Thermodynamics of concentration vs flux control in chemical reaction networks.

@article{Avanzini2022ThermodynamicsOC,
  title={Thermodynamics of concentration vs flux control in chemical reaction networks.},
  author={Francesco Avanzini and Massimiliano Esposito},
  journal={The Journal of chemical physics},
  year={2022},
  volume={156 1},
  pages={
          014116
        }
}
We investigate the thermodynamic implications of two control mechanisms of open chemical reaction networks. The first controls the concentrations of the species that are exchanged with the surroundings, while the other controls the exchange fluxes. We show that the two mechanisms can be mapped one into the other and that the thermodynamic theories usually developed in the framework of concentration control can be applied to flux control as well. This implies that the thermodynamic potential andโ€ฆย 

Figures from this paper

Interplay of energy, dissipation, and error in kinetic proofreading: Control via concentration and binding energy
Kinetic proofreading mechanisms explain the extraordinary accuracy observed in central biological events in terms of the enhanced specificity of substrate selection networks under a nonequilibriumโ€ฆ

References

SHOWING 1-10 OF 48 REFERENCES
Irreversible thermodynamics of open chemical networks. I. Emergent cycles and broken conservation laws.
TLDR
The steady state entropy production rate is decompose in terms of fundamental fluxes and affinities in the spirit of Schnakenberg's theory of network thermodynamics, paving the way for the forthcoming treatment of the linear regime, of efficiency and tight coupling, of free energy transduction, and of thermodynamic constraints for network reconstruction.
Reaction kinetics in open reactors and serial transfers between closed reactors.
TLDR
It is shown that the CSTR and serial transfer dynamics are equivalent in the limit where the time interval between the transfers tends to zero proportionally to the ratio of the fractions of fresh to transferred solutions.
Information Thermodynamics of Turing Patterns.
TLDR
It is shown that the canonical (resp. semigrand canonical) nonequilibrium free energy works as a Lyapunov function in the relaxation to equilibrium of a closed system, and its variation provides the minimum amount of work needed to manipulate the species concentrations.
Stochastic thermodynamics of chemical reaction networks.
For chemical reaction networks in a dilute solution described by a master equation, the authors define energy and entropy on a stochastic trajectory and develop a consistent nonequilibriumโ€ฆ
Nonequilibrium Thermodynamics of Chemical Reaction Networks: Wisdom from Stochastic Thermodynamics
We build a rigorous nonequilibrium thermodynamic description for open chemical reaction networks of elementary reactions. Their dynamics is described by deterministic rate equations satisfying massโ€ฆ
Negative differential response in chemical reactions
TLDR
It is argued that NDR implies the existence of optimal affinities that maximize the robustness against environmental and intrinsic noise at intermediate values of dissipation, and an analogous behavior is found in dissipative self-assembly, for which the optimal working conditions set by NDR are identified.
Metabolic futile cycles and their functions: a systems analysis of energy and control.
TLDR
It is shown that the stoichiometric sensitivity of an intermediary metabolite concentration with respect to changes in steady-state flux is governed by the effective equilibrium constant of the intermediate formation, and the equilibrium can be regulated by a futile cycle.
Multiple Equilibria in Complex Chemical Reaction Networks: I. The Injectivity Property
TLDR
A new method for discriminating between networks that have the capacity for multiple equilibria and those that do not is suggested and can be implemented using standard computer algebra software and gives answers for many reaction networks for which previous methods give no information.
Length and sequence relaxation of copolymers under recombination reactions.
TLDR
The kinetics and thermodynamics of copolymers undergoing recombination reactions, which are important for prebiotic chemistry, are described and it is found that for some choice of initial conditions, the entropy can be lowered at the expense of increasing the entropy of the length distribution.
...
1
2
3
4
5
...