arXiv subjects

Aparna Baskaran

Publications and source records attributed to Aparna Baskaran.

At least 37 records · Page 2Linked to original sources

arXiv2020

Confinement controlled bend instability of three-dimensional active fluids

Spontaneous growth of long-wavelength deformations is a defining feature of active fluids with orientational order. We investigate the effect of biaxial rectangular confinement on the instability of initially shear-aligned 3D isotropic active fluids composed of extensile microtubule bundles and kinesin molecular motors. Under confinement, such fluids exhibit finite-wavelength self-amplifying bend deformations which grow in the plane orthogonal to the direction of the strongest confinement. Both the instability wavelength and the growth rate increase with weakening confinement. These findings are consistent with a minimal hydrodynamic model, which predicts that the fastest growing deformation is set by a balance of active driving and elastic relaxation. Experiments in the highly confined regime confirm that the instability wavelength is set by the balance of active and elastic stresses, which are independently controlled by the concentration of motors and non-motile crosslinkers.

cond-mat.soft↗

arXiv2019

Statistical properties of a tangentially driven active filament

Active polymers play a central role in many biological systems, from bacterial flagella to cellular cytoskeletons. Minimal models of semiflexible active filaments have been used to study a variety of interesting phenomena in active systems, such as defect dynamics in active nematics, clustering and laning in motility assays, and conformational properties of chromatin in eukaryotic cells. In this paper, we map a semiflexible polymer to an exactly solvable active Rouse chain, which enables us to analytically compute configurational and dynamical properties of active polymers with arbitrary rigidity.

cond-mat.soft↗

arXiv2019

Topological structure and dynamics of three dimensional active nematics

Point-like motile topological defects control the universal dynamics of diverse two-dimensional active nematics ranging from shaken granular rods to cellular monolayers. A comparable understanding in higher dimensions has yet to emerge. We report the creation of three-dimensional active nematics by dispersing extensile microtubule bundles in a passive colloidal liquid crystal. Light-sheet microscopy reveals the millimeter-scale structure of active nematics with a single bundle resolution and the temporal evolution of the associated nematic director field. The dominant excitations of three-dimensional active nematics are extended charge-neutral disclination loops that undergo complex dynamics and recombination events. These studies introduce a new class of non-equilibrium systems whose turbulent-like dynamics arises from the interplay between internally generated active stresses, the chaotic flows and the topological structure of the constituent defects.

cond-mat.soft↗

arXiv2019

Response of active Brownian particles to boundary driving

We computationally study the behavior of underdamped active Brownian particles in a sheared channel geometry. Due to their underdamped dynamics, the particles carry momentum a characteristic distance away from the boundary before it is dissipated into the substrate. We correlate this distance with the persistence of particle trajectories, determined jointly by their friction and self-propulsion. Within this characteristic length, we observe new and counterintuitive phenomena stemming from the interplay of activity, interparticle interactions, and the boundary driving. Depending on values of friction and self-propulsion, interparticle interactions can either aid or hinder momentum transport. More dramatically, in certain cases we observe a flow reversal near the wall, which we correlate with an induced polarization of the particle self-propulsion directions. We rationalize these results in terms of a simple kinetic picture of particle trajectories.

cond-mat.soft↗

arXiv2019

Re-enterant efficiency of phototaxis in Chlamydomonas reinhardtii cells

Phototaxis is one of the most fundamental stimulus-response behaviors in biology wherein motile micro-organisms sense light gradients to swim towards the light source. Apart from single cell survival and growth, it plays a major role at the global scale of aquatic ecosystem and bio-reactors. We study photoaxis of single celled algae Chalmydomonas reinhardtii as a function of cell number density and light stimulus using high spatio-temporal video microscopy. Surprisingly, the phototactic efficiency has a minimum at a well-defined number density, for a given light gradient, above which the phototaxis behaviour of collection of cells can even exceed the performance obtainable from single isolated cells. We show that the origin of enhancement of performance above the critical concentration lies in the slowing down of the cells which enables them to sense light more effectively. We also show that this steady state phenomenology is well captured by a modelling the phototactic response as a density dependent torque acting on an active Brownian particle.

cond-mat.soft↗

arXiv2019

Conformational switching of chiral colloidal rafts regulates raft-raft attractions and repulsions

Membrane-mediated particle interactions depend both on the properties of the particles themselves and the membrane environment in which they are suspended. Experiments have shown that chiral rod-like inclusions dissolved in a colloidal membrane of opposite handedness assemble into colloidal rafts, which are finite-sized reconfigurable droplets consisting of a large but precisely defined number of rods. Here, we systematically tune the chirality of the background membrane, and find that in the achiral limit colloidal rafts acquire fundamentally new structural properties and interactions. In particular, rafts can switch between two chiral states of opposite handedness, which dramatically alters the nature of the membrane-mediated raft-raft interactions. Rafts with the same chirality have long-ranged repulsions, while those with opposite chirality acquire attractions with a well-defined minimum. Both attractive and repulsive interactions are explained by a continuum model that accounts for the coupling between the membrane thickness and the local tilt of the constituent rods. These switchable interactions enable assembly of colloidal rafts into intricate higher-order architectures with unusual symmetries, including stable tetrameric clusters and "ionic crystallites" of counter-twisting domains organized on a binary square lattice. Furthermore, the properties of individual rafts, such as their sizes, are controlled by their complexation with other rafts. The emergence of these complex behaviors can be rationalized purely in terms of generic couplings between compositional and orientational order of fluids of rod-like elements. Thus, the uncovered principles might have relevance for conventional lipid bilayers, in which the assembly of higher-order structures is also mediated by complex membrane-mediated interactions.

cond-mat.soft↗

arXiv2018

The interplay between activity and filament flexibility determines the emergent properties of active nematics

Active nematics are microscopically driven liquid crystals that exhibit dynamical steady states characterized by the creation and annihilation of topological defects. Motivated by experimental realizations of such systems made of biopolymer filaments and motor proteins, we describe a large-scale simulation study of a particle-based computational model that explicitly incorporates the semiflexibility of the biopolymers. We find that energy injected into the system at the particle scale preferentially excites bend deformations, renormalizing the filament bend modulus to smaller values. The emergent characteristics of the active nematic depend on activity and flexibility only through this activity-renormalized bend modulus, demonstrating that material parameters such as the Frank `constants' must explicitly depend on activity in a continuum hydrodynamic description of an active nematic. Further, we present a systematic way to estimate these material parameters from observations of deformation fields and defect shapes in experimental or simulation data.

cond-mat.soft↗

arXiv2017

Insensitivity of active nematic dynamics to topological constraints

Confining a liquid crystal imposes topological constraints on the orientational order, allowing global control of equilibrium systems by manipulation of anchoring boundary conditions. In this article, we investigate whether a similar strategy allows control of active liquid crystals. We study a hydrodynamic model of an extensile active nematic confined in containers, with different anchoring conditions that impose different net topological charges on the nematic director. We show that the dynamics are controlled by a complex interplay between topological defects in the director and their induced vortical flows. We find three distinct states by varying confinement and the strength of the active stress: a topologically minimal state, a circulating defect state, and a turbulent state. In contrast to equilibrium systems, we find that anchoring conditions are screened by the active flow, preserving system behavior across different topological constraints. This observation identifies a fundamental difference between active and equilibrium materials.

cond-mat.soft↗

arXiv2017

Noise and diffusion of a vibrated self-propelled granular particle

Granular materials are an important physical realization of active matter. In vibration-fluidized granular matter, both diffusion and self-propulsion derive from the same collisional forcing, unlike many other active systems where there is a clean separation between the origin of single-particle mobility and the coupling to noise. Here we present experimental studies of single-particle motion in a vibrated granular monolayer, along with theoretical analysis that compares grain motion at short and long time scales to the assumptions and predictions, respectively, of the active Brownian particle (ABP) model. The results demonstrate that despite the unique relation between noise and propulsion, granular media do show the generic features predicted by the ABP model and indicate that this is a valid framework to predict collective phenomena. Additionally, our scheme of analysis for validating the inputs and outputs of the model can be applied to other granular and non-granular systems.

cond-mat.soft↗

arXiv2017

Steady-state distributions of ideal active Brownian particles under confinement and forcing

We develop a formally exact technique for obtaining steady-state distributions of non-interacting active Brownian particles in a variety of systems. Our technique draws on results from the theory of two-way diffusion equations to solve the steady-state Smoluchowski equation for the 1-particle distribution function. The methods are employed to study in detail three scenarios: 1) confinement in a channel, 2) a constant flux steady state, and 3) sedimentation in a uniform external field. In each scenario, known behaviors are reproduced and precisely quantified, and new results are presented. In particular, in the constant flux state we derive an effective diffusivity which interpolates between the ballistic behavior of particle trajectories at short distances and their diffusive behavior at large distances. We also calculate the sedimentation profile of active Brownian particles near a wall, which complements earlier studies on the part far from the wall. Our techniques easily generalize to other active models, including systems whose activity is modeled in terms of Gaussian colored noise.

cond-mat.soft↗

arXiv2017

Statistical Mechanics and Hydrodynamics of Self-Propelled Hard Spheres

Starting from a microscopic model of self-propelled hard spheres we use tools of non-equilibrium statistical mechanics and the kinetic theory of hard spheres to derive a Smoluchowski equation for interacting Active Brownian particles. We illustrate the utility of the statistical mechanics framework developed with two applications. First, we derive the steady state pressure of the hard sphere active fluid in terms of the microscopic parameters and second, we identify the critical density for the onset of motility-induced phase separation in this system. We show that both these quantities agree well with overdamped simulations of active Brownian particles with excluded volume interactions given by steeply repulsive potentials. The results presented here can be used to incorporate excluded volume effects in diverse models of self-propelled particles.

cond-mat.stat-mech↗

arXiv2016

Equilibrium mappings in polar-isotropic confined active particles

Despite their fundamentally non-equilibrium nature, the individual and collective behavior of active systems with polar propulsion and isotropic interactions (polar-isotropic active systems) are remarkably well captured by equilibrium mapping techniques. Here we examine two signatures of equilibrium systems -- the existence of a local free energy function and the independence of the coarse- grained behavior on the details of the microscopic dynamics -- in polar-isotropic active particles confined by hard walls of arbitrary geometry at the one-particle level. We find that boundaries that possess concave regions make the density profile strongly dynamics-dependent and give it a nonlocal dependence on the geometry of the confining box. This in turn constrains the scope of equilibrium mapping techniques in polar-isotropic active systems.

cond-mat.soft↗

arXiv2016

A classical nucleation theory description of active colloid assembly

Non-aligning self-propelled particles with purely repulsive excluded volume interactions undergo athermal motility-induced phase separation into a dilute gas and a dense cluster phase. Here, we use enhanced sampling computational methods and analytic theory to examine the kinetics of formation of the dense phase. Despite the intrinsically nonequilibrium nature of the phase transition, we show that the kinetics can be described using an approach analogous to equilibrium classical nucleation theory, governed by an effective free energy of cluster formation with identifiable bulk and surface terms. The theory captures the location of the binodal, nucleation rates as a function of supersaturation, and the cluster size distributions below the binodal, while discrepancies in the metastable region reveal additional physics about the early stages of active crystal formation. The success of the theory shows that a framework similar to equilibrium thermodynamics can be obtained directly from the microdynamics of an active system, and can be used to describe the kinetics of evolution toward nonequilibrium steady states.

cond-mat.soft↗

arXiv2016

Theory of microphase separation in bidisperse chiral membranes

We present a Ginzburg-Landau theory of micro phase separation in a bidisperse chiral membrane consisting of rods of opposite handendness. This model system undergoes a phase transition from an equilibrium state where the two components are completely phase separated to a microphase separated state composed of domains of a finite size comparable to the twist penetration depth. Characterizing the phenomenology using linear stability analysis and numerical studies, we trace the origin of the discontinuous change in domain size that occurs during this to a competition between the cost of creating an interface and the gain in twist energy for small domains in which the twist penetrates deep into the center of the domain.

cond-mat.soft↗

arXiv2016

Emergent Self-organization in Active Materials

Biological systems exhibit large-scale self-organized dynamics and structures which enable organisms to perform the functions of life. The field of active matter strives to develop and understand microscopically-driven nonequilibrium materials, with emergent properties comparable to those of living systems. This review will describe two recently developed classes of active matter systems, in which simple building blocks --- self-propelled colloidal particles or extensile rod-like particles --- self-organize to form macroscopic structures with features not possible in equilibrium systems. We summarize the recent experimental and theoretical progress on each of these systems, and we present simple descriptions of the physics underlying their emergent behaviors.

cond-mat.soft↗

arXiv2016

Active Particles on Curved Surfaces

Recent studies have highlighted the sensitivity of active matter to boundaries and their geometries. Here we develop a general theory for the dynamics and statistics of active particles on curved surfaces and illustrate it on two examples. We first show that active particles moving on a surface with no ability to probe its curvature only exhibit steady-state inhomogeneities in the presence of orientational order. We then consider a strongly confined 3D ideal active gas and compute its steady-state density distribution in a box of arbitrary convex shape.

cond-mat.soft↗

arXiv2016

Dynamics and density distribution of strongly confined noninteracting nonaligning self-propelled particles in a nonconvex boundary

We study the dynamics of non-aligning, non-interacting self-propelled particles confined to a box in two dimensions. In the strong confinement limit, when the persistence length of the active particles is much larger than the size of the box, particles stay on the boundary and align with the local boundary normal. It is then possible to derive the steady-state density on the boundary for arbitrary box shapes. In non-convex boxes, the non-uniqueness of the boundary normal results in hysteretic dynamics and the density is non-local, i.e. it depends on the global geometry of the box. These findings establish a general connection between the geometry of a confining box and the behavior of an ideal active gas it confines, thus providing a powerful tool to understand and design such confinements.

cond-mat.soft↗

arXiv2015

Comparison between Smoluchowski and Boltzmann approaches for self-propelled rods

Considering systems of self-propelled polar particles with nematic interactions ("rods"), we compare the continuum equations describing the evolution of polar and nematic order parameters, derived either from Smoluchowski or Boltzmann equations. Our main goal is to understand the discrepancies between the continuum equations obtained so far in both frameworks. We first show that in the simple case of point-like particles with only alignment interactions, the continuum equations obtained have the same structure in both cases. We further study, in the Smoluchowski framework, the case where an interaction force is added on top of the aligning torque. This clarifies the origin of the additional terms obtained in previous works. Our observations lead us to emphasize the need for a more involved closure scheme than the standard normal form of the distribution when dealing with active systems.

cond-mat.stat-mech↗