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Since the dynamical behavior of chaotic and stochastic systems is very similar, it is sometimes difficult to determine the nature of the movement. One of the best-studied stochastic processes is Brownian motion, a random walk that accurately describes many phenomena that occur in nature, including quantum mechanics. In this paper, we propose an approach that allows us to analyze chaotic dynamics using the Langevin equation describing dynamics of the phase difference between identical coupled chaotic oscillators. The time evolution of this phase difference can be explained by the biased Brownian motion, which is accepted in quantum mechanics for modeling thermal phenomena. Using a deterministic model based on chaotic Rössler oscillators, we are able to reproduce a similar time evolution for the phase difference. We show how the phenomenon of intermittent phase synchronization can be explained in terms of both stochastic and deterministic models. In addition, the existence of phase multistability in the phase synchronization regime is demonstrated.

We performed dynamic Monte Carlo simulations of biased diffusion of 3D phantom single lattice polymer. We observed spontaneous deformation of polymer coil when the external driving forces exceed a critical strength. In addition, longer chains require lower critical strengths, at which their activated velocities deviate from Newtonian-fluid behaviours and merge into a master curve exhibiting shear-thinning followed with shear thickening. We attributed the cause of deformation to the random updating of monomers. The latter represents the dynamic heterogeneity along the real polymer chain, and raises a nonlinear asymmetric accumulation of local acceleration and then an internal tension between chain middle and chain end, as evidenced by our previous Brownian Dynamics simulations. Our results unravel a single-molecular-level source of nonlinear dynamics, which has been overlooked in current theoretical considerations on the basis of Rouse ideal-chain model. [ABSTRACT FROM AUTHOR]

In this paper, we investigate the convergence of a novel simulation scheme to the target diffusion process. This scheme, the Quasi-EA, is closely related to the Exact Algorithm (EA) for diffusion processes, as it is obtained by neglecting the rejection step in EA. We prove the existence of a myopic coupling between the Quasi-EA and the diffusion. Moreover, an upper bound for the coupling probability is given. Consequently we establish the convergence of the Quasi-EA to the diffusion with respect to the total variation distance. [ABSTRACT FROM AUTHOR]

Abstract: Conventional form to function as a vesicle transporter is not a ‘single molecule’ but a coordinated ‘two molecules’. The coordinated two molecules make it complicated to reveal its mechanism. To overcome the difficulty, we adopted a single-headed myosin-VI as a model protein. Myosin-VI is an intracellular vesicle and organelle transporter that moves along actin filaments in a direction opposite to most other known myosin classes. The myosin-VI was expected to form a dimer to move processively along actin filaments with a hand-over-hand mechanism like other myosin organelle transporters. However, wild-type myosin-VI was demonstrated to be monomer and single-headed, casting doubt on its processivity. Using single molecule techniques, we show that green fluorescent protein (GFP)-fused single-headed myosin-VI does not move processively. However, when coupled to a 200nm polystyrene bead (comparable to an intracellular vesicle in size) at a ratio of one head per bead, single-headed myosin-VI moves processively with large (40nm) steps. Furthermore, we found that a single-headed myosin-VI–bead complex moved more processively in a high-viscous solution (40-fold higher than water) similar to cellular environment. Because diffusion of the bead is 60-fold slower than myosin-VI heads alone in water, we propose a model in which the bead acts as a diffusional anchor for the myosin-VI, enhancing the head''s rebinding following detachment and supporting processive movement of the bead–monomer complex. This investigation will help us understand how molecular motors utilize Brownian motion in cells. [Copyright &y& Elsevier]

The epoch-making techniques for manipulating a single myosin molecule have recently been developed, and the unitary mechanical reactions of a single actomyosin, muscle motor molecule, are directly measured. The data show that the unitary mechanical step during sliding along an actin filament of ∼5.5 nm, but groups of two to five rapid steps in succession produce displacements of ∼11–30 nm. The instances of multiple stepping are produced by single myosin heads during one biochemical cycle of ATP hydrolysis. Thus, the coupling between ATP hydrolysis cycle and mechanical step is variable, i.e. loose-coupling. Such a unique operation of actomyosin molecules is different from that of man-made machines, and most likely explains the flexible and effective mechanisms of molecular machines in the biosystems. [Copyright &y& Elsevier]

Since the dynamical behavior of chaotic and stochastic systems is very similar, it is sometimes difficult to determine the nature of the movement. One of the best-studied stochastic processes is Brownian motion, a random walk that accurately describes many phenomena that occur in nature, including quantum mechanics. In this paper, we propose an approach that allows us to analyze chaotic dynamics using the Langevin equation describing dynamics of the phase difference between identical coupled chaotic oscillators. The time evolution of this phase difference can be explained by the biased Brownian motion, which is accepted in quantum mechanics for modeling thermal phenomena. Using a deterministic model based on chaotic Rössler oscillators, we are able to reproduce a similar time evolution for the phase difference. We show how the phenomenon of intermittent phase synchronization can be explained in terms of both stochastic and deterministic models. In addition, the existence of phase multistability in the phase synchronization regime is demonstrated. [ABSTRACT FROM AUTHOR]