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At least 1,333 records · Page 74

Structural Heterogeneity and Hydrodynamics of an Intrinsically Disordered Protein Condensate

Biology demonstrates precise control over the free-energy landscape through the selective partitioning of biomacromolecules into membraneless organelles, enabling essential functions such as biochemical transformations, signaling cascades, and mechanical reinforcement. Although the function of these condensates depends on their underlying structure and hydrodynamics, molecular-scale information on these systems remains sparse. Here, in this study, neutron scattering is used to probe the organization and dynamics of the intrinsically disordered N-terminal domain of Galectin-3, an extracellular lectin responsible for facilitating liquid–liquid phase separation on the cellular surface, in both dilute and condensed phases. Dilute solutions contain isolated protein chains in equilibrium with mesoscopic clusters, whereas the condensed phase adopts a bicontinuous, microemulsion-like morphology. The dilute phase behavior is quantitatively described by coarse-grained polymer models from soft-matter physics, demonstrating their predictive power for complex biological proteins. At elevated concentrations, the proteins self-assemble akin to block copolymers, microphase separating through the aggregation of hydrophobic domains along the protein contour. The resulting condensate remains fluid-like despite a 25-fold increase in concentration; its internal hydrodynamics slow by only a factor of 3 relative to dilute protein chains. These results provide a molecular-level framework for how disordered proteins achieve both the structural complexity and dynamic fluidity of biomolecular condensates.

Carrick, Brian R. [Massachusetts Inst. of Technolo↗

An algorithm for computing the 2D structure of fast rotating stars

Stars may be understood as self-gravitating masses of a compressible fluid whose radiative cooling is compensated by nuclear reactions or gravitational contraction. The understanding of their time evolution requires the use of detailed models that account for a complex microphysics including that of opacities, equation of state and nuclear reactions. The present stellar models are essentially one-dimensional, namely spherically symmetric. However, the interpretation of recent data like the surface abundances of elements or the distribution of internal rotation have reached the limits of validity of one-dimensional models because of their very simplified representation of large-scale fluid flows. In this article, we describe the ESTER code, which is the first code able to compute in a consistent way a two-dimensional model of a fast rotating star including its large-scale flows. Compared to classical 1D stellar evolution codes, many numerical innovations have been introduced to deal with this complex problem. First, the spectral discretization based on spherical harmonics and Chebyshev polynomials is used to represent the 2D axisymmetric fields. A nonlinear mapping maps the spheroidal star and allows a smooth spectral representation of the fields. The properties of Picard and Newton iterations for solving the nonlinear partial differential equations of the problem are discussed. It turns out that the Picard scheme is efficient on the computation of the simple polytropic stars, but Newton algorithm is unsurpassed when stellar models include complex microphysics. Finally, we discuss the numerical efficiency of our solver of Newton iterations. This linear solver combines the iterative Conjugate Gradient Squared algorithm together with an LU-factorization serving as a preconditioner of the Jacobian matrix.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Permeability Variations Associated With Fault Reactivation in a Claystone Formation Investigated by Field Experiments and Numerical Simulations

We studied the relation between rupture and changes in permeability within a fault zone intersecting the Opalinus Clay formation at 300 m depth in the Mont Terri Underground Research Laboratory (Switzerland). A series of water injection experiments were performed in a borehole straddle interval set within the damage zone of the main fault. A three-component displacement sensor allowed an estimation of the displacement of a minor fault plane reactivated during a succession of step rate pressure tests. The experiment reveals that the fault hydromechanical (HM) behavior is different from one test to the other with varying pressure levels needed to trigger rupture and different slip behavior under similar pressure conditions. Numerical simulations were performed to better understand the reason for such different behavior and to investigate the relation between rupture nucleation, permeability change, pressure diffusion, and rupture propagation. Here, our main findings are as follows: (i) a rate frictional law and a rate-and-state permeability law can reproduce the first test, but it appears that the rate constitutive parameters must be pressure dependent to reproduce the complex HM behavior observed during the successive injection tests; (ii) almost similar ruptures can create or destroy the fluid diffusion pathways; (iii) a too high or too low diffusivity created by the main rupture prevents secondary rupture events from occurring whereas “intermediate” diffusivity favors the nucleation of a secondary rupture associated with the fluid diffusion. However, because rupture may in certain cases destroy permeability, this succession of ruptures may not necessarily create a continuous hydraulic pathway.

58 GEOSCIENCES↗

Optimal Wetting Angles in Lattice Boltzmann Simulations of Viscous Fingering

We conduct pore-scale simulations of two-phase flow using the 2D Rothman–Keller colour gradient lattice Boltzmann method to study the effect of wettability on saturation at breakthrough (sweep) when the injected fluid first passes through the right boundary of the model. We performed a suite of 189 simulations in which a “red” fluid is injected at the left side of a 2D porous model that is initially saturated with a “blue” fluid spanning viscosity ratios M=ν r /ν b ∈[0.001,100] and wetting angles θ w ∈[0°,180°]. As expected, at low-viscosity ratios M=ν r /ν b $\ll$1 we observe viscous fingering in which narrow tendrils of the red fluid span the model, and for high-viscosity ratios M$\gg$1, we observe stable displacement. The viscous finger morphology is affected by the wetting angle with a tendency for more rounded fingers when the injected fluid is wetting. However, rather than the expected result of increased saturation with increasing wettability, we observe a complex saturation landscape at breakthrough as a function of viscosity ratio and wetting angle that contains hills and valleys with specific wetting angles at given viscosity ratios that maximize sweep. This unexpected result that sweep does not necessarily increase with wettability has major implications to enhanced oil recovery and suggests that the dynamics of multiphase flow in porous media has a complex relationship with the geometry of the medium and the hydrodynamical parameters.

Engineering↗

Numerical Simulation of Slag Eye Formation and Slag Entrapment in a Bottom-Blown Argon-Stirred Ladle

A transient mathematical model is developed for simulating the bubble-steel-slag-top gas four-phase flow in a bottom-blown argon-stirred ladle with a 70-ton capacity. The Lagrangian discrete phase model (DPM) is used for describing the moving behavior of bubbles in the steel and slag. To observe the formation process of slag eye, the volume of fluid (VOF) model is used to track the interfaces between three incompressible phases: metal/slag, metal/gas, and slag/gas. The complex multiphase turbulent flow induced by bubble-liquid interactions is solved by a large eddy simulation (LES) model. Slag eye area and slag droplet dispersion are investigated under different gas flow rates. The results show that the movement of bubbles, formation and collapse of slag eye, volatility of steel/slag interface and behavior of slag entrapment can be properly predicted in the current model. When the gas flow rate is 300 L/min, the circulation driven by the bubble plume will stir the entire ladle adequately and form a slag eye of the right size. At the same time, it will not cause strong erosion to the ladle wall, and the fluctuation of the interface is of adequate intensity, which will be helpful for improving the desulfurization efficiency; the slag entrapment behavior can also be decreased. Interestingly, with the motion of liquid steel circulation, the collision and coalescence of dispersed slag droplets occur during the floating process in the vicinity of the wall.

36 MATERIALS SCIENCE↗

A fully 3-D numerical model to predict flood wave propagation and assess efficiency of flood protection measures

Discussed are the development and validation of a 3-D, non-hydrostatic, Reynolds-Averaged Navier–Stokes (RANS) model using the Volume of Fluid (VOF) approach to simulate flooding events in natural environments. A series of validation simulations in simple and complex geometries are performed to test the different modules of the flow solver. The paper also discusses the differences between simulation results obtained using the 3-D model and those obtained using a standard, 2-D hydrostatic, depth-averaged model. The predictions by the two models show fairly large differences in regions where 3-D effects are expected to be significant (e.g., in regions containing highly-curved river reaches and near hydraulic structures). Then, the validated 3-D model is employed to investigate the efficiency of using flood-protection walls to reduce adverse effects of flooding in the Iowa River near Iowa City, Iowa, USA. Finally, the propagation of a flood wave in a reach of the Iowa River containing a bridge is simulated and the effects of the flow becoming pressurized beneath the bridge deck are discussed. For such applications, in which the regime can change locally between open channel and pressurized flow, the use of fully 3-D, non-hydrostatic models may be the only viable option to accurately predict flow hydrodynamics and its effects on bed shear stresses and sediment entrainment potential, especially around locations where the flow becomes pressurized.

Water Resources↗

An experimental study of synthetic Hydroxybastnäsite-(La) solubility and speciation in carbonate bearing aqueous solutions at 175–250 °C

The transport and enrichment of rare earth element (REE) ore bodies are dependent on the stability of aqueous metal ligand complexes and the solubility of REE bearing minerals. REE ores are commonly associated with igneous systems having aqueous fluids with high carbonate concentrations and REE solubilities have been shown to be dependent on temperature and associate anion aqueous ligands present in solution. Furthermore, this work presents solubility experiments of hydroxybastnäsite-(La) at elevated temperatures in aqueous solutions of varying carbonate concentrations. At lower temperatures, hydroxybastnäsite-(La) solubility is controlled by neutral mono-carbonate LaCO 3 OH° but at higher temperatures and activities of carbonate species, charged di-carbonate La(CO 3 ) 2 - increases and predominates. This divergence, and the difference in solubility products of other hydroxybastnäsite-(REE) phases, provides a potential mechanism for REE fractionation in carbonate dominated aqueous solutions. To illustrate one such mechanism the solubility data of hydroxybastnäsite-(La) is compared with previously reported data of hydroxybastnäsite-(Nd) at elevated temperatures.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Episodic hydrocarbon charge in tight Mississippian reservoirs of Central Oklahoma, USA: Insights from oil inclusion geochemistry

The unforeseen discovery of substantial hydrocarbons in ultra-tight Mississippian reservoirs in Oklahoma testifies to the complexity of the hydrocarbon charge across the flanks of the Nemaha Uplift. Based on crude oil and fluid-inclusion chemistry, the hydrocarbons at the western side of the Nemaha Uplift consist of highly-mature, thermally-cracked and less-mature uncracked hydrocarbons (0.50–1.4% calculated vitrinite reflectance, R c ). The oils are less mature on the eastern flank of the structure (0.5–0.7% R c ). Based on distributions of biomarkers and higher diamondoid (composed of three adamantane cages or more) distributions, the hydrocarbons entrapped within reservoir fluid-inclusions are sourced from the Woodford Shale and also from Mississippian carbonates. To our knowledge, this is the first work to describe oil correlations using diamondoids inside fluid inclusions. Petroleum compositions in the ultra-tight Mississippian reservoirs are highly variable, which highlights the need for a thorough assessment of mechanisms controlling charge. By integrating oil and fluid inclusion geochemistry and fluid-inclusion microthermometry with basin modeling, we show that the primary controls are: (1) proximity to the source-rock kitchen(s), (2) episodic charging from Permian through Cretaceous time, and (3) mixing.

58 GEOSCIENCES↗

Experimental measurement of the van der Waals binding energy of X-O{sub 2} clusters (X=Xe,CH{sub 3}I,C{sub 3}H{sub 6},C{sub 6}H{sub 12})

Van der Waals binding energies for the X-O{sub 2} complexes (X=Xe,CH{sub 3}I,C{sub 3}H{sub 6},C{sub 6}H{sub 12}) are determined by analysis of experimental velocity map imaging data for O({sup 3}P{sub 2}) atoms arising from UV-photodissociation of the complex [A. V. Baklanov et al., J. Chem. Phys. 126, 124316 (2007)]. Several dissociation pathways have been observed, we focus on the channel corresponding to prompt dissociation of X-O{sub 2} into X+2O({sup 3}P) fragments, which is present for complexes of O{sub 2} with all partners X. Our method is based on analysis of the kinetic energy of all three photofragments, where the O atom kinetic energy was directly measured in the experiment and the kinetic energy of the X partner was calculated using momentum conservation, along with the measured angular anisotropy for O atom recoil. We exploit the fact that the clusters are all T-shaped or nearly T-shaped, which we also confirm by ab initio calculations, along with knowledge of the transition dipole governing radiative absorption by the complex. The effect of partitioning the kinetic energy between translation along the X-O{sub 2} and O-O coordinates on the angular anisotropy of the O atom recoil direction is discussed. Van der Waals binding energies of 110{+-}20 cm{sup -1}, 280{+-}20 cm{sup -1}, 135{+-}30 cm{sup -1}, and 585{+-}20 cm{sup -1} are determined for Xe-O{sub 2}, CH{sub 3}I-O{sub 2}, C{sub 3}H{sub 6}-O{sub 2}, and C{sub 6}H{sub 12}-O{sub 2} clusters, respectively.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Modeling Snowflake Divertors in MAST-U Tokamak

We report that in a snowflake (SF) divertor, two magnetic field nulls are placed close to each other, creating four strike points (SPs) compared to two in a standard X-point divertor. In preparation for MAST-U experiments, magnetic configurations with the standard and SF divertors with various locations and separation distances of the nulls were modeled using the two-dimensional multi-fluid code UEDGE with a full plasma transport model featuring charge-state-resolved sputtered carbon impurities. The complex interplay of the plasma transport and magnetic configurations was comprehensively studied using a simple model for the theoretically predicted fast plasma mixing driven by the 'churning' mode instability in the two-null SF region. The modeling results show that (1) all SF-plus configurations and SF-minus configuration with closely located nulls produce the same plasma parameters and heat fluxes at the same SPs; (2) SF divertors approach the outer and inner SP detachment conditions at lower upstream density w.r.t. the standard divertor; (3) heat flux profiles at primary SPs are substantially broadened and peak values are reduced in SF configurations w.r.t. SN divertors; this broadening becomes more pronounced with the fast plasma mixing increase.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Fast Running Urban Dispersion Model for Radiological Dispersal Device (RDD) Releases: Model Description and Validation

Aeolus is an efficient three-dimensional computational fluid dynamics code based on finite volume method developed for predicting transport and dispersion of contaminants in a complex urban area. It solves the time dependent incompressible Navier-Stokes equation on a regular Cartesian staggered grid using a fractional step method. It also solves a scalar transport equation for temperature and using the Boussinesq approximation. The model also includes a Lagrangian dispersion model for predicting the transport and dispersion of atmospheric contaminants. The model can be run in an efficient Reynolds Average Navier-Stokes (RANS) mode with a run time of several minutes, or a more detailed Large Eddy Simulation (LES) mode with run time of hours for a typical simulation. This report describes the model components, including details on the physics models used in the code, as well as several model validation efforts. Aeolus wind and dispersion predictions are compared to field data from the Joint Urban Field Trials 2003 conducted in Oklahoma City (Allwine et al 2004) including both continuous and instantaneous releases. Newly implemented Aeolus capabilities include a decay chain model and an explosive Radiological Dispersal Device (RDD) source term; these capabilities are described. Aeolus predictions using the buoyant explosive RDD source are validated against two experimental data sets: the Green Field explosive cloud rise experiments conducted in Israel (Sharon et al 2012) and the Full-Scale RDD Field Trials conducted in Canada (Green et al 2016).

54 ENVIRONMENTAL SCIENCES↗

Physically rigorous reduced-order flow models of fractured subsurface environments without explosive computational cost

Fractured media models comprise discontinuities of multiple lengths (e.g. fracture lengths and apertures, wellbore area) that fall into the relatively insignificant length scales spanning millimeter-scale fractures to centimeter-scale wellbores in comparison to the extensions of the field of interest, and challenge the conventional discretization methods imposing highly-fine meshing and formidably large numerical cost. By utilizing the recent developments in the finite element analysis of electromagnetics that allow to represent material properties on a hierarchical geometry, this project develops computational capabilities to model fluid flow, heat conduction, transport and induced polarization in large-scale geologic environments that possess geometrically-complex fractures and man-made infrastructures without explosive computational cost. The computational efficiency and robustness of this multi-physics modeling tool are demonstrated by considering various highly-realistic complex geologic environments that are common in many energy and national security related engineering problems.

42 ENGINEERING↗

CFD in the context of IHPTET: The Integrated High Performance Turbine Technology Program

The Integrated High Performance Turbine Engine Technology (IHPTET) Program is an integrated DOD/NASA technology program designed to double the performance capability of today's most advanced military turbine engines as we enter the twenty-first century. Computational Fluid Dynamics (CFD) is expected to play an important role in the design/analysis of specific configurations within this complex machine. In order to do this, a plan is being developed to ensure the timely impact of CFD on IHPTET. The developing philosphy of CFD in the context of IHPTET is discussed. The key elements in the developing plan and specific examples of state-of-the-art CFD efforts which are IHPTET turbine engine relevant are discussed.

Simoneau, Robert J.↗

CFD in the context of IHPTET - The Integrated High Performance Turbine Engine Technology Program

The Integrated High Performance Turbine Engine Technology (IHPTET) Program is an integrated DOD/NASA technology program designed to double the performance capability of today's most advanced military turbine engines as we enter the twenty-first century. Computational Fluid Dynamics (CFD) is expected to play an important role in the design/analysis of specific configurations within this complex machine. In order to do this, a plan is being developed to ensure the timely impact of CFD on IHPTET. The developing philosophy of CFD in the context of IHPTET is discussed. The key elements in the developing plan and specific examples of state-of-the-art CFD efforts which are IHPTET turbine engine relevant are discussed.

Simoneau, Robert J.↗

A package for 3-D unstructured grid generation, finite-element flow solution and flow field visualization

A set of computer programs for 3-D unstructured grid generation, fluid flow calculations, and flow field visualization was developed. The grid generation program, called VGRID3D, generates grids over complex configurations using the advancing front method. In this method, the point and element generation is accomplished simultaneously, VPLOT3D is an interactive, menudriven pre- and post-processor graphics program for interpolation and display of unstructured grid data. The flow solver, VFLOW3D, is an Euler equation solver based on an explicit, two-step, Taylor-Galerkin algorithm which uses the Flux Corrected Transport (FCT) concept for a wriggle-free solution. Using these programs, increasingly complex 3-D configurations of interest to aerospace community were gridded including a complete Space Transportation System comprised of the space-shuttle orbitor, the solid-rocket boosters, and the external tank. Flow solutions were obtained on various configurations in subsonic, transonic, and supersonic flow regimes.

Parikh, Paresh↗

Mass analysis for the Space Station ECLSS using the balance spreadsheet method

The balance spreadsheet method is applied to mass analysis of the Environmental Control and Life Support System (ECLSS). The spreadsheet layout reduces the complexity of the ECLSS analysis by concisely defining the sources, sinks, and net changes in mass for each fluid. The analysis method is illustrated by using information from the latest Space Station ECLSS Architectural Control Documents and a given Space Station assembly sequence. The analysis results are plotted and discussed.

Chu, Wen-Ho↗

Crossing shock wave turbulent boundary layer interactions - Variable angle and shock generator length geometry effects at Mach 3

By comparing the detailed wall static pressure distributions for 9 inch and 11 inch long fins generating a crossing shock configuration at M = 2.93, the high resolution results of the 9 inch fins are shown to be free of exit effects. Analysis of the static pressure profiles have delineated the limited regions where the single fin results are valid. The characteristics of the complex interaction, with varying shock wave strength, have been described. The data provide a critical test for computational fluid dynamics which, in its initial phase, has performed poorly in predicting the measured wall static pressure distributions.

Bogdonoff, S. M.↗

Preliminary efforts toward development of data handling and analysis software for unsteady flow measurements: An application for aeroelastic transonic flow configurations

A few years ago the Structural Dynamics Division at LaRC started ambitious experimental research efforts known as the Benchmark Models Program. The primary objective of this program was to provide experimental data that may serve as a calibration source for computational fluid dynamics (CFD) efforts that deal with aeroelastic unsteady flow configurations. It also focuses on the understanding of complex flow phenomenon associated with unsteady flow developments. The overall plan for the program has been described by Bennett, including a presentation of initial test results of flutter of a rigid wing mounted on flexible supports. An example of a test model employed to measure the dynamic response along with corresponding pressure distributions is shown. This model incorporates eighty pressure transducers distributed along two spanwise stations. In addition, the models are equipped with four accelerometers and two strain gages. The data handling system for the Benchmark Model Program is under development. Several interactive computer routines designed for the user interface, dynamic memory allocation, unsteady flow measurements data extraction, and further data processing were developed. To present a few examples of measured data, the unsteady pressure distributions and the wing model dynamic response were plotted.

Finaish, Fathi↗