Related papers: Quasispecies and recombination
This paper develops a quasispecies model where cells can adopt a two-cell survival strategy. Within this strategy, pairs of cells join together, at which point one of the cells sacrifices its own replicative ability for the sake of the…
In this article we present a new p-adic generalization of the Eigen-Schuster model where the genomes (sequences) are represented by words written in the alphabet 0,1,,p-1, where p is a prime number, with a time variable length. The time…
In this review some simple models of asexual populations evolving on smooth landscapes are studied. The basic model is based on a cellular automaton, which is analyzed here in the spatial mean-field limit. Firstly, the evolution on a fixed…
A quasispecies is the stationary state of a set of interrelated genotypes that evolve according to the usual principles of selection and mutation. Quasispecies studies have invariably concentrated on the possibility of errors during…
We investigate the competition between two quasispecies residing on two disparate neutral networks. Under the assumption that the two neutral networks have different topologies and fitness levels, it is the mutation rate that determines…
We examine a model of biological evolution of Eigen's quasispecies in a holey fitness landscape, where the fitness of a site is either 0 (lethal site) or a uniform positive constant (viable site). So, the evolution dynamics is determined by…
Molecular phenotypes are important links between genomic information and organismic functions, fitness, and evolution. Complex phenotypes, which are also called quantitative traits, often depend on multiple genomic loci. Their evolution…
We consider the general properties of the quasispecies dynamical system from the standpoint of its evolution and stability. Vector field analysis as well as spectral properties of such system has been studied. Mathematical modelling of the…
We use finite-size scaling to investigate the critical behavior of the quasiespecies model of molecular evolution in the single-sharp-peak replication landscape. This model exhibits a sharp threshold phenomenon at Q=Q_c=1/a, where Q is the…
This paper develops a simplified model for sexual replication within the quasispecies formalism. We assume that the genomes of the replicating organisms are two-chromosomed and diploid, and that the fitness is determined by the number of…
This paper extends the semiconservative quasispecies equations to account for arbitrary post-replication lesion repair efficiency. Such an extension could be an important tool for understanding processes such as cancer development and stem…
We consider load controlled quasistatic evolution. Well posedness results for the nonlocal continuum model related to peridynamics are established. We show local existence and uniqueness of quasistatic evolution for load paths originating…
We investigate a multi-locus evolutionary model which is based on the DNA shuffling protocol widely applied in \textit{in vitro} directed evolution. This model incorporates selection, recombination and point mutations. The simplicity of the…
We present an extension of Eigen's model for quasi-species including the competition among individuals, proposed as the simplest mechanism for the formation of new species in a smooth fitness landscape. We are able to obtain analytically…
Maintenance of sexual reproduction and genetic recombination imposes physiological costs when compared to parthenogenic reproduction, most prominently: for maintaining the corresponding (molecular) machinery, for finding a mating partner,…
The effect of quenched disorder on the low-energy and low-temperature properties of various two- and three-dimensional Heisenberg models is studied by a numerical strong disorder renormalization group method. For strong enough disorder we…
We show that the Eigen model and the asexual Wright-Fisher model can be obtained as different limit cases of a unique stochastic model. This derivation makes clear which are the exact differences between these two models. The two key…
This paper develops a formulation of the quasispecies equations appropriate for polysomic, semiconservatively replicating genomes. This paper is an extension of previous work on the subject, which considered the case of haploid genomes.…
Crossover is the process of recombining the genetic features of two parents. For many applications where crossover is applied to permutations, relevant genetic features are pairs of adjacent elements, also called edges in the permutation…
We have analyzed the relations between the mutational pressure, recombination and selection pressure in the bit-string model with sexual reproduction. For specific sets of these parameters we have found three phase transitions with one…