The free energy cost of accurate biochemical oscillations
arXiv:1506.05686 · doi:10.1038/nphys3412
Abstract
Oscillation is an important cellular process that regulates timing of different vital life cycles. However, in the noisy cellular environment, oscillations can be highly inaccurate due to phase fluctuations. It remains poorly understood how biochemical circuits suppress phase fluctuations and what is the incurred thermodynamic cost. Here, we study four different types of biochemical oscillations representing three basic oscillation motifs shared by all known oscillatory systems. We find that the phase diffusion constant follows the same inverse dependence on the free energy dissipation per period for all systems studied. This relationship between the phase diffusion and energy dissipation is shown analytically in a model of noisy oscillation. Microscopically, we find that the oscillation is driven by multiple irreversible cycles that hydrolyze the fuel molecules such as ATP; the number of phase coherent periods is proportional to the free energy consumed per period. Experimental evidence in support of this universal relationship and testable predictions are also presented.
References in corpus (1)
Cited by in corpus (67)
- Broken detailed balance and non-equilibrium dynamics in living systems
- Cost and Precision of Brownian Clocks
- Fundamental Bounds on First Passage Time Fluctuations for Currents
- Improved bounds on entropy production in living systems
- Estimating entropy production from waiting time distributions
- Nonequilibrium thermodynamics of coupled molecular oscillators: The energy cost and optimal design for synchronization
- Metastable dynamics of neural circuits and networks
- Topological localization in out-of-equilibrium dissipative systems
- Topologically protected modes in non-equilibrium stochastic systems
- Coherence of Biochemical Oscillations is Bounded by Driving Force and Network Topology
- Thermodynamic Bound on the Asymmetry of Cross-Correlations
- The free energy cost of reducing noise while maintaining a high sensitivity
- The Thermodynamic Uncertainty Relation in Biochemical Oscillations
- Phase transition in thermodynamically consistent biochemical oscillators
- Entropy production in exactly solvable systems
- Nonreciprocal Ising model
- Universal minimal cost of coherent biochemical oscillations
- Scaling of Energy Dissipation in Nonequilibrium Reaction Networks
- Limits of Predictions in Thermodynamic Systems: A Review
- Physical constraints in intracellular signaling: the cost of sending a bit
- Resolving the binding-kinase discrepancy in bacterial chemotaxis: A nonequilibrium allosteric model and the role of energy dissipation
- Thermodynamic uncertainty relation of interacting oscillators in synchrony
- Thermodynamic cost for precision of general counting observables
- Thermodynamic cost, speed, fluctuations, and error reduction of biological copy machines
- Energy Dissipation Bounds for Autonomous Thermodynamic Cycles
- Thermodynamic uncertainty relation to assess biological processes
- Dynamical phase transitions in the nonreciprocal Ising model
- The energy cost for flocking of active spins: the cusped dissipation maximum at the flocking transition
- Nonequilibrium Phase Transition To Temporal Oscillations In Mean-Field Spin Models
- Entropy production limits all fluctuation oscillations
- High chemical affinity increases the robustness of biochemical oscillations
- Dissipation, quantum coherence, and asymmetry of finite-time cross-correlations
- Discontinuous phase transition from ferromagnetic to oscillating states in a nonequilibrium mean-field spin model
- General theory for localizing the where and when of entropy production meets single-molecule experiments
- Precision and dissipation of a stochastic Turing pattern
- Coherence of oscillations in the weak-noise limit
- Robust oscillations in multi-cyclic models of biochemical clocks
- Time-reversal symmetry breaking in the chemosensory array reveals mechanisms for dissipation-enhanced cooperative sensing
- Subharmonic oscillations in stochastic systems under periodic driving
- Deciphering intrinsic inter-subunit couplings that lead to sequential hydrolysis of F1-ATPase ring
- Oscillations in feedback driven systems: thermodynamics and noise
- Design principles for biochemical oscillations with limited energy resources
- Thermodynamic cost of synchronizing a population of beating cilia
- Stochastic thermodynamics of chemical reactions coupled to finite reservoirs: A case study for the Brusselator
- Thermodynamics of collective enhancement of precision
- Enzyme oscillation can enhance the thermodynamic efficiency of cellular metabolism: Consequence of anti-phase coupling between reaction flux and affinity
- Designing circle Swimmers: Principles and strategies
- Non-reciprocity is necessary for robust dimensional reduction and strong responses in stochastic topological systems
- Collective oscillations in a three-dimensional spin model with non-reciprocal interactions
- Photon correlation measurements of stochastic limit cycles emerging from high- nonlinear silicon photonic crystal microcavities
- Dispersion of the time spent in a state: General expression for unicyclic model and dissipation-less precision
- Optimal temporal patterns for dynamical cellular signaling
- Improved estimation for energy dissipation in biochemical oscillations
- The problem of engines in statistical physics
- Irreversibility in Non-reciprocal Chaotic Systems
- Hidden collective oscillations in a disordered mean-field spin model with non-reciprocal interactions
- The Markov Process Admits a Consistent Steady-State Thermodynamic Formalism
- Topological phase locking in stochastic oscillators
- Noise in gene expression may be a choice of cellular system
- Nonequilibrium thermodynamic signatures of collective dynamical states around chimera in a chemical reaction network
- Far-from-equilibrium complex landscapes
- Thermodynamic Geometric Constraint on the Spectrum of Markov Rate Matrices
- Ultrasensitivity without conformational spread: A mechanical origin for non-equilibrium cooperativity in the bacterial flagellar motor
- A strong non-equilibrium bound for sorting of crosslinkers on growing biopolymers
- Role of activity and dissipation in achieving precise beating in cilia: Insights from the rower model
- The Nonequilibrium Mechanism of Noise Enhancer synergizing with Activator in HIV Latency Reactivation
- Physical Constraints on the Rhythmicity of the Biological Clock