Related papers: Bacterial Evolution and Bak-Sneppen Model
The generalized stochastic Loewner evolution (SLE) driven by reversible Langevin dynamics was theoretically investigated in the context of non-equilibrium statistical mechanics. The recent study of the authors revealed that the Loewner…
These lectures contain a brief description of evolutionary models inspired by the statistical mechanics of disordered systems. After an introduction describing the Darwinian paradigm of evolving populations, the deterministic quasispecies…
In this paper we develop and test algorithmic techniques to estimate genotypes fitnesses by analysis of observed daily frequency data monitoring the long-term evolution of bacterial populations. In particular, we develop a non-linear least…
We consider two, apparently similar, models of biological evolution which have been claimed to exhibit self-organized critical behaviour. A careful reanalysis of these models, including several new analytic results for one of them, suggests…
The Darwinian paradigm of biological evolution is based on the separability of the variation and selection processes. As a result, the population thinking had always been an integral part of the Darwinian approach. I propose an alternative…
It has recently been suggested that the fundamental haploid-diploid cycle of eukaryotic sex exploits a rudimentary form of the Baldwin effect. Thereafter the other associated phenomena can be explained as evolution tuning the amount and…
In this work we study the effects of introducing long range interactions in the Bak-Sneppen (BS) model of biological evolution. We analyze a recebtly propopsed version of the BS model where the interactions decay as r^{-alpha}; in this way…
We discuss the evaluation of Luria-Delbrueck fluctuation experiments under Bellman-Harris models of cell proliferation. It is shown that under certain very natural assumptions concerning the life-time distributions and the offspring…
The idea that there are any large-scale trends in the evolution of biological organisms is highly controversial. It is commonly believed, for example, that there is a large-scale trend in evolution towards increasing complexity, but…
Stochastic models, based on random processes, may lead to power law distributions, which provide long range correlations. The observation of power law behavior and the presence of long range correlations in biological systems has been…
How multicellular life forms evolved out from unicellular ones constitutes a major problem in our understanding of the evolution of our biosphere. A recent set of experiments involving yeast cell populations has shown that selection for…
The solution space of genome-scale models of cellular metabolism provides a map between physically viable flux configurations and cellular metabolic phenotypes described, at the most basic level, by the corresponding growth rates. By…
We develop a macroscopic description of the evolutionary dynamics by following the temporal dynamics of the total Shannon entropy of sequences, denoted by $S$, and the average Hamming distance between them, denoted by $H$. We argue that a…
We show, that the specific distribution of gene's length, which is observed in natural genomes, might be a result of a growth process, in which a single length scale $L(t)$ develops that grows with time as $t^{1/3}$. This length scale could…
We show that the emergence of criticality in the locally-defined Bak-Sneppen model corresponds to separation over a hierarchy of timescales. Near to the critical point the model obeys scaling relations, with exponents which we derive…
We introduce a set-valued solution concept, M equilibrium, to capture empirical regularities from over half a century of game-theory experiments. We show M equilibrium serves as a meta theory for various models that hitherto were considered…
Interaction strength is introduced in a model of evolution in d-dimension space. It is realized by imposing a constraint concerning 2d differences of fitnesses between that of any extremal site and those of its 2d nearest neighbours at each…
Due to the conventional distinction between ecological (rapid) and evolutionary (slow)timescales, ecological and population models to date have typically ignored the effects of evolution. Yet the potential for rapid evolutionary change has…
Evolutionary experiments with microbes are a powerful tool to study mutations and natural selection. These experiments, however, are often limited to the well-mixed environments of a test tube or a chemostat. Since spatial organization can…
We model the growth of a cell population using a piecewise deterministic Markov branching tree. In this model, each cell splits into two offspring at a division rate $B(x)$, which depends on its size $x$. The size of each cell increases…