Universal minimal cost of coherent biochemical oscillations.
@article{Oberreiter2021UniversalMC, title={Universal minimal cost of coherent biochemical oscillations.}, author={Lukas Oberreiter and Udo Seifert and Andre C Barato}, journal={Physical review. E}, year={2021}, volume={106 1-1}, pages={ 014106 } }
Biochemical clocks are essential for virtually all living systems. A biochemical clock that is isolated from an external periodic signal and subjected to fluctuations can oscillate coherently only for a finite number of oscillations. Furthermore, such an autonomous clock can oscillate only if it consumes free energy. What is the minimum amount of free-energy consumption required for a certain number of coherent oscillations? We conjecture a universal bound that answers this question. A system…
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44 References
Design principles for enhancing phase sensitivity and suppressing phase fluctuations simultaneously in biochemical oscillatory systems
- PhysicsNature Communications
- 2018
Biological systems need to function accurately in the presence of strong noise and at the same time respond sensitively to subtle external cues. Here we study design principles in biochemical…
Irreversibility in dynamical phases and transitions
- PhysicsNature Communications
- 2021
A measure of irreversibility is introduced that is term the entropy production factor to quantify how time reversal symmetry is broken in field theories across scales.
Stochastic thermodynamics of chemical reactions coupled to finite reservoirs: A case study for the Brusselator.
- PhysicsThe Journal of chemical physics
- 2020
A simple model is applied to a simple biochemical oscillator, the Brusselator, and it is found that higher precision can be achieved with finite-size reservoirs even though the corresponding current fluctuations are larger than in the ideal infinite case.
The energy cost and optimal design for synchronization of coupled molecular oscillators
- PhysicsNature physics
- 2020
The theoretical framework established here can be extended to study thermodynamics of collective behaviours in other non-equilibrium active systems and reveals a relationship between the KaiC ATPase activity and the synchronization of thekaiC hexamers.
Robust oscillations in multi-cyclic Markov state models of biochemical clocks.
- PhysicsThe Journal of chemical physics
- 2020
The results suggest that biochemical oscillators can be more robust to fluctuations in the path of the oscillator when they have a high energy budget, and analytical predictions for the period and coherence of oscillations in these networks are made.
The thermodynamic uncertainty relation in biochemical oscillations
- PhysicsJournal of the Royal Society Interface
- 2019
This paper shows that computational models of real biochemical clocks severely underperform this optimum, with fluctuations several orders of magnitude larger than the theoretical minimum, and introduces a new model with a tunable number of internal states per molecule that approaches the optimal precision as this number increases.
The correlation time of mesoscopic chemical clocks
- Physics
- 2002
A formula is proved for the correlation time of nonequilibrium chemical clocks in the presence of molecular noise. The correlation time is defined as the inverse of the damping rate of the…
Bounding the quality of stochastic oscillations in population models
- Mathematics
- 2007
Abstract.We analyze general two-species stochastic models, of the
kind generally used for the study of population dynamics. Although
usually defined a priori, the deterministic version of these…
Bounds on current fluctuations in periodically driven systems
- PhysicsNew Journal of Physics
- 2018
Small nonequilibrium systems in contact with a heat bath can be analyzed with the framework of stochastic thermodynamics. In such systems, fluctuations, which are not negligible, follow universal…
Phase transition in thermodynamically consistent biochemical oscillators.
- PhysicsThe Journal of chemical physics
- 2018
This work shows that biochemical oscillations emerge through a generic nonequilibrium phase transition, with a characteristic qualitative behavior at criticality, and argues that the number of coherent oscillations is more appropriate to quantify the precision of biochemical oscillation.