Coupling and internal noise sustain synchronized oscillation in calcium system

In this work, the effects of coupling on two calcium subsystems were investigated, the cooperation between coupling and internal noise was also considered. When two non-identical subsystems are in steady state, coupling can induce oscillations, and distinctly enlarge the oscillatory region in bifurcation diagram. Besides, coupling can make the two non-identical oscillators synchronized. With the increment of the coupling strength, the cross-correlation time of the two oscillators firstly increases and then decreases to be constant, showing the synchronization without tuning coupling strength. When internal noise is considered, similar phenomena can also be obtained under the cooperation between coupling and internal noise.     

Mean-field coupling of calcium oscillations in a multicellular system of rat hepatocytes

In a multicellular system of rat hepatocytes and even in an intact liver, cytoplasmic calcium oscillations are synchronized and highly coordinated. In this paper, the mean-field coupling term has been introduced to describe the coupling flux, which is more efficient than gap junctional coupling terms. An optimal coupling strength and an optimal stimulation level for the synchronization of the coupled system have been observed in this paper. Moreover, it has been proved that these results are independent of the cells number. Interestingly, it has been observed that the intracellular noise and the extracellular noise have different effects on the synchronization of the coupled system.     

Signal transduction and amplification in a circadian oscillator: Interaction between two colored noises

The signal transduction and amplification in a Neurospora circadian clock system is studied by using the mechanism of internal signal stochastic resonance (ISSR). Two cases have been investigated: the case of no correlations between multiplicative and additive colored noises and the case of correlations between two noises. The results show that, in both cases, the noise-induced circadian oscillations can be transduced with the phenomenon of internal signal stochastic resonance (ISSR). However, the correlation time and intensity of an additive colored noise play different roles for the ISSR, driven by multiplicative colored noise, while the correlation time and intensity of multiplicative colored noise hardly influence the ISSR driven by additive colored noise. In addition, the ISSR can be amplified or suppressed at an appropriate range of the correlation intensity between two colored noises. The fundamental frequency of noise-induced circadian oscillations is hardly shifted with the increment of the intensity and correlation time of colored noises, which implies that the Neurospora system could be resistant to colored noises, exhibit strong vitality and sustain intrinsic circadian rhythms.     

Phase synchronization and coherence resonance of stochastic calcium oscillations in coupled hepatocytes

The frequency of free cytosolic calcium concentration ([Ca(2+)]) oscillations elicited by a given agonist concentration differs between individual hepatocytes. However, in multicellular systems of rat hepatocytes and even in the intact liver, [Ca(2+)] oscillations are synchronized and highly coordinated. In this paper, we have investigated theoretically the effects of gap junction permeable to calcium and of the total Ca(2+) channel number located on endoplasmic reticulum on intercellular synchronization. Figures of ratio between mean oscillating frequency of coupled cells describe visually the process of phase-locking. By virtue of a set of phase analysis, we can observe a gradual transition from synchronous behavior to nonsynchronous behavior. Furthermore, a signal-to-noise ratio in two dimensional parameter space (coupling strength-total Ca(2+) channel number) has suggested that, coherence resonance will occur for appropriate noise and coupling.     

Engineered internal noise stochastic resonator in gene network: a model study

Based on a genetic bistable switch model coupled with a gene oscillator model, we have constructed a mesoscopic stochastic model for the coupled synthetic gene network, and studied how internal noise would influence the oscillation of such a system. We found that the state-to-state transitions can occur if the internal noise is taken into account, and the performance of resulting oscillation can reach a maximum in a certain internal noise level, which indicates the occurrence of internal noise stochastic resonance (SR) and makes the coupled gene network work as a stochastic resonator. The potential role of such an effect on gene expression systems is also discussed.     

Spatial coherence resonance in excitable biochemical media induced by internal noise

We show that in a spatially extended excitable medium, presently modelled with diffusively coupled FitzHugh-Nagumo neurons, internal stochasticity is able to extract a characteristic spatial frequency of waves on the spatial grid. Internal noise is introduced via a stochastic simulation method and is the only agent acting on the system. Remarkably, the spatial periodicity is best pronounced at an intermediate level of internal stochasticity. Thus, the reported phenomenon is an observation of internal noise spatial coherence resonance in excitable biochemical media.     

Channel sharing in pancreatic beta -cells revisited: enhancement of emergent bursting by noise

Secretion of insulin by electrically coupled populations of pancreatic beta -cells is governed by bursting electrical activity. Isolated beta -cells, however, exhibit atypical bursting or continuous spike activity. We study bursting as an emergent property of the population, focussing on interactions among the subclass of spiking cells. These are modelled by equipping the fast subsystem with a saddle-node-loop bifurcation, which makes it monostable. Such cells can only spike tonically or remain silent when isolated, but can be induced to burst with weak diffusive coupling. With stronger coupling, the cells revert to tonic spiking. We demonstrate that the addition of noise dramatically increases, via a phenomenon like stochastic resonance, the coupling range over which bursting is seen.     

Role of the endothelium on arterial vasomotion

It is well-known that cyclic variations of the vascular diameter, a phenomenon called vasomotion, are induced by synchronous calcium oscillations of smooth muscle cells (SMCs). However, the role of the endothelium on vasomotion is unclear. Some experimental studies claim that the endothelium is necessary for synchronization and vasomotion, whereas others report rhythmic contractions in the absence of an intact endothelium. Moreover, endothelium-derived factors have been shown to abolish vasomotion by desynchronizing the calcium signals in SMCs. By modeling the calcium dynamics of a population of SMCs coupled to a population of endothelial cells, we analyze the effects of an SMC vasoconstrictor stimulation on endothelial cells and the feedback of endothelium-derived factors. Our results show that the endothelium essentially decreases the SMCs calcium level and may move the SMCs from a steady state to an oscillatory domain, and vice versa. In the oscillatory domain, a population of coupled SMCs exhibits synchronous calcium oscillations. Outside the oscillatory domain, the coupled SMCs present only irregular calcium flashings arising from noise modeling stochastic opening of channels. Our findings provide explanations for the published contradictory experimental observations.     

生物钟体系中色噪音诱导的日夜节律振荡和内信号随机共振

利用脉孢菌生物钟体系,研究了色噪音对其进行诱导所产生的日夜节律振荡信号及其内信号随机共振的行为．结果表明,色噪音的相关时间对该体系内信号随机共振的强弱起较大的影响作用．当无外信号存在时,色噪音的相关时间对体系内信号随机共振强度起抑制的作用,且随相关时间的增大,抑制作用增强．当外信号加到体系中时,由于相关时间和外信号的协同作用,相关时间不仅对其内信号随机共振强度起抑制的作用,而且还影响内信号随机共振峰的数目,即随相关时间的增大,可使单峰随机共振变为随机双共振．存在最佳的外信号频率使体系的内信号随机共振强度得到最大的增强,而其他频率的外信号却起抑制作用．色内噪音和色外噪音相比,前者对该体系进行诱导所得的内信号随机共振强度比后者的更强,而且体系对前者更敏感．另外,存在极限的噪音强度使白噪音和色噪音对该体系内信号随机共振的影响差异得以消失．所得结果可为治疗生物钟紊乱综合症提供理论依据,同时可更好地理解其他节奏机理,如心脏搏动节奏、呼吸节奏以及荷尔蒙水平的波动节奏等．     

Internal noise-driven circadian oscillator in Drosophila

An internal noise-driven oscillator was studied in a two-variable Drosophila model, where both positive feedback and negative feedback are crucial to the circadian oscillations. It is shown that internal noise could sustain reliable oscillations for the parameter which produces a stable steady state in the deterministic system. The noise-sustained oscillations are interpreted by using phase plane analysis. The period of such oscillations fluctuates slightly around the period of deterministic oscillations and the coherence of oscillations becomes the best at an optimal internal noise intensity, indicating the occurrence of intrinsic coherence resonance. In addition, in the oscillatory region, the coherence of noisy circadian oscillations is suppressed by the internal noise, but the period is hardly affected, demonstrating the robustness of the Drosophila model for circadian rhythms to the intrinsic noise.     

Integrating Biosystem Models Using Waveform Relaxation

Modelling in systems biology often involves the integration of component models into larger composite models. How to do this systematically and efficiently is a significant challenge: coupling of components can be unidirectional or bidirectional, and of variable strengths. We adapt the waveform relaxation (WR) method for parallel computation of ODEs as a general methodology for computing systems of linked submodels. Four test cases are presented: (i) a cascade of unidirectionally and bidirectionally coupled harmonic oscillators, (ii) deterministic and stochastic simulations of calcium oscillations, (iii) single cell calcium oscillations showing complex behaviour such as periodic and chaotic bursting, and (iv) a multicellular calcium model for a cell plate of hepatocytes. We conclude that WR provides a flexible means to deal with multitime-scale computation and model heterogeneity. Global solutions over time can be captured independently of the solution techniques for the individual components, which may be distributed in different computing environments.     

钙离子振荡对肝糖磷酸化酶激活的随机效应研究

在复杂生化系统的研究过程中,仿真与建模变得越来越重要.对于参与分子数量比较大的生化系统,通常可以采用常微分方程来解决这一问题.对于分子数量比较小的系统,离散粒子基础上的随机模拟方法更精确.然而目前还没有明确的理论方法来确定,对于实际问题用哪种方法能得到更合理的结果.因此需要在一个普遍研究的体系中,通过Ca~(2+)振荡传导信号来研究从随机行为到确定行为的过渡过程.本文以肝细胞中Ca~(2+)振荡对肝糖磷酸化酶激活随机效应为例,讨论了利用随机微分方程来解决分子数量比较小的生化系统的仿真与建模问题,利用细胞内Ca~(2+)有关的Li-Rinzel随机模型,研究了在磷酸化酶降解肝糖的磷酸化-去磷酸化作用循环过程中,三磷酸肌醇受体通道(IP_3R)释放Ca~(2+)的调控作用.结果表明,肝糖磷酸化酶的激活率随受体通道IP_3R的总数增大而减弱,而且三磷酸肌醇浓度比较小时出现相干共振.     

Estimation of Coupling Strength in Regenerated Lamprey Spinal Cords Based on a Stochastic Phase Model

We present a simple stochastic model of two coupled phase oscillators and a method of fitting the model to experimental spike-train data or to sequences of burst times. We apply the method to data from lesioned isolated lamprey spinal cords. The remaining tracts at the lesion site are either regenerated medial tracts, regenerated lateral tracts, control medial tracts, or control lateral tracts. We show that regenerated tracts on average provide significantly weaker coupling than control tracts. We compare our model-dependent estimate of coupling strength to a measure of coordination based on the size of deflections in the spike-train cross-correlation histogram (CCH). Using simulated data, we show that our estimates are able to detect changes in coupling strength that do not change the size of deflections in the CCH. Our estimates are also more resistant to changes in the level of dynamic noise and to changes in relative oscillator frequency than is the CCH. In simulations with high levels of dynamic noise and in one experimental preparation, we are able detect significant coupling strength although there are no significant deflections in the CCH.     

Intercellular coupling mechanism for synchronized and noise-resistant circadian oscillators

The circadian clock in multicellular organisms consists of multiple autonomous single-cell oscillators. These individual oscillator cells produce coherent oscillations even in the presence of internal noise associated with rhythm-generating reaction rates and in the absence of external time cues such as light and temperature. Thus, an intercellular coupling mechanism must synchronize the cells to induce coherent circadian oscillations. We propose the roles of a synchronizing factor that is secreted from individual cells during subjective day to induce light-pulse-type phase shifts in the neighboring cells or, alternatively, a factor that is secreted during subjective night to induce dark-pulse-type phase shifts. Here, we present our multicellular stochastic model of Drosophila circadian rhythms that emulates the intercellular coupling mechanism and suggest that the mechanism facilitates the constancy of the circadian rhythm with possible functional redundancy among different synchronizing factors.     

Emergent properties of electrically coupled smooth muscle cells

Asynchronous and synchronous calcium oscillations occur in a variety of cells. A well-established pathway for intercellular communication is provided by gap junctions which connect adjacent cells and can mediate electrical and chemical coupling. Several experimental studies report that cells presenting only a transient increase when freshly dispersed may oscillate when they are coupled. Such observations suggest that the role of gap junctions is not only to coordinate calcium oscillations of adjacent cells. Gap junctions may also be important to generate oscillations. Here we illustrate the emergent properties of electrically coupled smooth muscle cells using a model that we recently proposed. A bifurcation analysis in the case of two cells reveals that synchronous and asynchronous calcium oscillations can be induced by electrical coupling. In a larger population of smooth muscle cells, electrical coupling may result in the creation of groups of cells presenting synchronous calcium oscillations. The elements of one group may be distant from each other. Moreover, our results highlight a general mechanism by which gap junctional electrical coupling can give rise to out of phase calcium oscillations in smooth muscle cells that are non-oscillating when uncoupled. All these observations remain true in the case of non-identical cells, except that the solution corresponding to synchronous calcium oscillations disappears and that the formation of groups is sensitive to the degree of heterogeneity. The first two authors contributed equally to this work.     

Membrane Resonance and Stochastic Resonance Modulate Firing Patterns of Thalamocortical Neurons

We examined the interactions of subthreshold membrane resonance and stochastic resonance using whole-cell patch clamp recordings in thalamocortical neurons of rat brain slices, as well as with a Hodgkin-Huxley-type mathematical model of thalamocortical neurons. The neurons exhibited the subthreshold resonance when stimulated with small amplitude sine wave currents of varying frequency, and stochastic resonance when noise was added to sine wave inputs. Stochastic resonance was manifest as a maximum in signal-to-noise ratio of output response to subthreshold periodic input combined with noise. Stochastic resonance in conjunction with subthreshold resonance resulted in action potential patterns that showed frequency selectivity for periodic inputs. Stochastic resonance was maximal near subthreshold resonance frequency and a high noise level was required for detection of high frequency signals. We speculate that combined membrane and stochastic resonances have physiological utility in coupling synaptic activity to preferred firing frequency and in network synchronization under noise.     

Diffusion of calcium and metabolites in pancreatic islets: killing oscillations with a pitchfork

Cell coupling is important for the normal function of the beta-cells of the pancreatic islet of Langerhans, which secrete insulin in response to elevated plasma glucose. In the islets, electrical and metabolic communications are mediated by gap junctions. Although electrical coupling is believed to account for synchronization of the islets, the role and significance of diffusion of calcium and metabolites are not clear. To address these questions we analyze two different mathematical models of islet calcium and electrical dynamics. To study diffusion of calcium, we use a modified Morris-Lecar model. Based on our analysis, we conclude that intercellular diffusion of calcium is not necessary for islet synchronization, at most supplementing electrical coupling. Metabolic coupling is investigated with a recent mathematical model incorporating glycolytic oscillations. Bifurcation analysis of the coupled system reveals several modes of behavior, depending on the relative strength of electrical and metabolic coupling. We find that whereas electrical coupling always produces synchrony, metabolic coupling can abolish both oscillations and synchrony, explaining some puzzling experimental observations. We suggest that these modes are generic features of square-wave bursters and relaxation oscillators coupled through either the activation or recovery variable.     

The Effect of Loss of Immunity on Noise-Induced Sustained Oscillations in Epidemics

The effect of loss of immunity on sustained population oscillations about an endemic equilibrium is studied via a multiple scales analysis of a SIRS model. The analysis captures the key elements supporting the nearly regular oscillations of the infected and susceptible populations, namely, the interaction of the deterministic and stochastic dynamics together with the separation of time scales of the damping and the period of these oscillations. The derivation of a nonlinear stochastic amplitude equation describing the envelope of the oscillations yields two criteria providing explicit parameter ranges where they can be observed. These conditions are similar to those found for other applications in the context of coherence resonance, in which noise drives nearly regular oscillations in a system that is quiescent without noise. In this context the criteria indicate how loss of immunity and other factors can lead to a significant increase in the parameter range for prevalence of the sustained oscillations, without any external driving forces. Comparison of the power spectral densities of the full model and the approximation confirms that the multiple scales analysis captures nonlinear features of the oscillations.