The asymmetric Exclusion Process and Brownian Excursions

We consider the totally asymmetric exclusion process (TASEP) in one dimension in its maximal current phase. We show, by an exact calculation, that the non-Gaussian part of the fluctuations of density can be described in terms of the statistical properties of a Brownian excursion. Numerical simulations indicate that the description in terms of a Brownian excursion remains valid for more general one dimensional driven systems in their maximal current phase.Comment: 23 pages, 1 figure, in latex, e-mail addresses: [email protected], [email protected], [email protected]

Large deviation functional of the weakly asymmetric exclusion process

We obtain the large deviation functional of a density profile for the asymmetric exclusion process of L sites with open boundary conditions when the asymmetry scales like 1/L. We recover as limiting cases the expressions derived recently for the symmetric (SSEP) and the asymmetric (ASEP) cases. In the ASEP limit, the non linear differential equation one needs to solve can be analysed by a method which resembles the WKB method

Fluctuations in the weakly asymmetric exclusion process with open boundary conditions

accepted in Journal of Statistical PhysicsWe investigate the fluctuations around the average density profile in the weakly asymmetric exclusion process with open boundaries in the steady state. We show that these fluctuations are given, in the macroscopic limit, by a centered Gaussian field and we compute explicitly its covariance function. We use two approaches. The first method is dynamical and based on fluctuations around the hydrodynamic limit. We prove that the density fluctuations evolve macroscopically according to an autonomous stochastic equation, and we search for the stationary distribution of this evolution. The second approach, which is based on a representation of the steady state as a sum over paths, allows one to write the density fluctuations in the steady state as a sum over two independent processes, one of which is the derivative of a Brownian motion, the other one being related to a random path in a potential

Action functional and quasi-potential for the Burgers equation in a bounded interval

Consider the viscous Burgers equation $u_t + f(u)_x = \epsilon\, u_{xx}$ on the interval $[0,1]$ with the inhomogeneous Dirichlet boundary conditions $u(t,0) = \rho_0$, $u(t,1) = \rho_1$. The flux $f$ is the function $f(u)= u(1-u)$, $\epsilon>0$ is the viscosity, and the boundary data satisfy $0<\rho_0<\rho_1<1$. We examine the quasi-potential corresponding to an action functional, arising from non-equilibrium statistical mechanical models, associated to the above equation. We provide a static variational formula for the quasi-potential and characterize the optimal paths for the dynamical problem. In contrast with previous cases, for small enough viscosity, the variational problem defining the quasi potential admits more than one minimizer. This phenomenon is interpreted as a non-equilibrium phase transition and corresponds to points where the super-differential of the quasi-potential is not a singleton

Work and heat probability distributions in out-of-equilibrium systems

We review and discuss the equations governing the distribution of work done on a system which is driven out of equilibrium by external manipulation, as well as those governing the entropy flow to a reservoir in a nonequilibrium system. We take advantage of these equations to investigate the path phase transition in a manipulated mean-field Ising model and the large-deviation function for the heat flow in the asymmetric exclusion process with periodically varying transition probabilities.Comment: Contribution to Proceedings of "Work, Dissipation, and Fluctuations in Nonequilibrium Physics", Brussels, 200

Sample-Dependent Phase Transitions in Disordered Exclusion Models

We give numerical evidence that the location of the first order phase transition between the low and the high density phases of the one dimensional asymmetric simple exclusion process with open boundaries becomes sample dependent when quenched disorder is introduced for the hopping rates.Comment: accepted in Europhysics Letter

Phase diagram and edge effects in the ASEP with bottlenecks

We investigate the totally asymmetric simple exclusion process (TASEP) in the presence of a bottleneck, i.e. a sequence of consecutive defect sites with reduced hopping rate. The influence of such a bottleneck on the phase diagram is studied by computer simulations and a novel analytical approach. We find a clear dependence of the current and the properties of the phase diagram not only on the length of the bottleneck, but also on its position. For bottlenecks near the boundaries, this motivates the concept of effective boundary rates. Furthermore the inclusion of a second, smaller bottleneck far from the first one has no influence on the transport capacity. These results will form the basis of an effective description of the disordered TASEP and are relevant for the modelling of protein synthesis or intracellular transport systems where the motion of molecular motors is hindered by immobile blocking molecules.Comment: accepted by Physica

Single-Bottleneck Approximation for Driven Lattice Gases with Disorder and Open Boundary Conditions

We investigate the effects of disorder on driven lattice gases with open boundaries using the totally asymmetric simple exclusion process as a paradigmatic example. Disorder is realized by randomly distributed defect sites with reduced hopping rate. In contrast to equilibrium, even macroscopic quantities in disordered non-equilibrium systems depend sensitively on the defect sample. We study the current as function of the entry and exit rates and the realization of disorder and find that it is, in leading order, determined by the longest stretch of consecutive defect sites (single-bottleneck approximation, SBA). Using results from extreme value statistics the SBA allows to study ensembles with fixed defect density which gives accurate results, e.g. for the expectation value of the current. Corrections to SBA come from effective interactions of bottlenecks close to the longest one. Defects close to the boundaries can be described by effective boundary rates and lead to shifts of the phase transitions. Finally it is shown that the SBA also works for more complex models. As an example we discuss a model with internal states that has been proposed to describe transport of the kinesin KIF1A.Comment: submitted to J. Stat. Mec

Driven Diffusive Systems with Disorder

We discuss recent work on the static and dynamical properties of the asymmetric exclusion process, generalized to include the effect of disorder. We study in turn: random disorder in the properties of particles; disorder in the spatial distribution of transition rates, both with a single easy direction and with random reversals of the easy direction; dynamical disorder, where particles move in a disordered landscape which itself evolves in time. In every case, the system exhibits phase separation; in some cases, it is of an unusual sort. The time-dependent properties of density fluctuations are in accord with the kinematic wave criterion that the dynamical universality class is unaffected by disorder if the kinematic wave velocity is nonzero.Comment: To appear in Physica A, Proc. of International Workshop on Common Trends in Traffic Systems (IIT, Kanpur,2006

The gut-lung axis in the CFTR modulator era

The advent of CFTR modulators represents a turning point in the history of cystic fibrosis (CF) management, changing profoundly the disease’s clinical course by improving mucosal hydration. Assessing changes in airway and digestive tract microbiomes is of great interest to better understand the mechanisms and to predict disease evolution. Bacterial and fungal dysbiosis have been well documented in patients with CF; yet the impact of CFTR modulators on microbial communities has only been partially deciphered to date. In this review, we aim to summarize the current state of knowledge regarding the impact of CFTR modulators on both pulmonary and digestive microbiomes. Our analysis also covers the inter-organ connections between lung and gut communities, in order to highlight the gut-lung axis involvement in CF pathophysiology and its evolution in the era of novel modulators therapies