Dynamics of macroautophagy: Modeling and oscillatory behavior

We propose a model for macroautophagy and study the resulting dynamics of autophagy in a system isolated from its extra-cellular environment. It is found that the intracellular concentrations of autophagosomes and autolysosomes display oscillations with their own natural frequencies. Such oscillatory behaviors, which are interrelated to the dynamics of intracellular ATP, amino acids, and proteins, are consistent with the very recent biological observations. Implications of this theoretical study of autophagy are discussed, with regard to the possibility of guiding molecular studies of autophagy.     

Cluster synchronization and spatio-temporal dynamics in networks of oscillatory and excitable Luo-Rudy cells

We study collective phenomena in nonhomogeneous cardiac cell culture models, including one- and two-dimensional lattices of oscillatory cells and mixtures of oscillatory and excitable cells. Individual cell dynamics is described by a modified Luo-Rudy model with depolarizing current. We focus on the transition from incoherent behavior to global synchronization via cluster synchronization regimes as coupling strength is increased. These regimes are characterized qualitatively by space-time plots and quantitatively by profiles of local frequencies and distributions of cluster sizes in dependence upon coupling strength. We describe spatio-temporal patterns arising during this transition, including pacemakers, spiral waves, and complicated irregular activity.     

Dynamical quorum sensing and synchronization in collections of excitable and oscillatory catalytic particles

We present experimental studies of interacting excitable and oscillatory catalytic particles in well-stirred and spatially distributed systems. A number of distinct paths to synchronized oscillatory behavior are described. We present an example of a Kuramoto type transition in a well-stirred system with a collective rhythm emerging on increasing the number density of oscillatory particles. Groups of spatially distributed oscillatory particles become entrained to a common frequency by organizing centers. Quorum sensing type transitions are found in populations of globally and locally coupled excitable particles, with a sharp transition from steady state to fully synchronized behavior at a critical density or group size.     

On the role of frustration in excitable systems

We study the role of frustration in excitable systems that allow for oscillations either by construction or in an induced way. We first generalize the notion of frustration to systems whose dynamical equations do not derive from a Hamiltonian. Their couplings can be directed or undirected; they should come in pairs of opposing effects like attractive and repulsive, or activating and repressive, ferromagnetic and antiferromagnetic. As examples we then consider bistable frustrated units as elementary building blocks of our motifs of coupled units. Frustration can be implemented in these systems in various ways: on the level of a single unit via the coupling of a self-loop of positive feedback to a negative feedback loop, on the level of coupled units via the topology or via the type of coupling which may be repressive or activating. In comparison to systems without frustration, we analyze the impact of frustration on the type and number of attractors and observe a considerable enrichment of phase space, ranging from stable fixed-point behavior over different patterns of coexisting options for phase-locked motion to chaotic behavior. In particular we find multistable behavior even for the smallest motifs as long as they are frustrated. Therefore we confirm an enrichment of phase space here for excitable systems with their many applications in biological systems, a phenomenon that is familiar from frustrated spin systems and less known from frustrated phase oscillators. So the enrichment of phase space seems to be a generic effect of frustration in dynamical systems. For a certain range of parameters our systems may be realized in cell tissues. Our results point therefore on a possible generic origin for dynamical behavior that is flexible and functionally stable at the same time, since frustrated systems provide alternative paths for the same set of parameters and at the same "energy costs."     

Measuring entanglement-induced quantum correlations in the oscillatory motion of a trapped ion

The preparation of a wide class of entangled vibrational states involving two or three phononic modes of a three-dimensional trapped ion has been reported in the literature from both theoretical and experimental points of view. Here, the time evolution of such a system from an initial condition wherein two oscillatory modes (M _x, M _y) are reciprocally entangled and both are disentangled to the third mode (M _z) is studied. By coupling one of the entangled oscillators (M _x) with the third oscillator (M _z), a correlation between the two uncoupled modes (M _y, M _z) is induced, well visible when the mean value of a suitable operator is considered. A method of measuring the expectation value of a vibrational observable is briefly sketched and then exploited in order to reveal such nonclassical behavior.     

From monotonic to oscillatory decay of correlations: Analytical approximation for the two-dimensional,one-component plasma

An approximate evaluation of the pair distribution and the structure factor is performed analytically for the two-dimensional, one-component plasma at any value of the coupling constant. The approximate distribution remains positive and satisfies three sum rules, including the compressibility one. When 0 or 2, exact results are found. At=2 the transition from monotonie (<2) to oscillatory (>2) decay of correlations takes place. Comparison with the Monte Carlo simulations shows good agreement for 0<<4.     

Varieties of spiral wave behavior: An experimentalist's approach to the theory of excitable media

Spiral waves in diverse excitable media exhibit strikingly variegated behavior. Mechanistic interpretations of excitability in laboratory systems are commonly tested by comparing the wavelength, period, and meander patterns of the model's spiral waves with laboratory observations, but models seem seldom to be rejected by such tests. The reason may be that almost any excitable medium behaves in many respects like almost any other, if its parameters are properly adjusted within a reasonable range. What generalizations can be made about "excitable media" in the absence of more specifications? It would be useful to distinguish such generic features from idiosyncrasies of specific models. The range of behavioral flexibility of the FitzHugh-Nagumo excitable medium is explored by varying two of its parameters and comparing the results with other excitable media to suggest a generic pattern of parameter dependence. The results exhibit the remarkable diversity of rotor behavior in a single model and provide a database for quantitative testing of mathematical generalizations.     

Discrete-time stimulation of the oscillatory and excitable forms of a FitzHugh-Nagumo model applied to the pulsatile release of luteinizing hormone releasing hormone

A model for the pulsatile release of luteinizing hormone releasing hormone (LHRH) can be reduced to a FitzHugh-Nagumo model subject to regular and quasiregular (i.e., with slight random variation in the interstimulus interval), discrete-time stimulation. The relationship of output pulse frequency (OPF) to stimulus frequency is compared between the excitable and oscillatory forms of the model and discussed in the context of results from other pulse-driven model systems. Some examples of the changes in OPF caused by quasiregular and purely Poissonian stimuli are given for the excitable case. The unstimulated system frequently interacts with the stimulation in such a complex manner that the OPF bears little resemblance to the frequency of stimulation or of the unstimulated system. Furthermore, the inability of the oscillatory form of the model to allow complete suppression of output pulses for moderate stimulation frequencies suggests that the LHRH system can be more appropriately described by the excitable form of the model. (c) 1995 American Institute of Physics.     

Photoemission, inverse photoemission and superconducting correlations in Hubbard and t-J ladders: role of the anisotropy between legs and rungs

Several experiments in the context of ladder materials have recently shown that the study of simple models of anisotropic ladders (i.e. with different couplings along legs and rungs) is important for the understanding of these compounds. In this paper Exact Diagonalization studies of the one-band Hubbard and t-J models are reported for a variety of densities, couplings, and anisotropy ratios. The emphasis is given to the one-particle spectral function which presents a flat quasiparticle dispersion at the chemical potential in some region of parameter space. This is correlated with the existence of strong pairing fluctuations, which themselves are correlated with an enhancement of the bulk-extrapolated value for the two-hole binding energy as well as with the strength of the spin-gap in the hole-doped system. Part of the results for the spectral function are explained using a simple analytical picture valid when the hopping along the legs is small. In particular, this picture predicts an insulating state at quarter filling in agreement with the metal-insulator transition observed at this special filling for increasing rung couplings. The results are compared against previous literature, and in addition pair-pair correlations using extended operators are also here reported. Received: 22 April 1998 / Revised: 23 July 1998 / Accepted: 30 July 1998     

Temporal correlations and persistence in the kinetic Ising model: the role of temperature

We study the statistical properties of the sum S _t = dt'σ _t', that is the difference of time spent positive or negative by the spin σ _t, located at a given site of a D-dimensional Ising model evolving under Glauber dynamics from a random initial configuration. We investigate the distribution of S_t and the first-passage statistics (persistence) of this quantity. We discuss successively the three regimes of high temperature ( T > T _c), criticality ( T = T _c), and low temperature ( T < T _c). We discuss in particular the question of the temperature dependence of the persistence exponent , as well as that of the spectrum of exponents (x), in the low temperature phase. The probability that the temporal mean S _t/t was always larger than the equilibrium magnetization is found to decay as t ^{- - ?}. This yields a numerical determination of the persistence exponent in the whole low temperature phase, in two dimensions, and above the roughening transition, in the low-temperature phase of the three-dimensional Ising model. Received 4 December 2000     

Nonlinear behavior of vocal fold vibration: The role of coupling between the vocal folds

Coupling between the vocal folds is one of the nonlinear mechanisms allowing regulation and synchronization of mucosal vibration. The purpose of this study was to establish that modulations such as diplophonia and abnormalities observed in vocal signals that may be observed in some cases of laryngeal pathology can be considered as nonlinear behavior due to the persistence of some physical interaction (coupling). An experimental model using excised porcine larynx was designed to create tension asymmetry between the vocal folds and to obtain vocal signals with modulations. Signals were analyzed by spectral analysis and the phase portrait method. Results were compared with computer-generated synthetic signals corresponding to nonlinear combinations of sinusoid signals. Under these conditions, evidence of nonlinear behavior was detected in 85% of experimental signals. These findings were interpreted as a demonstration of vocal fold interaction. Based on these findings, the authors conclude that (1) coupling must be taken into account in physical models of laryngeal physiology, and that (2) methods of nonlinear dynamics may be used for objective voice analysis.     

Lagrangian tracers on a surface flow: the role of time correlations

Finite time correlations of the velocity in a surface flow are found to be important for the formation of clusters of Lagrangian tracers. The degree of clustering characterized by the Lyapunov spectrum of the flow is numerically shown to be in qualitative agreement with the predictions for the white-in-time compressible Kraichnan flow, but to deviate quantitatively. For intermediate values of compressibility the clustering is surprisingly weakened by time correlations.     

Effect of sp-hybridized defects on the oscillatory behavior of carbon nanotube oscillators

Using molecular dynamics simulations, we investigate the oscillatory behaviors of carbon nanotube oscillators containing sp³-hybridized defects formed by hydrogen chemisorption. It is found that the presence of these defects significantly affects the kinetic and potential energies of the nanotube systems, which in turn affects their oscillation periods and frequencies. We have also studied the oscillatory characteristics of the oscillators containing sp³-hybridized Stone-Wales defects. Our results show that it is possible to control the motion of the inner nanotube by introducing sp³-hybridized defects on the outer nanotube, which provides a potential way to tune the oscillatory behavior of nanotube oscillators.     

Bistability and explosive transients in surface reactions: the role of fluctuations and spatial correlations

We study the dynamics of a class of catalytic surface reactions in which an adsorbed molecule undergoes dissociation giving oxygen, which then rapidly reacts with H adatoms to give water. The reaction-diffusion equations predict bistability and explosive transients similar to those observed in several low-pressure experiments. Kinetic Monte Carlo simulations reveal however that the dynamics can be strongly affected by spontaneous, inhomogeneous fluctuations of composition on the surface. In particular, bifurcation points can be displaced and the explosive character of the transients can be lost, depending on a subtle balance between the rate of reaction and the mobility of the decomposing species. These effects can be quantified on the basis of a stochastic formulation of the dynamics taking into account spatial correlations. This approach allows to better delimit the applicability of the traditional reaction-diffusion modelling in the case of reactions such as the reduction of NO _x or SO _x species on catalytic surfaces.     

The oscillatory behavior of the high-temperature expansion of Dyson's hierarchical model: A renormalization group analysis

We calculate 800 coefficients of the high-temperature expansion of the magnetic susceptibility of Dyson's hierarchical model with a Landau-Ginzburg measure. Log-periodic corrections to the scaling laws appear as in the case of an Ising measure. The period of oscillation appears to be a universal quantity given in good approximation by the logarithm of the largest eigenvalue of the linearized RG transformation, in agreement with a possibility suggested by Wilson and developed by Niemeijer and van Leeuwen. We estimate to be 1.300 (with a systematic error of the order of 0.002), in good agreement with the results obtained with other methods, such as the -expansion. We briefly discuss the relationship between the oscillations and the zeros of the partition function near the critical point in the complex temperature plane.     

Cooperative stochastic behavior in the onset of localized corrosion

Stochastic temporal and spatiotemporal models of metastable pitting on a metal surface are presented. A stochastic reaction-diffusion model accounts for the effects of local changes in concentration, potential drop, and oxide film damage on the nucleation of subsequent events. The cooperative interactions among events can lead to the formation of clusters of metastable pits and to an explosive growth in the total number of pits. Recent progress in the studies of such phenomena is reviewed. New results based on a mean-field analysis of the model and numerical simulations on critical nucleation effects are reported.     

First‐principle investigations of the peculiar magnetic behavior of Sr2FeOsO6

Structural, electronic and magnetic properties of Sr₂FeOsO₆ have been revisited by using the first‐principle calculations. Semiconducting behavior is reproduced. The band gap is 0.09 eV from generalized gradient approximation (GGA) and 0.30 eV by considering both SOC and U, a bit larger than the experimental observed 0.125 eV. In the C‐type antiferromagnetic configuration, spin frustration is found by analysing the magnetic exchange parameters, explaining the experimental observed magnetic complexity.