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At least 1,315 records · Page 73

Fe kα profiles from simulations of accreting black holes

We present the first results from a new technique for the prediction of Fe Kα profiles directly from general relativistic magnetohydrodynamic (GRMHD) simulations. Data from a GRMHD simulation are processed by a Monte Carlo global radiation transport code, which determines the X-ray flux irradiating the disk surface and the coronal electron temperature self-consistently. With that irradiating flux and the disk’s density structure drawn from the simulation, we determine the reprocessed Fe Kα emission from photoionization equilibrium and solution of the radiation transfer equation. We produce maps of the surface brightness of Fe Kα emission over the disk surface, which—for our example of a 10M{sub ⊙} Schwarzschild black hole accreting at 1% the Eddington value—rises steeply one gravitational radius outside the radius of the innermost stable circular orbit and then falls ∝r {sup −2} at larger radii. We explain these features of the Fe Kα radial surface brightness profile as consequences of the disk’s ionization structure and an extended coronal geometry, respectively. We also present the corresponding Fe Kα line profiles as would be seen by distant observers at several inclinations. Both the shapes of the line profiles and the equivalent widths of our predicted Kα lines are qualitatively similar to those typically observed from accreting black holes. Most importantly, this work represents a direct link between theory and observation: in a fully self-consistent way, we produce observable results—iron fluorescence line profiles—from the theory of black hole accretion with almost no phenomenological assumptions.

79 ASTRONOMY AND ASTROPHYSICS↗

Molecular dynamics simulations of uranyl and plutonyl cations in a task-specific ionic liquid

Ionic liquids (ILs) are a unique class of solvents with potential applications in advanced separation technologies relevant to the nuclear industry. ILs are salts with low melting points and a wide range of tunable physical properties, such as viscosity, hydrophobiciy, conductivity, and liquidus range. ILs have negligible vapor pressure, are often non-flammable, and can have high thermal stability and a wide electrochemical window, making them attractive for use in separations processes relevant to the nuclear industry. Metal salts generally have a low solubility in ILs; however, by incorporating new functional groups into the IL cation or anion that promote complexation with the metal, the solubility can be greatly increased. One such task-specific ionic liquid (TSIL) is 1-carboxy-N, N, N-trimethylglycine bis(trifluoromethylsulfonyl)imide ([Hbet][Tf 2 N]). Water, which is detrimental for electrochemical separations, is a common impurity in ILs and can coordinate with actinyl cations, particularly in ILs containing only weakly coordinating components. Understanding the behavior of actinides in TSIL/water mixtures on a molecular level is vital for designing improved separations processes. Classical molecular dynamics simulations of uranyl(VI) and plutonyl(VI) in 1-ethyl-3-methylimidazolium bis(trifluoromethylsulfonyl)imide ([EMIM][Tf 2 N]) with deprotonated Hbet (betaine) and water have been performed to understand the coordination and dynamics of the actinyl cations. We find that betaine is a much stronger ligand than water and prefers to coordinate the metal in a bidentate manner. Potential of mean force simulations yield a relative free energy for betaine coordination of approximately -120 to -90 kJ/mol in mixtures with water. As the amount of betaine coordinated to the actinide increases, the diffusion coefficient of the actinyl cation decreases. Moreover, the betaine ligand is able to bridge between two metal centers, resulting in dimeric complexes with actinide–actinide distances of ~5 Å. Potential of mean force simulations show that these structures are stable, with relative free energies of up to -40 kJ/mol. The crystal structure for [(UO 2 ) 2 (bet) 6 (H 2 O) 2 ][Tf 2 N] 4 shows that the betaine bridges between two uranium atoms to form dimeric complexes similar to those found in our simulations.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Lattice Design and Advanced Modeling to Guide the Design of High-Performance Lightweight Structural Materials

Lightweight structural materials are required to increase the mobility of fission batteries. The materials must feature a robust combination of mechanical properties to demonstrate structural resilience. The primary objective of this project is to produce lightweight structural materials whose strength-to-weight ratios exceed those of the current widely used structural materials such as 316L stainless steels (316L SS). To achieve this, advanced modeling and simulation tools were employed to design lattice structures with different lattice parameters and different lattice types. A process was successfully developed for transforming lattice-structures models into Multiphysics Object Oriented Simulation Environment (MOOSE) inputs. Finite element modeling (FEM) was used to simulate the uniaxial tensile testing of the lattice-structured parts to investigate the stress distribution at a given displacement. The preliminary results showed that the lattice-structured sample displayed a lower Young’s modulus in comparison with the solid material and that the unit cell size of the lattice had a minimal effect. The novelty here is to apply up-front modeling to determine the best structure for the application before actually producing the sample. The approach of using modeling as a guiding tool for preliminary material design can significantly save time and cost for material development.

36 MATERIALS SCIENCE↗

Integrated Simulation Framework for Additively Manufactured Ti-6Al-4V: Melt Pool Dynamics, Microstructure, Solid-State Phase Transformation, and Microelastic Response

In this work, to accelerate the establishment of fundamental understanding of the additive manufacturing (AM) process and its influence on microstructural evolution and related properties, we develop a multiphysics and multiscale modeling framework that integrates: (1) a high-fidelity powder-scale three-dimensional simulation of transient heat transfer and melt flow dynamics, (2) cellular automaton simulation of solidification grain structure and texture, (3) phase-field modeling of precipitation and dissolution of second-phase precipitate during repeated thermal cycles, and (4) microstructure-based micro- and mesoscopic elastic response calculation. Using Ti-6Al-4V as a model system, we demonstrate the application of the integrated framework to simulate complex microstructure evolution during a single-track laser powder bed fusion process and the associated mechanical response. Our modeling framework successfully captures the solidification β grain structure as a function of laser power and scanning speed, α precipitation upon subsequent cooling with different rates, and elastic response of the resulting (α + β) two-phase microstructure. The key features of solidification and second-phase precipitate microstructures, and their dependence on processing parameters, agree well with existing experimental observations. Finally, the established modeling framework is generally applicable to other metallic materials fabricated by AM.

36 MATERIALS SCIENCE↗

Relationships among climatological vertical moisture structure, column water vapor, and precipitation over the central Amazon in observations and CMIP5 models

Bias and spread in Coupled Model Intercomparison Project Phase 5 simulated vertical specific humidity (q) structure are examined and related to both precipitation and column water vapor (cwv) near Manaus, Brazil, site of the recent Green Ocean Amazon campaign. Simulated seasonal mean q profiles are typically too dry, especially at low levels and during the local dry season, consistent with previously identified surface hydroclimate biases in the Amazon. Multimodel empirical orthogonal function analysis of the models' monthly climatological q profiles indicates two significant modes of ensemble spread in moisture vertical structure, with the leading mode peaked at low levels and the second mode in the lower free troposphere (LFT). While both modes project onto simulated cwv spread, only the first projects on precipitation, suggesting inconsistent sensitivity of simulated rainfall to LFT moisture. Finally, relative to observations, models with high cwv and low-level moisture errors tend to exhibit high precipitation error.

54 ENVIRONMENTAL SCIENCES↗

Structure and transport of aqueous electrolytes: From simple halides to radionuclide ions

Molecular simulations are used to compare the structure and dynamics of conventional and radioactive aqueous electrolytes: chloride solutions with sodium, potassium, cesium, calcium, and strontium. The study of Cs{sup +} and Sr{sup 2+} is important because these radioactive ions can be extremely harmful and are often confused by living organisms for K{sup +} and Ca{sup 2+}, respectively. Na{sup +}, Ca{sup 2+}, and Sr{sup 2+} are strongly bonded to their hydration shell because of their large charge density. We find that the water molecules in the first hydration shell around Na{sup +} form hydrogen bonds between each other, whereas molecules in the first hydration shell around Ca{sup 2+} and Sr{sup 2+} predominantly form hydrogen bonds with water molecules in the second shell. In contrast to these three ions, K{sup +} and Cs{sup +} have low charge densities so that they are weakly bonded to their hydration shell. Overall, the structural differences between Ca{sup 2+} and Sr{sup 2+} are small, but the difference between their coordination numbers relative to their surface areas could potentially be used to separate these ions. Moreover, the different decays of the velocity-autocorrelation functions corresponding to these ions indicates that the difference in mass could be used to separate these cations. In this work, we also propose a new definition of the pairing time that is easy to calculate and of physical significance regardless of the problem at hand.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Visualization of Solid-State Synthesis for Chalcogenide Na Superionic Conductors by in-situ Neutron Diffraction

Chalcogenide superionic sodium (Na) conductors are great potential as solid electrolytes (SEs) in all-solid-state Na batteries with advantages of high energy density and safety, and cost effectiveness. For solid Na-ion conductors, their crystal structures and ionically conductive properties are strongly influenced by the synthetic approaches and processing parameters. Thus, understanding the synthesis process is essential to control the structures and phases and thereby yields to Na-ion conductors with desirable properties. Thanks to the high-flux and deep-penetrating time-of-flight neutron diffraction (ND), we employed in situ experiments to track real-time structural changes of two chalcogenide SEs (Na 3 SbS 4 and Na 3 SbS 3.5 Se 0.5 ) during the solid-state synthesis. For these two conductors, the ND results reveal a fast one-step reaction for the synthesis and the molten process when heating up, and the recrystallization as well as the cubic-to-tetragonal phase transition up on cooling. Moreover, Se-doping is found to influence the reaction temperatures, lattice parameter and structure stability based on neutron experimental observations and theoretical simulation. This work presents a detailed structural study using in situ neutron diffraction technology for the solid synthesis process of chalcogenide Na-ion conductors, beneficial for the design and synthesis of new solid-state conductors.

25 ENERGY STORAGE↗

Distance‐based reconstruction of protein quaternary structures from inter‐chain contacts

Abstract Predicting the quaternary structure of protein complex is an important problem. Inter‐chain residue‐residue contact prediction can provide useful information to guide the ab initio reconstruction of quaternary structures. However, few methods have been developed to build quaternary structures from predicted inter‐chain contacts. Here, we develop the first method based on gradient descent optimization (GD) to build quaternary structures of protein dimers utilizing inter‐chain contacts as distance restraints. We evaluate GD on several datasets of homodimers and heterodimers using true/predicted contacts and monomer structures as input. GD consistently performs better than both simulated annealing and Markov Chain Monte Carlo simulation. Starting from an arbitrarily quaternary structure randomly initialized from the tertiary structures of protein chains and using true inter‐chain contacts as input, GD can reconstruct high‐quality structural models for homodimers and heterodimers with average TM‐score ranging from 0.92 to 0.99 and average interface root mean square distance from 0.72 Å to 1.64 Å. On a dataset of 115 homodimers, using predicted inter‐chain contacts as restraints, the average TM‐score of the structural models built by GD is 0.76. For 46% of the homodimers, high‐quality structural models with TM‐score ≥ 0.9 are reconstructed from predicted contacts. There is a strong correlation between the quality of the reconstructed models and the precision and recall of predicted contacts. Only a moderate precision or recall of inter‐chain contact prediction is needed to build good structural models for most homodimers. Moreover, GD improves the quality of quaternary structures predicted by AlphaFold2 on a Critical Assessment of Techniques for Protein Structure Prediction–Critical Assessments of Predictions of Interactions dataset.

59 BASIC BIOLOGICAL SCIENCES↗

Edge flame structure in a turbulent lifted flame: A direct numerical simulation study

This paper presents here a statistical analysis of edge flames in a turbulent lifted flame using direct numerical simulation (DNS). To investigate the dynamics of edge flames, a theoretical framework describing the edge-flame propagation velocity as a function of propagation velocities of mixture-fraction and product-mass fraction iso-surfaces at the flame base is used. The correlations between these propagation velocities and several other variables are then studied, including iso-surface curvatures, iso-surface orientations, strain rates, scalar dissipation rate and gradients of product mass fraction. The contribution of these parameters to the overall behaviour of the edge flame is also investigated using conditional averaging on two-dimensional spatial locations at the flame base. The analysis reveals that the tangential and normal strain rates in addition to the curvatures and scalar dissipation rates have significant contributions to the overall behaviour of the edge flame. The elliptical motion of the flame base described in our earlier study is extended to provide a clearer picture of how these various parameters affect the large fluctuations of edge-flame velocity observed at the flame base.

42 ENGINEERING↗

Data-Centric Development of Lignin Structure–Solubility Relationships in Deep Eutectic Solvents Using Molecular Simulations

Lignin is a natural source of aromatic chemicals with significant potential as an abundant, renewable feedstock for value-added products. Deep eutectic solvents (DES)–solvents composed of a hydrogen bond donor (HBD) and acceptor (HBA) in varying ratios–have emerged as a highly tunable class of solvents for lignin solubilization. However, the variety of possible DES compositions and limited molecular-scale understanding of lignin solubility makes solvent selection a challenge without laborious trial-and-error experimentation. To address these challenges, we use classical molecular dynamics (MD) simulations to study the interactions of lignin model compounds with various DES–water systems. Quantitative parameters (descriptors) were calculated by postprocessing the MD results and used to train a regression model that predicts experimentally determined solubilities of lignin model compounds. This approach revealed that the most important descriptors of solubility are the system temperature, solute hydrophilicity, and metrics quantifying hydrogen bonding. Maximizing the interactions between solute–HBD (hydrophobic group), water–HBD (hydrophilic group), and water–HBA molecules led to the highest model compound solubility. Our results support a hydrotropic mechanism in which extensive DES–water hydrogen bonding and favorable HBD interactions with the solute promote high solubility. We applied the regression model derived using model compounds to predict the solubility of representative lignin oligomers. The model predicted lignin oligomers’ solubilities in good agreement with experiments, indicating that the simulations of model compounds can be extended to predict the solubility of larger lignin compounds across a range of solvent compositions and temperatures. Furthermore, these findings provide new molecular-scale insight into lignin solubilization mechanisms and a new method for computationally screening potential solvent systems for lignin valorization.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Predicting the preferred morphology of hexagonal boron nitride domain structure on nickel from ReaxFF-based molecular dynamics simulations

An understanding of the nucleation and growth of hexagonal boron nitride (hBN) on nickel substrates is essential to its development as a functional material. In particular, fundamental insights into the formation of the hexagonal lattices with alternating boron (B) and nitrogen (N) atoms could be exploited to control hBN lattice morphologies for targeted applications. Here, the preferred shapes and edge configurations of atomically smooth hBN on Ni(111) were investigated using molecular dynamics (MD) simulations, along with reactive force field (ReaxFF) developed to represent the Ni/B/N system and the lattice-building B–N bond formation. The obtained hBN lattices, from different B : N feed ratios, are able to confirm that hBN domain geometries can indeed be tuned by varying thermodynamic parameters (i.e., chemical potentials of N and B) – a finding that has only been predicted using quantum mechanical theories. Here, we also showed that the nitrogen fed to the system plays a more crucial role in dictating the size of hBN lattices. With an increase of the relative N content, the simulated hBN domain shapes also transition from equilateral triangles to hexagons, again, consistent with the anticipation based on Density Functional Theory (DFT) calculations. Hence, a plausible approach to acquire a desired hBN nanostructure depends on careful control over the synthesis conditions, which now can benefit from reliable molecular simulations.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗