SearcharxivSearch

arXiv subjects

Douwe Jan Bonthuis

Publications and source records attributed to Douwe Jan Bonthuis.

9 recordsLinked to original sources

Static Dielectric Permittivity Profiles and Coarse-graining Approaches for Water in Graphene Slit Pores

The dielectric response of nano-confined fluids is crucial across technologies and biological systems, yet its calculation and interpretation from molecular simulations are often muddled by unclear boundary conditions. We re-derive the Green--Kubo relation for the spatially resolved linear dielectric response of fluids in planar confinement, explicitly accounting for boundary conditions and showing that equilibrium-derived profiles agree with those obtained from external fields. We identify common misconceptions in the literature and outline how microscopic dielectric behavior can be coarse-grained to connect with experimental observables. Simulations show that water retains a bulk-like dielectric response down to $\sim 1\,\mathrm{nm}$ confinement. The reduced \emph{effective} dielectric response that governs capacitance arises from the placement of the dielectric interface. Using effective-medium theory, we demonstrate that long-range reductions reported in experiments and theory are consistent with bulk-like behavior beyond about $1\,\mathrm{nm}$ from the surface. The effective response naturally maps onto an interfacial capacitance, and the dielectric properties of simulated water are robust across simulation setups and water models, reflecting universal polarization correlations.

cond-mat.soft

Dielectric properties of aqueous electrolytes at the nanoscale

Despite the ubiquity of aqueous electrolytes, the effect of salt on water organization remains controversial. We introduce a nonlocal and nonlinear field theory for the nanoscale polarization of ions and water and derive the electrolyte dielectric response as a function of salt concentration to first order in a loop expansion. By comparison with molecular dynamics simulations, we show that rising salt concentration induces a dielectric permittivity decrement and Debye screening in the longitudinal susceptibility but leaves the water structure remarkably unchanged.

cond-mat.soft

Energy Transfer within the Hydrogen Bonding Network of Water Following Resonant Terahertz Excitation

Energy dissipation in water is very fast and more efficient than in many other liquids. This behavior is commonly attributed to the intermolecular interactions associated with hydrogen bonding. Here, we investigate the dynamic energy flow in the hydrogen-bond network of liquid water by a pump-probe experiment. We resonantly excite intermolecular degrees of freedom with ultrashort single-cycle terahertz pulses and monitor its Raman response. By using ultrathin sample-cell windows, a background-free bipolar signal whose tail relaxes mono-exponentially is obtained. The relaxation is attributed to the molecular translational motions, using complementary experiments, force-field and ab initio molecular dynamics simulations. They reveal an initial coupling of the terahertz electric field to the molecular rotational degrees of freedom whose energy is rapidly transferred, within the excitation pulse duration, to the restricted-translational motion of neighboring molecules. This rapid energy transfer may be rationalized by the strong anharmonicity of the intermolecular interactions.

cond-mat.soft

Exploring the Absorption Spectrum of Simulated Water from MHz to the Infrared

Absorption spectra of liquid water at 300 K are calculated from both classical and density functional theory molecular dynamics simulation data, which together span from 1 MHz to hundreds of THz, agreeing well with experimental data qualitativley and quantitavely over the entire range, including the IR modes, the microwave peak, and the intermediate THz bands. The spectra are decomposed into single-molecular and collective components as well as into components due to molecular reorientations and changes in induced intramolecular dipole moments. These decompositions shed new light on the motions underlying the librational and translational (hydrogen-bond stretch) bands at 20 and 5 THz respectively: interactions between donor protons and acceptor lone pair electrons are shown to be important for the line shape in both librational and translational regimes, and in- and out-of-phase librational dimer modes are observed and explored.

physics.chem-ph

Nonlinear Electrophoresis of Highly Charged Nonpolarizable Particles

Nonlinear field dependence of electrophoresis in high fields has been investigated theoretically, yet experimental studies have failed to reach consensus on the effect. In this work, we present a systematic study on the nonlinear electrophoresis of highly charged submicron particles in applied electric fields of up to several kV/cm. First, the particles are characterized in the low-field regime at different salt concentrations and the surface charge density is estimated. Subsequently, we use microfluidic channels and video tracking to systematically characterize the nonlinear response over a range of field strengths. Using velocity measurements on the single particle level, we prove that nonlinear effects are present at electric fields and surface charge densities that are accessible in practical conditions. Finally, we show that nonlinear behavior leads to unexpected particle trapping in channels.

cond-mat.soft

Current fluctuations in nanopores: the effects of electrostatic and hydrodynamic interactions

Using nonequilibrium Langevin dynamics simulations of an electrolyte with explicit solvent particles, we investigate the effect of hydrodynamic interactions on the power spectrum of ionic nanopore currents. At low frequency, we find a power-law dependence of the power spectral density, with an exponent depending on the ion density. Surprisingly, however, the exponent is not affected by the presence of the neutral solvent particles. We conclude that hydrodynamic interactions do not affect the shape of the power spectrum in the frequency range studied.

cond-mat.soft

The Power Spectrum of Ionic Nanopore Currents: The Role of Ion Correlations

We calculate the power spectrum of electric-field-driven ion transport through cylindrical nanometer-scale pores using both linearized mean-field theory and Langevin dynamics simulations. With the atom-sized cutoff radius as the only fitting parameter, the linearized mean-field theory accurately captures the dependence of the simulated power spectral density on the pore radius and the applied electric field. Remarkably, the linearized mean-field theory predicts a plateau in the power spectral density at low frequency $ω$, which is confirmed by the Langevin dynamics simulations at low ion concentration. At high ion concentration, however, the power spectral density follows a power law that is reminiscent of the $1/ω^α$ dependence found experimentally at low frequency. Based on simulations with and without ion-ion interactions, we attribute the low-frequency power law dependence to ion-ion correlations. Finally, we show that the surface charge density has no effect on the frequency dependence of the power spectrum.

physics.bio-ph

Mechanosensitive Channel Activation by Diffusio-Osmotic Force

For ion channel gating, the appearance of two distinct conformational states and the discrete transitions between them is essential, and therefore of crucial importance to all living organisms. We show that the physical interplay between two structural elements that are commonly present in bacterial mechanosensitive channels, namely a charged vestibule and a hydrophobic constriction, creates two distinct conformational states, open and closed, as well as the gating between them. We solve the nonequilibrium Stokes-Poisson-Nernst-Planck equations, extended to include a molecular potential of mean force, and show that a first order transition between the closed and open states arises naturally from the diffusio-osmotic stress caused by the ions and water inside the channel and the elastic restoring force from the membrane. Our proposed gating mechanism is likely to be important for a broad range of ion channels, as well as for biomimetic channels and ion channel-targeting therapeutics.

cond-mat.soft

Self-energy limited ion transport in sub-nanometer channels

The current-voltage characteristics of the alpha-Hemolysin protein pore during the passage of single-stranded DNA under varying ionic strength, C, are studied experimentally. We observe strong blockage of the current, weak super-linear growth of the current as a function of voltage, and a minimum of the current as a function of C. These observations are interpreted as the result of the ion electrostatic self-energy barrier originating from the large difference in the dielectric constants of water and the lipid bilayer. The dependence of DNA capture rate on C also agrees with our model.

cond-mat.soft