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At least 847 records · Page 47

Bubble Relaxation Dynamics in Homopolymer DNA Sequences

Understanding the inherent timescales of large bubbles in DNA is critical to a thorough comprehension of its physicochemical characteristics, as well as their potential role on helix opening and biological function. In this work, we employ the coarse-grained Peyrard–Bishop–Dauxois model of DNA to study relaxation dynamics of large bubbles in homopolymer DNA, using simulations up to the microsecond time scale. By studying energy autocorrelation functions of relatively large bubbles inserted into thermalised DNA molecules, we extract characteristic relaxation times from the equilibration process for both adenine–thymine (AT) and guanine–cytosine (GC) homopolymers. Bubbles of different amplitudes and widths are investigated through extensive statistics and appropriate fittings of their relaxation. Characteristic relaxation times increase with bubble amplitude and width. We show that, within the model, relaxation times are two orders of magnitude longer in GC sequences than in AT sequences. Overall, our results confirm that large bubbles leave a lasting impact on the molecule’s dynamics, for times between 0.5–500 ns depending on the homopolymer type and bubble shape, thus clearly affecting long-time evolutions of the molecule.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Geometric phase in coupled cluster theory

It has been well-established that the topography around conical intersections between excited electronic states is incorrectly described by coupled cluster and many other single reference theories (the intersections are “defective”). Despite this, we show both analytically and numerically that the geometric phase effect (GPE) is correctly reproduced upon traversing a path around a defective excited-state conical intersection (CI) in coupled cluster theory. The theoretical analysis is carried out by using a non-Hermitian generalization of the linear vibronic coupling approach. Interestingly, the approach qualitatively explains the characteristic (incorrect) shape of the defective CIs and CI seams. Moreover, the validity of the approach and the presence of the GPE indicate that defective CIs are local (and not global) artifacts. This implies that a sufficiently accurate coupled cluster method could predict nuclear dynamics, including geometric phase effects, as long as the nuclear wavepacket never gets too close to the conical intersections.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

A scaling law of the neutral penetration length and Balmer- α wing shape in high-temperature plasmas

Hydrogen atoms penetrating deep inside high-temperature magnetically confined plasmas by repetitive charge-exchange collisions result in a particle source of the plasma, which affects the plasma transport significantly. In this paper, we present an approximate solution of the fluid equations for neutral transport and an analytical representation of the neutral penetration length, in a simplified plasma geometry. This analysis predicts a power-law decay in the Balmer-α line wings which reflects the velocity distribution of the neutral atoms, with the power-law exponent analytically represented as well. These scaling laws are compared with a simple Monte–Carlo simulation and spectroscopic observations of Large Helical Device plasmas. Since the Balmer-α line wings are experimentally accessible, our formulation opens the possibility to quickly estimate the neutral penetration length from spectroscopic observations.

neutral opacity↗

Directed energy deposition additive manufacturing of functionally graded Al-W composites

Directed energy deposition using laser heat sources (DED-L) is a metal additive manufacturing method that can be used to fabricate functionally graded materials by feeding multiple powder streams directly into a laser-generated melt pool. Additionally, the composition can be spatially varied by independent control of the materials feed rates. DED-L additive manufacturing is used in this work to create continuously graded Al/W composites that span 0–55 vol% W in Al over length scales from 0.6 to 1.2 mm with individual layers on the order of 0.1 mm and powder particle sizes on the order of 10 µm. The obtained composition and thickness ranges are comparable to those typically achieved using conventional powder metallurgy approaches and enables fabrication of composites to be used as a high impedance graded density impactor (GDI) in dynamic ramp compression experiments to study matter under extreme conditions. DED-L additive manufacturing of a GDI presents an opportunity to reduce GDI fabrication time to less than a day compared to many weeks by conventional methods. It is also possible to scale the deposition by DED-L to essentially unlimited dimensions in the lateral directions, whereas conventional methods become limited.

36 MATERIALS SCIENCE↗

Gradient-based optimization of 3D MHD equilibria

Using recently developed adjoint methods for computing the shape derivatives of functions that depend on magnetohydrodynamic (MHD) equilibria (Antonsen et al. , J. Plasma Phys. , vol. 85, issue 2, 2019; Paul et al. , J. Plasma Phys. , vol. 86, issue 1, 2020), we present the first example of analytic gradient-based optimization of fixed-boundary stellarator equilibria. We take advantage of gradient information to optimize figures of merit of relevance for stellarator design, including the rotational transform, magnetic well and quasi-symmetry near the axis. With the application of the adjoint method, we reduce the number of equilibrium evaluations by the dimension of the optimization space ( ${\sim }50\text {--}500$ ) in comparison with a finite-difference gradient-based method. We discuss regularization objectives of relevance for fixed-boundary optimization, including a novel method that prevents self-intersection of the plasma boundary. We present several optimized equilibria, including a vacuum field with very low magnetic shear throughout the volume.

Physics↗

Effect of channel errors on delta modulation transmission

We have considered the response of a variable step size delta modulator communication system, to errors caused by a noisy channel. For the particular adaptive delta modulation scheme proposed by Song, Garodnick, and Schilling (1971), we have a simple analytic formulation of the output error propagation due to a single channel error. It is shown that single channel errors cause a change in the amplitude and dc level of the output, but do not otherwise affect the shape of the output waveform. At low channel error rates, these effects do not cause any degradation in audio transmission. Higher channel error rates cause overflow or saturation of the step size register. We present relationships between channel error rate, register size, and the probability of register overflow.

Rosenberg, W. J.↗

The flame structure and vorticity generated by a chemically reacting transverse jet

An analytical model describing the behavior of a turbulent fuel jet injected normally into a cross flow is developed. The model places particular emphasis on the contrarotating vortex pair associated with the jet, and predicts the flame length and shape based on entrainment of the oxidizer by the fuel jet. Effects of buoyancy and density variations in the flame are neglected in order to isolate the effects of large-scale mixing. The results are compared with a simulation of the transverse reacting jet in a liquid (acid-base) system. For a wide range of ratios of the cross flow to jet velocity, the model predicts flame length quite well. In particular, the observed transitional behavior in the flame length between cross-flow velocity to jet velocity of orifice ratios of 0.0 to 0.1, yielding an approximate minimum at the ratio 0.05, is reproduced very clearly by the present model. The transformation in flow structure that accounts for this minimum arises from the differing components of vorticity dominant in the near-field and far-field regions of the jet.

Karagozian, A. R.↗

Photogrammetrically Measured Distortions of Composite Structure Microwave Reflectors at -90K

The Microwave Anisotropy Probe (MAP) Observatory, scheduled for a late 2000 launch, is designed to measure temperature fluctuations (anisotropy) and produce a high sensitivity and high spatial resolution (better than 0.3 deg. at 90 GHz.) map of the Cosmic Microwave Background (CMB) radiation over the entire sky between 22 and 90 GHz. MAP utilizes back-to-back composite Gregorian telescopes supported on a composite truss structure to focus the microwave signals into 10 differential microwave receivers. Proper position and shape of the telescope reflectors at the operating temperature of -90 K is a critical element to ensure mission success. We describe the methods and analysis used to validate the in-flight position and shape predictions for the reflectors based on photogrammetric metrology data taken under vacuum with the reflectors at -90 K. Contour maps showing reflector distortion were generated. The resulting reflector distortion data are shown to be crucial to the analytical assessment of the MAP instrument's microwave system in-flight performance.

Mule, Peter↗

Boby-Vortex Interaction, Sound Generation and Destructive Interference

It is generally recognized that interaction of vortices with downstream blades is a major source of noise production. To analyze this problem numerically, a two-dimensional model of inviscid flow together with the method of matched asymptotic expansions is proposed. The method of matched asymptotic expansions is used to match the inner region of incompressible flow to the outer region of compressible flow. Because of incompressibility, relatively simple numerical methods are available to treat multiple vortices and multiple bodies of arbitrary shape. Disturbances from vortices and bodies propagate outward as sound waves. Due to their interactions, either constructive or destructive interference may result. When it is destructive, the combined sound intensity can be reduced, sometimes substantially. In addition, an analytical solution to sound generation by the cascade-vonex interaction is given.

Kao, Hsiao C.↗

Impact Test and Simulation of Energy Absorbing Concepts for Earth Entry Vehicles

Nonlinear dynamic finite element simulations have been performed to aid in the design of an energy absorbing concept for a highly reliable passive Earth Entry Vehicle (EEV) that will directly impact the Earth without a parachute. EEV's are designed to return materials from asteroids, comets, or planets for laboratory analysis on Earth. The EEV concept uses an energy absorbing cellular structure designed to contain and limit the acceleration of space exploration samples during Earth impact. The spherical shaped cellular structure is composed of solid hexagonal and pentagonal foam-filled cells with hybrid graphite- epoxy/Kevlar cell walls. Space samples fit inside a smaller sphere at the center of the EEV's cellular structure. Comparisons of analytical predictions using MSC,Dytran with test results obtained from impact tests performed at NASA Langley Research Center were made for three impact velocities ranging from 32 to 40 m/s. Acceleration and deformation results compared well with the test results. These finite element models will be useful for parametric studies of off-nominal impact conditions.

Billings, Marcus D.↗

Response of a Rotating Propeller to Aerodynamic Excitation

The flexural vibration of a rotating propeller blade with clamped shank is analyzed with the object of presenting, in matrix form, equations for the elastic bending moments in forced vibration resulting from aerodynamic forces applied at a fixed multiple of rotational speed. Matrix equations are also derived which define the critical speeds end mode shapes for any excitation order and the relation between critical speed and blade angle. Reference is given to standard works on the numerical solution of matrix equations of the forms derived. The use of a segmented blade as an approximation to a continuous blade provides a simple means for obtaining the matrix solution from the integral equation of equilibrium, so that, in the numerical application of the method presented, the several matrix arrays of the basic physical characteristics of the propeller blade are of simple form, end their simplicity is preserved until, with the solution in sight, numerical manipulations well-known in matrix algebra yield the desired critical speeds and mode shapes frame which the vibration at any operating condition may be synthesized. A close correspondence between the familiar Stodola method and the matrix method is pointed out, indicating that any features of novelty are characteristic not of the analytical procedure but only of the abbreviation, condensation, and efficient organization of the numerical procedure made possible by the use of classical matrix theory.

Arnoldi, Walter E.↗

Updating the Finite Element Model of the Aerostructures Test Wing using Ground Vibration Test Data

Improved and/or accelerated decision making is a crucial step during flutter certification processes. Unfortunately, most finite element structural dynamics models have uncertainties associated with model validity. Tuning the finite element model using measured data to minimize the model uncertainties is a challenging task in the area of structural dynamics. The model tuning process requires not only satisfactory correlations between analytical and experimental results, but also the retention of the mass and stiffness properties of the structures. Minimizing the difference between analytical and experimental results is a type of optimization problem. By utilizing the multidisciplinary design, analysis, and optimization (MDAO) tool in order to optimize the objective function and constraints; the mass properties, the natural frequencies, and the mode shapes can be matched to the target data to retain the mass matrix orthogonality. This approach has been applied to minimize the model uncertainties for the structural dynamics model of the Aerostructures Test Wing (ATW), which was designed and tested at the National Aeronautics and Space Administration (NASA) Dryden Flight Research Center (DFRC) (Edwards, California). This study has shown that natural frequencies and corresponding mode shapes from the updated finite element model have excellent agreement with corresponding measured data.

Lung, Shun-fat↗

Updating the Finite Element Model of the Aerostructures Test Wing Using Ground Vibration Test Data

Improved and/or accelerated decision making is a crucial step during flutter certification processes. Unfortunately, most finite element structural dynamics models have uncertainties associated with model validity. Tuning the finite element model using measured data to minimize the model uncertainties is a challenging task in the area of structural dynamics. The model tuning process requires not only satisfactory correlations between analytical and experimental results, but also the retention of the mass and stiffness properties of the structures. Minimizing the difference between analytical and experimental results is a type of optimization problem. By utilizing the multidisciplinary design, analysis, and optimization (MDAO) tool in order to optimize the objective function and constraints; the mass properties, the natural frequencies, and the mode shapes can be matched to the target data to retain the mass matrix orthogonality. This approach has been applied to minimize the model uncertainties for the structural dynamics model of the aerostructures test wing (ATW), which was designed and tested at the National Aeronautics and Space Administration Dryden Flight Research Center (Edwards, California). This study has shown that natural frequencies and corresponding mode shapes from the updated finite element model have excellent agreement with corresponding measured data.

Lung, Shun-Fat↗

Inelastic Neutron Scattering from Thin Film Biaxially Oriented Polyethylene Terephthalate

Recent interest in emerging processes for polymer manufacturing and bio-based chemistries for direct chemical recycling/upcycling has motivated new research focused on a deeper understanding of atomic-scale polymer properties and how they influence macroscopic phenomena. Uncovering the fundamental properties of polymers that give rise to macroscopic behavior could enable new pathways for improved recyclability or utilization of alternative “greener” polymer analogues. In this study, the neutron vibrational spectrum was measured for a film of biaxially oriented polyethylene terephthalate (BoPET) using inelastic neutron scattering (INS), to investigate the relationship between the structure and dynamics of a widely used polymer. Compared to conventional spectroscopic techniques, the use of INS is advantageous for polymeric materials due to the absence of selection rules (i.e., all transitions are allowed), broad-band energy range, and considerable sensitivity to hydrogen modes. In order to distinguish the vibrational modes caused by trans and gauche rotational isomerism, the normal modes of vibration were calculated from a density functional theory-optimized structure of crystalline PET (cPET), representative of the all-trans state, and compared with INS from “highly crystalline” PET powder. Although in- and out-of-plane wagging of hydrogens on the ring structure exhibit significant contribution to both BoPET and cPET spectra, the wagging, rocking, and twisting modes of hydrogen on the ethylene glycol group are, in most cases, conformation-specific. These results were further rationalized by investigating the role of hyperconjugation in stabilizing both conformations using the natural bond order method. Here, through comparison of experimental and calculated INS results, this work provides the fundamental basis for discovering the role of structure and dynamics in shaping the macroscopic properties of PET and polymer analogues.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Molecular Driving Force for Facet Selectivity of Sequence-Defined Amphiphilic Peptoids at Au–Water Interfaces

Shape-controlled colloidal nanocrystal syntheses often require facet-selective solution-phase chemical additives to regulate surface free energy, atom addition/migration fluxes or particle attachment rates. Because of their highly tunable properties and robustness to a wide range of experimental conditions, peptoids represent a very promising class of next generation functional additives for control over nanocrystal growth. However, understanding the origin of facet selectivity at the molecular level is critical to generalizing their design. In this work, we employ molecular dynamics simulations and biased sampling methods and report stronger selectivity to Au(111) than to Au(100) for Nce3Ncp6, a peptoid that has been shown to assist the formation of five-fold twinned Au nanostars. We find that facet-selectivity is achieved through synergistic effects of both peptoid-surface and solvent-surface interactions. Moreover, the amphiphilic nature of Nce3Ncp6 together with the order of peptoid-peptoid and peptoid-surface binding energies, i.e., peptoid-Au(100) < peptoid-peptoid < peptoid-Au(111), further amplifies its distinct collective behavior on different Au surfaces. Our studies provide a fundamental understanding of the molecular origin of facet-selective adsorption and highlight the possibility of future designs and uses of sequence-defined peptoids for predictive syntheses of nanocrystals with designed shapes and properties.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Anomalous Hall effect in conical helimagnetic crystals

Spin-spiral texture can substantially change charge transport properties in helimagnets. Here we find the anomalous Hall effect (AHE) exhibiting the dramatic behavior with respect to chemical potential μ in conical magnetic structures. The direct conductivity demonstrates kinks, and the anomalous Hall current exhibits minima and maxima changing the sign. We analytically derive the expression for energy bands and eigenstates in the most general case. Because of the conical potential, the energy bands are split into two nonparabolic bands where the lower band can have one- or two-minima shapes in the k z direction ($\hat{z}$ is a direction of the spiral axis). We prove that the origin of the anomalous Hall effect is not topological and is due to the interplay between the asymmetry of energy bands in the x and z directions and spin restrictions in the phase space due to the conical potential. We also investigate the dependence of transport properties on cone half- angle θ, and find that the effects are most pronounced at θ=π/2 (a helical state). Electric current is calculated using the Boltzmann equation where the relaxation is caused by electron-acoustic phonon interaction. The transition probability is found to be a 2×2 matrix with nonvanishing off-diagonal elements indicating the strong interband transitions. The origin of interband transitions is because of the nature of the conical potential where conduction electron spins interact with localized magnetic moments. To verify the proposed theory, we calculate the temperature dependence of resistivity for MnSi crystals and find the discontinuity at the phase transition between conical and paramagnetic phases. The calculations are in the excellent agreement with the experimental data. In addition, we predict the discontinuity behavior for the anomalous Hall resistivity at the phase transition where the resistivity exhibits the abrupt change at T=T C , (a) to zero if the relativistic effects for the conduction electrons are small or (b) to a nonzero value if Rashba/Dresselhaus effects are taken into account.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Integrability technique for fluid flow induced deformation of a boundary hair

The deformation of a dense carpet of hair due to Stokes flow in a channel can be described by a nonlinear integrodifferential equation for the shape of a single hair, which possesses several solutions for a given choice of parameters. Although it was posed in a previous study and it bears a resemblance to the pendulum problem from mechanics, this equation has not been analytically solved until now. Despite the presence on an integral with a nonlinear functional dependence on the dependent variable, the system is integrable. We compare the analytically obtained solution to a finite-difference numerical approach, identify the physically realizable solution branch, and briefly study the solution structure through a conserved energylike quantity. Time-dependent fluid-structure interactions are a rich and complex subject to investigate, and we argue that the solution discussed herein can be used as a basis for understanding these systems.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Vibration characteristics of 1/8-scale dynamic models of the space-shuttle solid-rocket boosters

Vibration tests and analyses of six 1/8 scale models of the space shuttle solid rocket boosters are reported. Natural vibration frequencies and mode shapes were obtained for these aluminum shell models having internal solid fuel configurations corresponding to launch, midburn (maximum dynamic pressure), and near endburn (burnout) flight conditions. Test results for longitudinal, torsional, bending, and shell vibration frequencies are compared with analytical predictions derived from thin shell theory and from finite element plate and beam theory. The lowest analytical longitudinal, torsional, bending, and shell vibration frequencies were within + or - 10 percent of experimental values. The effects of damping and asymmetric end skirts on natural vibration frequency were also considered. The analytical frequencies of an idealized full scale space shuttle solid rocket boosted structure are computed with and without internal pressure and are compared with the 1/8 scale model results.

Leadbetter, S. A.↗