Adaptation dynamics of the quasispecies model

We study the adaptation dynamics of an initially maladapted population evolving via the elementary processes of mutation and selection. The evolution occurs on rugged fitness landscapes which are defined on the multi-dimensional genotypic space and have many local peaks separated by low fitness valleys. We mainly focus on the Eigen's model that describes the deterministic dynamics of an infinite number of self-replicating molecules. In the stationary state, for small mutation rates such a population forms a {\it quasispecies} which consists of the fittest genotype and its closely related mutants. The quasispecies dynamics on rugged fitness landscape follow a punctuated (or step-like) pattern in which a population jumps from a low fitness peak to a higher one, stays there for a considerable time before shifting the peak again and eventually reaches the global maximum of the fitness landscape. We calculate exactly several properties of this dynamical process within a simplified version of the quasispecies model.Comment: Proceedings of Statphys conference at IIT Guwahati, to be published in Praman

Exploring NK Fitness Landscapes Using Imitative Learning

The idea that a group of cooperating agents can solve problems more efficiently than when those agents work independently is hardly controversial, despite our obliviousness of the conditions that make cooperation a successful problem solving strategy. Here we investigate the performance of a group of agents in locating the global maxima of NK fitness landscapes with varying degrees of ruggedness. Cooperation is taken into account through imitative learning and the broadcasting of messages informing on the fitness of each agent. We find a trade-off between the group size and the frequency of imitation: for rugged landscapes, too much imitation or too large a group yield a performance poorer than that of independent agents. By decreasing the diversity of the group, imitative learning may lead to duplication of work and hence to a decrease of its effective size. However, when the parameters are set to optimal values the cooperative group substantially outperforms the independent agents

Funnels in Energy Landscapes

Local minima and the saddle points separating them in the energy landscape are known to dominate the dynamics of biopolymer folding. Here we introduce a notion of a "folding funnel" that is concisely defined in terms of energy minima and saddle points, while at the same time conforming to a notion of a "folding funnel" as it is discussed in the protein folding literature.Comment: 6 pages, 3 figures, submitted to European Conference on Complex Systems 200