Actin-based motility is important for many cellular processes. In this article we extend our previous studies of an actin-propelled circular disk in two dimensions to an actin-propelled spherical bead in three dimensions. We find that for an achiral load the couplings between the motion of the load and the actin network induce a series of bifurcations, starting with a transition from rest to moving state, followed by a transition from straight to planar curves, and finally a further transition from motion in a plane to one with torsion. To address the intriguing, experimentally observed chiral motility of the bacterium Listeria monocytogenes, we also study the motility of a spherical load with a built-in chirality. For such a chiral load, stable circular trajectories are no longer found in numerical simulations. Instead, helical trajectories with handedness that depends on the chirality of the load are found. Our results reveal the relation between the symmetry of actin network and the trajectories of actin-propelled loads.

Wrinkles commonly develop in a thin film deposited on a soft elastomer substrate when the film is subject to compression. Motivated by recent experiments [Agrawal et al., Soft Matter 8, 7138 (2012)] that show how wrinkle morphology can be controlled by using a nematic elastomer substrate, we develop the theory of small-amplitude wrinkles of an isotropic film atop a nematic elastomer. The directors of the nematic elastomer are initially uniform. For uniaxial compression of the film along the direction perpendicular to the elastomer directors, the system behaves as a compressed film on an isotropic substrate. When the uniaxial compression is along the direction of nematic order, we find that the soft elasticity characteristic of liquid-crystal elastomers leads to a critical stress for wrinkling which is very small compared to the case of an isotropic substrate. We also determine the wavelength of the wrinkles at the critical stress and show how the critical stress and wavelength depend on substrate depth and the anisotropy of the polymer chains in the nematic elastomer.

By analyzing two kinetically constrained models of supercooled liquids we show that the anomalous transport of a driven tracer observed in supercooled liquids is another facet of the phenomenon of dynamical heterogeneity. We focus on the Fredrickson-Andersen and the Bertin-Bouchaud-Lequeux models. By numerical simulations and analytical arguments we demonstrate that the violation of the Stokes-Einstein relation and the field-induced superdiffusion observed during a long preasymptotic regime have the same physical origin: while a fraction of probes do not move, others jump repeatedly because they are close to local mobile regions. The anomalous fluctuations observed out of equilibrium in the presence of a pulling force $\epsilon ,{\sigma }_x^2\left(t\right)=\langle x_{\epsilon }^2\left(t\right)\rangle -{\langle x_{\epsilon }\left(t\right)\rangle }^2\sim t^{3/2}$, which are accompanied by the asymptotic decay ${\alpha }_{\epsilon }\left(t\right)\sim t^{-1/2}$ of the non-Gaussian parameter from nontrivial values to zero, are due to the splitting of the probes population in the two (mobile and immobile) groups and to dynamical correlations, a mechanism expected to happen generically in supercooled liquids.

The relation between classically chaotic dynamics and quantum localization is studied in a system that violates the assumptions of the Kolmogorov-Arnold-Moser (KAM) theorem, namely, the kicked rotor in a discontinuous potential barrier. We show that the discontinuous barrier induces chaos and more than two distinct subdiffusive energy growth regimes, the latter being an unusual feature for Hamiltonian chaos. We show that the dynamical localization in the quantized version of this system carries the imprint of non-KAM classical dynamics through the dependence of quantum break time on subdiffusion exponents. We briefly comment on the experimental feasibility of this system.

Objects are represented in sensory systems by continuous manifolds due to sensitivity of neuronal responses to changes in physical features such as location, orientation, and intensity. What makes certain sensory representations better suited for invariant decoding of objects by downstream networks? We present a theory that characterizes the ability of a linear readout network, the perceptron, to classify objects from variable neural responses. We show how the readout perceptron capacity depends on the dimensionality, size, and shape of the object manifolds in its input neural representation.

The development and decay of a turbulent vortex tangle driven by the Gross-Pitaevskii equation is studied. Using a recently developed accurate and robust tracking algorithm, all quantized vortices are extracted from the fields. The Vinen's decay law for the total vortex length with a coefficient that is in quantitative agreement with the values measured in helium II is observed. The topology of the tangle is then investigated showing that linked rings may appear during the evolution. The tracking also allows for determining the statistics of small-scale quantities of vortex lines, exhibiting large fluctuations of curvature and torsion. Finally, the temporal evolution of the Kelvin wave spectrum is obtained providing evidence of the development of a weak-wave turbulence cascade.

We consider coupled diffusions in $n$-dimensional space and on a compact manifold and the resulting effective advective-diffusive motion on large scales in space. The effective drift (advection) and effective diffusion are determined as a solvability conditions in a multiscale analysis. As an example, we consider coupled diffusions in three-dimensional space and on the group manifold SO(3) of proper rotations, generalizing results obtained by H. Brenner [J. Colloid Interface Sci. 80, 548 (1981)]. We show in detail how the analysis can be conveniently carried out using local charts and invariance arguments. As a further example, we consider coupled diffusions in two-dimensional complex space and on the group manifold SU(2). We show that although the local operators may be the same as for SO(3), due to the global nature of the solvability conditions the resulting diffusion will differ and generally be more isotropic.

Shape transformations in driven and damped molecular chains are considered. Closed chains of weakly coupled molecular subunits under the action of spatially homogeneous time-periodic external field are studied. The coupling between the internal excitations and the bending degrees of freedom of the chain modifies the local bending rigidity of the chain. In the absence of driving the array takes a circular shape. When the energy pumped into the system exceeds some critical value the chain undergoes a nonequilibrium phase transition: The circular shape of the aggregate becomes unstable and the chain takes the shape of an ellipse or, in general, of a polygon. The excitation energy distribution becomes spatially nonuniform: It localizes in such places where the chain is more flat. The weak interaction of the chain with a flat surface restricts the dynamics to a flat manifold.

Given a power grid and a transmission (coupling) strength, basin stability is a measure of synchronization stability for individual nodes. Earlier studies have focused on the basin stability's dependence of the position of the nodes in the network for single values of transmission strength. Basin stability grows from zero to one as transmission strength increases, but often in a complex, nonmonotonous way. In this study, we investigate the entire functional form of the basin stability's dependence on transmission strength. To be able to perform a systematic analysis, we restrict ourselves to small networks. We scan all isomorphically distinct networks with an equal number of power producers and consumers of six nodes or less. We find that the shapes of the basin stability fall into a few, rather well-defined classes, that could be characterized by the number of edges and the betweenness of the nodes, whereas other network positional quantities matter less.

Cell reproduction involves replication of diverse molecule species, in contrast to a simple replication system with fewer components. To address this question of diversity, we study theoretically a cell system with catalytic reaction dynamics that grows by uptake of environmental resources. It is shown that limited resources lead to increased diversity of components within the system, and the number of coexisting species increases with a negative power of the resource uptake. The relationship is explained from the optimum growth speed of the cell, determined by a tradeoff between the utility of diverse resources and the concentration onto fewer components to increase the reaction rate.

We use the concept of entropy power to derive a one-parameter class of information-theoretic uncertainty relations for pairs of conjugate observables in an infinite-dimensional Hilbert space. This class constitutes an infinite tower of higher-order statistics uncertainty relations, which allows one in principle to determine the shape of the underlying information-distribution function by measuring the relevant entropy powers. We illustrate the capability of this class by discussing two examples: superpositions of vacuum and squeezed states and the Cauchy-type heavy-tailed wave function.

Pathogenic protein fibrils have been shown in vitro to have nucleation-dependent kinetics despite the fact that one-dimensional structures do not have the size-dependent surface energy responsible for the lag time in classical theory. We present a theory showing that the conformational entropy of the peptide chains creates a free-energy barrier that is analogous to the translational entropy barrier in higher dimensions. We find that the dynamics of polymer rearrangement make it very unlikely for nucleation to succeed along the lowest free-energy trajectory, meaning that most of the nucleation flux avoids the free-energy saddle point. We use these results to construct a three-dimensional model for amyloid nucleation that accounts for conformational entropy, backbone H bonds, and side-chain interactions to compute nucleation rates as a function of concentration.

The relaxation process of a diffusive ring becomes underdamped if the bias (so-called affinity) exceeds a critical threshold value, also known as the delocalization transition. This is related to the spectral properties of the pertinent stochastic kernel. We find the dependence of the relaxation rate on the affinity and on the length of the ring. Additionally we study the implications of introducing a weak link into the circuit and illuminate some subtleties that arise while taking the continuum limit of the discrete model.

The goal of this paper is to develop an estimate for the entropy of random symbolic sequences with elements belonging to a finite alphabet. As a plausible model, we use the high-order additive stationary ergodic Markov chain with long-range memory. Supposing that the correlations between random elements of the chain are weak, we express the conditional entropy of the sequence by means of the symbolic pair correlation function. We also examine an algorithm for estimating the conditional entropy of finite symbolic sequences. We show that the entropy contains two contributions, i.e., the correlation and the fluctuation. The obtained analytical results are used for numerical evaluation of the entropy of written English texts and DNA nucleotide sequences. The developed theory opens the way for constructing a more consistent and sophisticated approach to describe the systems with strong short-range and weak long-range memory.

We solve the nonperturbative renormalization-group flow equations for the two-dimensional $\mathit{XY}$ model at the truncation level of the (complete) second-order derivative expansion. We compute the thermodynamic properties in the high-temperature phase and compare the nonuniversal features specific to the $\mathit{XY}$ model with results from Monte Carlo simulations. In particular, we study the position and magnitude of the specific-heat peak as a function of temperature. The obtained results compare well with Monte Carlo simulations. We additionally gauge the accuracy of simplified nonperturbative renormalization-group treatments relying on ${\varphi }^4$-type truncations. Our computation indicates that such an approximation is insufficient in the high-$T$ phase and a correct analysis of the specific-heat profile requires account of an infinite number of interaction vertices.

We study the phase diagram of a fluid with spherically symmetric competing pair interactions that consist of a short-ranged attraction and a longer-ranged repulsion in addition to a hard core. To this end we perform free minimizations of three-dimensional triple periodic structures within the framework of classical density functional theory. We compare our results to those from Landau theory. Our main finding is that the double gyroid phase can exist as a thermodynamically stable phase.

In this paper, an experimental velocity database of a bacterial collective motion, e.g., Bacillus subtilis, in turbulent phase with volume filling fraction $84\%$ provided by Professor Goldstein at Cambridge University (UK), was analyzed to emphasize the scaling behavior of this active turbulence system. This was accomplished by performing a Hilbert-based methodology analysis to retrieve the scaling property without the $\beta$-limitation. A dual-power-law behavior separated by the viscosity scale ${\ell }_{\nu }$ was observed for the $q\mathrm{th}$-order Hilbert moment ${\mathcal{L}}_q\left(k\right)$. This dual-power-law belongs to an inverse-cascade since the scaling range is above the injection scale $R$, e.g., the bacterial body length. The measured scaling exponents $\zeta \left(q\right)$ of both the small-scale $\left(k>k_{\nu }\right)$ and large-scale $\left(k<k_{\nu }\right)$ motions are convex, showing the multifractality. A log-normal formula was put forward to characterize the multifractal intensity. The measured intermittency parameters are ${\mu }_S=0.26$ and ${\mu }_L=0.17$, respectively, for the small- and large-scale motions. It implies that the former cascade is more intermittent than the latter one, which is also confirmed by the corresponding singularity spectrum $f\left(\alpha \right)$ versus $\alpha$. Comparison with the conventional two-dimensional Ekman-Navier-Stokes equation, a continuum model indicates that the origin of the multifractality could be a result of some additional nonlinear interaction terms, which deservers a more careful investigation.

The presence of a floating electrode array located within the depletion layer formed due to concentration polarization across a microchannel–membrane interface device may produce not only induced-charge electro-osmosis (ICEO) but also bipolar current resulting from the induced Faradaic reaction. It has been shown that there exists an optimal thickness of a thin dielectric coating that is sufficient to suppress bipolar currents but still enables ICEO vortices that stir the depletion layer, thereby affecting the system's current-voltage response. In addition, the use of alternating-current electro-osmosis by activating electrodes results in further enhancement of the fluid stirring and opens new routes for on-demand spatiotemporal control of the depletion layer length.

While most studies of submonolayer island nucleation and growth have been based on the assumption of ordinary monomer diffusion corresponding to diffusion exponent $\mu =1$, in some cases either subdiffusive $\left(\mu <1\right)$ or superdiffusive $\left(\mu >1\right)$ behavior may occur. Here we present general expressions for the exponents describing the flux dependence of the island and monomer densities as a function of the critical island size $i$, substrate dimension $d$, island fractal dimension $d_f$, and diffusion exponent $\mu$, where $0\le \mu \le 2$. Our results are compared with kinetic Monte Carlo simulations for the case of irreversible island growth $\left(i=1\right)$ with $0\le \mu \le 2$ and $d=2$ as well as simulation results for $d=1$, 3, and 4, and excellent agreement is found.

A basic kinetic model that incorporates a coupled dynamics of the carbon atoms and dimers on a copper surface is used to compute growth of a single-layer graphene island. The speed of the island's edge advancement on Cu[111] and Cu[100] surfaces is computed as a function of the growth temperature and pressure. Spatially resolved concentration profiles of the atoms and dimers are determined, and the contributions provided by these species to the growth speed are discussed. Island growth under the conditions of a thermal cycling is studied.