arXiv subjects

R. V. Sole

Publications and source records attributed to R. V. Sole.

4 recordsLinked to original sources

arXiv2006

Synthetic Turing protocells: vesicle self-reproduction through symmetry-breaking instabilities

The reproduction of a living cell requires a repeatable set of chemical events to be properly coordinated. Such events define a replication cycle, coupling the growth and shape change of the cell membrane with internal metabolic reactions. Although the logic of such process is determined by potentially simple physico-chemical laws, the modeling of a full, self-maintained cell cycle is not trivial. Here we present a novel approach to the problem which makes use of so called symmetry breaking instabilities as the engine of cell growth and division. It is shown that the process occurs as a consequence of the breaking of spatial symmetry and provides a reliable mechanism of vesicle growth and reproduction. Our model opens the possibility of a synthetic protocell lacking information but displaying self-reproduction under a very simple set of chemical reactions.

q-bio.CB↗

arXiv2002

On the origin of plankton patchiness

Plankton is the productive base of aquatic ecosystems and plays a major role in the global control of atmospheric carbon dioxide. Nevertheless, after intensive study, the factors that drive its spatial distribution are still far from being clear. The models proposed so far show very limited agreement with actual data as many of their results are not consistent with field observations. Here we show that fluctuations and turbulent diffusion in standard prey-predator models are able to accurately and consistently explain plankton field observations at mesoscales (1-100 km). This includes not only the spatial pattern but also its temporal evolution. We explicitly elucidate the interplay between physical and biological factors, suggesting that the form in which small scale biotic fluctuations are transferred to larger scales may constitute one of the key elements in determining the spatial distribution of plankton in the sea.

physics.bio-ph↗

arXiv2002

Scale-free Networks from Optimal Design

A large number of complex networks, both natural and artificial, share the presence of highly heterogeneous, scale-free degree distributions. A few mechanisms for the emergence of such patterns have been suggested, optimization not being one of them. In this letter we present the first evidence for the emergence of scaling (and smallworldness) in software architecture graphs from a well-defined local optimization process. Although the rules that define the strategies involved in software engineering should lead to a tree-like structure, the final net is scale-free, perhaps reflecting the presence of conflicting constraints unavoidable in a multidimensional optimization process. The consequences for other complex networks are outlined.

cond-mat.stat-mech↗

arXiv2001

Optimization in complex networks

Many complex systems can be described in terms of networks of interacting units. Recent studies have shown that a wide class of both natural and artificial nets display a surprisingly widespread feature: the presence of highly heterogeneous distributions of links, providing an extraordinary source of robustness against perturbations. Although most theories concerning the origin of these topologies use growing graphs, here we show that a simple optimization process can also account for the observed regularities displayed by most complex nets. Using an evolutionary algorithm involving minimization of link density and average distance, four major types of networks are encountered: (a) sparse exponential-like networks, (b) sparse scale-free networks, (c) star networks and (d) highly dense networks, apparently defining three major phases. These constraints provide a new explanation for scaling of exponent about -3. The evolutionary consequences of these results are outlined.

cond-mat.dis-nn↗