Temporal behavior of evolutionary dynamics in finite dimensional population

We systematically study the temporal behavior of evolutionary dynamics in finite dimensional population based on evolutionary graph theory. Besides the spread of mutants, we also consider the spread of the impact of the initial mutant seed. The time-dependent behavior of these two spreading processes and their relationship are theoretically and computationally investigated. The ingredients and scaling behaviors of the interface between mutants and wild-type individuals are analyzed in detail, which have significant impact on temporal behavior of evolutionary dynamics. Since the evolutionary systems in nature are generally local and spatial, this research provides further understanding of temporal behavior in evolutionary dynamics at the theoretical level.     

Stochastic climate dynamics: Random attractors and time-dependent invariant measures

This article attempts a unification of the two approaches that have dominated theoretical climate dynamics since its inception in the 1960s: the nonlinear deterministic and the linear stochastic one. This unification, via the theory of random dynamical systems (RDS), allows one to consider the detailed geometric structure of the random attractors associated with nonlinear, stochastically perturbed systems. We report on high-resolution numerical studies of two idealized models of fundamental interest for climate dynamics. The first of the two is a stochastically forced version of the classical Lorenz model. The second one is a low-dimensional, nonlinear stochastic model of the El Niño-Southern Oscillation (ENSO). These studies provide a good approximation of the two models’ global random attractors, as well as of the time-dependent invariant measures supported by these attractors; the latter are shown to have an intuitive physical interpretation as random versions of Sinaï-Ruelle-Bowen (SRB) measures.     

Instability of spatial patterns and its ambiguous impact on species diversity

Self-arrangement of individuals into spatial patterns often accompanies and promotes species diversity in ecological systems. Here, we investigate pattern formation arising from cyclic dominance of three species, operating near a bifurcation point. In its vicinity, an Eckhaus instability occurs, leading to convectively unstable "blurred" patterns. At the bifurcation point, stochastic effects dominate and induce counterintuitive effects on diversity: Large patterns, emerging for medium values of individuals' mobility, lead to rapid species extinction, while small patterns (low mobility) promote diversity, and high mobilities render spatial structures irrelevant. We provide a quantitative analysis of these phenomena, employing a complex Ginzburg-Landau equation.     

Stochastic switching and dynamical freezing in nonlinear spin systems

We consider the controlled switching of individual spins in a nonlinear, interacting spin chain by means of external magnetic fields. We show analytically and by full numerical simulations that stochastic switching is achievable when the driving fields are such that the underlying semi-classical dynamics is chaotic. On the basis of random matrix theory and the geometry of quantum evolution we confirm the quantum case to follow qualitatively the semi-classical behavior.     

Asymptotic regime in N random interacting species

The asymptotic regime of a complex ecosystem with N random interacting species and in the presence of an external multiplicative noise is analyzed. We find the role of the external noise on the long time probability distribution of the ith density species, the extinction of species and the local field acting on the ith population. We analyze in detail the transient dynamics of this field and the cavity field, which is the field acting on the ith species when this is absent. We find that the presence or the absence of some population give different asymptotic distributions of these fields.     

Macroscopic Fluctuation Theory for Stationary Non-Equilibrium States

We formulate a dynamical fluctuation theory for stationary non-equilibrium states (SNS) which is tested explicitly in stochastic models of interacting particles. In our theory a crucial role is played by the time reversed dynamics. Within this theory we derive the following results: the modification of the Onsager–Machlup theory in the SNS; a general Hamilton–Jacobi equation for the macroscopic entropy; a non-equilibrium, nonlinear fluctuation dissipation relation valid for a wide class of systems; an H theorem for the entropy. We discuss in detail two models of stochastic boundary driven lattice gases: the zero range and the simple exclusion processes. In the first model the invariant measure is explicitly known and we verify the predictions of the general theory. For the one dimensional simple exclusion process, as recently shown by Derrida, Lebowitz, and Speer, it is possible to express the macroscopic entropy in terms of the solution of a nonlinear ordinary differential equation; by using the Hamilton–Jacobi equation, we obtain a logically independent derivation of this result.     

Stochastic Stability in Spatial Games

We discuss similarities and differences between systems of interacting players maximizing their individual payoffs and particles minimizing their interaction energy. Long-run behavior of stochastic dynamics of spatial games with multiple Nash equilibria is analyzed. In particular, we construct an example of a spatial game with three strategies, where stochastic stability of Nash equilibria depends on the number of players and the kind of dynamics.     

Evolving complex food webs

We describe the properties of a model which links the ecology of food web structure with the evolutionary dynamics of speciation and extinction events; the model describes the dynamics of ecological communities on an evolutionary timescale. Species are defined as sets of characteristic features, and these features are used to determine interaction scores between species. A realistic population dynamics, which incorporates these scores, is used to determine the changes in population sizes on ecological time scales and so determine mean population sizes. We display typical examples of food webs constructed using the model and comment on the good agreement which is found between the model predictions and data on real webs.Received: 18 January 2004, Published online: 14 May 2004PACS: 87.23.Kg Dynamics of evolution - 87.23.Cc Population dynamics and ecological pattern formation - 89.75.Fb Structures and organization in complex systems     

Phase space representation of quantum dynamics

We discuss a phase space representation of quantum dynamics of systems with many degrees of freedom. This representation is based on a perturbative expansion in quantum fluctuations around one of the classical limits. We explicitly analyze expansions around three such limits: (i) corpuscular or Newtonian limit in the coordinate-momentum representation, (ii) wave or Gross-Pitaevskii limit for interacting bosons in the coherent state representation, and (iii) Bloch limit for the spin systems. We discuss both the semiclassical (truncated Wigner) approximation and further quantum corrections appearing in the form of either stochastic quantum jumps along the classical trajectories or the nonlinear response to such jumps. We also discuss how quantum jumps naturally emerge in the analysis of non-equal time correlation functions. This representation of quantum dynamics is closely related to the phase space methods based on the Wigner-Weyl quantization and to the Keldysh technique. We show how such concepts as the Wigner function, Weyl symbol, Moyal product, Bopp operators, and others automatically emerge from the Feynmann's path integral representation of the evolution in the Heisenberg representation. We illustrate the applicability of this expansion with various examples mostly in the context of cold atom systems including sine-Gordon model, one- and two-dimensional Bose-Hubbard model, Dicke model and others.     

Noise-induced extinction in Bazykin-Berezovskaya population model

A nonlinear Bazykin-Berezovskaya prey-predator model under the influence of parametric stochastic forcing is considered. Due to Allee effect, this conceptual population model even in the deterministic case demonstrates both local and global bifurcations with the change of predator mortality. It is shown that random noise can transform system dynamics from the regime of coexistence, in equilibrium or periodic modes, to the extinction of both species. Geometry of attractors and separatrices, dividing basins of attraction, plays an important role in understanding the probabilistic mechanisms of these stochastic phenomena. Parametric analysis of noise-induced extinction is carried out on the base of the direct numerical simulation and new analytical stochastic sensitivity functions technique taking into account the arrangement of attractors and separatrices.     

Thermostatting the atomic spin dynamics from controlled demons

Deterministic dynamics in extended phase space of a constant temperature interacting spin system is formulated. The spin temperature is recovered through the constrained equation of motion and is in agreement with Rugh’s geometrical approach to temperature for classical Heisenberg spin systems. Detailed comparisons are investigated between state-of-the-art stochastic spin dynamics and deterministic dynamics using a chain of thermostats, for which an accelerated convergence structure is found.     

Synchronization in networks with random interactions: theory and applications

Synchronization is an emergent property in networks of interacting dynamical elements. Here we review some recent results on synchronization in randomly coupled networks. Asymptotical behavior of random matrices is summarized and its impact on the synchronization of network dynamics is presented. Robert May's results on the stability of equilibrium points in linear dynamics are first extended to systems with time delayed coupling and then nonlinear systems where the synchronized dynamics can be periodic or chaotic. Finally, applications of our results to neuroscience, in particular, networks of Hodgkin-Huxley neurons, are included.     

Small Open Chemical Systems Theory：Its Implications to Darwinian Evolution Dynamics,Complex Self-Organization and Beyond

The study of biological cells in terms of mesoscopic, nonequilibrium, nonlinear, stochastic dynamics of open chemical systems provides a paradigm for other complex, self-organizing systems with ultra-fast stochastic fluctuations, short-time deterministic nonlinear dynamics, and long-time evolutionary behavior with exponentially distributed rare events, discrete jumps among punctuated equilibria, and catastrophe.     

Stochastic resonance and noise delayed extinction in a model of two competing species

We study the role of the noise in the dynamics of two competing species. We consider generalized Lotka–Volterra equations in the presence of a multiplicative noise, which models the interaction between the species and the environment. The interaction parameter between the species is a random process which obeys a stochastic differential equation with a generalized bistable potential in the presence of a periodic driving term, which accounts for the environment temperature variation. We find noise-induced periodic oscillations of the species concentrations and stochastic resonance phenomenon. We find also a nonmonotonic behavior of the mean extinction time of one of the two competing species as a function of the additive noise intensity.     

Mode-coupling theory for purely diffusive systems

A mode-coupling formalism is developed for multicomponent systems of particles performing diffusive motion in a uniform host medium. The mode-coupling equations are derived from a set of nonlinear fluctuating diffusion equations by expanding the concentration-dependent diffusion constants about their equilibrium values. From the mode-coupling equations the dominant long time behavior of current-current and super-Burnett correlation functions is derived. As specific applications I consider the long time behaviors of these correlation functions for collective and tracer diffusion in a one-component lattice gas with particle-conserving stochastic dynamics. The results agree with those from exactly solvable models and computer simulations.     

Distributed delays stabilize ecological feedback systems

We consider the effect of distributed delays in predator-prey models and ecological food webs. Whereas the occurrence of delays in population dynamics is usually regarded a destabilizing factor leading to the extinction of species, we here demonstrate complementarily that delay distributions yield larger stability regimes than single delays. Food webs with distributed delays closely resemble nondelayed systems in terms of ecological stability measures. Thus, we state that dependence of dynamics on multiple instances in the past is an important, but so far underestimated, factor for stability in dynamical systems.     

Photon statistics for single-molecule nonlinear spectroscopy

We develop the theory of nonlinear spectroscopy for a single molecule undergoing stochastic dynamics and interacting with a sequence of two laser pulses. We find general expressions for the photon counting statistics and the exact solution to the problem for the Kubo-Anderson process. In the limit of impulsive pulses the information on the photon statistics is contained in the molecule's dipole correlation function. The selective limit, the semiclassical approximation, and the fast modulation limit exhibit rich general behaviors of this new type of spectroscopy. We show how the design of external fields leads to insights on ultrafast dynamics of individual molecules that are different from those found for an ensemble.