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Biomedical subjects

P F Stadler

Publications and source records attributed to P F Stadler.

4 recordsLinked to original sources

Mutation in autocatalytic reaction networks. An analysis based on perturbation theory.

A class of kinetic equations describing catalysed and template induced replication, and mutation is introduced. This ODE in its most general form is split into two vector fields, a replication and a mutation field. The mutation field is considered as a perturbation of the replicator equation. The perturbation expansion is a Taylor series in a mutation parameter lambda. First, second and higher order contributions are computed by means of the conventional Rayleigh-Schrödinger approach. Qualitative shift in the positions of rest points and limit cycles on the boundary of the physically meaningful part of concentration space are predicted from flow topologies. The results of the topological analysis are summarized in two theorems which turned out to be useful in applications: the rest point migration theorem (RPM) and the limit cycle migration theorem (LCM). Quantitative expressions for the shifts of rest points are computed directly from the perturbation expansion. The concept is applied to a collection of selected examples from biophysical chemistry and biology.

Catalysis

Complementary replication.

Differential equations for the kinetics of complementary replicating macromolecules in a flow reactor are derived. It is shown that such a model has many features in common with the differential equation for direct replication, the replicator equation. Two special cases of replication, and the influence of mutation on them, have been studied in detail. In the case of first-order mass action kinetics--the quasi-species model--complementary replication, like direct replication, exhibits an error threshold for the replication accuracy, below which the genetic information is lost. In turns out that the long-time behavior of many special cases of the second-order kinetics model can be described in terms of second-order replicator equations, although this is not possible in general.

Base Sequence

Dynamics of autocatalytic reaction networks. IV: Inhomogeneous replicator networks.

The inhomogeneous replicator equation is derived as the continuous time model for parallel first and second order autocatalytic replication of macromolecules in a flow reactor based on mass action kinetics. It is shown that the total concentration of replicating material determines the relative importance of the first order and the second order mechanism. A complete description of the dynamics of the first order model and some special features of the inhomogeneous replicator equation are presented. A minimal prebiotic scenario with the potentiality to develop cooperation is derived from the inhomogeneous replicator equation. In this model cooperation can emerge when the total concentration of replication material exceeds a certain threshold. Below this value, a single species is selected; which one is determined by the rate constants of the first order reaction alone. Above this threshold the second order process becomes important and may lead to cooperative behavior such as hypercycles.

Biological Evolution

Dynamics of small autocatalytic reaction networks--I. Bifurcations, permanence and exclusion.

Catalysis in replication networks has become an important issue in biophysics and other areas of biology. Examples are RNA catalysis, idiotype recognition in the immune response and dynamical models of Maynard-Smith games in sociobiology. Chemical reaction networks describing catalysed, template-induced reproduction of three species are analysed in full generality. The nine-dimensional parameter space is reduced to three relevant angular coordinates which determine completely the phase portraits (PPs) and the bifurcation patterns. All cases are classified and all generic as well as most of the non-generic transitions are listed and described.

Catalysis