In silico transitions to multicellularity

The emergence of multicellularity and developmental programs are among the major problems of evolutionary biology. Traditionally, research in this area has been based on the combination of data analysis and experimental work on one hand and theoretical approximations on the other. A third possibility is provided by computer simulation models, which allow to both simulate reality and explore alternative possibilities. These in silico models offer a powerful window to the possible and the actual by means of modeling how virtual cells and groups of cells can evolve complex interactions beyond a set of isolated entities. Here we present several examples of such models, each one illustrating the potential for artificial modeling of the transition to multicellularity.Comment: 21 pages, 10 figures. Book chapter of Evolutionary transitions to multicellular life (Springer

Velocity Distribution in a Viscous Granular Gas

We investigate the velocity relaxation of a viscous one-dimensional granular gas, that is, one in which neither energy nor momentum is conserved in a collision. Of interest is the distribution of velocities in the gas as it cools, and the time dependence of the relaxation behavior. A Boltzmann equation of instantaneous binary collisions leads to a two-peaked distribution with each peak relaxing to zero velocity as 1/t while each peak also narrows as 1/t. Numerical simulations of grains on a line also lead to a double-peaked distribution that narrows as 1/t. A Maxwell approximation leads to a single-peaked distribution about zero velocity with power-law wings. This distribution narrows exponentially. In either case, the relaxing distribution is not of Maxwell-Boltzmann form

Parabolic dunes in north-eastern Brazil

In this work we present measurements of vegetation cover over parabolic dunes with different degree of activation along the north-eastern Brazilian coast. We are able to extend the local values of the vegetation cover density to the whole dune by correlating measurements with the gray-scale levels of a high resolution satellite image of the dune field. The empirical vegetation distribution is finally used to validate the results of a recent continuous model of dune motion coupling sand erosion and vegetation growth.Comment: 18 pages, 14 figures, aubmitted to Geomorpholog

Droplet and cluster formation in freely falling granular streams

Particle beams are important tools for probing atomic and molecular interactions. Here we demonstrate that particle beams also offer a unique opportunity to investigate interactions in macroscopic systems, such as granular media. Motivated by recent experiments on streams of grains that exhibit liquid-like breakup into droplets, we use molecular dynamics simulations to investigate the evolution of a dense stream of macroscopic spheres accelerating out of an opening at the bottom of a reservoir. We show how nanoscale details associated with energy dissipation during collisions modify the stream's macroscopic behavior. We find that inelastic collisions collimate the stream, while the presence of short-range attractive interactions drives structure formation. Parameterizing the collision dynamics by the coefficient of restitution (i.e., the ratio of relative velocities before and after impact) and the strength of the cohesive interaction, we map out a spectrum of behaviors that ranges from gas-like jets in which all grains drift apart to liquid-like streams that break into large droplets containing hundreds of grains. We also find a new, intermediate regime in which small aggregates form by capture from the gas phase, similar to what can be observed in molecular beams. Our results show that nearly all aspects of stream behavior are closely related to the velocity gradient associated with vertical free fall. Led by this observation, we propose a simple energy balance model to explain the droplet formation process. The qualitative as well as many quantitative features of the simulations and the model compare well with available experimental data and provide a first quantitative measure of the role of attractions in freely cooling granular streams

Cooling and aggregation in wet granulates

Wet granular materials are characterized by a defined bond energy in their particle interaction such that breaking a bond implies an irreversible loss of a fixed amount of energy. Associated with the bond energy is a nonequilibrium transition, setting in as the granular temperature falls below the bond energy. The subsequent aggregation of particles into clusters is shown to be a self-similar growth process with a cluster size distribution that obeys scaling. In the early phase of aggregation the clusters are fractals with D_f=2, for later times we observe gelation. We use simple scaling arguments to derive the temperature decay in the early and late stages of cooling and verify our results with event-driven simulations.Comment: 4 pages, 6 figures, suggestions of the referees implemented, EPAPS supplementary material added: http://netserver.aip.org/cgi-bin/epaps?ID=E-PRLTAO-102-00391

Dilute Wet Granulates: Nonequilibrium Dynamics and Structure Formation

We investigate a gas of wet granular particles, covered by a thin liquid film. The dynamic evolution is governed by two-particle interactions, which are mainly due to interfacial forces in contrast to dry granular gases. When two wet grains collide, a capillary bridge is formed and stays intact up to a certain distance of withdrawal when the bridge ruptures, dissipating a fixed amount of energy. A freely cooling system is shown to undergo a nonequillibrium dynamic phase transition from a state with mainly single particles and fast cooling to a state with growing aggregates, such that bridge rupture becomes a rare event and cooling is slow. In the early stage of cluster growth, aggregation is a self-similar process with a fractal dimension of the aggregates approximately equal to D_f ~ 2. At later times, a percolating cluster is observed which ultimately absorbs all the particles. The final cluster is compact on large length scales, but fractal with D_f ~ 2 on small length scales.Comment: 14 pages, 20 figure