Thermodynamic Bounds on Symmetry Breaking in Linear and Catalytic Biochemical Systems

Abstract

Living systems are maintained out-of-equilibrium by external driving forces. At stationarity, they exhibit emergent selection phenomena that break equilibrium symmetries and originate from the expansion of the accessible chemical space due to non-equilibrium conditions. Here, we use the matrix-tree theorem to derive upper and lower thermodynamic bounds on these symmetry-breaking features in linear and catalytic biochemical systems. Our bounds are independent of the kinetics and hold for both closed and open reaction networks. We also extend our results to master equations in the chemical space. Using our framework, we recover the thermodynamic constraints in kinetic proofreading. Finally, we show that the contrast of reaction-diffusion patterns can be bounded only by the non-equilibrium driving force. Our results provide a general framework for understanding the role of non-equilibrium conditions in shaping the steady-state properties of biochemical systems.

References in corpus (27)

• Double-slit photoelectron interference in strong-field ionization of the neon dimer
• Thermodynamic uncertainty relation for biomolecular processes
• Statistical mechanics for natural flocks of birds
• Turing patterns in network-organized activator-inhibitor systems
• Turing patterns on networks
• Nonequilibrium Physics in Biology
• Turing patterns in multiplex networks
• Stochastic Turing patterns in the Brusselator model
• Local detailed balance
• Effective thermodynamics for a marginal observer
• Information Thermodynamics of Turing Patterns
• Onsager-Machlup theory for nonequilibrium steady states and fluctuation theorems
• Phase-space geometry of mass-conserving reaction-diffusion dynamics
• Thermodynamics of Error Correction
• Nonequilibrium sensing and its analogy to kinetic proofreading
• Universal thermodynamic bounds on nonequilibrium response with biochemical applications
• Minimum dissipation principle in stationary non equilibrium states
• Thermodynamics of computations with absolute irreversibility, unidirectional transitions, and stochastic computation times
• Heat bounds and the blowtorch theorem
• Autocatalysis in Reaction Networks
• Inverse spin glass and related maximum entropy problems
• Shortcuts in stochastic systems and control of biophysical processes
• Trees and forests for nonequilibrium purposes: an introduction to graphical representations
• The intrinsic non-equilibrium nature of thermophoresis
• Thermodynamic bounds on time-reversal asymmetry
• Thermodynamic bounds on the ultra- and infra-affinity of Hsp70 for its substrates
• Frenetic steering in a nonequilibrium graph

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• Framework for fluctuating times and counting observables in stochastic excursions
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