Quasispecies Theory for Horizontal Gene Transfer and Recombination

TL;DR

This paper extends classical quasispecies models to include horizontal gene transfer and recombination, providing exact solutions and analyzing their effects on population fitness under various fitness landscapes.

Contribution

It introduces a solvable, generalized quasispecies framework incorporating recombination and horizontal gene transfer, with analytical formulas for steady-state fitness.

Findings

Recombination can increase or decrease fitness depending on epistasis.

Exact formulas for equilibrium mean fitness are derived for permutation-invariant functions.

Horizontal gene transfer has no effect on sharp peak landscapes, while recombination decreases fitness.

Abstract

We introduce a generalization of the parallel, or Crow-Kimura, and Eigen models of molecular evolution to represent the exchange of genetic information between individuals in a population. We study the effect of different schemes of genetic recombination on the steady-state mean fitness and distribution of individuals in the population, through an analytic field theoretic mapping. We investigate both horizontal gene transfer from a population and recombination between pairs of individuals. Somewhat surprisingly, these nonlinear generalizations of quasi-species theory to modern biology are analytically solvable. For two-parent recombination, we find two selected phases, one of which is spectrally rigid. We present exact analytical formulas for the equilibrium mean fitness of the population, in terms of a maximum principle, which are generally applicable to any permutation invariant replication rate function. For smooth fitness landscapes, we show that when positive epistatic interactions are present, recombination or horizontal gene transfer introduces a mild load against selection. Conversely, if the fitness landscape exhibits negative epistasis, horizontal gene transfer or recombination introduce an advantage by enhancing selection towards the fittest genotypes. These results prove that the mutational deterministic hypothesis holds for quasi-species models. For the discontinuous single sharp peak fitness landscape, we show that horizontal gene transfer has no effect on the fitness, while recombination decreases the fitness, for both the parallel and the Eigen models. We present numerical and analytical results as well as phase diagrams for the different cases.