation

NASA Astrophysics Data System (ADS)

Rahav, Matan; Brindt, Naaran; Yermiyahu, Uri; Wallach, Rony

2017-06-01

The recognition of treated wastewater (TWW) as an alternative water resource is expanding in areas with a shortage of freshwater (FW) resources. Today, most orchards in Israel are irrigated with TWW. While the benefits of using TWW for irrigation are apparent, evidence of its negative effects on soil, trees, and yield is accumulating. This study, performed in a commercial TWW-irrigated citrus orchard in central Israel, examined the effects of (1) soil-wettability decrease due to prolonged TWW irrigation on the spatial and temporal distribution of water content and associated chemical properties in the root zone; (2) the conversion of irrigation in half of the TWW-irrigated research plot to FW (2012) for soil reclamation. Electrical resistivity tomography surveys in the substantially water repellent soils revealed that water flow is occurring along preferential flow paths in both plots, leaving behind a considerably nonuniform water-content distribution. This was despite the gradual relief in soil water repellency measured in the FW plots. Four soil-sampling campaigns (spring and fall, 2014-2016), performed in 0-20 and 20-40 cm layers of the research plot, revealed bimodal gravimetrically measured water-content distribution. The preferential flow led to uneven chemical-property distribution, with substantially high concentrations in the dry spots, and lower concentrations in the wet spots along the preferential flow paths. The average salt and nutrient concentrations, which were initially high in both plots, gradually dispersed with time, as concentrations in the FW plots decreased. Nevertheless, the efficiency of reclaiming TWW soil by FW irrigation appears low.

Evidence for ubiquitous preferential particle orientation in representative oceanic shear flows.

PubMed

Nayak, Aditya R; McFarland, Malcolm N; Sullivan, James M; Twardowski, Michael S

2018-01-01

In situ measurements were undertaken to characterize particle fields in undisturbed oceanic environments. Simultaneous, co-located depth profiles of particle fields and flow characteristics were recorded using a submersible holographic imaging system and an acoustic Doppler velocimeter, under different flow conditions and varying particle concentration loads, typical of those found in coastal oceans and lakes. Nearly one million particles with major axis lengths ranging from ∼14 μm to 11.6 mm, representing diverse shapes, sizes, and aspect ratios were characterized as part of this study. The particle field consisted of marine snow, detrital matter, and phytoplankton, including colonial diatoms, which sometimes formed "thin layers" of high particle abundance. Clear evidence of preferential alignment of particles was seen at all sampling stations, where the orientation probability density function (PDF) peaked at near horizontal angles and coincided with regions of low velocity shear and weak turbulent dissipation rates. Furthermore, PDF values increased with increasing particle aspect ratios, in excellent agreement with models of spheroidal particle motion in simple shear flows. To the best of our knowledge, although preferential particle orientation in the ocean has been reported in two prior cases, our findings represent the first comprehensive field study examining this phenomenon. Evidence of nonrandom particle alignment in aquatic systems has significant consequences to aquatic optics theory and remote sensing, where perfectly random particle orientation and thus isotropic symmetry in optical parameters is assumed. Ecologically, chain-forming phytoplankton may have evolved to form large aspect ratio chains as a strategy to optimize light harvesting.

Evidence for ubiquitous preferential particle orientation in representative oceanic shear flows

PubMed Central

McFarland, Malcolm N.; Sullivan, James M.; Twardowski, Michael S.

2017-01-01

Abstract In situ measurements were undertaken to characterize particle fields in undisturbed oceanic environments. Simultaneous, co‐located depth profiles of particle fields and flow characteristics were recorded using a submersible holographic imaging system and an acoustic Doppler velocimeter, under different flow conditions and varying particle concentration loads, typical of those found in coastal oceans and lakes. Nearly one million particles with major axis lengths ranging from ∼14 μm to 11.6 mm, representing diverse shapes, sizes, and aspect ratios were characterized as part of this study. The particle field consisted of marine snow, detrital matter, and phytoplankton, including colonial diatoms, which sometimes formed “thin layers” of high particle abundance. Clear evidence of preferential alignment of particles was seen at all sampling stations, where the orientation probability density function (PDF) peaked at near horizontal angles and coincided with regions of low velocity shear and weak turbulent dissipation rates. Furthermore, PDF values increased with increasing particle aspect ratios, in excellent agreement with models of spheroidal particle motion in simple shear flows. To the best of our knowledge, although preferential particle orientation in the ocean has been reported in two prior cases, our findings represent the first comprehensive field study examining this phenomenon. Evidence of nonrandom particle alignment in aquatic systems has significant consequences to aquatic optics theory and remote sensing, where perfectly random particle orientation and thus isotropic symmetry in optical parameters is assumed. Ecologically, chain‐forming phytoplankton may have evolved to form large aspect ratio chains as a strategy to optimize light harvesting. PMID:29456268

Preferential adsorption of fluorescing fulvic and humic acid components on activated carbon using flow field-flow fractionation analysis.

PubMed

Schmit, Kathryn H; Wells, Martha J M

2002-02-01

Activated carbon treatment of drinking water is used to remove natural organic matter (NOM) precursors that lead to the formation of disinfection byproducts. The innate hydrophobic nature and macromolecular size of NOM render it amenable to sorption by activated carbon. Batch equilibrium and minicolumn breakthrough adsorption studies were performed using granular activated carbon to treat NOM-contaminated water. Ultraviolet (UV) absorption spectroscopy and flow field-flow fractionation analysis using tandem diode-array and fluorescence detectors were used to monitor the activated carbon sorption of NOM. Using these techniques, it was possible to study activated carbon adsorption properties of UV absorbing, fluorescing and nonfluorescing, polyelectrolytic macromolecules fractionated from the total macromolecular and nonmacromolecular composition of NOM. Adsorption isotherms were constructed at pH 6 and pH 9. Data were described by the traditional and modified Freundlich models. Activated carbon capacity and adsorbability were compared among fractionated molecular subsets of fulvic and humic acids. Preferential adsorption (or adsorptive fractionation) of polyelectrolytic, fluorescing fulvic and humic macromolecules on activated carbon was observed. The significance of observing preferential adsorption on activated carbon of fluorescing macromolecular components relative to nonfluorescing components is that this phenomenon changes the composition of dissolved organic matter remaining in equilibrium in the aqueous phase relative to the composition that existed in the aqueous phase prior to adsorption. Likewise, it changes the composition of dissolved organic matter remaining in equilibrium in the aqueous phase relative to the adsorbed phase. This research increases our understanding of NOM interactions with activated carbon which may lead to improved methods of potable water production.

Action-derived molecular dynamics simulations for the migration and coalescence of vacancies in graphene and carbon nanotubes.

PubMed

Lee, Alex Taekyung; Ryu, Byungki; Lee, In-Ho; Chang, K J

2014-03-19

We report the results of action-derived molecular dynamics simulations for the migration and coalescence processes of monovacancies in graphene and carbon nanotubes with different chiralities. In carbon nanotubes, the migration pathways and barriers of a monovacancy depend on the tube chirality, while there is no preferential pathway in graphene due to the lattice symmetry and the absence of the curvature effect. The probable pathway changes from the axial to circumferential direction as the chirality varies from armchair to zigzag. The chirality dependence is attributed to the preferential orientation of the reconstructed bond formed around each vacancy site. It is energetically more favourable for two monovacancies to coalesce into a divacancy via alternative movements rather than simultaneous movements. The energy barriers for coalescence are generally determined by the migration barrier for the monovacancy, although there are some variations due to interactions between two diffusing vacancies. In graphene and armchair nanotubes, two monovacancies prefer to migrate along different zigzag atomic chains rather than a single atomic chain connecting these vacancies. On the other hand, in zigzag tubes, the energy barrier for coalescence increases significantly unless monovacancies lie on the same circumference.

Water, Energy, and Biogeochemical Model (WEBMOD), user’s manual, version 1

USGS Publications Warehouse

Webb, Richard M.T.; Parkhurst, David L.

2017-02-08

The Water, Energy, and Biogeochemical Model (WEBMOD) uses the framework of the U.S. Geological Survey (USGS) Modular Modeling System to simulate fluxes of water and solutes through watersheds. WEBMOD divides watersheds into model response units (MRU) where fluxes and reactions are simulated for the following eight hillslope reservoir types: canopy; snowpack; ponding on impervious surfaces; O-horizon; two reservoirs in the unsaturated zone, which represent preferential flow and matrix flow; and two reservoirs in the saturated zone, which also represent preferential flow and matrix flow. The reservoir representing ponding on impervious surfaces, currently not functional (2016), will be implemented once the model is applied to urban areas. MRUs discharge to one or more stream reservoirs that flow to the outlet of the watershed. Hydrologic fluxes in the watershed are simulated by modules derived from the USGS Precipitation Runoff Modeling System; the National Weather Service Hydro-17 snow model; and a topography-driven hydrologic model (TOPMODEL). Modifications to the standard TOPMODEL include the addition of heterogeneous vertical infiltration rates; irrigation; lateral and vertical preferential flows through the unsaturated zone; pipe flow draining the saturated zone; gains and losses to regional aquifer systems; and the option to simulate baseflow discharge by using an exponential, parabolic, or linear decrease in transmissivity. PHREEQC, an aqueous geochemical model, is incorporated to simulate chemical reactions as waters evaporate, mix, and react within the various reservoirs of the model. The reactions that can be specified for a reservoir include equilibrium reactions among water; minerals; surfaces; exchangers; and kinetic reactions such as kinetic mineral dissolution or precipitation, biologically mediated reactions, and radioactive decay. WEBMOD also simulates variations in the concentrations of the stable isotopes deuterium and oxygen-18 as a result of varying inputs, mixing, and evaporation. This manual describes the WEBMOD input and output files, along with the algorithms and procedures used to simulate the hydrology and water quality in a watershed. Examples are presented that demonstrate hydrologic processes, weathering reactions, and isotopic evolution in an alpine watershed and the effect of irrigation on water flows and salinity in an intensively farmed agricultural area.

Application of ERT, Saline Tracer and Numerical Studies to Delineate Preferential Paths in Fractured Granites.

PubMed

Sreeparvathy, Vijay; Kambhammettu, B V N P; Peddinti, Srinivasa Rao; Sarada, P S L

2018-03-22

Accurate quantification of in situ heterogeneity and flow processes through fractured geologic media remains elusive for hydrogeologists due to the complexity in fracture characterization and its multiscale behavior. In this research, we demonstrated the efficacy of tracer-electrical resistivity tomography (ERT) experiments combined with numerical simulations to characterize heterogeneity and delineate preferential flow paths in a fractured granite aquifer. A series of natural gradient saline tracer experiments were conducted from a depth window of 18 to 22 m in an injection well (IW) located inside the Indian Institute of Technology Hyderabad campus. Tracer migration was monitored in a time-lapse mode using two cross-sectional surface ERT profiles placed in the direction of flow gradient. ERT data quality was improved by considering stacking, reciprocal measurements, resolution indicators, and geophysical logs. Dynamic changes in subsurface electrical properties inferred via resistivity anomalies were used to highlight preferential flow paths of the study area. Temporal changes in electrical resistivity and tracer concentration were monitored along the vertical in an observation well located at 48 m to the east of the IW. ERT-derived tracer breakthrough curves were in agreement with geochemical sample measurements. Fracture geometry and hydraulic properties derived from ERT and pumping tests were further used to evaluate two mathematical conceptualizations that are relevant to fractured aquifers. Results of numerical analysis conclude that dual continuum model that combines matrix and fracture systems through a flow exchange term has outperformed equivalent continuum model in reproducing tracer concentrations at the monitoring wells (evident by a decrease in RMSE from 199 to 65 mg/L). A sensitivity analysis on model simulations conclude that spatial variability in hydraulic conductivity, local-scale dispersion, and flow exchange at fracture-matrix interface have a profound effect on model simulations. © 2018, National Ground Water Association.

Hydrologic flow path development varies by aspect during spring snowmelt in complex subalpine terrain

NASA Astrophysics Data System (ADS)

Webb, Ryan W.; Fassnacht, Steven R.; Gooseff, Michael N.

2018-01-01

In many mountainous regions around the world, snow and soil moisture are key components of the hydrologic cycle. Preferential flow paths of snowmelt water through snow have been known to occur for years with few studies observing the effect on soil moisture. In this study, statistical analysis of the topographical and hydrological controls on the spatiotemporal variability of snow water equivalent (SWE) and soil moisture during snowmelt was undertaken at a subalpine forested setting with north, south, and flat aspects as a seasonally persistent snowpack melts. We investigated if evidence of preferential flow paths in snow can be observed and the effect on soil moisture through measurements of snow water equivalent and near-surface soil moisture, observing how SWE and near-surface soil moisture vary on hillslopes relative to the toes of hillslopes and flat areas. We then compared snowmelt infiltration beyond the near-surface soil between flat and sloping terrain during the entire snowmelt season using soil moisture sensor profiles. This study was conducted during varying snowmelt seasons representing above-normal, relatively normal, and below-normal snow seasons in northern Colorado. Evidence is presented of preferential meltwater flow paths at the snow-soil interface on the north-facing slope causing increases in SWE downslope and less infiltration into the soil at 20 cm depth; less association is observed in the near-surface soil moisture (top 7 cm). We present a conceptualization of the meltwater flow paths that develop based on slope aspect and soil properties. The resulting flow paths are shown to divert at least 4 % of snowmelt laterally, accumulating along the length of the slope, to increase the snow water equivalent by as much as 170 % at the base of a north-facing hillslope. Results from this study show that snow acts as an extension of the vadose zone during spring snowmelt and future hydrologic investigations will benefit from studying the snow and soil together.

Nitrate foraging by Arabidopsis roots is mediated by the transcription factor TCP20 through the systemic signaling pathway

PubMed Central

Guan, Peizhu; Wang, Rongchen; Nacry, Philippe; Breton, Ghislain; Kay, Steve A.; Pruneda-Paz, Jose L.; Davani, Ariea; Crawford, Nigel M.

2014-01-01

To compete for nutrients in diverse soil microenvironments, plants proliferate lateral roots preferentially in nutrient-rich zones. For nitrate, root foraging involves local and systemic signaling; however, little is known about the genes that function in the systemic signaling pathway. By using nitrate enhancer DNA to screen a library of Arabidopsis transcription factors in the yeast one-hybrid system, the transcription factor gene TEOSINTE BRANCHED1/CYCLOIDEA/PROLIFERATING CELL FACTOR1-20 (TCP20) was identified. TCP20, which belongs to an ancient, plant-specific gene family that regulates shoot, flower, and embryo development, was implicated in nitrate signaling by its ability to bind DNA in more than 100 nitrate-regulated genes. Analysis of insertion mutants of TCP20 showed that they had normal primary and lateral root growth on homogenous nitrate media but were impaired in preferential lateral root growth (root foraging) on heterogeneous media in split-root plates. Inhibition of preferential lateral root growth was still evident in the mutants even when ammonium was uniformly present in the media, indicating that the TCP20 response was to nitrate. Comparison of tcp20 mutants with those of nlp7 mutants, which are defective in local control of root growth but not in the root-foraging response, indicated that TCP20 function is independent of and distinct from NLP7 function. Further analysis showed that tcp20 mutants lack systemic control of root growth regardless of the local nitrate concentrations. These results indicate that TCP20 plays a key role in the systemic signaling pathway that directs nitrate foraging by Arabidopsis roots. PMID:25288754

Coupling Deep Transcriptome Analysis with Untargeted Metabolic Profiling in Ophiorrhiza pumila to Further the Understanding of the Biosynthesis of the Anti-Cancer Alkaloid Camptothecin and Anthraquinones

PubMed Central

Yamazaki, Mami; Mochida, Keiichi; Asano, Takashi; Nakabayashi, Ryo; Chiba, Motoaki; Udomson, Nirin; Yamazaki, Yasuyo; Goodenowe, Dayan B.; Sankawa, Ushio; Yoshida, Takuhiro; Toyoda, Atsushi; Totoki, Yasushi; Sakaki, Yoshiyuki; Góngora-Castillo, Elsa; Buell, C. Robin; Sakurai, Tetsuya; Saito, Kazuki

2013-01-01

The Rubiaceae species, Ophiorrhiza pumila, accumulates camptothecin, an anti-cancer alkaloid with a potent DNA topoisomerase I inhibitory activity, as well as anthraquinones that are derived from the combination of the isochorismate and hemiterpenoid pathways. The biosynthesis of these secondary products is active in O. pumila hairy roots yet very low in cell suspension culture. Deep transcriptome analysis was conducted in O. pumila hairy roots and cell suspension cultures using the Illumina platform, yielding a total of 2 Gb of sequence for each sample. We generated a hybrid transcriptome assembly of O. pumila using the Illumina-derived short read sequences and conventional Sanger-derived expressed sequence tag clones derived from a full-length cDNA library constructed using RNA from hairy roots. Among 35,608 non-redundant unigenes, 3,649 were preferentially expressed in hairy roots compared with cell suspension culture. Candidate genes involved in the biosynthetic pathway for the monoterpenoid indole alkaloid camptothecin were identified; specifically, genes involved in post-strictosamide biosynthetic events and genes involved in the biosynthesis of anthraquinones and chlorogenic acid. Untargeted metabolomic analysis by Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR-MS) indicated that most of the proposed intermediates in the camptothecin biosynthetic pathway accumulated in hairy roots in a preferential manner compared with cell suspension culture. In addition, a number of anthraquinones and chlorogenic acid preferentially accumulated in hairy roots compared with cell suspension culture. These results suggest that deep transcriptome and metabolome data sets can facilitate the identification of genes and intermediates involved in the biosynthesis of secondary products including camptothecin in O. pumila. PMID:23503598

Spatial structure and scaling of macropores in hydrological process at small catchment scale

NASA Astrophysics Data System (ADS)

Silasari, Rasmiaditya; Broer, Martine; Blöschl, Günter

2013-04-01

During rainfall events, the formation of overland flow can occur under the circumstances of saturation excess and/or infiltration excess. These conditions are affected by the soil moisture state which represents the soil water content in micropores and macropores. Macropores act as pathway for the preferential flows and have been widely studied locally. However, very little is known about their spatial structure and conductivity of macropores and other flow characteristic at the catchment scale. This study will analyze these characteristics to better understand its importance in hydrological processes. The research will be conducted in Petzenkirchen Hydrological Open Air Laboratory (HOAL), a 64 ha catchment located 100 km west of Vienna. The land use is divided between arable land (87%), pasture (5%), forest (6%) and paved surfaces (2%). Video cameras will be installed on an agricultural field to monitor the overland flow pattern during rainfall events. A wireless soil moisture network is also installed within the monitored area. These field data will be combined to analyze the soil moisture state and the responding surface runoff occurrence. The variability of the macropores spatial structure of the observed area (field scale) then will be assessed based on the topography and soil data. Soil characteristics will be supported with laboratory experiments on soil matrix flow to obtain proper definitions of the spatial structure of macropores and its variability. A coupled physically based distributed model of surface and subsurface flow will be used to simulate the variability of macropores spatial structure and its effect on the flow behaviour. This model will be validated by simulating the observed rainfall events. Upscaling from field scale to catchment scale will be done to understand the effect of macropores variability on larger scales by applying spatial stochastic methods. The first phase in this study is the installation and monitoring configuration of video cameras and soil moisture monitoring equipment to obtain the initial data of overland flow occurrence and soil moisture state relationships.

Utilization of flow cytometry to identify chimeral sectors in leaf tissue of Lolium multiflorum x L. arundinaceum hybrids

USDA-ARS?s Scientific Manuscript database

We have identified a method whereby Lolium multiflorum (Lm) or L. arundinaceum (Fa) genomes are preferentially eliminated through a mitotic loss behavior in interspecific Lm x Fa F1 hybrids, generating either dihaploid Lm lines or Fa lines. Flow cytometry, a method for rapidly characterizing optical...

Application of nanoscale zero-valent iron tracer to delineate groundwater flow paths between a screened well and an open well in fractured rock

NASA Astrophysics Data System (ADS)

Chuang, P. Y.; Chiu, Y.; Liou, Y. H.; Teng, M. H.; Chia, Y.

2016-12-01

Fracture flow is of importance for water resources as well as the investigation of contaminant pathways. In this study, a novel characterization approach of nanoscale zero-valent iron (nZVI) tracer test was developed to accurately identify the connecting fracture zones of preferential flow between a screened well and an open well. Iron nanoparticles are magnetic and can be attracted by a magnet. This feature make it possible to design a magnet array for attracting nZVI particles at the tracer inlet to characterize the location of incoming tracer in the observation well. This novel approach was tested at two experiment wells with well hydraulic connectivity in a hydrogeological research station in central Taiwan. A heat-pulse flowmeter can be used to detect changes in flow velocity for delineating permeable fracture zones in the borehole and providing the design basis for the tracer test. Then, the most permeable zone in the injection well was hydraulically isolated by well screen to prevent the injected nZVI particles from being stagnated at the hole bottom. Afterwards, another hydraulic test was implemented to re-examine the hydraulic connectivity between the two wells. When nZVI slurry was injected in the injection well, they migrated through connected permeable fractures to the observation well. A breakthrough curve, observed by the fluid conductivity sensor in the observation well, indicated the arrival of nZVI slurry. The iron nanoparticles attracted to the magnets in the observation well provide the position of tracer inlet, which corroborates well with the depth of a permeable zone delineated by the flowmeter. This article demonstrates the potential of nano-iron tracer test to provide the quantitative information of fracture flow paths in fractured rock.

Colloid transport in dual-permeability media

USDA-ARS?s Scientific Manuscript database

It has been widely reported that colloids can travel faster and over longer distances in natural structured porous media than in uniform structureless media used in laboratory studies. The presence of preferential pathways for colloids in the subsurface environment is of concern because of the incre...

Dissolution-induced preferential flow in a limestone fracture.

PubMed

Liu, Jishan; Polak, Amir; Elsworth, Derek; Grader, Avrami

2005-06-01

Flow in a rock fracture is surprisingly sensitive to the evolution of flow paths that develop as a result of dissolution. Net dissolution may either increase or decrease permeability uniformly within the fracture, or may form a preferential flow path through which most of the injected fluid flows, depending on the prevailing ambient mechanical and chemical conditions. A flow-through test was completed on an artificial fracture in limestone at room temperature under ambient confining stress of 3.5 MPa. The sample was sequentially circulated by water of two different compositions through the 1500 h duration of the experiment; the first 935 h by tap groundwater, followed by 555 h of distilled water. Measurements of differential pressures between the inlet and the outlet, fluid and dissolved mass fluxes, and concurrent X-ray CT imaging and sectioning were used to characterize the evolution of flow paths within the limestone fracture. During the initial circulation of groundwater, the differential pressure increased almost threefold, and was interpreted as a net reduction in permeability as the contacting asperities across the fracture are removed, and the fracture closes. With the circulation of distilled water, permeability initially reduces threefold, and ultimately increases by two orders of magnitude. This spontaneous switch from net decrease in permeability, to net increase occurred with no change in flow rate or applied effective stress, and is attributed to the evolving localization of flow path as evidenced by CT images. Based on the X-ray CT characterizations, a flow path-dependent flow model was developed to simulate the evolution of flow paths within the fracture and its influence on the overall flow behaviors of the injected fluid in the fracture.

The Cordón Caulle rhyolite lava flow: an exceptional case study

NASA Astrophysics Data System (ADS)

Magnall, N.; James, M. R.; Tuffen, H.; Schipper, C. I.; Castro, J. M.; Vye-Brown, C.; Davies, A. G.; Farquharson, J.

2017-12-01

Rhyolites comprise the most silica-rich lavas, and rhyolitic lava flows can reach tens of kilometres in length. Interpretations of ancient and historic rhyolite lava flows suggest protracted emplacement due to relatively slow cooling of these massive bodies and have identified late stage events such as the formation of pumice diapirs. However, our understanding of emplacement processes has long remained limited by the lack of observations from an active flow. The 2011-2012 eruption of Puyehue-Cordón Caulle in southern Chile resulted in the first scientifically observed emplacement of an extensive (0.4 km3, 5 km long), crystal-poor rhyolite lava flow and has provided an unparalleled opportunity to further our understanding of flow dynamics. Here, we summarise our work on this lava flow, which has combined satellite and field observations, microstructural characterisation of samples, and numerical modelling. Early observations showed that advance of the 40 m thick flow stalled after 150 days of eruption, due to interactions with topographic barriers and the formation of a retarding surface crust. Following this, numerous breakouts formed from the flow fronts and margins, attaining lengths of ≤2 km. Microstructural characterisation supports the model that the breakouts formed due to continued lava supply to the stalled portions of the flow front along preferential thermal pathways, coupled with late-stage vesiculation of the flow core. This led to pressure increase, inflation, and eventual rupturing of the surface crust. These breakouts have been classified into four morphological types (domed, petaloid, rubbly, and cleft split) that reflect processes of advance and inflation. Some breakouts continued to advance and form after the eruption ended, with numerical modelling and direct observations suggesting mobility of the lava years after the eruption ended. Unlike other rhyolite flows, pumice diapirs were not observed at Cordón Caulle, instead late stage volatile exsolution (with associated vapour-phase cristobalite formation), core vesiculation, and resultant inflation contributed to breakout formation. Insights gained from Cordón Caulle aid in the interpretation of ancient silicic lavas and help anticipate the hazards posed by future, potentially lengthy, eruptions of rhyolitic lava.

Documentation of a Conduit Flow Process (CFP) for MODFLOW-2005

USGS Publications Warehouse

Shoemaker, W. Barclay; Kuniansky, Eve L.; Birk, Steffen; Bauer, Sebastian; Swain, Eric D.

2007-01-01

This report documents the Conduit Flow Process (CFP) for the modular finite-difference ground-water flow model, MODFLOW-2005. The CFP has the ability to simulate turbulent ground-water flow conditions by: (1) coupling the traditional ground-water flow equation with formulations for a discrete network of cylindrical pipes (Mode 1), (2) inserting a high-conductivity flow layer that can switch between laminar and turbulent flow (Mode 2), or (3) simultaneously coupling a discrete pipe network while inserting a high-conductivity flow layer that can switch between laminar and turbulent flow (Mode 3). Conduit flow pipes (Mode 1) may represent dissolution or biological burrowing features in carbonate aquifers, voids in fractured rock, and (or) lava tubes in basaltic aquifers and can be fully or partially saturated under laminar or turbulent flow conditions. Preferential flow layers (Mode 2) may represent: (1) a porous media where turbulent flow is suspected to occur under the observed hydraulic gradients; (2) a single secondary porosity subsurface feature, such as a well-defined laterally extensive underground cave; or (3) a horizontal preferential flow layer consisting of many interconnected voids. In this second case, the input data are effective parameters, such as a very high hydraulic conductivity, representing multiple features. Data preparation is more complex for CFP Mode 1 (CFPM1) than for CFP Mode 2 (CFPM2). Specifically for CFPM1, conduit pipe locations, lengths, diameters, tortuosity, internal roughness, critical Reynolds numbers (NRe), and exchange conductances are required. CFPM1, however, solves the pipe network equations in a matrix that is independent of the porous media equation matrix, which may mitigate numerical instability associated with solution of dual flow components within the same matrix. CFPM2 requires less hydraulic information and knowledge about the specific location and hydraulic properties of conduits, and turbulent flow is approximated by modifying horizontal conductances assembled by the Block-Centered Flow (BCF), Layer-Property Flow (LPF), or Hydrogeologic-Unit Flow Packages (HUF) of MODFLOW-2005. For both conduit flow pipes (CFPM1) and preferential flow layers (CFPM2), critical Reynolds numbers are used to determine if flow is laminar or turbulent. Due to conservation of momentum, flow in a laminar state tends to remain laminar and flow in a turbulent state tends to remain turbulent. This delayed transition between laminar and turbulent flow is introduced in the CFP, which provides an additional benefit of facilitating convergence of the computer algorithm during iterations of transient simulations. Specifically, the user can specify a higher critical Reynolds number to determine when laminar flow within a pipe converts to turbulent flow, and a lower critical Reynolds number for determining when a pipe with turbulent flow switches to laminar flow. With CFPM1, the Hagen-Poiseuille equation is used for laminar flow conditions and the Darcy-Weisbach equation is applied to turbulent flow conditions. With CFPM2, turbulent flow is approximated by reducing the laminar hydraulic conductivity by a nonlinear function of the Reynolds number, once the critical head difference is exceeded. This adjustment approximates the reductions in mean velocity under turbulent ground-water flow conditions.

Aminophylline preferentially inhibits chloroethylclonidine-insensitive alpha-adrenoceptor-mediated contractions in rat aorta.

PubMed

Duarte, J; Pérez-Vizcaíno, F; Zarzuelo, A; Jiménez, J; Tamargo, J

1993-11-01

1. In rat thoracic aortae, contractions induced by methoxamine were inhibited by chloroethylclonidine, whereas oxymetazoline-induced contractions, which were more dependent on Ca(2+)-entry, were insensitive to chloroethylclonidine. 2. Aminophylline inhibited the contractions and 45Ca(2+)-uptake induced by both methoxamine and oxymetazoline. However, oxymetazoline-induced contractions were more sensitive to inhibition by aminophylline and D600. 3. Thus, the partial selectivity of aminophylline for the chloroethylclonidine-resistant, highly dependent on extracellular Ca2+, oxymetazoline-mediated responses may be explained by a preferential inhibition of agonist-induced Ca2+ entry as compared to inhibition of other transduction pathways.

Sensitivity Analysis of the Agricultural Policy/Environmental eXtender (APEX) for Phosphorus Loads in Tile-Drained Landscapes.

PubMed

Ford, W; King, K; Williams, M; Williams, J; Fausey, N

2015-07-01

Numerical modeling is an economical and feasible approach for quantifying the effects of best management practices on dissolved reactive phosphorus (DRP) loadings from agricultural fields. However, tools that simulate both surface and subsurface DRP pathways are limited and have not been robustly evaluated in tile-drained landscapes. The objectives of this study were to test the ability of the Agricultural Policy/Environmental eXtender (APEX), a widely used field-scale model, to simulate surface and tile P loadings over management, hydrologic, biologic, tile, and soil gradients and to better understand the behavior of P delivery at the edge-of-field in tile-drained midwestern landscapes. To do this, a global, variance-based sensitivity analysis was performed, and model outputs were compared with measured P loads obtained from 14 surface and subsurface edge-of-field sites across central and northwestern Ohio. Results of the sensitivity analysis showed that response variables for DRP were highly sensitive to coupled interactions between presumed important parameters, suggesting nonlinearity of DRP delivery at the edge-of-field. Comparison of model results to edge-of-field data showcased the ability of APEX to simulate surface and subsurface runoff and the associated DRP loading at monthly to annual timescales; however, some high DRP concentrations and fluxes were not reflected in the model, suggesting the presence of preferential flow. Results from this study provide new insights into baseline tile DRP loadings that exceed thresholds for algal proliferation. Further, negative feedbacks between surface and subsurface DRP delivery suggest caution is needed when implementing DRP-based best management practices designed for a specific flow pathway. Copyright © by the American Society of Agronomy, Crop Science Society of America, and Soil Science Society of America, Inc.

Cascadia Slow Earthquakes: Strategies for Time Independent Inversion of Displacement Fields

NASA Astrophysics Data System (ADS)

Szeliga, W. M.; Melbourne, T. I.; Miller, M. M.; Santillan, V. M.

2004-12-01

Continuous observations using Global Positioning System geodesy (CGPS) have revealed periodic slow or silent earthquakes along the Cascadia subduction zone with a spectrum of timing and periodicity. These creep events perturb time series of GPS observations and yield coherent displacement fields that relate to the extent and magnitude of fault displacement. In this study, time independent inversions of the surface displacement fields that accompany eight slow earthquakes characterize slip distributions along the plate interface for each event. The inversions employed in this study utilize Okada's elastic dislocation model and a non- negative least squares approach. Methodologies for optimizing the slip distribution smoothing parameter for a particular station distribution have also been investigated, significantly reducing the number of possible slip distributions and the range of estimates for total moment release for each event. The discretized slip distribution calculated for multiple creep events identifies areas of the Cascadia plate interface where slip persistently recurs. The current hypothesis, that slow earthquakes are modulated by forced fluid flow, leads to the possibility that some regions of the Cascadia plate interface may display fault patches preferentially exploited by fluid flow. Thus, the identification of regions of the plate interface that repeatedly slip during slow events may yield important information regarding the identification of these fluid pathways.

Spatial distribution of jet fuel in the vadoze zone of a heterogeneous and fractured soil.

PubMed

Tzovolou, D N; Benoit, Y; Haeseler, F; Klint, K E; Tsakiroglou, C D

2009-04-01

The goal of the present work is to screen and evaluate all available data before selecting and testing remediation technologies on heterogeneous soils polluted by jet fuel. The migration pathways of non-aqueous phase liquids (NAPLs) in the subsurface relate closely with soil properties. A case study is performed on the vadoze zone of a military airport of north-west Poland contaminated by jet fuel. Soil samples are collected from various depths of two cells, and on-site and off-site chemical analyses of hydrocarbons are conducted by using Pollut Eval apparatus and GC-MS, respectively. The geological conceptual model of the site along with microscopic and hydraulic properties of the porous matrix and fractures enable us to interpret the non-uniform spatial distribution of jet fuel constituents. The total concentration of the jet fuel and its main hydrocarbon families (n-paraffins, major aromatics) over the two cells is governed by the slow preferential flow of NAPL through the porous matrix, the rapid NAPL convective flow through vertical desiccation and sub-horizontal glaciotectonic fractures, and n-paraffin biodegradation in upper layers where the rates of oxygen transfer is not limited by complexities of the pore structure. The information collected is valuable for the selection, implementation and evaluation of two in situ remediation methods.

Self-organization, preferential flow and rainfall runoff behavior - is there a connection?

NASA Astrophysics Data System (ADS)

Zehe, Erwin; Blume, Theresa; Kleidon, Axel; Ehret, Uwe; Scherer, Ulrike; Westhoff, Martijn

2013-04-01

In line with the studies of Kleidon et al. (2012) and Zehe et al. (2010) the proposed study analyzes mass flow related flows of free energy in open hydrological systems - hillslopes and small catchments - using thermodynamics methods. Why a thermodynamic treatment? A small part of the kinetic energy input from incoming rainfall is dissipated into heat and to break up soil aggregates. Depending on the partitioning of the incoming rainfall into overland flow and soil water, the remaining part of the incoming kinetic energy is partly transformed into potential energy of surface water and subsequently partly exported as kinetic energy of overland flow from the system; the rest is dissipated by frictional losses. The other part of rainfall infiltrates thereby increasing potential energy of soil water but depleting at the same time (gradients in) capillary binding energy of soil water, which again comprises energy dissipation into heat of immersion. Although, these mass fluxes are not associated with large heat fluxes, they reflect the overall conservation of energy as well as the second law of thermodynamics. They require thus a thermodynamic treatment, because tiny amounts of kinetic energy, surface energy and potential energy are dissipated into heat: this implies irreversibility and explains why water does not flow uphill. Soil hydraulic equilibrium (HE), arising from a balance in potential and capillary binding energy in soil, can be interpreted as a state of maximum entropy in soil. Soil water potential, defined as sum of matric potential and gravity potential, is in HE equal to zero along the soil profile. This corresponds to a state of maximum entropy due to a zero potential gradient, which implies due to Zehe et al. (2010) a state of minimum (Helmholtz) free energy. Our first main objective is to quantify to which extent connected preferential flow path, in our case vertical macropores and the river network enhance flow velocities at a given driving gradient and thus power in the associated mass fluxes. This implies either an enhanced export of free energy in form of kinetic energy in case of the river net, or an accelerated reduction of potential energy of infiltrating surface water which implies a reduction free energy in form of capillary binding energy of soil water. We hypothesize (H1) that network like structures act as dissipative structures "serving the purpose" of reducing the relaxation time to a state of lower "free" energy in the entire system. This is because they minimize dissipative losses of kinetic energy along their extent. This faster relaxation towards a state of smaller free energy is deemed to be favorable for mechanic stability of the entire hydrological system because a) mass flows perform due to the enhanced export of kinetic energy less work on the system itself and b) mechanical stress from ponded surface water is quickly reduced by fast infiltration and preferential flow. Our second main objective is, in line with the study of Zehe et al. (2010), the search for thermodynamic optimal hillslope architectures both with respect to the surface density of vertical macropores in soil and with respect to the spatial arrangement of soil types and macropores at the hillslope scale. In line with H1 we suggest (H2) that a hydro-geo-ecosystem is closer to a functional optimum than other possible configurations if it dissipates and exports more of the kinetic energy input from incoming rainfall by redistributing water against internal gradients and exporting water against macroscale geo-potential gradients. Note that H2 does not postulate that functionally optimal hillslope architectures necessarily exist, if they exist H2 implies however that they maximize entropy production and thus reduction of total free energy of the system at a "wisely" selected time scale. The surface density of apparent macropores does for instance control the tradeoff between Hortonian overland flow formation and infiltration, which implies a tradeoff between the amount of kinetic energy input from rainfall that is converted in to power associated with overland flow and power associated with soil water flows depleting gradients in soil water potential. Does this tradeoff imply an optimum surface density of macropores at the hillslope scale in the sense that power in soil water flow is maximized or reduction of free energy is maximized? In case such an optimum hillslope architecture existed, and in case that the evolution of the hydrological systems of interested was indeed in accordance with hypothesis H2, this optimal architecture should allow an acceptable uncalibrated simulation of the systems rainfall -runoff behavior (if the selected model structure can properly represent this architecture). We will address these questions and test the main implications of our hypotheses by means of numerical experiments with the physically based hydrological model CATFLOW. We use behavioral model structures as basic model setup, which have been shown to closely portray system behavior and its architecture in a sense that they reproduce distributed observations of soil moisture and catchment scale discharge and represent the observed structural and textural signatures of soils, flow networks and vegetation. Our test areas are the Weiherbach (Germany) and the Malalcahuello research headwaters (Chile), which are located in distinctly different hydro-climatic and hydro-pedological settings. Within the numerical experiments we will simulate the full concert of hydrological processes at the hillslope and headwater scales for meaningful perturbations of the behavioral model structure and compare them with respect to dynamics of free energy and production of power. These perturbations affect a) the river network and the geomorphology of the Weiherbach catchment, b) surface density of macropores in both catchments c) the spatial arrangement of soils and preferential pathways at the hillslope scale in the Weiherbach catchment. References: Kleidon, A., Zehe, E., Ehret, U., and Scherer, U.: Thermodynamics, maximum power, and the dynamics of preferential river flow structures on continents, Hydrol. Earth Syst. Sci. Discuss., 9, 7317-7378, 10.5194/hessd-9-7317-2012, 2012. Zehe, E., Blume, T., and Blöschl, G.: The principle of 'maximum energy dissipation': a novel thermodynamic perspective on rapid water flow in connected soil structures, Phil. Trans. R. Soc. B, 1-10, doi:10.1098/rstb.2009.0308, 2010.

Relations between macropore network characteristics and the degree of preferential solute transport

NASA Astrophysics Data System (ADS)

Larsbo, M.; Koestel, J.; Jarvis, N.

2014-12-01

The characteristics of the soil macropore network determine the potential for fast transport of agrochemicals and contaminants through the soil. The objective of this study was to examine the relationships between macropore network characteristics, hydraulic properties and state variables and measures of preferential transport. Experiments were carried out under near-saturated conditions on undisturbed columns sampled from four agricultural topsoils of contrasting texture and structure. Macropore network characteristics were computed from 3-D X-ray tomography images of the soil pore system. Non-reactive solute transport experiments were carried out at five steady-state water flow rates from 2 to 12 mm h-1. The degree of preferential transport was evaluated by the normalised 5% solute arrival time and the apparent dispersivity calculated from the resulting breakthrough curves. Near-saturated hydraulic conductivities were measured on the same samples using a tension disc infiltrometer placed on top of the columns. Results showed that many of the macropore network characteristics were inter-correlated. For example, large macroporosities were associated with larger specific macropore surface areas and better local connectivity of the macropore network. Generally, an increased flow rate resulted in earlier solute breakthrough and a shifting of the arrival of peak concentration towards smaller drained volumes. Columns with smaller macroporosities, poorer local connectivity of the macropore network and smaller near-saturated hydraulic conductivities exhibited a greater degree of preferential transport. This can be explained by the fact that, with only two exceptions, global (i.e. sample scale) continuity of the macropore network was still preserved at low macroporosities. Thus, for any given flow rate, pores of larger diameter were actively conducting solute in soils of smaller near-saturated hydraulic conductivity. This was associated with larger local transport velocities and, hence, less time for equilibration between the macropores and the surrounding matrix which made the transport more preferential. Conversely, the large specific macropore surface area and well-connected macropore networks associated with columns with large macroporosities limit the degree of preferential transport because they increase the diffusive flux between macropores and the soil matrix and they increase the near-saturated hydraulic conductivity. The normalised 5% arrival times were most strongly correlated with the estimated hydraulic state variables (e.g. with the degree of saturation in the macropores R2 = 0.589), since these combine into one measure the effects of irrigation rate and the near-saturated hydraulic conductivity function, which in turn implicitly depends on the volume, size distribution, global continuity, local connectivity and tortuosity of the macropore network.

Management of water repellency in Australia, and risks associated with preferential flow, pesticide concentration and leaching

NASA Astrophysics Data System (ADS)

Blackwell, P. S.

2000-05-01

The three most westerly states of southern Australia have the largest area of water repellent soils, which limit agricultural production, of any country in the world. Simplified principles of the problems caused by repellency and the principles of soil management solutions are considered and related to experimental evidence. The phenomena of diverted soil water flow and isolated dry soil can explain most of the problems caused by repellency. Plant adaptation, soil or hydrophobic removal, reduced soil drying, reduced surface tension, water harvesting, avoidance, masking and, perhaps, water movement along dead root systems are the main soil management principles. Dead roots may play a role in zero till cropping systems, allowing more uniform wetting of dry hydrophobic soil at the base of a dead plant and along the dendritic pattern of the dead root system. Application of these management principles, especially water harvesting, avoidance and masking (by the use of deep trenching, furrow sowing methods or claying), have made a considerable improvement to sustainability and productivity of farming systems on the water repellent soils of Australia. Evidence is selected to assess risks of preferential flow, pesticide concentration and leaching for different agricultural soil management methods. All management methods can have some risks, but claying seems to have the least risk and furrowing the highest risk of encouraging preferential flow, pesticide concentration and leaching. It is suggested we have insufficient information and understanding to quantify the risks of groundwater contamination for different environments, farming systems and soil management methods to control repellency. There is an urgent need to develop quantified guidelines to minimise any possible groundwater contamination hazard for the extensive areas using farming systems with furrows and increasing amounts of pesticide and fertiliser.

Subsurface lateral preferential flow network revealed by time-lapse ground-penetrating radar in a hillslope

NASA Astrophysics Data System (ADS)

Guo, Li; Chen, Jin; Lin, Henry

2014-12-01

Subsurface lateral preferential flow (LPF) has been observed to contribute substantially to hillslope and catchment runoff. However, the complex nature of LPF and the lack of an appropriate investigation method have hindered direct LPF observation in the field. Thus, the initiation, persistence, and dynamics of LPF networks remain poorly understood. This study explored the application of time-lapse ground-penetrating radar (GPR) together with an artificial infiltration to shed light on the nature of LPF and its dynamics in a hillslope. Based on our enhanced field experimental setup and carefully refined GPR data postprocessing algorithms, we developed a new protocol to reconstruct LPF networks with centimeter resolution. This is the first time that a detailed LPF network and its dynamics have been revealed noninvasively along a hillslope. Real-time soil water monitoring and field soil investigation confirmed the locations of LPF mapped by time-lapse GPR surveys. Our results indicated the following: (1) Increased spatial variations of radar signals after infiltration suggested heterogeneous soil water changes within the studied soil, which reflected the generation and dynamics of LPF; (2) Two types of LPF networks were identified, the network at the location of soil permeability contrasts and that formed via a series of connected preferential flow paths; and (3) The formation and distribution of LPF networks were influenced by antecedent soil water condition. Overall, this study demonstrates clearly that carefully designed time-lapse GPR surveys with enhanced data postprocessing offer a practical and nondestructive way of mapping LPF networks in the field, thereby providing a potentially significant enhancement in our ability to study complex subsurface flow processes across the landscape.

Laboratory testing on infiltration in single synthetic fractures

NASA Astrophysics Data System (ADS)

Cherubini, Claudia; Pastore, Nicola; Li, Jiawei; Giasi, Concetta I.; Li, Ling

2017-04-01

An understanding of infiltration phenomena in unsaturated rock fractures is extremely important in many branches of engineering for numerous reasons. Sectors such as the oil, gas and water industries are regularly interacting with water seepage through rock fractures, yet the understanding of the mechanics and behaviour associated with this sort of flow is still incomplete. An apparatus has been set up to test infiltration in single synthetic fractures in both dry and wet conditions. To simulate the two fracture planes, concrete fractures have been moulded from 3D printed fractures with varying geometrical configurations, in order to analyse the influence of aperture and roughness on infiltration. Water flows through the single fractures by means of a hydraulic system composed by an upstream and a downstream reservoir, the latter being subdivided into five equal sections in order to measure the flow rate in each part to detect zones of preferential flow. The fractures have been set at various angles of inclination to investigate the effect of this parameter on infiltration dynamics. The results obtained identified that altering certain fracture parameters and conditions produces relevant effects on the infiltration process through the fractures. The main variables influencing the formation of preferential flow are: the inclination angle of the fracture, the saturation level of the fracture and the mismatch wavelength of the fracture.

Organic matter composition of soil macropore surfaces under different agricultural management practices

NASA Astrophysics Data System (ADS)

Glæsner, Nadia; Leue, Marin; Magid, Jacob; Gerke, Horst H.

2016-04-01

Understanding the heterogeneous nature of soil, i.e. properties and processes occurring specifically at local scales is essential for best managing our soil resources for agricultural production. Examination of intact soil structures in order to obtain an increased understanding of how soil systems operate from small to large scale represents a large gap within soil science research. Dissolved chemicals, nutrients and particles are transported through the disturbed plow layer of agricultural soil, where after flow through the lower soil layers occur by preferential flow via macropores. Rapid movement of water through macropores limit the contact between the preferentially moving water and the surrounding soil matrix, therefore contact and exchange of solutes in the water is largely restricted to the surface area of the macropores. Organomineral complex coated surfaces control sorption and exchange properties of solutes, as well as availability of essential nutrients to plant roots and to the preferentially flowing water. DRIFT (Diffuse Reflectance infrared Fourier Transform) Mapping has been developed to examine composition of organic matter coated macropores. In this study macropore surfaces structures will be determined for organic matter composition using DRIFT from a long-term field experiment on waste application to agricultural soil (CRUCIAL, close to Copenhagen, Denmark). Parcels with 5 treatments; accelerated household waste, accelerated sewage sludge, accelerated cattle manure, NPK and unfertilized, will be examined in order to study whether agricultural management have an impact on the organic matter composition of intact structures.

Endothelial atheroprotective and anti-inflammatory mechanisms.

PubMed

Berk, B C; Abe, J I; Min, W; Surapisitchat, J; Yan, C

2001-12-01

Atherosclerosis preferentially occurs in areas of turbulent flow and low fluid shear stress, whereas laminar flow and high shear stress are atheroprotective. Inflammatory cytokines, such as tumor necrosis factor-alpha (TNF), have been shown to stimulate expression of endothelial cell (EC) genes that may promote atherosclerosis. Recent data suggest that steady laminar flow decreases EC apoptosis and blocks TNF-mediated EC activation. EC apoptosis is likely important in the process termed "plaque erosion" that leads to platelet aggregation. Steady laminar flow inhibits EC apoptosis by preventing cell cycle entry, by increasing antioxidant mechanisms (e.g., superoxide dismutase), and by stimulating nitric oxide-dependent protective pathways that involve enzymes PI3-kinase and Akt. Conversely, our laboratory has identified nitric oxide-independent mechanisms that limit TNF signal transduction. TNF regulates gene expression in EC, in part, by stimulating mitogen-activated protein kinases (MAPK) which phosphorylate transcription factors. We hypothesized that fluid shear stress modulates TNF effects on EC by inhibiting TNF-mediated activation of MAP kinases. To test this hypothesis, we determined the effects of steady laminar flow (shear stress = 12 dynes/cm2) on TNF-stimulated activity of two MAP kinases: extracellular signal regulated kinase (ERK1/2) and c-Jun N-terminal kinase (JNK). Flow alone stimulated ERK1/2 activity, but decreased JNK activity compared to static controls. TNF (10 ng/ml) alone activated both ERK1/2 and JNK maximally at 15 minutes in human umbilical vein EC (HUVEC). Pre-exposing HUVEC for 10 minutes to flow inhibited TNF activation of JNK by 46%, but it had no significant effect on ERK1/2 activation. Incubation of EC with PD98059, a specific mitogen-activated protein kinase kinase inhibitor, blocked the flow-mediated inhibition of TNF activation of JNK. Flow-mediated inhibition of JNK was unaffected by 0.1 mM L-nitroarginine, 100 pM 8-bromo-cyclic GMP, or 100 microM 8-bromo-cyclic AMP. Transfection studies with dominant negative constructs of the protein kinase MEK1 and MEK5 suggested an important role for BMK1 in flow-mediated regulation of TNF signals. In summary, the atheroprotective effects of steady laminar flow on the endothelium involve multiple synergistic mechanisms.

Geophysical investigation of seepage beneath an earthen dam.

PubMed

Ikard, S J; Rittgers, J; Revil, A; Mooney, M A

2015-01-01

A hydrogeophysical survey is performed at small earthen dam that overlies a confined aquifer. The structure of the dam has not shown evidence of anomalous seepage internally or through the foundation prior to the survey. However, the surface topography is mounded in a localized zone 150 m downstream, and groundwater discharges from this zone periodically when the reservoir storage is maximum. We use self-potential and electrical resistivity tomography surveys with seismic refraction tomography to (1) determine what underlying hydrogeologic factors, if any, have contributed to the successful long-term operation of the dam without apparent indicators of anomalous seepage through its core and foundation; and (2) investigate the hydraulic connection between the reservoir and the seepage zone to determine whether there exists a potential for this success to be undermined. Geophysical data are informed by hydraulic and geotechnical borehole data. Seismic refraction tomography is performed to determine the geometry of the phreatic surface. The hydro-stratigraphy is mapped with the resistivity data and groundwater flow patterns are determined with self-potential data. A self-potential model is constructed to represent a perpendicular profile extending out from the maximum cross-section of the dam, and self-potential data are inverted to recover the groundwater velocity field. The groundwater flow pattern through the aquifer is controlled by the bedrock topography and a preferential flow pathway exists beneath the dam. It corresponds to a sandy-gravel layer connecting the reservoir to the downstream seepage zone. © 2014, National Ground Water Association.

Modelling rapid flow response of a tile drained hillslope with explicit representation of preferential flow paths and consideration of equifinal model structures

NASA Astrophysics Data System (ADS)

Klaus, Julian; Zehe, Erwin

2010-05-01

Rapid water flow along spatially connected - often biologically mediated - flow paths of minimum flow resistance is widely acknowledged to play a key role in runoff generation at the hillslope and small catchment scales but also in the transport of solutes like agro chemicals and nutrients in cohesive soils. Especially at tile drained fields site connected vertical flow structures such as worm burrows, roots or shrinkage cracks act as short cuts allowing water flow to bypass the soil matrix. In the present study we propose a spatially explicit approach to represent worm burrows as connected structures of high conductivity and low retention capacity in a 2D physically model. With this approach tile drain discharge and preferential flow patterns in soil observed during the irrigation of a tile drained hillslope in the Weiherbach catchment were modelled. The model parameters derived from measurements and are considered to be uncertain. Given this uncertainty of key factors that organise flow and transport at tile drained sites the main objectives of the present studies are to shed light on the following three questions: 1. Does a simplified approach that explicitly represents worm burrows as continuous flow paths of small flow resistance and low retention properties in a 2D physically model allow successful reproduction of event flow response at a tile drained field site in the Weiherbach catchment? 2. Does the above described uncertainty in key factors cause equifinality i.e. are there several model structural setups that reproduce event flow response in an acceptable manner without compromising our physical understanding of the system? 3. If so, what are the key factors that have to be known at high accuracy to reduce the equifinality of model structures? The issue of equifinality is usually discussed in catchment modelling to indicate that often a large set of conceptual model parameter sets allows acceptable reproduction of the behaviour of the system of interest - in many cases catchment stream flow response. Beven and Binley (1992) suggest that these model structures should be considered to be equally likely to account for predictive uncertainty. In this study we show that the above outline approach allows successful prediction of the tile drain discharge and preferential flow patterns in soil observed during the irrigation of a tile drained hillslope in the Weiherbach catchment flow event. Strikingly we a found a considerable equifinality in the model structural setup, when key parameters such as the area density of worm burrows, their hydraulic conductivity and the conductivity of the tile drains were varied within the ranges of either our measurements or measurements reported in the literature. Thirteen different model setups yielded a normalised time-shifted Nash-Sutcliffe of more than 0.9, which means that more than 90% of the flow variability is explained by the model. Also the flow volumes were in good accordance and timing errors were less or equal than 20 min (which corresponds to two simulation output time steps). It is elaborated that this uncertainty/equifinality could be reduced when more precise data on initial states of the subsurface and on the drainage area of a single drainage tube could be made available. However, such data are currently most difficult to assess even at very well investigated site as the one that is dealt with here. We thus suggest non uniqueness of process based model structures seems thus to be an important factor causing predictive uncertainty at many sites where preferential flow dominates systems response. References Beven, K.J. and Binley, A.M., 1992. The future of distributed models: model calibration and uncertainty prediction, Hydrological Processes, 6, p.279-298.

Land Use Management in the Panama Canal Watershed to Maximize Hydrologic Ecosystem Services Benefits: Explicit Simulation of Preferential Flow Paths in an HPC Environment

NASA Astrophysics Data System (ADS)

Regina, J. A.; Ogden, F. L.; Steinke, R. C.; Frazier, N.; Cheng, Y.; Zhu, J.

2017-12-01

Preferential flow paths (PFP) resulting from biotic and abiotic factors contribute significantly to the generation of runoff in moist lowland tropical watersheds. Flow through PFPs represents the dominant mechanism by which land use choices affect hydrological behavior. The relative influence of PFP varies depending upon land-use management practices. Assessing the possible effects of land-use and landcover change on flows, and other ecosystem services, in the humid tropics partially depends on adequate simulation of PFP across different land-uses. Currently, 5% of global trade passes through the Panama Canal, which is supplied with fresh water from the Panama Canal Watershed. A third set of locks, recently constructed, are expected to double the capacity of the Canal. We incorporated explicit simulation of PFPs in to the ADHydro HPC distributed hydrological model to simulate the effects of land-use and landcover change due to land management incentives on water resources availability in the Panama Canal Watershed. These simulations help to test hypotheses related to the effectiveness of various proposed payments for ecosystem services schemes. This presentation will focus on hydrological model formulation and performance in an HPC environment.

Measurements of gas temperature in a radiatively heated particle laden turbulent duct flow

NASA Astrophysics Data System (ADS)

Kim, Ji Hoon; Banko, Andrew; Villafane, Laura; Elkins, Chris; Eaton, John

2017-11-01

Predicting the absorption of radiation through a turbulent, particle laden flow is relevant in atmospheric sciences, turbulent combustion, and in the design of a particle solar receivers. In order to better understand the coupling between the particle phase, the turbulent fluid phase, and the incident radiation, the effects of radiation absorption by disperse inertial particles in a turbulent duct flow was studied experimentally. A fully-developed turbulent duct flow at Reynolds numbers of O(104) , laden with particles at mass loading ratios of 0.1-0.8, was subject to infrared radiation at varying incident powers. The particle Stokes number based on the Kolmogorov length scale was approximately 12, resulting in a preferentially concentrated particle phase. Measurements of the mean and fluctuating components of the gas phase temperature were made along the wall bisector. Results from mean temperature traverses of the gas phase show that a one-dimensional model can account for much of the mean gas temperature rise. Temperature fluctuations due to preferential concentration are significant and can reach approximately 50% of the mean temperature rise. This work was funded by the U.S. Department of Energy under Grant No. DE-NA0002373-1.

Simulating the Heterogeneity in Braided Channel Belt Deposits: 2. Examples of Results and Comparison to Natural Deposits

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

Guin, Arijit; Ramanathan, Ramya; Ritzi, Robert W.

In Part 1 of this series we presented a methodology and a code for modeling the hierarchical sedimentary architecture in braided channel belt deposits. Here, in Part 2, the code was used to create a digital model of this architecture, and the corresponding spatial distribution of permeability. The simulated architecture was compared to the real stratal architecture observed in an abandoned channel belt of the Sagavanirktok River, Alaska by Lunt et al. (2004). The comparisons included assessments of similarity which were both qualitative and quantitative. From the qualitative comparisons we conclude that a synthetic deposit created by the code hasmore » unit types, at each level, with a geometry which is generally consistent with the geometry of unit types observed in the field. The digital unit types would generally be recognized as representing their counterparts in nature, including cross stratasets, lobate and scroll bar deposits, channel fills, etc. Furthermore, the synthetic deposit has a hierarchical spatial relationship among these units which represents how the unit types are observed in field exposures and in geophysical images. In quantitative comparisons the proportions and the length, width, and height of unit types at different scales, across all levels of the stratal hierarchy compare well between the digital and the natural deposits. A number of important attributes of the channel belt model were shown to be influenced by more than one level within the hierarchy of stratal architecture. First, the high-permeability open-framework gravels percolated at all levels and thus formed preferential flow pathways. Open framework gravels are indeed known to form preferential flow pathways in natural channel belt deposits. The nature of a percolating cluster changed across different levels of the hierarchy of stratal architecture. As a result of this geologic structure, the percolation occurs at proportions of open-framework gravels below the theoretical percolation threshold for random infinite media. Second, when the channel belt model was populated with permeability distributions by lowest-level unit type, the composite permeability semivariogram contained structures that were identifiable at more than one scale, and each of these structures could be directly linked to unit types of different scales existing at different levels within the hierarchy of strata. These collective results are encouraging with respect to our goal that this model be relevant as a base case in future studies for testing ideas in research addressing the upscaling problem in aquifers and reservoirs with multi-scale heterogeneity.« less

Method to measure soil matrix infiltration in forest soil

NASA Astrophysics Data System (ADS)

Zhang, Jing; Lei, Tingwu; Qu, Liqin; Chen, Ping; Gao, Xiaofeng; Chen, Chao; Yuan, Lili; Zhang, Manliang; Su, Guangxu

2017-09-01

Infiltration of water into forest soil commonly involves infiltration through the matrix body and preferential passages. Determining the matrix infiltration process is important in partitioning water infiltrating into the soil through the soil body and macropores to evaluate the effects of soil and water conservation practices on hillslope hydrology and watershed sedimentation. A new method that employs a double-ring infiltrometer was applied in this study to determine the matrix infiltration process in forest soil. Field experiments were conducted in a forest field on the Loess Plateau at Tianshui Soil and Water Conservation Experimental Station. Nylon cloth was placed on the soil surface in the inner ring and between the inner and outer rings of infiltrometers. A thin layer of fine sands were placed onto the nylon cloth to shelter the macropores and ensure that water infiltrates the soil through the matrix only. Brilliant Blue tracers were applied to examine the exclusion of preferential flow occurrences in the measured soil body. The infiltration process was measured, computed, and recorded through procedures similar to those of conventional methods. Horizontal and vertical soil profiles were excavated to check the success of the experiment and ensure that preferential flow did not occur in the measured soil column and that infiltration was only through the soil matrix. The infiltration processes of the replicates of five plots were roughly the same, thereby indicating the feasibility of the methodology to measure soil matrix infiltration. The measured infiltration curves effectively explained the transient process of soil matrix infiltration. Philip and Kostiakov models fitted the measured data well, and all the coefficients of determination were greater than 0.9. The wetted soil bodies through excavations did not present evidence of preferential flow. Therefore, the proposed method can determine the infiltration process through the forest soil matrix. This method can also be applied to explore matrix infiltration in other land-use types.

Experimental investigation of infiltration in soil with occurrence of preferential flow and air trapping

NASA Astrophysics Data System (ADS)

Snehota, Michal; Jelinkova, Vladimira; Sacha, Jan; Cislerova, Milena

2015-04-01

Recently, a number of infiltration experiments have not proved the validity of standard Richards' theory of the flow in soils with wide pore size distribution. Water flow in such soils under near-saturated conditions often exhibits preferential flow and temporal instability of the saturated hydraulic conductivity. An intact sample of coarse sandy loam from Cambisol series containing naturally developed vertically connected macropore was investigated during recurrent ponding infiltration (RPI) experiments conducted during period of 30 hours. RPI experiment consisted of two ponded infiltration runs, each followed by free gravitational draining of the sample. Three-dimensional neutron tomography (NT) image of the dry sample was acquired before the infiltration begun. The dynamics of the wetting front advancement was investigated by a sequence of neutron radiography (NR) images. Analysis of NR showed that water front moved preferentially through the macropore at the approximate speed of 2 mm/sec, which was significantly faster pace than the 0.3 mm/sec wetting advancement in the surrounding soil matrix. After the water started to flow out of the sample, changes in the local water content distribution were evaluated quantitatively by subtracting the NT image of the dry sample from subsequent tomography images. As a next stage, the experiment was repeated on a composed sample packed of ceramic and coarse sand. Series of infiltration runs was conducted in the sample with different initial water contents. The neutron tomography data quantitatively showed that both in natural soil sample containing the macropore and in the composed sample air was gradually transported from the region of fine soil matrix to the macropores or to the coarser material. The accumulation of the air bubbles in the large pores affected the hydraulic conductivity of the sample reducing it up to 50% of the initial value. This supports the hypothesis on strong influence of entrapped air amount and spatial distribution on infiltration into heterogeneous soils. The research was supported by the Czech Science Foundation Project No. 14-03691S.

An advanced process-based distributed model for the investigation of rainfall-induced landslides: The effect of process representation and boundary conditions

NASA Astrophysics Data System (ADS)

Anagnostopoulos, Grigorios G.; Fatichi, Simone; Burlando, Paolo

2015-09-01

Extreme rainfall events are the major driver of shallow landslide occurrences in mountainous and steep terrain regions around the world. Subsurface hydrology has a dominant role on the initiation of rainfall-induced shallow landslides, since changes in the soil water content affect significantly the soil shear strength. Rainfall infiltration produces an increase of soil water potential, which is followed by a rapid drop in apparent cohesion. Especially on steep slopes of shallow soils, this loss of shear strength can lead to failure even in unsaturated conditions before positive water pressures are developed. We present HYDROlisthisis, a process-based model, fully distributed in space with fine time resolution, in order to investigate the interactions between surface and subsurface hydrology and shallow landslides initiation. Fundamental elements of the approach are the dependence of shear strength on the three-dimensional (3-D) field of soil water potential, as well as the temporal evolution of soil water potential during the wetting and drying phases. Specifically, 3-D variably saturated flow conditions, including soil hydraulic hysteresis and preferential flow phenomena, are simulated for the subsurface flow, coupled with a surface runoff routine based on the kinematic wave approximation. The geotechnical component of the model is based on a multidimensional limit equilibrium analysis, which takes into account the basic principles of unsaturated soil mechanics. A series of numerical simulations were carried out with various boundary conditions and using different hydrological and geotechnical components. Boundary conditions in terms of distributed soil depth were generated using both empirical and process-based models. The effect of including preferential flow and soil hydraulic hysteresis was tested together with the replacement of the infinite slope assumption with the multidimensional limit equilibrium analysis. The results show that boundary conditions play a crucial role in the model performance and that the introduced hydrological (preferential flow and soil hydraulic hysteresis) and geotechnical components (multidimensional limit equilibrium analysis) significantly improve predictive capabilities in the presented case study.

Hyporheic zone influences on concentration-discharge relationships in a headwater sandstone stream

NASA Astrophysics Data System (ADS)

Hoagland, Beth; Russo, Tess A.; Gu, Xin; Hill, Lillian; Kaye, Jason; Forsythe, Brandon; Brantley, Susan L.

2017-06-01

Complex subsurface flow dynamics impact the storage, routing, and transport of water and solutes to streams in headwater catchments. Many of these hydrogeologic processes are indirectly reflected in observations of stream chemistry responses to rain events, also known as concentration-discharge (CQ) relations. Identifying the relative importance of subsurface flows to stream CQ relationships is often challenging in headwater environments due to spatial and temporal variability. Therefore, this study combines a diverse set of methods, including tracer injection tests, cation exchange experiments, geochemical analyses, and numerical modeling, to map groundwater-surface water interactions along a first-order, sandstone stream (Garner Run) in the Appalachian Mountains of central Pennsylvania. The primary flow paths to the stream include preferential flow through the unsaturated zone ("interflow"), flow discharging from a spring, and groundwater discharge. Garner Run stream inherits geochemical signatures from geochemical reactions occurring along each of these flow paths. In addition to end-member mixing effects on CQ, we find that the exchange of solutes, nutrients, and water between the hyporheic zone and the main stream channel is a relevant control on the chemistry of Garner Run. CQ relationships for Garner Run were compared to prior results from a nearby headwater catchment overlying shale bedrock (Shale Hills). At the sandstone site, solutes associated with organo-mineral associations in the hyporheic zone influence CQ, while CQ trends in the shale catchment are affected by preferential flow through hillslope swales. The difference in CQ trends document how the lithology and catchment hydrology control CQ relationships.

Thermal drawdown-induced flow channeling in a single fracture in EGS

DOE PAGES

Guo, Bin; Fu, Pengcheng; Hao, Yue; ...

2016-01-28

Here, the evolution of flow pattern along a single fracture and its effects on heat production is a fundamental problem in the assessments of engineered geothermal systems (EGS). The channelized flow pattern associated with ubiquitous heterogeneity in fracture aperture distribution causes non-uniform temperature decrease in the rock body, which makes the flow increasingly concentrated into some preferential paths through the action of thermal stress. This mechanism may cause rapid heat production deterioration of EGS reservoirs. In this study, we investigated the effects of aperture heterogeneity on flow pattern evolution in a single fracture in a low-permeability crystalline formation. We developedmore » a numerical model on the platform of GEOS to simulate the coupled thermo-hydro-mechanical processes in a penny-shaped fracture accessed via an injection well and a production well. We find that aperture heterogeneity generally exacerbates flow channeling and reservoir performance generally decreases with longer correlation length of aperture field. The expected production life is highly variable (5 years to beyond 30 years) when the aperture correlation length is longer than 1/5 of the well distance, whereas a heterogeneous fracture behaves similar to a homogeneous one when the correlation length is much shorter than the well distance. Besides, the mean production life decreases with greater aperture standard deviation only when the correlation length is relatively long. Although flow channeling is inevitable, initial aperture fields and well locations that enable tortuous preferential paths tend to deliver long heat production lives.« less

Characterizing flow pathways in a sandstone aquifer at multiple depths

NASA Astrophysics Data System (ADS)

Medici, Giacomo; West, Jared; Mountney, Nigel

2017-04-01

Sandstone aquifers are commonly assumed to represent porous media characterized by a permeable matrix. However, such aquifers may be heavily fractured where rock properties and timing of deformation favour brittle failure and crack opening. In many aquifer types, fractures associated with faults, bedding planes and stratabound joints represent preferential pathways for fluids and contaminants. This presentation reports well-test results and outcrop-scale studies that reveal how strongly lithified siliciclastic rocks may be entirely dominated by fracture flow at shallow depths (≤ 150 m), similar to limestone and crystalline aquifers. The Triassic St Bees Sandstone Formation of the UK East Irish Sea Basin represents an optimum succession for study of the influence of both sedimentary and tectonic aquifer heterogeneities in a strongly lithified sandstone aquifer-type. This sedimentary succession of fluvial origin accumulated in rapidly subsiding basins, which typically favour preservation of complete depositional cycles, including fine-grained mudstone and silty sandstone layers of floodplain origin interbedded with sandstone-dominated fluvial channel deposits. Vertical joints in the St Bees Sandstone Formation form a pervasive stratabound system whereby joints terminate at bedding-parallel discontinuities. Additionally, normal faults are present through the succession and record development of open-fractures in their damage zones. Here, the shallow aquifer (depth ≤150 m BGL) was characterized in outcrop and well tests. Fluid temperature, conductivity and flow-velocity logs record inflows and outflows from normal faults, as well as from pervasive bed-parallel fractures. Quantitative flow logging analyses in boreholes that cut fault planes indicate that zones of fault-related open fractures typically represent ˜ 50% of well transmissivity. The remaining flow component is dominated by bed-parallel fractures. However, such sub-horizontal fractures become the principal flow conduits in wells that penetrate the exterior parts of fault damage zones, as well as in non-faulted areas. Optical televiewer logs show development of karst-like conduits in correspondence of bedding fractures and faults up to 150 m below the ground surface, where recharge water containing dissolved carbonic acid enlarges fractures; these features may be responsible for the relatively high field-scale permeability (K˜0.1-1 m/day) of the phreatic zone at these depths. Below this 'karstifed' zone, field-scale permeability progressively decreases from K˜10-2 to 10-4 m/day from 150 m to 1100 m depth. Notably, differences between plug and field-scale permeability, and frequency of well in-flows seen in temperature and conductivity logs, also decrease between intermediate (150 to 450 m) and elevated (450 to 1100 m) depths. This confirms how fracture closure leads to a progressively more important matrix contribution to flow with increasing lithostatic stress, leading to intergranular flow dominance at ˜ 1 km depth.

Origin and pathways of Winter Intermediate Water in the Northwestern Mediterranean Sea using observations and numerical simulation

NASA Astrophysics Data System (ADS)

Juza, Mélanie; Renault, Lionel; Ruiz, Simon; Tintoré, Joaquin

2013-12-01

The study of water masses worldwide (their formation, spreading, mixing, and impact on general circulation) is essential for a better understanding of the ocean circulation and variability. In this paper, the formation and main pathways of Winter Intermediate Water (WIW) in the Northwestern Mediterranean Sea (NWMED) are investigated during the winter-spring 2011 using observations and numerical simulation. The main results show that the WIW, formed along the continental shelves of the Gulf of Lion and Balearic Sea, circulates southward following five preferential pathways depending on the WIW formation site location and the oceanic conditions. WIW joins the northeastern part of the Balearic Sea, or flows along the continental shelves until joining the Balearic Current (maximum of 0.33 Sv in early-April) or further south until the Ibiza Channel entrance. Two additional trajectories, contributing to water mass exchanges with the southern part of the Western Mediterranean Sea, bring the WIW through the Ibiza and Mallorca Channels (maxima of 0.26 Sv in late-March and 0.1 Sv in early-April, respectively). The circulation of WIW over the NWMED at 50-200 m depth, its mixing and spreading over the Western Mediterranean Sea (reaching the south of the Balearic Islands, the Algero-Provencal basin, the Ligurian and the Alboran Seas) suggest that the WIW may have an impact on the ocean circulation by eddy blocking effect, exchange of water masses between north and south subbasins of Western Mediterranean Sea through the Ibiza Channel or modification of the ocean stratification.

Numerical simulation of axisymmetric valve operation for different outer cone angle

NASA Astrophysics Data System (ADS)

Smyk, Emil

One of the method of flow separation control is application of axisymmetric valve. It is composed of nozzle with core. Normally the main flow is attached to inner cone and flow by preferential collector to primary flow pipe. If through control nozzle starts flow jet (control jet) the main flow is switched to annular secondary collector. In both situation the main flow is deflected to inner or outer cone (placed at the outlet of the valve's nozzle) by Coanda effect. The paper deals with the numerical simulation of this axisymetric annular nozzle with integrated synthetic jet actuator. The aim of the work is influence examination of outer cone angle on deflection on main stream.

Hop (Humulus lupulus L.) Extract and 6-Prenylnaringenin Induce P450 1A1 Catalyzed Estrogen 2-Hydroxylation

PubMed Central

2016-01-01

Humulus lupulus L. (hops) is a popular botanical dietary supplement used by women as a sleep aid and for postmenopausal symptom relief. In addition to its efficacy for menopausal symptoms, hops can also modulate the chemical estrogen carcinogenesis pathway and potentially protect women from breast cancer. In the present study, an enriched hop extract and the key bioactive compounds [6-prenylnarigenin (6-PN), 8-prenylnarigenin (8-PN), isoxanthohumol (IX), and xanthohumol (XH)] were tested for their effects on estrogen metabolism in breast cells (MCF-10A and MCF-7). The methoxyestrones (2-/4-MeOE1) were analyzed as biomarkers for the nontoxic P450 1A1 catalyzed 2-hydroxylation and the genotoxic P450 1B1 catalyzed 4-hydroxylation pathways, respectively. The results indicated that the hop extract and 6-PN preferentially induced the 2-hydroxylation pathway in both cell lines. 8-PN only showed slight up-regulation of metabolism in MCF-7 cells, whereas IX and XH did not have significant effects in either cell line. To further explore the influence of hops and its bioactive marker compounds on P450 1A1/1B1, mRNA expression and ethoxyresorufin O-dealkylase (EROD) activity were measured. The results correlated with the metabolism data and showed that hop extract and 6-PN preferentially enhanced P450 1A1 mRNA expression and increased P450 1A1/1B1 activity. The aryl hydrocarbon receptor (AhR) activation by the isolated compounds was tested using xenobiotic response element (XRE) luciferase construct transfected cells. 6-PN was found to be an AhR agonist that significantly induced XRE activation and inhibited 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) induced XRE activity. 6-PN mediated induction of EROD activity was also inhibited by the AhR antagonist CH223191. These data show that the hop extract and 6-PN preferentially enhance the nontoxic estrogen 2-hydroxylation pathway through AhR mediated up-regulation of P450 1A1, which further emphasizes the importance of standardization of botanical extracts to multiple chemical markers for both safety and desired bioactivity. PMID:27269377

Runoff sources and flowpaths in a partially burned, upland boreal catchment underlain by permafrost

USGS Publications Warehouse

Koch, Joshua C.; Kikuchi, Colin P.; Wickland, Kimberly P.; Schuster, Paul

2014-01-01

Boreal soils in permafrost regions contain vast quantities of frozen organic material that is released to terrestrial and aquatic environments via subsurface flowpaths as permafrost thaws. Longer flowpaths may allow chemical reduction of solutes, nutrients, and contaminants, with implications for greenhouse gas emissions and aqueous export. Predicting boreal catchment runoff is complicated by soil heterogeneities related to variability in active layer thickness, soil type, fire history, and preferential flow potential. By coupling measurements of permeability, infiltration potential, and water chemistry with a stream chemistry end member mixing model, we tested the hypothesis that organic soils and burned slopes are the primary sources of runoff, and that runoff from burned soils is greater due to increased hydraulic connectivity. Organic soils were more permeable than mineral soils, and 25% of infiltration moved laterally upon reaching the organic-mineral soil boundary on unburned hillslopes. A large portion of the remaining water infiltrated into deeper, less permeable soils. In contrast, burned hillslopes displayed poorly defined soil horizons, allowing rapid, mineral-rich runoff through preferential pathways at various depths. On the catchment scale, mineral/organic runoff ratios averaged 1.6 and were as high as 5.2 for an individual storm. Our results suggest that burned soils are the dominant source of water and solutes reaching the stream in summer, whereas unburned soils may provide longer term storage and residence times necessary for production of anaerobic compounds. These results are relevant to predicting how boreal catchment drainage networks and stream export will evolve given continued warming and altered fire regimes.

Subsurface Hydrologic Processes Revealed by Time-lapse GPR in Two Contrasting Soils in the Shale Hills CZO

NASA Astrophysics Data System (ADS)

Guo, L.; Lin, H.; Nyquist, J.; Toran, L.; Mount, G.

2017-12-01

Linking subsurface structures to their functions in determining hydrologic processes, such as soil moisture dynamics, subsurface flow patterns, and discharge behaviours, is a key to understanding and modelling hydrological systems. Geophysical techniques provide a non-invasive approach to investigate this form-function dualism of subsurface hydrology at the field scale, because they are effective in visualizing subsurface structure and monitoring the distribution of water. In this study, we used time-lapse ground-penetrating radar (GPR) to compare the hydrologic responses of two contrasting soils in the Shale Hills Critical Zone Observatory. By integrating time-lapse GPR with artificial water injection, we observed distinct flow patterns in the two soils: 1) in the deep Rushtown soil (over 1.5 m depth to bedrock) located in a concave hillslope, a lateral preferential flow network extending as far as 2 m downslope was identified above a less permeable layer and via a series of connected macropores; whereas 2) in the shallow Weikert soil ( 0.3 m depth to saprock) located in a planar hillslope, vertical infiltration into the permeable fractured shale dominated the flow field, while the development of lateral preferential flow along the hillslope was restrained. At the Weikert soil site, the addition of brilliant blue dye to the water injection followed by in situ excavation supported GPR interpretation that only limited lateral preferential flow formed along the soil-saprock interface. Moreover, seasonally repeated GPR surveys indicated different patterns of profile moisture distribution in the two soils that in comparison with the dry season, a dense layer within the BC horizon in the deep Rushtown soil prevented vertical infiltration in the wet season, leading to the accumulation of soil moisture above this layer; whereas, in the shallow Weikert soil, water infiltrated into saprock in wet seasons, building up water storage within the fractured bedrock (i.e., the rock moisture). Results of this study demonstrated the strong interplay between soil structures and subsurface hydrologic behaviors, and time-lapse GPR is an effective method to establish such a relationship under the field conditions.

Functional test of pedotransfer functions to predict water flow and solute transport with the dual-permeability model MACRO

NASA Astrophysics Data System (ADS)

Moeys, J.; Larsbo, M.; Bergström, L.; Brown, C. D.; Coquet, Y.; Jarvis, N. J.

2012-07-01

Estimating pesticide leaching risks at the regional scale requires the ability to completely parameterise a pesticide fate model using only survey data, such as soil and land-use maps. Such parameterisations usually rely on a set of lookup tables and (pedo)transfer functions, relating elementary soil and site properties to model parameters. The aim of this paper is to describe and test a complete set of parameter estimation algorithms developed for the pesticide fate model MACRO, which accounts for preferential flow in soil macropores. We used tracer monitoring data from 16 lysimeter studies, carried out in three European countries, to evaluate the ability of MACRO and this "blind parameterisation" scheme to reproduce measured solute leaching at the base of each lysimeter. We focused on the prediction of early tracer breakthrough due to preferential flow, because this is critical for pesticide leaching. We then calibrated a selected number of parameters in order to assess to what extent the prediction of water and solute leaching could be improved. Our results show that water flow was generally reasonably well predicted (median model efficiency, ME, of 0.42). Although the general pattern of solute leaching was reproduced well by the model, the overall model efficiency was low (median ME = -0.26) due to errors in the timing and magnitude of some peaks. Preferential solute leaching at early pore volumes was also systematically underestimated. Nonetheless, the ranking of soils according to solute loads at early pore volumes was reasonably well estimated (concordance correlation coefficient, CCC, between 0.54 and 0.72). Moreover, we also found that ignoring macropore flow leads to a significant deterioration in the ability of the model to reproduce the observed leaching pattern, and especially the early breakthrough in some soils. Finally, the calibration procedure showed that improving the estimation of solute transport parameters is probably more important than the estimation of water flow parameters. Overall, the results are encouraging for the use of this modelling set-up to estimate pesticide leaching risks at the regional-scale, especially where the objective is to identify vulnerable soils and "source" areas of contamination.

Analysis of heterogeneous hydrological properties of a mountainous hillslope using intensive water flow measurements

NASA Astrophysics Data System (ADS)

Masaoka, Naoya; Kosugi, Ken'ichirou; Yamakawa, Yosuke; Mizuyama, Takahisa; Tsutsumi, Daizo

2013-04-01

Heterogeneous hydrological properties in a foot slope area of mountainous hillslopes should be assessed to understand hydrological phenomena and their effects on discharge and sediment transport. In this study, we analyzed the high-resolution and three-dimensional water movement data to clarify the hydrological process, including heterogeneous phenomena, in detail. We continuously monitored the soil matric pressure head, psi, using 111 tensiometers installed at grid intervals of approximately 1 meter within the soil mantle at the study hillslope. Under a no-rainfall condition, the existence of perennial groundwater seepage flow was detected by exfiltration flux and temporal psi waveforms, which showed delayed responses, only to heavy storm events, and gradual recession limbs. The seepage water spread in the downslope direction and supplied water constantly to the lower section of the slope. At some points in the center of the slope, a perched saturated area was detected in the middle of soil layer, while psi exhibited negative values above the bedrock surface. These phenomena could be inferred partly from the bedrock topography and the distribution of soil hydraulic conductivity assumed from the result of penetration test. At the peak of a rainfall event, on the other hand, continuous high pressure zones (i.e., psi > 50 cmH2O) were generated in the right and left sections of the slope. Both of these high pressure zones converged at the lower region, showing a sharp psi spike up to 100 cmH2O. Along the high pressure zones, flux vectors showed large values and water exfiltration, indicating the occurrence of preferential flow. Moreover, the preferential flow occurred within the area beneath the perched water, indicating the existence of a weathered bedrock layer. This layer had low permeability, which prevented the vertical infiltration of water in the upper part of the layer, but had high permeability as a result of the fractures distributed heterogeneously inside the layer. These fractures acted as a preferential flow channel and flushed the water derived from lateral flow accumulated from the upslope area during the rainfall event. These phenomena occurring at the peak of rainfall event could not be inferred from the parameters derived from the penetration test.

Influence of a heavy rainfall event on the leaching of [14C]isoproturon and its degradation products in outdoor lysimeters.

PubMed

Dörfler, Ulrike; Cao, Guoyin; Grundmann, Sabine; Schroll, Reiner

2006-11-01

In four different agricultural soils the long-term leaching behaviour of [14C]isoproturon was studied in outdoor lysimeters (2 m length, 1 m2 surface area). The herbicide was applied in spring 1997 and spring 2001. At the end of the first 4-year-investigation period between 0.13% and 0.31% of the applied radioactivity was leached. Isoproturon or known metabolites could not be detected in the leachate. However, shortly after the second application isoproturon and its degradation products 2-hydroxy-isoproturon and monodemethyl-isoproturon were leached via preferential flow in one of the lysimeters (Mollic gleysol) in concentrations of 4.5 microg L-1, 3.1 microg L-1 and 0.9 microg L-1, respectively, thus considerably exceeding the EU threshold limit of 0.1 microg L-1 for ground and drinking water. The results indicate that in soils where mass flow transfer dominates, leaching of isoproturon to groundwater is of low probability whereas in highly structured soils which have the tendency to form macropores, isoproturon can be transported via preferential flow to the groundwater.

Scaling Considerations Related to Interactions of Hydrologics, Pedologic and Geomorphic Processes

EPA Science Inventory

Hydrologic, pedologic, and geomorphic processes are strongly interrelated and affected by scale. These interactions exert important controls on runoff generation, preferential flow, contaminant transport, surface erosion, and mass wasting. Measurement of hydraulic conductivity (K...

Megacity pumping and preferential flow threaten groundwater quality

PubMed Central

Khan, Mahfuzur R.; Koneshloo, Mohammad; Knappett, Peter S. K.; Ahmed, Kazi M.; Bostick, Benjamin C.; Mailloux, Brian J.; Mozumder, Rajib H.; Zahid, Anwar; Harvey, Charles F.; van Geen, Alexander; Michael, Holly A.

2016-01-01

Many of the world's megacities depend on groundwater from geologically complex aquifers that are over-exploited and threatened by contamination. Here, using the example of Dhaka, Bangladesh, we illustrate how interactions between aquifer heterogeneity and groundwater exploitation jeopardize groundwater resources regionally. Groundwater pumping in Dhaka has caused large-scale drawdown that extends into outlying areas where arsenic-contaminated shallow groundwater is pervasive and has potential to migrate downward. We evaluate the vulnerability of deep, low-arsenic groundwater with groundwater models that incorporate geostatistical simulations of aquifer heterogeneity. Simulations show that preferential flow through stratigraphy typical of fluvio-deltaic aquifers could contaminate deep (>150 m) groundwater within a decade, nearly a century faster than predicted through homogeneous models calibrated to the same data. The most critical fast flowpaths cannot be predicted by simplified models or identified by standard measurements. Such complex vulnerability beyond city limits could become a limiting factor for megacity groundwater supplies in aquifers worldwide. PMID:27673729

Simple predictions of maximum transport rate in unsaturated soil and rock

USGS Publications Warehouse

Nimmo, John R.

2007-01-01

In contrast with the extreme variability expected for water and contaminant fluxes in the unsaturated zone, evidence from 64 field tests of preferential flow indicates that the maximum transport speed Vmax, adjusted for episodicity of infiltration, deviates little from a geometric mean of 13 m/d. A model based on constant‐speed travel during infiltration pulses of actual or estimated duration can predict Vmax with approximate order‐of‐magnitude accuracy, irrespective of medium or travel distance, thereby facilitating such problems as the prediction of worst‐case contaminant traveltimes. The lesser variability suggests that preferential flow is subject to rate‐limiting mechanisms analogous to those that impose a terminal velocity on objects in free fall and to rate‐compensating mechanisms analogous to Le Chatlier's principle. A critical feature allowing such mechanisms to dominate may be the presence of interfacial boundaries confined by neither solid material nor capillary forces.

Predicted sedimentary record of reflected bores

USGS Publications Warehouse

Higman, B.; Gelfenbaum, G.; Lynett, P.; Moore, A.; Jaffe, B.

2007-01-01

Where a steep slope blocks an inrushing tsunami, the tsunami commonly reverses direction as a reflected bore. A simple method for relating vertical and horizontal variation in sediment size to output from numerical models of depth-averaged tsunami flow yields predictions about the sedimentary record of reflected bores: 1. Near the reflector, a abrupt slowing of the flow as the reflected bore passes is recorded by a normally graded layer that drapes preexisting topography. 2. At intermediate distances from the reflector, the deposit consists of a single normally graded bed deposited preferentially in depressions, possibly including a sharp fine-over-coarse contact. This contact records a brief period of erosion as the front of the reflected bore passes. 3. Far seaward of the reflector, grading in the deposit includes two distinct normally graded beds deposited preferentially in depressions separated by an erosional unconformity. The second normally graded bed records the reflected bore.

Clay with Desiccation Cracks is an Advection Dominated Environment

NASA Astrophysics Data System (ADS)

Baram, S.; Kurtzman, D.; Sher, Y.; Ronen, Z.; Dahan, O.

2012-04-01

Heavy clay sediments are regarded "safe" from the hydrological point of view due to their low hydraulic conductivities. However, the formation of desiccation cracks in dispersive clays may dramatically change their bulk hydraulic properties. The impact of desiccation cracks on water percolation, dissolved salts and contaminants transport and redox related reactions (microbial ammonium oxidation and denitrification) were investigated in 6 -12 m clay layer near a diary farm waste lagoon. The study implemented unique vadose-zone monitoring systems that enable in-situ measurements of the temporal variation of the sediment's water content along with frequent sampling of the sediment's pore water along the entire vadose zone (> 30 m). Results from four years of continuous measurements showed quick rises in sediment water content following rain events and temporal wastewater overflows. The percolation pattern indicated dominance of preferential flow through a desiccation-cracks network crossing the entire clay sediment layer. High water-propagation velocities (0.4 - 23.6 m h-1) were observed, indicating that the desiccation-crack network remains open and serves as a preferential flow pathway year-round, even at high sediment water content (~0.50 m3 m-3). The rapid percolation bypassed the most bio-geo-active parts of the soil, transporting even highly sorptive contaminants (testosterone and estrogen) in to the deep sections of the vadose zone, accelerating the underlying groundwater contamination. The ammonium and nitrate concentrations in the vadose zone and the high number of nitrifying and denitrifying bacteria (~108 gene copies gdry-sediemt-1, each) found in the sediment indicated that the entire vadose zone is aerated even at high water content conditions (~0.55 m3 m-3). The dissolved salts concentration in the pore-water and the δ2H-H2O and δ18O-H2O values of the pore-water substantially increased with depth (becoming less depleted) in the clay sediment, indicating deep soil evaporation. Daily fluctuation of the air temperature in the desiccation cracks supported thermally induced air convection within the cracks void and could explain the deep soil salinization process. Combination of all the abovementioned observations demonstrated that the formation of desiccation cracks network in dispersive clay sediments generates a bulk advection dominated environment for both air and water flow, and that the reference to clay sediments as "hydrologically safe" should to be reconsidered.

Induction and repair of DNA double strand breaks: the increasing spectrum of non-homologous end joining pathways.

PubMed

Mladenov, Emil; Iliakis, George

2011-06-03

A defining characteristic of damage induced in the DNA by ionizing radiation (IR) is its clustered character that leads to the formation of complex lesions challenging the cellular repair mechanisms. The most widely investigated such complex lesion is the DNA double strand break (DSB). DSBs undermine chromatin stability and challenge the repair machinery because an intact template strand is lacking to assist restoration of integrity and sequence in the DNA molecule. Therefore, cells have evolved a sophisticated machinery to detect DSBs and coordinate a response on the basis of inputs from various sources. A central function of cellular responses to DSBs is the coordination of DSB repair. Two conceptually different mechanisms can in principle remove DSBs from the genome of cells of higher eukaryotes. Homologous recombination repair (HRR) uses as template a homologous DNA molecule and is therefore error-free; it functions preferentially in the S and G2 phases. Non-homologous end joining (NHEJ), on the other hand, simply restores DNA integrity by joining the two ends, is error prone as sequence is only fortuitously preserved and active throughout the cell cycle. The basis of DSB repair pathway choice remains unknown, but cells of higher eukaryotes appear programmed to utilize preferentially NHEJ. Recent work suggests that when the canonical DNA-PK dependent pathway of NHEJ (D-NHEJ), becomes compromised an alternative NHEJ pathway and not HRR substitutes in a quasi-backup function (B-NHEJ). Here, we outline aspects of DSB induction by IR and review the mechanisms of their processing in cells of higher eukaryotes. We place particular emphasis on backup pathways of NHEJ and summarize their increasing significance in various cellular processes, as well as their potential contribution to carcinogenesis. 2011 Elsevier B.V. All rights reserved.

Arachidonic acid metabolites follow the preferential course of cyclooxygenase pathway for the basal tone in the internal anal sphincter.

PubMed

de Godoy, Márcio A F; Rattan, Neeru; Rattan, Satish

2009-04-01

Present studies determined the roles of the cyclooxygenase (COX) versus the lipoxygenase (LO) pathways in the metabolic pathway of arachidonic acid (AA) in the internal anal sphincter (IAS) tone. Studies were performed in the rat IAS versus the nontonic rectal smooth muscle (RSM). Indomethacin, the dual COX inhibitor, but not nordihydroguaiaretic acid (NDGA), the LO inhibitor, produced a precipitous decrease in the IAS tone. However, when added in the background of indomethacin, NDGA caused significant reversal of the IAS tone. These inhibitors had no significant effect on the RSM. To follow the significance of COX versus LO pathways, we examined the effects of AA and its metabolites. In the IAS, AA caused an increase in the IAS tone (Emax=38.8+/-3.0% and pEC50=3.4+/-0.1). In the RSM, AA was significantly less efficacious and potent (Emax=11.3+/-3.5% and pEC50=2.2+/-0.3). The AA metabolites (via COXs) PGF2alpha and U-46619 (a stable analog of thromboxane A2) produced increases in the IAS tone and force in the RSM. Conversely, AA metabolites (via 5-LO) lipoxin A4, 5-HETE, and leukotriene C4 decreased the IAS tone. Finally, the contractile effects of AA in the IAS were selectively attenuated by the COX-1 but not the COX-2 inhibitor. Collectively, the specific effects of AA and the COX inhibitor, the Western blot and RT-PCR analyses showing specifically higher levels of COX-1, suggest a preferential role of the COX (specifically COX-1) pathway versus the LO in the regulation of the IAS tone.

Transport pathways of nitrogen and phosphorus in tile-drained cranberry farms

NASA Astrophysics Data System (ADS)

Kennedy, C. D.; Alversion, N.; Jeranyama, P.; DeMoranville, C.; Sandler, H.; Caruso, F.

2013-12-01

Rapid, controlled drainage of cranberry farms is critical to optimizing production in Massachusetts, where approximately 1/3 of the industry's crop is produced. Relatively new to cranberry farming, tile drainage has been billed as a low-cost drainage management option for reducing crop disease and weed infestations. Despite its well documented agronomic benefits, tile drainage may exacerbate nutrient loss and promote eutrophication in nearby ponds receiving cranberry drainage waters. In this study, a monitoring program was established on a Massachusetts cranberry bed to quantify (1) mass loss of nitrogen and phosphorous via tile drainage to a perimeter ditch surrounding the cranberry bed, (2) the attenuation of N and P in the ditch prior to discharge from the cranberry bed, and (3) and the component contributions of preferential vs. matrix transport of N and P in tile drainage. A combination of compound weirs, acoustic-velocity meters, propeller-driven flow meters, and rain gauges were installed to quantify drainage management characteristics of the cranberry bed. Automatic samplers were also installed to collect water samples at each monitoring site (i.e., four tile drains, an irrigation pond, and a flume used to control ditch height) for analysis of N and P concentrations and hydrogen and oxygen stable isotope ratios to estimate nutrient loss and transport pathways. These data will be used to develop a mechanistic synthesis of nutrient cycling in tile-drained cranberry beds.

Preliminary development of the LBL/USGS three-dimensional site-scale model of Yucca Mountain, Nevada

USGS Publications Warehouse

1995-01-01

A three-dimensional model of moisture flow within the unsaturated zone at Yucca Mountain is being developed at Lawrence Berkeley Laboratory (LBL) in cooperation with the U.S. Geological Survey (USGS). This site-scale model covers and area of about 34 km2 and is bounded by major faults to the north, east and west. The model geometry is defined (1) to represent the variations of hydrogeological units between the ground surface and the water table; (2) to be able to reproduce the effect of abrupt changes in hydrogeological parameters at the boundaries between hyrdogeological units; and (3) to include the influence of major faults. A detailed numerical grid has been developed based on the locations of boreholes, different infiltration zones, hydrogeological units and their outcrops, major faults, and water level data. Contour maps and isopatch maps are presented defining different types of infiltration zones, and the spatial distribution of Tiva Canyon, Paintbrush, and Topopah Spring hydrogeological units. The grid geometry consists of seventeen non-uniform layers which represent the lithological variations within the four main welded and non-welded hydrogeological units. Matrix flow is approximated using the van Genuchten model, and the equivalent continuum approximation is used to account for fracture flow in the welded units. The fault zones are explicitly modeled as porous medium using various assumptions regarding their permeabilities and characteristic curves. One-, two-, and three-dimensional simulations are conducted using the TOUGH2 computer program. Steady-state simulations are performed with various uniform and non-uniform infiltration rates. The results are interpreted in terms of the effect of fault characteristics on the moisture flow distribution, and on location and formation of preferential pathways.

Dissolved noble gases and stable isotopes as tracers of preferential fluid flow along faults in the Lower Rhine Embayment, Germany

NASA Astrophysics Data System (ADS)

Gumm, L. P.; Bense, V. F.; Dennis, P. F.; Hiscock, K. M.; Cremer, N.; Simon, S.

2016-02-01

Groundwater in shallow unconsolidated sedimentary aquifers close to the Bornheim fault in the Lower Rhine Embayment (LRE), Germany, has relatively low δ2H and δ18O values in comparison to regional modern groundwater recharge, and 4He concentrations up to 1.7 × 10-4 cm3 (STP) g-1 ± 2.2 % which is approximately four orders of magnitude higher than expected due to solubility equilibrium with the atmosphere. Groundwater age dating based on estimated in situ production and terrigenic flux of helium provides a groundwater residence time of ˜107 years. Although fluid exchange between the deep basal aquifer system and the upper aquifer layers is generally impeded by confining clay layers and lignite, this study's geochemical data suggest, for the first time, that deep circulating fluids penetrate shallow aquifers in the locality of fault zones, implying that sub-vertical fluid flow occurs along faults in the LRE. However, large hydraulic-head gradients observed across many faults suggest that they act as barriers to lateral groundwater flow. Therefore, the geochemical data reported here also substantiate a conduit-barrier model of fault-zone hydrogeology in unconsolidated sedimentary deposits, as well as corroborating the concept that faults in unconsolidated aquifer systems can act as loci for hydraulic connectivity between deep and shallow aquifers. The implications of fluid flow along faults in sedimentary basins worldwide are far reaching and of particular concern for carbon capture and storage (CCS) programmes, impacts of deep shale gas recovery for shallow groundwater aquifers, and nuclear waste storage sites where fault zones could act as potential leakage pathways for hazardous fluids.

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

Paterson, Carolyn P.; Ayalew, Lisanework E.; Veterinary Microbiology, University of Saskatchewan, Saskatoon, SK S7N 5E3 S7N 5B4 Canada

The L1 region of bovine adenovirus (BAdV)-3 encodes a non-structural protein designated 52K. Anti-52K serum detected a protein of 40 kDa, which localized to the nucleus but not to the nucleolus in BAdV-3-infected or transfected cells. Analysis of mutant 52K proteins suggested that three basic residues ({sup 105}RKR{sup 107}) of the identified domain (amino acids {sup 102}GMPRKRVLT{sup 110}) are essential for nuclear localization of 52K. The nuclear import of a GST-52K fusion protein utilizes the classical importin {alpha}/{beta}-dependent nuclear transport pathway. The 52K protein is preferentially bound to the cellular nuclear import receptor importin {alpha}3. Although deletion of amino acidmore » 102-110 is sufficient to abrogate the nuclear localization of 52K, amino acid 90-133 are required for interaction with importin-{alpha}3 and localizing a cytoplasmic protein to the nucleus. These results suggest that 52K contains a bipartite NLS, which preferentially utilize an importin {alpha}3 nuclear import receptor-mediated pathway to transport 52K to the nucleus.« less

The influence of stream thermal regimes and preferential flow paths on hyporheic exchange in a glacial meltwater stream

USGS Publications Warehouse

Cozzetto, Karen D.; Bencala, Kenneth E.; Gooseff, Michael N.; McKnight, Diane M.

2013-01-01

Given projected increases in stream temperatures attributable to global change, improved understanding of relationships between stream temperatures and hyporheic exchange would be useful. We conducted two conservative tracer injection experiments in a glacial meltwater stream, to evaluate the effects of hyporheic thermal gradients on exchange processes, including preferential flow paths (PFPs). The experiments were conducted on the same day, the first (a stream injection) during a cool, morning period and the second (dual stream and hyporheic injections) during a warm, afternoon period. In the morning, the hyporheic zone was thermally uniform at 4°C, whereas by the afternoon the upper 10 cm had warmed to 6–12°C and exhibited greater temperature heterogeneity. Solute transport modeling showed that hyporheic cross-sectional areas (As) at two downstream sites were two and seven times lower during the warm experiment. Exchange metrics indicated that the hyporheic zone had less influence on downstream solute transport during the warm, afternoon experiment. Calculated hyporheic depths were less than 5 cm, contrasting with tracer detection at 10 and 25 cm depths. The hyporheic tracer arrival at one downstream site was rapid, comparable to the in-stream tracer arrival, providing evidence for PFPs. We thus propose a conceptual view of the hyporheic zone in this reach as being dominated by discrete PFPs weaving through hydraulically isolated areas. One explanation for the simultaneous increase in temperature heterogeneity and As decrease in a warmer hyporheic zone may be a flow path preferentiality feedback mechanism resulting from a combination of temperature-related viscosity decreases and streambed heterogeneity.

Preferential cephalic redistribution of left ventricular cardiac output during therapeutic hypothermia for perinatal hypoxic-ischemic encephalopathy.

PubMed

Hochwald, Ori; Jabr, Mohammad; Osiovich, Horacio; Miller, Steven P; McNamara, Patrick J; Lavoie, Pascal M

2014-05-01

To determine the relationship between left ventricular cardiac output (LVCO), superior vena cava (SVC) flow, and brain injury during whole-body therapeutic hypothermia. Sixteen newborns with moderate or severe hypoxic-ischemic encephalopathy were studied using echocardiography during and immediately after therapeutic hypothermia. Measures were also compared with 12 healthy newborns of similar postnatal age. Newborns undergoing therapeutic hypothermia also had cerebral magnetic resonance imaging as part of routine clinical care on postnatal day 3-4. LVCO was markedly reduced (mean ± SD 126 ± 38 mL/kg/min) during therapeutic hypothermia, whereas SVC flow was maintained within expected normal values (88 ± 27 mL/kg/min) such that SVC flow represented 70% of the LVCO. The reduction in LVCO during therapeutic hypothermia was mainly accounted by a reduction in heart rate (99 ± 13 vs 123 ± 17 beats/min; P < .001) compared with immediately postwarming in the context of myocardial dysfunction. Neonates with brain injury on magnetic resonance imaging had higher SVC flow prerewarming, compared with newborns without brain injury (P = .013). Newborns with perinatal hypoxic-ischemic encephalopathy showed a preferential systemic-to-cerebral redistribution of cardiac blood flow during whole-body therapeutic hypothermia, which may reflect a lack of cerebral vascular adaptation in newborns with more severe brain injury. Copyright © 2014 Elsevier Inc. All rights reserved.

Effects of roughness on density-weighted particle statistics in turbulent channel flows

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

Milici, Barbara

2015-12-31

The distribution of inertial particles in turbulent flows is strongly influenced by the characteristics of the coherent turbulent structures which develop in the carrier flow field. In wall-bounded flows, these turbulent structures, which control the turbulent regeneration cycles, are strongly affected by the roughness of the wall, nevertheless its effects on the particle transport in two-phase turbulent flows has been still poorly investigated. The issue is discussed here by addressing DNS combined with LPT to obtain statistics of velocity and preferential accumulation of a dilute dispersion of heavy particles in a turbulent channel flow, bounded by irregular two-dimensional rough surfaces,more » in the one-way coupling regime.« less

Verification of capillary pressure functions and relative permeability equations for gas production

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

Jang, Jaewon

The understanding of multiphase fluid flow in porous media is of great importance in many fields such as enhanced oil recovery, hydrology, CO 2 sequestration, contaminants cleanup and natural gas production from hydrate bearing sediments. However, there are many unanswered questions about the key parameters that characterize gas and water flows in porous media. The characteristics of multiphase fluid flow in porous media such as water retention curve, relative permeability, preferential fluid flow patterns and fluid-particle interaction should be taken into consideration for a fundamental understanding of the behavior of pore scale systems.

Flow induced crystallisation of penetrable particles

NASA Astrophysics Data System (ADS)

Scacchi, Alberto; Brader, Joseph M.

2018-03-01

For a system of Brownian particles interacting via a soft exponential potential we investigate the interaction between equilibrium crystallisation and spatially varying shear flow. For thermodynamic state points within the liquid part of the phase diagram, but close to the crystallisation phase boundary, we observe that imposing a Poiseuille flow can induce nonequilibrium crystalline ordering in regions of low shear gradient. The physical mechanism responsible for this phenomenon is shear-induced particle migration, which causes particles to drift preferentially towards the center of the flow channel, thus increasing the local density in the channel center. The method employed is classical dynamical density functional theory.

Flow induced crystallisation of penetrable particles.

PubMed

Scacchi, Alberto; Brader, Joseph M

2018-03-07

For a system of Brownian particles interacting via a soft exponential potential we investigate the interaction between equilibrium crystallisation and spatially varying shear flow. For thermodynamic state points within the liquid part of the phase diagram, but close to the crystallisation phase boundary, we observe that imposing a Poiseuille flow can induce nonequilibrium crystalline ordering in regions of low shear gradient. The physical mechanism responsible for this phenomenon is shear-induced particle migration, which causes particles to drift preferentially towards the center of the flow channel, thus increasing the local density in the channel center. The method employed is classical dynamical density functional theory.

Ion flow experiments in a multipole discharge chamber

NASA Technical Reports Server (NTRS)

Kaufman, H. R.; Robinson, R. S.; Frisa, L. E.

1982-01-01

It has been customary to assume that ions flow nearly equally in all directions from the ion production region within an electron-bombardment discharge chamber. Ion flow measurements in a multipole discharge chamber have shown that this assumption is not true. In general, the electron current through a magnetic field can alter the electron density, and hence the ion density, in such a way that ions tend to be directed away from the region bounded by the magnetic field. When this mechanism is understood, it becomes evident that many past discharge chamber designs have operated with a preferentially directed flow of ions.

Optimal directional volatile transport in retronasal olfaction

PubMed Central

Ni, Rui; Michalski, Mark H.; Brown, Elliott; Doan, Ngoc; Zinter, Joseph; Ouellette, Nicholas T.; Shepherd, Gordon M.

2015-01-01

The ability of humans to distinguish the delicate differences in food flavors depends mostly on retronasal smell, in which food volatiles entrained into the airway at the back of the oral cavity are transported by exhaled air through the nasal cavity to stimulate the olfactory receptor neurons. Little is known whether food volatiles are preferentially carried by retronasal flow toward the nasal cavity rather than by orthonasal flow into the lung. To study the differences between retronasal and orthonasal flow, we obtained computed tomography (CT) images of the orthonasal airway from a healthy human subject, printed an experimental model using a 3D printer, and analyzed the flow field inside the airway. The results show that, during inhalation, the anatomical structure of the oropharynx creates an air curtain outside a virtual cavity connecting the oropharynx and the back of the mouth, which prevents food volatiles from being transported into the main stream toward the lung. In contrast, during exhalation, the flow preferentially sweeps through this virtual cavity and effectively enhances the entrainment of food volatiles into the main retronasal flow. This asymmetrical transport efficiency is also found to have a nonmonotonic Reynolds number dependence: The asymmetry peaks at a range of an intermediate Reynolds number close to 800, because the air curtain effect during inhalation becomes strongest in this range. This study provides the first experimental evidence, to our knowledge, for adaptations of the geometry of the human oropharynx for efficient transport of food volatiles toward the olfactory receptors in the nasal cavity. PMID:26553982

Nuclear collective flow and charged-pion emission in Ne-nucleus collisions at E/A = 800 MeV

NASA Technical Reports Server (NTRS)

Gosset, J.; Valette, O.; Babinet, R.; Alard, J. P.; Augerat, J.

1989-01-01

Triple-differential cross sections of charged pions were measured for collisions of Ne projectiles at E/A = 800 MeV with NaF, Nb, and Pb targets. The reaction plane was estimated event by event from the light-baryon momentum distribution. For heavy targets, preferential emission of charged pions away from the interaction zone toward the projectile side was observed in the transverse direction. Such a preferential emission, which is not predicted by cascade calculations, may be attributed to a stronger pion absorption by the heavier spectator remnant.

Nuclear collective flow and charged-pion emission in Ne-nucleus collisions at E/A = 800 MeV

NASA Technical Reports Server (NTRS)

Gosset, J.; Valette, O.; Alard, J. P.; Augerat, J.; Babinet, R.; Bastid, N.; Brochard, F.; De Marco, N.; Dupieux, P.; Fodor, Z.;

Computerized X-ray Microtomography Observations and Fluid Flow Measurements of the Effect of Effective Stress on Fractured Reservoir Seal Shale

NASA Astrophysics Data System (ADS)

Welch, N.; Crawshaw, J.; Boek, E.

2014-12-01

The successful storage of carbon dioxide in geologic formations requires an in-depth understanding of all reservoir characteristics and morphologies. An intact and substantial seal formation above a storage reservoir is required for a significant portion of the initial sealing mechanisms believed to occur during carbon dioxide storage operations. Shales are a common seal formation rock types found above numerous hydrocarbon reservoirs, as well as potential saline aquifer storage locations. Shales commonly have very low permeability, however they also have the tendency to be quite fissile, and the formation of fractures within these seals can have a significant detrimental effect on the sealing potential of a reservoir and amount to large areas of high permeability and low capillary pressures compared to the surrounding intact rock. Fractured shales also have an increased current interest due to the increasing development of shale gas reservoirs using hydraulic fracturing techniques. This work shows the observed changes that occur within fractured pieces of reservoir seal shale samples, along with quarry analogues, using an in-situ micro-CT fluid flow imaging apparatus with a Hassler type core holder. Changes within the preferential flow path under different stress regimes as well as physical changes to the fracture geometry are reported. Lattice Boltzmann flow simulations were then performed on the extracted flow paths and compared to experiment permeability measurements. The preferential flow path of carbon dioxide through the fracture network is also observed and compared to the results two-phase Lattice Boltzmann fluid flow simulations.

Impact of bimodal textural heterogeneity and connectivity on flow and transport through unsaturated mine waste rock

NASA Astrophysics Data System (ADS)

Appels, Willemijn M.; Ireson, Andrew M.; Barbour, S. Lee

2018-02-01

Mine waste rock dumps have highly variable flowpaths caused by contrasting textures and geometry of materials laid down during the 'plug dumping' process. Numerical experiments were conducted to investigate how these characteristics control unsaturated zone flow and transport. Hypothetical profiles of inner-lift structure were generated with multiple point statistics and populated with hydraulic parameters of a finer and coarser material. Early arrival of water and solutes at the bottom of the lifts was observed after spring snowmelt. The leaching efficiency, a measure of the proportion of a resident solute that is flushed out of the rock via infiltrating snowmelt or rainfall, was consistently high, but modified by the structure and texture of the lift. Under high rates of net percolation during snowmelt, preferential flow was generated in coarse textured part of the rock, and solutes in the fine textured parts of the rock remained stagnant. Under lower rates of net percolation during the summer and fall, finer materialswere flushed too, and the spatial variability of solute concentration in the lift was reduced. Layering of lifts leads to lower flow rates at depth, minimizing preferential flow and increased leaching of resident solutes. These findings highlight the limited role of large scale connected geometries on focusing flow and transport under dynamic surface net percolation conditions. As such, our findings agree with recent numerical results from soil studies with Gaussian connected geometries as well as recent experimental findings, emphasizing the dominant role of matrix flow and high leaching efficiency in large waste rock dumps.

3D Groundwater flow model at the Upper Rhine Graben scale to delineate preferential target areas for geothermal projects

NASA Astrophysics Data System (ADS)

Armandine Les Landes, Antoine; Guillon, Théophile; Peter-Borie, Mariane; Rachez, Xavier

2017-04-01

Any deep unconventional geothermal project remains risky because of the uncertainty regarding the presence of the geothermal resource at depth and the drilling costs increasing accordingly. That's why this resource must be located as precisely as possible to increase the chances of successful projects and their economic viability. To minimize the risk, as much information as possible should be gathered prior to any drilling. Usually, the position of the exploration wells of geothermal energy systems is chosen based on structural geology observations, geophysics measurements and geochemical analyses. Confronting these observations to results from additional disciplines should bring more objectivity in locating the region to explore and where to implant the geothermal system. The Upper Rhine Graben (URG) is a tectonically active rift system that corresponds to one branch of the European Cenozoic Rift System where the basin hosts a significant potential for geothermal energy. The large fault network inherited from a complex tectonic history and settled under the sedimentary deposits hosts fluid circulation patterns. Geothermal anomalies are strongly influenced by fluid circulations within permeable structures such as fault zones. In order to better predict the location of the geothermal resource, it is necessary to understand how it is influenced by heat transport mechanisms such as groundwater flow. The understanding of fluid circulation in hot fractured media at large scale can help in the identification of preferential zones at a finer scale where additional exploration can be carried out. Numerical simulations is a useful tool to deal with the issue of fluid circulations through large fault networks that enable the uplift of deep and hot fluids. Therefore, we build a numerical model to study groundwater flow at the URG scale (150 x 130km), which aims to delineate preferential zones. The numerical model is based on a hybrid method using a Discrete Fracture Network (DFN) and 3D elements to simulate groundwater flow in the 3D regional fault network and in sedimentary deposits, respectively. Firstly, the geometry of the 3D fracture network and its hydraulic connections with 3D elements (sedimentary cover) is built in accordance with the tectonic history and based on geological and geophysical evidences. Secondly, data from previous studies and site-specific geological knowledge provide information on the fault zones family sets and on respective hydraulic properties. Then, from the simulated 3D groundwater flow model and based on a particle tracking methodology, groundwater flow paths are constructed. The regional groundwater flow paths results are extracted and analysed to delineate preferential zones to explore at finer scale and so to define the potential positions of the exploration wells. This work is conducted in the framework of the IMAGE project (Integrated Methods for Advanced Geothermal Exploration, grant agreement No. 608553), which aims to develop new methods for better siting of exploitation wells.

Experimental investigation of compliant wall surface deformation in a turbulent channel flow

NASA Astrophysics Data System (ADS)

Zhang, Cao; Wang, Jin; Katz, Joseph

2016-11-01

The dynamic response of a compliant wall under a turbulent channel flow is investigated by simultaneously measuring the time-resolved, 3D flow field (using tomographic PIV) and the 2D surface deformation (using interferometry). The pressure distributions are calculated by spatially integrating the material acceleration field. The Reynolds number is Reτ = 2300, and the centerline velocity (U0) is 15% of the material shear speed. The wavenumber-frequency spectra of the wall deformation contain a non-advected low-frequency component and advected modes, some traveling downstream at U0 and others at 0.72U0. Trends in the wall dynamics are elucidated by correlating the deformation with flow variables. The spatial pressure-deformation correlations peak at y/ h 0.12 (h is half channel height), the elevation of Reynolds shear stress maximum in the log-layer. Streamwise lagging of the deformation behind the pressure is caused in part by phase-lag of the pressure with decreasing distance from the wall, and in part by material damping. Positive deformations (bumps) are preferentially associated with ejections, which involve spanwise vortices located downstream and quasi-streamwise vortices with spanwise offset, consistent with hairpin-like structures. The negative deformations (dents) are preferentially associated with pressure maxima at the transition between an upstream sweep to a downstream ejection. Sponsored by ONR.

Predicting vertically-nonsequential wetting patterns with a source-responsive model

USGS Publications Warehouse

Nimmo, John R.; Mitchell, Lara

2013-01-01

Water infiltrating into soil of natural structure often causes wetting patterns that do not develop in an orderly sequence. Because traditional unsaturated flow models represent a water advance that proceeds sequentially, they fail to predict irregular development of water distribution. In the source-responsive model, a diffuse domain (D) represents flow within soil matrix material following traditional formulations, and a source-responsive domain (S), characterized in terms of the capacity for preferential flow and its degree of activation, represents preferential flow as it responds to changing water-source conditions. In this paper we assume water undergoing rapid source-responsive transport at any particular time is of negligibly small volume; it becomes sensible at the time and depth where domain transfer occurs. A first-order transfer term represents abstraction from the S to the D domain which renders the water sensible. In tests with lab and field data, for some cases the model shows good quantitative agreement, and in all cases it captures the characteristic patterns of wetting that proceed nonsequentially in the vertical direction. In these tests we determined the values of the essential characterizing functions by inverse modeling. These functions relate directly to observable soil characteristics, rendering them amenable to evaluation and improvement through hydropedologic development.

Geophysical Methods, Tracer Leakage, and Flow Modeling Studies at the West Pearl Queen Carbon Sequestration/EOR Pilot Site

NASA Astrophysics Data System (ADS)

Bromhal, G. S.; Wilson, T. H.; Wells, A.; Diehl, R.; Smith, D. H.

2003-12-01

Recently, a few thousand tons of CO2 were injected into the West Pearl Queen field, a depleted oil reservoir in southeastern New Mexico, for a pilot carbon sequestration project. Small amounts of 3 different perfluorocarbon tracers were injected with the CO2. Approximately 50 capillary absorption tube samplers (CATS) were located across the field within 2m of the grounds surface to detect the tracers in extremely small (~10-13L) quantities. After only several days, the CATS detected quantities of tracers at distances of up to 350m from the injection well. Greater amounts of tracers were detected in the different directions. The underground transport mechanism(s) are uncertain; however, appearance of tracer in the CATS after only a 6 day period suggests that CO2 movement may have occurred through near-surface processes. Subsequent tracer measurements made over 10 and 54 day time periods revealed continued tracer leakage. To try to understand the tracer information, we conducted lineament interpretations of the area using a black and white aerial photo taken in 1949, digital orthophotos, and Landsat TM imagery. Lineament interpretations revealed distinct northeast and northwest trending lineament sets. These directions coincided roughly with the direction of tracer-leakage into areas northwest and southwest of the injection well. The near-surface geology consists of a few-feet thick veneer of late Pleistocene and Holocene sand dunes covering the middle Pleistocene Mescalero caliche. A survey of the caliche was made using ground penetrating radar (GPR) to attempt to identify any preferential migration pathways. Modeling studies also were performed to identify the potential leakage pathways at the site. Because of the relatively fast appearance of tracers at large distances from the injection well, simple diffusion through the surface layers was ruled out. Wind patterns in the area have also made transport through the atmosphere and back into the ground highly unlikely. Other potential leakage pathways were transport from the well through the saturated zone and diffusion into the unsaturated zone or combined pressure-driven and diffusive flow through the vadose zone. An analysis of these alternatives has been made for this study.

Partitioning dynamics of unsaturated flows in fractured porous media: Laboratory studies and three-dimensional multi-scale smoothed particle hydrodynamics simulations of gravity-driven flow in fractures

NASA Astrophysics Data System (ADS)

Kordilla, J.; Bresinsky, L. T.; Shigorina, E.; Noffz, T.; Dentz, M.; Sauter, M.; Tartakovsky, A. M.

2017-12-01

Preferential flow dynamics in unsaturated fractures remain a challenging topic on various scales. On pore- and fracture-scales the highly erratic gravity-driven flow dynamics often provoke a strong deviation from classical volume-effective approaches. Against the common notion that flow in fractures (or macropores) can only occur under equilibrium conditions, i.e., if the surrounding porous matrix is fully saturated and capillary pressures are high enough to allow filling of the fracture void space, arrival times suggest the existence of rapid preferential flow along fractures, fracture networks, and fault zones, even if the matrix is not fully saturated. Modeling such flows requires efficient numerical techniques to cover various flow-relevant physics, such as surface tension, static and dynamic contact angles, free-surface (multi-phase) interface dynamics, and formation of singularities. Here we demonstrate the importance of such flow modes on the partitioning dynamics at simple fracture intersections, with a combination of laboratory experiments, analytical solutions and numerical simulations using our newly developed massively parallel smoothed particle hydrodynamics (SPH) code. Flow modes heavily influence the "bypass" behavior of water flowing along a fracture junction. Flows favoring the formation of droplets exhibit a much stronger bypass capacity compared to rivulet flows, where nearly the whole fluid mass is initially stored within the horizontal fracture. This behavior is demonstrated for a multi-inlet laboratory setup where the inlet-specific flow rate is chosen so that either a droplet or rivulet flow persists. The effect of fluid buffering within the horizontal fracture is presented in terms of dimensionless fracture inflow so that characteristic scaling regimes can be recovered. For both cases (rivulets and droplets), flow within the horizontal fracture transitions into a Washburn regime until a critical threshold is reached and the bypass efficiency increases. For rivulet flows, the initial filling of the horizontal fracture is described by classical plug flow. Meanwhile, for droplet flows, a size-dependent partitioning behavior is observed, and the filling of the fracture takes longer.

NRASG12V oncogene facilitates self-renewal in a murine model of acute myelogenous leukemia

PubMed Central

LaRue, Rebecca S.; Nguyen, Hanh T.; Sachs, Karen; Noble, Klara E.; Mohd Hassan, Nurul Azyan; Diaz-Flores, Ernesto; Rathe, Susan K.; Sarver, Aaron L.; Bendall, Sean C.; Ha, Ngoc A.; Diers, Miechaleen D.; Nolan, Garry P.; Shannon, Kevin M.; Largaespada, David A.

2014-01-01

Mutant RAS oncoproteins activate signaling molecules that drive oncogenesis in multiple human tumors including acute myelogenous leukemia (AML). However, the specific functions of these pathways in AML are unclear, thwarting the rational application of targeted therapeutics. To elucidate the downstream functions of activated NRAS in AML, we used a murine model that harbors Mll-AF9 and a tetracycline-repressible, activated NRAS (NRASG12V). Using computational approaches to explore our gene-expression data sets, we found that NRASG12V enforced the leukemia self-renewal gene-expression signature and was required to maintain an MLL-AF9– and Myb-dependent leukemia self-renewal gene-expression program. NRASG12V was required for leukemia self-renewal independent of its effects on growth and survival. Analysis of the gene-expression patterns of leukemic subpopulations revealed that the NRASG12V-mediated leukemia self-renewal signature is preferentially expressed in the leukemia stem cell–enriched subpopulation. In a multiplexed analysis of RAS-dependent signaling, Mac-1Low cells, which harbor leukemia stem cells, were preferentially sensitive to NRASG12V withdrawal. NRASG12V maintained leukemia self-renewal through mTOR and MEK pathway activation, implicating these pathways as potential targets for cancer stem cell–specific therapies. Together, these experimental results define a RAS oncogene–driven function that is critical for leukemia maintenance and represents a novel mechanism of oncogene addiction. PMID:25316678

Divergent Human Cortical Regions for Processing Distinct Acoustic-Semantic Categories of Natural Sounds: Animal Action Sounds vs. Vocalizations

PubMed Central

Webster, Paula J.; Skipper-Kallal, Laura M.; Frum, Chris A.; Still, Hayley N.; Ward, B. Douglas; Lewis, James W.

2017-01-01

A major gap in our understanding of natural sound processing is knowledge of where or how in a cortical hierarchy differential processing leads to categorical perception at a semantic level. Here, using functional magnetic resonance imaging (fMRI) we sought to determine if and where cortical pathways in humans might diverge for processing action sounds vs. vocalizations as distinct acoustic-semantic categories of real-world sound when matched for duration and intensity. This was tested by using relatively less semantically complex natural sounds produced by non-conspecific animals rather than humans. Our results revealed a striking double-dissociation of activated networks bilaterally. This included a previously well described pathway preferential for processing vocalization signals directed laterally from functionally defined primary auditory cortices to the anterior superior temporal gyri, and a less well-described pathway preferential for processing animal action sounds directed medially to the posterior insulae. We additionally found that some of these regions and associated cortical networks showed parametric sensitivity to high-order quantifiable acoustic signal attributes and/or to perceptual features of the natural stimuli, such as the degree of perceived recognition or intentional understanding. Overall, these results supported a neurobiological theoretical framework for how the mammalian brain may be fundamentally organized to process acoustically and acoustic-semantically distinct categories of ethologically valid, real-world sounds. PMID:28111538

Differential Expression Patterns of occ1-Related Genes in Adult Monkey Visual Cortex

PubMed Central

Takahata, Toru; Komatsu, Yusuke; Watakabe, Akiya; Hashikawa, Tsutomu; Tochitani, Shiro

2009-01-01

We have previously revealed that occ1 is preferentially expressed in the primary visual area (V1) of the monkey neocortex. In our attempt to identify more area-selective genes in the macaque neocortex, we found that testican-1, an occ1-related gene, and its family members also exhibit characteristic expression patterns along the visual pathway. The expression levels of testican-1 and testican-2 mRNAs as well as that of occ1 mRNA start of high in V1, progressively decrease along the ventral visual pathway, and end of low in the temporal areas. Complementary to them, the neuronal expression of SPARC mRNA is abundant in the association areas and scarce in V1. Whereas occ1, testican-1, and testican-2 mRNAs are preferentially distributed in thalamorecipient layers including “blobs,” SPARC mRNA expression avoids these layers. Neither SC1 nor testican-3 mRNA expression is selective to particular areas, but SC1 mRNA is abundantly observed in blobs. The expressions of occ1, testican-1, testican-2, and SC1 mRNA were downregulated after monocular tetrodotoxin injection. These results resonate with previous works on chemical and functional gradients along the primate occipitotemporal visual pathway and raise the possibility that these gradients and functional architecture may be related to the visual activity–dependent expression of these extracellular matrix glycoproteins. PMID:19073625

A physically-based Distributed Hydrologic Model for Tropical Catchments

NASA Astrophysics Data System (ADS)

Abebe, N. A.; Ogden, F. L.

2010-12-01

Hydrological models are mathematical formulations intended to represent observed hydrological processes in a watershed. Simulated watersheds in turn vary in their nature based on their geographic location, altitude, climatic variables and geology and soil formation. Due to these variations, available hydrologic models vary in process formulation, spatial and temporal resolution and data demand. Many tropical watersheds are characterized by extensive and persistent biological activity and a large amount of rain. The Agua Salud catchments located within the Panama Canal Watershed, Panama, are such catchments identified by steep rolling topography, deep soils derived from weathered bedrock, and limited exposed bedrock. Tropical soils are highly affected by soil cracks, decayed tree roots and earthworm burrows forming a network of preferential flow paths that drain to a perched water table, which forms at a depth where the vertical hydraulic conductivity is significantly reduced near the bottom of the bioturbation layer. We have developed a physics-based, spatially distributed, multi-layered hydrologic model to simulate the dominant processes in these tropical watersheds. The model incorporates the major flow processes including overland flow, channel flow, matrix and non-Richards film flow infiltration, lateral downslope saturated matrix and non-Darcian pipe flow in the bioturbation layer, and deep saturated groundwater flow. Emphasis is given to the modeling of subsurface unsaturated zone soil moisture dynamics and the saturated preferential lateral flow from the network of macrospores. Preliminary results indicate that the model has the capability to simulate the complex hydrological processes in the catchment and will be a useful tool in the ongoing comprehensive ecohydrological studies in tropical catchments, and help improve our understanding of the hydrological effects of deforestation and aforestation.

Preferential Flow Paths In A Karstified Spring Catchment: A Study Of Fault Zones As Conduits To Rapid Groundwater Flow

NASA Astrophysics Data System (ADS)

Kordilla, J.; Terrell, A. N.; Veltri, M.; Sauter, M.; Schmidt, S.

2017-12-01

In this study we model saturated and unsaturated flow in the karstified Weendespring catchment, located within the Leinetal graben in Goettingen, Germany. We employ the finite element COMSOL Multiphysics modeling software to model variably saturated flow using the Richards equation with a van Genuchten type parameterization. As part of the graben structure, the Weende spring catchment is intersected by seven fault zones along the main flow path of the 7400 m cross section of the catchment. As the Weende spring is part of the drinking water supply in Goettingen, it is particularly important to understand the vulnerability of the catchment and effect of fault zones on rapid transport of contaminants. Nitrate signals have been observed at the spring only a few days after the application of fertilizers within the catchment at a distance of approximately 2km. As the underlying layers are known to be highly impermeable, fault zones within the area are likely to create rapid flow paths to the water table and the spring. The model conceptualizes the catchment as containing three hydrogeological limestone units with varying degrees of karstification: the lower Muschelkalk limestone as a highly conductive layer, the middle Muschelkalk as an aquitard, and the upper Muschelkalk as another conductive layer. The fault zones are parameterized based on a combination of field data from quarries, remote sensing and literary data. The fault zone is modeled considering the fracture core as well as the surrounding damage zone with separate, specific hydraulic properties. The 2D conceptual model was implemented in COMSOL to study unsaturated flow at the catchment scale using van Genuchten parameters. The study demonstrates the importance of fault zones for preferential flow within the catchment and its effect on the spatial distribution of vulnerability.

Identification of pathway-biased and deleterious melatonin receptor mutants in autism spectrum disorders and in the general population.

PubMed

Chaste, Pauline; Clement, Nathalie; Mercati, Oriane; Guillaume, Jean-Luc; Delorme, Richard; Botros, Hany Goubran; Pagan, Cécile; Périvier, Samuel; Scheid, Isabelle; Nygren, Gudrun; Anckarsäter, Henrik; Rastam, Maria; Ståhlberg, Ola; Gillberg, Carina; Serrano, Emilie; Lemière, Nathalie; Launay, Jean Marie; Mouren-Simeoni, Marie Christine; Leboyer, Marion; Gillberg, Christopher; Jockers, Ralf; Bourgeron, Thomas

2010-07-15

Melatonin is a powerful antioxidant and a synchronizer of many physiological processes. Alteration of the melatonin pathway has been reported in circadian disorders, diabetes and autism spectrum disorders (ASD). However, very little is known about the genetic variability of melatonin receptors in humans. Here, we sequenced the melatonin receptor MTNR1A and MTNR1B, genes coding for MT1 and MT2 receptors, respectively, in a large panel of 941 individuals including 295 patients with ASD, 362 controls and 284 individuals from different ethnic backgrounds. We also sequenced GPR50, coding for the orphan melatonin-related receptor GPR50 in patients and controls. We identified six non-synonymous mutations for MTNR1A and ten for MTNR1B. The majority of these variations altered receptor function. Particularly interesting mutants are MT1-I49N, which is devoid of any melatonin binding and cell surface expression, and MT1-G166E and MT1-I212T, which showed severely impaired cell surface expression. Of note, several mutants possessed pathway-selective signaling properties, some preferentially inhibiting the adenylyl cyclase pathway, others preferentially activating the MAPK pathway. The prevalence of these deleterious mutations in cases and controls indicates that they do not represent major risk factor for ASD (MTNR1A case 3.6% vs controls 4.4%; MTNR1B case 4.7% vs 3% controls). Concerning GPR50, we detected a significant association between ASD and two variations, Delta502-505 and T532A, in affected males, but it did not hold up after Bonferonni correction for multiple testing. Our results represent the first functional ascertainment of melatonin receptors in humans and constitute a basis for future structure-function studies and for interpreting genetic data on the melatonin pathway in patients.

The origin of asymmetric behavior of money flow in the business firm network

NASA Astrophysics Data System (ADS)

Miura, W.; Takayasu, H.; Takayasu, M.

2012-09-01

In the business firm network, the number of in-degrees and out-degrees show the same scale-free property, however, the distribution of authorities and hubs show asymmetric behavior. Here we show the result of an analysis of the two-link structure of the network to find the origin of this asymmetric behavior. We find the tendency for big construction firms intermediating small subcontracting firms to have higher hub degrees. By measuring the strength of preferential attachment rate of new companies, we also find a abnormally strong preferential attachment for which the exponent is 1.4 with respect to out-degree when a new company forms a business partnership with a construction company. We propose a new model that reproduces the asymmetric behavior of the degrees of authorities and hubs by changing the preferential attachment rate between the in-degree and the out-degree in the business firm network.

Flow Through Cement Fracture Under Geological Carbon Sequestration Conditions: Critical Residence Time as a Unifying Parameter for Fracture Opening or Self-Sealing Behavior

NASA Astrophysics Data System (ADS)

Li, L.; Brunet, J. P. L.; Karpyn, Z.; Huerta, N. J.

2016-12-01

During geological carbon sequestration (GCS) large quantities of CO2 are injected in underground formations. Cement fractures represent preferential leakage pathways in abandoned wells upon exposure to CO2-rich fluid. Contrasting self- healing and fracture opening behavior have been observed while a unifying framework is still missing. The modelling of this process is challenging as it involves complex chemical, mechanical and transport interactions. We developed a process-based reactive transport model that explicitly simulates flow and multi-component reactive transport in fractured cement by reproducing experimental observations of sharp flow rate reduction during exposure to carbonated water. Mechanical interactions have not been included. The simulation shows a similar reaction network as in diffusion-controlled systems without flow. That is, CO2-rich water induced portlandite dissolution, releasing calcium that further reacted with carbonate to form calcite. This created localized changes in porosity and permeability inducing large differences in the long term response of the system through a complex positive feedback loop (e.g., a decrease in local permeability induces a decrease in flow that in turn amplifies the precipitation of calcite through a reduced acidic brine flow). The calibrated model was used to generate 250 numerical experiments of CO2-flooding in cement fractures with varying initial hydraulic apertures (b) and residence times (τ) defined as the ratio of fracture volume over flow rate. A long τ leads to slow replenishment of carbonated water, calcite precipitation, and self-sealing. The opposite occurs when τ is small with short fractures and fast flow rates. Simulation results indicate that a critical residence time τc - the minimum τ required for self-sealing -divides the conditions that trigger the diverging opening and self-sealing behavior. The τc value depends on the initial aperture size (see figure). Among the 250 simulated fracture cases, significant changes in effective permeability - self-healing or opening - typically occurs within hours to a day, thus providing a supporting argument for the extrapolation of short-term laboratory observations (hours to months) to long-term predictions at relevant GCS time scales (years to hundreds of years).

Fluid pipeline leak detection and location with miniature RF tags

DOEpatents

McIntyre, Timothy J.

2017-05-16

Sensors locate troublesome leaks in pipes or conduits that carry a flowing medium. These sensors, through tailored physical and geometric properties, preferentially seek conduit leaks or breaches due to flow streaming. The sensors can be queried via transceivers outside the conduit or located and interrogated inside by submersible unmanned vehicle to identify and characterize the nature of a leak. The sensors can be functionalized with other capabilities for additional leak and pipeline characterization if needed. Sensors can be recovered from a conduit flow stream and reused for future leak detection activities.

Temperature effect on the transport of bromide and E. coli NAR in saturated soils

NASA Astrophysics Data System (ADS)

Gharabaghi, B.; Safadoust, A.; Mahboubi, A. A.; Mosaddeghi, M. R.; Unc, A.; Ahrens, B.; Sayyad, Gh.

2015-03-01

In this study we investigated the transport of nalidixic acid-resistant Escherichia coli (E. coli NAR) and bromide (Br-) through two soils, a sandy loam (SL) and clay loam (CL). Soils were repacked in columns (45 cm length × 22 cm diameter) and subjected to physical (freeze/thaw, and wet/dry cycles) and biological (by earthworms, Eisenia fetida) weathering for 12 months. Saturated flow conditions were maintained using a tension infiltrometer. Tests were carried out at either 5 or 20 °C. After steady-state flow conditions were established, a suspension containing E. coli NAR and Br- was sprayed onto the surface of soil columns. Leachate was sampled at three depths, 15, 30 and 45 cm. Time to maximum concentration (Cmax) of E. coli NAR was greater for SL at all depths. Both tracers had rapid breakthrough curves (BTCs) shortly after the suspension injection followed by prolonged tailing indicating the presence of preferential pathways and thus soil heterogeneity regenerated after the induced physical and biological weathering. About 40% of the E. coli NAR and 79% of the Br- leached through the entire 45 cm soil columns during the experiments. Leaching with cold water (5 °C) led to lower hydraulic conductivity and flow rate and consequently enhanced bacterial filtration for both soils. Very low values for the detachment coefficient for E. coli NAR at 5 °C suggest an irreversible process of bacterial attachment in heterogeneous soils. BTCs were well described by the mobile-immobile model (MIM) in HYDRUS-1D. Soil texture/structure and temperature had a significant effect on the model's fitted parameters.

Simulations of groundwater flow, transport, and age in Albuquerque, New Mexico, for a study of transport of anthropogenic and natural contaminants (TANC) to public-supply wells

USGS Publications Warehouse

Heywood, Charles E.

2013-01-01

Vulnerability to contamination from manmade and natural sources can be characterized by the groundwater-age distribution measured in a supply well and the associated implications for the source depths of the withdrawn water. Coupled groundwater flow and transport models were developed to simulate the transport of the geochemical age-tracers carbon-14, tritium, and three chlorofluorocarbon species to public-supply wells in Albuquerque, New Mexico. A separate, regional-scale simulation of transport of carbon-14 that used the flow-field computed by a previously documented regional groundwater flow model was calibrated and used to specify the initial concentrations of carbon-14 in the local-scale transport model. Observations of the concentrations of each of the five chemical species, in addition to water-level observations and measurements of intra-borehole flow within a public-supply well, were used to calibrate parameters of the local-scale groundwater flow and transport models. The calibrated groundwater flow model simulates the mixing of “young” groundwater, which entered the groundwater flow system after 1950 as recharge at the water table, with older resident groundwater that is more likely associated with natural contaminants. Complexity of the aquifer system in the zone of transport between the water table and public-supply well screens was simulated with a geostatistically generated stratigraphic realization based upon observed lithologic transitions at borehole control locations. Because effective porosity was simulated as spatially uniform, the simulated age tracers are more efficiently transported through the portions of the simulated aquifer with relatively higher simulated hydraulic conductivity. Non-pumping groundwater wells with long screens that connect aquifer intervals having different hydraulic heads can provide alternate pathways for contaminant transport that are faster than the advective transport through the aquifer material. Simulation of flow and transport through these wells requires time discretization that adequately represents periods of pumping and non-pumping. The effects of intra-borehole flow are not fully represented in the simulation because it employs seasonal stress periods, which are longer than periods of pumping and non-pumping. Further simulations utilizing daily pumpage data and model stress periods may help quantify the relative effects of intra-borehole versus advective aquifer flow on the transport of contaminants near the public-supply wells. The fraction of young water withdrawn from the studied supply well varies with simulated pumping rates due to changes in the relative contributions to flow from different aquifer intervals. The advective transport of dissolved solutes from a known contaminant source to the public-supply wells was simulated by using particle-tracking. Because of the transient groundwater flow field, scenarios with alternative contaminant release times result in different simulated-particle fates, most of which are withdrawn from the aquifer at wells that are between the source and the studied supply well. The relatively small effective porosity required to simulate advective transport from the simulated contaminant source to the studied supply well is representative of a preferential pathway and not the predominant aquifer effective porosity that was estimated by the calibration of the model to observed chemical-tracer concentrations.

Escaping and repairing behaviors of the termite Odontotermes formosanus (Blattodea: Termitidae) in response to disturbance

PubMed Central

Wen, Yuzhen; Layne, Michael; Sun, Zhaohui; Ma, Tao

2018-01-01

The escaping behavior of termites has been documented under laboratory conditions; however, no study has been conducted in a field setting due to the difficulty of observing natural behaviors inside wood or structures (e.g., nests, tunnels, etc.). The black-winged termite, Odontotermes formosanus (Shiraki), is a subterranean macrotermitine species which builds extensive mud tubes on tree trunks. In the present study, 41 videos (totaling ∼2,700 min) were taken on 22 colonies/subcolonies of O. formosanus after their mud tubes were partially damaged by hand. In general, termites consistently demonstrated three phases of escape, including initiation (wandering near the mud-tube breach), individual escaping (single termites moving downward), and massive, unidirectional escaping flows (groups of termites moving downward). Downward moving and repairing were the dominant behavioral activities of individuals and were significantly more frequent than upward moving, turning/backward moving, or wandering. Interestingly, termites in escaping flows moved significantly faster than escaping individuals. Repairing behavior was observed shortly after the disturbance, and new mud tubes were preferentially constructed from the bottom up. When predators (i.e., ants) were present, however, termites stopped moving and quickly sealed the mud-tube openings by capping the broken ends. Our study provides an interesting example that documents an animal (besides humans) simultaneously carrying out pathway repairs and emergency evacuation without congestion. PMID:29576978

Escaping and repairing behaviors of the termite Odontotermes formosanus (Blattodea: Termitidae) in response to disturbance.

PubMed

Xiong, Hongpeng; Chen, Xuan; Wen, Yuzhen; Layne, Michael; Sun, Zhaohui; Ma, Tao; Wen, Xiujun; Wang, Cai

2018-01-01

The escaping behavior of termites has been documented under laboratory conditions; however, no study has been conducted in a field setting due to the difficulty of observing natural behaviors inside wood or structures (e.g., nests, tunnels, etc.). The black-winged termite, Odontotermes formosanus (Shiraki), is a subterranean macrotermitine species which builds extensive mud tubes on tree trunks. In the present study, 41 videos (totaling ∼2,700 min) were taken on 22 colonies/subcolonies of O. formosanus after their mud tubes were partially damaged by hand. In general, termites consistently demonstrated three phases of escape, including initiation (wandering near the mud-tube breach), individual escaping (single termites moving downward), and massive, unidirectional escaping flows (groups of termites moving downward). Downward moving and repairing were the dominant behavioral activities of individuals and were significantly more frequent than upward moving, turning/backward moving, or wandering. Interestingly, termites in escaping flows moved significantly faster than escaping individuals. Repairing behavior was observed shortly after the disturbance, and new mud tubes were preferentially constructed from the bottom up. When predators (i.e., ants) were present, however, termites stopped moving and quickly sealed the mud-tube openings by capping the broken ends. Our study provides an interesting example that documents an animal (besides humans) simultaneously carrying out pathway repairs and emergency evacuation without congestion.

Groundwater Discharge along a Channelized Coastal Plain Stream

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

LaSage, Danita M; Sexton, Joshua L; Mukherjee, Abhijit

In the Coastal Plain of the southeastern USA, streams have commonly been artificially channelized for flood control and agricultural drainage. However, groundwater discharge along such streams has received relatively little attention. Using a combination of stream- and spring-flow measurements, spring temperature measurements, temperature profiling along the stream-bed, and geologic mapping, we delineated zones of diffuse and focused discharge along Little Bayou Creek, a channelized, first-order perennial stream in western Kentucky. Seasonal variability in groundwater discharge mimics hydraulic-head fluctuations in a nearby monitoring well and spring-discharge fluctuations elsewhere in the region, and is likely to reflect seasonal variability in recharge. Diffusemore » discharge occurs where the stream is incised into the semi-confined regional gravel aquifer, which is comprised of the Mounds Gravel. Focused discharge occurs upstream where the channel appears to have intersected preferential pathways within the confining unit. Seasonal fluctuations in discharge from individual springs are repressed where piping results in bank collapse. Thereby, focused discharge can contribute to the morphological evolution of the stream channel.« less

Determination of solid-liquid partition coefficients (Kd) for the herbicides isoproturon and trifluralin in five UK agricultural soils.

PubMed

Cooke, Cindy M; Shaw, George; Collins, Chris D

2004-12-01

Isoproturon and trifluralin are herbicides of contrasting chemical characters and modes of action. Standard batch sorption procedures were carried out to investigate the individual sorption behaviour of 14C-isoproturon and 14C-trifluralin in five agricultural soils (1.8-4.2% OC), and the soil solid-liquid partition coefficients (Kd values) were determined. Trifluralin exhibited strong partitioning to the soil solid phase (Kd range 106-294) and low desorption potential, thus should not pose a threat to sensitive waters via leaching, although particle erosion and preferential flow pathways may facilitate transport. For isoproturon, soil adsorption was low (Kd range 1.96-5.75) and desorption was high, suggesting a high leaching potential, consistent with isoproturon being the most frequently found pesticide in UK surface waters. Soil partitioning was directly related to soil organic carbon (OC) content. Accumulation isotherms were modelled using a dual-phase adsorption model to estimate adsorption and desorption rate coefficients. Associations between herbicides and soil humic substances were also shown using gel filtration chromatography.

A Synthetic Recursive “+1” Pathway for Carbon Chain Elongation

PubMed Central

Marcheschi, Ryan J.; Li, Han; Zhang, Kechun; Noey, Elizabeth L.; Kim, Seonah; Chaubey, Asha; Houk, K. N.; Liao, James C.

2013-01-01

Nature uses four methods of carbon chain elongation for the production of 2-ketoacids, fatty acids, polyketides, and isoprenoids. Using a combination of quantum mechanical (QM) modeling, protein–substrate modeling, and protein and metabolic engineering, we have engineered the enzymes involved in leucine biosynthesis for use as a synthetic “+1” recursive metabolic pathway to extend the carbon chain of 2-ketoacids. This modified pathway preferentially selects longer-chain substrates for catalysis, as compared to the non-recursive natural pathway, and can recursively catalyze five elongation cycles to synthesize bulk chemicals, such as 1-heptanol, 1-octanol, and phenylpropanol directly from glucose. The “+1” chemistry is a valuable metabolic tool in addition to the “+5” chemistry and “+2” chemistry for the biosynthesis of isoprenoids, fatty acids, or polyketides. PMID:22242720

Towards a Validation of the Three Pathways Model of Pathological Gambling.

PubMed

Valleur, Marc; Codina, Irène; Vénisse, Jean-Luc; Romo, Lucia; Magalon, David; Fatséas, Mélina; Chéreau-Boudet, Isabelle; Gorsane, Mohamed-Ali; Guilleux, Alice; Grall-Bronnec, Marie; Challet-Bouju, Gaëlle

2016-06-01

With the aim of validating the three pathways hypothesis of pathological gambling (Blaszczynski and Nower in Addiction 97:487-499, 2002) 372 pathological gamblers meeting DSM IV (2000) criteria were assessed via a structured clinical interview as well as being subjected to personality tests and evaluation of their gambling practices. Our results show that it is possible to identify three subgroups corresponding to the three pathways: behaviourally conditioned problem gamblers, emotionally vulnerable problem gamblers and antisocial impulsivist problem gamblers. Our results particularly demonstrate that impulsivist gamblers preferentially choose semi-skilful gambling (horse racing and sports gambling) whereas emotionally vulnerable gamblers are significantly more attracted to games of chance (one-armed bandits, scratch cards, etc.) This led us to propose a functional presentation of the three pathways model which differs somewhat from the Blaszczynski and Nower presentation.

Taylor instability in rhyolite lava flows

NASA Technical Reports Server (NTRS)

Baum, B. A.; Krantz, W. B.; Fink, J. H.; Dickinson, R. E.

1989-01-01

A refined Taylor instability model is developed to describe the surface morphology of rhyolite lava flows. The effect of the downslope flow of the lava on the structures resulting from the Taylor instability mechanism is considered. Squire's (1933) transformation is developed for this flow in order to extend the results to three-dimensional modes. This permits assessing why ridges thought to arise from the Taylor instability mechanism are preferentially oriented transverse to the direction of lava flow. Measured diapir and ridge spacings for the Little and Big Glass Mountain rhyolite flows in northern California are used in conjunction with the model in order to explore the implications of the Taylor instability for flow emplacement. The model suggests additional lava flow features that can be measured in order to test whether the Taylor instability mechanism has influenced the flows surface morphology.

Autogenic dynamics of debris-flow fans

NASA Astrophysics Data System (ADS)

van den Berg, Wilco; de Haas, Tjalling; Braat, Lisanne; Kleinhans, Maarten

2015-04-01

Alluvial fans develop their semi-conical shape by cyclic avulsion of their geomorphologically active sector from a fixed fan apex. These cyclic avulsions have been attributed to both allogenic and autogenic forcings and processes. Autogenic dynamics have been extensively studied on fluvial fans through physical scale experiments, and are governed by cyclic alternations of aggradation by unconfined sheet flow, fanhead incision leading to channelized flow, channel backfilling and avulsion. On debris-flow fans, however, autogenic dynamics have not yet been directly observed. We experimentally created debris-flow fans under constant extrinsic forcings, and show that autogenic dynamics are a fundamental intrinsic process on debris-flow fans. We found that autogenic cycles on debris-flow fans are driven by sequences of backfilling, avulsion and channelization, similar to the cycles on fluvial fans. However, the processes that govern these sequences are unique for debris-flow fans, and differ fundamentally from the processes that govern autogenic dynamics on fluvial fans. We experimentally observed that backfilling commenced after the debris flows reached their maximum possible extent. The next debris flows then progressively became shorter, driven by feedbacks on fan morphology and flow-dynamics. The progressively decreasing debris-flow length caused in-channel sedimentation, which led to increasing channel overflow and wider debris flows. This reduced the impulse of the liquefied flow body to the flow front, which then further reduced flow velocity and runout length, and induced further in-channel sedimentation. This commenced a positive feedback wherein debris flows became increasingly short and wide, until the channel was completely filled and the apex cross-profile was plano-convex. At this point, there was no preferential transport direction by channelization, and the debris flows progressively avulsed towards the steepest, preferential, flow path. Simultaneously, the debris flows started to channelize, forced by increasingly effective concentration of the flow impulse to the flow front, which caused more effective lateral levee formation and an increasingly well-defined channel. This process continued until the debris flows reached their maximum possible extent and the cycle was reverted. Channelization occurred in the absence of erosion, in contrast with fluvial fans. Backfilling and channelization cycles were gradual and symmetric, requiring multiple debris flows to be completed. These results add debris-flow fans to the spectrum of fan-shaped aqueous systems that are affected by autogenic dynamics, now ranging from low-gradient rivers systems to steep-gradient mass-flow fans.

Impact of sub-horizontal discontinuities and vertical heterogeneities on recharge processes in a weathered crystalline aquifer in southern India

NASA Astrophysics Data System (ADS)

Nicolas, Madeleine; Selles, Adrien; Bour, Olivier; Maréchal, Jean-Christophe; Crenner, Marion; Wajiduddin, Mohammed; Ahmed, Shakeel

2017-04-01

In the face of increasing demands for irrigated agriculture, many states in India are facing water scarcity issues, leading to severe groundwater depletion. Because perennial water resources in southern India consist mainly of crystalline aquifers, understanding how recharge takes place and the role of preferential flow zones in such heterogeneous media is of prime importance for successful and sustainable aquifer management. Here we investigate how vertical heterogeneities and highly transmissive sub-horizontal discontinuities may control groundwater flows and recharge dynamics. Recharge processes in the vadose zone were examined by analysing the propagation of an infiltration front and mass transfers resulting from the implementation of a managed aquifer recharge (MAR) structure. Said structure was set up in the Experimental Hydrogeological Park in Telangana (Southern India), a well-equipped and continuously monitored site, which is periodically supplied with surface water deviated from the nearby Musi river, downstream of Hyderabad. An initial volume balance equation was applied to quantify the overall inputs from the MAR structure into the groundwater system, which was confirmed using a chloride mass balance approach. To understand how this incoming mass is then distributed within the aquifer, we monitored the evolution of water volumes in the tank, and the resulting lateral propagation front observed in the surrounding borehole network. Borehole logs of temperature and conductivity were regularly performed to identify preferential flow paths. As a result we observed that mass transfers take place in the way of preferential lateral flow through the most transmissive zones of the profile. These include the interface between the lower portion of the upper weathered horizon (the saprolite) and the upper part of the underlying fissured granite, as well as the first flowing fractures. This leads to a rapid lateral transfer of recharge, which allows quick replenishment of aquifers but may have severe implications regarding groundwater quality, whether contaminants originate from diffuse sources (such as fertilizers), or a localized injection of polluted surface water. These findings confirm previous studies about the non-linear behaviour of hard rock aquifers (Guihéneuf et al., 2014) and recharge processes (Boisson et al., 2015; Alazard et al., 2015). Depending on water level conditions, the aquifer shifts from a regional flow system (when superficial more connected and weathered levels are saturated), to independent local flow systems (when only the lower lesser fractured portion is saturated). Thus recharge seems to be controlled by the existence of (i) vertical heterogeneities within the unsaturated zone and (ii) highly transmissive sub-horizontal discontinuities, both of which controlling groundwater flows and recharge dynamics.

Short-Term Plasticity in a Computational Model of the Tail-Withdrawal Circuit in Aplysia

PubMed Central

Baxter, Douglas A.; Byrne, John H.

2007-01-01

The tail-withdrawal circuit of Aplysia provides a useful model system for investigating synaptic dynamics. Sensory neurons within the circuit manifest several forms of synaptic plasticity. Here, we developed a model of the circuit and investigated the ways in which depression (DEP) and potentiation (POT) contributed to information processing. DEP limited the amount of motor neuron activity that could be elicited by the monosynaptic pathway alone. POT within the monosynaptic pathway did not compensate for DEP. There was, however, a synergistic interaction between POT and the polysynaptic pathway. This synergism extended the dynamic range of the network, and the interplay between DEP and POT made the circuit responded preferentially to long-duration, low-frequency inputs. PMID:17957237

Experimental river delta size set by multiple floods and backwater hydrodynamics.

PubMed

Ganti, Vamsi; Chadwick, Austin J; Hassenruck-Gudipati, Hima J; Fuller, Brian M; Lamb, Michael P

2016-05-01

River deltas worldwide are currently under threat of drowning and destruction by sea-level rise, subsidence, and oceanic storms, highlighting the need to quantify their growth processes. Deltas are built through construction of sediment lobes, and emerging theories suggest that the size of delta lobes scales with backwater hydrodynamics, but these ideas are difficult to test on natural deltas that evolve slowly. We show results of the first laboratory delta built through successive deposition of lobes that maintain a constant size. We show that the characteristic size of delta lobes emerges because of a preferential avulsion node-the location where the river course periodically and abruptly shifts-that remains fixed spatially relative to the prograding shoreline. The preferential avulsion node in our experiments is a consequence of multiple river floods and Froude-subcritical flows that produce persistent nonuniform flows and a peak in net channel deposition within the backwater zone of the coastal river. In contrast, experimental deltas without multiple floods produce flows with uniform velocities and delta lobes that lack a characteristic size. Results have broad applications to sustainable management of deltas and for decoding their stratigraphic record on Earth and Mars.

Experimental river delta size set by multiple floods and backwater hydrodynamics

PubMed Central

Ganti, Vamsi; Chadwick, Austin J.; Hassenruck-Gudipati, Hima J.; Fuller, Brian M.; Lamb, Michael P.

2016-01-01

River deltas worldwide are currently under threat of drowning and destruction by sea-level rise, subsidence, and oceanic storms, highlighting the need to quantify their growth processes. Deltas are built through construction of sediment lobes, and emerging theories suggest that the size of delta lobes scales with backwater hydrodynamics, but these ideas are difficult to test on natural deltas that evolve slowly. We show results of the first laboratory delta built through successive deposition of lobes that maintain a constant size. We show that the characteristic size of delta lobes emerges because of a preferential avulsion node—the location where the river course periodically and abruptly shifts—that remains fixed spatially relative to the prograding shoreline. The preferential avulsion node in our experiments is a consequence of multiple river floods and Froude-subcritical flows that produce persistent nonuniform flows and a peak in net channel deposition within the backwater zone of the coastal river. In contrast, experimental deltas without multiple floods produce flows with uniform velocities and delta lobes that lack a characteristic size. Results have broad applications to sustainable management of deltas and for decoding their stratigraphic record on Earth and Mars. PMID:27386534

Geometric and topological characterization of porous media: insights from eigenvector centrality

NASA Astrophysics Data System (ADS)

Jimenez-Martinez, J.; Negre, C.

2017-12-01

Solving flow and transport through complex geometries such as porous media involves an extreme computational cost. Simplifications such as pore networks, where the pores are represented by nodes and the pore throats by edges connecting pores, have been proposed. These models have the ability to preserve the connectivity of the medium. However, they have difficulties capturing preferential paths (high velocity) and stagnation zones (low velocity), as they do not consider the specific relations between nodes. Network theory approaches, where the complex network is conceptualized like a graph, can help to simplify and better understand fluid dynamics and transport in porous media. To address this issue, we propose a method based on eigenvector centrality. It has been corrected to overcome the centralization problem and modified to introduce a bias in the centrality distribution along a particular direction which allows considering the flow and transport anisotropy in porous media. The model predictions are compared with millifluidic transport experiments, showing that this technique is computationally efficient and has potential for predicting preferential paths and stagnation zones for flow and transport in porous media. Entropy computed from the eigenvector centrality probability distribution is proposed as an indicator of the "mixing capacity" of the system.

Quantifying mobile and immobile zones during simulated stormwater infiltration through a new permeable pavement material.

PubMed

Bentarzi, Y; Ghenaim, A; Terfous, A; Wanko, A; Poulet, J B

2015-01-01

We have designed a new eco-material for use in permeable pavements in view to ensuring the sustainable management of stormwater in urban areas. The specific characteristic of this material is that it allows the infiltration of rainfall, storing the infiltrated water and trapping the pollutants carried by runoff such as engine oil and heavy metals. This new material is composed of a mixture of crushed concrete , resulting from inert construction waste, and organic material (compost). We performed tracing experiments in view to monitor the flow of the water within this material in order to study its hydrodynamics under heavy rainfall (rain with a return period of 10 years). The experimental results revealed preferential flows due to the heterogeneity of the material and liable to act as a major vector for the mobility of the pollutants transported within the material by stormwater. The work presented in this article consists in quantifying these preferential flows by determining their water contents in mobile (θm) and immobile (θim) water during infiltration. To do this, we used the (NON-EQUILIBRIUM Convection-Dispersion Equation) model, in order to evaluate mobile and stagnant zones in the framework of tracing experiments.

Rapid breakthrough of pesticides via biopres into tile drains and shallow groundwater: a combined experimental and model study

NASA Astrophysics Data System (ADS)

Klaus, J.; Zehe, E.; Palm, J.; Schroeder, B.

2009-04-01

Preferential flow in macropores is a key process which strongly affects infiltration and may cause rapid transport of pesticides into depths of 80 to 150 cm. At these depths they experience a much slower degradation, may leach into shallow groundwater or enter a tile-drain and are transported in surface water bodies. Therefore, preferential transport is an environ¬mental problem because the topsoil is bypassed, which has been originally thought to act as a filter to protect the subsoil and shallow groundwater. To get a better insight in the process of pesticide transport in agricultural soils an irrigation experiment was performed on a 400 m² field site. The experimental plot is located in the Weiherbach valley, south-west Germany, which basic geology consists of Loess and Keuper layers, the soil at the test site is a gleyic Colluvisol. The distance of the irrigation site to the Weiherbach brook is aprox. 12 m, the field is drained with a tile-drain in about 1.2 m depth and the shows runoff over the entire year. Three hours before the irrigation started the farmer applied a pesticide solution consisting of Isoproturon and Flufenacet according to conventional agricultural practice. The irrigation took place in three time blocks (80 min, 60 min, 80 min) and had a total irrigation rate of 33.6 mm measured with ten precipitation samplers. During the first block a tracer solution of 1600 g Bromide and 2000 g Brilliant Blue was irrigated on the test site. The drainage outlet was instrumented with a pressure probe to measure the water level. About 50 water samples were taken on the day of the experiment from the drainage outlet by hand, and in an eight hour interval for six days with an automatic sample procedure. Discharge at the drainage outlet showed two peaks in response irrigation. The breakthrough of the tracer into the brook is much faster then the reaction of the discharge on the precipitation impulse. To gain insight in the vertical transport behaviour three vertical soil profiles were excavated on the first day after the irrigation and two vertical profiles were excavated one week after the experiment. In those profiles soil samples were taken in a 10cm*10cm grid to analyse for the tracer concentrations. Based on that information the probability distribution function of the travel depths for each tracer could be calculated for two points in time. As burrows of deep digging earth worms often act as preferential pathways we counted the individuals of worm burrows using a nested sampling procedure. Though endogeic earthworms were apparent we didn't find any individuals of Lumbricus Terrestris nor macropores with diameter larger than 2 mm at a depth larger than 30-35 cm. So far we didn't identify those pathways that caused this rapid pesticide breakthrough into the tile drain, though a very small number macropores would suffice. Based on the collected data we will setup up a numerical model to simulate observed and flow and transport and test the hypothesis that earthworm burrows are the reason for this rapid breakthrough of pesticides into the tile drain.

The relationship between groundwater ages, streamflow ages, and storage selection functions under stationary conditions

NASA Astrophysics Data System (ADS)

Berghuijs, W.; Kirchner, J. W.

2017-12-01

Waters in aquifers are often much older than the streamwaters that drain them. Simple physically based reasoning suggests that these age contrasts should be expected wherever catchments are heterogeneous. However, a general quantitative catchment-scale explanation of these age contrasts remains elusive. We show that under stationary conditions conservation of mass and age dictate that the age distribution of water stored in a catchment can be directly estimated from the age distribution of its outflows, and vice versa. This in turn implies that the catchment's preference for the release or retention of waters of different ages can be estimated directly from the age distribution of outflow under stationary conditions. Using simple models of transit times, we show that the mean age of stored water can range from half as old as the mean age of streamflow (for plug flow conditions) to almost infinitely older (for strongly preferential flow). Streamflow age distributions reported in the literature often have long upper tails, consistent with preferential flow and implying that storage ages are substantially older than streamflow ages. Mean streamflow ages reported in the literature imply that most streamflow originates from a thin veneer of total groundwater storage. This preferential release of young streamflow implies that most groundwater is exchanged only slowly with the surface, and consequently must be very old. Where information is available for both storage ages and streamflow ages, our analysis establishes consistency relationships through which each could be used to better constrain the other. By quantifying the relationship between groundwater and streamflow ages, our analysis provides tools to jointly assess both of these important catchment properties.

Colloid-facilitated mobilization of metals by freeze-thaw cycles.

PubMed

Mohanty, Sanjay K; Saiers, James E; Ryan, Joseph N

2014-01-21

The potential of freeze-thaw cycles to release colloids and colloid-associated contaminants into water is unknown. We examined the effect of freeze-thaw cycles on the mobilization of cesium and strontium in association with colloids in intact cores of a fractured soil, where preferential flow paths are prevalent. Two intact cores were contaminated with cesium and strontium. To mobilize colloids and metal cations sequestered in the soil cores, each core was subjected to 10 intermittent wetting events separated by 66 h pauses. During the first five pauses, the cores were dried at room temperature, and during last five pauses, the cores were subjected to 42 h of freezing followed by 24 h of thawing. In comparison to drying, freeze-thaw cycles created additional preferential flow paths through which colloids, cesium, and strontium were mobilized. The wetting events following freeze-thaw intervals mobilized about twice as many colloids as wetting events following drying at room temperature. Successive wetting events following 66 h of drying mobilized similar amounts of colloids; in contrast, successive wetting events after 66 h of freeze-thaw intervals mobilized greater amounts of colloids than the previous one. Drying and freeze-thaw treatments, respectively, increased and decreased the dissolved cesium and strontium, but both treatments increased the colloidal cesium and strontium. Overall, the freeze-thaw cycles increased the mobilization of metal contaminants primarily in association with colloids through preferential flow paths. These findings suggest that the mobilization of colloid and colloid-associated contaminants could increase when temperature variations occur around the freezing point of water. Thus, climate extremes have the potential to mobilize contaminants that have been sequestered in the vadose zone for decades.

Geologic Controls of Hydraulic Conductivity in the Snake River Plain Aquifer At and Near the Idaho National Engineering and Environmental Laboratory, Idaho

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

S. R. Anderson; M. A. Kuntz; L. C. Davis

1999-02-01

The effective hydraulic conductivity of basalt and interbedded sediment that compose the Snake River Plain aquifer at and near the Idaho National Engineering and Environmental Laboratory (INEEL) ranges from about 1.0x10 -2 to 3.2x10 4 feet per day (ft/d). This six-order-of-magnitude range of hydraulic conductivity was estimated from single-well aquifer tests in 114 wells, and is attributed mainly to the physical characteristics and distribution of basalt flows and dikes. Hydraulic conductivity is greatest in thin pahoehoe flows and near-vent volcanic deposits. Hydraulic conductivity is least in flows and deposits cut by dikes. Estimates of hydraulic conductivity at and near themore » INEEL are similar to those measured in similar volcanic settings in Hawaii. The largest variety of rock types and the greatest range of hydraulic conductivity are in volcanic rift zones, which are characterized by numerous aligned volcanic vents and fissures related to underlying dikes. Three broad categories of hydraulic conductivity corresponding to six general types of geologic controls can be inferred from the distribution of wells and vent corridors. Hydraulic conductivity of basalt flows probably is increased by localized fissures and coarse mixtures of interbedded sediment, scoria, and basalt rubble. Hydraulic conductivity of basalt flows is decreased locally by abundant alteration minerals of probable hydrothermal origin. Hydraulic conductivity varies as much as six orders of magnitude in a single vent corridor and varies from three to five orders of magnitude within distances of 500 to 1,000 feet. Abrupt changes in hydraulic conductivity over short distances suggest the presence of preferential pathways and local barriers that may greatly affect the movement of ground water and the dispersion of radioactive and chemical wastes downgradient from points of waste disposal.« less

Influence of colloids on the attenuation and transport of phosphorus in alluvial gravel aquifer and vadose zone media.

PubMed

Pang, Liping; Lafogler, Mark; Knorr, Bastian; McGill, Erin; Saunders, Darren; Baumann, Thomas; Abraham, Phillip; Close, Murray

2016-04-15

Phosphorous (P) leaching (e.g., from effluents, fertilizers) and transport in highly permeable subsurface media can be an important pathway that contributes to eutrophication of receiving surface waters as groundwater recharges the base-flow of surface waters. Here we investigated attenuation and transport of orthophosphate-P in gravel aquifer and vadose zone media in the presence and absence of model colloids (Escherichia coli, kaolinite, goethite). Experiments were conducted using repacked aquifer media in a large column (2m long, 0.19m in diameter) and intact cores (0.4m long, 0.24m in diameter) of vadose zone media under typical field flow rates. In the absence of the model colloids, P was readily traveled through the aquifer media with little attenuation (up to 100% recovery) and retardation, and P adsorption was highly reversible. Conversely, addition of the model colloids generally resulted in reduced P concentration and mass recovery (down to 28% recovery), and increased retardation and adsorption irreversibility in both aquifer and vadose zone media. The degree of colloid-assisted P attenuation was most significant in the presence of fine material and Fe-containing colloids at low flow rate but was least significant in the presence of coarse gravels and E. coli at high flow rate. Based on the experimental results, setback distances of 49-53m were estimated to allow a reduction of P concentrations in groundwater to acceptable levels in the receiving water. These estimates were consistent with field observations in the same aquifer media. Colloid-assisted P attenuation can be utilized to develop mitigation strategies to better manage effluent applications in gravelly soils. To efficiently retain P within soil matrix and reduce P leaching to groundwater, it is recommended to select soils that are rich in iron oxides, to periodically disturb soil preferential flow paths by tillage, and to apply a low irrigation rate. Copyright © 2016 Elsevier B.V. All rights reserved.

Early formation of preferential flow in a homogeneous snowpack observed by micro-CT

NASA Astrophysics Data System (ADS)

Avanzi, Francesco; Petrucci, Giacomo; Matzl, Margret; Schneebeli, Martin; De Michele, Carlo

2017-05-01

We performed X-ray microtomographic observations of wet-snow metamorphism during controlled continuous melting and melt-freeze events in the laboratory. Three blocks of snow were sieved into boxes and subjected to cyclic, superficial heating or heating-cooling to reproduce vertical water infiltration patterns in snow similarly to natural conditions. Periodically, samples were taken at different heights and scanned. Results suggest that wet-snow metamorphism dynamics are highly heterogeneous even in an initially homogeneous snowpack. Consistent with previous work, we observed an increase with time in the thickness of the ice structure, which is a measure of grain size. However, this was coupled with large temporal scatter between consecutive measurements of the specific surface area and of the statistical moments of grain thickness distributions. Because of marked differences in the right tail, grain thickness distributions did not show shape invariance with time, contrary to previous analyses. In our experiments, wet-snow metamorphism showed two strikingly different patterns: homogeneous coarsening superimposed by faster heterogeneous coarsening in areas that were affected by preferential percolation of water. Liquid water movement in snow and fast structural evolution may be thus intrinsically coupled by early formation of preferential flow at local scale. These observations suggest that further experiments are highly needed to fully understand wet-snow metamorphism and infiltration patterns in a natural snowpack.

Application of carbonate cyclostratigraphy and borehole geophysics to delineate porosity and preferential flow in the karst limestone of the Biscayne aquifer, SE Florida

USGS Publications Warehouse

Cunningham, K.J.; Renken, R.A.; Wacker, M.A.; Zygnerski, M.R.; Robinson, E.; Shapiro, A.M.; Wingard, G.L.

2006-01-01

Combined analyses of cores, borehole geophysical logs, and cyclostratigraphy produced a new conceptual hydrogeologic framework for the triple-porosity (matrix, touching-vug, and conduit porosity) karst limestone of the Biscayne aquifer in a 0.65 km2 study area, SE Florida. Vertical lithofacies successions, which have recurrent stacking patterns, fit within high-frequency cycles. We define three ideal high-frequency cycles as: (1) upward-shallowing subtidal cycles, (2) upward-shallowing paralic cycles, and (3) aggradational subtidal cycles. Digital optical borehole images, tracers, and flow meters indicate that there is a predictable vertical pattern of porosity and permeability within the three ideal cycles, because the distribution of porosity and permeability is related to lithofacies. Stratiform zones of high permeability commonly occur just above flooding surfaces in the lower part of upward-shallowing subtidal and paralic cycles, forming preferential groundwater flow zones. Aggradational subtidal cycles are either mostly high-permeability zones or leaky, low-permeability units. In the study area, groundwater flow within stratiform high-permeability zones is through a secondary pore system of touching-vug porosity principally related to molds of burrows and pelecypods and to interburrow vugs. Movement of a dye-tracer pulse observed using a borehole fluid-temperature tool during a conservative tracer test indicates heterogeneous permeability. Advective movement of the tracer appears to be most concentrated within a thin stratiform flow zone contained within the lower part of a high-frequency cycle, indicating a distinctly high relative permeability for this zone. Borehole flow-meter measurements corroborate the relatively high permeability of the flow zone. Identification and mapping of such high-permeability flow zones is crucial to conceptualization of karst groundwater flow within a cyclostratigraphic framework. Many karst aquifers are included in cyclic platform carbonates. Clearly, a cyclostratigraphic approach that translates carbonate aquifer heterogeneity into a consistent framework of correlative units will improve simulation of karst groundwater flow. ?? 2006 Geological Society of America.

Three-Dimensional Smoothed Particle Hydrodynamics Modeling of Preferential Flow Dynamics at Fracture Intersections on a High-Performance Computing Platform

NASA Astrophysics Data System (ADS)

Kordilla, J.; Bresinsky, L. T.

2017-12-01

The physical mechanisms that govern preferential flow dynamics in unsaturated fractured rock formations are complex and not well understood. Fracture intersections may act as an integrator of unsaturated flow, leading to temporal delay, intermittent flow and partitioning dynamics. In this work, a three-dimensional Pairwise-Force Smoothed Particle Hydrodynamics (PF-SPH) model is being applied in order to simulate gravity-driven multiphase flow at synthetic fracture intersections. SPH, as a meshless Lagrangian method, is particularly suitable for modeling deformable interfaces, such as three-phase contact dynamics of droplets, rivulets and free-surface films. The static and dynamic contact angle can be recognized as the most important parameter of gravity-driven free-surface flow. In SPH, surface tension and adhesion naturally emerges from the implemented pairwise fluid-fluid (sff) and solid-fluid (ssf) interaction force. The model was calibrated to a contact angle of 65°, which corresponds to the wetting properties of water on Poly(methyl methacrylate). The accuracy of the SPH simulations were validated against an analytical solution of Poiseuille flow between two parallel plates and against laboratory experiments. Using the SPH model, the complex flow mode transitions from droplet to rivulet flow of an experimental study were reproduced. Additionally, laboratory dimensionless scaling experiments of water droplets were successfully replicated in SPH. Finally, SPH simulations were used to investigate the partitioning dynamics of single droplets into synthetic horizontal fractures with various apertures (Δdf = 0, 0.5, 1.0, 1.5, 2.0, 2.5, 3.0, 3.5, 4.0 mm) and offsets (Δdoff = -1.5, -1.0, -0.5, 0, 1.0, 2.0, 3.0 mm). Fluid masses were measured in the domains R1, R2 and R3. The perfect conditions of ideally smooth surfaces and the SPH inherent advantage of particle tracking allow the recognition of small scale partitioning mechanisms and its importance for bulk flow behavior.

Assessing controls on perched saturated zones beneath the Idaho Nuclear Technology and Engineering Center, Idaho

USGS Publications Warehouse

Mirus, Benjamin B.; Perkins, Kim S.; Nimmo, John R.

2011-01-01

Waste byproducts associated with operations at the Idaho Nuclear Technology and Engineering Center (INTEC) have the potential to contaminate the eastern Snake River Plain (ESRP) aquifer. Recharge to the ESRP aquifer is controlled largely by the alternating stratigraphy of fractured volcanic rocks and sedimentary interbeds within the overlying vadose zone and by the availability of water at the surface. Beneath the INTEC facilities, localized zones of saturation perched on the sedimentary interbeds are of particular concern because they may facilitate accelerated transport of contaminants. The sources and timing of natural and anthropogenic recharge to the perched zones are poorly understood. Simple approaches for quantitative characterization of this complex, variably saturated flow system are needed to assess potential scenarios for contaminant transport under alternative remediation strategies. During 2009-2011, the U.S. Geological Survey (USGS), in cooperation with the U.S. Department of Energy, employed data analysis and numerical simulations with a recently developed model of preferential flow to evaluate the sources and quantity of recharge to the perched zones. Piezometer, tensiometer, temperature, precipitation, and stream-discharge data were analyzed, with particular focus on the possibility of contributions to the perched zones from snowmelt and flow in the neighboring Big Lost River (BLR). Analysis of the timing and magnitude of subsurface dynamics indicate that streamflow provides local recharge to the shallow, intermediate, and deep perched saturated zones within 150 m of the BLR; at greater distances from the BLR the influence of streamflow on recharge is unclear. Perched water-level dynamics in most wells analyzed are consistent with findings from previous geochemical analyses, which suggest that a combination of annual snowmelt and anthropogenic sources (for example, leaky pipes and drainage ditches) contribute to recharge of shallow and intermediate perched zones throughout much of INTEC. The source-responsive fluxes model was parameterized to simulate recharge via preferential flow associated with intermittent episodes of streamflow in the BLR. The simulations correspond reasonably well to the observed hydrologic response within the shallow perched zone. Good model performance indicates that source-responsive flow through a limited number of connected fractures contributes substantially to the perched-zone dynamics. The agreement between simulated and observed perched-zone dynamics suggest that the source-responsive fluxes model can provide a valuable tool for quantifying rapid preferential flow processes that may result from different land management scenarios.

EFFECTS OF TUMORS ON INHALED PHARMACOLOGIC DRUGS: I. FLOW PATTTERNS

EPA Science Inventory

ABSTRACT

Lung carcinomas are now the most common form of cancer. Clinical data suggest that tumors are found preferentially in upper airways, perhaps specifically at carina within bifurcations. The disease can be treated by aerosolized pharmacologic drugs. To enhance their...

The proximity of hotspots to convergent and divergent plate boundaries

NASA Technical Reports Server (NTRS)

Weinstein, Stuart A.; Olson, Peter L.

1989-01-01

An analysis of four different hotspot distributions, ranging from Morgan's (1972) original list of 19 to Vogt's (1981) list of 117 reveals that the hotspots are preferentially located near divergent plate boundaries. The probability of this proximity occurring by chance alone is quite remote, less than 0.01 for all four hotspot distributions. The same analysis also reveals that the hotspots are preferentially excluded from regions near convergent plate boundaries. The probability of this exclusion occurring by chance alone is 0.1 or less for three out of the four distributions examined. We interpret this behavior as being a consequence of the effects of large scale convective circulation on ascending mantle plumes. Mantle thermal plumes, the most probable source of hotspots, arise from instabilities in a basal thermal boundary layer. Plumes are suppressed from regions beneath convergent boundaries by descending flow and are entrained into the upwelling flow beneath spreading centers. Plate-scale convective circulation driven by subduction may also advect mantle thermal plumes toward spreading centers.

Metabolome analysis-based design and engineering of a metabolic pathway in Corynebacterium glutamicum to match rates of simultaneous utilization of D-glucose and L-arabinose.

PubMed

Kawaguchi, Hideo; Yoshihara, Kumiko; Hara, Kiyotaka Y; Hasunuma, Tomohisa; Ogino, Chiaki; Kondo, Akihiko

2018-05-17

L-Arabinose is the second most abundant component of hemicellulose in lignocellulosic biomass, next to D-xylose. However, few microorganisms are capable of utilizing pentoses, and catabolic genes and operons enabling bacterial utilization of pentoses are typically subject to carbon catabolite repression by more-preferred carbon sources, such as D-glucose, leading to a preferential utilization of D-glucose over pentoses. In order to simultaneously utilize both D-glucose and L-arabinose at the same rate, a modified metabolic pathway was rationally designed based on metabolome analysis. Corynebacterium glutamicum ATCC 31831 utilized D-glucose and L-arabinose simultaneously at a low concentration (3.6 g/L each) but preferentially utilized D-glucose over L-arabinose at a high concentration (15 g/L each), although L-arabinose and D-glucose were consumed at comparable rates in the absence of the second carbon source. Metabolome analysis revealed that phosphofructokinase and pyruvate kinase were major bottlenecks for D-glucose and L-arabinose metabolism, respectively. Based on the results of metabolome analysis, a metabolic pathway was engineered by overexpressing pyruvate kinase in combination with deletion of araR, which encodes a repressor of L-arabinose uptake and catabolism. The recombinant strain utilized high concentrations of D-glucose and L-arabinose (15 g/L each) at the same consumption rate. During simultaneous utilization of both carbon sources at high concentrations, intracellular levels of phosphoenolpyruvate declined and acetyl-CoA levels increased significantly as compared with the wild-type strain that preferentially utilized D-glucose. These results suggest that overexpression of pyruvate kinase in the araR deletion strain increased the specific consumption rate of L-arabinose and that citrate synthase activity becomes a new bottleneck in the engineered pathway during the simultaneous utilization of D-glucose and L-arabinose. Metabolome analysis identified potential bottlenecks in D-glucose and L-arabinose metabolism and was then applied to the following rational metabolic engineering. Manipulation of only two genes enabled simultaneous utilization of D-glucose and L-arabinose at the same rate in metabolically engineered C. glutamicum. This is the first report of rational metabolic design and engineering for simultaneous hexose and pentose utilization without inactivating the phosphotransferase system.

Preferentially Cytotoxic Constituents of Andrographis paniculata and their Preferential Cytotoxicity against Human Pancreatic Cancer Cell Lines.

PubMed

Lee, Sullim; Morita, Hiroyuki; Tezuka, Yasuhiro

2015-07-01

In the course of our search for anticancer agents based on a novel anti-austerity strategy, we found that the 70% EtOH extract of the crude drug Andrographis Herba (aerial parts of Andrographis paniculata), used in Japanese Kampo medicines, killed PANC-1 human pancreatic cancer cells preferentially in nutrient-deprived medium (NDM). Phytochemical investigation of the 70% EtOH extract led to the isolation of 21 known compounds consisting of six labdane-type diterpenes (11, 15, 17-19, 21), six flavones (5, 7, 10, 12, 14, 20), three flavanones (2, 6, 16), two sterols (3, 8), a fatty acid (1), a phthalate (4), a triterpene (9), and a monoterpene (13). Among them, 14-deoxy-11,12-didehydroandrographolide (17) displayed the most potent preferential cytotoxicity against PANC-1 and PSN-1 cells with PC50 values of 10.0 μM and 9.27 μM, respectively. Microscopical observation, double staining with ethidium bromide (EB) and acridine orange (AO), and flow cytometry with propidium iodide/annexin V double staining indicated that 14-deoxy-11,12-didehydroandrographolide (17) triggered apoptosis-like cell death in NDM with an amino acids and/or serum-sensitive mode.

Preferential dealkylation reactions of s-triazine herbicides in the unsaturated zone

USGS Publications Warehouse

Mills, M.S.; Michael, Thurman E.

1994-01-01

The preferential dealkylation pathways of the s-triazine herbicides, atrazine (2-chloro-4-ethylamino-6-isopropylamino-s-triazine), propazine [2-chloro-4,6-bis(isopropylamino)-s-triazine], and simazine [2-chloro-4,6-bis(ethylamino)-s-triazine], and two monodealkylated triazine metabolites, deisopropylatrazine (DIA: 2-amino-4-chloro-6-ethylamino-s-triazine) and deethylatrazine (DEA: 2-amino-4-chloro-6-isopropylamino-s-triazine) were investigated on two adjacent Eudora silt-loam plots growing corn (Zea mays L.). Results from the shallow unsaturated zone and surface-water runoff showed preferential removal of an ethyl side chain from atrazine, simazine, and DIA relative to an isopropyl side chain from atrazine, propazine, and DEA. It is hypothesized that deethylation reactions may proceed at 2-3 times the rate of deisopropylation reactions. It is concluded that small concentrations of DIA reportedly associated with the degradation of atrazine may be due to a rapid turnover rate of the metabolite in the unsaturated zone, not to small production levels. Because of continued dealkylation of both monodealkylated metabolites, a strong argument is advanced for the presence of a didealkylated metabolite in the unsaturated zone.

Response to "Comments on 'Theory for source-responsive and free-surface film modeling of unsaturated flow'"

USGS Publications Warehouse

Nimmo, John R.

2012-01-01

I am grateful to Masciopinto (2012) for raising several issues from my study (Nimmo, 2010) that deserve elaboration or clarification. In this reply, I address these in what I judge to be the order of importance, the main ones being (i) the discrepancy of scales between the two domains that treat preferential and diffuse unsaturated flow, and (ii) the properties that must be evaluated to characterize the medium.

Laws of physics help explain capillary non-perfusion in diabetic retinopathy.

PubMed

Stefánsson, E; Chan, Y K; Bek, T; Hardarson, S H; Wong, D; Wilson, D I

2018-02-01

The purpose is to use laws of physics to elucidate the mechanisms behind capillary non-perfusion in diabetic retinopathy. In diabetic retinopathy, loss of pericytes weakens capillary walls and the vessel dilates. A dilated capillary has reduced resistance to flow, therefore increased flow in that vessel and decreased in adjoining capillaries. A preferential shunt vessel is thus formed from the dilated capillary and the adjacent capillaries become non-perfused. We apply the laws of Laplace and Hagen-Poiseuille to better understand the phenomena that lead to capillary non-perfusion. These laws of physics can give a foundation for physical or mathematical models to further elucidate this field of study. The law of Laplace predicts that a weaker vessel wall will dilate, assuming constant transmural pressure. The Hagen-Poiseuille equation for flow and the Ostwald-de Waele relationship for viscosity predict that a dilated vessel will receive a higher portion of the fluid flow than the adjoining capillaries. Viscosity will decrease in the dilated vessel, furthering the imbalance and resulting in a patch of non-perfused capillaries next to the dilated 'preferential' shunt vessel. Physical principles support or inspire novel hypotheses to explain poorly understood phenomena in ophthalmology. This thesis of pericyte death and capillary remodelling, which was first proposed by Cogan and Kuwabara, already agrees with histological and angiographical observations in diabetic retinopathy. We have shown that it is also supported by classical laws of physics.

Preferential cephalic redistribution of left ventricular cardiac output during therapeutic hypothermia for perinatal hypoxic-ischemic encephalopathy

PubMed Central

Hochwald, Ori; Jabr, Mohammed; Osiovich, Horacio; Miller, Steven P.; McNamara, Patrick J.; Lavoie, Pascal M.

2015-01-01

Objective To determine the relationship between left ventricular cardiac output (LVCO), superior vena cava (SVC) flow, and brain injury during whole-body therapeutic hypothermia. Study design Sixteen newborns with moderate or severe hypoxic-ischemic encephalopathy were studied using echocardiography during and immediately after therapeutic hypothermia. Measures were also compared with 12 healthy newborns of similar postnatal age. Newborns undergoing therapeutic hypothermia also had a cerebral magnetic resonance imaging as part of routine clinical care on postnatal day 3–4. Results LVCO was markedly reduced (mean+/−SD: 126+/−38 mL/kg/min) during therapeutic hypothermia, whereas SVC flow was maintained within expected normal values (88+/− 27 mL/kg/min) such that it represented 70% of the LVCO. The reduction in LVCO during therapeutic hypothermia was mainly accounted by a reduction in heart rate (99 +/− 13 BPM versus 123 +/− 17 BPM; p<0.001) compared to immediately post-warming, in the context of myocardial dysfunction. Neonates with documented brain injury on MRI showed higher SVC flow pre-rewarming, compared to newborns without brain injury (p=0.013). Conclusion Newborns with perinatal hypoxic-ischemic encephalopathy showed a preferential systemic-to cerebral redistribution of cardiac blood flow during whole-body therapeutic hypothermia, which may reflect a lack of cerebral vascular adaptation in newborns with more severe brain injury. PMID:24582011

Mechanistic principles of colloidal crystal growth by evaporation-induced convective steering.

PubMed

Brewer, Damien D; Allen, Joshua; Miller, Michael R; de Santos, Juan M; Kumar, Satish; Norris, David J; Tsapatsis, Michael; Scriven, L E

2008-12-02

We simulate evaporation-driven self-assembly of colloidal crystals using an equivalent network model. Relationships between a regular hexagonally close-packed array of hard, monodisperse spheres, the associated pore space, and selectivity mechanisms for face-centered cubic microstructure propagation are described. By accounting for contact line rearrangement and evaporation at a series of exposed menisci, the equivalent network model describes creeping flow of solvent into and through a rigid colloidal crystal. Observations concerning colloidal crystal growth are interpreted in terms of the convective steering hypothesis, which posits that solvent flow into and through the pore space of the crystal may play a major role in colloidal self-assembly. Aspects of the convective steering and deposition of high-Peclet-number rigid spherical particles at a crystal boundary are inferred from spatially resolved solvent flow into the crystal. Gradients in local flow through boundary channels were predicted due to the channels' spatial distribution relative to a pinned free surface contact line. On the basis of a uniform solvent and particle flux as the criterion for stability of a particular growth plane, these network simulations suggest the stability of a declining {311} crystal interface, a symmetry plane which exclusively propagates fcc microstructure. Network simulations of alternate crystal planes suggest preferential growth front evolution to the declining {311} interface, in consistent agreement with the proposed stability mechanism for preferential fcc microstructure propagation in convective assembly.

Mapping Soil Surface Macropores Using Infrared Thermography: An Exploratory Laboratory Study

PubMed Central

de Lima, João L. M. P.; Abrantes, João R. C. B.; Silva, Valdemir P.; de Lima, M. Isabel P.; Montenegro, Abelardo A. A.

2014-01-01

Macropores and water flow in soils and substrates are complex and are related to topics like preferential flow, nonequilibrium flow, and dual-continuum. Hence, the quantification of the number of macropores and the determination of their geometry are expected to provide a better understanding on the effects of pores on the soil's physical and hydraulic properties. This exploratory study aimed at evaluating the potential of using infrared thermography for mapping macroporosity at the soil surface and estimating the number and size of such macropores. The presented technique was applied to a small scale study (laboratory soil flume). PMID:25371915

Modeling flow and solute transport at a tile drain field site by explicit representation of preferential flow structures: Equifinality and uncertainty

NASA Astrophysics Data System (ADS)

Zehe, E.; Klaus, J.

2011-12-01

Rapid flow in connected preferential flow paths is crucial for fast transport of water and solutes through soils, especially at tile drained field sites. The present study tests whether an explicit treatment of worm burrows is feasible for modeling water flow, bromide and pesticide transport in structured heterogeneous soils with a 2-dimensional Richards based model. The essence is to represent worm burrows as morphologically connected paths of low flow resistance and low retention capacity in the spatially highly resolved model domain. The underlying extensive database to test this approach was collected during an irrigation experiment, which investigated transport of bromide and the herbicide Isoproturon at a 900 sqm tile drained field site. In a first step we investigated whether the inherent uncertainty in key data causes equifinality i.e. whether there are several spatial model setups that reproduce tile drain event discharge in an acceptable manner. We found a considerable equifinality in the spatial setup of the model, when key parameters such as the area density of worm burrows and the maximum volumetric water flows inside these macropores were varied within the ranges of either our measurement errors or measurements reported in the literature. Thirteen model runs yielded a Nash-Sutcliffe coefficient of more than 0.9. Also, the flow volumes were in good accordance and peak timing errors where less than or equal to 20 min. In the second step we investigated thus whether this "equifinality" in spatial model setups may be reduced when including the bromide tracer data into the model falsification process. We simulated transport of bromide for the 13 spatial model setups, which performed best with respect to reproduce tile drain event discharge, without any further calibration. Four of this 13 model setups allowed to model bromide transport within fixed limits of acceptability. Parameter uncertainty and equifinality could thus be reduced. Thirdly, we selected one of those four setups for simulating transport of Isoproturon, which was applied the day before the irrigation experiment, and tested different parameter combinations to characterise adsorption according to the footprint data base. Simulations could, however, only reproduce the observed event based leaching behaviour, when we allowed for retardation coefficients that were very close to one. This finding is consistent with observations various field observations. We conclude: a) A realistic representation of dominating structures and their topology is of key importance for predicting preferential water and mass flows at tile drained hillslopes. b) Parameter uncertainty and equifinality could be reduced, but a system inherent equifinality in a 2-dimensional Richards based model has to be accepted.

Pre-ordering of interfacial water in the pathway of heterogeneous ice nucleation does not lead to a two-step crystallization mechanism.

PubMed

Lupi, Laura; Peters, Baron; Molinero, Valeria

2016-12-07

According to Classical Nucleation Theory (CNT), the transition from liquid to crystal occurs in a single activated step with a transition state controlled by the size of the crystal embryo. This picture has been challenged in the last two decades by several reports of two-step crystallization processes in which the liquid first produces pre-ordered or dense domains, within which the crystal nucleates in a second step. Pre-ordering preceding crystal nucleation has been recently reported in simulations of ice crystallization, raising the question of whether the mechanism of ice nucleation involves two steps. In this paper, we investigate the heterogeneous nucleation of ice on carbon surfaces. We use molecular simulations with efficient coarse-grained models combined with rare event sampling methods and free energy calculations to elucidate the role of pre-ordering of liquid water at the carbon surface in the reaction coordinate for heterogeneous nucleation. We find that ice nucleation proceeds through a classical mechanism, with a single barrier between liquid and crystal. The reaction coordinate that determines the crossing of the nucleation barrier is the size of the crystal nucleus, as predicted by CNT. Wetting of the critical ice nuclei within pre-ordered domains decreases the nucleation barrier, increasing the nucleation rates. The preferential pathway for crystallization involves the early creation of pre-ordered domains that are the birthplace of the ice crystallites but do not represent a minimum in the free energy pathway from liquid to ice. We conclude that a preferential pathway through an intermediate-order precursor does not necessarily result in a two-step mechanism.

Identification of candidate genes affecting Δ9-tetrahydrocannabinol biosynthesis in Cannabis sativa

PubMed Central

Marks, M. David; Tian, Li; Wenger, Jonathan P.; Omburo, Stephanie N.; Soto-Fuentes, Wilfredo; He, Ji; Gang, David R.; Weiblen, George D.; Dixon, Richard A.

2009-01-01

RNA isolated from the glands of a Δ9-tetrahydrocannabinolic acid (THCA)-producing strain of Cannabis sativa was used to generate a cDNA library containing over 100 000 expressed sequence tags (ESTs). Sequencing of over 2000 clones from the library resulted in the identification of over 1000 unigenes. Candidate genes for almost every step in the biochemical pathways leading from primary metabolites to THCA were identified. Quantitative PCR analysis suggested that many of the pathway genes are preferentially expressed in the glands. Hexanoyl-CoA, one of the metabolites required for THCA synthesis, could be made via either de novo fatty acids synthesis or via the breakdown of existing lipids. qPCR analysis supported the de novo pathway. Many of the ESTs encode transcription factors and two putative MYB genes were identified that were preferentially expressed in glands. Given the similarity of the Cannabis MYB genes to those in other species with known functions, these Cannabis MYBs may play roles in regulating gland development and THCA synthesis. Three candidates for the polyketide synthase (PKS) gene responsible for the first committed step in the pathway to THCA were characterized in more detail. One of these was identical to a previously reported chalcone synthase (CHS) and was found to have CHS activity. All three could use malonyl-CoA and hexanoyl-CoA as substrates, including the CHS, but reaction conditions were not identified that allowed for the production of olivetolic acid (the proposed product of the PKS activity needed for THCA synthesis). One of the PKS candidates was highly and specifically expressed in glands (relative to whole leaves) and, on the basis of these expression data, it is proposed to be the most likely PKS responsible for olivetolic acid synthesis in Cannabis glands. PMID:19581347

CONCURRENT INJECTION OF COSOLVENT AND AIR FOR ENHANCED PCE REMOVAL

EPA Science Inventory

The goal of this study was to use preferential flow of air to improve the dynamics of cosolvent displacement in order to enhance DNAPL displacement and dissolution. The concurrent injection of cosolvent and air was evaluated in a glass micromodel for a DNAPL remediation technolog...

Assessing the drivers of dissolved organic matter export from two contrasting lowland catchments, U.K.

PubMed

Yates, Christopher A; Johnes, Penny J; Spencer, Robert G M

2016-11-01

Two lowland catchments in the U.K. were sampled throughout 2010-11 to investigate the dominant controls on dissolved organic matter quantity and composition. The catchments had marked differences in terms of nutrient status, land cover and contrasting lithologies resulting in differences in the dominant flow pathways (groundwater vs. surface water dominated). The Upper Wylye is a chalk stream with a baseflow index of 0.98, draining a catchment dominated by intensive agricultural production. Millersford Brook is a lowland peat catchment with a baseflow index of 0.43, draining a semi-natural catchment with heather moorland and coniferous forest. Samples were collected weekly between October 2010 and September 2011 from eleven sampling locations. Samples were analysed to determine dissolved organic carbon, nitrogen and phosphorus fractions with DOM composition evaluated via the DOC:DON ratio, DOC:DOP ratio, specific UV absorption at 254nm, absorbance ratio (a250:a365) and the spectral slope parameter between 350 and 400nm (S350-400). Significant differences were observed in all determinands between the catchments, over time, and spatially along nutrient enrichment and geoclimatic gradients. Seasonal variation in preferential flow pathways mobilising groundwater-derived DOM were identified as likely controls on the delivery of DOM in the permeable chalk dominated catchment. Steeper S350-400 values and elevated a250:a365 ratios in this catchment suggest material of a lower bulk aromatic C content and molecular weight delivered during the winter months when compared to the summer. DOC:DON ratios were markedly lower in the chalk catchment than the peatland catchment, reflecting the paucity of organic matter within the mineral soils of the chalk landscape, and higher fertiliser application rates. This manuscript highlights that DOM composition varies according to catchment landscape character and hydrological function. Copyright © 2016 The Authors. Published by Elsevier B.V. All rights reserved.

Statistical Distribution of Inflation on Lava Flows: Analysis of Flow Surfaces on Earth and Mars

NASA Technical Reports Server (NTRS)

Glazel, L. S.; Anderson, S. W.; Stofan, E. R.; Baloga, S.

2003-01-01

The surface morphology of a lava flow results from processes that take place during the emplacement of the flow. Certain types of features, such as tumuli, lava rises and lava rise pits, are indicators of flow inflation or endogenous growth of a lava flow. Tumuli in particular have been identified as possible indicators of tube location, indicating that their distribution on the surface of a lava flow is a junction of the internal pathways of lava present during flow emplacement. However, the distribution of tumuli on lava flows has not been examined in a statistically thorough manner. In order to more rigorously examine the distribution of tumuli on a lava flow, we examined a discrete flow lobe with numerous lava rises and tumuli on the 1969 - 1974 Mauna Ulu flow at Kilauea, Hawaii. The lobe is located in the distal portion of the flow below Holei Pali, which is characterized by hummocky pahoehoe flows emplaced from tubes. We chose this flow due to its discrete nature allowing complete mapping of surface morphologies, well-defined boundaries, well-constrained emplacement parameters, and known flow thicknesses. In addition, tube locations for this Mauna Ulu flow were mapped by Holcomb (1976) during flow emplacement. We also examine the distribution of tumuli on the distal portion of the hummocky Thrainsskjoldur flow field provided by Rossi and Gudmundsson (1996). Analysis of the Mauna Ulu and Thrainsskjoldur flow lobes and the availability of high-resolution MOC images motivated us to look for possible tumuli-dominated flow lobes on the surface of Mars. We identified a MOC image of a lava flow south of Elysium Mons with features morphologically similar to tumuli. The flow is characterized by raised elliptical to circular mounds, some with axial cracks, that are similar in size to the tumuli measured on Earth. One potential avenue of determining whether they are tumuli is to look at the spatial distribution to see if any patterns similar to those of tumuli-dominated terrestrial flows can be identified. Since tumuli form by the injection of lava beneath a crust, the distribution of tumuli on a flow should represent the distribution of thermally preferred pathways beneath the surface of the crust. That distribution of thermally preferred pathways may be a function of the evolution of a basaltic lava flow. As a longer-lived flow evolves, initially broad thermally preferred pathways would evolve to narrower, more well-defined tube-like pathways. The final flow morphology clearly preserves the growth of the flow over time, with inflation features indicating pathways that were not necessarily contemporaneously active. Here, we test using statistical analysis whether this final flow morphology produces distinct distributions that can be used to readily determine the distribution of thermally preferred pathways beneath the surface of the crust.

The cyclolignan PPP induces activation loop-specific inhibition of tyrosine phosphorylation of the insulin-like growth factor-1 receptor. Link to the phosphatidyl inositol-3 kinase/Akt apoptotic pathway.

PubMed

Vasilcanu, Daiana; Girnita, Ada; Girnita, Leonard; Vasilcanu, Radu; Axelson, Magnus; Larsson, Olle

2004-10-14

The insulin-like growth factor-1 receptor (IGF-1R) is crucial for many functions in neoplastic cells, for example, antiapoptosis. Recently, we demonstrated that the cyclolignan PPP efficiently inhibited phosphorylation of IGF-1R without interfering with insulin receptor activity. PPP preferentially reduced phosphorylated Akt, as compared to phosphorylated Erk1/2, and caused apoptosis. Now, we aimed to investigate how PPP inhibits the IGF-1R tyrosine kinase (IGF-1RTK) and the PI3K/Akt apoptotic pathway. Using a baculovirus driven IGF-1RTK we found that PPP interfered with tyrosine phosphorylation in the activation loop of the kinase domain. Specifically, it blocked phosphorylation of tyrosine (Y) 1136, while sparing the two others (Y1131 and Y1135). To explore the impact of inhibition of Y1136 on Akt phosphorylation we transfected P6 cells (overexpressing IGF-1R) and malignant melanoma cells with different IGF-1R mutants, including Y1136F (tyrosine replaced by phenylalanine). Y1136F was found to strongly decrease IGF-1 stimulated phosphorylation of Akt. Conversely, Akt phosphorylation was weakly affected in the Y1131F transfectant. Taken together, our data suggest that the preferential inhibition of phosphorylated Akt, after PPP treatment, may be due to specific inhibition of Y1136. PPP was proven not to interfere directly with Akt or any of its downstream molecules in the apoptotic pathway.

Trail Marking by Caterpillars of the Silverspot Butterfly Dione Juno Huascuma

PubMed Central

Pescador-Rubio, Alfonso; Stanford-Camargo, Sergio G.; Páez-Gerardo, Luis E; Ramírez-Reyes, Alberto J.; Ibarra-Jiménez, René A.; Fitzgerald, Terrence D.

2011-01-01

A pheromone is implicated in the trail marking behavior of caterpillars of the nymphalid silverspot butterfly, Dione juno huascuma (Reakirt) (Lepidoptera: Heliconiinae) that feed gregariously on Passiflora (Malpighiales: Passifloraceae) vines in Mexico. Although they mark pathways leading from one feeding site to another with silk, this study shows that the silk was neither adequate nor necessary to elicit trail following behavior. Caterpillars marked trails with a long-lived pheromone that was deposited when they brushed the ventral surfaces of the tips of their abdomens along branch pathways. The caterpillars distinguished between pathways deposited by different numbers of siblings and between trails of different ages. Caterpillars also preferentially followed the trails of conspecifics over those of another nymphalid, Nymphalis antiopa L., the mourning cloak butterfly. PMID:21861659

Modeling of turbulent chemical reaction

NASA Technical Reports Server (NTRS)

Chen, J.-Y.

1995-01-01

Viewgraphs are presented on modeling turbulent reacting flows, regimes of turbulent combustion, regimes of premixed and regimes of non-premixed turbulent combustion, chemical closure models, flamelet model, conditional moment closure (CMC), NO(x) emissions from turbulent H2 jet flames, probability density function (PDF), departures from chemical equilibrium, mixing models for PDF methods, comparison of predicted and measured H2O mass fractions in turbulent nonpremixed jet flames, experimental evidence of preferential diffusion in turbulent jet flames, and computation of turbulent reacting flows.

Branched hybrid vessel: in vitro loaded hydrodynamic forces influence the tissue architecture.

PubMed

Kobashi, T; Matsuda, T

2000-01-01

This study was conducted to investigate how a continuous load of hydrodynamic stresses influences the tissue architecture of a branched hybrid vessel in vitro. Tubular hybrid medial tissue of small (3 mm) and large (6 mm) diameters, prepared by thermal gelation of a cold mixed solution of bovine smooth muscle cells (SMCs) and type I collagen in glass molds, was assembled into a branched hybrid medial tissue by end-to-side anastomosis. After a 2-week culture period, bovine endothelial cells (ECs) were seeded onto the luminal surface. The branched hybrid vessel was connected to a mock circulatory loop system and tested for two modes of flow: 1) low flow rate for 24 h, 2) high flow rate for 24 or 72 h. After exposure to a low flow rate for 24 h, cobblestone appearance of the ECs was dominant. After exposure to a high flow rate, EC alignment in the direction of flow was observed in the branch region, except at the region of predicted flow separation where ECs retained their polygonal configuration. Elongation of SMCs with no preferential orientation was observed in the case of vessels exposed to a high flow rate for 24 h, and circumferential orientation was prominent in those exposed to a high flow rate for 72 h. On the other hand, collagen fibrils exhibited no preferential orientation in either case. After injection of Evans blue-albumin conjugate into the circulating medium, the luminal surface of the hybrid vessel exposed to a high flow rate for 24 h was examined by confocal laser scanning microscopy. The fluorescence intensity was low at the high shear zone in the branch region, while at the flow separation region it was very high, indicating the increased albumin permeability at the latter region. These findings reflect region-specific tissue architecture in the branch region, in response to the local flow pattern, and may provide an in vitro atherosclerosis model as well as a fundamental basis for the development of functional branched hybrid grafts.

Unimpeded air velocity profiles of air-assisted five-port sprayer

USDA-ARS?s Scientific Manuscript database

A capability that relies on tree structure information to control liquid and air flow rates is the preferential design in the development of variable-rate orchard and nursery sprayers. Unimpeded air jet velocities from an air assisted, five-port sprayer in an open field were measured at four height...

Quantifying attachment and antibiotic resistance of Escherichia coli from conventional and organic swine manure

USDA-ARS?s Scientific Manuscript database

Broad spectrum antibiotics, used to treat infections in livestock, are often administered at sub-therapeutic levels in feed rations to promote growth and for prophylaxis. Previous studies have shown that bacteria preferentially attach to sediments affecting their transport in overland flow; however...

EMERGING TECHNOLOGY Summary. CROSS-FLOW PERVAPORATION FOR REMOVAL OF VOCS FROM CONTAMINATED WASTEWATER (EPA/540/SR-94/512)

EPA Science Inventory

Pervaporation is a membrane technology using & dense, nonporous polymeric film to separate contaminated water from a vacuum source. The membrane preferentially partitions the volatile organic compounds (VOC) organic phase used In this test This process has proven to be an alterna...

Using Smoke Injection in Drains to Identify Potential Preferential Pathways in a Drained Arable Field

NASA Astrophysics Data System (ADS)

Nielsen, M. H.; Petersen, C. T.; Hansen, S.

2014-12-01

Macropores forming a continuous pathway between the soil surface and subsurface drains favour the transport of many contaminants from agricultural fields to surface waters. The smoke injection method presented by Shipitalo and Gibbs (2000) used for demonstrating and quantifying such pathways has been further developed and used on a drained Danish sandy loam. In order to identify the preferential pathways to drains, smoke was injected in three 1.15 m deep tile drains (total drain length 93 m), and smoke emitting macropores (SEMP) at the soil surface were counted and characterized as producing either strong or weak plumes compared to reference plumes from 3 and 6 mm wide tubes. In the two situations investigated in the present study - an early spring and an autumn situation, smoke only penetrated the soil surface layer via earthworm burrows located in a 1.0 m wide belt directly above the drain lines. However, it is known from previous studies that desiccation fractures in a dry summer situation also can contribute to the smoke pattern. The distance between SEMP measured along the drain lines was on average 0.46 m whereas the average spacing between SEMP with strong plumes was 2.3 m. Ponded water was applied in 6 cm wide rings placed above 52 burrows including 17 reference burrows which did not emit smoke. Thirteen pathways in the soil were examined using dye tracer and profile excavation. SEMP with strong plumes marked the entrance of highly efficient transport pathways conducting surface applied water and dye tracer into the drain. However, no single burrow was traced all the way from the surface into the drain, the dye patterns branched off in a network of other macropores. Water infiltration rates were significantly higher (P < 0.05) in SEMP with strong plumes (average rate: 247 mL min-1 n = 19) compared to SEMP with weak plumes (average rate: 87 mL min-1 n = 16) and no plumes (average rate: 56 mL min-1 n = 17). The results suggest that the smoke injection method is useful for identification of potentially efficient pathways for surface applied contaminants to drains and surface waters, pathways being associated primarily with unevenly distributed SEMP producing strong smoke plumes.

Evidence for the Activation of Shallow Preferential Flow Paths in a Tropical Panama Watershed Using Germanium and Silicon

NASA Astrophysics Data System (ADS)

Gardner, Christopher B.; Litt, Guy F.; Lyons, W. Berry; Ogden, Fred L.

2017-10-01

In humid tropical watersheds, the hydrologic flow paths taken by rain event waters and how they interact with groundwater and soil matrix water to form streamflow are poorly understood. Preferential flow paths (PFPs) confound storm infiltration processes, especially in the humid tropics where PFPs are common. This work applies germanium (Ge) and silicon (Si) as natural flow path tracers in conjunction with water stable isotopes and electrical conductivity to examine the rapid delivery of shallow soil water, the activation of PFPs, and event water partitioning in an experimental catchment in central Panama. We employed a three-component mixing model for hydrograph separation using the following end-member waters: (i) base flow (high [Si], low [Ge], and low Ge/Si ratio), (ii) dilute canopy throughfall (low [Si] and low [Ge]), and (iii) shallow (<15 cm) soil matrix water (low [Si], high [Ge], and high Ge/Si ratio). These three end-members bounded all observed Ge/Si streamflow ratios. During small rain events (<˜24 mm), base flow and dilute canopy throughfall components dominated stormflow. During larger precipitation events (>˜35 mm), we detected the third shallow soil water component with an elevated [Ge] and Ge/Si ratio. This component reached its maximum during the hydrograph's receding limb coincident with the maximum event fraction, and increased proportionally to the total storm rainfall exceeding ˜35 mm. Only shallow (<15 cm) soil matrix water exhibited elevated Ge concentrations and high Ge/Si ratios. This third component represents rapidly delivered soil matrix water combined with shallow lateral PFP activation through which event waters interact with soil minerals.

The Impact of Drainage Network Structure on Flooding in a Small Urban Watershed in Metropolitan Baltimore, MD

NASA Astrophysics Data System (ADS)

Meierdiercks, K. L.; Smith, J. A.; Miller, A. J.

2006-12-01

The impact of urban development on watershed-scale hydrology is examined in a small urban watershed in the Metropolitan Baltimore area. Analyses focus on Dead Run, a 14.3 km2 tributary of the Gwynns Falls, which is the principal study watershed of the Baltimore Ecosystem Study. Field observations of rainfall and discharge have been collected for storms occurring in the 2003, 2004, and 2005 warm seasons including the flood of record for the USGS Dead Run at Franklintown gage (7 July 2004), in which 5 inches of rain fell in less than 4 hours. Dead Run has stream gages at 6 locations with drainage areas ranging from 1.2 to 14.3 km2. Hydrologic response to storm events varies greatly in each of the subwatersheds due to the diverse development types located there. These subwatersheds range in land use from medium-density residential, with and without stormwater management control, to commercial/light industrial with large impervious lots and an extensive network of stormwater management ponds. The unique response of each subwatershed is captured using field observations in conjunction with the EPA Stormwater Management Model (SWMM), which routes storm runoff over the land surface and through the drainage network of a watershed. Of particular importance to flood response is the structure of the drainage network (both surface channels and storm drain network) and its connectivity to preferential flow paths within the watershed. The Dead Run drainage network has been delineated using geospatial data derived from aerial photography and engineering planning drawings. Model analyses are used to examine the characteristics of flow paths that control flood response in urban watersheds. These analyses aim to identify patterns in urban flow pathways and use those patterns to predict response in other urban watersheds.

Natural thermal convection in fractured porous media

NASA Astrophysics Data System (ADS)

Adler, P. M.; Mezon, C.; Mourzenko, V.; Thovert, J. F.; Antoine, R.; Finizola, A.

2015-12-01

In the crust, fractures/faults can provide preferential pathways for fluid flow or act as barriers preventing the flow across these structures. In hydrothermal systems (usually found in fractured rock masses), these discontinuities may play a critical role at various scales, controlling fluid flows and heat transfer. The thermal convection is numerically computed in 3D fluid satured fractured porous media. Fractures are inserted as discrete objects, randomly distributed over a damaged volume, which is a fraction of the total volume. The fluid is assumed to satisfy Darcy's law in the fractures and in the porous medium with exchanges between them. All simulations were made for Rayleigh numbers (Ra) < 150 (hence, the fluid is in thermal equilibrium with the medium), cubic boxes and closed-top conditions. Checks were performed on an unfractured porous medium and the convection cells do start for the theoretical value of Ra, namely 4p². 2D convection was verified up to Ra=800. The influence of parameters such as fracture aperture (or fracture transmissivity), fracture density and fracture length is studied. Moreover, these models are compared to porous media with the same macroscopic permeability. Preliminary results show that the non-uniqueness associated with initial conditions which makes possible either 2D or 3D convection in porous media (Schubert & Straus 1979) is no longer true for fractured porous media (at least for 50

Pore‐Scale Hydrodynamics in a Progressively Bioclogged Three‐Dimensional Porous Medium: 3‐D Particle Tracking Experiments and Stochastic Transport Modeling

PubMed Central

Carrel, M.; Dentz, M.; Derlon, N.; Morgenroth, E.

2018-01-01

Abstract Biofilms are ubiquitous bacterial communities that grow in various porous media including soils, trickling, and sand filters. In these environments, they play a central role in services ranging from degradation of pollutants to water purification. Biofilms dynamically change the pore structure of the medium through selective clogging of pores, a process known as bioclogging. This affects how solutes are transported and spread through the porous matrix, but the temporal changes to transport behavior during bioclogging are not well understood. To address this uncertainty, we experimentally study the hydrodynamic changes of a transparent 3‐D porous medium as it experiences progressive bioclogging. Statistical analyses of the system's hydrodynamics at four time points of bioclogging (0, 24, 36, and 48 h in the exponential growth phase) reveal exponential increases in both average and variance of the flow velocity, as well as its correlation length. Measurements for spreading, as mean‐squared displacements, are found to be non‐Fickian and more intensely superdiffusive with progressive bioclogging, indicating the formation of preferential flow pathways and stagnation zones. A gamma distribution describes well the Lagrangian velocity distributions and provides parameters that quantify changes to the flow, which evolves from a parallel pore arrangement under unclogged conditions, toward a more serial arrangement with increasing clogging. Exponentially evolving hydrodynamic metrics agree with an exponential bacterial growth phase and are used to parameterize a correlated continuous time random walk model with a stochastic velocity relaxation. The model accurately reproduces transport observations and can be used to resolve transport behavior at intermediate time points within the exponential growth phase considered. PMID:29780184

Pore-Scale Hydrodynamics in a Progressively Bioclogged Three-Dimensional Porous Medium: 3-D Particle Tracking Experiments and Stochastic Transport Modeling

NASA Astrophysics Data System (ADS)

Carrel, M.; Morales, V. L.; Dentz, M.; Derlon, N.; Morgenroth, E.; Holzner, M.

2018-03-01

Biofilms are ubiquitous bacterial communities that grow in various porous media including soils, trickling, and sand filters. In these environments, they play a central role in services ranging from degradation of pollutants to water purification. Biofilms dynamically change the pore structure of the medium through selective clogging of pores, a process known as bioclogging. This affects how solutes are transported and spread through the porous matrix, but the temporal changes to transport behavior during bioclogging are not well understood. To address this uncertainty, we experimentally study the hydrodynamic changes of a transparent 3-D porous medium as it experiences progressive bioclogging. Statistical analyses of the system's hydrodynamics at four time points of bioclogging (0, 24, 36, and 48 h in the exponential growth phase) reveal exponential increases in both average and variance of the flow velocity, as well as its correlation length. Measurements for spreading, as mean-squared displacements, are found to be non-Fickian and more intensely superdiffusive with progressive bioclogging, indicating the formation of preferential flow pathways and stagnation zones. A gamma distribution describes well the Lagrangian velocity distributions and provides parameters that quantify changes to the flow, which evolves from a parallel pore arrangement under unclogged conditions, toward a more serial arrangement with increasing clogging. Exponentially evolving hydrodynamic metrics agree with an exponential bacterial growth phase and are used to parameterize a correlated continuous time random walk model with a stochastic velocity relaxation. The model accurately reproduces transport observations and can be used to resolve transport behavior at intermediate time points within the exponential growth phase considered.

Delineation of Groundwater Flow Pathway in Fractured Bedrock Using Nano-Iron Tracer Test in the Sealed Well

NASA Astrophysics Data System (ADS)

Chuang, Po-Yu; Chia, Yeeping; Chiu, Yung-Chia; Liou, Ya-Hsuan; Teng, Mao-Hua; Liu, Ching-Yi; Lee, Tsai-Ping

2016-04-01

Deterministic delineation of the preferential flow paths and their hydraulic properties are desirable for developing hydrogeological conceptual models in bedrock aquifers. In this study, we proposed using nanoscale zero-valent iron (nZVI) as a tracer to characterize the fractured connectivity and hydraulic properties. Since nZVI particles are magnetic, we designed a magnet array to attract the arriving nZVI particles in the observation well for identifying the location of incoming tracer. This novel approach was examined at two experiment wells with well hydraulic connectivity in a hydrogeological research station in the fractured aquifer. Heat-pulse flowmeter test was used to detect the vertical distribution of permeable zones in the borehole, providing the design basis of tracer test. Then, the less permeable zones in the injection well were sealed by casing to prevent the injected nZVI particles from being stagnated at the bottom hole. Afterwards, hydraulic test was implemented to examine the hydraulic connectivity between two wells. When nZVI slurry was released in the injection well, they could migrate through connected permeable fractures to the observation well. A breakthrough curve was obtained by the fluid conductivity sensor in the observation well, indicating the arrival of nZVI slurry. The iron nanoparticles that were attracted to the magnets in the observation well provide the quantitative information to locate the position of tracer inlet, which corroborates well with the depth of a permeable zone delineated by the flowmeter. Finally, the numerical method was utilized to simulate the process of tracer migration. This article demonstrates that nano-iron tracer test can be a promising approach for characterizing connectivity patterns and transmissivities of the flow paths in the fractured rock.

Earthworms and tree roots: A model study of the effect of preferential flow paths on runoff generation and groundwater recharge in steep, saprolitic, tropical lowland catchments

NASA Astrophysics Data System (ADS)

Cheng, Yanyan; Ogden, Fred L.; Zhu, Jianting

2017-07-01

Preferential flow paths (PFPs) affect the hydrological response of humid tropical catchments but have not received sufficient attention. We consider PFPs created by tree roots and earthworms in a near-surface soil layer in steep, humid, tropical lowland catchments and hypothesize that observed hydrological behaviors can be better captured by reasonably considering PFPs in this layer. We test this hypothesis by evaluating the performance of four different physically based distributed model structures without and with PFPs in different configurations. Model structures are tested both quantitatively and qualitatively using hydrological, geophysical, and geochemical data both from the Smithsonian Tropical Research Institute Agua Salud Project experimental catchment(s) in Central Panama and other sources in the literature. The performance of different model structures is evaluated using runoff Volume Error and three Nash-Sutcliffe efficiency measures against observed total runoff, stormflows, and base flows along with visual comparison of simulated and observed hydrographs. Two of the four proposed model structures which include both lateral and vertical PFPs are plausible, but the one with explicit simulation of PFPs performs the best. A small number of vertical PFPs that fully extend below the root zone allow the model to reasonably simulate deep groundwater recharge, which plays a crucial role in base flow generation. Results also show that the shallow lateral PFPs are the main contributor to the observed high flow characteristics. Their number and size distribution are found to be more important than the depth distribution. Our model results are corroborated by geochemical and geophysical observations.

Surfactant and pulmonary blood flow distributions following treatment of premature lambs with natural surfactant.

PubMed Central

Jobe, A; Ikegami, M; Jacobs, H; Jones, S

1984-01-01

Prematurely delivered lambs were treated with radiolabeled natural surfactant by either tracheal instillation at birth and before the onset of mechanical ventilation, or after 23 +/- 1 (+/- SE) min of mechanical ventilation. Right ventricular blood flow distributions, left ventricular outputs, and left-to-right ductal shunts were measured with radiolabeled microspheres. After sacrifice, the lungs of lambs receiving surfactant at birth inflated uniformly with constant distending pressure while the lungs of lambs treated after a period of ventilation had aerated, partially aerated, and atelectatic areas. All lungs were divided into pieces which were weighed and catalogued as to location. The amount of radiolabeled surfactant and microsphere-associated radioactivity in each piece of lung was quantified. Surfactant was relatively homogenously distributed to pieces of lung from lambs that were treated with surfactant at birth; 48% of lung pieces received amounts of surfactant within +/- 25% of the mean value. Surfactant was preferentially recovered from the aerated pieces of lungs of lambs treated after a period of mechanical ventilation, and the distribution of surfactant to these lungs was very nonhomogeneous. Right ventricular blood flow distributions to the lungs were quite homogeneous in both groups of lambs. However, in 8 of 12 lambs, pulmonary blood flow was preferentially directed away from those pieces of lung that received relatively large amounts of surfactant and toward pieces of lung that received less surfactant. This acute redirection of pulmonary blood flow distribution may result from the local changes in compliances within the lung following surfactant instillation. PMID:6546766

a Matlab Toolbox for Basin Scale Fluid Flow Modeling Applied to Hydrology and Geothermal Energy

NASA Astrophysics Data System (ADS)

Alcanie, M.; Lupi, M.; Carrier, A.

2017-12-01

Recent boosts in the development of geothermal energy were fostered by the latest oil crises and by the need of reducing CO2 emissions generated by the combustion of fossil fuels. Various numerical codes (e.g. FEHM, CSMP++, HYDROTHERM, TOUGH) have thus been implemented for the simulation and quantification of fluid flow in the upper crust. One possible limitation of such codes is the limited accessibility and the complex structure of the simulators. For this reason, we began to develop a Hydrothermal Fluid Flow Matlab library as part of MRST (Matlab Reservoir Simulation Toolbox). MRST is designed for the simulation of oil and gas problems including carbon capture storage. However, a geothermal module is still missing. We selected the Geneva Basin as a natural laboratory because of the large amount of data available in the region. The Geneva Basin has been intensely investigated in the past with exploration wells, active seismic and gravity surveys. In addition, the energy strategy of Switzerland promotes the development of geothermal energy that lead to recent geophysical prospections. Previous and ongoing projects have shown the geothermal potential of the Geneva Basin but a consistent fluid flow model assessing the deep circulation in the region is yet to be defined. The first step of the study was to create the basin-scale static model. We integrated available active seismic, gravity inversions and borehole data to describe the principal geologic and tectonic features of the Geneva Basin. Petrophysical parameters were obtained from available and widespread well logs. This required adapting MRST to standard text format file imports and outline a new methodology for quick static model creation in an open source environment. We implemented several basin-scale fluid flow models to test the effects of petrophysical properties on the circulation dynamics of deep fluids in the Geneva Basin. Preliminary results allow the identification of preferential fluid flow pathways, which are critical information to define geothermal exploitation locations. The next step will be the implementation of the equation of state for pure water, CO2 - H2O and H2O - CH4 fluid mixtures.

Preferential Concentration Of Solid Particles In Turbulent Horizontal Circular Pipe Flow

NASA Astrophysics Data System (ADS)

Kim, Jaehee; Yang, Kyung-Soo

2017-11-01

In particle-laden turbulent pipe flow, turbophoresis can lead to a preferential concentration of particles near the wall. To investigate this phenomenon, one-way coupled Direct Numerical Simulation (DNS) has been performed. Fully-developed turbulent pipe flow of the carrier fluid (air) is at Reτ = 200 based on the pipe radius and the mean friction velocity, whereas the Stokes numbers of the particles (solid) are St+ = 0.1 , 1 , 10 based on the mean friction velocity and the kinematic viscosity of the fluid. The computational domain for particle simulation is extended along the axial direction by duplicating the domain of the fluid simulation. By doing so, particle statistics in the spatially developing region as well as in the fully-developed region can be obtained. Accumulation of particles has been noticed at St+ = 1 and 10 mostly in the viscous sublayer, more intensive in the latter case. Compared with other authors' previous results, our results suggest that drag force on the particles should be computed by using an empirical correlation and a higher-order interpolation scheme even in a low-Re regime in order to improve the accuracy of particle simulation. This work was supported by the National Research Foundation of Korea (NRF) Grant funded by the Korea government (MSIP) (No. 2015R1A2A2A01002981).

Identification of runoff formation with two dyes in a mid-latitude mountain headwater

NASA Astrophysics Data System (ADS)

Vlcek, Lukas; Schneider, Philipp; Falatkova, Kristyna

2017-04-01

There have been numerous studies on subsurface flow in peat bog areas, as both water scarcity and floods have led to increased attention to this specific environment and its role within the hydrological cycle. In contrast, this experimental study identifies runoff formation at two opposite hillslopes in a peaty mountain headwater; a slope with organic soils (Peat / Histosol) and shallow groundwater ( 0.5 m below surface) complemented by a slope with mineral soils (Podzol) and no detectable groundwater within 2 m below surface. Differences in infiltration, percolation, and preferential flowpaths between both hillslopes could be identified by sprinkling experiments with two dyes - Brilliant Blue FCF and Fluorescein. By excavating dye-stained soil profiles parallel ("lateral") and perpendicular ("frontal") to the slopes' gradients - both within and downstream of the sprinkling plots - dye stained flow patterns in the soil could be clearly identified. The results show that biomat flow occurred at both hillslopes. The dye solutions infiltrated into the soil and continued either as lateral subsurface pipeflow (SSF), in the case of the Peat Bog, or percolated vertically towards the bedrock in the case of the Podzol. The study provides evidence that biomat flow (BMF) - shallow, lateral preferential flowpaths along decomposed tree roots or logs - is a major runoff formation process at the Peat Bog hillslope and in the adjacent riparian zone. This lateral flow through the organic soil hillslope (Peat Bog) towards the stream occurred mainly as shallow subsurface flow in organic layers above the groundwater level (BMF and SSF), but water partly percolates to the shallow groundwater via vertical macropores as well . In contrast, the mineral soil hillslope (Podzol) was mostly dominated by vertical percolation. Lateral flow occurred only on short distances in the organic topsoil as biomat flow (BMF). The sorptive tracer Brilliant Blue FCF successfully stained flowpaths in the soil at both hillslopes, whereas the identification of soil staining patterns by the relatively conservative tracer Fluorescein was limited on organic soil profiles.

Lysimeter study to investigate the effect of rainfall patterns on leaching of isoproturon.

PubMed

Beulke, Sabine; Brown, Colin D; Fryer, Christopher J; Walker, Allan

2002-01-01

The influence of five rainfall treatments on water and solute leaching through two contrasting soil types was investigated. Undisturbed lysimeters (diameter 0.25 m, length 0.5 m) from a sandy loam (Wick series) and a moderately structured clay loam (Hodnet series) received autumn applications of the radio-labelled pesticide isoproturon and bromide tracer. Target rainfall plus irrigation from the end of November 1997 to May 1998 ranged from drier to wetter than average (235 to 414 mm); monthly rainfall was varied according to a pre-selected pattern or kept constant (triplicate lysimeters per regime). Leachate was collected at intervals and concentrations of the solutes were determined. Total flow (0.27-0.94 pore volumes) and losses of bromide (3-80% of applied) increased with increasing inputs of water and were larger from the Wick sandy loam than from the Hodnet clay loam soil. Matrix flow appeared to be the main mechanism for transport of isoproturon through the Wick soil whereas there was a greater influence of preferential flow for the Hodnet lysimeters. The total leached load of isoproturon from the Wick lysimeters was 0.02-0.26% of that applied. There was no clear variation in transport processes between the rainfall treatments investigated for this soil and there was an approximately linear relationship (r2 = 0.81) between leached load and total flow. Losses of isoproturon from the Hodnet soil were 0.03-0.39% of applied and there was evidence of enhanced preferential flow in the driest and wettest treatments. Leaching of isoproturon was best described by an exponential relationship between load and total flow (r2 = 0.62). A 45% increase in flow between the two wettest treatments gave a 100% increase in leaching of isoproturon from the Wick soil. For the Hodnet lysimeters, a 35% increase in flow between the same treatments increased herbicide loss by 325%.

Left-right asymmetry: cilia stir up new surprises in the node.

PubMed

Babu, Deepak; Roy, Sudipto

2013-05-29

Cilia are microtubule-based hair-like organelles that project from the surface of most eukaryotic cells. They play critical roles in cellular motility, fluid transport and a variety of signal transduction pathways. While we have a good appreciation of the mechanisms of ciliary biogenesis and the details of their structure, many of their functions demand a more lucid understanding. One such function, which remains as intriguing as the time when it was first discovered, is how beating cilia in the node drive the establishment of left-right asymmetry in the vertebrate embryo. The bone of contention has been the two schools of thought that have been put forth to explain this phenomenon. While the 'morphogen hypothesis' believes that ciliary motility is responsible for the transport of a morphogen preferentially to the left side, the 'two-cilia model' posits that the motile cilia generate a leftward-directed fluid flow that is somehow sensed by the immotile sensory cilia on the periphery of the node. Recent studies with the mouse embryo argue in favour of the latter scenario. Yet this principle may not be generally conserved in other vertebrates that use nodal flow to specify their left-right axis. Work with the teleost fish medaka raises the tantalizing possibility that motility as well as sensory functions of the nodal cilia could be residing within the same organelle. In the end, how ciliary signalling is transmitted to institute asymmetric gene expression that ultimately induces asymmetric organogenesis remains unresolved.

Left–right asymmetry: cilia stir up new surprises in the node

PubMed Central

Babu, Deepak; Roy, Sudipto

2013-01-01

Cilia are microtubule-based hair-like organelles that project from the surface of most eukaryotic cells. They play critical roles in cellular motility, fluid transport and a variety of signal transduction pathways. While we have a good appreciation of the mechanisms of ciliary biogenesis and the details of their structure, many of their functions demand a more lucid understanding. One such function, which remains as intriguing as the time when it was first discovered, is how beating cilia in the node drive the establishment of left–right asymmetry in the vertebrate embryo. The bone of contention has been the two schools of thought that have been put forth to explain this phenomenon. While the ‘morphogen hypothesis’ believes that ciliary motility is responsible for the transport of a morphogen preferentially to the left side, the ‘two-cilia model’ posits that the motile cilia generate a leftward-directed fluid flow that is somehow sensed by the immotile sensory cilia on the periphery of the node. Recent studies with the mouse embryo argue in favour of the latter scenario. Yet this principle may not be generally conserved in other vertebrates that use nodal flow to specify their left–right axis. Work with the teleost fish medaka raises the tantalizing possibility that motility as well as sensory functions of the nodal cilia could be residing within the same organelle. In the end, how ciliary signalling is transmitted to institute asymmetric gene expression that ultimately induces asymmetric organogenesis remains unresolved. PMID:23720541

Pattern of solute movement from snow into an upper Michigan stream

USGS Publications Warehouse

Stottlemyer, R.; Toczydlowski, D.

1990-01-01

Precipitation, snowpack, snowmelt, and streamwater samples were collected in a small gauged watershed draining into Lake Superior during winter 1987–88 to assess the importance of snowmelt pattern and meltwater pathways in the occurrence of solute pulses in streamwater. The snowpack along the south shore of Lake Superior can contain 50% of annual precipitation inputs and 38% of annual ionic inputs including moderate levels of strong acids. Throughout winter, thawed surface soils and small but steady snowpack moisture release promoted movement of snowpack solutes to surface mineral soils. Preferential elution of K+, NH4+, and H+ from the snowpack occurred with the initial thaw. Most ions exhibited pulses in snowmelt. Transport of snowpack solutes to the stream during snowmelt was through near-surface soil macropores and overland flow. For those ions with concentrations higher in the snowpack than in the premelt streamwater, K+, NH4+, and H+, the earliest snowmelt pulses had the greatest influence on streamwater chemistry. Unlike other portions of the region with resistant bedrock, the widespread presence of alkaline glacial till provides excess stream acid neutralization capacity (ANC) to buffer acidic inputs. Peak winter streamwater ANC reduction was caused principally by spring melt dilution of base cations and associated alkalinity, constant high SO42- levels, and an increase in NO3-. The maximum reduction in stream ANC was concurrent with overland flow. Relative to its snowmelt concentration, NO3- was highest in streamwater with some stream input likely the result of nitrification and N mineralization.

Influence of root-water-uptake parameterization on simulated heat transport in a structured forest soil

NASA Astrophysics Data System (ADS)

Votrubova, Jana; Vogel, Tomas; Dohnal, Michal; Dusek, Jaromir

2015-04-01

Coupled simulations of soil water flow and associated transport of substances have become a useful and increasingly popular tool of subsurface hydrology. Quality of such simulations is directly affected by correctness of its hydraulic part. When near-surface processes under vegetation cover are of interest, appropriate representation of the root water uptake becomes essential. Simulation study of coupled water and heat transport in soil profile under natural conditions was conducted. One-dimensional dual-continuum model (S1D code) with semi-separate flow domains representing the soil matrix and the network of preferential pathways was used. A simple root water uptake model based on water-potential-gradient (WPG) formulation was applied. As demonstrated before [1], the WPG formulation - capable of simulating both the compensatory root water uptake (in situations when reduced uptake from dry layers is compensated by increased uptake from wetter layers), and the root-mediated hydraulic redistribution of soil water - enables simulation of more natural soil moisture distribution throughout the root zone. The potential effect on heat transport in a soil profile is the subject of the present study. [1] Vogel T., M. Dohnal, J. Dusek, J. Votrubova, and M. Tesar. 2013. Macroscopic modeling of plant water uptake in a forest stand involving root-mediated soil-water redistribution. Vadose Zone Journal, 12, 10.2136/vzj2012.0154. The research was supported by the Czech Science Foundation Project No. 14-15201J.

Oncolytic reovirus preferentially induces apoptosis in KRAS mutant colorectal cancer cells, and synergizes with irinotecan

PubMed Central

Maitra, Radhashree; Seetharam, Raviraja; Tesfa, Lydia; Augustine, Titto A.; Klampfer, Lidija; Coffey, Matthew C.; Mariadason, John M.; Goel, Sanjay

2014-01-01

Reovirus is a double stranded RNA virus, with an intrinsic preference for replication in KRAS mutant cells. As 45% of human colorectal cancers (CRC) harbor KRAS mutations, we sought to investigate its efficacy in KRAS mutant CRC cells, and examine its impact in combination with the topoisimerase-1 inhibitor, irinotecan. Reovirus efficacy was examined in the KRAS mutant HCT116, and the isogenic KRAS WT Hke3 cell line, and in the non-malignant rat intestinal epithelial cell line. Apoptosis was determined by flow cytometry and TUNEL staining. Combination treatment with reovirus and irintoecan was investigated in 15 CRC cell lines, including the HCT116 p21 isogenic cell lines. Reovirus preferentially induced apoptosis in KRAS mutant HCT116 cells compared to its isogenic KRAS WT derivative, and in KRAS mutant IEC cells. Reovirus showed a greater degree of caspase 3 activation with PARP 1 cleavage, and preferential inhibition of p21 protein expression in KRAS mutant cells. Reovirus synergistically induced growth inhibition when combined with irinotecan. This synergy was lost upon p21 gene knock out. Reovirus preferentially induces apoptosis in KRAS mutant colon cancer cells. Reovirus and irinotecan combination therapy is synergistic, p21 mediated, and represents a novel potential treatment for patients with CRC. PMID:24798549

Can earthquake fissures predispose hillslopes to landslides? - Evidence from Central and East Asia

NASA Astrophysics Data System (ADS)

Sidle, Roy C.; Gomi, Takashi; Rajapbaev, Muslim; Chyngozhoev, Nurstan

2017-04-01

Factors affecting earthquake-initiated landslides include earthquake magnitude, focal depth, and seismic wave propagation and attenuation. In contrast to rainfall-initiated landslides, earthquake-induced landslides often occur on convex slopes and near ridgelines. Here we present evidence from Fergana Basin, Kyrgyzstan and Kumamoto, Japan on how fissures developed during earthquakes may promote subsequent initiation of rainfall-triggered landslides. More than 1800 recent major landslides in hilly terrain and soft sediments of the Fergana Basin have been largely attributed to accumulation of heavy rainfall and snowmelt. While no large earthquakes have occurred in the Fergana Basin, smaller earthquakes have generated fissures near ridgelines and on convex slopes. The connection of fissures, developed years or decades before slope failure, with preferential transport of rainwater and runoff into the soil has not been previously investigated. Fissures have been observed to expand with time, particularly during subsequent minor earthquakes, further promoting preferential infiltration. Because the soil mantle does not have large contrasts in permeability that would define a slip plane for landslides, it appears that the position and depth of these fissures may control the location and depth of failures. Zones in the soil where surficial inputs of water are preferentially transported, augment natural subsurface accumulation of antecedent rainfall. Many landslides in the eastern Fergana Basin occur after several months of accumulated precipitation and groundwater has been observed emerging on critical hillside locations (near ridgelines and on convex slopes) prior to slope failure. During the 2016 Kumamoto Earthquake (M 7.3), many landslides were triggered in forest and grassland hillslopes near Mount Aso. All of these earthquakes were shallow (focal depths about 10 km), causing high shaking intensity and ground rupturing. Because soils were relatively dry during these earthquakes, occurrence of debris flows was limited. Instead, most landslides travelled limited distances and consisted of ruptured soil blocks. Large, parallel fissures developed along ridgelines and convex slopes, providing opportunities for preferential flow to initiate mass wasting during later heavy rainfalls. The progressive deterioration of ridgelines could change future catchment drainage patterns. Additionally, sediment accumulated in headwater channels from the initial earthquake-triggered landslides may mobilize as devastating debris flows after additional sediment loading during a large storm. As such, cascading effects of prior earthquakes on later mass wasting appear evident in both regions.

A novel physical eco-hydrological model concept for preferential flow based on experimental applications.

NASA Astrophysics Data System (ADS)

Jackisch, Conrad; van Schaik, Loes; Graeff, Thomas; Zehe, Erwin

2014-05-01

Preferential flow through macropores often determines hydrological characteristics - especially regarding runoff generation and fast transport of solutes. Macropore settings may yet be very different in nature and dynamics, depending on their origin. While biogenic structures follow activity cycles (e.g. earth worms) and population conditions (e.g. roots), pedogenic and geogenic structures may depend on water stress (e.g. cracks) or large events (e.g. flushed voids between skeleton and soil pipes) or simply persist (e.g. bedrock interface). On the one hand, such dynamic site characteristics can be observed in seasonal changes in its reaction to precipitation. On the other hand, sprinkling experiments accompanied by tracers or time-lapse 3D Ground-Penetrating-Radar are suitable tools to determine infiltration patterns and macropore configuration. However, model representation of the macropore-matrix system is still problematic, because models either rely on effective parameters (assuming well-mixed state) or on explicit advection strongly simplifying or neglecting interaction with the diffusive flow domain. Motivated by the dynamic nature of macropores, we present a novel model approach for interacting diffusive and advective water, solutes and energy transport in structured soils. It solely relies on scale- and process-aware observables. A representative set of macropores (data from sprinkling experiments) determines the process model scale through 1D advective domains. These are connected to a 2D matrix domain which is defined by pedo-physical retention properties. Water is represented as particles. Diffusive flow is governed by a 2D random walk of these particles while advection may take place in the macropore domain. Macropore-matrix interaction is computed as dissipation of the advective momentum of a particle by its experienced drag from the matrix domain. Through a representation of matrix and macropores as connected diffusive and advective domains for water transport we open up double domain concepts linking porescale physics to preferential macroscale fingerprints without effective parameterisation or mixing assumptions. Moreover, solute transport, energy balance aspects and lateral heterogeneity in soil moisture distribution are intrinsically captured. In addition, macropore and matrix domain settings may change over time based on physical and stochastic observations. The representativity concept allows scaleability from plotscale to the lower mesoscale.

Influence of macroporosity on preferential solute and colloid transport in unsaturated field soils.

PubMed

Cey, Edwin E; Rudolph, David L; Passmore, Joanna

2009-06-26

Transport of solutes and colloids in soils, particularly those subject to preferential flow along macropores, is important for assessing the vulnerability of shallow groundwater to contamination. The objective of this study was to investigate flow and transport phenomena for dissolved and colloid tracers during large infiltration events in partially saturated, macroporous soils. Controlled tracer infiltration tests were completed at two field sites in southern Ontario. A tension infiltrometer (TI) was used to infiltrate water with dissolved Brilliant Blue FCF dye simultaneously with 3.7 microm and 0.53 microm diameter fluorescent microspheres. Infiltration was conducted under maximum infiltration pressure heads ranging from -5.2 to -0.4 cm. All infiltration test sites were excavated to examine and photograph dye-stained flow patterns, map soil features, and collect samples for microsphere enumeration. Results indicated that preferential transport of dye and microspheres via macropores occurred when maximum pressure heads were greater than -3.0 cm, and the corresponding infiltration rates exceeded 2.0 cm h(-1). Dye and microspheres were detected at depths greater than 70 cm under the highest infiltration rates from both sites. Microsphere concentrations in the top 5-10 cm of soil decreased by more than two orders of magnitude relative to input concentrations, yet remained relatively constant with depth thereafter. There was some evidence for increased retention of the 3.7 microm microspheres relative to the 0.53 microm microspheres, particularly at lower infiltration pressures where straining and attachment mechanisms are most prevalent. Microspheres were observed within dye stained soil matrix surrounding individual macropores, illustrating the significance of capillary pressures in controlling the vertical migration of both tracers in the vicinity of the macropores. Overall, microsphere distributions closely followed the dye patterns, with microsphere concentrations at all depths directly related to the intensity (or concentration) of dye staining. It is concluded that the flow system influenced transport to a much greater degree than differences between dissolved and colloidal species, and hence a dye tracer could serve as a reasonable surrogate for colloid distributions in the vadose zone following individual infiltration events.

On-line metabolic pathway analysis based on metabolic signal flow diagram.

PubMed

Shi, H; Shimizu, K

In this work, an integrated modeling approach based on a metabolic signal flow diagram and cellular energetics was used to model the metabolic pathway analysis for the cultivation of yeast on glucose. This approach enables us to make a clear analysis of the flow direction of the carbon fluxes in the metabolic pathways as well as of the degree of activation of a particular pathway for the synthesis of biomaterials for cell growth. The analyses demonstrate that the main metabolic pathways of Saccharomyces cerevisiae change significantly during batch culture. Carbon flow direction is toward glycolysis to satisfy the increase of requirement for precursors and energy. The enzymatic activation of TCA cycle seems to always be at normal level, which may result in the overflow of ethanol due to its limited capacity. The advantage of this approach is that it adopts both virtues of the metabolic signal flow diagram and the simple network analysis method, focusing on the investigation of the flow directions of carbon fluxes and the degree of activation of a particular pathway or reaction loop. All of the variables used in the model equations were determined on-line; the information obtained from the calculated metabolic coefficients may result in a better understanding of cell physiology and help to evaluate the state of the cell culture process. Copyright 1998 John Wiley & Sons, Inc.

Assessing the vulnerability of a municipal well field to contamination in a karst aquifer

USGS Publications Warehouse

Renken, R.A.; Cunningham, K.J.; Zygnerski, M.R.; Wacker, M.A.; Shapiro, A.M.; Harvey, R.W.; Metge, D.W.; Osborn, C.L.; Ryan, J.N.

2005-01-01

Proposed expansion of extractive lime-rock mines near the Miami-Dade County Northwest well field and Everglades wetland areas has garnered intense scrutiny by government, public, environmental stakeholders, and the media because of concern that mining will increase the risk of pathogen contamination. Rock mines are excavated to the same depth as the well field's primary producing zone. The underlying karst Biscayne aquifer is a triple-porosity system characterized by (1) a matrix of interparticle porosity and separate vug porosity; (2) touching-vug porosity that forms preferred, stratiform passageways; and, less commonly, (3) conduit porosity formed by thin solution pipes, bedding-plane vugs, and cavernous vugs. Existing ground-water flow and particle tracking models do not provide adequate information regarding the ability the aquifer to limit the advective movement of pathogens and other contaminants. Chemical transport and colloidal mobility properties have been delineated using conservative and microsphere-surrogate tracers for Cryptosporidium parvum. Forced-gradient tests were executed by introducing conservative tracers into injection wells located 100 m (328 ft) from a municipal-supply well. Apparent mean advective velocity between the wells is one to two orders of magnitude greater than previously measured. Touching-vug, stratiform flow zones are efficient pathways for tracer movement at the well field. The effective porosity for a continuum model between the point of injection and tracer recovery ranges from 2 to 4 percent and is an order of magnitude smaller than previously assumed. Existing well-field protection zones were established using porosity estimates based on specific yield. The effective, or kinematic, porosity of a Biscayne aquifer continuum model is lower than the total porosity, because high velocities occur along preferential flow paths that result in faster times of travel than can be represented with the ground-water flow equation. Tracer tests indicate that the relative ease of contaminant movement to municipal supply wells is much greater than previously considered.

Numerical simulation on ferrofluid flow in fractured porous media based on discrete-fracture model

NASA Astrophysics Data System (ADS)

Huang, Tao; Yao, Jun; Huang, Zhaoqin; Yin, Xiaolong; Xie, Haojun; Zhang, Jianguang

2017-06-01

Water flooding is an efficient approach to maintain reservoir pressure and has been widely used to enhance oil recovery. However, preferential water pathways such as fractures can significantly decrease the sweep efficiency. Therefore, the utilization ratio of injected water is seriously affected. How to develop new flooding technology to further improve the oil recovery in this situation is a pressing problem. For the past few years, controllable ferrofluid has caused the extensive concern in oil industry as a new functional material. In the presence of a gradient in the magnetic field strength, a magnetic body force is produced on the ferrofluid so that the attractive magnetic forces allow the ferrofluid to be manipulated to flow in any desired direction through the control of the external magnetic field. In view of these properties, the potential application of using the ferrofluid as a new kind of displacing fluid for flooding in fractured porous media is been studied in this paper for the first time. Considering the physical process of the mobilization of ferrofluid through porous media by arrangement of strong external magnetic fields, the magnetic body force was introduced into the Darcy equation and deals with fractures based on the discrete-fracture model. The fully implicit finite volume method is used to solve mathematical model and the validity and accuracy of numerical simulation, which is demonstrated through an experiment with ferrofluid flowing in a single fractured oil-saturated sand in a 2-D horizontal cell. At last, the water flooding and ferrofluid flooding in a complex fractured porous media have been studied. The results showed that the ferrofluid can be manipulated to flow in desired direction through control of the external magnetic field, so that using ferrofluid for flooding can raise the scope of the whole displacement. As a consequence, the oil recovery has been greatly improved in comparison to water flooding. Thus, the ferrofluid flooding is a large potential method for enhanced oil recovery in the future.

"Physically-based" numerical experiment to determine the dominant hillslope processes during floods?

NASA Astrophysics Data System (ADS)

Gaume, Eric; Esclaffer, Thomas; Dangla, Patrick; Payrastre, Olivier

2016-04-01

To study the dynamics of hillslope responses during flood event, a fully coupled "physically-based" model for the combined numerical simulation of surface runoff and underground flows has been developed. A particular attention has been given to the selection of appropriate numerical schemes for the modelling of both processes and of their coupling. Surprisingly, the most difficult question to solve, from a numerical point of view, was not related to the coupling of two processes with contrasted kinetics such as surface and underground flows, but to the high gradient infiltration fronts appearing in soils, source of numerical diffusion, instabilities and sometimes divergence. The model being elaborated, it has been successfully tested against results of high quality experiments conducted on a laboratory sandy slope in the early eighties, which is still considered as a reference hillslope experimental setting (Abdul & Guilham). The model appeared able to accurately simulate the pore pressure distributions observed in this 1.5 meter deep and wide laboratory hillslope, as well as its outflow hydrograph shapes and the measured respective contributions of direct runoff and groundwater to these outflow hydrographs. Based on this great success, the same model has been used to simulate the response of a theoretical 100-meter wide and 10% sloped hillslope, with a 2 meter deep pervious soil and impervious bedrock. Three rain events have been tested: a 100 millimeter rainfall event over 10 days, over 1 day or over one hour. The simulated responses are hydrologically not realistic and especially the fast component of the response, that is generally observed in the real-world and explains flood events, is almost absent of the simulated response. Thinking a little about the whole problem, the simulation results appears totally logical according to the proposed model. The simulated response, in fact a recession hydrograph, corresponds to a piston flow of a relatively uniformly saturated hillslope leading to a constant discharge over several days. Some ingredients are clearly missing in the proposed model to reproduce hydrologically sensible responses. Heterogeneities are necessary to generate a variety of residence times and especially preferential flows must clearly be present to generate the fast component of hillslope responses. The importance of preferential flows in hillslope hydrology has been confirmed since this reported failure by several hillslope field experiments. We let also the readers draw their own conclusions about the numerous numerical models, that look very much alike the model proposed here, even if generally much more simplified, but representing the watersheds as much too homogeneous neglecting heterogeneities and preferential flows and pretending to be "physically based"…

Hydrodynamic clustering of droplets in turbulence

NASA Astrophysics Data System (ADS)

Kunnen, Rudie; Yavuz, Altug; van Heijst, Gertjan; Clercx, Herman

2017-11-01

Small, inertial particles are known to cluster in turbulent flows: particles are centrifuged out of eddies and gather in the strain-dominated regions. This so-called preferential concentration is reflected in the radial distribution function (RDF; a quantitative measure of clustering). We study clustering of water droplets in a loudspeaker-driven turbulence chamber. We track the motion of droplets in 3D and calculate the RDF. At moderate scales (a few Kolmogorov lengths) we find the typical power-law scaling of preferential concentration in the RDF. However, at even smaller scales (a few droplet diameters), we encounter a hitherto unobserved additional clustering. We postulate that the additional clustering is due to hydrodynamic interactions, an effect which is typically disregarded in modeling. Using a perturbative expansion of inertial effects in a Stokes-flow description of two interacting spheres, we obtain an expression for the RDF which indeed includes the additional clustering. The additional clustering enhances the collision probability of droplets, which enhances their growth rate due to coalescence. The additional clustering is thus an essential effect in precipitation modeling.

Movements of water, solutes, and stable isotopes in the unsaturated zones of two sand plains in the upper Midwest

USGS Publications Warehouse

Komor, Stephen C.; Emerson, Douglas G.

1994-01-01

Four month-long field experiments investigated movements of water and solutes through unsaturated sand plains near Princeton, Minnesota, and Oakes, North Dakota. Atrazine and bromide were applied to bare soils and soils planted with corn. The field plots were irrigated according to local farming practices. At the end of each experiment, unsaturated soils were analyzed for atrazine and bromide concentrations and oxygen and hydrogen isotope compositions of soil water. Most soil water was affected by evaporation but groundwater beneath the plots had no evaporative isotopic signature. Therefore most recharge consisted of water that was unaffected by evaporation. Sources of such water may have included snowmelt, prolonged or high-intensity rainfalls that were not interrupted by periods of drying, and water that moved through preferential flow paths. Preferential flow also was suggested by the detection of atrazine, deethylatrazine, and bromide in groundwater shortly after each application of irrigation water at Princeton and by isolated concentrations of atrazine and bromide in soil well below the main masses of chemicals at Oakes.

Doublet tracer tests to determine the contaminant flushing properties of a municipal solid waste landfill.

PubMed

Woodman, N D; Rees-White, T C; Beaven, R P; Stringfellow, A M; Barker, J A

2017-08-01

This paper describes a programme of research investigating horizontal fluid flow and solute transport through saturated municipal solid waste (MSW) landfill. The purpose is to inform engineering strategies for future contaminant flushing. Solute transport between injection/abstraction well pairs (doublets) is investigated using three tracers over five separate tests at well separations between 5m and 20m. Two inorganic tracers (lithium and bromide) were used, plus the fluorescent dye tracer, rhodamine-WT. There was no evidence for persistent preferential horizons or pathways at the inter-well scale. The time for tracer movement to the abstraction wells varied with well spacing as predicted for a homogeneous isotropic continuum. The time for tracer movement to remote observation wells was also as expected. Mobile porosity was estimated as ~0.02 (~4% of total porosity). Good fits to the tracer breakthrough data were achieved using a dual-porosity model, with immobile regions characterised by block diffusion timescales in the range of about one to ten years. This implies that diffusional exchanges are likely to be very significant for engineering of whole-site contaminant flushing and possibly rate-limiting. Copyright © 2017. Published by Elsevier B.V.

Rainfall intensity and groundwater recharge: evidence from ground-based observations in East Africa (Invited)

NASA Astrophysics Data System (ADS)

Taylor, R. G.; Owor, M.; Kaponda, A.

2013-12-01

Global greenhouse-gas emissions serve to warm Africa more rapidly than the rest of the world. The intensification of precipitation that is associated with this warming, strongly influences terrestrial water budgets. This shift toward fewer but heavier rainfall events is expected to lead to more frequent and intense floods as well as more variable and lower soil moisture. However, its impact on groundwater recharge is unclear and in dispute. We review evidence from long (1 to 5 decades) time series of groundwater levels recorded in deeply weathered crystalline rock aquifers systems underlying land surfaces of low relief in Uganda and Tanzania. Borehole hydrographs consistently demonstrate a non-linear relationship between rainfall and recharge wherein heavy rainfalls exceeding a threshold contribute disproportionately to the recharge flux. Rapid responses observed in groundwater levels to rainfall events attest further to the importance of preferential pathways in enabling rain-fed recharge via soil macro-pores. Our results suggest that, in these environments, increased use of groundwater to offset periods of low surface flow and to supplement soil moisture through irrigation may prove a logical strategy to enhance regional water and food security.

Doublet tracer tests to determine the contaminant flushing properties of a municipal solid waste landfill

NASA Astrophysics Data System (ADS)

Woodman, N. D.; Rees-White, T. C.; Beaven, R. P.; Stringfellow, A. M.; Barker, J. A.

2017-08-01

This paper describes a programme of research investigating horizontal fluid flow and solute transport through saturated municipal solid waste (MSW) landfill. The purpose is to inform engineering strategies for future contaminant flushing. Solute transport between injection/abstraction well pairs (doublets) is investigated using three tracers over five separate tests at well separations between 5 m and 20 m. Two inorganic tracers (lithium and bromide) were used, plus the fluorescent dye tracer, rhodamine-WT. There was no evidence for persistent preferential horizons or pathways at the inter-well scale. The time for tracer movement to the abstraction wells varied with well spacing as predicted for a homogeneous isotropic continuum. The time for tracer movement to remote observation wells was also as expected. Mobile porosity was estimated as 0.02 ( 4% of total porosity). Good fits to the tracer breakthrough data were achieved using a dual-porosity model, with immobile regions characterised by block diffusion timescales in the range of about one to ten years. This implies that diffusional exchanges are likely to be very significant for engineering of whole-site contaminant flushing and possibly rate-limiting.

Paravascular channels, cisterns, and the subarachnoid space in the rat brain: A single compartment with preferential pathways

PubMed Central

Bedussi, Beatrice; van der Wel, Nicole N; de Vos, Judith; van Veen, Henk; Siebes, Maria; VanBavel, Ed

2016-01-01

Recent evidence suggests an extensive exchange of fluid and solutes between the subarachnoid space and the brain interstitium, involving preferential pathways along blood vessels. We studied the anatomical relations between brain vasculature, cerebrospinal fluid compartments, and paravascular spaces in male Wistar rats. A fluorescent tracer was infused into the cisterna magna, without affecting intracranial pressure. Tracer distribution was analyzed using a 3D imaging cryomicrotome, confocal microscopy, and correlative light and electron microscopy. We found a strong 3D colocalization of tracer with major arteries and veins in the subarachnoid space and large cisterns, attributed to relatively large subarachnoid space volumes around the vessels. Confocal imaging confirmed this colocalization and also revealed novel cisternal connections between the subarachnoid space and ventricles. Unlike the vessels in the subarachnoid space, penetrating arteries but not veins were surrounded by tracer. Correlative light and electron microscopy images indicated that this paravascular space was located outside of the endothelial layer in capillaries and just outside of the smooth muscle cells in arteries. In conclusion, the cerebrospinal fluid compartment, consisting of the subarachnoid space, cisterns, ventricles, and para-arteriolar spaces, forms a continuous and extensive network that surrounds and penetrates the rat brain, in which mixing may facilitate exchange between interstitial fluid and cerebrospinal fluid. PMID:27306753

Paravascular channels, cisterns, and the subarachnoid space in the rat brain: A single compartment with preferential pathways.

PubMed

Bedussi, Beatrice; van der Wel, Nicole N; de Vos, Judith; van Veen, Henk; Siebes, Maria; VanBavel, Ed; Bakker, Erik Ntp

2017-04-01

Recent evidence suggests an extensive exchange of fluid and solutes between the subarachnoid space and the brain interstitium, involving preferential pathways along blood vessels. We studied the anatomical relations between brain vasculature, cerebrospinal fluid compartments, and paravascular spaces in male Wistar rats. A fluorescent tracer was infused into the cisterna magna, without affecting intracranial pressure. Tracer distribution was analyzed using a 3D imaging cryomicrotome, confocal microscopy, and correlative light and electron microscopy. We found a strong 3D colocalization of tracer with major arteries and veins in the subarachnoid space and large cisterns, attributed to relatively large subarachnoid space volumes around the vessels. Confocal imaging confirmed this colocalization and also revealed novel cisternal connections between the subarachnoid space and ventricles. Unlike the vessels in the subarachnoid space, penetrating arteries but not veins were surrounded by tracer. Correlative light and electron microscopy images indicated that this paravascular space was located outside of the endothelial layer in capillaries and just outside of the smooth muscle cells in arteries. In conclusion, the cerebrospinal fluid compartment, consisting of the subarachnoid space, cisterns, ventricles, and para-arteriolar spaces, forms a continuous and extensive network that surrounds and penetrates the rat brain, in which mixing may facilitate exchange between interstitial fluid and cerebrospinal fluid.

Four-way coupled simulations of small particles in turbulent channel flow: The effects of particle shape and Stokes number

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

Zhao, F.; Wachem, B. G. M. van, E-mail: berend.van.wachem@gmail.com; George, W. K.

2015-08-15

This paper investigates the effects of particle shape and Stokes number on the behaviour of non-spherical particles in turbulent channel flow. Although there are a number of studies concerning spherical particles in turbulent flows, most important applications occurring in process, energy, and pharmaceutical industries deal with non-spherical particles. The computation employs a unique and novel four-way coupling with the Lagrangian point-particle approach. The fluid phase at low Reynolds number (Re{sub τ} = 150) is modelled by direct numerical simulation, while particles are tracked individually. Inter-particle and particle-wall collisions are also taken into account. To explore the effects of particles onmore » the flow turbulence, the statistics of the fluid flow such as the fluid velocity, the terms in the turbulence kinetic energy equation, the slip velocity between the two phases and velocity correlations are analysed considering ellipsoidal particles with different inertia and aspect ratio. The results of the simulations show that the turbulence is considerably attenuated, even in the very dilute regime. The reduction of the turbulence intensity is predominant near the turbulence kinetic energy peak in the near wall region, where particles preferentially accumulate. Moreover, the elongated shape of ellipsoids strengthens the turbulence attenuation. In simulations with ellipsoidal particles, the fluid-particle interactions strongly depend on the orientation of the ellipsoids. In the near wall region, ellipsoids tend to align predominantly within the streamwise (x) and wall-normal (y) planes and perpendicular to the span-wise direction, whereas no preferential orientation in the central region of the channel is observed. Important conclusions from this work include the effective viscosity of the flow is not affected, the direct dissipation by the particles is negligible, and the primary mechanism by which the particles affect the flow is by altering the turbulence structure around the turbulence kinetic energy peak.« less

Human Th17 Cells Lack HIV-Inhibitory RNases and Are Highly Permissive to Productive HIV Infection

PubMed Central

Christensen-Quick, Aaron; Lafferty, Mark; Sun, Lingling; Marchionni, Luigi; DeVico, Anthony

2016-01-01

ABSTRACT Human immunodeficiency virus (HIV) infects and depletes CD4+ T cells, but subsets of CD4+ T cells vary in their susceptibility and permissiveness to infection. For example, HIV preferentially depletes interleukin-17 (IL-17)-producing T helper 17 (Th17) cells and T follicular helper (Tfh) cells. The preferential loss of Th17 cells during the acute phase of infection impairs the integrity of the gut mucosal barrier, which drives chronic immune activation—a key determinant of disease progression. The preferential loss of Th17 cells has been attributed to high CD4, CCR5, and CXCR4 expression. Here, we show that Th17 cells also exhibit heightened permissiveness to productive HIV infection. Primary human CD4+ T cells were sorted, activated under Th17- or Th0-polarizing conditions and infected, and then analyzed by flow cytometry. Th17-polarizing cytokines increased HIV infection, and HIV infection was disproportionately higher among Th17 cells than among IL-17− or gamma interferon-positive (IFN-γ+) cells, even upon infection with a replication-defective HIV vector with a pseudotype envelope. Further, Th17-polarized cells produced more viral capsid protein. Our data also reveal that Th17-polarized cells have diminished expression of RNase A superfamily proteins, and we report for the first time that RNase 6 inhibits HIV. Thus, our findings link Th17 polarization to increased HIV replication. IMPORTANCE Our study compares the intracellular replicative capacities of several different HIV isolates among different T cell subsets, providing a link between the differentiation of Th17 cells and HIV replication. Th17 cells are of key importance in mucosal integrity and in the immune response to certain pathogens. Based on our findings and the work of others, we propose a model in which HIV replication is favored by the intracellular environment of two CD4+ T cell subsets that share several requirements for their differentiation: Th17 and Tfh cells. Characterizing cells that support high levels of viral replication (rather than becoming latently infected or undergoing cell death) informs the search for new therapeutics aimed at manipulating intracellular signaling pathways and/or transcriptional factors that affect HIV replication. PMID:27334595

SOFC seal and cell thermal management

DOEpatents

Potnis, Shailesh Vijay [Neenah, WI; Rehg, Timothy Joseph [Huntington Beach, CA

2011-05-17

The solid oxide fuel cell module includes a manifold, a plate, a cathode electrode, a fuel cell and an anode electrode. The manifold includes an air or oxygen inlet in communication with divergent passages above the periphery of the cell which combine to flow the air or oxygen radially or inwardly for reception in the center of the cathode flow field. The latter has interconnects providing circuitous cooling passages in a generally radial outward direction cooling the fuel cell and which interconnects are formed of different thermal conductivity materials for a preferential cooling.

Rapid dissolution of ZnO nanocrystals in acidic cancer microenvironment leading to preferential apoptosis

NASA Astrophysics Data System (ADS)

Sasidharan, Abhilash; Chandran, Parwathy; Menon, Deepthy; Raman, Sreerekha; Nair, Shantikumar; Koyakutty, Manzoor

2011-09-01

The microenvironment of cancer plays a very critical role in the survival, proliferation and drug resistance of solid tumors. Here, we report an interesting, acidic cancer microenvironment-mediated dissolution-induced preferential toxicity of ZnO nanocrystals (NCs) against cancer cells while leaving primary cells unaffected. Irrespective of the size-scale (5 and 200 nm) and surface chemistry differences (silica, starch or polyethylene glycol coating), ZnO NCs exhibited multiple stress mechanisms against cancer cell lines (IC50 ~150 μM) while normal human primary cells (human dermal fibroblast, lymphocytes, human umbilical vein endothelial cells) remain less affected. Flow cytometry and confocal microscopy studies revealed that ZnO NCs undergo rapid preferential dissolution in acidic (pH ~5-6) cancer microenvironment causing elevated ROS stress, mitochondrial superoxide formation, depolarization of mitochondrial membrane, and cell cycle arrest at S/G2 phase leading to apoptosis. In effect, by elucidating the unique toxicity mechanism of ZnO NCs, we show that ZnO NCs can destabilize cancer cells by utilizing its own hostile acidic microenvironment, which is otherwise critical for its survival.The microenvironment of cancer plays a very critical role in the survival, proliferation and drug resistance of solid tumors. Here, we report an interesting, acidic cancer microenvironment-mediated dissolution-induced preferential toxicity of ZnO nanocrystals (NCs) against cancer cells while leaving primary cells unaffected. Irrespective of the size-scale (5 and 200 nm) and surface chemistry differences (silica, starch or polyethylene glycol coating), ZnO NCs exhibited multiple stress mechanisms against cancer cell lines (IC50 ~150 μM) while normal human primary cells (human dermal fibroblast, lymphocytes, human umbilical vein endothelial cells) remain less affected. Flow cytometry and confocal microscopy studies revealed that ZnO NCs undergo rapid preferential dissolution in acidic (pH ~5-6) cancer microenvironment causing elevated ROS stress, mitochondrial superoxide formation, depolarization of mitochondrial membrane, and cell cycle arrest at S/G2 phase leading to apoptosis. In effect, by elucidating the unique toxicity mechanism of ZnO NCs, we show that ZnO NCs can destabilize cancer cells by utilizing its own hostile acidic microenvironment, which is otherwise critical for its survival. Electronic supplementary information (ESI) available: FTIR data, MTT assay and zinc ion release. See DOI: 10.1039/c1nr10272a

The TGFβ pathway is a key player for the endothelial-to-hematopoietic transition in the embryonic aorta.

PubMed

Lempereur, A; Canto, P Y; Richard, C; Martin, S; Thalgott, J; Raymond, K; Lebrin, F; Drevon, C; Jaffredo, T

2018-02-15

The embryonic aorta produces hematopoietic stem and progenitor cells from a hemogenic endothelium localized in the aortic floor through an endothelial to hematopoietic transition. It has been long proposed that the Bone Morphogenetic Protein (BMP)/Transforming Growth Factor ß (TGFß) signaling pathway was implicated in aortic hematopoiesis but the very nature of the signal was unknown. Here, using thorough expression analysis of the BMP/TGFß signaling pathway members in the endothelial and hematopoietic compartments of the aorta at pre-hematopoietic and hematopoietic stages, we show that the TGFß pathway is preferentially balanced with a prominent role of Alk1/TgfßR2/Smad1 and 5 on both chicken and mouse species. Functional analysis using embryonic stem cells mutated for Acvrl1 revealed an enhanced propensity to produce hematopoietic cells. Collectively, we reveal that TGFß through the Alk1/TgfßR2 receptor axis is acting on endothelial cells to produce hematopoiesis. Copyright © 2017 Elsevier Inc. All rights reserved.

CO2 migration in the vadose zone: experimental and numerical modelling of controlled gas injection

NASA Astrophysics Data System (ADS)

gasparini, andrea; credoz, anthony; grandia, fidel; garcia, david angel; bruno, jordi

2014-05-01

The mobility of CO2 in the vadose zone and its subsequent transfer to the atmosphere is a matter of concern in the risk assessment of the geological storage of CO2. In this study the experimental and modelling results of controlled CO2 injection are reported to better understanding of the physical processes affecting CO2 and transport in the vadose zone. CO2 was injected through 16 micro-injectors during 49 days of experiments in a 35 m3 experimental unit filled with sandy material, in the PISCO2 facilities at the ES.CO2 centre in Ponferrada (North Spain). Surface CO2 flux were monitored and mapped periodically to assess the evolution of CO2 migration through the soil and to the atmosphere. Numerical simulations were run to reproduce the experimental results, using TOUGH2 code with EOS7CA research module considering two phases (gas and liquid) and three components (H2O, CO2, air). Five numerical models were developed following step by step the injection procedure done at PISCO2. The reference case (Model A) simulates the injection into a homogeneous soil(homogeneous distribution of permeability and porosity in the near-surface area, 0.8 to 0.3 m deep from the atmosphere). In another model (Model B), four additional soil layers with four specific permeabilities and porosities were included to predict the effect of differential compaction on soil. To account for the effect of higher soil temperature, an isothermal simulation called Model C was also performed. Finally, the assessment of the rainfall effects (soil water saturation) on CO2 emission on surface was performed in models called Model D and E. The combined experimental and modelling approach shows that CO2 leakage in the vadose zone quickly comes out through preferential migration pathways and spots with the ranges of fluxes in the ground/surface interface from 2.5 to 600 g·m-2·day-1. This gas channelling is mainly related to soil compaction and climatic perturbation. This has significant implications to design adapted detection and monitoring strategies of early leakage in commercial CO2 storage. The presence of soils with different compactions at surface influences the CO2 dispersion. The inclusion of soils with different permeability, porosity and liquid saturation results in preferential pathways. The formation of preferential pathways in the soil and hot spots on the surface has commonly been observed in natural systems where deep CO2 fluxes interact with shallow aquifers. Increase of ambient temperature increases CO2 fluxes intensity whereas rainfall decreases CO2 emission in gas phase and trap it as aqueous species in the porous media of the soil. A good accuracy has been obtained for surface CO2 fluxes location and intensity between experimental and modelling results taking into account the selected equation of state, the soil characteristics and the operational conditions. Phenomena of compaction and preferential pathways located only in the first centimetres of the soil can explain the heterogeneity of CO2 fluxes in the 16 m2 surface area of PISCO2 experimental platform.

Preferential and Increased Uptake of Hydroxyl-Terminated PAMAM Dendrimers by Activated Microglia in Rabbit Brain Mixed Glial Culture.

PubMed

Alnasser, Yossef; Kambhampati, Siva P; Nance, Elizabeth; Rajbhandari, Labchan; Shrestha, Shiva; Venkatesan, Arun; Kannan, Rangaramanujam M; Kannan, Sujatha

2018-04-27

Polyamidoamine (PAMAM) dendrimers are multifunctional nanoparticles with tunable physicochemical features, making them promising candidates for targeted drug delivery in the central nervous system (CNS). Systemically administered dendrimers have been shown to localize in activated glial cells, which mediate neuroinflammation in the CNS. These dendrimers delivered drugs specifically to activated microglia, producing significant neurological improvements in multiple brain injury models, including in a neonatal rabbit model of cerebral palsy. To gain further insight into the mechanism of dendrimer cell uptake, we utilized an in vitro model of primary glial cells isolated from newborn rabbits to assess the differences in hydroxyl-terminated generation 4 PAMAM dendrimer (D4-OH) uptake by activated and non-activated glial cells. We used fluorescently-labelled D4-OH (D-Cy5) as a tool for investigating the mechanism of dendrimer uptake. D4-OH PAMAM dendrimer uptake was determined by fluorescence quantification using confocal microscopy and flow cytometry. Our results indicate that although microglial cells in the mixed cell population demonstrate early uptake of dendrimers in this in vitro system, activated microglia take up more dendrimer compared to resting microglia. Astrocytes showed delayed and limited uptake. We also illustrated the differences in mechanism of uptake between resting and activated microglia using different pathway inhibitors. Both resting and activated microglia primarily employed endocytotic pathways, which are enhanced in activated microglial cells. Additionally, we demonstrated that hydroxyl terminated dendrimers are taken up by primary microglia using other mechanisms including pinocytosis, caveolae, and aquaporin channels for dendrimer uptake.

Rates of proton transfer to Fe-S-based clusters: comparison of clusters containing {MFe(mu(2)-S)(2)}n+ and {MFe(3)(mu(3)-S)(4)}n+ (M = Fe, Mo, or W) cores.

PubMed

Bates, Katie; Garrett, Brendan; Henderson, Richard A

2007-12-24

The rates of proton transfer from [pyrH]+ (pyr = pyrrolidine) to the binuclear complexes [Fe2S2Cl4]2- and [S2MS2FeCl2]2- (M = Mo or W) are reported. The reactions were studied using stopped-flow spectrophotometry, and the rate constants for proton transfer were determined from analysis of the kinetics of the substitution reactions of these clusters with the nucleophiles Br- or PhS- in the presence of [pyrH]+. In general, Br- is a poor nucleophile for these clusters, and proton transfer occurs before Br- binds, allowing direct measure of the rate of proton transfer from [pyrH]+ to the cluster. In contrast, PhS- is a better nucleophile, and a pathway in which PhS- binds preferentially to the cluster prior to proton transfer from [pyrH]+ usually operates. For the reaction of [Fe2S2Cl4]2- with PhS- in the presence of [pyrH]+ both pathways are observed. Comparison of the results presented in this paper with analogous studies reported earlier on cuboidal Fe-S-based clusters allows discussion of the factors which affect the rates of proton transfer in synthetic clusters including the nuclearity of the cluster core, the metal composition, and the nature of the terminal ligands. The possible relevance of these findings to the protonation sites of natural Fe-S-based clusters, including FeMo-cofactor from nitrogenase, are presented.

Khz-cp (crude polysaccharide extract obtained from the fusion of Ganoderma lucidum and Polyporus umbellatus mycelia) induces apoptosis by increasing intracellular calcium levels and activating P38 and NADPH oxidase-dependent generation of reactive oxygen species in SNU-1 cells.

PubMed

Kim, Tae Hwan; Kim, Ju Sung; Kim, Zoo Haye; Huang, Ren Bin; Chae, Young Lye; Wang, Ren Sheng

2014-07-10

Khz-cp is a crude polysaccharide extract that is obtained after nuclear fusion in Ganoderma lucidum and Polyporus umbellatus mycelia (Khz). It inhibits the growth of cancer cells. Khz-cp was extracted by solvent extraction. The anti-proliferative activity of Khz-cp was confirmed by using Annexin-V/PI-flow cytometry analysis. Intracellular calcium increase and measurement of intracellular reactive oxygen species (ROS) were performed by using flow cytometry and inverted microscope. SNU-1 cells were treated with p38, Bcl-2 and Nox family siRNA. siRNA transfected cells was employed to investigate the expression of apoptotic, growth and survival genes in SNU-1 cells. Western blot analysis was performed to confirm the expression of the genes. In the present study, Khz-cp induced apoptosis preferentially in transformed cells and had only minimal effects on non-transformed cells. Furthermore, Khz-cp was found to induce apoptosis by increasing the intracellular Ca2+ concentration ([Ca2+]i) and activating P38 to generate reactive oxygen species (ROS) via NADPH oxidase and the mitochondria. Khz-cp-induced apoptosis was caspase dependent and occurred via a mitochondrial pathway. ROS generation by NADPH oxidase was critical for Khz-cp-induced apoptosis, and although mitochondrial ROS production was also required, it appeared to occur secondary to ROS generation by NADPH oxidase. Activation of NADPH oxidase was shown by the translocation of the regulatory subunits p47phox and p67phox to the cell membrane and was necessary for ROS generation by Khz-cp. Khz-cp triggered a rapid and sustained increase in [Ca2+]i that activated P38. P38 was considered to play a key role in the activation of NADPH oxidase because inhibition of its expression or activity abrogated membrane translocation of the p47phox and p67phox subunits and ROS generation. In summary, these data indicate that Khz-cp preferentially induces apoptosis in cancer cells and that the signaling mechanisms involve an increase in [Ca2+]i, P38 activation, and ROS generation via NADPH oxidase and mitochondria.

Physically-based distributed hydrologic modeling of tropical catchments: Hypothesis testing on model formation and runoff generation

NASA Astrophysics Data System (ADS)

Abebe, N. A.; Ogden, F. L.

2011-12-01

Watersheds vary in their nature based on their geographic location, altitude, climate, geology, soils, and land use/land cover. These variations lead to differences in the conceptualization and formulation of hydrological models intended to represent the expected hydrological processes in a given catchment. Watersheds in the tropics are characterized by intensive and persistent biological activity and a large amount of rainfall. Our study focuses on the Agua Salud project catchments located in the Panama Canal Watershed, Panama, which have steep rolling topography, deep soils derived from weathered bedrock, and limited exposed bedrock. These catchments are also highly affected by soil cracks, decayed tree roots and animal burrows that form a network of preferential flow paths. One hypothesis is that these macropores conduct interflow during heavy rainfall, when a transient perched water table forms at a depth where the vertical hydraulic conductivity is significantly reduced near the bottom of the bioturbation layer. We have developed a physics-based, spatially distributed, multi-layered hydrologic model to simulate the dominant flow processes, including overland flow, channel flow, vertical matrix and non-Richards film flow, lateral downslope saturated matrix and non-Darcian pipe flow in the bioturbation layer and deep saturated groundwater flow. In our model formulation, we use the model to examine a variety of hydrological processes which we anticipate may occur. Emphasis is given to the modeling of the soil moisture dynamics in the bioturbation layer, development of lateral preferential flow and activation of the macropores and exchange of water at the interface between a bioturbation layer and a second layer below it. We consider interactions between surface water, ground water, channel water and perched water in the riparian zone cells with the aim of understanding likely runoff generation mechanisms. Results show that inclusion of as many different flow processes as possible during conceptualization and during model development helps to reject infeasible scenarios/hypotheses, and suggests further watershed-scale studies to improve our understanding of the hydrologic behavior of these poorly understood catchments.

Altered Global Signal Topography in Schizophrenia.

PubMed

Yang, Genevieve J; Murray, John D; Glasser, Matthew; Pearlson, Godfrey D; Krystal, John H; Schleifer, Charlie; Repovs, Grega; Anticevic, Alan

2017-11-01

Schizophrenia (SCZ) is a disabling neuropsychiatric disease associated with disruptions across distributed neural systems. Resting-state functional magnetic resonance imaging has identified extensive abnormalities in the blood-oxygen level-dependent signal in SCZ patients, including alterations in the average signal over the brain-i.e. the "global" signal (GS). It remains unknown, however, if these "global" alterations occur pervasively or follow a spatially preferential pattern. This study presents the first network-by-network quantification of GS topography in healthy subjects and SCZ patients. We observed a nonuniform GS contribution in healthy comparison subjects, whereby sensory areas exhibited the largest GS component. In SCZ patients, we identified preferential GS representation increases across association regions, while sensory regions showed preferential reductions. GS representation in sensory versus association cortices was strongly anti-correlated in healthy subjects. This anti-correlated relationship was markedly reduced in SCZ. Such shifts in GS topography may underlie profound alterations in neural information flow in SCZ, informing development of pharmacotherapies. © The Author 2016. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

Reinterpreting the Anomalous Mole Fraction Effect: The Ryanodine Receptor Case Study

PubMed Central

Gillespie, Dirk; Giri, Janhavi; Fill, Michael

2009-01-01

Abstract The origin of the anomalous mole fraction effect (AMFE) in calcium channels is explored with a model of the ryanodine receptor. This model predicted and experiments verified new AMFEs in the cardiac isoform. In mole fraction experiments, conductance is measured in mixtures of ion species X and Y as their relative amounts (mole fractions) vary. This curve can have a minimum (an AMFE). The traditional interpretation of the AMFE is that multiple interacting ions move through the pore in a single file. Mole fraction curves without minima (no AMFEs) are generally interpreted as X displacing Y from the pore in a proportion larger than its bath mole fraction (preferential selectivity). We find that the AMFE is also caused by preferential selectivity of X over Y, if X and Y have similar conductances. This is a prediction applicable to any channel and provides a fundamentally different explanation of the AMFE that does not require single filing or multiple occupancy: preferential selectivity causes the resistances to current flow in the baths, channel vestibules, and selectivity filter to change differently with mole fraction, and produce the AMFE. PMID:19843453

The Bcl-2-Beclin 1 interaction in (-)-gossypol-induced autophagy versus apoptosis in prostate cancer cells.

PubMed

Lian, Jiqin; Karnak, David; Xu, Liang

2010-11-01

Bcl-2 is a key dual regulator of autophagy and apoptosis, but how the level of Bcl-2 influences the cellular decision between autophagy and apoptosis is unclear. The natural BH3-mimetic (-)-gossypol preferentially induces autophagy in androgen-independent (AI) prostate cancer cells that have high levels of Bcl-2 and are resistant to apoptosis, whereas apoptosis is preferentially induced in androgen-dependent or -independent cells with low Bcl-2. (-)-Gossypol induces autophagy via blocking Bcl-2-Beclin 1 interaction at the endoplasmic reticulum (ER), together with downregulating Bcl-2, upregulating Beclin 1 and activating the autophagic pathway. Furthermore, (-)-gossypol-induced autophagy is Beclin 1- and Atg5-dependent. These results provide new insights into the mode of cell death induced by Bcl-2 inhibitors, which could facilitate the rational design of clinical trials by selecting patients who are most likely to benefit from the Bcl-2-targeted molecular therapy.

Preferential rifting of continents - A source of displaced terranes

NASA Technical Reports Server (NTRS)

Vink, G. E.; Morgan, W. J.; Zhao, W.-L.

1984-01-01

Lithospheric rifting, while prevalent in the continents, rarely occurs in oceanic regions. To explain this preferential rifting of continents, the total strength of different lithospheres is compared by integrating the limits of lithospheric stress with depth. Comparisons of total strength indicate that continental lithosphere is weaker than oceanic lithosphere by about a factor of three. Also, a thickened crust can halve the total strength of normal continental lithosphere. Because the weakest area acts as a stress guide, any rifting close to an ocean-continent boundary would prefer a continental pathway. This results in the formation of small continental fragments or microplates that, once accreted back to a continent during subduction, are seen as displaced terranes. In addition, the large crustal thicknesses associated with suture zones would make such areas likely locations for future rifting episodes. This results in the tendency of new oceans to open along the suture where a former ocean had closed.

Characterization of air profiles impeded by plant canopies for a variable-rate air-assisted sprayer

USDA-ARS?s Scientific Manuscript database

The preferential design for variable-rate orchard and nursery sprayers relies on tree structure to control liquid and air flow rates. Demand for this advanced feature has been incremental as the public demand on reduction of pesticide use. A variable-rate, air assisted, five-port sprayer had been in...

High-Resolution Geologic Mapping in the Eastern Manus Basin

NASA Astrophysics Data System (ADS)

Thal, J.; Bach, W.; Tivey, M.; Yoerger, D. R.

2011-12-01

AUV-based microbathymetry combined with ROV video data was used to create the first high-resolution geologic maps of two hydrothermal active areas in the eastern Manus Basin: North Su volcano and PACManus hydrothermal field on Pual Ridge. The data were recorded in 2006 and 2011 during the research cruises Magellan-06 operated by the Woods Hole Oceanographic Institution and BAMBUS (SO-216) operated by MARUM / University Bremen. High accuracy underwater navigation transponder-based and Posidonia systems allowed us to combine video data with bathymetry. The navigation on both cruises was very precise (m-scale) and navigation offsets were less than 10 m. We conducted detailed geologic mapping and sampling to identify the seafloor volcanic and hydrothermal features and created highly detailed maps that provide a comprehensive picture of the seafloor and vent distribution in the eastern Manus Basin. Several different types of dacite lava morphology were mapped, including pillow lava, lobate flows and massive block lava. We have compiled all available information on rock chemistry, fluid and temperature measurements, video data, bathymetry and navigation data into a GIS database. We find that, in contrast to the tectonic control on vent distribution at slow spreading mid-ocean ridges, the pathways of upwelling hydrothermal vent fluids at PACManus are dominated by volcanic features, such as lava domes and thick, massive block lava flows. Vent fields are developed preferentially along the margins of major flow units, probably because the cores of these units are impermeable to fluid flow, while the autobrecciated outer parts of the flows are not. In the North Su area, a comparison of seafloor maps from 2006 and 2011 reveals recent volcanic activity, which has strongly modified the bathymetry and hydrothermal vent distribution on the southern flank of the volcano. An ash cone with multiple small craters on the SW flank of the North-Su volcano that didn't exist in 2006 was mapped in 2011. Also, magmatic degassing was much more vigorous in 2011, with large accumulations of liquid sulfur (from disproportionation of magmatic SO2) as well as extensive bubbling of supercritical and liquid CO2.

Mathematical models to describe iontophoretic transport in vitro and in vivo and the effect of current application on the skin barrier.

PubMed

Gratieri, Taís; Kalia, Yogeshvar N

2013-02-01

The architecture and composition of the stratum corneum make it a particularly effective barrier against the topical and transdermal delivery of hydrophilic molecules and ions. As a result, different strategies have been explored in order to expand the range of therapeutic agents that can be administered by this route. Iontophoresis involves the application of a small electric potential to increase transport into and across the skin. Since current flow is preferentially via transport pathways with at least some aqueous character, it is ideal for hydrosoluble molecules containing ionisable groups. Hence, the physicochemical properties that limit partitioning and passive diffusion through the intercellular lipid matrix are beneficial for electrically-assisted delivery. The presence of fixed ionisable groups in the skin (pI 4-4.5) means that application of the electric field results in a convective solvent flow (i.e., electroosmosis) in the direction of ion motion so as to neutralise membrane charge. Hence, under physiological conditions, cation electrotransport is due to both electromigration and electroosmosis-their relative contribution depends on the formulation conditions and the physicochemical properties of the permeant. Different mathematical models have been developed to provide a theoretical framework in order to explain iontophoretic transport kinetics. They usually involve solutions of the Nernst-Planck equation - using either the constant field (Goldman) or electroneutrality (Nernst) approximations - with or without terms for the convective solvent flow component. Investigations have also attempted to elucidate the nature of ion transport pathways and to explain the effect of current application on the electrical properties of the skin-more specifically, the stratum corneum. These studies have led to the development of different equivalent circuit models. These range from simple parallel arrangements of a resistor and a capacitor to the inclusion of the more esoteric "constant phase element"; the latter provides a better mathematical description of the "non-ideal" behaviour of skin impedance. However, in addition to simply providing a "mathematical" fit of the observed data, it is essential to relate these circuit elements to biological structures present in the skin. More recently, attention has also turned to what happens when the permeant crosses the epidermis and reaches the systemic circulation and pharmacokinetic models have been proposed to interpret data from iontophoretic delivery studies in vivo. Here, we provide an overview of mathematical models that have been proposed to describe (i) the effect of current application on the skin and the implications for potential iontophoretic transport pathways, (ii) electrotransport kinetics and (iii) the fate of iontophoretically delivered drugs once they enter the systemic circulation. Copyright © 2012 Elsevier B.V. All rights reserved.

Eigenvector centrality for geometric and topological characterization of porous media

NASA Astrophysics Data System (ADS)

Jimenez-Martinez, Joaquin; Negre, Christian F. A.

2017-07-01

Solving flow and transport through complex geometries such as porous media is computationally difficult. Such calculations usually involve the solution of a system of discretized differential equations, which could lead to extreme computational cost depending on the size of the domain and the accuracy of the model. Geometric simplifications like pore networks, where the pores are represented by nodes and the pore throats by edges connecting pores, have been proposed. These models, despite their ability to preserve the connectivity of the medium, have difficulties capturing preferential paths (high velocity) and stagnation zones (low velocity), as they do not consider the specific relations between nodes. Nonetheless, network theory approaches, where a complex network is a graph, can help to simplify and better understand fluid dynamics and transport in porous media. Here we present an alternative method to address these issues based on eigenvector centrality, which has been corrected to overcome the centralization problem and modified to introduce a bias in the centrality distribution along a particular direction to address the flow and transport anisotropy in porous media. We compare the model predictions with millifluidic transport experiments, which shows that, albeit simple, this technique is computationally efficient and has potential for predicting preferential paths and stagnation zones for flow and transport in porous media. We propose to use the eigenvector centrality probability distribution to compute the entropy as an indicator of the "mixing capacity" of the system.

Voice processing in monkey and human brains.

PubMed

Scott, Sophie K

2008-09-01

Studies in humans have indicated that the anterior superior temporal sulcus has an important role in the processing of information about human voices, especially the identification of talkers from their voice. A new study using functional magnetic resonance imaging (fMRI) with macaques provides strong evidence that anterior auditory fields, part of the auditory 'what' pathway, preferentially respond to changes in the identity of conspecifics, rather than specific vocalizations from the same individual.

Carbonate aquifers

USGS Publications Warehouse

Cunningham, Kevin J.; Sukop, Michael; Curran, H. Allen

2012-01-01

Only limited hydrogeological research has been conducted using ichnology in carbonate aquifer characterization. Regardless, important applications of ichnology to carbonate aquifer characterization include its use to distinguish and delineate depositional cycles, correlate mappable biogenically altered surfaces, identify zones of preferential groundwater flow and paleogroundwater flow, and better understand the origin of ichnofabric-related karst features. Three case studies, which include Pleistocene carbonate rocks of the Biscayne aquifer in southern Florida and Cretaceous carbonate strata of the Edwards–Trinity aquifer system in central Texas, demonstrate that (1) there can be a strong relation between ichnofabrics and groundwater flow in carbonate aquifers and (2) ichnology can offer a useful methodology for carbonate aquifer characterization. In these examples, zones of extremely permeable, ichnofabric-related macroporosity are mappable stratiform geobodies and as such can be represented in groundwater flow and transport simulations.

Numerical model of water flow and solute accumulation in vertisols using HYDRUS 2D/3D code

NASA Astrophysics Data System (ADS)

Weiss, Tomáš; Dahan, Ofer; Turkeltub, Tuvia

2015-04-01

Keywords: dessication-crack-induced-salinization, preferential flow, conceptual model, numerical model, vadose zone, vertisols, soil water retention function, HYDRUS 2D/3D Vertisols cover a hydrologically very significant area of semi-arid regions often through which water infiltrates to groundwater aquifers. Understanding of water flow and solute accumulation is thus very relevant to agricultural activity and water resources management. Previous works suggest a conceptual model of dessication-crack-induced-salinization where salinization of sediment in the deep section of the vadose zone (up to 4 m) is induced by subsurface evaporation due to convective air flow in the dessication cracks. It suggests that the salinization is induced by the hydraulic gradient between the dry sediment in the vicinity of cracks (low potential) and the relatively wet sediment further from the main cracks (high potential). This paper presents a modified previously suggested conceptual model and a numerical model. The model uses a simple uniform flow approach but unconventionally prescribes the boundary conditions and the hydraulic parameters of soil. The numerical model is bound to one location close to a dairy farm waste lagoon, but the application of the suggested conceptual model could be possibly extended to all semi-arid regions with vertisols. Simulations were conducted using several modeling approaches with an ultimate goal of fitting the simulation results to the controlling variables measured in the field: temporal variation in water content across thick layer of unsaturated clay sediment (>10 m), sediment salinity and salinity the water draining down the vadose zone to the water table. The development of the model was engineered in several steps; all computed as forward solutions by try-and-error approach. The model suggests very deep instant infiltration of fresh water up to 12 m, which is also supported by the field data. The paper suggests prescribing a special atmospheric boundary to the wall of the crack (so that the solute can accumulate due to evaporation on the crack block wall, and infiltrating fresh water can push the solute further down) - in order to do so, HYDRUS 2D/3D code had to be modified by its developers. Unconventionally, the main fitting parameters were: parameter a and n in the soil water retention curve and saturated hydraulic conductivity. The amount of infiltrated water (within a reasonable range), the infiltration function in the crack and the actual evaporation from the crack were also used as secondary fitting parameters. The model supports the previous findings that significant amount (~90%) of water from rain events must infiltrate through the crack. It was also noted that infiltration from the crack has to be increasing with depth and that the highest infiltration rate should be somewhere between 1-3m. This paper suggests a new way how to model vertisols in semi-arid regions. It also supports the previous findings about vertisols: especially, the utmost importance of soil cracks as preferential pathways for water and contaminants and soil cracks as deep evaporators.

Feasibility Study for The Setting Up of a Safety System for Monitoring CO2 Storage at Prinos Field, Greece

NASA Astrophysics Data System (ADS)

Koukouzas, Nikolaos; Lymperopoulos, Panagiotis; Tasianas, Alexandros; Shariatipour, Seyed

2016-10-01

Geological storage of CO2 in subsurface geological structures can mitigate global warming. A comprehensive safety and monitoring system for CO2 storage has been undertaken for the Prinos hydrocarbon field, offshore northern Greece; a system which can prevent any possible leakage of CO2. This paper presents various monitoring strategies of CO2 subsurface movement in the Prinos reservoir, the results of a simulation of a CO2 leak through a well, an environmental risk assessment study related to the potential leakage of CO2 from the seafloor and an overall economic insight of the system. The results of the simulation of the CO2 leak have shown that CO2 reaches the seabed in the form of gas approximately 13.7 years, from the beginning of injection. From that point onwards the amount of CO2 reaching the seabed increases until it reaches a peak at around 32.9 years. During the injection period, the CO2 plume develops only within the reservoir. During the post-injection period, the CO2 reaches the seabed and develops side branches. These correspond to preferential lateral flow pathways of the CO2 and are more extensive for the dissolved CO2 than for the saturated CO2 gas. For the environmental risk assessment, we set up a model, using ArcGIS software, based on the use of data regarding the speeds of the winds and currents encountered in the region. We also made assumptions related to the flow rate of CO2. Results show that after a period of 10 days from the start of CO2 leakage the CO2 has reached halfway to the continental shores where the “Natura” protected areas are located. CO2 leakage modelling results show CO2 to be initially flowing along a preferential flow direction, which is towards the NE. However, 5 days after the start of leakage of CO2, the CO2 is also flowing towards the ENE. The consequences of a potential CO2 leak are considered spatially limited and the ecosystem is itself capable of recovering. We have tried to determine the costs necessary for the creation of such an integrated CO2 monitoring program both during the CO2 injection phase as well as during permanent storage. The most prevalent solution consists of purchasing both seismic equipment and Echosounder systems as well as privileging a monitoring system, which uses selected boreholes. The necessary period required for monitoring the study area is at least 20 years after the end of the CO2 storage period at Prinos. To the overall monitoring time, we should also add a further 20 years that are required for the injection phase as well as 12 years for the storage phase. The operating costs for monitoring the CO2 amount to 0,38 /ton CO2 and the total cost for EOR at Prinos amounts to 0,45 /ton CO2.

Defining the computational structure of the motion detector in Drosophila

PubMed Central

Clark, Damon A.; Bursztyn, Limor; Horowitz, Mark; Schnitzer, Mark J.; Clandinin, Thomas R.

2011-01-01

SUMMARY Many animals rely on visual motion detection for survival. Motion information is extracted from spatiotemporal intensity patterns on the retina, a paradigmatic neural computation. A phenomenological model, the Hassenstein-Reichardt Correlator (HRC), relates visual inputs to neural and behavioral responses to motion, but the circuits that implement this computation remain unknown. Using cell-type specific genetic silencing, minimal motion stimuli, and in vivo calcium imaging, we examine two critical HRC inputs. These two pathways respond preferentially to light and dark moving edges. We demonstrate that these pathways perform overlapping but complementary subsets of the computations underlying the HRC. A numerical model implementing differential weighting of these operations displays the observed edge preferences. Intriguingly, these pathways are distinguished by their sensitivities to a stimulus correlation that corresponds to an illusory percept, “reverse phi”, that affects many species. Thus, this computational architecture may be widely used to achieve edge selectivity in motion detection. PMID:21689602

Self-renewal of a purified Tie2+ hematopoietic stem cell population relies on mitochondrial clearance.

PubMed

Ito, Kyoko; Turcotte, Raphaël; Cui, Jinhua; Zimmerman, Samuel E; Pinho, Sandra; Mizoguchi, Toshihide; Arai, Fumio; Runnels, Judith M; Alt, Clemens; Teruya-Feldstein, Julie; Mar, Jessica C; Singh, Rajat; Suda, Toshio; Lin, Charles P; Frenette, Paul S; Ito, Keisuke

2016-12-02

A single hematopoietic stem cell (HSC) is capable of reconstituting hematopoiesis and maintaining homeostasis by balancing self-renewal and cell differentiation. The mechanisms of HSC division balance, however, are not yet defined. Here we demonstrate, by characterizing at the single-cell level a purified and minimally heterogeneous murine Tie2 + HSC population, that these top hierarchical HSCs preferentially undergo symmetric divisions. The induction of mitophagy, a quality control process in mitochondria, plays an essential role in self-renewing expansion of Tie2 + HSCs. Activation of the PPAR (peroxisome proliferator-activated receptor)-fatty acid oxidation pathway promotes expansion of Tie2 + HSCs through enhanced Parkin recruitment in mitochondria. These metabolic pathways are conserved in human TIE2 + HSCs. Our data thus identify mitophagy as a key mechanism of HSC expansion and suggest potential methods of cell-fate manipulation through metabolic pathways. Copyright © 2016, American Association for the Advancement of Science.

Self-renewal of a purified Tie2+ hematopoietic stem cell population relies on mitochondrial clearance

PubMed Central

Ito, Kyoko; Turcotte, Raphaël; Cui, Jinhua; Zimmerman, Samuel E.; Pinho, Sandra; Mizoguchi, Toshihide; Arai, Fumio; Runnels, Judith M.; Alt, Clemens; Teruya-Feldstein, Julie; Mar, Jessica C.; Singh, Rajat; Suda, Toshio; Lin, Charles P.; Frenette, Paul S.; Ito, Keisuke

2016-01-01

A single hematopoietic stem cell (HSC) is capable of reconstituting hematopoiesis and maintaining homeostasis by balancing self-renewal and cell differentiation. The mechanisms of HSC division balance, however, are not yet defined. Here we demonstrate, by characterizing at the single-cell level a purified and minimally heterogeneous murine Tie2+ HSC population, that these top hierarchical HSCs preferentially undergo symmetric divisions. The induction of mitophagy, a quality control process in mitochondria, plays an essential role in self-renewing expansion of Tie2+ HSCs. Activation of the PPAR (peroxisome proliferator–activated receptor)–fatty acid oxidation pathway promotes expansion of Tie2+ HSCs through enhanced Parkin recruitment in mitochondria. These metabolic pathways are conserved in human TIE2+ HSCs. Our data thus identify mitophagy as a key mechanism of HSC expansion and suggest potential methods of cell-fate manipulation through metabolic pathways. PMID:27738012

Time-dependent LXR/RXR pathway modulation characterizes capillary remodeling in inflammatory corneal neovascularization.

PubMed

Mukwaya, Anthony; Lennikov, Anton; Xeroudaki, Maria; Mirabelli, Pierfrancesco; Lachota, Mieszko; Jensen, Lasse; Peebo, Beatrice; Lagali, Neil

2018-05-01

Inflammation in the normally immune-privileged cornea can initiate a pathologic angiogenic response causing vision-threatening corneal neovascularization. Inflammatory pathways, however, are numerous, complex and are activated in a time-dependent manner. Effective resolution of inflammation and associated angiogenesis in the cornea requires knowledge of these pathways and their time dependence, which has, to date, remained largely unexplored. Here, using a model of endogenous resolution of inflammation-induced corneal angiogenesis, we investigate the time dependence of inflammatory genes in effecting capillary regression and the return of corneal transparency. Endogenous capillary regression was characterized by a progressive thinning and remodeling of angiogenic capillaries and inflammatory cell retreat in vivo in the rat cornea. By whole-genome longitudinal microarray analysis, early suppression of VEGF ligand-receptor signaling and inflammatory pathways preceded an unexpected later-phase preferential activation of LXR/RXR, PPARα/RXRα and STAT3 canonical pathways, with a concurrent attenuation of LPS/IL-1 inhibition of RXR function and Wnt/β-catenin signaling pathways. Potent downstream inflammatory cytokines such as Cxcl5, IL-1β, IL-6 and Ccl2 were concomitantly downregulated during the remodeling phase. Upstream regulators of the inflammatory pathways included Socs3, Sparc and ApoE. A complex and coordinated time-dependent interplay between pro- and anti-inflammatory signaling pathways highlights a potential anti-inflammatory role of LXR/RXR, PPARα/RXRα and STAT3 signaling pathways in resolving inflammatory corneal angiogenesis.

A combined crossed-beam and theoretical study of the reaction dynamics of O(3P) + C2H3 → C2H2 + OH: analysis of the nascent OH products with the preferential population of the Π(A') component.

PubMed

Park, Min-Jin; Jang, Su-Chan; Choi, Jong-Ho

2012-11-28

The gas-phase reaction dynamics of ground-state atomic oxygen [O((3)P) from the photo-dissociation of NO(2)] with vinyl radicals [C(2)H(3) from the supersonic flash pyrolysis of vinyl iodide, C(2)H(3)I] has been investigated using a combination of high-resolution laser-induced fluorescence spectroscopy in a crossed-beam configuration and ab initio calculations. Unlike the previous gas-phase bulk kinetic experiments by Baulch et al. [J. Phys. Chem. Ref. Data 34, 757 (2005)], a new exothermic channel of O((3)P) + C(2)H(3) → C(2)H(2) + OH (X (2)Π: υ" = 0) has been identified for the first time, and the population analysis shows bimodal nascent rotational distributions of OH products with low- and high-N" components with a ratio of 2.4:1. No spin-orbit propensities were observed, and the averaged ratios of Π(A('))∕Π(A") were determined to be 1.66 ± 0.27. On the basis of computations at the CBS-QB3 theory level and comparison with prior theory, the microscopic mechanisms responsible for the nascent populations can be understood in terms of two competing dynamical pathways: a direct abstraction process in the low-N" regime as the major pathway and an addition-complex forming process in the high-N" regime as the minor pathway. Particularly, during the bond cleavage process of the weakly bound van der Waals complex C(2)H(2)-OH, the characteristic pathway from the low dihedral-angle geometry was consistent with the observed preferential population of the Π(A') component in the nascent OH products. A molecular-level discussion of the reactivity, mechanism, and dynamical features of the title reaction are presented together with a comparison to gas-phase oxidation reactions of a series of prototypical hydrocarbon radicals.

Water and chloride transport in a fine-textured soil in a feedlot pen.

PubMed

Veizaga, E A; Rodríguez, L; Ocampo, C J

2015-11-01

Cattle feeding in feedlot pens produces large amounts of manure and animal urine. Manure solutions resulting from surface runoff are composed of numerous chemical constituents whose leaching causes salinization of the soil profile. There is a relatively large number of studies on preferential flow characterization and modeling in clayed soils. However, research on water flow and solute transport derived from cattle feeding operations in fine-textured soils under naturally occurring precipitation events is less frequent. A field monitoring and modeling investigation was conducted at two plots on a fine-textured soil near a feedlot pen in Argentina to assess the potential of solute leaching into the soil profile. Soil pressure head and chloride concentration of the soil solution were used in combination with HYDRUS-1D numerical model to simulate water flow and chloride transport resorting to the concept of mobile/immobile-MIM water for solute transport. Pressure head sensors located at different depths registered a rapid response to precipitation suggesting the occurrence of preferential flow-paths for infiltrating water. Cracks and small fissures were documented at the field site where the % silt and % clay combined is around 94%. Chloride content increased with depth for various soil pressure head conditions, although a dilution process was observed as precipitation increased. The MIM approach improved numerical results at one of the tested sites where the development of cracks and macropores is likely, obtaining a more dynamic response in comparison with the advection-dispersion equation. Copyright © 2015 Elsevier B.V. All rights reserved.

Water flow pathway and the organic carbon discharge during rain storm events in a coniferous forested head watershed, Tokyo, central Japan

NASA Astrophysics Data System (ADS)

Moriizumi, Mihoko; Terajima, Tomomi

2010-05-01

The current intense discussion of the green house effect, that has been one of the main focuses on the carbon cycle in environmental systems of the earth, seems to be weakened the importance related to the effect of carbonic materials on substance movement in the aquatic environments; though it has just begun to be referred recently. Because dissolved organic carbon (DOC) in stream flows believes to play a main role of the carbon cycle in the fresh water environment, seasonal changes in DOC discharge were investigated in catchments with various scale and land use, especially in forested catchments which are one of the important sources of DOC. In order to understand the fundamental characteristics of the discharge of dissolved organic materials, stream flows, DOC, and fulvic acid like materials (FA) included in stream flows were measured in a coniferous forested head watershed. The watershed is located at the southeast edge of the Kanto mountain and is 40 km west of Tokyo with the elevation from 720 to 820 m and mean slope gradient of 38 degrees. Geology of the watershed is underlain by the sequence of mud and sand stones in Jurassic and the soil in the watershed is Cambisol (Inceptisols). The watershed composes of a dense cypress and cedar forest of 45 years old with poor understory vegetation. Observations were carried out for 6 rain storms of which the total precipitations ranged between 16.2 and 117.4 mm. The magnitude of the storms was classified into small, middle, and big events on the basis of the total precipitation of around 20, 40, and more than 70 mm. Stream flows were collected during the storm events by 1 hour interval and were passed through the 0.45 μm filters, and then the DOC concentrations in the flows were measured with a total organic carbon analyzer. The relative concentrations of fulvic acid (FA) in the flows were monitored with three dimensional excitations emission matrix fluorescence spectroscopy, because fulvic acid shows distinctive fluorescence peaks at around the excitation wave length of 340 nm and emission wave length of 440 nm. The timing of the peaks in DOC and FA occurred simultaneously or within 30 minutes prior to those in the stream flows. The relationship between DOC and stream flow showed linear correlations with various gradients in each event. However, the relationship between FA and stream flow showed the linear correlations only for the small and middle events and clockwise hysteresis relations occurred in the big storm events. The relationship between DOC and FA showed the linear correlations both for the extracted water of the shallow soil and for stream base flow composed mostly of groundwater discharge. However, the relationship in the storm flow closely distributed at that in the extracted water of the shallow soil. This thing reveals that DOC and FA were mainly flashed out from the shallow soil during the rain storm events. The quick rising and recession of the fulvic acid was likely provided by quick rain water discharge through the surface or near surface of the slope. However, the overland flow were rare in the watershed during the rain storms. This indicates that the rapid shallow subsurface flow, passed mainly through preferential flow pathways at the slope surface within the loose litter and root-permeated zone, was the main cause of the difference in discharge regimes between DOC and FA. The shallow subsurface flow may have flushed the FA in the near-surface of the soil, and then the relatively predominant discharge of DOC must have been caused during the big rain storm event.

Flow Pathways of Snow and Ground Ice Melt Water During Initial Seasonal Thawing of the Active Layer on Continuous Permafrost

NASA Astrophysics Data System (ADS)

Sjoberg, Y.; Johansson, E.; Rydberg, J.

2017-12-01

In most arctic environments, the snowmelt is the main hydrologic event of the year as a large fraction of annual precipitation rapidly moves through the catchment. Flow can occur on top of the frozen ground surface or through the developing active layer, and flow pathways are critical determinants for biogeochemical transport. We study the linkages between micro topography, active layer thaw, and water partitioning on a hillslope in Greenland during late snowmelt season to explore how seasonal subsurface flow pathways develop. During snowmelt, a parallel surface drainage pattern appears across the slope, consisting of small streams, and water also collects in puddles across the slope. Thaw rates in the active layer were significantly higher (T-test p<0.01) on wet parts of the slope (0.8 cm/day), compared to drier parts of the slope (0.6 cm/day). Analyses of stable water isotopic composition show that snow had the lightest isotopic signatures, but with a large spread of values, while seasonally frozen ground and standing surface water (puddles) were heavier. The stream water became heavier over the two-week sampling period, suggesting an increasing fraction of melted soil water input over time. In contrast, standing surface water (puddles) isotopic composition did not change over time. In boreal catchments, seasonal frost has previously been found to not significantly influence flow pathways during most snowmelt events, and pre-event groundwater make out most of the stream water during snowmelt. Our results from a continuous permafrost environment show that both surface (overland) and subsurface flow pathways in the active layer are active, and that a large fraction of the water moving on the hillslope comes from melted ground ice rather than snow in the late snowmelt season. This suggests a possibility that flow pathways during snowmelt could shift to deeper subsurface flow following degradation of continuous permafrost.

Thermal convection currents in NMR: flow profiles and implications for coherence pathway selection

PubMed

Jerschow

2000-07-01

Rayleigh-Benard convection currents are visualized in a vertical cylindrical tube by means of magnetic resonance imaging. Axially antisymmetric flow, multiple vertical rolls, and twisted node planes are observed. The flow can also be induced by strong RF irradiation. Its effects on the coherence pathways in NMR experiments employing field gradients are discussed. Copyright 2000 Academic Press.

Steady and transient fluid shear stress stimulate NO release in osteoblasts through distinct biochemical pathways

NASA Technical Reports Server (NTRS)

McAllister, T. N.; Frangos, J. A.

1999-01-01

Fluid flow has been shown to be a potent stimulus in osteoblasts and osteocytes and may therefore play an important role in load-induced bone remodeling. The objective of this study was to investigate the characteristics of flow-activated pathways. Previously we reported that fluid flow stimulates rapid and continuous release of nitric oxide (NO) in primary rat calvarial osteoblasts. Here we demonstrate that flow-induced NO release is mediated by shear stress and that this response is distinctly biphasic. Transients in shear stress associated with the onset of flow stimulated a burst in NO production (8.2 nmol/mg of protein/h), while steady flow stimulated sustained NO production (2.2 nmol/mg of protein/h). Both G-protein inhibition and calcium chelation abolished the burst phase but had no effect on sustained production. Activation of G-proteins stimulated dose-dependent NO release in static cultures of both calvarial osteoblasts and UMR-106 osteoblast-like cells. Pertussis toxin had no effect on NO release. Calcium ionophore stimulated low levels of NO production within 15 minutes but had no effect on sustained production. Taken together, these data suggest that fluid shear stress stimulates NO release by two distinct pathways: a G-protein and calcium-dependent phase sensitive to flow transients, and a G-protein and calcium-independent pathway stimulated by sustained flow.

Characterizing subsurface water flow to artificial drain lines using fiber-optic distributed temperature sensing

NASA Astrophysics Data System (ADS)

Shults, D.; Brooks, E. S.; Heinse, R.; Keller, C. K.

2017-12-01

Over the last several years growers have experienced increasingly wet spring conditions in the Palouse Region located in North Idaho, Eastern Washington and Eastern Oregon. As a result more artificial drain lines are being installed so growers can access their fields earlier in the growing season. Additionally there has been increasing adoption of no-tillage practices among growers in order minimize erosion and runoff in the region. There is a growing body of evidence that suggests long-term no-tillage may lead to the establishment of large macropore networks through increased earthworm activity and the preservation of root channels. These macropore networks, in conjunctions with the presence of artificial drains lines, may create connected preferential flow paths from agricultural fields to receiving streams. This connectivity of flow paths from agricultural fields to receiving water bodies may increase the loading of nutrients and agricultural chemicals as some flow paths may largely bypass soil matrix interaction where materials can be sequestered. Our primary objective for this study was to characterize subsurface flow to two artificial drain lines, one under conventional tillage and the other under no-tillage, using distributed temperature sensing (DTS) technology. During the study (November 2016-April 2017) the near surface soil-water temperature was consistently colder than that of deeper depths. Temperature was thus used as a tracer as snow melt and soil-water moved from the near surface to the drain lines during snowmelt and precipitation events. The spatial and temporal variability of the temperature along the artificial drain line under no-tillage practices was found to be greater than that of the conventional tilled field. It is hypothesized that preferential flow paths are responsible for the increased variability of temperature seen in the drain line under long term no-till management. The temperature along the conventional till drain line showed a dampened response to snow melt and precipitation events during the winter indicating matrix flow was the predominate flow mechanism. In addition to temperature traces, water chemistry (electrical conductivity, pH and nitrate) and discharge measurements were collected at the outlet of each drain line as well as at access ports along the drain lines.

Phase and flow behavior of mixed gas hydrate systems during gas injection

NASA Astrophysics Data System (ADS)

Darnell, K.; Flemings, P. B.; DiCarlo, D. A.

2017-12-01

We present one-dimensional, multi-phase flow model results for injections of carbon dioxide and nitrogen mixtures, or flue gas, into methane hydrate bearing reservoirs. Our flow model is coupled to a thermodynamic simulator that predicts phase stabilities as a function of composition, so multiple phases can appear, disappear, or change composition as the injection invades the reservoir. We show that the coupling of multi-phase fluid flow with phase behavior causes preferential phase fractionation in which each component flows through the system at different speeds and in different phases. We further demonstrate that phase and flow behavior within the reservoir are driven by hydrate stability of each individual component in addition to the hydrate stability of the injection composition. For example, if carbon dioxide and nitrogen are both individually hydrate stable at the reservoir P-T conditions, then any injection composition will convert all available water into hydrate and plug the reservoir. In contrast, if only carbon dioxide is hydrate stable at the reservoir P-T conditions, then nitrogen preferentially stays in the gaseous phase, while the carbon dioxide partitions into the hydrate and liquid water phases. For all injections of this type, methane originally held in hydrate is released by dissociation into the nitrogen-rich gaseous phase. The net consequence is that a gas phase composed of nitrogen and methane propagates through the reservoir in a fast-moving front. A slower-moving front lags behind where carbon dioxide and nitrogen form a mixed hydrate, but methane is absent due to dissociation-induced methane stripping from the first, fast-moving front. The entire composition path traces through the phase space as the flow develops with each front moving at different, constant velocities. This behavior is qualitatively similar to the dynamics present in enhanced oil recovery or enhanced coalbed methane recovery. These results explain why the inclusion of nitrogen in mixed gas injection into methane hydrate reservoirs has been far more successful at producing methane than pure carbon dioxide injections. These results also provide a test for the validity of equilibrium thermodynamics in transport-dominated mixed hydrate systems that can be validated by laboratory-scale flow-through experiments.

Do natural biofilm impact nZVI mobility and interactions with porous media? A column study.

PubMed

Crampon, Marc; Hellal, Jennifer; Mouvet, Christophe; Wille, Guillaume; Michel, Caroline; Wiener, Anke; Braun, Juergen; Ollivier, Patrick

2018-01-01

Nanoparticles (NP) used as remediation agents for groundwater treatment may interact with biofilms naturally present, altering NP mobility and/or reactivity and thereby NP effectiveness. The influence of the presence of a multi species biofilm on the mobility of two types of zero-valent iron NP (nZVI; NANOFER 25S and optimized NANOFER STAR, NanoIron s.r.o. (Czech Republic)) was tested in laboratory experiments with columns mimicking aquifer conditions. Biofilms were grown in columns filled with sand in nitrate reducing conditions using groundwater from an industrial site as inoculum. After two months growth, they were composed of several bacterial species, dominated by Pseudomonas stutzeri. Biofilm strongly affected the physical characteristics of the sand, decreasing total porosity from ~30% to ~15%, and creating preferential pathways with high flow velocities. nZVI suspensions were injected into the columns at a seepage velocity of 10mday - 1 . Presence of biofilm did not impact the concentrations of Fe at the column outlet nor the amount of total Fe retained in the sand, as attested by the measurement of magnetic susceptibility. However, it had a significant impact on NP size sorting as well as on total Fe distribution along the column. This suggests nZVI-biofilm interactions that were confirmed by microscopic observations using SEM/STEM coupled with energy-dispersive X-ray spectroscopy. Our study shows that biofilm modifies the water flow velocity in the porous media, favoring the transport of large aggregates and decreased NP mobility due to physical and chemical interactions. Copyright © 2017 Elsevier B.V. All rights reserved.

Kinetic Studies of Iron Deposition in Horse Spleen Ferritin Using H2O2 and O2 as Oxidants

NASA Technical Reports Server (NTRS)

Lowery, Thomas J., Jr.; Bunker, Jared; Zhang, Bo; Costen, Robert; Watt, Gerald D.

2004-01-01

The reaction of horse spleen ferritin (HoSF) with Fe(2+) at pH 6.5 and 7.5 using O2, H2O2 and 1:1 a mixture of both showed that the iron deposition reaction using H2O2 is approx. 20- to 50-fold faster than the reaction with O2 alone. When H2O2 was added during the iron deposition reaction initiated with O2 as oxidant, Fe(2+) was preferentially oxidized by H2O2, consistent with the above kinetic measurements. Both the O2 and H202 reactions were well defined from 15 to 40 C from which activation parameters were determined. The iron deposition reaction was also studied using O2 as oxidant in the presence and absence of catalase using both stopped-flow and pumped-flow measurements. The presence of catalase decreased the rate of iron deposition by approx. 1.5-fold, and gave slightly smaller absorbance changes than in its absence. From the rate constants for the O2 (0.044 per second) and H2O2 (0.67 per second) iron-deposition reactions at pH 7.5, simulations of steady-state H2O2 concentrations were computed to be 0.45 micromolar. This low value and reported Fe2(+)/O2 values of 2.0-2.5 are consistent with H2O2 rapidly reacting by an alternate but unidentified pathway involving a system component such as the protein shell or the mineral core as previously postulated.

Characterization of a fluvial aquifer at a range of depths and scales: the Triassic St Bees Sandstone Formation, Cumbria, UK

NASA Astrophysics Data System (ADS)

Medici, Giacomo; West, L. J.; Mountney, N. P.

2018-03-01

Fluvial sedimentary successions represent porous media that host groundwater and geothermal resources. Additionally, they overlie crystalline rocks hosting nuclear waste repositories in rift settings. The permeability characteristics of an arenaceous fluvial succession, the Triassic St Bees Sandstone Formation in England (UK), are described, from core-plug to well-test scale up to 1 km depth. Within such lithified successions, dissolution associated with the circulation of meteoric water results in increased permeability ( K 10-1-100 m/day) to depths of at least 150 m below ground level (BGL) in aquifer systems that are subject to rapid groundwater circulation. Thus, contaminant transport is likely to occur at relatively high rates. In a deeper investigation (> 150 m depth), where the aquifer has not been subjected to rapid groundwater circulation, well-test-scale hydraulic conductivity is lower, decreasing from K 10-2 m/day at 150-400 m BGL to 10-3 m/day down-dip at 1 km BGL, where the pore fluid is hypersaline. Here, pore-scale permeability becomes progressively dominant with increasing lithostatic load. Notably, this work investigates a sandstone aquifer of fluvial origin at investigation depths consistent with highly enthalpy geothermal reservoirs ( 0.7-1.1 km). At such depths, intergranular flow dominates in unfaulted areas with only minor contribution by bedding plane fractures. However, extensional faults represent preferential flow pathways, due to presence of high connective open fractures. Therefore, such faults may (1) drive nuclear waste contaminants towards the highly permeable shallow (< 150 m BGL) zone of the aquifer, and (2) influence fluid recovery in geothermal fields.

Transcriptomic basis of functional difference and coordination between seeds and the silique wall of Brassica napus during the seed-filling stage.

PubMed

Liu, Han; Yang, Qingyong; Fan, Chuchuan; Zhao, Xiaoqin; Wang, Xuemin; Zhou, Yongming

2015-04-01

The silique of oilseed rape (Brassica napus) is a composite organ including seeds and the silique wall (SW) that possesses distinctly physiological, biochemical and functional differentiations. Yet, the molecular events controlling such differences between the SW and seeds, as well as their coordination during silique development at transcriptional level are largely unknown. Here, we identified large sets of differentially expressed genes in the SW and seeds of siliques at 21-22 days after flowering with a Brassica 95K EST microarray. At this particular stage, there were 3278 SW preferentially expressed genes and 2425 seed preferentially expressed genes. Using the MapMan visualization software, genes differentially regulated in various metabolic pathways and sub-pathways between the SW and seeds were revealed. Photosynthesis and transport-related genes were more actively transcripted in the SW, while those involved in lipid metabolism were more active in seeds during the seed filling stage. On the other hand, genes involved in secondary metabolisms were selectively regulated in the SW and seeds. Large numbers of transcription factors were identified to be differentially expressed between the SW and seeds, suggesting a complex pattern of transcriptional control in these two organs. Furthermore, most genes discussed in categories or pathways showed a similar expression pattern through 21 DAF to 42 DAF. Our results thus provide insights into the coordination of seeds and the SW in the developing silique at the transcriptional levels, which will facilitate the functional studies of important genes for improving B. napus seed productivity and quality. Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.

Increase in ubiquitin-protein conjugates concomitant with the increase in proteolysis in rat skeletal muscle during starvation and atrophy denervation

NASA Technical Reports Server (NTRS)

Wing, S. S.; Haas, A. L.; Goldberg, A. L.

1995-01-01

The rapid loss of skeletal-muscle protein during starvation and after denervation occurs primarily through increased rates of protein breakdown and activation of a non-lysosomal ATP-dependent proteolytic process. To investigate whether protein flux through the ubiquitin (Ub)-proteasome pathway is enhanced, as was suggested by related studies, we measured, using specific polyclonal antibodies, the levels of Ub-conjugated proteins in normal and atrophying muscles. The content of these critical intermediates had increased 50-250% after food deprivation in the extensor digitorum longus and soleus muscles 2 days after denervation. Like rates of proteolysis, the amount of Ub-protein conjugates and the fraction of Ub conjugated to proteins increased progressively during food deprivation and returned to normal within 1 day of refeeding. During starvation, muscles of adrenalectomized rats failed to increase protein breakdown, and they showed 50% lower levels of Ub-protein conjugates than those of starved control animals. The changes in the pools of Ub-conjugated proteins (the substrates for the 26S proteasome) thus coincided with and can account for the alterations in overall proteolysis. In this pathway, large multiubiquitinated proteins are preferentially degraded, and the Ub-protein conjugates that accumulated in atrophying muscles were of high molecular mass (> 100 kDa). When innervated and denervated gastrocnemius muscles were fractionated, a significant increase in ubiquitinated proteins was found in the myofibrillar fraction, the proteins of which are preferentially degraded on denervation, but not in the soluble fraction. Thus activation of this proteolytic pathway in atrophying muscles probably occurs initially by increasing Ub conjugation to cell proteins. The resulting accumulation of Ub-protein conjugates suggests that their degradation by the 26S proteasome complex subsequently becomes rate-limiting in these catabolic states.

The photochemistry in Photosystem II at 5 K is different in visible and far-red light.

PubMed

Mokvist, Fredrik; Sjöholm, Johannes; Mamedov, Fikret; Styring, Stenbjörn

2014-07-08

We have earlier shown that all electron transfer reactions in Photosystem II are operational up to 800 nm at room temperature [Thapper, A., et al. (2009) Plant Cell 21, 2391-2401]. This led us to suggest an alternative charge separation pathway for far-red excitation. Here we extend these studies to a very low temperature (5 K). Illumination of Photosystem II (PS II) with visible light at 5 K is known to result in oxidation of almost similar amounts of YZ and the Cyt b559/ChlZ/CarD2 pathway. This is reproduced here using laser flashes at 532 nm, and we find the partition ratio between the two pathways to be 1:0.8 at 5 K [the partition ratio is here defined as (yield of YZ/CaMn4 oxidation):(yield of Cyt b559/ChlZ/CarD2 oxidation)]. The result using far-red laser flashes is very different. We find partition ratios of 1.8 at 730 nm, 2.7 at 740 nm, and >2.7 at 750 nm. No photochemistry involving these pathways is observed above 750 nm at this temperature. Thus, far-red illumination preferentially oxidizes YZ, while the Cyt b559/ChlZ/CarD2 pathway is hardly touched. We propose that the difference in the partition ratio between visible and far-red light at 5 K reflects the formation of a different first stable charge pair. In visible light, the first stable charge pair is considered to be PD1+QA-. In contrast, we propose that the electron hole is residing on the ChlD1 molecule after illumination by far-red light at 5 K, resulting in the first stable charge pair being ChlD1+QA-. ChlD1 is much closer to YZ (11.3 Å) than to any component in the Cyt b559/ChlZ/CarD2 pathway (shortest ChlD1-CarD2 distance of 28.8 Å). This would then explain that far-red illumination preferentially drives efficient electron transfer from YZ. We also discuss mechanisms for accounting for the absorption of the far-red light and the existence of hitherto unobserved charge transfer states. The involvement of two or more of the porphyrin molecules in the core of the Photosystem II reaction center is proposed.

A feedback mechanism controlling SCRAMBLED receptor accumulation and cell-type pattern in Arabidopsis.

PubMed

Kwak, Su-Hwan; Schiefelbein, John

2008-12-23

Cellular pattern formation in the root epidermis of Arabidopsis occurs in a position-dependent manner, generating root-hair (H) cells contacting two underlying cortical cells and nonhair (N) cells contacting one cortical cell. SCRAMBLED (SCM), a leucine-rich repeat receptor-like kinase (LRR-RLK), mediates this process through its effect on a downstream transcription factor regulatory network. After perception of a positional cue, the SCM signaling pathway is proposed to preferentially repress WEREWOLF (WER) transcription factor expression in H cells and thereby bias the outcome of mutual lateral inhibition acting between H and N cells. However, the molecular mechanism responsible for this preferential SCM signaling is unknown. Here, we analyze the distribution of the SCM receptor and the biological effect of altering its accumulation pattern. We find that SCM expression and accumulation in the epidermal cell layer is necessary and sufficient to direct the cell-type pattern. Further, SCM preferentially accumulates in H cells, and this accumulation pattern is dependent on the downstream transcription factors. Thus, SCM participates in an autoregulatory feedback loop, enabling cells engaged in SCM signaling to maintain high levels of SCM receptor, which provides a simple mechanism for reinforcing a bias in receptor-mediated signaling to ensure robust pattern formation.

Flow pathways in the Slapton Wood catchment using temperature as a tracer

NASA Astrophysics Data System (ADS)

Birkinshaw, Stephen J.; Webb, Bruce

2010-03-01

SummaryThis study investigates the potential of temperature as a tracer to provide insights into flow pathways. The approach couples fieldwork and modelling experiments for the Eastergrounds Hollow within the Slapton Wood catchment, South Devon, UK. Measurements in the Eastergrounds Hollow were carried out for soil temperature, spring temperature, and the stream temperature and use was made of an existing 1989-1991 data set for the entire Slapton Wood catchment. The predominant flow in this hollow is a result of subsurface stormflow, and previous work has suggested that the water flows vertically down through the soil and then subsurface stormflow occurs at the soil/bedrock interface where the water is deflected laterally. The depth of the subsurface stormflow was previously thought to be around 2.2 m. However, analysis of the new spring, stream and soil temperature data suggests a deeper pathway for the subsurface stormflow. Modelling of water flow and heat transport was carried out using SHETRAN and this was calibrated to reproduce the water flow in the entire Slapton Wood catchment and soil temperatures in the Eastergrounds Hollow. The model was tested for the entire Eastergrounds Hollow with two different soil depths. A depth of 2.2 m, based on previous knowledge, was unable to reproduce the Eastergrounds spring temperature. A depth of 3.7 m produced an excellent comparison between measured and simulated stream and spring temperatures in the Eastergrounds Hollow. This work suggests that the depth of the flow pathways that produce the subsurface stormflow are deeper than previously thought. It also provides a demonstration on the use of temperature as a tracer to understand flow pathways.

Multiple Genetic Pathways Involving Amino Acid Position 143 of HIV-1 Integrase Are Preferentially Associated with Specific Secondary Amino Acid Substitutions and Confer Resistance to Raltegravir and Cross-Resistance to Elvitegravir

PubMed Central

Frantzell, Arne; Fransen, Signe; Petropoulos, Christos J.

2013-01-01

Y143C,R substitutions in HIV-1 integrase define one of three primary raltegravir (RAL) resistance pathways. Here we describe clinical isolates with alternative substitutions at position 143 (Y143A, Y143G, Y143H, and Y143S [Y143A,G,H,S]) that emerge less frequently, and we compare the genotypic and phenotypic profiles of these viruses to Y143C,R viruses to reconcile the preferential selection of Y143C,R variants during RAL treatment. Integrase amino acid sequences and RAL susceptibility were characterized in 117 patient isolates submitted for drug resistance testing and contained Y143 amino acid changes. The influence of specific Y143 substitutions on RAL susceptibility and their preferential association with particular secondary substitutions were further defined by evaluating the composition of patient virus populations along with a large panel of site-directed mutants. Our observations demonstrate that the RAL resistance profiles of Y143A,G,H,S viruses and their association with specific secondary substitutions are similar to the well-established Y143C profile but distinct from the Y143R profile. Y143R viruses differ from Y143A,C,G,H,S viruses in that Y143R confers a greater reduction in RAL susceptibility as a single substitution, consistent with a lower resistance barrier. Among Y143A,C,G,H,S viruses, the higher prevalence of Y143C viruses is the result of a lower genetic barrier than that of the Y143A,G,S viruses and a lower resistance barrier than that of the Y143H viruses. In addition, Y143A,C,G,H,S viruses require multiple secondary substitutions to develop large reductions in RAL susceptibility. Patient-derived viruses containing Y143 substitutions exhibit cross-resistance to elvitegravir. PMID:23733474

Mouse mammary tumor virus-based vector transduces non-dividing cells, enters the nucleus via a TNPO3-independent pathway and integrates in a less biased fashion than other retroviruses.

PubMed

Konstantoulas, Constantine James; Indik, Stanislav

2014-04-30

Mouse mammary tumor virus (MMTV) is a complex, milk-born betaretrovirus, which preferentially infects dendritic cells (DC) in the gastrointestinal tract and then spreads to T and B lymphocytes and finally to the mammary gland. It is not clear how the prototypic betaretrovirus infects mucosal DCs and naïve lymphocytes as these cells are considered to be non-proliferative. Studies of MMTV biology have been hampered by the difficulty of obtaining sufficient virus/vector titers after transfection of a molecular clone in cultured cells. To surmount this barrier we developed a novel MMTV-based vector system with a split genome design containing potent posttranscriptional regulatory functions. Using this system, vector particles were produced to markedly greater titers (>1000-fold) than those obtained previously. The titers (>106 transduction units /ml) were comparable to those achieved with lentiviral or gammaretroviral vectors. Importantly, the vector transduced the enhanced green fluorescence protein gene into the chromosomes of non-dividing cells, such as cells arrested at the G2/M phase of the cell cycle and unstimulated hematopoietic progenitor cells, at an efficiency similar to that obtained with the HIV-1-based vector. In contrast to HIV-1, MMTV transductions were not affected by knocking down the expression of a factor involved in nuclear import of the HIV-1 pre-integration complexes, TNPO3. In contrast to HIV-1, the MMTV-based vector did not preferentially integrate in transcription units. Additionally, no preference for integration near transcription start sites, the regions preferentially targeted by gammaretroviral vectors, was observed. The vector derived from MMTV exhibits a random integration pattern. Overall, the betaretroviral vector system should facilitate molecular virology studies of the prototypic betaretrovirus as well as studies attempting to elucidate fundamental cellular processes such as nuclear import pathways. Random integration in cycling and non-cycling cells may be applicable in unbiased gene delivery.

Gaussian or non-Gaussian logconductivity distribution at the MADE site: What is its impact on the breakthrough curve?

PubMed

Fiori, Aldo; Volpi, Elena; Zarlenga, Antonio; Bohling, Geoffrey C

2015-08-01

The impact of the logconductivity (Y=ln K) distribution fY on transport at the MADE site is analyzed. Our principal interest is in non-Gaussian fY characterized by heavier tails than the Gaussian. Both the logconductivity moments and fY itself are inferred, taking advantage of the detailed measurements of Bohling et al. (2012). The resulting logconductivity distribution displays heavier tails than the Gaussian, although the departure from Gaussianity is not significant. The effect of the logconductivity distribution on the breakthrough curve (BTC) is studied through an analytical, physically based model. It is found that the non-Gaussianity of the MADE logconductivity distribution does not strongly affect the BTC. Counterintuitively, assuming heavier tailed distributions for Y, with same variance, leads to BTCs which are more symmetrical than those for the Gaussian fY, with less pronounced preferential flow. Results indicate that the impact of strongly non-Gaussian, heavy tailed distributions on solute transport in heterogeneous porous formations can be significant, especially in the presence of high heterogeneity, resulting in reduced preferential flow and retarded peak arrivals. Copyright © 2015 Elsevier B.V. All rights reserved.

Method for packing chromatographic beds

DOEpatents

Freeman, David H.; Angeles, Rosalie M.; Keller, Suzanne

1991-01-01

Column chromatography beds are packed through the application of static force. A slurry of the chromatography bed material and a non-viscous liquid is filled into the column plugged at one end, and allowed to settle. The column is transferred to a centrifuge, and centrifuged for a brief period of time to achieve a predetermined packing level, at a range generally of 100-5,000 gravities. Thereafter, the plug is removed, other fixtures may be secured, and the liquid is allowed to flow out through the bed. This results in an evenly packed bed, with no channeling or preferential flow characteristics.

Membraneless seawater desalination

DOEpatents

Crooks, Richard A.; Knust, Kyle N.; Perdue, Robbyn K.

2018-04-03

Disclosed are microfluidic devices and systems for the desalination of water. The devices and systems can include an electrode configured to generate an electric field gradient in proximity to an intersection formed by the divergence of two microfluidic channels from an inlet channel. Under an applied bias and in the presence of a pressure driven flow of saltwater, the electric field gradient can preferentially direct ions in saltwater into one of the diverging microfluidic channels, while desalted water flows into second diverging channel. Also provided are methods of using the devices and systems described herein to decrease the salinity of water.

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

Challabotla, Niranjan Reddy; Zhao, Lihao; Andersson, Helge I.

The rotational motion of inertia-free spheroids has been studied in a numerically simulated turbulent channel flow. Although inertia-free spheroids were translated as tracers with the flow, neither the disk-like nor the rod-like particles adapted to the fluid rotation. The flattest disks preferentially aligned their symmetry axes normal to the wall, whereas the longest rods were parallel with the wall. The shape-dependence of the particle orientations carried over to the particle rotation such that the mean spin was reduced with increasing departure from sphericity. The streamwise spin fluctuations were enhanced due to asphericity, but substantially more for prolate than for oblatemore » spheroids.« less

Reactive oxygen species-mediated synergistic and preferential induction of cell death and reduction of clonogenic resistance in breast cancer cells by combined cisplatin and FK228.

PubMed

Pluchino, Lenora Ann; Choudhary, Shambhunath; Wang, Hwa-Chain Robert

2016-10-10

Safe and effective combination chemotherapy regimens against breast cancer are lacking. We used our cellular system, consisting of the non-cancerous human breast epithelial MCF10A cell line and its derived tumorigenic, oncogenic H-Ras-expressing, MCF10A-Ras cell line, to investigate the effectiveness of a combination chemotherapy regimen in treating breast cancer cells using two FDA-approved agents, cisplatin and FK228. Cisplatin and FK228 significantly, synergistically, and preferentially induced death and reduced drug resistance of MCF10A-Ras versus MCF10A cells. The ERK-Nox-ROS pathway played a major role in both synergistic cell death induction and GSH-level reduction, which contributed to the synergistic suppression of drug resistance in cells. Enhancement of the Ras-ERK-Nox pathway by combined cisplatin and FK228 significantly increased ROS levels, leading to induction of death, reduction of drug resistance, and induction of DNA damage and oxidation in cancerous MCF10A-Ras cells. Furthermore, synergistic induction of cell death and reduction of drug resistance by combined cisplatin and FK228 in breast cells is independent of their estrogen receptor status. Our study suggests that combined cisplatin and FK228 should be considered in clinical trials as a new regimen for therapeutic control of breast cancers. Copyright © 2016 Elsevier Ireland Ltd. All rights reserved.

Episodic soil succession on basaltic lava fields in a cool, dry environment

USGS Publications Warehouse

Vaughan, K.L.; McDaniel, P.A.; Phillips, W.M.

2011-01-01

Holocene- to late Pleistocene-aged lava flows at Craters of the Moon National Monument and Preserve provide an ideal setting to examine the early stages of soil formation under cool, dry conditions. Transects were used to characterize the amount and nature of soil cover on across basaltic lava flows ranging in age from 2.1 to 18.4 ka. Results indicate that on flows <13 ka, very shallow organic soils (Folists in Soil Taxonomy) are the dominant soil type, providing an areal coverage of up to ∼25%. On flows ≥13.9 ka, deeper mineral soils including Entisols, Aridisols, and Mollisols become dominant and the areal extent increases to ≥95% on flows older than 18.4 ka. These data suggest there are two distinct pedogenic pathways associated with lava flows of the region. The first pathway is illustrated by the younger flows, where Folists dominate. In the absence of a major source of loess, relatively little mineral material accumulates and soils provide only minor coverage of the lava flows. Our results indicate that this pathway of soil development has not changed appreciably over the past ∼10 ka. The second pedogenic pathway is illustrated by the flows older than 13.9 ka. These flows have been subject to deposition of large quantities of loess during and after the last regional glaciation, resulting in almost complete coverage. Subsequent pedogenesis has given rise to Aridisols and Mollisols with calcic and cambic horizons and mollic epipedons. This research highlights the importance of regional climate change on the evolution of Craters of the Moon soilscapes.

Relation of pathways and transit times of recharge water to nitrate concentrations using stable isotopes

USGS Publications Warehouse

Landon, M.K.; Delin, G.N.; Komor, S.C.; Regan, C.P.

2000-01-01

Oxygen and hydrogen stable isotope values of precipitation, irrigation water, soil water, and ground water were used with soil-moisture contents and water levels to estimate transit times and pathways of recharge water in the unsaturated zone of a sand and gravel aquifer. Nitrate-nitrogen (nitrate) concentrations in ground water were also measured to assess their relation to seasonal recharge. Stable isotope values indicated that recharge water usually had a transit time through the unsaturated zone of several weeks to months. However, wetting fronts usually moved through the unsaturated zone in hours to weeks. The much slower transit of isotopic signals than that of wetting fronts indicates that recharge was predominantly composed of older soil water that was displaced downward by more recent infiltrating water. Comparison of observed and simulated isotopic values from pure-piston flow and mixing-cell water and isotope mass balance models indicates that soil water isotopic values were usually highly mixed. Thus, movement of recharge water did not occur following a pure piston-flow displacement model but rather follows a hydrid model involving displacement of mixed older soil water with new infiltration water. An exception to this model occurred in a topographic depression, where movement of water along preferential flowpaths to the water table occurred within hours to days following spring thaw as result of depression-focused infiltration of snow melt. In an adjacent upland area, recharge of snow melt occurred one to two months later. Increases in nitrate concentrations at the water table during April-May 1993 and 1994 in a topographic lowland within a corn field were related to recharge of water that had infiltrated the previous summer and was displaced from the unsaturated zone by spring infiltration. Increases in nitrate concentrations also occurred during July-August 1994 in response to recharge of water that infiltrated during May-August 1994. These results indicate that the largest ground water nitrate concentrations were associated with recharge of water that infiltrated into the soil during May-August, when most nitrogen fertilizer was applied.

Apparatus for in situ heating and vitrification

DOEpatents

Buelt, James L.; Oma, Kenton H.; Eschbach, Eugene A.

1994-01-01

An apparatus for decontaminating ground areas where toxic chemicals are buried includes a plurality of spaced electrodes located in the ground and to which a voltage is applied for bringing about current flow. Power delivered to the ground volatilizes the chemicals that are then collected and directed to a gas treatment system. A preferred form of the invention employs high voltage arc discharge between the electrodes for heating a ground region to relatively high temperatures at relatively low power levels. Electrodes according to the present invention are provided with preferentially active lower portions between which current flows for the purpose of soil heating or for soil melting and vitrification. Promoting current flow below ground level avoids predominantly superficial treatment and increases electrode life.

Apparatus for in situ heating and vitrification

DOEpatents

Buelt, J.L.; Oma, K.H.; Eschbach, E.A.

1994-05-31

An apparatus for decontaminating ground areas where toxic chemicals are buried includes a plurality of spaced electrodes located in the ground and to which a voltage is applied for bringing about current flow. Power delivered to the ground volatilizes the chemicals that are then collected and directed to a gas treatment system. A preferred form of the invention employs high voltage arc discharge between the electrodes for heating a ground region to relatively high temperatures at relatively low power levels. Electrodes according to the present invention are provided with preferentially active lower portions between which current flows for the purpose of soil heating or for soil melting and vitrification. Promoting current flow below ground level avoids predominantly superficial treatment and increases electrode life. 15 figs.

Consideration of grain packing in granular iron treatability studies

NASA Astrophysics Data System (ADS)

Firdous, R.; Devlin, J. F.

2014-08-01

Commercial granular iron (GI) is light steel that is used in Permeable Reactive Barriers (PRBs). Investigations into the reactivity of GI have focused on its chemical nature and relatively little direct work has been done to account for the effects of grain shape and packing. Both of these factors are expected to influence available grain surface area, which is known to correlate to reactivity. Commercial granular iron grains are platy and therefore pack in preferential orientations that could affect solution access to the surface. Three packing variations were investigated using Connelly Iron and trichloroethylene (TCE). Experimental kinetic data showed reaction rates 2-4 times higher when grains were packed with long axes preferentially parallel to flow (VP) compared to packings with long axes preferentially perpendicular to flow (HP) or randomly arranged (RP). The variations were found to be explainable by variations in reactive sorption capacities, i.e., sorption to sites where chemical transformations took place. The possibility that the different reactive sorption capacities were related to physical pore-scale differences was assessed by conducting an image analysis of the pore structure of sectioned columns. The analyses suggested that pore-scale factors - in particular the grain surface availability, reflected in the sorption capacity terms of the kinetic model used - could only account for a fraction of the observed reactivity differences between packing types. It is concluded that packing does affect observable reaction rates but that micro-scale features on the grain surfaces, rather than the pore scale characteristics, account for most of the apparent reactivity differences. This result suggests that treatability tests should consider the packing of columns carefully if they are to mimic field performance of PRBs to the greatest extent possible.

Climatic controls on arid continental basin margin systems

NASA Astrophysics Data System (ADS)

Gough, Amy; Clarke, Stuart; Richards, Philip; Milodowski, Antoni

2016-04-01

Alluvial fans are both dominant and long-lived within continental basin margin systems. As a result, they commonly interact with a variety of depositional systems that exist at different times in the distal extent of the basin as the basin evolves. The deposits of the distal basin often cycle between those with the potential to act as good aquifers and those with the potential to act as good aquitards. The interactions between the distal deposits and the basin margin fans can have a significant impact upon basin-scale fluid flow. The fans themselves are commonly considered as relatively homogeneous, but their sedimentology is controlled by a variety of factors, including: 1) differing depositional mechanisms; 2) localised autocyclic controls; 3) geometrical and temporal interactions with deposits of the basin centre; and, 4) long-term allocyclic climatic variations. This work examines the basin margin systems of the Cutler Group sediments of the Paradox Basin, western U.S.A and presents generalised facies models for the Cutler Group alluvial fans as well as for the zone of interaction between these fans and the contemporaneous environments in the basin centre, at a variety of scales. Small-scale controls on deposition include climate, tectonics, base level and sediment supply. It has been ascertained that long-term climatic alterations were the main control on these depositional systems. Models have been constructed to highlight how both long-term and short-term alterations in the climatic regime can affect the sedimentation in the basin. These models can be applied to better understand similar, but poorly exposed, alluvial fan deposits. The alluvial fans of the Brockram Facies, northern England form part of a once-proposed site for low-level nuclear waste decommissioning. As such, it is important to understand the sedimentology, three-dimensional geometry, and the proposed connectivity of the deposits from the perspective of basin-scale fluid flow. The developed models suggest that the deposits of the Brockram alluvial fans have the potential to contain numerous preferential flow zones. Where these flow zones are adjacent to the unique deposits of the zone of interaction it affects basin-scale fluid flow by: 1) interconnecting decent reservoirs in the distal extent of the basin; 2) creating flow pathways away from these reservoirs; 3) introducing secondary baffles into the system; and, 4) creating a bypass to charge these distal reservoirs.

Renal hemodynamics: the influence of the renal artery ostium flow diverter

NASA Astrophysics Data System (ADS)

Rossmann, Jenn Stroud; Albert, Scott; Balaban, Robert

2013-11-01

The recently identified renal artery ostium flow diverter may preferentially direct blood flow to the renal arteries, and may also influence flow patterns and recirculation known to be involved in atherogenesis. Three-dimensional computational fluid dynamics (CFD) simulations of steady and pulsatile blood flow are performed to investigate the influence of diverter size and position, and vascular geometry, on the flow patterns and fluid mechanical forces in the neighborhood of the diverter. CFD results show that the flow diverter does affect the blood distribution: depending on the diverter's position, the flow to the renal arteries may be increased or reduced. The results of simulations also show the diverter's effect on the Wall Shear Stress (WSS) distribution, and suggest that the diverter contributes to an atherogenic environment in the abdominal aorta, while being atheroprotective in the renal arteries themselves. These results support previous clinical findings, and suggest directions for further clinical study. The results of this work have direct implications in understanding the physiological significance of the diverter, and its potential role in the pathophysiological development of atherosclerosis.

Geology, hydrology, and results of tracer testing in the Galena-Platteville aquifer at a waste-disposal site near Byron, Illinois

USGS Publications Warehouse

Kay, Robert T.; Yeskis, Douglas J.; Prinos, Scott T.; Morrow, William S.; Vendl, Mark

1999-01-01

A study was conducted by the U.S. Geological Survey and the U.S. Environmental Protection Agency of the geohydrology of the dolomite bedrock at a waste-disposal site near Byron, Illinois. The study was designed to identify and characterize the flow pathways through the bedrock aquifer beneath the site. The geologic units of concern at the site are the Glenwood Formation of the Ancell Group, and the Platteville and Galena Groups. These deposits compose the Galena-Platteville aquifer and the underlying Harmony Hill Shale semiconfining unit. The Galena-Platteville aquifer is an unconfined aquifer. Geophysical logging, water levels, and aquifer-test data indicate the presence of interconnected, hydraulically active fractures in the middle of the Galena-Platteville aquifer (the upper flow pathway), and a second set of hydraulically active fractures (the lower flow pathway). The lower flow pathway may be present through much of the site. Few hydraulically active fractures are present in the upper part of the aquifer near the center of the site, but appear to be more numerous in the upper part of the aquifer in the western and northeastern parts of the site. Water-level data obtained during the tracer test indicate that pumping effects were present near the pumped wells. Pumping effects may have been present at several wells located along directions of identified fracture orientation from the pumped well. The upper part of the aquifer did not appear to be hydraulically well connected to the flow pathways supplying water to the pumped well. Large background changes in water levels obscured the effects of pumping and prevented calculation of aquifer properties. The velocity of the bromide tracer through the lower flow pathway under the hydraulic gradient resulting from the pumping was about 152 feet per day. Solution of the Darcy velocity equation results in a calculated effective porosity for this interval of 3.5 percent, indicating hydraulic interconnection between the fractures and the aquifer matrix. Ground-water velocity through the lower flow pathway was calculated to be 15.4 feet per day under hydrostatic conditions.

Behavioural and biochemical responses following activation of midbrain dopamine pathways by receptor selective neurokinin agonists.

PubMed

Elliott, P J; Mason, G S; Stephens-Smith, M; Hagan, R M

1991-06-01

Preferential activation of mesolimbic and nigro-striatal dopamine (DA) pathways by receptor-selective and peptidase-resistant neurokinin (NK) agonists is reported. The DA cell body region of the mesolimbic pathway appears to be activated by NK agonists selective for NK-1 and NK-3 receptors whereas the DA cell bodies in the substantia nigra are under an excitatory NK-2 receptor-mediated influence. Stimulation of the mesolimbic DA pathway by NK-1 (Ava[L-Pro9,N-Me-Leu10]SP (7-11) [GR73632]) or NK-3 (Senktide) agonists increase locomotor activity. Additional studies showed that this elevated motor response observed after intra-VTA infusion of GR73632 was accompanied by a corresponding increase in DA turnover in the terminal fields of this pathway. Similarly, unilateral activation of the nigro-striatal DA pathway by NK-2 selective agonists (Ava (D-Pro9) SP (7-11) [GR51667] or [Lys3,Gly8,R-Lac-Leu9]NKA (3-10) [GR64349]) elicit contralateral rotational activity and an increase in DA turnover in the ipsilateral striatum. The rotational response was attenuated by prior administration of an NK-2 antagonist (cyclo (Gln, Trp, Phe, Gly, Leu, Met)] L-659877]) into the nigra. Peripheral injection of haloperidol, a DA antagonist, also blocked the NK-2 agonist induced rotations.

Pathway enrichment based on text mining and its validation on carotenoid and vitamin A metabolism.

PubMed

Waagmeester, Andra; Pezik, Piotr; Coort, Susan; Tourniaire, Franck; Evelo, Chris; Rebholz-Schuhmann, Dietrich

2009-10-01

Carotenoid metabolism is relevant to the prevention of various diseases. Although the main actors in this metabolic pathway are known, our understanding of the pathway is still incomplete. The information on the carotenoids is scattered in the large and growing body of scientific literature. We designed a text-mining work flow to enrich existing pathways. It has been validated on the vitamin A pathway, which is a well-studied part of the carotenoid metabolism. In this study we used the vitamin A metabolism pathway as it has been described by an expert team on carotenoid metabolism from the European network of excellence in Nutrigenomics (NuGO). This work flow uses an initial set of publications cited in a review paper (1,191 publications), enlarges this corpus with Medline abstracts (13,579 documents), and then extracts the key terminology from all relevant publications. Domain experts validated the intermediate and final results of our text-mining work flow. With our approach we were able to enrich the pathway representing vitamin A metabolism. We found 37 new and relevant terms from a total of 89,086 terms, which have been qualified for inclusion in the analyzed pathway. These 37 terms have been assessed manually and as a result 13 new terms were then added as entities to the pathway. Another 14 entities belonged to other pathways, which could form the link of these pathways with the vitamin A pathway. The remaining 10 terms were classified as biomarkers or nutrients. Automatic literature analysis improves the enrichment of pathways with entities already described in the scientific literature.

Liver ischemia and ischemia-reperfusion induces and trafficks the multi-specific metal transporter Atp7b to bile duct canaliculi: possible preferential transport of iron into bile.

PubMed

Goss, John A; Barshes, Neal R; Karpen, Saul J; Gao, Feng-Qin; Wyllie, Samuel

2008-04-01

Both Atp7b (Wilson disease gene) and Atp7a (Menkes disease gene) have been reported to be trafficked by copper. Atp7b is trafficked to the bile duct canaliculi and Atp7a to the plasma membrane. Whether or not liver ischemia or ischemia-reperfusion modulates Atp7b expression and trafficking has not been reported. In this study, we report for the first time that the multi-specific metal transporter Atp7b is significantly induced and trafficked by both liver ischemia alone and liver ischemia-reperfusion, as judged by immunohistochemistry and Western blot analyses. Although hepatocytes also stained for Atp7b, localized intense staining of Atp7b was found on bile duct canaliculi. Inductive coupled plasma-mass spectrometry analysis of bile copper, iron, zinc, and manganese found a corresponding significant increase in biliary iron. In our attempt to determine if the increased biliary iron transport observed may be a result of altered bile flow, lysosomal trafficking, or glutathione biliary transport, we measured bile flow, bile acid phosphatase activity, and glutathione content. No significant difference was found in bile flow, bile acid phosphatase activity, and glutathione, between control livers and livers subjected to ischemia-reperfusion. Thus, we conclude that liver ischemia and ischemia-reperfusion induction and trafficking Atp7b to the bile duct canaliculi may contribute to preferential iron transport into bile.

Functional significance of differential eNOS translocation

PubMed Central

Sánchez, Fabiola A.; Savalia, Nirav B.; Durán, Ricardo G.; Lal, Brajesh K.; Boric, Mauricio P.; Durán, Walter N.

2006-01-01

Nitric oxide (NO) regulates flow and permeability. ACh and platelet-activating factor (PAF) lead to endothelial NO synthase (eNOS) phosphorylation and NO release. While ACh causes only vasodilation, PAF induces vasoconstriction and hyperpermeability. The key differential signaling mechanisms for discriminating between vasodilation and hyperpermeability are unknown. We tested the hypothesis that differential translocation may serve as a regulatory mechanism of eNOS to determine specific vascular responses. We used ECV-304 cells permanently transfected with eNOS-green fluorescent protein (ECVeNOS-GFP) and demonstrated that the agonists activate eNOS and reproduce their characteristic endothelial permeability effects in these cells. We evaluated eNOS localization by lipid raft analysis and immunofluorescence microscopy. After PAF and ACh, eNOS moves away from caveolae. eNOS distributes both in the plasma membrane and Golgi in control cells. ACh (10−5 M, 10−4 M) translocated eNOS preferentially to the trans-Golgi network (TGN) and PAF (10−7 M) preferentially to the cytosol. We suggest that PAF-induced eNOS translocation preferentially to cytosol reflects a differential signaling mechanism related to changes in permeability, whereas ACh-induced eNOS translocation to the TGN is related to vasodilation. PMID:16679407

Preferential Heating of Oxygen 5+ Ions by Finite-Amplitude Oblique Alfven Waves

NASA Technical Reports Server (NTRS)

Maneva, Yana G.; Vinas, Adolfo; Araneda, Jamie; Poedts, Stefaan

2016-01-01

Minor ions in the fast solar wind are known to have higher temperatures and to flow faster than protons in the interplanetary space. In this study we combine previous research on parametric instability theory and 2.5D hybrid simulations to study the onset of preferential heating of Oxygen 5+ ions by large-scale finite-amplitude Alfven waves in the collisionless fast solar wind. We consider initially non-drifting isotropic multi-species plasma, consisting of isothermal massless fluid electrons, kinetic protons and kinetic Oxygen 5+ ions. The external energy source for the plasma heating and energization are oblique monochromatic Alfven-cyclotron waves. The waves have been created by rotating the direction of initial parallel pump, which is a solution of the multi-fluid plasma dispersion relation. We consider propagation angles theta less than or equal to 30 deg. The obliquely propagating Alfven pump waves lead to strong diffusion in the ion phase space, resulting in highly anisotropic heavy ion velocity distribution functions and proton beams. We discuss the application of the model to the problems of preferential heating of minor ions in the solar corona and the fast solar wind.

Pressure-controlled injection of guar gum stabilized microscale zerovalent iron for groundwater remediation.

PubMed

Luna, M; Gastone, F; Tosco, T; Sethi, R; Velimirovic, M; Gemoets, J; Muyshondt, R; Sapion, H; Klaas, N; Bastiaens, L

2015-10-01

The paper reports a pilot injection test of microsized zerovalent iron (mZVI) dispersed in a guar gum shear thinning solution. The test was performed in the framework of the EU research project AQUAREHAB in a site in Belgium contaminated by chlorinated aliphatic hydrocarbons (CAHs). The field application was aimed to overcome those critical aspects which hinder mZVI field injection, mainly due to the colloidal instability of ZVI-based suspensions. The iron slurry properties (iron particles size and concentration, polymeric stabilizer type and concentration, slurry viscosity) were designed in the laboratory based on several tests (reactivity tests towards contaminants, sedimentation tests and rheological measurements). The particles were delivered into the aquifer through an injection well specifically designed for controlled-pressure delivery (approximately 10 bars). The well characteristics and the critical pressure of the aquifer (i.e. the injection pressure above which fracturing occurs) were assessed via two innovative injection step rate tests, one performed with water and the other one with guar gum. Based on laboratory and field preliminary tests, a flow regime at the threshold between permeation and preferential flow was selected for mZVI delivery, as a compromise between the desired homogeneous distribution of the mZVI around the injection point (ensured by permeation flow) and the fast and effective injection of the slurry (guaranteed by high discharge rates and injection pressure, resulting in the generation of preferential flow paths). A monitoring setup was designed and installed for the real-time monitoring of relevant parameters during injection, and for a fast determination of the spatial mZVI distribution after injection via non-invasive magnetic susceptibility measurements. Copyright © 2015 Elsevier B.V. All rights reserved.

A new methodology for quantifying the impact of water repellency on the filtering function of soils

NASA Astrophysics Data System (ADS)

Müller, Karin; Deurer, Markus; Kawamoto, Ken; Hiradate, Syuntaro; Komatsu, Toshiko; Clothier, Brent

2014-05-01

Soils deliver a range of ecosystem services, and some of the most valuable relate to the regulating services resulting from the buffering and filtering of solutes by soil. However, it is commonly accepted that soil water repellency (SWR) can lead to finger flow and preferential flow. Yet, there have been few attempts to quantify the impact of such flow phenomena on the buffering and filtering of solutes. No method is available to quantify directly how SWR affects the transport of reactive solutes. We have closed this gap and developed a new method for quantifying solute transport by novel experiments with water-repellent soils. It involves sequentially applying two liquids, one water, and the other a reference fully wetting liquid, namely, aqueous ethanol, to the same intact soil core with air-drying between the application of the two liquids. Our results highlight that sorption experiments are necessary to complement our new method to ascertain directly the impact of SWR on the filtering of a solute. We conducted transport and sorption experiments, by applying our new method, with the herbicide 2,4-Dichlorophenoxyacetic acid and two Andosol top-soils; one from Japan and the other one from New Zealand. Breakthrough curves from the water experiments were characterized by preferential flow with high initial concentrations, tailing and a long prevalence of solutes remaining in the soil. Our results clearly demonstrate and quantify the impact of SWR on the leaching of this herbicide. This technique for quantifying the reduction of the soil's filtering efficiency by SWR enables assessment of the increased risk of groundwater contamination by solutes exogenously applied to water-repellent soils.

Glaucocalyxin A Inhibits Platelet Activation and Thrombus Formation Preferentially via GPVI Signaling Pathway

PubMed Central

Li, Qiang; Ren, Lijie; Liu, Xiaohui; Chu, Chunjun; Ozaki, Yukio; Zhang, Jian; Zhu, Li

2013-01-01

Platelets play a pivotal role in atherothrombosis and the antiplatelet agents have been proved to be useful in preventing onset of acute clinical events including myocardial infarction and stroke. Increasing number of natural compounds has been identified to be potential antiplatelet agents. Here we report the antiplatelet effect of glaucocalyxin A (GLA), an ent-diterpenoid that we isolated and purified from the aerial parts of Rabdosia japonica (Burm. f.) var. glaucocalyx (Maxim.) Hara, and investigate the molecular mechanisms by which GLA inhibits platelet activation and thrombus formation. The effect of GLA on platelet activation was measured using platelets freshly isolated from peripheral blood of healthy donors. Results showed that pretreatment of human platelets with lower concentrations of GLA (0.01μg/ml, 0.1μg/ml) significantly inhibited platelet aggregation induced by collagen (P<0.001) and CRP (P<0.01), a synthetic GPVI ligand, but not by ADP and U46619. Accordingly, GLA inhibited collagen-stimulated tyrosine phosphorylation of Syk, LAT, and phospholipase Cγ2, the signaling events in collagen receptor GPⅥ pathway. GLA also inhibited platelet p-selectin secretion and integrin activation by convulxin, a GPVI selective ligand. Additionally, GLA was found to inhibit low-dose thrombin-induced platelet activation. Using a flow chamber device, GLA was found to attenuate platelet adhesion on collagen surfaces in high shear condition. In vivo studies showed that GLA administration increased the time for complete occlusion upon vascular injury in mice, but did not extend tail-bleeding time when mice were administered with relatively lower doses of GLA. Therefore, the present results provide the molecular basis for the inhibition effect of GLA on platelet activation and its in vivo effect on thrombus formation, suggesting that GLA could potentially be developed as an antiplatelet and antithrombotic agent. PMID:24386454

Effects of small-scale hydrogeologic heterogeneity on submarine groundwater discharge (SGD) dynamics in river dominated estuaries: example of Mobile Bay, Alabama

NASA Astrophysics Data System (ADS)

Montiel, D.; Dimova, N.

2017-12-01

Submarine groundwater discharge (SGD) is known to be an important pathway for nutrients and dissolved constituents in estuarine environments worldwide. Despite its limited contribution to the total fresh water flux to the ocean (5 - 10 %), SGD-derived material loadings can rival riverine inputs. Therefore, a good understanding of the coastal hydrogeology and subsequent SGD dynamics is crucial to further investigate constituent fluxes and its implications on small and large scale coastal ecosystems. We evaluated SGD in Mobile Bay (Alabama), the fourth largest estuary in the US, using a combination of radiotracer techniques (223Ra, 226Ra, and 222Rn), stable isotopes (δ 18O and δ 2H), geophysical surveys (continuous resistivity profiling (CRP) and electrical resistivity tomography (ERT)), and seepage meters during three consecutive years. A detailed examination of the entire shoreline of Mobile Bay using CRP, ERT imaging, and multiple sediment cores collection unveiled a heterogeneous (horizontal and vertical) distribution of the surficial coastal aquifer. This was reflected and confirmed by groundwater tracer measurements and direct measurements of SGD in the coastal zone. We found that SGD occurs mainly in the northeast section of Mobile Bay with a total flux that ranged between 0.9 and 13 × 105 m3 d-1 during dry and wet periods, which represents 0.4 - 2 % of the total fresh water inputs into the Bay. While total SGD is insignificant when accounting the whole water budget of Mobile Bay, we found that small-scale geology variations produce groundwater flow preferential pathways in particular areas where SGD inputs play an important role in the water and nutrient budgets.

Transport and fate of microbial pathogens in agricultural settings

USGS Publications Warehouse

Bradford, Scott A.; Morales, Veronica L.; Zhang, Wei; Harvey, Ronald W.; Packman, Aaron I.; Mohanram, Arvind; Welty, Claire

2013-01-01

An understanding of the transport and survival of microbial pathogens (pathogens hereafter) in agricultural settings is needed to assess the risk of pathogen contamination to water and food resources, and to develop control strategies and treatment options. However, many knowledge gaps still remain in predicting the fate and transport of pathogens in runoff water, and then through the shallow vadose zone and groundwater. A number of transport pathways, processes, factors, and mathematical models often are needed to describe pathogen fate in agricultural settings. The level of complexity is dramatically enhanced by soil heterogeneity, as well as by temporal variability in temperature, water inputs, and pathogen sources. There is substantial variability in pathogen migration pathways, leading to changes in the dominant processes that control pathogen transport over different spatial and temporal scales. For example, intense rainfall events can generate runoff and preferential flow that can rapidly transport pathogens. Pathogens that survive for extended periods of time have a greatly enhanced probability of remaining viable when subjected to such rapid-transport events. Conversely, in dry seasons, pathogen transport depends more strongly on retention at diverse environmental surfaces controlled by a multitude of coupled physical, chemical, and microbiological factors. These interactions are incompletely characterized, leading to a lack of consensus on the proper mathematical framework to model pathogen transport even at the column scale. In addition, little is known about how to quantify transport and survival parameters at the scale of agricultural fields or watersheds. This review summarizes current conceptual and quantitative models for pathogen transport and fate in agricultural settings over a wide range of spatial and temporal scales. The authors also discuss the benefits that can be realized by improved modeling, and potential treatments to mitigate the risk of waterborne disease transmission.

Nitrate ammonification in mangrove soils: a hidden source of nitrite?

PubMed Central

Balk, Melike; Laverman, Anniet M.; Keuskamp, Joost A.; Laanbroek, Hendrikus J.

2015-01-01

Nitrate reduction is considered to be a minor microbial pathway in the oxidation of mangrove-derived organic matter due to a limited supply of nitrate in mangrove soils. At a limited availability of this electron acceptor compared to the supply of degradable carbon, nitrate ammonification is thought to be the preferential pathway of nitrate reduction. Mangrove forest mutually differ in their productivity, which may lead to different available carbon to nitrate ratios in their soil. Hence, nitrate ammonification is expected to be of more importance in high- compared to low-productive forests. The hypothesis was tested in flow-through reactors that contain undisturbed mangrove soils from high-productive Avicennia germinans and Rhizophora mangle forests in Florida and low-productive Avicennia marina forests in Saudi Arabia. Nitrate was undetectable in the soils from both regions. It was assumed that a legacy of nitrate ammonification would be reflected by a higher ammonium production from these soils upon the addition of nitrate. Unexpectedly, the soils from the low-productive forests in Saudi Arabia produced considerably more ammonium than the soils from the high-productive forests in Florida. Hence, other environmental factors than productivity must govern the selection of nitrate ammonification or denitrification. A rather intriguing observation was the 1:1 production of nitrite and ammonium during the consumption of nitrate, more or less independent from sampling region, location, sampling depth, mangrove species and from the absence or presence of additional degradable carbon. This 1:1 ratio points to a coupled production of ammonium and nitrite by one group of nitrate-reducing microorganisms. Such a production of nitrite will be hidden by the presence of active nitrite-reducing microorganisms under the nitrate-limited conditions of most mangrove forest soils. PMID:25784903

Nitrate ammonification in mangrove soils: a hidden source of nitrite?

PubMed

Balk, Melike; Laverman, Anniet M; Keuskamp, Joost A; Laanbroek, Hendrikus J

2015-01-01

Nitrate reduction is considered to be a minor microbial pathway in the oxidation of mangrove-derived organic matter due to a limited supply of nitrate in mangrove soils. At a limited availability of this electron acceptor compared to the supply of degradable carbon, nitrate ammonification is thought to be the preferential pathway of nitrate reduction. Mangrove forest mutually differ in their productivity, which may lead to different available carbon to nitrate ratios in their soil. Hence, nitrate ammonification is expected to be of more importance in high- compared to low-productive forests. The hypothesis was tested in flow-through reactors that contain undisturbed mangrove soils from high-productive Avicennia germinans and Rhizophora mangle forests in Florida and low-productive Avicennia marina forests in Saudi Arabia. Nitrate was undetectable in the soils from both regions. It was assumed that a legacy of nitrate ammonification would be reflected by a higher ammonium production from these soils upon the addition of nitrate. Unexpectedly, the soils from the low-productive forests in Saudi Arabia produced considerably more ammonium than the soils from the high-productive forests in Florida. Hence, other environmental factors than productivity must govern the selection of nitrate ammonification or denitrification. A rather intriguing observation was the 1:1 production of nitrite and ammonium during the consumption of nitrate, more or less independent from sampling region, location, sampling depth, mangrove species and from the absence or presence of additional degradable carbon. This 1:1 ratio points to a coupled production of ammonium and nitrite by one group of nitrate-reducing microorganisms. Such a production of nitrite will be hidden by the presence of active nitrite-reducing microorganisms under the nitrate-limited conditions of most mangrove forest soils.

Cellular Assays for Ferredoxins: A Strategy for Understanding Electron Flow through Protein Carriers That Link Metabolic Pathways.

PubMed

Atkinson, Joshua T; Campbell, Ian; Bennett, George N; Silberg, Jonathan J

2016-12-27

The ferredoxin (Fd) protein family is a structurally diverse group of iron-sulfur proteins that function as electron carriers, linking biochemical pathways important for energy transduction, nutrient assimilation, and primary metabolism. While considerable biochemical information about individual Fd protein electron carriers and their reactions has been acquired, we cannot yet anticipate the proportion of electrons shuttled between different Fd-partner proteins within cells using biochemical parameters that govern electron flow, such as holo-Fd concentration, midpoint potential (driving force), molecular interactions (affinity and kinetics), conformational changes (allostery), and off-pathway electron leakage (chemical oxidation). Herein, we describe functional and structural gaps in our Fd knowledge within the context of a sequence similarity network and phylogenetic tree, and we propose a strategy for improving our understanding of Fd sequence-function relationships. We suggest comparing the functions of divergent Fds within cells whose growth, or other measurable output, requires electron transfer between defined electron donor and acceptor proteins. By comparing Fd-mediated electron transfer with biochemical parameters that govern electron flow, we posit that models that anticipate energy flow across Fd interactomes can be built. This approach is expected to transform our ability to anticipate Fd control over electron flow in cellular settings, an obstacle to the construction of synthetic electron transfer pathways and rational optimization of existing energy-conserving pathways.

Susceptibility to Plasmodium liver stage infection is altered by hepatocyte polyploidy.

PubMed

Austin, Laura S; Kaushansky, Alexis; Kappe, Stefan H I

2014-05-01

Plasmodium parasites infect hepatocytes of their mammalian hosts and undergo obligate liver stage development. The specific host cell attributes that are important for liver infection remain largely unknown. Several host signalling pathways are perturbed in infected hepatocytes, some of which are important in the generation of hepatocyte polyploidy. To test the functional consequence of polyploidy on liver infection, we infected hepatocytes with the rodent malaria parasite Plasmodium yoelii both in vitro and in vivo and examined the ploidy of infected and uninfected hepatocytes by flow cytometry. In both hepatoma cell lines and in the mouse liver, the fraction of polyploid cells was higher in the infected cell population than in the uninfected cell population. When the data were reanalysed by comparing the extent of Plasmodium infection within each ploidy subset, we found that infection rates were elevated in more highly polyploid cells and lower in diploid cells. Furthermore, we found that the parasite's preference for host cells with high ploidy is conserved among rodent malaria species and the human malaria parasite Plasmodium falciparum. This parasite preference for host cells of high ploidy cannot be explained by differences in hepatocyte size or DNA replication. We conclude that Plasmodium preferentially infects and develops in polyploid hepatocytes. © 2014 John Wiley & Sons Ltd.

Defining the natural fracture network in a shale gas play and its cover succession: The case of the Utica Shale in eastern Canada

NASA Astrophysics Data System (ADS)

Ladevèze, P.; Séjourné, S.; Rivard, C.; Lavoie, D.; Lefebvre, R.; Rouleau, A.

2018-03-01

In the St. Lawrence sedimentary platform (eastern Canada), very little data are available between shallow fresh water aquifers and deep geological hydrocarbon reservoir units (here referred to as the intermediate zone). Characterization of this intermediate zone is crucial, as the latter controls aquifer vulnerability to operations carried out at depth. In this paper, the natural fracture networks in shallow aquifers and in the Utica shale gas reservoir are documented in an attempt to indirectly characterize the intermediate zone. This study used structural data from outcrops, shallow observation well logs and deep shale gas well logs to propose a conceptual model of the natural fracture network. Shallow and deep fractures were categorized into three sets of steeply-dipping fractures and into a set of bedding-parallel fractures. Some lithological and structural controls on fracture distribution were identified. The regional geologic history and similarities between the shallow and deep fracture datasets allowed the extrapolation of the fracture network characterization to the intermediate zone. This study thus highlights the benefits of using both datasets simultaneously, while they are generally interpreted separately. Recommendations are also proposed for future environmental assessment studies in which the existence of preferential flow pathways and potential upward fluid migration toward shallow aquifers need to be identified.

Susceptibility to Plasmodium liver stage infection is altered by hepatocyte polyploidy

PubMed Central

Austin, Laura S.; Kaushansky, Alexis; Kappe, Stefan H.I.

2014-01-01

Summary Plasmodium parasites infect hepatocytes of their mammalian hosts and within undergo obligate liver stage development. The specific host cell attributes that are important for liver infection remain largely unknown. Several host signaling pathways are perturbed in infected hepatocytes, some of which are important in the generation of hepatocyte polyploidy. To test the functional consequence of polyploidy in liver infection, we infected hepatocytes with the rodent malaria parasite Plasmodium yoelii both in vitro and in vivo and examined the ploidy of infected and uninfected hepatocytes by flow cytometry. In both hepatoma cell lines and in the mouse liver, the fraction of polyploid cells was higher in the infected cell population than in the uninfected cell population. When the data were reanalyzed by comparing the extent of Plasmodium infection within each ploidy subset, we found that infection rates were elevated in more highly polyploid cells and lower in diploid cells. Furthermore, we found that the parasite’s preference for host cells with high ploidy is conserved among rodent malaria species and the human malaria parasite Plasmodium falciparum. This parasite preference for host cells of high ploidy cannot be explained by differences in hepatocyte size or DNA replication. We conclude that Plasmodium preferentially infects and develops in polyploid hepatocytes. PMID:24612025

Postdoctoral Fellow | Center for Cancer Research

Cancer.gov

The positions will provide excellent training opportunities in mucosal immunology.  The ideal candidates must be able to work independently and have demonstrated abilities in clear scientific project planning and reporting.  Experience in multiparameter flow cytometry, gene expression analysis, intestinal cell isolation, and mouse models of disease is desirable.  One position will be preferentially given to candidate with experience in non-human primate models.  

The effect of soil heterogeneity on ATES performance

NASA Astrophysics Data System (ADS)

Sommer, W.; Rijnaarts, H.; Grotenhuis, T.; van Gaans, P.

2012-04-01

Due to an increasing demand for sustainable energy, application of Aquifer Thermal Energy Storage (ATES) is growing rapidly. Large-scale application of ATES is limited by the space that is available in the subsurface. Especially in urban areas, suboptimal performance is expected due to thermal interference between individual wells of a single system, or interference with other ATES systems or groundwater abstractions. To avoid thermal interference there are guidelines on well spacing. However, these guidelines, and also design calculations, are based on the assumption of a homogeneous subsurface, while studies report a standard deviation in logpermeability of 1 to 2 for unconsolidated aquifers (Gelhar, 1993). Such heterogeneity may create preferential pathways, reducing ATES performance due to increased advective heat loss or interference between ATES wells. The role of hydraulic heterogeneity of the subsurface related to ATES performance has received little attention in literature. Previous research shows that even small amounts of heterogeneity can result in considerable uncertainty in the distribution of thermal energy in the subsurface and an increased radius of influence (Ferguson, 2007). This is supported by subsurface temperature measurements around ATES wells, which suggest heterogeneity gives rise to preferential pathways and short-circuiting between ATES wells (Bridger and Allen, 2010). Using 3-dimensional stochastic heat transport modeling, we quantified the influence of heterogeneity on the performance of a doublet well energy storage system. The following key parameters are varied to study their influence on thermal recovery and thermal balance: 1) regional flow velocity, 2) distance between wells and 3) characteristics of the heterogeneity. Results show that heterogeneity at the scale of a doublet ATES system introduces an uncertainty up to 18% in expected thermal recovery. The uncertainty increases with decreasing distance between ATES wells. The uncertainty in the thermal balance ratio related to heterogeneity is limited (smaller than 3%). If thermal interference should be avoided, wells in heterogeneous aquifers should be placed further apart than in homogeneous aquifers, leading to larger volume claim in the subsurface. By relating the number of ATES systems in an area to their expected performance, these results can be used to optimize regional application of ATES. Bridger, D. W. and D. M. Allen (2010). "Heat transport simulations in a heterogeneous aquifer used for aquifer thermal energy storage (ATES)." Canadian Geotechnical Journal 47(1): 96-115. Ferguson, G. (2007). "Heterogeneity and thermal modeling of ground water." Ground Water 45(4): 485-490. Gelhar, L. W. (1993). Stochastic Subsurface Hydrology, Prentice Hall.

Genetic and Genomic Insights into the Role of Benzoate-Catabolic Pathway Redundancy in Burkholderia xenovorans LB400†

PubMed Central

Denef, V. J.; Klappenbach, J. A.; Patrauchan, M. A.; Florizone, C.; Rodrigues, J. L. M.; Tsoi, T. V.; Verstraete, W.; Eltis, L. D.; Tiedje, J. M.

2006-01-01

Transcriptomic and proteomic analyses of Burkholderia xenovorans LB400, a potent polychlorinated biphenyl (PCB) degrader, have implicated growth substrate- and phase-dependent expression of three benzoate-catabolizing pathways: a catechol ortho cleavage (ben-cat) pathway and two benzoyl-coenzyme A pathways, encoded by gene clusters on the large chromosome (boxC) and the megaplasmid (boxM). To elucidate the significance of this apparent redundancy, we constructed mutants with deletions of the ben-cat pathway (the ΔbenABCD::kan mutant), the boxC pathway (the ΔboxABC::kan mutant), and both pathways (the ΔbenABCDΔ boxABC::kan mutant). All three mutants oxidized benzoate in resting-cell assays. However, the ΔbenABCD::kan and ΔbenABCD ΔboxABC::kan mutants grew at reduced rates on benzoate and displayed increased lag phases. By contrast, growth on succinate, on 4-hydroxybenzoate, and on biphenyl was unaffected. Microarray and proteomic analyses revealed that cells of the ΔbenABCD::kan mutant growing on benzoate expressed both box pathways. Overall, these results indicate that all three pathways catabolize benzoate. Deletion of benABCD abolished the ability of LB400 to grow using 3-chlorobenzoate. None of the benzoate pathways could degrade 2- or 4-chlorobenzoate, indicating that the pathway redundancy does not directly contribute to LB400's PCB-degrading capacities. Finally, an extensive sigmaE-regulated oxidative stress response not present in wild-type LB400 grown on benzoate was detected in these deletion mutants, supporting our earlier suggestion that the box pathways are preferentially active under reduced oxygen tension. Our data further substantiate the expansive network of tightly interconnected and complexly regulated aromatic degradation pathways in LB400. PMID:16391095

Evaluating Conceptual Site Models with Multicomponent Reactive Transport Modeling

NASA Astrophysics Data System (ADS)

Dai, Z.; Heffner, D.; Price, V.; Temples, T. J.; Nicholson, T. J.

2005-05-01

Modeling ground-water flow and multicomponent reactive chemical transport is a useful approach for testing conceptual site models and assessing the design of monitoring networks. A graded approach with three conceptual site models is presented here with a field case of tetrachloroethene (PCE) transport and biodegradation near Charleston, SC. The first model assumed a one-layer homogeneous aquifer structure with semi-infinite boundary conditions, in which an analytical solution of the reactive solute transport can be obtained with BIOCHLOR (Aziz et al., 1999). Due to the over-simplification of the aquifer structure, this simulation cannot reproduce the monitoring data. In the second approach we used GMS to develop the conceptual site model, a layer-cake multi-aquifer system, and applied a numerical module (MODFLOW and RT3D within GMS) to solve the flow and reactive transport problem. The results were better than the first approach but still did not fit the plume well because the geological structures were still inadequately defined. In the third approach we developed a complex conceptual site model by interpreting log and seismic survey data with Petra and PetraSeis. We detected a major channel and a younger channel, through the PCE source area. These channels control the local ground-water flow direction and provide a preferential chemical transport pathway. Results using the third conceptual site model agree well with the monitoring concentration data. This study confirms that the bias and uncertainty from inadequate conceptual models are much larger than those introduced from an inadequate choice of model parameter values (Neuman and Wierenga, 2003; Meyer et al., 2004). Numerical modeling in this case provides key insight into the hydrogeology and geochemistry of the field site for predicting contaminant transport in the future. Finally, critical monitoring points and performance indicator parameters are selected for future monitoring to confirm system performance.

3D convection in a fractured porous medium : influence of fracture network parameters and comparison to homogeneous approach.

NASA Astrophysics Data System (ADS)

Mezon, Cécile; Mourzenko, Valeri; François Thovert, Jean; Antoine, Raphael; Fontaine, Fabrice; Finizola, Anthony; Adler, Pierre Michel

2016-04-01

In the crust, fractures/faults can provide preferential pathways for fluid flow or act as barriers preventing the flow across these structures. In hydrothermal systems (usually found in fractured rock masses), these discontinuities may play a critical role at various scales, controlling fluid flows and heat transfer. The thermal convection is numerically computed in 3D fluid satured isotropically fractured porous media. Fractures are inserted as 2D convex polygons, which are randomly located. The fluid is assumed to satisfy 2D and 3D Darcy's law in the fractures and in the porous medium, respectively; exchanges take place between these two structures. First, checks were performed on an unfractured porous medium and the convection cells do start for the theoretical value of Ra, namely 4pi². 2D convection was verified up to Ra=800. Second, all fractured simulations were made for Rayleigh numbers (Ra) < 150, cubic boxes and closed-top conditions. The influence of parameters such as fracture aperture (or fracture transmissivity) and fracture density on the heat released by the whole system is studied. Then, the effective permeability of each fractured system is calculated. This last calculation enables the comparison between all fractured models and models of homogeneous medium with the same macroscopic properties. First, the heat increase released by the system as a function of fracture transmissivity and fracture density is determined. Second, results show that the effective approach is valid for low Ra (< 70), and that the mismatch between the full calculations and the effective medium approach for Ra higher than 70 depends on the fracture density in a crucial way. Third, the study also reveals that equivalent properties could be deduced from these computations in order to estimate the heat released by a fractured system from an homogeneous approach.

Dissolution along faults-fractures and hypogenic karst in carbonates: examples from Brazil

NASA Astrophysics Data System (ADS)

Ennes-Silva, Renata; Cazarin, Caroline; Bezerra, Francisco; Auler, Augusto; Klimchouk, Alexander

2015-04-01

Dissolution along faults-fractures and hypogenic karst in carbonates: examples from Brazil Ennes-Silva, R.A; Cazarin, C.L.; Bezerra, F.H.; Auler, A.S.; Klimchouk, A.B. Dissolution along zones of preferential flow enhances anisotropy in geological media and increases its complexity. Changes in parameters such as porosity and permeability due to diagenesis and presence of ascendant fluids along fractures and faults can be responsible for hypogenic karstic system. The present study investigates the relationship between lithofacies, tectonics and karstification in the Neoproterozoic Salitre Formation, located in the central-eastern Brazil. This unit comprises several systems of caves including the Toca da Boa Vista and da Barriguda hypogenic caves, the largests in South America, and focus of this study. We focused on cave mapping and morphogenetic analysis, determination of petrophysical properties, thin-section description, micro-tomography, and isotopic analysis. The Salitre Formation, deposited in an epicontinental sea, comprises mud/wakestones, grainstones, microbial facies, and fine siliciclastic rocks. Passages occur in several levels within ca. 60 m thick cave-forming section, limited at the top by lithofacies with low permeability and fractures. Cave development occurred in phreatic sluggish-flow environment with overall upwelling flow. Fluids rise via cross-formational fractures and were distributed laterally within the cave-forming section using geological heterogeneities to eventually discharge up through outlets breaching across the upper confining beds. Maps of conduits show preferred directions for development of conduits: NNE-SSW and E-W. These two directions represents a relation between structures and hypogenic morphology. Joints, axis fold and fractures allowed pathways to the fluid rises, and then development of channels of entrance (feeders), outputs (outlets) and some cupolas, which are clearly aligned to fractures. Our data indicate several events of porosity evolution, such as subaerial exposure, folds and fractures, hydrothermal events (exotic minerals assemblage), sulfuric acid dissolution, dissolution at the water table, condensation corrosion, and faults and fractures reactivation. The major enhancement of secondary porosity was due to hypogene speleogenesis.

Comprehensive Analysis of Migration Pathways (CAMP): Contaminant Migration Pathways at Confined Dredged Material Disposal Facilities

DTIC Science & Technology

1990-09-01

fluctuating flow rates make such approximations relatively inexact. Accuracy of mass loading estimates can be improved by increasing the number of...Engler, Patin, and Theriot 1988; Patin and Baylot 1989). 26. Effluent flow from an upland CDF is highest when large quantities of water are being...dispersion in conjunction with lower flows during placement of mechanical dredged material. Interactions between sediment and water that occur during

A semi-synthetic natural product blocks collagen induced arthritis by preferentially suppressing the production of IL-6.

PubMed

Kulkarni-Almeida, Asha; Shah, Meet; Jadhav, Mahesh; Hegde, Bindu; Trivedi, Jacqueline; Mishra, Prabhu D; Mahajan, Girish B; Dadarkar, Shruta; Gupte, Ravindra; Dagia, Nilesh

2016-04-01

Rheumatoid arthritis (RA), an autoimmune-inflammatory disease is characterized by dysregulation of signal transduction pathways, increased production of pro-inflammatory cytokines, enhanced leukocyte infiltration into synovial microvascular endothelium, extensive formation of hyper proliferative pannus, degradation of cartilage and bone erosion. Several compounds that abrogate cytokine production demonstrate a therapeutic effect in experimental models of arthritis. In this study, we report that a novel semi-synthetic natural product (Compound A) being a preferential IL-6 inhibitor, is efficacious in a murine model of arthritis. In vitro evaluations of pro-inflammatory cytokine production reveal that Compound A preferentially inhibits induced production of IL-6 and not TNF-α from THP-1 cells and isolated human monocytes. Furthermore, Compound A robustly inhibits the spontaneous production of IL-6 from pathologically relevant synovial tissue cells isolated from patients with active RA. In a physiologically relevant assay, Compound A selectively inhibits the activated T cell contact-mediated production of IL-6 from human monocytes. Compound A, at pharmacologically efficacious concentrations, does not significantly curtail the LPS-induced activation of p38 MAPKs. In the collagen-induced arthritis (CIA) mouse model (i) macroscopic observations demonstrate that Compound A, administered subcutaneously in a therapeutic regimen, significantly and dose-dependently inhibits disease associated increases in articular index and paw thickness; (ii) histological analyses of paw tissues reveal that Compound A prominently diminishes joint destruction, hyperproliferative pannus formation and infiltration of inflammatory cells. Collectively, these results provide direct evidence that Compound A, a novel preferential IL-6 inhibitor, suppresses collagen-induced arthritis, and may be a potential therapeutic for treating patients with active RA. Copyright © 2016. Published by Elsevier B.V.

Chewing the fat: lipid metabolism and homeostasis during M. tuberculosis infection.

PubMed

Lovewell, Rustin R; Sassetti, Christopher M; VanderVen, Brian C

2016-02-01

The interplay between Mycobacterium tuberculosis lipid metabolism, the immune response and lipid homeostasis in the host creates a complex and dynamic pathogen-host interaction. Advances in imaging and metabolic analysis techniques indicate that M. tuberculosis preferentially associates with foamy cells and employs multiple physiological systems to utilize exogenously derived fatty-acids and cholesterol. Moreover, novel insights into specific host pathways that control lipid accumulation during infection, such as the PPARγ and LXR transcriptional regulators, have begun to reveal mechanisms by which host immunity alters the bacterial micro-environment. As bacterial lipid metabolism and host lipid regulatory pathways are both important, yet inherently complex, components of active tuberculosis, delineating the heterogeneity in lipid trafficking within disease states remains a major challenge for therapeutic design. Copyright © 2015. Published by Elsevier Ltd.

Intracoronary glucagon-like peptide 1 preferentially augments glucose uptake in ischemic myocardium independent of changes in coronary flow.

PubMed

Moberly, Steven P; Berwick, Zachary C; Kohr, Meredith; Svendsen, Mark; Mather, Kieren J; Tune, Johnathan D

2012-03-01

We examined the acute dose-dependent effects of intracoronary glucagon-like peptide (GLP)-1 (7-36) on coronary vascular tone, cardiac contractile function and metabolism in normal and ischemic myocardium. Experiments were conducted in open chest, anesthetized dogs at coronary perfusion pressures (CPP) of 100 and 40 mmHg before and during intracoronary GLP-1 (7-36) infusion (10 pmol/L to 1 nmol/L). Isometric tension studies were also conducted in isolated coronary arteries. Cardiac and coronary expression of GLP-1 receptors (GLP-1R) was assessed by Western blot and immunohistochemical analysis. GLP-1R was present in the myocardium and the coronary vasculature. The tension of intact and endothelium-denuded coronary artery rings was unaffected by GLP-1. At normal perfusion pressure (100 mmHg), intracoronary GLP-1 (7-36) (targeting plasma concentration 10 pmol/L to 1 nmol/L) did not affect blood pressure, coronary blood flow or myocardial oxygen consumption (MVO(2)); however, there were modest reductions in cardiac output and stroke volume. In untreated control hearts, reducing CPP to 40 mmHg produced marked reductions in coronary blood flow (0.50 ± 0.10 to 0.17 ± 0.03 mL/min/g; P < 0.001) and MVO(2) (27 ± 2.3 to 15 ± 2.7 μL O(2)/min/g; P < 0.001). At CPP = 40 mmHg, GLP-1 had no effect on coronary blood flow, MVO(2) or regional shortening, but dose-dependently increased myocardial glucose uptake from 0.11 ± 0.02 μmol/min/g at baseline to 0.17 ± 0.04 μmol/min/g at 1 nmol/L GLP-1 (P < 0.001). These data indicate that acute, intracoronary administration of GLP-1 (7-36) preferentially augments glucose metabolism in ischemic myocardium, independent of effects on cardiac contractile function or coronary blood flow.

Effect of heterogeneity and anisotropy related to the construction method on transfer processes in waste rock piles.

PubMed

Lahmira, Belkacem; Lefebvre, René; Aubertin, Michel; Bussière, Bruno

2016-01-01

Waste rock piles producing acid mine drainage (AMD) are partially saturated systems involving multiphase (gas and liquid) flow and coupled transfer processes. Their internal structure and heterogeneous properties are inherited from their wide-ranging material grain sizes, their modes of deposition, and the underlying topography. This paper aims at assessing the effect of physical heterogeneity and anisotropy of waste rock piles on the physical processes involved in the generation of AMD. Generic waste rock pile conditions were represented with the numerical simulator TOUGH AMD based on those found at the Doyon mine waste rock pile (Canada). Models included four randomly distributed material types (coarse, intermediate, fine and very fine-grained). The term "randomly" as used in this study means that the vertical profile and spatial distribution of materials in waste rock piles (internal structure) defy stratigraphy principles applicable to natural sediments (superposition and continuity). The materials have different permeability and capillary properties, covering the typical range of materials found in waste rock piles. Anisotropy with a larger horizontal than vertical permeability was used to represent the effect of pile construction by benches, while the construction by end-dumping was presumed to induce a higher vertical than horizontal permeability. Results show that infiltrated precipitation preferentially flows in fine-grained materials, which remain almost saturated, whereas gas flows preferentially through the most permeable coarse materials, which have higher volumetric gas saturation. Anisotropy, which depends on pile construction methods, often controls global gas flow paths. Construction by benches favours lateral air entry close to the pile slope, whereas end-dumping leads to air entry from the surface to the interior of the pile by secondary gas convection cells. These results can be useful to construct and rehabilitate waste rock piles to minimize AMD, while controlling gas flow and oxygen supply. Copyright © 2015 Elsevier B.V. All rights reserved.

Parameterization and Modeling of Coupled Heat and Mass Transport in the Vadose Zone

NASA Astrophysics Data System (ADS)

Mohanty, B.; Yang, Z.

2016-12-01

The coupled heat and mass transport in the vadose zone is essentially a multiphysics issue. Addressing this issue appropriately has remarkable impacts on soil physical, chemical and biological processes. To data, most coupled heat and water transport modeling has focused on the interactions between liquid water, water vapor and heat transport in homogeneous and layered soils. Comparatively little work has been done on structured soils where preferential infiltration and evaporation flow occurs. Moreover, the traditional coupled heat and water model usually neglects the nonwetting phase air flow, which was found to be significant in the state-of-the-art modeling framework for coupled heat and water transport investigation. However, the parameterizations for the nonwetting phase air permeability largely remain elusive so far. In order to address the above mentioned limitations, this study aims to develop and validate a predictive multiphysics modeling framework for coupled soil heat and water transport in the heterogeneous shallow subsurface. To this end, the following research work is specifically conducted: (a) propose an improved parameterization to better predict the nonwetting phase relative permeability; (b) determine the dynamics, characteristics and processes of simultaneous soil moisture and heat movement in homogeneous and layered soils; and (c) develop a nonisothermal dual permeability model for heterogeneous structured soils. The results of our studies showed that: (a) the proposed modified nonwetting phase relative permeability models are much more accurate, which can be adopted for better parameterization in the subsequent nonisothermal two phase flow models; (b) the isothermal liquid film flow, nonwetting phase gas flow and liquid-vapor phase change non-equilibrium effects are significant in the arid and semiarid environments (Riverside, California and Audubon, Arizona); and (c) the developed nonisothermal dual permeability model is capable of characterizing the preferential evaporation path in the heterogeneous structured soils due to the fact that the capillary forces divert the pore water from coarse-textured soils (high temperature region) toward the fine-textured soils (low temperature region).

C-arm flat detector computed tomography parenchymal blood volume imaging: the nature of parenchymal blood volume parameter and the feasibility of parenchymal blood volume imaging in aneurysmal subarachnoid haemorrhage patients.

PubMed

Kamran, Mudassar; Byrne, James V

2015-09-01

C-arm flat detector computed tomography (FDCT) parenchymal blood volume (PBV) measurements allow assessment of cerebral haemodynamics in the neurointerventional suite. This paper explores the feasibility of C-arm computed tomography (CT) PBV imaging and the relationship between the C-arm CT PBV and the MR-PWI-derived cerebral blood volume (CBV) and cerebral blood flow (CBF) parameters in aneurysmal subarachnoid haemorrhage (SAH) patients developing delayed cerebral ischemia (DCI). Twenty-six patients with DCI following aneurysmal SAH underwent a research C-arm CT PBV scan using a biplane angiography system and contemporaneous MR-PWI scan as part of a prospective study. Quantitative whole-brain atlas-based volume-of-interest analysis in conjunction with Pearson correlation and Bland-Altman tests was performed to explore the agreement between C-arm CT PBV and MR-derived CBV and CBF measurements. All patients received medical management, while eight patients (31%) underwent selective intra-arterial chemical angioplasty. Colour-coded C-arm CT PBV maps were 91% sensitive and 100% specific in detecting the perfusion abnormalities. C-arm CT rPBV demonstrated good agreement and strong correlation with both MR-rCBV and MR-rCBF measurements; the agreement and correlation were stronger for MR-rCBF relative to MR-rCBV and improved for C-arm CT PBV versus the geometric mean of MR-rCBV and MR-rCBF. Analysis of weighted means showed that the C-arm CT PBV has a preferential blood flow weighting (≈ 60% blood flow and ≈ 40% blood volume weighting). C-arm CT PBV imaging is feasible in DCI following aneurysmal SAH. PBV is a composite perfusion parameter incorporating both blood flow and blood volume weightings. That PBV has preferential (≈ 60%) blood flow weighting is an important finding, which is of clinical significance when interpreting the C-arm CT PBV maps, particularly in the setting of acute brain ischemia.

Shear-induced migration and orientation of rigid fibers

NASA Astrophysics Data System (ADS)

Butler, Jason; Strednak, Scott; Shaikh, Saif; Guazzelli, Elisabeth

2017-11-01

The spatial and orientation distributions are measured for a suspension of fibers during pressure-driven flow. The fibers are rigid and non-colloidal, and two aspect ratios (length to diameter ratios) of 12 and 24 were tested; the suspending fluid is viscous, Newtonian, and density matched to the particles. As with the migration of spheres in parabolic flows, the fibers migrate toward the centerline of the channel if the concentration is sufficiently high. Migration is not observed for concentrations below a volume fraction of 0.035 for aspect ratio 24 and 0.07 for aspect ratio 12. The orientation distribution of the fibers is spatially dependent. Fibers near the center of the channel align closely with the flow direction, but fibers near the wall are observed to preferentially align in the vorticity (perpendicular to the flow and gradient) direction. National Science Foundation (Grants #1511787 and #1362060).

Modeling the Impact of Fracture Growth on Fluid Displacements in Deformable Porous Media

NASA Astrophysics Data System (ADS)

Santillán, D.; Cueto-Felgueroso, L.; Juanes, R.

2015-12-01

Coupled flow and geomechanics is a critical research challenge in engineering and the geosciences. The flow of a fluid through a deformable porous media is present in manyenvironmental, industrial, and biological processes,such as the removal of pollutants from underground water bodies, enhanced geothermal systems, unconventional hydrocarbon resources or enhanced oil recovery techniques. However, the injection of a fluid can generate or propagate fractures, which are preferential flow paths. Using numerical simulation, we study the interplay between injection and rock mechanics, and elucidate fracture propagation as a function of injection rate, initial crack topology and mechanical rock properties. Finally, we discuss the role of fracture growth on fluid displacements in porous media. Figure: An example of fracture (in red) propagated in a porous media (in blue)

Intermittent particle distribution in synthetic free-surface turbulent flows.

PubMed

Ducasse, Lauris; Pumir, Alain

2008-06-01

Tracer particles on the surface of a turbulent flow have a very intermittent distribution. This preferential concentration effect is studied in a two-dimensional synthetic compressible flow, both in the inertial (self-similar) and in the dissipative (smooth) range of scales, as a function of the compressibility C . The second moment of the concentration coarse grained over a scale r , n_{r};{2} , behaves as a power law in both the inertial and the dissipative ranges of scale, with two different exponents. The shapes of the probability distribution functions of the coarse-grained density n_{r} vary as a function of scale r and of compressibility C through the combination C/r;{kappa} (kappa approximately 0.5) , corresponding to the compressibility, coarse grained over a domain of scale r , averaged over Lagrangian trajectories.

Genetic associations at 53 loci highlight cell types and biological pathways relevant for kidney function.

PubMed

Pattaro, Cristian; Teumer, Alexander; Gorski, Mathias; Chu, Audrey Y; Li, Man; Mijatovic, Vladan; Garnaas, Maija; Tin, Adrienne; Sorice, Rossella; Li, Yong; Taliun, Daniel; Olden, Matthias; Foster, Meredith; Yang, Qiong; Chen, Ming-Huei; Pers, Tune H; Johnson, Andrew D; Ko, Yi-An; Fuchsberger, Christian; Tayo, Bamidele; Nalls, Michael; Feitosa, Mary F; Isaacs, Aaron; Dehghan, Abbas; d'Adamo, Pio; Adeyemo, Adebowale; Dieffenbach, Aida Karina; Zonderman, Alan B; Nolte, Ilja M; van der Most, Peter J; Wright, Alan F; Shuldiner, Alan R; Morrison, Alanna C; Hofman, Albert; Smith, Albert V; Dreisbach, Albert W; Franke, Andre; Uitterlinden, Andre G; Metspalu, Andres; Tonjes, Anke; Lupo, Antonio; Robino, Antonietta; Johansson, Åsa; Demirkan, Ayse; Kollerits, Barbara; Freedman, Barry I; Ponte, Belen; Oostra, Ben A; Paulweber, Bernhard; Krämer, Bernhard K; Mitchell, Braxton D; Buckley, Brendan M; Peralta, Carmen A; Hayward, Caroline; Helmer, Catherine; Rotimi, Charles N; Shaffer, Christian M; Müller, Christian; Sala, Cinzia; van Duijn, Cornelia M; Saint-Pierre, Aude; Ackermann, Daniel; Shriner, Daniel; Ruggiero, Daniela; Toniolo, Daniela; Lu, Yingchang; Cusi, Daniele; Czamara, Darina; Ellinghaus, David; Siscovick, David S; Ruderfer, Douglas; Gieger, Christian; Grallert, Harald; Rochtchina, Elena; Atkinson, Elizabeth J; Holliday, Elizabeth G; Boerwinkle, Eric; Salvi, Erika; Bottinger, Erwin P; Murgia, Federico; Rivadeneira, Fernando; Ernst, Florian; Kronenberg, Florian; Hu, Frank B; Navis, Gerjan J; Curhan, Gary C; Ehret, George B; Homuth, Georg; Coassin, Stefan; Thun, Gian-Andri; Pistis, Giorgio; Gambaro, Giovanni; Malerba, Giovanni; Montgomery, Grant W; Eiriksdottir, Gudny; Jacobs, Gunnar; Li, Guo; Wichmann, H-Erich; Campbell, Harry; Schmidt, Helena; Wallaschofski, Henri; Völzke, Henry; Brenner, Hermann; Kroemer, Heyo K; Kramer, Holly; Lin, Honghuang; Leach, I Mateo; Ford, Ian; Guessous, Idris; Rudan, Igor; Prokopenko, Inga; Borecki, Ingrid; Heid, Iris M; Kolcic, Ivana; Persico, Ivana; Jukema, J Wouter; Wilson, James F; Felix, Janine F; Divers, Jasmin; Lambert, Jean-Charles; Stafford, Jeanette M; Gaspoz, Jean-Michel; Smith, Jennifer A; Faul, Jessica D; Wang, Jie Jin; Ding, Jingzhong; Hirschhorn, Joel N; Attia, John; Whitfield, John B; Chalmers, John; Viikari, Jorma; Coresh, Josef; Denny, Joshua C; Karjalainen, Juha; Fernandes, Jyotika K; Endlich, Karlhans; Butterbach, Katja; Keene, Keith L; Lohman, Kurt; Portas, Laura; Launer, Lenore J; Lyytikäinen, Leo-Pekka; Yengo, Loic; Franke, Lude; Ferrucci, Luigi; Rose, Lynda M; Kedenko, Lyudmyla; Rao, Madhumathi; Struchalin, Maksim; Kleber, Marcus E; Cavalieri, Margherita; Haun, Margot; Cornelis, Marilyn C; Ciullo, Marina; Pirastu, Mario; de Andrade, Mariza; McEvoy, Mark A; Woodward, Mark; Adam, Martin; Cocca, Massimiliano; Nauck, Matthias; Imboden, Medea; Waldenberger, Melanie; Pruijm, Menno; Metzger, Marie; Stumvoll, Michael; Evans, Michele K; Sale, Michele M; Kähönen, Mika; Boban, Mladen; Bochud, Murielle; Rheinberger, Myriam; Verweij, Niek; Bouatia-Naji, Nabila; Martin, Nicholas G; Hastie, Nick; Probst-Hensch, Nicole; Soranzo, Nicole; Devuyst, Olivier; Raitakari, Olli; Gottesman, Omri; Franco, Oscar H; Polasek, Ozren; Gasparini, Paolo; Munroe, Patricia B; Ridker, Paul M; Mitchell, Paul; Muntner, Paul; Meisinger, Christa; Smit, Johannes H; Kovacs, Peter; Wild, Philipp S; Froguel, Philippe; Rettig, Rainer; Mägi, Reedik; Biffar, Reiner; Schmidt, Reinhold; Middelberg, Rita P S; Carroll, Robert J; Penninx, Brenda W; Scott, Rodney J; Katz, Ronit; Sedaghat, Sanaz; Wild, Sarah H; Kardia, Sharon L R; Ulivi, Sheila; Hwang, Shih-Jen; Enroth, Stefan; Kloiber, Stefan; Trompet, Stella; Stengel, Benedicte; Hancock, Stephen J; Turner, Stephen T; Rosas, Sylvia E; Stracke, Sylvia; Harris, Tamara B; Zeller, Tanja; Zemunik, Tatijana; Lehtimäki, Terho; Illig, Thomas; Aspelund, Thor; Nikopensius, Tiit; Esko, Tonu; Tanaka, Toshiko; Gyllensten, Ulf; Völker, Uwe; Emilsson, Valur; Vitart, Veronique; Aalto, Ville; Gudnason, Vilmundur; Chouraki, Vincent; Chen, Wei-Min; Igl, Wilmar; März, Winfried; Koenig, Wolfgang; Lieb, Wolfgang; Loos, Ruth J F; Liu, Yongmei; Snieder, Harold; Pramstaller, Peter P; Parsa, Afshin; O'Connell, Jeffrey R; Susztak, Katalin; Hamet, Pavel; Tremblay, Johanne; de Boer, Ian H; Böger, Carsten A; Goessling, Wolfram; Chasman, Daniel I; Köttgen, Anna; Kao, W H Linda; Fox, Caroline S

2016-01-21

Reduced glomerular filtration rate defines chronic kidney disease and is associated with cardiovascular and all-cause mortality. We conducted a meta-analysis of genome-wide association studies for estimated glomerular filtration rate (eGFR), combining data across 133,413 individuals with replication in up to 42,166 individuals. We identify 24 new and confirm 29 previously identified loci. Of these 53 loci, 19 associate with eGFR among individuals with diabetes. Using bioinformatics, we show that identified genes at eGFR loci are enriched for expression in kidney tissues and in pathways relevant for kidney development and transmembrane transporter activity, kidney structure, and regulation of glucose metabolism. Chromatin state mapping and DNase I hypersensitivity analyses across adult tissues demonstrate preferential mapping of associated variants to regulatory regions in kidney but not extra-renal tissues. These findings suggest that genetic determinants of eGFR are mediated largely through direct effects within the kidney and highlight important cell types and biological pathways.

New evidence for grain specific C4 photosynthesis in wheat

PubMed Central

Rangan, Parimalan; Furtado, Agnelo; Henry, Robert J

2016-01-01

The C4 photosynthetic pathway evolved to allow efficient CO2 capture by plants where effective carbon supply may be limiting as in hot or dry environments, explaining the high growth rates of C4 plants such as maize. Important crops such as wheat and rice are C3 plants resulting in efforts to engineer them to use the C4 pathway. Here we show the presence of a C4 photosynthetic pathway in the developing wheat grain that is absent in the leaves. Genes specific for C4 photosynthesis were identified in the wheat genome and found to be preferentially expressed in the photosynthetic pericarp tissue (cross- and tube-cell layers) of the wheat caryopsis. The chloroplasts exhibit dimorphism that corresponds to chloroplasts of mesophyll- and bundle sheath-cells in leaves of classical C4 plants. Breeding to optimize the relative contributions of C3 and C4 photosynthesis may adapt wheat to climate change, contributing to wheat food security. PMID:27530078

Defining the computational structure of the motion detector in Drosophila.

PubMed

Clark, Damon A; Bursztyn, Limor; Horowitz, Mark A; Schnitzer, Mark J; Clandinin, Thomas R

2011-06-23

Many animals rely on visual motion detection for survival. Motion information is extracted from spatiotemporal intensity patterns on the retina, a paradigmatic neural computation. A phenomenological model, the Hassenstein-Reichardt correlator (HRC), relates visual inputs to neural activity and behavioral responses to motion, but the circuits that implement this computation remain unknown. By using cell-type specific genetic silencing, minimal motion stimuli, and in vivo calcium imaging, we examine two critical HRC inputs. These two pathways respond preferentially to light and dark moving edges. We demonstrate that these pathways perform overlapping but complementary subsets of the computations underlying the HRC. A numerical model implementing differential weighting of these operations displays the observed edge preferences. Intriguingly, these pathways are distinguished by their sensitivities to a stimulus correlation that corresponds to an illusory percept, "reverse phi," that affects many species. Thus, this computational architecture may be widely used to achieve edge selectivity in motion detection. Copyright © 2011 Elsevier Inc. All rights reserved.

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

Hintermeier, Peter H.; Eckstein, Sebastian; Mei, Donghai

Hydronium ions in the pores of zeolite H-ZSM5 show high catalytic activity in the elimination of water from cyclohexanol in aqueous phase. Substitution induces subtle changes in rates and reaction pathways, which are concluded to be related to steric effects. Exploring the reaction pathways of 2-, 3-, and 4-methylcyclohexanol (2-McyOH, 3-McyOH, and 4-McyOH), 2- and 4-ethylcyclohexanol (2-EcyOH and 4-EcyOH), 2- n-propylcyclohexanol (2-PcyOH), and cyclohexanol (CyOH) it is shown that the E2 character increases with closer positioning of the alkyl and hydroxyl groups. Thus, 4-McyOH dehydration proceeds via an E1-type elimination, while cis-2-McyOH preferentially reacts via an E2 pathway. The entropymore » of activation decreased with increasing alkyl chain length (ca. 20 J mol -1 K -1 per CH 2 unit) for 2-substituted alcohols, which is concluded to result from constraints influencing the configurational entropy of the transition states.« less

Genetic associations at 53 loci highlight cell types and biological pathways relevant for kidney function

PubMed Central

Pattaro, Cristian; Teumer, Alexander; Gorski, Mathias; Chu, Audrey Y.; Li, Man; Mijatovic, Vladan; Garnaas, Maija; Tin, Adrienne; Sorice, Rossella; Li, Yong; Taliun, Daniel; Olden, Matthias; Foster, Meredith; Yang, Qiong; Chen, Ming-Huei; Pers, Tune H.; Johnson, Andrew D.; Ko, Yi-An; Fuchsberger, Christian; Tayo, Bamidele; Nalls, Michael; Feitosa, Mary F.; Isaacs, Aaron; Dehghan, Abbas; d'Adamo, Pio; Adeyemo, Adebowale; Dieffenbach, Aida Karina; Zonderman, Alan B.; Nolte, Ilja M.; van der Most, Peter J.; Wright, Alan F.; Shuldiner, Alan R.; Morrison, Alanna C.; Hofman, Albert; Smith, Albert V.; Dreisbach, Albert W.; Franke, Andre; Uitterlinden, Andre G.; Metspalu, Andres; Tonjes, Anke; Lupo, Antonio; Robino, Antonietta; Johansson, Åsa; Demirkan, Ayse; Kollerits, Barbara; Freedman, Barry I.; Ponte, Belen; Oostra, Ben A.; Paulweber, Bernhard; Krämer, Bernhard K.; Mitchell, Braxton D.; Buckley, Brendan M.; Peralta, Carmen A.; Hayward, Caroline; Helmer, Catherine; Rotimi, Charles N.; Shaffer, Christian M.; Müller, Christian; Sala, Cinzia; van Duijn, Cornelia M.; Saint-Pierre, Aude; Ackermann, Daniel; Shriner, Daniel; Ruggiero, Daniela; Toniolo, Daniela; Lu, Yingchang; Cusi, Daniele; Czamara, Darina; Ellinghaus, David; Siscovick, David S.; Ruderfer, Douglas; Gieger, Christian; Grallert, Harald; Rochtchina, Elena; Atkinson, Elizabeth J.; Holliday, Elizabeth G.; Boerwinkle, Eric; Salvi, Erika; Bottinger, Erwin P.; Murgia, Federico; Rivadeneira, Fernando; Ernst, Florian; Kronenberg, Florian; Hu, Frank B.; Navis, Gerjan J.; Curhan, Gary C.; Ehret, George B.; Homuth, Georg; Coassin, Stefan; Thun, Gian-Andri; Pistis, Giorgio; Gambaro, Giovanni; Malerba, Giovanni; Montgomery, Grant W.; Eiriksdottir, Gudny; Jacobs, Gunnar; Li, Guo; Wichmann, H-Erich; Campbell, Harry; Schmidt, Helena; Wallaschofski, Henri; Völzke, Henry; Brenner, Hermann; Kroemer, Heyo K.; Kramer, Holly; Lin, Honghuang; Leach, I. Mateo; Ford, Ian; Guessous, Idris; Rudan, Igor; Prokopenko, Inga; Borecki, Ingrid; Heid, Iris M.; Kolcic, Ivana; Persico, Ivana; Jukema, J. Wouter; Wilson, James F.; Felix, Janine F.; Divers, Jasmin; Lambert, Jean-Charles; Stafford, Jeanette M.; Gaspoz, Jean-Michel; Smith, Jennifer A.; Faul, Jessica D.; Wang, Jie Jin; Ding, Jingzhong; Hirschhorn, Joel N.; Attia, John; Whitfield, John B.; Chalmers, John; Viikari, Jorma; Coresh, Josef; Denny, Joshua C.; Karjalainen, Juha; Fernandes, Jyotika K.; Endlich, Karlhans; Butterbach, Katja; Keene, Keith L.; Lohman, Kurt; Portas, Laura; Launer, Lenore J.; Lyytikäinen, Leo-Pekka; Yengo, Loic; Franke, Lude; Ferrucci, Luigi; Rose, Lynda M.; Kedenko, Lyudmyla; Rao, Madhumathi; Struchalin, Maksim; Kleber, Marcus E.; Cavalieri, Margherita; Haun, Margot; Cornelis, Marilyn C.; Ciullo, Marina; Pirastu, Mario; de Andrade, Mariza; McEvoy, Mark A.; Woodward, Mark; Adam, Martin; Cocca, Massimiliano; Nauck, Matthias; Imboden, Medea; Waldenberger, Melanie; Pruijm, Menno; Metzger, Marie; Stumvoll, Michael; Evans, Michele K.; Sale, Michele M.; Kähönen, Mika; Boban, Mladen; Bochud, Murielle; Rheinberger, Myriam; Verweij, Niek; Bouatia-Naji, Nabila; Martin, Nicholas G.; Hastie, Nick; Probst-Hensch, Nicole; Soranzo, Nicole; Devuyst, Olivier; Raitakari, Olli; Gottesman, Omri; Franco, Oscar H.; Polasek, Ozren; Gasparini, Paolo; Munroe, Patricia B.; Ridker, Paul M.; Mitchell, Paul; Muntner, Paul; Meisinger, Christa; Smit, Johannes H.; Abecasis, Goncalo R.; Adair, Linda S.; Alexander, Myriam; Altshuler, David; Amin, Najaf; Arking, Dan E.; Arora, Pankaj; Aulchenko, Yurii; Bakker, Stephan J. L.; Bandinelli, Stefania; Barroso, Ines; Beckmann, Jacques S.; Beilby, John P.; Bergman, Richard N.; Bergmann, Sven; Bis, Joshua C.; Boehnke, Michael; Bonnycastle, Lori L.; Bornstein, Stefan R.; Bots, Michiel L.; Bragg-Gresham, Jennifer L.; Brand, Stefan-Martin; Brand, Eva; Braund, Peter S.; Brown, Morris J.; Burton, Paul R.; Casas, Juan P.; Caulfield, Mark J.; Chakravarti, Aravinda; Chambers, John C.; Chandak, Giriraj R.; Chang, Yen-Pei C.; Charchar, Fadi J.; Chaturvedi, Nish; Shin Cho, Yoon; Clarke, Robert; Collins, Francis S.; Collins, Rory; Connell, John M.; Cooper, Jackie A.; Cooper, Matthew N.; Cooper, Richard S.; Corsi, Anna Maria; Dörr, Marcus; Dahgam, Santosh; Danesh, John; Smith, George Davey; Day, Ian N. M.; Deloukas, Panos; Denniff, Matthew; Dominiczak, Anna F.; Dong, Yanbin; Doumatey, Ayo; Elliott, Paul; Elosua, Roberto; Erdmann, Jeanette; Eyheramendy, Susana; Farrall, Martin; Fava, Cristiano; Forrester, Terrence; Fowkes, F. Gerald R.; Fox, Ervin R.; Frayling, Timothy M.; Galan, Pilar; Ganesh, Santhi K.; Garcia, Melissa; Gaunt, Tom R.; Glazer, Nicole L.; Go, Min Jin; Goel, Anuj; Grässler, Jürgen; Grobbee, Diederick E.; Groop, Leif; Guarrera, Simonetta; Guo, Xiuqing; Hadley, David; Hamsten, Anders; Han, Bok-Ghee; Hardy, Rebecca; Hartikainen, Anna-Liisa; Heath, Simon; Heckbert, Susan R.; Hedblad, Bo; Hercberg, Serge; Hernandez, Dena; Hicks, Andrew A.; Hilton, Gina; Hingorani, Aroon D.; Bolton, Judith A Hoffman; Hopewell, Jemma C.; Howard, Philip; Humphries, Steve E.; Hunt, Steven C.; Hveem, Kristian; Ikram, M. Arfan; Islam, Muhammad; Iwai, Naoharu; Jarvelin, Marjo-Riitta; Jackson, Anne U.; Jafar, Tazeen H.; Janipalli, Charles S.; Johnson, Toby; Kathiresan, Sekar; Khaw, Kay-Tee; Kim, Hyung-Lae; Kinra, Sanjay; Kita, Yoshikuni; Kivimaki, Mika; Kooner, Jaspal S.; Kumar, M. J. Kranthi; Kuh, Diana; Kulkarni, Smita R.; Kumari, Meena; Kuusisto, Johanna; Kuznetsova, Tatiana; Laakso, Markku; Laan, Maris; Laitinen, Jaana; Lakatta, Edward G.; Langefeld, Carl D.; Larson, Martin G.; Lathrop, Mark; Lawlor, Debbie A.; Lawrence, Robert W.; Lee, Jong-Young; Lee, Nanette R.; Levy, Daniel; Li, Yali; Longstreth, Will T.; Luan, Jian'an; Lucas, Gavin; Ludwig, Barbara; Mangino, Massimo; Mani, K. Radha; Marmot, Michael G.; Mattace-Raso, Francesco U. S.; Matullo, Giuseppe; McArdle, Wendy L.; McKenzie, Colin A.; Meitinger, Thomas; Melander, Olle; Meneton, Pierre; Meschia, James F.; Miki, Tetsuro; Milaneschi, Yuri; Mohlke, Karen L.; Mooser, Vincent; Morken, Mario A.; Morris, Richard W.; Mosley, Thomas H.; Najjar, Samer; Narisu, Narisu; Newton-Cheh, Christopher; Nguyen, Khanh-Dung Hoang; Nilsson, Peter; Nyberg, Fredrik; O'Donnell, Christopher J.; Ogihara, Toshio; Ohkubo, Takayoshi; Okamura, Tomonori; Ong, RickTwee-Hee; Ongen, Halit; Onland-Moret, N. Charlotte; O'Reilly, Paul F.; Org, Elin; Orru, Marco; Palmas, Walter; Palmen, Jutta; Palmer, Lyle J.; Palmer, Nicholette D.; Parker, Alex N.; Peden, John F.; Peltonen, Leena; Perola, Markus; Pihur, Vasyl; Platou, Carl G. P.; Plump, Andrew; Prabhakaran, Dorairajan; Psaty, Bruce M.; Raffel, Leslie J.; Rao, Dabeeru C.; Rasheed, Asif; Ricceri, Fulvio; Rice, Kenneth M.; Rosengren, Annika; Rotter, Jerome I.; Rudock, Megan E.; Sõber, Siim; Salako, Tunde; Saleheen, Danish; Salomaa, Veikko; Samani, Nilesh J.; Schwartz, Steven M.; Schwarz, Peter E. H.; Scott, Laura J.; Scott, James; Scuteri, Angelo; Sehmi, Joban S.; Seielstad, Mark; Seshadri, Sudha; Sharma, Pankaj; Shaw-Hawkins, Sue; Shi, Gang; Shrine, Nick R. G.; Sijbrands, Eric J. G.; Sim, Xueling; Singleton, Andrew; Sjögren, Marketa; Smith, Nicholas L.; Artigas, Maria Soler; Spector, Tim D.; Staessen, Jan A.; Stancakova, Alena; Steinle, Nanette I.; Strachan, David P.; Stringham, Heather M.; Sun, Yan V.; Swift, Amy J.; Tabara, Yasuharu; Tai, E-Shyong; Talmud, Philippa J.; Taylor, Andrew; Terzic, Janos; Thelle, Dag S.; Tobin, Martin D.; Tomaszewski, Maciej; Tripathy, Vikal; Tuomilehto, Jaakko; Tzoulaki, Ioanna; Uda, Manuela; Ueshima, Hirotsugu; Uiterwaal, Cuno S. P. M.; Umemura, Satoshi; van der Harst, Pim; van der Schouw, Yvonne T.; van Gilst, Wiek H.; Vartiainen, Erkki; Vasan, Ramachandran S.; Veldre, Gudrun; Verwoert, Germaine C.; Viigimaa, Margus; Vinay, D. G.; Vineis, Paolo; Voight, Benjamin F.; Vollenweider, Peter; Wagenknecht, Lynne E.; Wain, Louise V.; Wang, Xiaoling; Wang, Thomas J.; Wareham, Nicholas J.; Watkins, Hugh; Weder, Alan B.; Whincup, Peter H.; Wiggins, Kerri L.; Witteman, Jacqueline C. M.; Wong, Andrew; Wu, Ying; Yajnik, Chittaranjan S.; Yao, Jie; Young, J. H.; Zelenika, Diana; Zhai, Guangju; Zhang, Weihua; Zhang, Feng; Zhao, Jing Hua; Zhu, Haidong; Zhu, Xiaofeng; Zitting, Paavo; Zukowska-Szczechowska, Ewa; Okada, Yukinori; Wu, Jer-Yuarn; Gu, Dongfeng; Takeuchi, Fumihiko; Takahashi, Atsushi; Maeda, Shiro; Tsunoda, Tatsuhiko; Chen, Peng; Lim, Su-Chi; Wong, Tien-Yin; Liu, Jianjun; Young, Terri L.; Aung, Tin; Teo, Yik-Ying; Kim, Young Jin; Kang, Daehee; Chen, Chien-Hsiun; Tsai, Fuu-Jen; Chang, Li-Ching; Fann, S. -J. Cathy; Mei, Hao; Hixson, James E.; Chen, Shufeng; Katsuya, Tomohiro; Isono, Masato; Albrecht, Eva; Yamamoto, Kazuhiko; Kubo, Michiaki; Nakamura, Yusuke; Kamatani, Naoyuki; Kato, Norihiro; He, Jiang; Chen, Yuan-Tsong; Tanaka, Toshihiro; Reilly, Muredach P; Schunkert, Heribert; Assimes, Themistocles L.; Hall, Alistair; Hengstenberg, Christian; König, Inke R.; Laaksonen, Reijo; McPherson, Ruth; Thompson, John R.; Thorsteinsdottir, Unnur; Ziegler, Andreas; Absher, Devin; Chen, Li; Cupples13, L. Adrienne; Halperin, Eran; Li, Mingyao; Musunuru, Kiran; Preuss, Michael; Schillert, Arne; Thorleifsson, Gudmar; Wells, George A.; Holm, Hilma; Roberts, Robert; Stewart, Alexandre F. R.; Fortmann, Stephen; Go, Alan; Hlatky, Mark; Iribarren, Carlos; Knowles, Joshua; Myers, Richard; Quertermous, Thomas; Sidney, Steven; Risch, Neil; Tang, Hua; Blankenberg, Stefan; Schnabel, Renate; Sinning, Christoph; Lackner, Karl J.; Tiret, Laurence; Nicaud, Viviane; Cambien, Francois; Bickel, Christoph; Rupprecht, Hans J.; Perret, Claire; Proust, Carole; Münzel, Thomas F.; Barbalic, Maja; Chen, Ida Yii-Der; Demissie-Banjaw, Serkalem; Folsom, Aaron; Lumley, Thomas; Marciante, Kristin; Taylor, Kent D.; Volcik, Kelly; Gretarsdottir, Solveig; Gulcher, Jeffrey R.; Kong, Augustine; Stefansson, Kari; Thorgeirsson, Gudmundur; Andersen, Karl; Fischer, Marcus; Grosshennig, Anika; Linsel-Nitschke, Patrick; Stark, Klaus; Schreiber, Stefan; Aherrahrou, Zouhair; Bruse, Petra; Doering, Angela; Klopp, Norman; Diemert, Patrick; Loley, Christina; Medack, Anja; Nahrstedt, Janja; Peters, Annette; Wagner, Arnika K.; Willenborg, Christina; Böhm, Bernhard O.; Dobnig, Harald; Grammer, Tanja B.; Hoffmann, Michael M.; Meinitzer, Andreas; Winkelmann, Bernhard R.; Pilz, Stefan; Renner, Wilfried; Scharnagl, Hubert; Stojakovic, Tatjana; Tomaschitz, Andreas; Winkler, Karl; Guiducci, Candace; Burtt, Noel; Gabriel, Stacey B.; Dandona, Sonny; Jarinova, Olga; Qu, Liming; Wilensky, Robert; Matthai, William; Hakonarson, Hakon H.; Devaney, Joe; Burnett, Mary Susan; Pichard, Augusto D.; Kent, Kenneth M.; Satler, Lowell; Lindsay, Joseph M.; Waksman, Ron; Knouff, Christopher W.; Waterworth, Dawn M.; Walker, Max C.; Epstein, Stephen E.; Rader, Daniel J.; Nelson, Christopher P.; Wright, Benjamin J.; Balmforth, Anthony J.; Ball, Stephen G.; Loehr, Laura R.; Rosamond, Wayne D.; Benjamin, Emelia; Haritunians, Talin; Couper, David; Murabito, Joanne; Wang, Ying A.; Stricker, Bruno H.; Chang, Patricia P.; Willerson, James T.; Felix, Stephan B.; Watzinger, Norbert; Aragam, Jayashri; Zweiker, Robert; Lind, Lars; Rodeheffer, Richard J.; Greiser, Karin Halina; Deckers, Jaap W.; Stritzke, Jan; Ingelsson, Erik; Kullo, Iftikhar; Haerting, Johannes; Reffelmann, Thorsten; Redfield, Margaret M.; Werdan, Karl; Mitchell, Gary F.; Arnett, Donna K.; Gottdiener, John S.; Blettner, Maria; Friedrich, Nele; Kovacs, Peter; Wild, Philipp S.; Froguel, Philippe; Rettig, Rainer; Mägi, Reedik; Biffar, Reiner; Schmidt, Reinhold; Middelberg, Rita P. S.; Carroll, Robert J.; Penninx, Brenda W.; Scott, Rodney J.; Katz, Ronit; Sedaghat, Sanaz; Wild, Sarah H.; Kardia, Sharon L. R.; Ulivi, Sheila; Hwang, Shih-Jen; Enroth, Stefan; Kloiber, Stefan; Trompet, Stella; Stengel, Benedicte; Hancock, Stephen J.; Turner, Stephen T.; Rosas, Sylvia E.; Stracke, Sylvia; Harris, Tamara B.; Zeller, Tanja; Zemunik, Tatijana; Lehtimäki, Terho; Illig, Thomas; Aspelund, Thor; Nikopensius, Tiit; Esko, Tonu; Tanaka, Toshiko; Gyllensten, Ulf; Völker, Uwe; Emilsson, Valur; Vitart, Veronique; Aalto, Ville; Gudnason, Vilmundur; Chouraki, Vincent; Chen, Wei-Min; Igl, Wilmar; März, Winfried; Koenig, Wolfgang; Lieb, Wolfgang; Loos, Ruth J. F.; Liu, Yongmei; Snieder, Harold; Pramstaller, Peter P.; Parsa, Afshin; O'Connell, Jeffrey R.; Susztak, Katalin; Hamet, Pavel; Tremblay, Johanne; de Boer, Ian H.; Böger, Carsten A.; Goessling, Wolfram; Chasman, Daniel I.; Köttgen, Anna; Kao, W. H. Linda; Fox, Caroline S.

2016-01-01

Reduced glomerular filtration rate defines chronic kidney disease and is associated with cardiovascular and all-cause mortality. We conducted a meta-analysis of genome-wide association studies for estimated glomerular filtration rate (eGFR), combining data across 133,413 individuals with replication in up to 42,166 individuals. We identify 24 new and confirm 29 previously identified loci. Of these 53 loci, 19 associate with eGFR among individuals with diabetes. Using bioinformatics, we show that identified genes at eGFR loci are enriched for expression in kidney tissues and in pathways relevant for kidney development and transmembrane transporter activity, kidney structure, and regulation of glucose metabolism. Chromatin state mapping and DNase I hypersensitivity analyses across adult tissues demonstrate preferential mapping of associated variants to regulatory regions in kidney but not extra-renal tissues. These findings suggest that genetic determinants of eGFR are mediated largely through direct effects within the kidney and highlight important cell types and biological pathways. PMID:26831199

Fluid flows and forces in development: functions, features and biophysical principles

PubMed Central

Freund, Jonathan B.; Goetz, Jacky G.; Hill, Kent L.; Vermot, Julien

2012-01-01

Throughout morphogenesis, cells experience intracellular tensile and contractile forces on microscopic scales. Cells also experience extracellular forces, such as static forces mediated by the extracellular matrix and forces resulting from microscopic fluid flow. Although the biological ramifications of static forces have received much attention, little is known about the roles of fluid flows and forces during embryogenesis. Here, we focus on the microfluidic forces generated by cilia-driven fluid flow and heart-driven hemodynamics, as well as on the signaling pathways involved in flow sensing. We discuss recent studies that describe the functions and the biomechanical features of these fluid flows. These insights suggest that biological flow determines many aspects of cell behavior and identity through a specific set of physical stimuli and signaling pathways. PMID:22395739

Anther-preferential expressing gene PMR is essential for the mitosis of pollen development in rice.

PubMed

Liu, Yaqin; Xu, Ya; Ling, Sheng; Liu, Shasha; Yao, Jialing

2017-06-01

Phenotype identification, expression examination, and function prediction declared that the anther-preferential expressing gene PMR may participate in regulation of male gametophyte development in rice. Male germline development in flowering plants produces the pair of sperm cells for double fertilization and the pollen mitosis is a key process of it. Although the structural features of male gametophyte have been defined, the molecular mechanisms regulating the mitotic cell cycle are not well elucidated in rice. Here, we reported an anther-preferential expressing gene in rice, PMR (Pollen Mitosis Relative), playing an essential role in male gametogenesis. When PMR gene was suppressed via RNAi, the mitosis of microspore was severely damaged, and the plants formed unmatured pollens containing only one or two nucleuses at the anthesis, ultimately leading to serious reduction of pollen fertility and seed-setting. The CRISPR mutants, pmr-1 and pmr-2, both showed the similar defects as the PMR-RNAi lines. Further analysis revealed that PMR together with its co-expressing genes were liable to participate in the regulation of DNA metabolism in the nucleus, and affected the activities of some enzymes related to the cell cycle. We finally discussed that unknown protein PMR contained the PHD, SWIB and Plus-3 domains and they might have coordinating functions in regulation pathway of the pollen mitosis in rice.

Modeling of time dependent localized flow shear stress and its impact on cellular growth within additive manufactured titanium implants

PubMed Central

Zhang, Ziyu; Yuan, Lang; Lee, Peter D; Jones, Eric; Jones, Julian R

2014-01-01

Bone augmentation implants are porous to allow cellular growth, bone formation and fixation. However, the design of the pores is currently based on simple empirical rules, such as minimum pore and interconnects sizes. We present a three-dimensional (3D) transient model of cellular growth based on the Navier–Stokes equations that simulates the body fluid flow and stimulation of bone precursor cellular growth, attachment, and proliferation as a function of local flow shear stress. The model's effectiveness is demonstrated for two additive manufactured (AM) titanium scaffold architectures. The results demonstrate that there is a complex interaction of flow rate and strut architecture, resulting in partially randomized structures having a preferential impact on stimulating cell migration in 3D porous structures for higher flow rates. This novel result demonstrates the potential new insights that can be gained via the modeling tool developed, and how the model can be used to perform what-if simulations to design AM structures to specific functional requirements. PMID:24664988

Flow and dispersion in anisotropic porous media: A lattice-Boltzmann study

NASA Astrophysics Data System (ADS)

Maggiolo, D.; Picano, F.; Guarnieri, M.

2016-10-01

Given their capability of spreading active chemical species and collecting electricity, porous media made of carbon fibers are extensively used as diffusion layers in energy storage systems, such as redox flow batteries. In spite of this, the dispersion dynamics of species inside porous media is still not well understood and often lends itself to different interpretations. Actually, the microscopic design of efficient porous media, which can potentially and effectively improve the performances of flow batteries, is still an open challenge. The present study aims to investigate the effect of fibrous media micro-structure on dispersion, in particular the effect of fiber orientation on drag and dispersion dynamics. Several lattice-Boltzmann simulations of flows through differently oriented fibrous media coupled with Lagrangian simulations of particle tracers have been performed. Results show that orienting fibers preferentially along the streamwise direction minimizes the drag and maximizes the dispersion, which is the most desirable condition for diffusion layers in flow batteries' applications.

Is there a geomorphic expression of interbasin groundwater flow in watersheds? Interactions between interbasin groundwater flow, springs, streams, and geomorphology

NASA Astrophysics Data System (ADS)

Frisbee, Marty D.; Tysor, Elizabeth H.; Stewart-Maddox, Noah S.; Tsinnajinnie, Lani M.; Wilson, John L.; Granger, Darryl E.; Newman, Brent D.

2016-02-01

Interbasin groundwater flow (IGF) can play a significant role in the generation and geochemical evolution of streamflow. However, it is exceedingly difficult to identify IGF and to determine the location and quantity of water that is exchanged between watersheds. How does IGF affect landscape/watershed geomorphic evolution? Can geomorphic metrics be used to identify the presence of IGF? We examine these questions in two adjacent sedimentary watersheds in northern New Mexico using a combination of geomorphic/landscape metrics, springflow residence times, and spatial geochemical patterns. IGF is expressed geomorphically in the landscape placement of springs and flow direction and shape of stream channels. Springs emerge preferentially on one side of stream valleys where landscape incision has intercepted IGF flow paths. Stream channels grow toward the IGF source and show little bifurcation. In addition, radiocarbon residence times of springs decrease and the geochemical composition of springs changes as the connection to IGF is lost.

Phosphodiesterase-10A Inverse Changes in Striatopallidal and Striatoentopeduncular Pathways of a Transgenic Mouse Model of DYT1 Dystonia.

PubMed

D'Angelo, Vincenza; Castelli, Valentina; Giorgi, Mauro; Cardarelli, Silvia; Saverioni, Ilaria; Palumbo, Francesca; Bonsi, Paola; Pisani, Antonio; Giampà, Carmela; Sorge, Roberto; Biagioni, Stefano; Fusco, Francesca R; Sancesario, Giuseppe

2017-02-22

We report that changes of phosphodiesterase-10A (PDE10A) can map widespread functional imbalance of basal ganglia circuits in a mouse model of DYT1 dystonia overexpressing mutant torsinA. PDE10A is a key enzyme in the catabolism of second messenger cAMP and cGMP, whose synthesis is stimulated by D1 receptors and inhibited by D2 receptors preferentially expressed in striatoentopeducuncular/substantia nigra or striatopallidal pathways, respectively. PDE10A was studied in control mice (NT) and in mice carrying human wild-type torsinA (hWT) or mutant torsinA (hMT). Quantitative analysis of PDE10A expression was assessed in different brain areas by rabbit anti-PDE10A antibody immunohistochemistry and Western blotting. PDE10A-dependent cAMP hydrolyzing activity and PDE10A mRNA were also assessed. Striatopallidal neurons were identified by rabbit anti-enkephalin antibody.In NT mice, PDE10A is equally expressed in medium spiny striatal neurons and in their projections to entopeduncular nucleus/substantia nigra and to external globus pallidus. In hMT mice, PDE10A content selectively increases in enkephalin-positive striatal neuronal bodies; moreover, PDE10A expression and activity in hMT mice, compared with NT mice, significantly increase in globus pallidus but decrease in entopeduncular nucleus/substantia nigra. Similar changes of PDE10A occur in hWT mice, but such changes are not always significant. However, PDE10A mRNA expression appears comparable among NT, hWT, and hMT mice.In DYT1 transgenic mice, the inverse changes of PDE10A in striatoentopeduncular and striatopallidal projections might result over time in an imbalance between direct and indirect pathways for properly focusing movement. The decrease of PDE10A in the striatoentopeduncular/nigral projections might lead to increased intensity and duration of D1-stimulated cAMP/cGMP signaling; conversely, the increase of PDE10A in the striatopallidal projections might lead to increased intensity and duration of D2-inhibited cAMP/cGMP signaling. SIGNIFICANCE STATEMENT In DYT1 transgenic mouse model of dystonia, PDE10A, a key enzyme in cAMP and cGMP catabolism, is downregulated in striatal projections to entopeduncular nucleus/substantia nigra, preferentially expressing D1 receptors that stimulate cAMP/cGMP synthesis. Conversely, in DYT1 mice, PDE10A is upregulated in striatal projections to globus pallidus, preferentially expressing D2 receptors that inhibit cAMP/cGMP synthesis. The inverse changes to PDE10A in striatoentopeduncular/substantia nigra and striatopallidal pathways might tightly interact downstream to dopamine receptors, likely resulting over time to increased intensity and duration respectively of D1-stimulated and D2-inhibited cAMP/cGMP signals. Therefore, PDE10A changes in the DYT1 model of dystonia can upset the functional balance of basal ganglia circuits, affecting direct and indirect pathways simultaneously. Copyright © 2017 the authors 0270-6474/17/372113-13$15.00/0.

Modelling spatiotemporal distribution patterns of earthworms in order to indicate hydrological soil processes

NASA Astrophysics Data System (ADS)

Palm, Juliane; Klaus, Julian; van Schaik, Loes; Zehe, Erwin; Schröder, Boris

2010-05-01

Soils provide central ecosystem functions in recycling nutrients, detoxifying harmful chemicals as well as regulating microclimate and local hydrological processes. The internal regulation of these functions and therefore the development of healthy and fertile soils mainly depend on the functional diversity of plants and animals. Soil organisms drive essential processes such as litter decomposition, nutrient cycling, water dynamics, and soil structure formation. Disturbances by different soil management practices (e.g., soil tillage, fertilization, pesticide application) affect the distribution and abundance of soil organisms and hence influence regulating processes. The strong relationship between environmental conditions and soil organisms gives us the opportunity to link spatiotemporal distribution patterns of indicator species with the potential provision of essential soil processes on different scales. Earthworms are key organisms for soil function and affect, among other things, water dynamics and solute transport in soils. Through their burrowing activity, earthworms increase the number of macropores by building semi-permanent burrow systems. In the unsaturated zone, earthworm burrows act as preferential flow pathways and affect water infiltration, surface-, subsurface- and matrix flow as well as the transport of water and solutes into deeper soil layers. Thereby different ecological earthworm types have different importance. Deep burrowing anecic earthworm species (e.g., Lumbricus terrestris) affect the vertical flow and thus increase the risk of potential contamination of ground water with agrochemicals. In contrast, horizontal burrowing endogeic (e.g., Aporrectodea caliginosa) and epigeic species (e.g., Lumbricus rubellus) increase water conductivity and the diffuse distribution of water and solutes in the upper soil layers. The question which processes are more relevant is pivotal for soil management and risk assessment. Thus, finding relevant environmental predictors which explain the distribution and dynamics of different ecological earthworm types can help us to understand where or when these processes are relevant in the landscape. Therefore, we develop species distribution models which are a useful tool to predict spatiotemporal distributions of earthworm occurrence and abundance under changing environmental conditions. On field scale, geostatistical distribution maps have shown that the spatial distribution of earthworms depends on soil parameters such as food supply, soil moisture, bulk density but with different patterns for earthworm stages (adult, juvenile) and ecological types (anecic, endogeic, epigeic). On landscape scales, earthworm distribution seems to be strongly controlled by management/disturbance-related factors. Our study shows different modelling approaches for predicting distribution patterns of earthworms in the Weiherbach area, an agricultural site in Kraichtal (Baden-Württemberg, Germany). We carried out field studies on arable fields differing in soil management practices (conventional, conservational), soil properties (organic matter content, texture, soil moisture), and topography (slope, elevation) in order to identify predictors for earthworm occurrence, abundance and biomass. Our earthworm distribution models consider all ecological groups as well as different life stages, accounting for the fact that the activity of juveniles is sometimes different from those of adults. Within our BIOPORE-project it is our final goal to couple our distribution models with population dynamic models and a preferential flow model to an integrated ecohydrological model to analyse feedbacks between earthworm engineering and transport characteristics affecting the functioning of (agro-) ecosystems.

Sensory Contributions to Impaired Emotion Processing in Schizophrenia

PubMed Central

Butler, Pamela D.; Abeles, Ilana Y.; Weiskopf, Nicole G.; Tambini, Arielle; Jalbrzikowski, Maria; Legatt, Michael E.; Zemon, Vance; Loughead, James; Gur, Ruben C.; Javitt, Daniel C.

2009-01-01

Both emotion and visual processing deficits are documented in schizophrenia, and preferential magnocellular visual pathway dysfunction has been reported in several studies. This study examined the contribution to emotion-processing deficits of magnocellular and parvocellular visual pathway function, based on stimulus properties and shape of contrast response functions. Experiment 1 examined the relationship between contrast sensitivity to magnocellular- and parvocellular-biased stimuli and emotion recognition using the Penn Emotion Recognition (ER-40) and Emotion Differentiation (EMODIFF) tests. Experiment 2 altered the contrast levels of the faces themselves to determine whether emotion detection curves would show a pattern characteristic of magnocellular neurons and whether patients would show a deficit in performance related to early sensory processing stages. Results for experiment 1 showed that patients had impaired emotion processing and a preferential magnocellular deficit on the contrast sensitivity task. Greater deficits in ER-40 and EMODIFF performance correlated with impaired contrast sensitivity to the magnocellular-biased condition, which remained significant for the EMODIFF task even when nonspecific correlations due to group were considered in a step-wise regression. Experiment 2 showed contrast response functions indicative of magnocellular processing for both groups, with patients showing impaired performance. Impaired emotion identification on this task was also correlated with magnocellular-biased visual sensory processing dysfunction. These results provide evidence for a contribution of impaired early-stage visual processing in emotion recognition deficits in schizophrenia and suggest that a bottom-up approach to remediation may be effective. PMID:19793797

Sensory contributions to impaired emotion processing in schizophrenia.

PubMed

Butler, Pamela D; Abeles, Ilana Y; Weiskopf, Nicole G; Tambini, Arielle; Jalbrzikowski, Maria; Legatt, Michael E; Zemon, Vance; Loughead, James; Gur, Ruben C; Javitt, Daniel C

2009-11-01

Both emotion and visual processing deficits are documented in schizophrenia, and preferential magnocellular visual pathway dysfunction has been reported in several studies. This study examined the contribution to emotion-processing deficits of magnocellular and parvocellular visual pathway function, based on stimulus properties and shape of contrast response functions. Experiment 1 examined the relationship between contrast sensitivity to magnocellular- and parvocellular-biased stimuli and emotion recognition using the Penn Emotion Recognition (ER-40) and Emotion Differentiation (EMODIFF) tests. Experiment 2 altered the contrast levels of the faces themselves to determine whether emotion detection curves would show a pattern characteristic of magnocellular neurons and whether patients would show a deficit in performance related to early sensory processing stages. Results for experiment 1 showed that patients had impaired emotion processing and a preferential magnocellular deficit on the contrast sensitivity task. Greater deficits in ER-40 and EMODIFF performance correlated with impaired contrast sensitivity to the magnocellular-biased condition, which remained significant for the EMODIFF task even when nonspecific correlations due to group were considered in a step-wise regression. Experiment 2 showed contrast response functions indicative of magnocellular processing for both groups, with patients showing impaired performance. Impaired emotion identification on this task was also correlated with magnocellular-biased visual sensory processing dysfunction. These results provide evidence for a contribution of impaired early-stage visual processing in emotion recognition deficits in schizophrenia and suggest that a bottom-up approach to remediation may be effective.