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At least 901 records · Page 50

Antielectrophoretic Response-Driven Bending–Tilting Deformation of Cationic Polyelectrolyte Brushes Drives Nonlinear Electroosmotic Transport in Brush-Grafted Nanochannels

In this paper, we use all-atom molecular dynamics (MD) simulations to describe a non-linearly enhanced electroosmotic (EOS) flow, where, in a nanochannel grafted with cationic PMETAC ([Poly(2-(Methacryloyloxy)Ethyl) Trimethylammonium Chloride]) brushes, a two-fold increase in the electric field strength leads to a several-fold (more than two-fold) increase in the EOS flow strength and volume flow rate. The electric field enforces the PMETAC brushes to undergo a bending-tilting driven deformation with a significant portion of the brush layer becoming parallel to the grafting surface. In response, a substantial fraction of the counterions leave the brush layer (hence become more mobile), but instead of going into the bulk, accumulate at the brush-bulk interface, i.e., stay in proximity of the brush segments aligned parallel to the grafting surface. This creates an interesting situation, where the counterions are not completely within the brush layer, yet they fully screen the brush charges. Such “freer” conditions enable the counterions to achieve very high velocity, thereby ensuring that the water solvating the counterions themselves move very fast triggering the significantly augmented EOS transport. Probing deeper we can identify that the bending-tilting driven brush deformation, enforcing the brushes to align parallel to the substrate, results from the anti-electrophoretic behavior of the brushes, where despite being positively charged, the brushes move against the electric field direction. Such an anti-electrophoretic behavior of the PE brushes, which has not been reported before, can be associated with the very fast velocities of the negatively charged counterions and the electrostatic and hydrodynamic coupling of the counterions with the positive functional groups of the brushes. Here, we anticipate that the findings of this paper will shed light on strategies for nanochannel flow, the anti-electrophoretic response of charged polymer chains, and the significance of capturing the detailed chemical architecture of polyelectrolytes in nanoscale science and engineering.

36 MATERIALS SCIENCE↗

Motion of Molecules in Supramolecular Scaffolds Enhances Bone Regeneration

The regeneration of human tissues is a great scientific challenge and a critical factor to achieve a long healthspan and prevent disabilities due to injury or disease. Materials chemistry can contribute to this goal with the development of bioactive supramolecular systems that can signal cells for regeneration. Recent work in our laboratory using in vivo models of spinal cord injury and cartilage regeneration has demonstrated that the motion of bioactive molecules in supramolecular scaffolds enhances receptor signaling. We report here on a novel molecular strategy to control supramolecular motion in filamentous assemblies using bone regeneration as a functional target. The supramolecular assemblies are composed of monomers that arrange, by design, with either parallel or antiparallel β-sheets, and some of them contain a terminal peptide sequence that binds BMP-2. We found that parallel β-sheet supramolecular assemblies promote greater osteogenic differentiation of progenitor cells in vitro relative to antiparallel assemblies, as well as superior quality of newly regenerated bone in a rat model of spinal fusion. Furthermore, these assemblies drastically reduce the dangerous supraphysiological dose of BMP-2 used clinically for spinal fusion. Here, we attribute the enhanced bioactivity to the weaker nature of hydrogen bonds in parallel relative to antiparallel β-sheet assemblies, which in turn allows greater supramolecular motion and cell signaling of the growth factor-binding molecules.

Anatomy↗

Unraveling the Formation Region and Frequency of Chorus Spectral Gaps

Abstract The present study addresses two basic questions related to banded chorus waves in the Earth’s magnetosphere: 1) are chorus spectral gaps formed near the equatorial source region or during propagation away from the equator? and 2) why are chorus spectral gaps usually located below 0.5 f ce ( f ce : electron gyro‐frequency)? By analyzing Van Allen Probes data, we demonstrate that chorus spectral gaps are observed in the source region where chorus waves propagate both in the parallel and anti‐parallel directions to the magnetic field. Chorus spectral gaps below 0.5 f ce are associated with electron parallel acceleration at energies above the equatorial Landau resonant energies. We explain that initially generated chorus waves quickly isotropize the electron distribution through Landau resonant acceleration, and the isotropization occurs for higher energies at higher latitudes. The isotropized population, after returning to the magnetic equator, leads to a chorus gap typically below 0.5 f ce by suppressing wave excitation.

Li, Jinxing↗

Properties and Acceleration Mechanisms of Electrons Up To 200 keV Associated With a Flux Rope Pair and Reconnection X-Lines Around It in Earth's Plasma Sheet

The properties and acceleration mechanisms of electrons (<200 keV) associated with a pair of tailward traveling flux ropes and accompanied reconnection X-lines in Earth's plasma sheet are investigated with MMS measurements. Energetic electrons are enhanced on both boundaries and core of the flux ropes. The power-law spectra of energetic electrons near the X-lines and in flux ropes are harder than those on flux rope boundaries. Theoretical calculations show that the highest energy of adiabatic electrons is a few keV around the X-lines, tens of keV immediately downstream of the X-lines, hundreds of keV on the flux rope boundaries, and a few MeV in the flux rope cores. The X-lines cause strong energy dissipation, which may generate the energetic electron beams around them. The enhanced electron parallel temperature can be caused by the curvature-driven Fermi acceleration and the parallel electric potential. Betatron acceleration due to the magnetic field compression is strong on flux rope boundaries, which enhances energetic electrons in the perpendicular direction. Electrons can be trapped between the flux rope pair due to mirror force and parallel electric potential. Electrostatic structures in the flux rope cores correspond to potential drops up to half of the electron temperature. The energetic electrons and the electron distribution functions in the flux rope cores are suggested to be transported from other dawn-dusk directions, which is a 3-dimensional effect. The acceleration and deceleration of the Betatron and Fermi processes appear alternately indicating that the magnetic field and plasma are turbulent around the flux ropes.

58 GEOSCIENCES↗

Density and Magnetic Field Asymmetric Kelvin‐Helmholtz Instability

Abstract The Kelvin‐Helmholtz (KH) instability can transport mass, momentum, magnetic flux, and energy between the magnetosheath and magnetosphere, which plays an important role in the solar‐wind‐magnetosphere coupling process for different planets. Meanwhile, strong density and magnetic field asymmetry are often present between the magnetosheath (MSH) and magnetosphere (MSP), which could affect the transport processes driven by the KH instability. Our magnetohydrodynamics simulation shows that the KH growth rate is insensitive to the density ratio between the MSP and the MSH in the compressible regime, which is different than the prediction from linear incompressible theory. When the interplanetary magnetic field (IMF) is parallel to the planet's magnetic field, the nonlinear KH instability can drive a double mid‐latitude reconnection (DMLR) process. The total double reconnected flux depends on the KH wavelength and the strength of the lower magnetic field. When the IMF is anti‐parallel to the planet's magnetic field, the nonlinear interaction between magnetic reconnection and the KH instability leads to fast reconnection (i.e., close to Petschek reconnection even without including kinetic physics). However, the peak value of the reconnection rate still follows the asymmetric reconnection scaling laws. We also demonstrate that the DMLR process driven by the KH instability mixes the plasma from different regions and consequently generates different types of velocity distribution functions. We show that the counter‐streaming beams can be simply generated via the change of the flux tube connection and do not require parallel electric fields.

Astronomy & Astrophysics↗

Massive, long-lived electrostatic potentials in a rotating mirror plasma

Abstract Hot plasma is highly conductive in the direction parallel to a magnetic field. This often means that the electrical potential will be nearly constant along any given field line. When this is the case, the cross-field voltage drops in open-field-line magnetic confinement devices are limited by the tolerances of the solid materials wherever the field lines impinge on the plasma-facing components. To circumvent this voltage limitation, it is proposed to arrange large voltage drops in the interior of a device, but coexist with much smaller drops on the boundaries. To avoid prohibitively large dissipation requires both preventing substantial drift-flow shear within flux surfaces and preventing large parallel electric fields from driving large parallel currents. It is demonstrated here that both requirements can be met simultaneously, which opens up the possibility for magnetized plasma tolerating steady-state voltage drops far larger than what might be tolerated in material media.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

3D nanolithography with metalens arrays and spatially adaptive illumination

The growing demand for advanced materials, miniaturized devices and integrated microsystems calls for the reliable fabrication of complex, multiscale, three-dimensional (3D) architectures, a need increasingly addressed through light-based and laser-based processes. However, owing to the field-of-view (FOV) limitations of conventional imaging optics, existing 3D laser nanofabrication techniques face fundamental challenges in throughput, proximity error and stitching defects on the path to scaling. Here, in this study, we present a scalable 3D nanofabrication platform that uses a metalens-generated focal spot array to parallelize two-photon lithography (TPL) beyond centimetre-scale write field areas. Metalenses are ideally suited for producing submicron-scale focal spots for high-throughput nanolithography, as they uniquely feature large numerical apertures (NAs), immersion media compatibility and large-scale manufacturability. We experimentally demonstrate a printing system that uses a 12-cm 2 metalens array to produce more than 120,000 cooperative focal spots, corresponding to a throughput exceeding 10 8 voxels s −1 . By programmatically patterning the focal spot array using a spatial light modulator (SLM), an adaptive parallel printing strategy is developed for precise greyscale linewidth modulation and choreographed printing of semiperiodic and fully aperiodic 3D geometries. We demonstrate parallel printing of replicated microstructures (>50 M microparticles per day), centimetre-scale 3D architectures with feature sizes down to 113 nm, and photonic and mechanical metamaterials. This work demonstrates the potential of 3D nanolithography towards wafer-scale production, showing how TPL could be used at scale for applications in microelectronics, biomedicine, quantum technology and high-energy laser targets.

Materials science↗

FilDReaMS: II. Application to the analysis of the relative orientations between filaments and the magnetic field in four Herschel fields

Context. Both simulations and observations of the interstellar medium show that the study of the relative orientations between filamentary structures and the magnetic field can bring new insight into the role played by magnetic fields in the formation and evolution of filaments and in the process of star formation. Aims. We provide a first application of FilDReaMS, the new method presented in the companion paper to detect and analyze filaments in a given image. The method relies on a template that has the shape of a rectangular bar with variable width. Our goal is to investigate the relative orientations between the detected filaments and the magnetic field. Methods. We apply FilDReaMS to a small sample of four Herschel fields (G210, G300, G82, G202) characterized by different Galactic environments and different evolutionary stages. First, we look for the most prevalent bar widths, and we examine the networks formed by filaments of different bar widths as well as their hierarchical organization. Second, we compare the filament orientations to the magnetic field orientation inferred from Planck polarization data and, for the first time, we study the statistics of the relative orientation angle as functions of both spatial scale and H2 column density. Results. We find preferential relative orientations in the four Herschel fields: small filaments with low column densities tend to be slightly more parallel than perpendicular to the magnetic field; in contrast, large filaments, which all have higher column densities, are oriented nearly perpendicular (or, in the case of G202, more nearly parallel) to the magnetic field. In the two nearby fields (G210 and G300), we observe a transition from mostly parallel to mostly perpendicular relative orientations at an H 2 column density ≃ 1.1 × 10 21 cm -2 and 1.4 × 10 21 cm -2 , respectively, consistent with the results of previous studies. Conclusions. Our results confirm the existence of a coupling between magnetic fields at cloud scales and filaments at smaller scale. They also illustrate the potential of combining Herschel and Planck observations, and they call for further statistical analyses with our dedicated method.

79 ASTRONOMY AND ASTROPHYSICS↗

Distinguishing resonance symmetries with energy-resolved photoion angular distributions from ion-pair formation in O 2 following two-photon absorption of a 9.3 eV femtosecond pulse

We present a combined experimental and theoretical study on the photodissociation dynamics of ion-pair formation in O 2 following resonant two-photon absorption of a 9.3 eV femtosecond pulse, where the resulting O + ions are detected using 3-D momentum imaging. Ion-pair formation states of $^3\Sigma^-_g$ and $^3\Pi_g$ symmetry are accessed through predissociation of optically dark continuum Rydberg states converging to the B $^2\Sigma^-_g$ ionic state, which are resonantly populated via a mixture of both parallel-parallel and parallel-perpendicular two-photon transitions. This mixture is evident in the angular distribution of the dissociation relative to the light polarization, and varies with the kinetic energy release (KER) of the fragmenting ion-pair. The KER-dependent photoion angular distribution reveals the underlying two-photon absorption dynamics involved in the ion-pair production mechanism and indicates the existence of two nearly degenerate continuum resonances possessing different symmetries, which can both decay by coupling to ion-pair states of the same total symmetry through internal conversion.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Scalable molecular dynamics on CPU and GPU architectures with NAMD

NAMD is a molecular dynamics program designed for high-performance simulations of very large biological objects on CPU- and GPU-based architectures. NAMD offers scalable performance on petascale parallel supercomputers consisting of hundreds of thousands of cores, as well as on inexpensive commodity clusters commonly found in academic environments. It is written in C++ and leans on Charm++ parallel objects for optimal performance on low-latency architectures. NAMD is a versatile, multipurpose code that gathers state-of-the-art algorithms to carry out simulations in apt thermodynamic ensembles, using the widely popular CHARMM, AMBER, OPLS, and GROMOS biomolecular force fields. Here, we review the main features of NAMD that allow both equilibrium and enhanced-sampling molecular dynamics simulations with numerical efficiency. We describe the underlying concepts utilized by NAMD and their implementation, most notably for handling long-range electrostatics; controlling the temperature, pressure, and pH; applying external potentials on tailored grids; leveraging massively parallel resources in multiple-copy simulations; and hybrid quantum-mechanical/molecular-mechanical descriptions. We detail the variety of options offered by NAMD for enhanced-sampling simulations aimed at determining free-energy differences of either alchemical or geometrical transformations and outline their applicability to specific problems. Last, we discuss the roadmap for the development of NAMD and our current efforts toward achieving optimal performance on GPU-based architectures, for pushing back the limitations that have prevented biologically realistic billion-atom objects to be fruitfully simulated, and for making large-scale simulations less expensive and easier to set up, run, and analyze. NAMD is distributed free of charge with its source code at www.ks.uiuc.edu.

high-performance computing↗

Scaling theory of three-dimensional magnetic reconnection spreading

We develop a first-principles scaling theory of the spreading of three-dimensional (3D) magnetic reconnection of finite extent in the out of plane direction. This theory addresses systems with or without an out of plane (guide) magnetic field, and with or without Hall physics. The theory reproduces known spreading speeds and directions with and without guide fields, unifying previous knowledge in a single theory. New results include: (1) Reconnection spreads in a particular direction if an x-line is induced at the interface between reconnecting and non-reconnecting regions, which is controlled by the out of plane gradient of the electric field in the outflow direction. (2) The spreading mechanism for anti-parallel collisionless reconnection is convection, as is known, but for guide field reconnection it is magnetic field bending. We confirm the theory using 3D two-fluid and resistive-magnetohydrodynamics simulations. (3) The theory explains why anti-parallel reconnection in resistive-magnetohydrodynamics does not spread. (4) The simulation domain aspect ratio, associated with the free magnetic energy, influences whether reconnection spreads or convects with a fixed x-line length. (5) We perform a simulation initiating anti-parallel collisionless reconnection with a pressure pulse instead of a magnetic perturbation, finding spreading is unchanged rather than spreading at the magnetosonic speed as previously suggested. The results provide a theoretical framework for understanding spreading beyond systems studied here, and are important for applications including two-ribbon solar flares and reconnection in Earth’s magnetosphere.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Lower-hybrid drift waves and their interaction with plasmas in a 3D symmetric reconnection simulation with zero guide field

We investigate lower-hybrid drift waves (LHDW) in symmetric magnetic reconnection with zero guide field using three-dimensional particle-in-cell simulations. The long-wavelength mode with kρiρe∼1 develops in the bifurcated electron current layer around the X-line within the width of the electron meandering motion from the mid-plane, where ρi(e) is the ion (electron) gyroradius. The short-wavelength mode with kρe∼1 develops in the separatrix region downstream of the electron outflow jet, producing electron vortices in the background flow frame. Electrons follow the E × B drift with corrections from the diamagnetic drift and are heated inside the vortices with diverging electric fields. In the vortices, ions have comparable E × B and inertia drifts, which together mostly cancel the diamagnetic drift. Toward the center of diverging field vortices, ions are decelerated, leading to a decrease in the perpendicular temperature, while the loss of low-energy ions results in an increase in the parallel temperature. Parallel electric fields exist as a combination of the LHDW wave field projected to the magnetic field direction and the penetration of whistler waves that are mainly outside of the LHDW layer. The magnetic flux tube is twisted in the vortices. The twist may potentially lead to slippage reconnection, as indicated by the non-uniform parallel potential variation across field lines, while the periodic variations of the twisting directions are a limiting factor.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

AENET–LAMMPS and AENET–TINKER : Interfaces for accurate and efficient molecular dynamics simulations with machine learning potentials

Machine-learning potentials (MLPs) trained on data from quantum-mechanics based first-principles methods can approach the accuracy of the reference method at a fraction of the computational cost. To facilitate efficient MLP-based molecular dynamics and Monte Carlo simulations, an integration of the MLPs with sampling software is needed. Here, we develop two interfaces that link the atomic energy network (ænet) MLP package with the popular sampling packages TINKER and LAMMPS. The three packages, ænet, TINKER, and LAMMPS, are free and open-source software that enable, in combination, accurate simulations of large and complex systems with low computational cost that scales linearly with the number of atoms. Scaling tests show that the parallel efficiency of the ænet–TINKER interface is nearly optimal but is limited to shared-memory systems. The ænet–LAMMPS interface achieves excellent parallel efficiency on highly parallel distributed memory systems and benefits from the highly optimized neighbor list implemented in LAMMPS. We demonstrate the utility of the two MLP interfaces for two relevant example applications: the investigation of diffusion phenomena in liquid water and the equilibration of nanostructured amorphous battery materials.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Pressure-driven tearing and thermal transport in finite-beta reversed field pinch computations

In this work, nonlinear resistive-magnetohydrodynamics (MHD) computation with heating and anisotropic transport is applied to examine the interaction between thermal energy and magnetic fluctuations in inductively driven reversed-field pinches (RFPs). The magnetic fluctuations underlie magnetic field reversal through dynamo-like correlations, and they enhance thermal energy transport through fluctuations of parallel heat flux density. With the unfavorable magnetic curvature that exists across the RFP profile, thermal energy also affects the magnetic fluctuations. Computations with the NIMROD code [Sovinec et al., J. Comput. Phys. 195, 355–386 (2004)] integrate nonlinear MHD dynamics with energy transport and reproduce an RFP state with experimentally relevant values of plasma-β. Equilibria constructed from results of the 3D computations are analyzed to assess the sources of free energy in the saturated nonlinear state. Linear computations for these profiles show unstable modes of tearing parity. Their eigenfunctions are used to evaluate and compare stabilizing and destabilizing contributions to the kinetic energy integral. An assessment of the drives in the integral reveals that the pressure gradient drive is of comparable magnitude to the parallel current drive, and only the sum of the two surpasses the stabilizing contributions. Correlation of magnetic and parallel heat flux density fluctuations in the nonlinear computations shows that fluctuation-induced thermal conduction is the dominant mode of energy loss, as expected from experimental evidence. Decomposition of the fluctuating heat flux density shows that second-order correlations, alone, do not explain the total energy transport. Higher-order correlations are also important.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Kinetic closures for unmagnetized and magnetized plasmas

Parallel and perpendicular closures with cyclotron resonance effects retained for the five-moment (density, temperature, and flow velocity) fluid equations are derived by solving the kinetic equation with the Bhatnagar–Gross–Krook operator in Fourier space. For parallel propagation, the parallel closures are reduced to those of Ji et al. [Phys. Plasmas 20, 082121 (2013)]. The closures when combined to the fluid equations reproduce the fully kinetic dispersion relation that can be directly derived from the kinetic equation. The closures for the five-moment fluid system can be utilized to derive closures for the extended fluid system, which is demonstrated by deriving closures for the ten-moment system consisting of density, flow velocity, temperature, and viscosity tensor equations.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Structural determinants of protocadherin-15 mechanics and function in hearing and balance perception

The vertebrate inner ear, responsible for hearing and balance, is able to sense minute mechanical stimuli originating from an extraordinarily broad range of sound frequencies and intensities or from head movements. Integral to these processes is the tip-link protein complex, which conveys force to open the inner-ear transduction channels that mediate sensory perception. Protocadherin-15 and cadherin-23, two atypically large cadherins with 11 and 27 extracellular cadherin (EC) repeats, are involved in deafness and balance disorders and assemble as parallel homodimers that interact to form the tip link. Here we report the X-ray crystal structure of a protocadherin-15 + cadherin-23 heterotetrameric complex at 2.9-Å resolution, depicting a parallel homodimer of protocadherin-15 EC1-3 molecules forming an antiparallel complex with two cadherin-23 EC1-2 molecules. In addition, we report structures for 10 protocadherin-15 fragments used to build complete high-resolution models of the monomeric protocadherin-15 ectodomain. Molecular dynamics simulations and validated crystal contacts are used to propose models for the complete extracellular protocadherin-15 parallel homodimer and the tip-link bond. Steered molecular dynamics simulations of these models suggest conditions in which a structurally diverse and multimodal protocadherin-15 ectodomain can act as a stiff or soft gating spring. These results reveal the structural determinants of tip-link–mediated inner-ear sensory perception and elucidate protocadherin-15’s structural and adhesive properties relevant in disease.

59 BASIC BIOLOGICAL SCIENCES↗

Sprain energy consequences for damage localization and fracture mechanics

The 2023 smooth Lagrangian Crack-Band Model (slCBM), inspired by the 2020 invention of the gap test, prevented spurious damage localization during fracture growth by introducing the second gradient of the displacement field vector, named the “sprain,” as the localization limiter. The key idea was that, in the finite element implementation, the displacement vector and its gradient should be treated as independent fields with the lowest ( C 0 ) continuity, constrained by a second-order Lagrange multiplier tensor. Coupled with a realistic constitutive law for triaxial softening damage, such as microplane model M7, the known limitations of the classical Crack Band Model were eliminated. Here, we show that the slCBM closely reproduces the size effect revealed by the gap test at various crack-parallel stresses. To describe it, we present an approximate corrective formula, although a strong loading-path dependence limits its applicability. Except for the rare case of zero crack-parallel stresses, the fracture predictions of the line crack models (linear elastic fracture mechanics, phase-field, extended finite element method (XFEM), cohesive crack models) can be as much as 100% in error. We argue that the localization limiter concept must be extended by including the resistance to material rotation gradients. We also show that, without this resistance, the existing strain-gradient damage theories may predict a wrong fracture pattern and have, for Mode II and III fractures, a load capacity error as much as 55%. Finally, we argue that the crack-parallel stress effect must occur in all materials, ranging from concrete to atomistically sharp cracks in crystals.

Science & Technology - Other Topics↗

Reversed-direction 2-point modelling applied to divertor conditions in DIII-D *

Abstract A predictive form of the extended 2-point model known as the ‘reverse 2-point model’, Rev2PM, is applied to a range of detachment levels in the open lower divertor of DIII-D, showing that the experimentally measured electron temperature ( T e ) and pressure ( p e ) at the divertor entrance can be calculated within 50% from target measurements, if and only if a posteriori corrections for convective heat flux are included in the model. Unlike the standard 2-point model, the Rev2PM calculates upstream scrape-off layer (SOL) quantities (such as separatrix T e and p e ) from target conditions (such as T e and parallel heat flux), with volumetric power and momentum losses depending solely on target T e . The Rev2PM is tested against a database of DIII-D inter-ELM divertor Thomson scattering measurements, built from a series of 6 MW, 1.3 MA, LSN H-mode discharges with varied main ion density, drift direction, and nitrogen puffing rate. Measured target T e ranged from 0.4–25 eV over this database, and upstream T e ranged from 5–60 eV. Poor agreement is found between upstream measurements and Rev2PM calculations that assume purely conductive parallel heat transport. However, introducing a posteriori corrections to account for convective heat transport brings the Rev2PM calculations within 50% of the measured upstream values across the dataset. These corrections imply that up to 99% of the parallel heat flux is carried by convection in detached conditions in the DIII-D open lower divertor, though further work is required to assess any potential dependencies on device size or divertor closure.

2-point model↗