Metastability of Discrete-Symmetry Flocks.

We study the stability of the ordered phase of flocking models with a scalar order parameter. Using both the active Ising model and a hydrodynamic description, we show that droplets of particles moving in the direction opposite to that of the ordered phase nucleate and grow. We characterize analytically this self-similar growth and demonstrate that droplets spread ballistically in all directions. Our results imply that, in the thermodynamic limit, discrete-symmetry flocks-and, by extension, continuous-symmetry flocks with rotational anisotropy-are metastable in all dimensions.

Passive objects in confined active fluids: A localization transition.

We study how walls confining active fluids interact with asymmetric passive objects placed in their bulk. We show that the objects experience nonconservative long-ranged forces mediated by the active bath. To leading order, these forces can be computed using a generalized image theorem. The walls repel asymmetric objects, irrespective of their microscopic properties or their orientations. For circular cavities, we demonstrate how this may lead to the localization of asymmetric objects in the center of the cavity, something impossible for symmetric ones.

Anomalous Transport of Tracers in Active Baths.

We derive the long-time dynamics of a tracer immersed in a one-dimensional active bath. In contrast to previous studies, we find that the damping and noise correlations possess long-time tails with exponents that depend on the tracer symmetry. For generic tracers, shape asymmetry induces ratchet effects that alter fluctuations and lead to superdiffusion and friction that grows with time when the tracer is dragged at a constant speed. In the singular limit of a completely symmetric tracer, we recover normal diffusion and finite friction. Furthermore, for small symmetric tracers, the active contribution to the friction becomes negative: active particles enhance motion rather than oppose it. These results show that, in low-dimensional systems, the motion of a passive tracer in an active bath cannot be modeled as a persistent random walker with a finite correlation time.

Long-Range Influence of a Pump on a Critical Fluid.

A pump coupled to a conserved density generates long-range modulations, resulting from the non-equilibrium nature of the dynamics. We study how these modulations are modified at the critical point where the system exhibits intrinsic long-range correlations. To do so, we consider a pump in a diffusive fluid, which is known to generate a density profile in the form of an electric dipole potential and a current in the form of a dipolar field above the critical point. We demonstrate that while the current retains its form at the critical point, the density profile changes drastically. At criticality, in d<4 dimensions, the deviation of the density from the average is given by sgn[cos(θ)]|cos(θ)/r^{(d-1)}|^{1/δ} at large distance r from the pump and angle θ with respect to the pump's orientation. At short distances, there is a crossover to a cos(θ)/r^{d-3+η} profile. Here δ and η are Ising critical exponents. The effect of the local pump on the domain wall structure below the critical point is also considered.

Disordered boundaries destroy bulk phase separation in scalar active matter.

We show that disordered boundaries destroy bulk phase separation in scalar active systems in dimension d

Disorder-Induced Long-Ranged Correlations in Scalar Active Matter.

We study the impact of quenched random potentials and torques on scalar active matter. Microscopic simulations reveal that motility-induced phase separation is replaced in two dimensions by an asymptotically homogeneous phase with anomalous long-ranged correlations and nonvanishing steady-state currents. Using a combination of phenomenological models and a field-theoretical treatment, we show the existence of a lower-critical dimension d_{c}=4, below which phase separation is only observed for systems smaller than an Imry-Ma length scale. We identify a weak-disorder regime in which the structure factor scales as S(q)∼1/q^{2}, which accounts for our numerics. In d=2, we predict that, at larger scales, the behavior should cross over to a strong-disorder regime. In d>2, these two regimes exist separately, depending on the strength of the potential.

Active Trap Model.

Motivated by the dynamics of particles embedded in active gels, both in vitro and inside the cytoskeleton of living cells, we study an active generalization of the classical trap model. We demonstrate that activity leads to dramatic modifications in the diffusion compared to the thermal case: the mean square displacement becomes subdiffusive, spreading as a power law in time, when the trap depth distribution is a Gaussian and is slower than any power law when it is drawn from an exponential distribution. The results are derived for a simple, exactly solvable, case of harmonic traps. We then argue that the results are robust for more realistic trap shapes when the activity is strong.

Ramifications of disorder on active particles in one dimension.

The effects of quenched disorder on a single and many active run-and-tumble particles are studied in one dimension. For a single particle, we consider both the steady-state distribution and the particle's dynamics subject to disorder in three parameters: a bounded external potential, the particle's speed, and its tumbling rate. We show that in the case of a disordered potential, the behavior is like an equilibrium particle diffusing on a random force landscape, implying a dynamics that is logarithmically slow in time. In the situations of disorder in the speed or tumbling rate, we find that the particle generically exhibits diffusive motion, although particular choices of the disorder may lead to anomalous diffusion. Based on the single-particle results, we find that in a system with many interacting particles, disorder in the potential leads to strong clustering. We characterize the clustering in two different regimes depending on the system size and show that the mean cluster size scales with the system size, in contrast to nondisordered systems.

Generalized thermodynamics of phase equilibria in scalar active matter.

Motility-induced phase separation (MIPS) arises generically in fluids of self-propelled particles when interactions lead to a kinetic slowdown at high densities. Starting from a continuum description of scalar active matter akin to a generalized Cahn-Hilliard equation, we give a general prescription for the mean densities of coexisting phases in flux-free steady states that amounts, at a hydrodynamics scale, to extremizing an effective free energy. We illustrate our approach on two well-known models: self-propelled particles interacting either through a density-dependent propulsion speed or via direct pairwise forces. Our theory accounts quantitatively for their phase diagrams, providing a unified description of MIPS.

Generic Long-Range Interactions Between Passive Bodies in an Active Fluid.

A single nonspherical body placed in an active fluid generates currents via breaking of time-reversal symmetry. We show that, when two or more passive bodies are placed in an active fluid, these currents lead to long-range interactions. Using a multipole expansion, we characterize their leading-order behaviors in terms of single-body properties and show that they decay as a power law with the distance between the bodies, are anisotropic, and do not obey an action-reaction principle. The interactions lead to rich dynamics of the bodies, illustrated by the spontaneous synchronized rotation of pinned nonchiral bodies and the formation of traveling bound pairs. The occurrence of these phenomena depends on tunable properties of the bodies, thus opening new possibilities for self-assembly mediated by active fluids.

Dynamical Symmetry Breaking and Phase Transitions in Driven Diffusive Systems.

We study the probability distribution of a current flowing through a diffusive system connected to a pair of reservoirs at its two ends. Sufficient conditions for the occurrence of a host of possible phase transitions both in and out of equilibrium are derived. These transitions manifest themselves as singularities in the large deviation function, resulting in enhanced current fluctuations. Microscopic models which implement each of the scenarios are presented, with possible experimental realizations. Depending on the model, the singularity is associated either with a particle-hole symmetry breaking, which leads to a continuous transition, or in the absence of the symmetry with a first-order phase transition. An exact Landau theory which captures the different singular behaviors is derived.

Active Particles with Soft and Curved Walls: Equation of State, Ratchets, and Instabilities.

We study, from first principles, the pressure exerted by an active fluid of spherical particles on general boundaries in two dimensions. We show that, despite the nonuniform pressure along curved walls, an equation of state is recovered upon a proper spatial averaging. This holds even in the presence of pairwise interactions between particles or when asymmetric walls induce ratchet currents, which are accompanied by spontaneous shear stresses on the walls. For flexible obstacles, the pressure inhomogeneities lead to a modulational instability as well as to the spontaneous motion of short semiflexible filaments. Finally, we relate the force exerted on objects immersed in active baths to the particle flux they generate around them.

Fluctuation-Induced Forces in Nonequilibrium Diffusive Dynamics.

Fluctuations in nonequilibrium steady states generically lead to power law decay of correlations for conserved quantities. Embedded bodies which constrain fluctuations, in turn, experience fluctuation induced forces. We compute these forces for the simple case of parallel slabs in a driven diffusive system. Our model calculations show that the force falls off with slab separation d as kBT/d (at temperature T, and in all spatial dimensions) but can be attractive or repulsive. Unlike the equilibrium Casimir force, the force amplitude is nonuniversal and explicitly depends on dynamics. The techniques introduced can be used to study pressure and fluctuation induced forces in a broad class of nonequilibrium systems.

Pressure and phase equilibria in interacting active brownian spheres.

We derive a microscopic expression for the mechanical pressure P in a system of spherical active Brownian particles at density ρ. Our exact result relates P, defined as the force per unit area on a bounding wall, to bulk correlation functions evaluated far away from the wall. It shows that (i) P(ρ) is a state function, independent of the particle-wall interaction; (ii) interactions contribute two terms to P, one encoding the slow-down that drives motility-induced phase separation, and the other a direct contribution well known for passive systems; and (iii) P is equal in coexisting phases. We discuss the consequences of these results for the motility-induced phase separation of active Brownian particles and show that the densities at coexistence do not satisfy a Maxwell construction on P.

Chemotaxis when bacteria remember: drift versus diffusion.

Escherichia coli (E. coli) bacteria govern their trajectories by switching between running and tumbling modes as a function of the nutrient concentration they experienced in the past. At short time one observes a drift of the bacterial population, while at long time one observes accumulation in high-nutrient regions. Recent work has viewed chemotaxis as a compromise between drift toward favorable regions and accumulation in favorable regions. A number of earlier studies assume that a bacterium resets its memory at tumbles - a fact not borne out by experiment - and make use of approximate coarse-grained descriptions. Here, we revisit the problem of chemotaxis without resorting to any memory resets. We find that when bacteria respond to the environment in a non-adaptive manner, chemotaxis is generally dominated by diffusion, whereas when bacteria respond in an adaptive manner, chemotaxis is dominated by a bias in the motion. In the adaptive case, favorable drift occurs together with favorable accumulation. We derive our results from detailed simulations and a variety of analytical arguments. In particular, we introduce a new coarse-grained description of chemotaxis as biased diffusion, and we discuss the way it departs from older coarse-grained descriptions.

Ion transport through confined ion channels in the presence of immobile charges.

We study charge transport in an ionic solution in a confined nanoscale geometry in the presence of an externally applied electric field and immobile background charges. For a range of parameters, the ion current shows nonmonotonic behavior as a function of the external ion concentration. For small applied electric field, the ion transport can be understood from simple analytic arguments, which are supported by Monte Carlo simulations. The results qualitatively explain measurements of ion current seen in a recent experiment on ion transport through a DNA-threaded nanopore [D. J. Bonthuis, Phys. Rev. Lett, 97, 128104 (2006)].

Tug of war in motility assay experiments.

The dynamics of two groups of molecular motors pulling in opposite directions on a rigid filament is studied theoretically. To this end we first consider the behavior of one set of motors pulling in a single direction against an external force using a new mean-field approach. Based on these results we analyze a similar setup with two sets of motors pulling in opposite directions in a tug of war in the presence of an external force. In both cases we find that the interplay of fluid friction and protein friction leads to a complex phase diagram where the force-velocity relations can exhibit regions of bistability and spontaneous symmetry breaking. Finally, motivated by recent work, we turn to the case of motility assay experiments where motors bound to a surface push on a bundle of filaments. We find that, depending on the absence or the presence of bistability in the force-velocity curve at zero force, the bundle exhibits anomalous or biased diffusion on long-time and large-length scales.

The effects of intersegmental transfers on target location by proteins.

We study a model of protein searching for a target, using facilitated diffusion, on a DNA molecule confined in a finite volume. The model includes three distinct pathways for facilitated diffusion: (a) sliding--in which the protein diffuses along the contour of the DNA, (b) jumping--where the protein travels between two sites along the DNA by three-dimensional diffusion and finally (c) intersegmental transfer--which allows the protein to move from one site to another by transiently binding both at the same time. The typical search time is calculated using scaling arguments which are verified numerically. Our results suggest that the inclusion of intersegmental transfer (i) decreases the search time considerably, (ii) makes the search time much more robust to variations in the parameters of the model and (iii) that the optimal search time occurs in a regime very different than that found for models which ignore intersegmental transfers. The behavior we find is rich and shows surprising dependences, for example on the DNA length.

Steady-state chemotaxis in Escherichia coli.

The bacterium E. coli maneuvers itself to regions with high chemoattractant concentrations by performing two stereotypical moves: "runs," in which it moves in near-straight lines, and "tumbles," in which it does not advance but changes direction randomly. The duration of each move is stochastic and depends upon the chemoattractant concentration experienced in the recent past. We relate this stochastic behavior to the steady-state density of a bacterium population, and we derive the latter as a function of chemoattractant concentration. In contrast to earlier treatments, here we account for the effects of temporal correlations and variable tumbling durations. A range of behaviors is obtained that depends subtly upon several aspects of the system -- memory, correlation, and tumbling stochasticity, in particular.

Nonequilibrium fluctuation theorems in the presence of local heating.

We study two nonequilibrium work fluctuation theorems, the Crooks theorem and the Jarzynski equality, for a test system coupled to a spatially extended heat reservoir whose degrees of freedom are explicitly modeled. The sufficient conditions for the validity of the theorems are discussed in detail and compared to the case of classical Hamiltonian dynamics. When the conditions are met the fluctuation theorems are shown to hold despite the fact that the immediate vicinity of the test system goes out of equilibrium during an irreversible process. We also study the effect of the coupling to the heat reservoir on the convergence of {exp(-betaW) to its theoretical mean value, where W is the work done on the test system and beta is the inverse temperature. It is shown that the larger the local heating, the slower the convergence.