Searcharxiv⌕ Search

arXiv subjects

Debashish Chowdhury

Publications and source records attributed to Debashish Chowdhury.

At least 91 records · Page 5Linked to original sources
arXiv2005

Evolutionary ecology in-silico: Does mathematical modelling help in understanding the "generic" trends?

Motivated by the results of recent laboratory experiments (Yoshida et al. Nature, 424, 303-306 (2003)) as well as many earlier field observations that evolutionary changes can take place in ecosystems over relatively short ecological time scales, several ``unified'' mathematical models of evolutionary ecology have been developed over the last few years with the aim of describing the statistical properties of data related to the evolution of ecosystems. Moreover, because of the availability of sufficiently fast computers, it has become possible to carry out detailed computer simulations of these models. For the sake of completeness and to put these recent developments in the proper perspective, we begin with a brief summary of some older models of ecological phenomena and evolutionary processes. However, the main aim of this article is to review critically these ``unified'' models, particularly those published in the physics literature, in simple language that makes the new theories accessible to wider audience.

q-bio.PE↗
arXiv2004

Collective effects in traffic on bi-directional ant-trails

Motivated by recent experimental work of Burd et al., we propose a model of bi-directional ant-traffic on pre-existing ant-trails. It captures in a simple way some of the generic collective features of movements of real ants on a trail. Analyzing this model, we demonstrate that there are crucial qualitative differences between vehicular- and ant-traffics. In particular, we predict some unusual features of the flow rate that can be tested experimentally. As in the uni-directional model a non-monotonic density-dependence of the average velocity can be observed in certain parameter regimes. As a consequence of the interaction between oppositely moving ants the flow rate can become approximately constant over some density interval.

cond-mat.stat-mech↗
arXiv2004

Evolving eco-system: a network of networks

Ecology and evolution are inseparable. Motivated by some recent experiments, we have developed models of evolutionary ecology from the perspective of dynamic networks. In these models, in addition to the intra-node dynamics, which corresponds to an individual-based population dynamics of species, the entire network itself changes slowly with time to capture evolutionary processes. After a brief summary of our recent published works on these network models of eco-systems, we extend the most recent version of the model incorporating predators that wander into neighbouring spatial patches for food.

q-bio.PE↗
arXiv2004

Evolutionary ecology in-silico:evolving foodwebs, migrating population and speciation

We have generalized our ``unified'' model of evolutionary ecology by taking into account the possible movements of the organisms from one ``patch'' to another within the same eco-system. We model the spatial extension of the eco-system (i.e., the geography) by a square lattice where each site corresponds to a distinct ``patch''. A self-organizing hierarchical food web describes the prey-predator relations in the eco-system. The same species at different patches have identical food habits but differ from each other in their reproductive characteristic features. By carrying out computer simulations up to $10^9$ time steps, we found that, depending on the values of the set of parameters, the distribution of the lifetimes of the species can be either exponential or a combination of power laws. Some of the other features of our ``unified'' model turn out to be robust against migration of the organisms.

q-bio.PE↗
arXiv2004

Self-organized patterns and traffic flow in colonies of organisms: from bacteria and social insects to vertebrates

Flocks of birds and schools of fish are familiar examples of spatial patterns formed by living organisms. In contrast to the patterns on the skins of, say, zebra and giraffe, the patterns of our interest are {\it transient} although different patterns change over different time scales. The aesthetic beauty of these patterns have attracted the attentions of poets and philosophers for centuries. Scientists from various disciplines, however, are in search of common underlying principles that give rise to the transient patterns in colonies of organisms. Such patterns are observed not only in colonies of organisms as simple as single-cell bacteria, as interesting as social insects like ants and termites as well as in colonies of vertebrates as complex as birds and fish but also in human societies. In recent years, particularly over the last one decade, physicists have utilized the conceptual framework as well as the methodological toolbox of statistical mechanics to unravel the mystery of these patterns. In this article we present an overview emphasizing the common trends that rely on theoretical modelling of these systems using the so-called agent-based Lagrangian approach.

q-bio.PE↗
arXiv2003

Computer simulations of history of life: speciation, emergence of complex species from simpler organisms, and extinctions

We propose a generic model of eco-systems, with a {\it hierarchical} food web structure. In our computer simulations we let the eco-system evolve continuously for so long that that we can monitor extinctions as well as speciations over geological time scales. {\it Speciation} leads not only to horizontal diversification of species at any given trophic level but also to vertical bio-diversity that accounts for the emergence of complex species from simpler forms of life. We find that five or six trophic levels appear as the eco-system evolves for sufficiently long time, starting initially from just one single level. Moreover, the time intervals between the successive collections of ecological data is so short that we could also study ``micro''-evolution of the eco-system, i.e., the birth, ageing and death of individual organisms.

q-bio.PE↗
arXiv2003

Anomalous fundamental diagrams in traffic on ant trails

Many insects like ants communicate chemically via chemotaxis. This allows them to build large trail systems which in many respects are similar to human-build highway networks. Using a recently proposed stochastic cellular automaton model we discuss the basic properties of the traffic flow on existing trails. Surprisingly it is found that in certain regimes the average speed of the ants can vary non-monotonically with their density. This is in sharp contrast to highway traffic. The observations can be understood by the formation of loose clusters, i.e. space regions of enhanced, but not maximal, density. We also discuss the effect of counterflow on the trails.

cond-mat.stat-mech↗
arXiv2003

A food-web based unified model of "macro"- and "micro-" evolution

We incorporate the generic hierarchical architecture of foodwebs into a "{\it unified}" model that describes both "micro" and "macro" evolutions within a single theoretical framework. This model describes the "micro" -evolution in detail by accounting for the birth, ageing and natural death of individual organisms as well as prey-predator interactions on a hierarchical dynamic food web. It also provides a natural description of random mutations and speciation/orgination of species as well as their extinctions. The distribution of lifetimes of species follows an approximate power law only over a limited regime.

cond-mat.stat-mech↗
arXiv2003

Traffic flow of interacting self-driven particles: rails and trails, vehicles and vesicles

One common feature of a vehicle, an ant and a kinesin motor is that they all convert chemical energy, derived from fuel or food, into mechanical energy required for their forward movement; such objects have been modelled in recent years as {\it self-driven} ``particles''. Cytoskeletal filaments, e.g., microtubules, form a ``rail'' network for intra-cellular transport of vesicular cargo by molecular motors like, for example, kinesins. Similarly, ants move along trails while vehicles move along lanes. Therefore, the traffic of vehicles and organisms as well as that of molecular motors can be modelled as systems of interacting self-driven particles; these are of current interest in non-equilibrium statistical mechanics. In this paper we point out the common features of these model systems and emphasize the crucial differences in their physical properties.

cond-mat.stat-mech↗
arXiv2003

A cellular-automata model of flow in ant-trails: non-monotonic variation of speed with density

Generically, in models of driven interacting particles the average speed of the particles decreases monotonically with increasing density. We propose a counter-example, motivated by the motion of ants in a trail, where the average speed of the particles varies {\it non-monotonically} with their density because of the coupling of their dynamics with another dynamical variable. These results, in principle, can be tested experimentally.

cond-mat.stat-mech↗
arXiv2002

Cluster formation and anomalous fundamental diagram in an ant trail model

A recently proposed stochastic cellular automaton model ({\it J. Phys. A 35, L573 (2002)}), motivated by the motions of ants in a trail, is investigated in detail in this paper. The flux of ants in this model is sensitive to the probability of evaporation of pheromone, and the average speed of the ants varies non-monotonically with their density. This remarkable property is analyzed here using phenomenological and microscopic approximations thereby elucidating the nature of the spatio-temporal organization of the ants. We find that the observations can be understood by the formation of loose clusters, i.e. space regions of enhanced, but not maximal, density.

cond-mat.stat-mech↗
arXiv2002

Power of the power-laws: lessons from unification of small and large time scales for evolution

We develop a ``unified'' model that describes both ``micro'' and ``macro'' evolutions within a single theoretical framework. The eco-system is described as a dynamic network; the population dynamics at each node of this network describes the ``micro''-evolution over ecological time scales (i.e., birth, ageing and natural death of individual organisms) while the appearance of new nodes, the slow changes of the links and the disappearance of existing nodes accounts for the ``macro'' evolution over geological time scales (i.e., the origination, evolution and extinction of species). In contrast to several earlier claims in the literature, we observe strong deviations from power law in the regime of long life times where the statistics is, usually, poor.

cond-mat.stat-mech↗
arXiv2002

Sole-Manrubia model of biological evolution: some new insights

The Sole-Manrubia model of ``macro''-evolution describes the origination, evolution and extinction of species on geological time scales. We report some properties of this model which provide deep insight into this simple model which captures several realistic features.

cond-mat.stat-mech↗
arXiv2001

Flow properties of driven-diffusive lattice gases: theory and computer simulation

We develop n-cluster mean-field theories (0 < n < 5) for calculating the flow properties of the non-equilibrium steady-states of the Katz-Lebowitz-Spohn model of the driven diffusive lattice gas, with attractive and repulsive inter-particle interactions, in both one and two dimensions for arbitrary particle densities, temperature as well as the driving field. We compare our theoretical results with the corresponding numerical data we have obtained from the computer simulations to demonstrate the level of accuracy of our theoretical predictions. We also compare our results with those for some other prototype models, notably particle-hopping models of vehicular traffic, to demonstrate the novel qualitative features we have observed in the Katz-Lebowitz-Spohn model, emphasizing, in particular, the consequences of repulsive inter-particle interactions.

cond-mat.stat-mech↗
arXiv2000

Statistical Physics of Vehicular Traffic and Some Related Systems

In the so-called "microscopic" models of vehicular traffic, attention is paid explicitly to each individual vehicle each of which is represented by a "particle"; the nature of the "interactions" among these particles is determined by the way the vehicles influence each others' movement. Therefore, vehicular traffic, modeled as a system of interacting "particles" driven far from equilibrium, offers the possibility to study various fundamental aspects of truly nonequilibrium systems which are of current interest in statistical physics. Analytical as well as numerical techniques of statistical physics are being used to study these models to understand rich variety of physical phenomena exhibited by vehicular traffic. Some of these phenomena, observed in vehicular traffic under different circumstances, include transitions from one dynamical phase to another, criticality and self-organized criticality, metastability and hysteresis, phase-segregation, etc. In this critical review, written from the perspective of statistical physics, we explain the guiding principles behind all the main theoretical approaches. But we present detailed discussions on the results obtained mainly from the so-called "particle-hopping" models, particularly emphasizing those which have been formulated in recent years using the language of cellular automata.

cond-mat.stat-mech↗
arXiv2000

Cross-linking of micelles by gemini surfactants

We investigate the effects of gemini surfactants, telechelic chain and lipids on the nature of micelles formed by conventional single-tail surfactants in water by carrying out Monte Carlo simulations. In a mixture of gemini and single-tail surfactants in water we find direct evidence of micelles of predominantly single-tail surfactants some of which are dynamically cross-linked by gemini surfactants when the concentrations of the geminis is only a few mole percent and their spacers are {\it hydrophilic}. In contrast, mixtures of lipids and single-tail surfactants in water form only isolated micelles, each consisting of a mixture of both species, without cross-links.

cond-mat.stat-mech↗
arXiv2000

Steady-states and kinetics of ordering in bus-route models: connection with the Nagel-Schreckenberg model

A Bus Route Model (BRM) can be defined on a one-dimensional lattice, where buses are represented by "particles" that are driven forward from one site to the next with each site representing a bus stop. We replace the random sequential updating rules in an earlier BRM by parallel updating rules. In order to elucidate the connection between the BRM with parallel updating (BRMPU) and the Nagel-Schreckenberg (NaSch) model, we propose two alternative extensions of the NaSch model with space-/time-dependent hopping rates. Approximating the BRMPU as a generalization of the NaSch model, we calculate analytically the steady-state distribution of the {\it time headways} (TH) which are defined as the time intervals between the departures (or arrivals) of two successive particles (i.e., buses) recorded by a detector placed at a fixed site (i.e., bus stop) on the model route. We compare these TH distributions with the corresponding results of our computer simulations of the BRMPU, as well as with the data from the simulation of the two extended NaSch models. We also investigate interesting kinetic properties exhibited by the BRMPU during its time evolution from random initial states towards its steady-states.

cond-mat.stat-mech↗