Mechano-chemical coupling in Belousov-Zhabotinskii reactions

Significance of non-normality-induced patterns: Transient growth versus asymptotic stability

Reaction-diffusion models following the original idea of Turing are widely applied to study the propensity of a system to develop a pattern. To this end, an asymptotic analysis is typically performed via the so-called dispersion relation that relates the spectral properties of a spatial operator (diffusion) to the temporal behaviour of the whole initial-boundary value reaction-diffusion problem. Here, we amend this approach by studying the transient growth due to non-normality that can also lead to a pattern development in non-linear systems. We conclude by identification of the significance of this transient growth and by assessing the plausibility of the standard spectral approach. Particularly, the non-normality-induced patterns are possible but require fine parameter tuning.

Entropy production in mesoscopic stochastic thermodynamics: nonequilibrium kinetic cycles driven by chemical potentials, temperatures, and mechanical forces

Nonequilibrium thermodynamics (NET) investigates processes in systems out of global equilibrium. On a mesoscopic level, it provides a statistical dynamic description of various complex phenomena such as chemical reactions, ion transport, diffusion, thermochemical, thermomechanical and mechanochemical fluxes. In the present review, we introduce a mesoscopic stochastic formulation of NET by analyzing entropy production in several simple examples. The fundamental role of nonequilibrium steady-state cycle kinetics is emphasized. The statistical mechanics of Onsager's reciprocal relations in this context is elucidated. Chemomechanical, thermomechanical, and enzyme-catalyzed thermochemical energy transduction processes are discussed. It is argued that mesoscopic stochastic NET in phase space provides a rigorous mathematical basis of fundamental concepts needed for understanding complex processes in chemistry, physics and biology. This theory is also relevant for nanoscale technological advances.

Reductions and extensions in mesoscopic dynamics

Reduction of a mesoscopic level to a level with fewer details is made by the time evolution during which the entropy increases. An extension of a mesoscopic level is a construction of a level with more details. In particular, we discuss extensions in which extra state variables are found in the vector fields appearing on the level that we want to extend. Reductions, extensions, and compatibility relations among them are formulated first in an abstract setting and then illustrated in specific mesoscopic theories.

Time reversal in nonequilibrium thermodynamics

The general equation of nonequilibrium reversible-irreversible coupling (GENERIC) is studied in light of time-reversal transformation. It is shown that Onsager-Casimir reciprocal relations are implied by GENERIC in the near-equilibrium regime. A general structure which gives the reciprocal relations but which is valid also far from equilibrium is identified, and Onsager-Casimir reciprocal relations are generalized to far-from-equilibrium regime in this sense. Moreover, reversibility and irreversibility are carefully discussed and the results are illustrated in Hamiltonian dynamics, classical hydrodynamics, classical irreversible thermodynamics, the quantum master equation, and the Boltzmann equation.