Non-equilibrium stationary state of a two-temperature spin chain

A kinetic one-dimensional Ising model is coupled to two heat baths, such that spins at even (odd) lattice sites experience a temperature $T_{e}$ ($$). Spin flips occur with Glauber-type rates generalised to the case of two temperatures. Driven by the temperature differential, the spin chain settles into a non-equilibrium steady state which corresponds to the stationary solution of a master equation. We construct a perturbation expansion of this master equation in terms of the temperature difference and compute explicitly the first two corrections to the equilibrium Boltzmann distribution. The key result is the emergence of additional spin operators in the steady state, increasing in spatial range and order of spin products. We comment on the violation of detailed balance and entropy production in the steady state.Comment: 11 pages, 1 figure, Revte

Driven lattice glass as a ratchet and pawl machine

Boundary-induced transport in particle systems with anomalous diffusion exhibits rectification, negative resistance, and hysteresis phenomena depending on the way the drive acts on the boundary. The solvable case of a 1D system characterized by a power-law diffusion coefficient and coupled to two particles reservoirs at different chemical potential is examined. In particular, it is shown that a microscopic realisation of such a diffusion model is provided by a 3D driven lattice-gas with kinetic constraints, in which energy barriers are absent and the local microscopic reversibility holds.Comment: 12 pages, 4 figures, minor change

Fluctuation theorems for stochastic dynamics

Fluctuation theorems make use of time reversal to make predictions about entropy production in many-body systems far from thermal equilibrium. Here we review the wide variety of distinct, but interconnected, relations that have been derived and investigated theoretically and experimentally. Significantly, we demonstrate, in the context of Markovian stochastic dynamics, how these different fluctuation theorems arise from a simple fundamental time-reversal symmetry of a certain class of observables. Appealing to the notion of Gibbs entropy allows for a microscopic definition of entropy production in terms of these observables. We work with the master equation approach, which leads to a mathematically straightforward proof and provides direct insight into the probabilistic meaning of the quantities involved. Finally, we point to some experiments that elucidate the practical significance of fluctuation relations.Comment: 48 pages, 2 figures. v2: minor changes for consistency with published versio

Non-equilibrium work relations

This is a brief review of recently derived relations describing the behaviour of systems far from equilibrium. They include the Fluctuation Theorem, Jarzynski's and Crooks' equalities, and an extended form of the Second Principle for general steady states. They are very general and their proofs are, in most cases, disconcertingly simple.Comment: Brief Summer School Lecture Note

On the relation between event-based and time-based current statistics

Current statistics can be calculated in various ways. Event-based approaches use the statistics of the number of events occuring during a given time. Time-based approaches use the statistics of the time needed to reach a given number of events. By analyzing normal as well as anomalous statistics of nonequilibrium currents through a two level system in contact with two different reservoirs, we investigate the conditions under which these different statistics do or do not yield identical predictions. We rely on the continuous time random walk formulation introduced in our earlier work [Phys. Rev. E 77, 051119 (2008)].Comment: 4 pages, 1 figure; v2: accepted in EPL 89, 10008 (2010

Nonequilibrium thermodynamics as a gauge theory

We assume that markovian dynamics on a finite graph enjoys a gauge symmetry under local scalings of the probability density, derive the transformation law for the transition rates and interpret the thermodynamic force as a gauge potential. A widely accepted expression for the total entropy production of a system arises as the simplest gauge-invariant completion of the time derivative of Gibbs's entropy. We show that transition rates can be given a simple physical characterization in terms of locally-detailed-balanced heat reservoirs. It follows that Clausius's measure of irreversibility along a cyclic transformation is a geometric phase. In this picture, the gauge symmetry arises as the arbitrariness in the choice of a prior probability. Thermostatics depends on the information that is disposable to an observer; thermodynamics does not.Comment: 6 pages. Non-fatal errors in eq.(6), eq.(26) and eq.(31) have been amende

A resource of genome-wide single-nucleotide polymorphisms generated by RAD tag sequencing in the critically endangered European eel

Reduced representation genome sequencing such as restriction-site-associated DNA (RAD) sequencing is finding increased use to identify and genotype large numbers of single-nucleotide polymorphisms (SNPs) in model and nonmodel species. We generated a unique resource of novel SNP markers for the European eel using the RAD sequencing approach that was simultaneously identified and scored in a genome-wide scan of 30 individuals. Whereas genomic resources are increasingly becoming available for this species, including the recent release of a draft genome, no genome-wide set of SNP markers was available until now. The generated SNPs were widely distributed across the eel genome, aligning to 4779 different contigs and 19 703 different scaffolds. Significant variation was identified, with an average nucleotide diversity of 0.00529 across individuals. Results varied widely across the genome, ranging from 0.00048 to 0.00737 per locus. Based on the average nucleotide diversity across all loci, long-term effective population size was estimated to range between 132 000 and 1 320 000, which is much higher than previous estimates based on microsatellite loci. The generated SNP resource consisting of 82 425 loci and 376 918 associated SNPs provides a valuable tool for future population genetics and genomics studies and allows for targeting specific genes and particularly interesting regions of the eel genome

First-order dynamical phase transition in models of glasses: an approach based on ensembles of histories

We investigate the dynamics of kinetically constrained models of glass formers by analysing the statistics of trajectories of the dynamics, or histories, using large deviation function methods. We show that, in general, these models exhibit a first-order dynamical transition between active and inactive dynamical phases. We argue that the dynamical heterogeneities displayed by these systems are a manifestation of dynamical first-order phase coexistence. In particular, we calculate dynamical large deviation functions, both analytically and numerically, for the Fredrickson-Andersen model, the East model, and constrained lattice gas models. We also show how large deviation functions can be obtained from a Landau-like theory for dynamical fluctuations. We discuss possibilities for similar dynamical phase-coexistence behaviour in other systems with heterogeneous dynamics.Comment: 29 pages, 7 figs, final versio

Time dependence of breakdown in a global fiber-bundle model with continuous damage

A time-dependent global fiber-bundle model of fracture with continuous damage is formulated in terms of a set of coupled non-linear differential equations. A first integral of this set is analytically obtained. The time evolution of the system is studied by applying a discrete probabilistic method. Several results are discussed emphasizing their differences with the standard time-dependent model. The results obtained show that with this simple model a variety of experimental observations can be qualitatively reproduced.Comment: APS style, two columns, 4 figures. To appear in Phys. Rev.

Linear response theory and transient fluctuation theorems for diffusion processes: a backward point of view

On the basis of perturbed Kolmogorov backward equations and path integral representation, we unify the derivations of the linear response theory and transient fluctuation theorems for continuous diffusion processes from a backward point of view. We find that a variety of transient fluctuation theorems could be interpreted as a consequence of a generalized Chapman-Kolmogorov equation, which intrinsically arises from the Markovian characteristic of diffusion processes