Landscape, flux, correlation, resonance, coherence, stability, and key network wirings of stochastic circadian oscillation.

Circadian rhythms with a period of ~24 h, are natural timing machines. They are broadly distributed in living organisms, such as Neurospora, Drosophila, and mammals. The underlying natures of the rhythmic behavior have been explored by experimental and theoretical approaches. However, the global and physical natures of the oscillation under fluctuations are still not very clear. We developed a landscape and flux framework to explore the global stability and robustness of a circadian oscillation system. The potential landscape of the network is uncovered and has a global Mexican-hat shape. The height of the Mexican-hat provides a quantitative measure to evaluate the robustness and coherence of the oscillation. We found that in nonequilibrium dynamic systems, not only the potential landscape but also the probability flux are important to the dynamics of the system under intrinsic noise. Landscape attracts the systems down to the oscillation ring while flux drives the coherent oscillation on the ring. We also investigated the phase coherence and the entropy production rate of the system at different fluctuations and found that dissipations are less and the coherence is higher for larger number of molecules. We also found that the power spectrum of autocorrelation functions show resonance peak at the frequency of coherent oscillations. The peak is less prominent for smaller number of molecules and less barrier height and therefore can be used as another measure of stability of oscillations. As a consequence of nonzero probability flux, we show that the three-point correlations from the time traces show irreversibility, providing a possible way to explore the flux from the observations. Furthermore, we explored the escape time from the oscillation ring to outside at different molecular number. We found that when barrier height is higher, escape time is longer and phase coherence of oscillation is higher. Finally, we performed the global sensitivity analysis of the underlying parameters to find the key network wirings responsible for the stability of the oscillation system.

Li C ，Wang E ，Wang J 《-》

Potential landscape and probabilistic flux of a predator prey network.

Li C ，Wang E ，Wang J 《PLoS One》

Potential landscape and flux framework of nonequilibrium networks: robustness, dissipation, and coherence of biochemical oscillations.

Wang J ，Xu L ，Wang E 《-》

Robustness, dissipations and coherence of the oscillation of circadian clock: potential landscape and flux perspectives.

Wang J ，Xu L ，Wang E 《-》

Robustness and coherence of a three-protein circadian oscillator: landscape and flux perspectives.

Wang J ，Xu L ，Wang E 《-》