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At least 325 records · Page 18

Active liquid crystals powered by force-sensing DNA-motor clusters

Significance Single-molecule techniques have elucidated how isolated molecular motors generate piconewton forces with unprecedented detail. However, in diverse biological and synthetic settings, force-generating proteins collectively power nonequilibrium dynamics, including continuous large-scale rearrangements and persistent fluid flows. Characterizing motor-generated forces in these dense and dynamical environments remains a challenge. We assembled a reversible DNA-based force-sensing probe that, by an optical readout, reveals the molecular arrangements and the force loads experienced by kinesin motors. These probes provide insight into motor-generated forces that collectively power the unique dynamics of microtubule-based active nematics, a noteworthy example of an internally driven active matter system. DNA-based force probes can be extended to study forces and stresses in various synthetic systems as well as diverse cellular environments.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Evapotranspiration in Northern Eurasia: Impact of forcing uncertainties on terrestrial ecosystem model estimates

Abstract The ecosystems in Northern Eurasia (NE) play an important role in the global water cycle and the climate system. While evapotranspiration (ET) is a critical variable to understand this role, ET over this region remains largely unstudied. Using an improved version of the Terrestrial Ecosystem Model with five widely used forcing data sets, we examine the impact that uncertainties in climate forcing data have on the magnitude, variability, and dominant climatic drivers of ET for the period 1979–2008. Estimates of regional average ET vary in the range of 241.4–335.7 mm yr −1 depending on the choice of forcing data. This range corresponds to as much as 32% of the mean ET. Meanwhile, the spatial patterns of long‐term average ET across NE are generally consistent for all forcing data sets. Our ET estimates in NE are largely affected by uncertainties in precipitation ( P ), air temperature ( T ), incoming shortwave radiation ( R ), and vapor pressure deficit (VPD). During the growing season, the correlations between ET and each forcing variable indicate that T is the dominant factor in the north and P in the south. Unsurprisingly, the uncertainties in climate forcing data propagate as well to estimates of the volume of water available for runoff (here defined as P‐ET). While the Climate Research Unit data set is overall the best choice of forcing data in NE according to our assessment, the quality of these forcing data sets remains a major challenge to accurately quantify the regional water balance in NE.

Liu, Yaling↗

Force approach to radiation reaction

The difficulty of the usual approach to deal with the radiation reaction is pointed out, and under the condition that the radiation force must be a function of the external force and is zero whenever the external force be zero, a new and straightforward approach to radiation reaction force and damping is proposed. Starting from the Larmor formula for the power radiated by an accelerated charged particle, written in terms of the applied force instead of the acceleration, an expression for the radiation force is established in general, and applied to the examples for the linear and circular motion of a charged particle. This expression is quadratic in the magnitude of the applied force, inversely proportional to the speed of the charged particle, and directed opposite to the velocity vector. This force approach may contribute to the solution of the very old problem of incorporating the radiation reaction to the motion of the charged particles, and future experiments may tell us whether or not this approach point is in the right direction.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

A Feasibility Study on Use of an Accelerometer to Measure the Dynamic Forces in Turning

Metal cutting is a highly dynamic process that generates continuously varying forces. Measurement of these forces is essential to characterizing a cutting process and to fully utilize the machine tool. A force dynamometer is often used to measure these varying forces; however, it is limited by the natural frequency of the sensor and can sometimes be hard to set up on a machine. Therefore, this study aims to estimate the dynamic component of the cutting force using an accelerometer placed directly below the cutting edge. The placement of the sensor helps achieving better signal to noise ratio (S/N). The cutting tool is modelled as a single degree of freedom (SDOF) system relative to the workpiece and dynamic loads are experimentally simulated on it. The measured acceleration is numerically integrated to obtain velocity and deflection, which along with the natural frequency (ω n ) and damping ratio (ζ), is used to predict the dynamic load using the system equation. The dynamic forces tested over a wide range of frequencies, show good agreement with the data from simultaneous dynamometer measurement and the force estimated using the proposed method. The study shows the feasibility of this method in a real cutting scenario and the capability to apply it to a multi DOF system. One major limitation is the inability to capture the static or quasi-static component of the cutting force.

Cutting vibrations↗

Optimal white-noise stochastic forcing for linear models of turbulent channel flow

In the present study an optimisation problem is formulated to determine the forcing of an eddy-viscosity-based linearised Navier–Stokes model in channel flow at $Re_\tau \approx 5200$ ( $Re_\tau$ is the friction Reynolds number), where the forcing is white-in-time and spatially decorrelated. The objective functional is prescribed such that the forcing drives a response to best match a set of velocity spectra from direct numerical simulation (DNS), as well as remaining sufficiently smooth. Strong quantitative agreement is obtained between the velocity spectra from the linear model with optimal forcing and from DNS, but only qualitative agreement between the Reynolds shear stress co-spectra from the model and DNS. The forcing spectra exhibit a level of self-similarity, associated with the primary peak in the velocity spectra, but they also reveal a non-negligible amount of energy spent in phenomenologically mimicking the non-self-similar part of the velocity spectra associated with energy cascade. By exploiting linearity, the effect of the individual forcing components is assessed and the contributions from the Orr mechanism and the lift-up effect are also identified. Finally, the effect of the strength of the eddy viscosity on the optimisation performance is investigated. The inclusion of the eddy viscosity diffusion operator is shown to be essential in modelling of the near-wall features, while still allowing the forcing of the self-similar primary peak. In particular, reducing the strength of the eddy viscosity results in a considerable increase in the near-wall forcing of wall-parallel components.

Mechanics↗

Atomic Force Microscopy and Infrared Nanospectroscopy of COVID-19 Spike Protein for the Quantification of Adhesion to Common Surfaces

The COVID-19 pandemic has claimed millions of lives worldwide, sickened many more, and has resulted in severe socio-economic consequences. As society returns to normal, understanding the spread and persistence of SARS CoV-2 on commonplace surfaces can help to mitigate future outbreaks of coronaviruses and other pathogens. We hypothesize that such an understanding can be aided from studying the binding and interaction of viral proteins with non-biological surfaces. Here, we propose a methodology for investigating the adhesion of the SARS CoV-2 spike glycoprotein on common inorganic surfaces such as aluminum-, copper-, iron-, silica-, and ceria-oxides as well as metallic gold. Quantitative adhesion was obtained from the analysis of measured forces at the nanoscale using an atomic force microscope operated under ambient conditions. Without imposing further constraints on the measurement conditions, our preliminary findings suggest that spike glycoproteins interact with similar adhesion forces across the majority of the metal oxides tested with the exception to gold, for which attraction forces ~10 times stronger than all other materials studied were observed. Ferritin, which was used as a reference protein, was found to exhibit similar adhesion forces as SARS CoV-2 spike protein. Further, this study results show that glycoprotein adhesion forces for similar ambient humidity, tip shape, and contact surface are non-specific to the properties of metal oxide surfaces, which are expected to be covered by a thin water film. The findings suggest that at ambient conditions glycoprotein adhesion to metal oxides is primarily controlled by the water capillary forces and they depend on the surface tension of the liquid (water). We discuss further strategies warranted to decipher the intricate nanoscale forces for improved quantification of the adhesion.

59 BASIC BIOLOGICAL SCIENCES↗

Interplay of the forces governing steroid hormone micropollutant adsorption in vertically-aligned carbon nanotube membrane nanopores

Vertically-aligned carbon nanotube (VaCNT) membranes allow water to conduct rapidly at low pressures and open up the possibility for water purification and desalination, although the ultralow viscous stress in hydrophobic and low-tortuosity nanopores prevents surface interactions with contaminants. In this experimental investigation, steroid hormone micropollutant adsorption by VaCNT membranes is quantified and explained via the interplay of the hydrodynamic drag and friction forces acting on the hormone, and the adhesive and repulsive forces between the hormone and the inner carbon nanotube wall. It is concluded that a drag force above 2.2 × 10 —3 pN overcomes the friction force resulting in insignificant adsorption, whereas lowering the drag force from 2.2 × 10 —3 to 4.3 × 10 —4 pN increases the adsorbed mass of hormones from zero to 0.4 ng cm —2 . At a low drag force of 1.6 × 10 —3 pN, the adsorbed mass of four hormones is correlated with the hormone–wall adhesive (van der Waals) force. These findings explain micropollutant adsorption in nanopores via the forces acting on the micropollutant along and perpendicular to the flow, which can be exploited for selectivity.

36 MATERIALS SCIENCE↗

Detectable ship tracks account for just 5% of aerosol indirect forcing from ship emissions

Ship emissions are a major source of aerosols over oceans, affecting both air quality and energy balance of the climate. However, estimates of their climate forcing diverge between studies relying on visible ship-tracks and those based on models. Here we show that forcing due to visible ship-tracks accounts for just 5% of the total forcing over the southeast Atlantic shipping-lane. Most forcing from ship emissions comes from aerosols that do not form detectable ship-tracks. They are only tips of the iceberg. We make three forcing calculations, one bottom-up based on visible ship-tracks, one top-down based on spatial relationships, and a hybrid approach that combines top-down or model estimated cloud droplet number concentration changes and cloud adjustments. Although the forcing based on machine learning detected ship tracks is an order of magnitude greater than prior results using manually detected ship-tracks, it remains only 5% of that inferred by top-down or cloud adjustment based methods for pre-2020 shipping. The top-down and the combined cloud adjustments methods show similar forcing for the post-2020 reduction in ships’ sulfur emission, although the methods have important regional differences in cloud adjustments that need further investigation. Our results reconcile a long-standing discrepancy in the literature and have important implications for aerosol indirect forcing and marine cloud brightening.

Yuan, Tianle [NASA Goddard Space Flight Center (GS↗

Prediction of Cutting Forces Using ANNs Approach in Hard Turning of AISI 52100 steel

In this study, artificial neural networks (ANNs) was used to predict cutting forces in the case of machining the hard turning of AISI 52100 bearing steel using cBN cutting tool. Cutting forces evolution is considered as the key factors which affect machining. Predicting cutting forces evolution allows optimizing machining by an adaptation of cutting conditions. In this context, it seems interesting to study the contribution that could have artificial neural networks (ANNs) on the machining forces prediction in both numerical and experiment studies. Feed-forward multi-layer neural networks trained by the error back-propagation (BP) algorithm are used. Levenberg-Marquardt (LM) optimization algorithm was used for finding out weights. The training of the network is carried out with experimental machining data.The input dataset used are cutting speed, feed rate, cutting depth and hardness of the material. The output dataset used are cutting forces (Ft-cutting force, Fa- feed force and Fr- radial force).Results of the neural networks approach, in comparison with experimental data are discussed in last part of this paper.

36 MATERIALS SCIENCE↗

Mean force on a finite-sized rigid particle, droplet, or bubble in a viscous compressible medium

In this paper, a force formulation to compute the axial acoustic mean second-order force on finite-sized compressible and rigid particles is presented. The flow inside and outside the spherical inclusion is considered viscous and compressible. Other than for volumetric pulsations of the bubble/droplet, the sphericity of the inclusion is maintained (taken to be unity). A far-field derivation approach has been used to compute the force due to standing and traveling waves; and the force is expressed as a multipole expansion (infinite series). In case of a bubble and a rigid particle, there exist three length scales that govern the mean second-order force: mean radius of the spherical inclusion (R 0 ), wavelength of the incoming acoustics (λ), and the momentum diffusion thickness of the ambient fluid (δ o ). While R 0 and λ are arbitrary, we assume the viscous length scale is negligibly small compared to the acoustic wavelength. In case of a droplet, however, the following additional parameters (inside to outside fluid ratios) also play a role: density ratio ($\sim\atop{p}$), viscosity ratio ($\sim\atop{μ}$, and speed of sound ratio ($\sim\atop{c}$). The force expression yields the correct behavior in several limiting cases considered: (i) inviscid bubble and droplets with R 0 /λ « 1, (ii) inviscid bubbles with finite R 0 /λ, and (iii) finite size rigid immovable particles. In general, while the monopole alone is sufficient to capture the force for small bubbles, higher-order terms are found to be important when R 0 /λ ≥ 0.02. In addition to reporting similar behavior for droplets, we study the effect arising from $\sim\atop{p}$, $\sim\atop{μ}$, $\sim\atop{c}$, and δ o /R 0 on the mean second-order force.

42 ENGINEERING↗

Biased diffusion in tubes of alternating diameter: Numerical study over a wide range of biasing force

This paper is devoted to particle transport in a tube formed by alternating wide and narrow sections, in the presence of an external biasing force. The focus is on the effective transport coefficients—mobility and diffusivity, as functions of the biasing force and the geometric parameters of the tube. Dependences of the effective mobility and diffusivity on the tube geometric parameters are known in the limiting cases of no bias and strong bias. The approximations used to obtain these results are inapplicable at intermediate values of the biasing force. To bridge the two limits Brownian dynamics simulations were run to determine the transport coefficients at intermediate values of the force. The simulations were performed for a representative set of tube geometries over a wide range of the biasing force. They revealed that there is a range of the narrow section length, where the force dependence of the mobility has a maximum. In contrast, the diffusivity is a monotonically increasing function of the force. A simple formula is proposed, which reduces to the known dependences of the diffusivity on the tube geometric parameters in both limits of zero and strong bias. At intermediate values of the biasing force, the formula catches the diffusivity dependence on the narrow section length, if the radius of these sections is not too small.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Adaptive enhanced sampling by force-biasing using neural networks

A machine learning assisted method is presented for molecular simulation of systems with rugged free energy landscapes. The method is general and can be combined with other advanced sampling techniques. In the particular implementation proposed here, it is illustrated in the context of an adaptive biasing force approach where, rather than relying on discrete force estimates, one can resort to a self-regularizing artificial neural network to generate continuous, estimated generalized forces. By doing so, the proposed approach addresses several shortcomings common to adaptive biasing force and other algorithms. Specifically, the neural network enables smooth estimates of generalized forces in sparsely sampled regions, force estimates in previously unexplored regions, and continuous force estimates with which to bias the simulation, as opposed to biases generated at specific points of a discrete grid. The usefulness of the method is illustrated with three different examples, chosen to highlight the wide range of applicability of the underlying concepts. In all three cases, the new method is found to enhance considerably the underlying traditional adaptive biasing force approach. Furthermore, the method is also found to provide improvements over previous implementations of neural network assisted algorithms.

97 MATHEMATICS AND COMPUTING↗

The combined force field-sampling problem in simulations of disordered amyloid-β peptides

Molecular dynamics simulations of intrinsically disordered proteins (IDPs) can provide high resolution structural ensembles if the force field is accurate enough and if the simulation sufficiently samples the conformational space of the IDP with the correct weighting of sub-populations. Here, we investigate the combined force field–sampling problem by testing a standard force field as well as newer fixed charge force fields, the latter specifically motivated for better description of unfolded states and IDPs, and comparing them with a standard temperature replica exchange (TREx) protocol and a non-equilibrium Temperature Cool Walking (TCW) sampling algorithm. The force field and sampling combinations are used to characterize the structural ensembles of the amyloid-beta peptides Aβ42 and Aβ43, which both should be random coils as shown recently by experimental nuclear magnetic resonance (NMR) and 2D Förster resonance energy transfer (FRET) experiments. The results illustrate the key importance of the sampling algorithm: while the standard force field using TREx is in poor agreement with the NMR J-coupling and nuclear Overhauser effect and 2D FRET data, when using the TCW method, the standard and optimized protein-water force field combinations are in very good agreement with the same experimental data since the TCW sampling method produces qualitatively different ensembles than TREx. Lastly, we also discuss the relative merit of the 2D FRET data when validating structural ensembles using the different force fields and sampling protocols investigated in this work for small IDPs such as the Aβ42 and Aβ43 peptides.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Accurate Hellmann–Feynman forces from density functional calculations with augmented Gaussian basis sets

The Hellmann–Feynman (HF) theorem provides a way to compute forces directly from the electron density, enabling efficient force calculations for large systems through machine learning (ML) models for the electron density. The main issue holding back the general acceptance of the HF approach for atom-centered basis sets is the well-known Pulay force which, if naively discarded, typically constitutes an error upward of 10 eV/Å in forces. In this work, we demonstrate that if a suitably augmented Gaussian basis set is used for density functional calculations, the Pulay force can be suppressed, and HF forces can be computed as accurately as analytical forces with state-of-the-art basis sets, allowing geometry optimization and molecular dynamics to be reliably performed with HF forces. Our results pave a clear path forward for the accurate and efficient simulation of large systems using ML densities and the HF theorem.

Pathak, Shivesh (ORCID:0000000172798195)↗

Multi-fidelity learning for interatomic potentials: low-level forces and high-level energies are all you need

The promise of machine learning interatomic potentials (MLIPs) has led to an abundance of public quantum mechanical (QM) training datasets. The quality of an MLIP is directly limited by the accuracy of the energies and atomic forces in the training dataset. Unfortunately, most of these datasets are computed with relatively low-accuracy QM methods, e.g. density functional theory with a moderate basis set. Due to the increased computational cost of more accurate QM methods, e.g. coupled-cluster theory with a complete basis set (CBS) extrapolation, most high-accuracy datasets are much smaller and often do not contain atomic forces. The lack of high-accuracy atomic forces is quite troubling, as training with force data greatly improves the stability and quality of the MLIP compared to training to energy alone. Because most datasets are computed with a unique level of theory, traditional single-fidelity (SF) learning is not capable of leveraging the vast amounts of published QM data. In this study, we apply multi-fidelity learning (MFL) to train an MLIP to multiple QM datasets of different levels of accuracy, i.e. levels of fidelity. Specifically, we perform three test cases to demonstrate that MFL with both low-level forces and high-level energies yields an extremely accurate MLIP—far more accurate than a SF MLIP trained solely to high-level energies and almost as accurate as a SF MLIP trained directly to high-level energies and forces. Therefore, MFL greatly alleviates the need for generating large and expensive datasets containing high-accuracy atomic forces and allows for more effective training to existing high-accuracy energy-only datasets. Indeed, low-accuracy atomic forces and high-accuracy energies are all that are needed to achieve a high-accuracy MLIP with MFL.

36 MATERIALS SCIENCE↗

Interface dynamics of a two-component Bose-Einstein condensate driven by an external force

The dynamics of an interface in a two-component Bose-Einstein condensate driven by a spatially uniform time-dependent force is studied. Starting from the Gross-Pitaevskii Lagrangian, the dispersion relation for linear waves and instabilities at the interface is derived by means of a variational approach. A number of diverse dynamical effects for different types of driving force is demonstrated, which includes the Rayleigh-Taylor instability for a constant force, the Richtmyer-Meshkov instability for a pulse force, dynamic stabilization of the Rayleigh-Taylor instability and onset of the parametric instability for an oscillating force. Gaussian Markovian and non-Markovian stochastic forces are also considered. It is found that the Markovian stochastic force does not produce any average effect on the dynamics of the interface, while the non-Markovian force leads to exponential perturbation growth.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Microstructure effects for Casimir forces in chiral metamaterials

We examine a recent prediction for the chirality dependence of the Casimir force in chiral metamaterials by numerical computation of the forces between the exact microstructures, rather than homogeneous approximations. Although repulsion in the metamaterial regime is rigorously impossible, it is unknown whether a reduction in the attractive force can be achieved through suitable material engineering. We compute the exact force for a chiral bent-cross pattern, as well as forces for an idealized ''omega''-particle medium in the dilute approximation and identify the effects of structural inhomogeneity (i.e., proximity forces and anisotropy). We find that these microstructure effects dominate the force for separations where chirality was predicted to have a strong influence. At separations where the homogeneous approximation is valid, in even the most ideal circumstances the effects of chirality are less than 10{sup -4} of the total force, making them virtually undetectable in experiments.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Wake forces in a background of quadratically coupled mediators

Two particles can exert forces on each other when embedded in a sea of weakly coupled particles. These “wake forces” occur whenever the source and target particles have quadratic interactions with the mediating particles; they are proportional to the ambient energy density and typically have a range of order the characteristic de Broglie wavelength of the background. The effect can be understood as source particles causing a disturbance in the background waves—a wake—which subsequently interacts with the target particles. Wake forces can be mediated by bosons or fermions, can have spin dependence, may be attractive or repulsive, and have a generally anisotropic spatial profile and range that depends on the phase-space distribution of the ambient particles. In this work, I investigate the application of wake forces to dark matter searches, recast existing limits on short-range forces into leading constraints on dark matter with quadratic couplings, and sketch out potential experimental modifications to optimize sensitivity. Wake forces occur in the Standard Model: the presence of the cosmic neutrino background induces a millimeter-range force about 22 orders of magnitude weaker than gravity. Wake forces may also be relevant in condensed-matter and atomic physics. Published by the American Physical Society 2024

Astronomy & Astrophysics↗