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Genetic demixing and evolution in linear stepping stone models

K. S. Korolev*, Mikkel Avlund, Oskar Hallatschek, and David R. Nelson†

K. S. Korolev*

  • Department of Physics and FAS Center for Systems Biology, Harvard University, Cambridge, Massachusetts 02138, USA

Mikkel Avlund

  • Department of Physics and FAS Center for Systems Biology, Harvard University, Cambridge, Massachusetts 02138, USA and Niels Bohr Institute, University of Copenhagen, Copenhagen 2100, Denmark

Oskar Hallatschek

  • Max Planck Research Group for Biological Physics and Evolutionary Dynamics, Max Planck Institute for Dynamics and Self-Organization (MPIDS), Göttingen 37073, Germany

David R. Nelson†

  • Department of Physics and FAS Center for Systems Biology, Harvard University, Cambridge, Massachusetts 02138, USA

  • *papers.korolev@gmail.com
  • †nelson@physics.harvard.edu
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Rev. Mod. Phys. 82, 1691 – Published 21 May, 2010

DOI: https://doi.org/10.1103/RevModPhys.82.1691

Abstract

Results for mutation, selection, genetic drift, and migration in a one-dimensional continuous population are reviewed and extended. The population is described by a continuous limit of the stepping stone model, which leads to the stochastic Fisher-Kolmogorov-Petrovsky-Piscounov equation with additional terms describing mutations. Although the stepping stone model was first proposed for population genetics, it is closely related to “voter models” of interest in nonequilibrium statistical mechanics. The stepping stone model can also be regarded as an approximation to the dynamics of a thin layer of actively growing pioneers at the frontier of a colony of micro-organisms undergoing a range expansion on a Petri dish. The population tends to segregate into monoallelic domains. This segregation slows down genetic drift and selection because these two evolutionary forces can only act at the boundaries between the domains; the effects of mutation, however, are not significantly affected by the segregation. Although fixation in the neutral well-mixed (or “zero-dimensional”) model occurs exponentially in time, it occurs only algebraically fast in the one-dimensional model. An unusual sublinear increase is also found in the variance of the spatially averaged allele frequency with time. If selection is weak, selective sweeps occur exponentially fast in both well-mixed and one-dimensional populations, but the time constants are different. The relatively unexplored problem of evolutionary dynamics at the edge of an expanding circular colony is studied as well. Also reviewed are how the observed patterns of genetic diversity can be used for statistical inference and the differences are highlighted between the well-mixed and one-dimensional models. Although the focus is on two alleles or variants, q-allele Potts-like models of gene segregation are considered as well. Most of the analytical results are checked with simulations and could be tested against recent spatial experiments on range expansions of inoculations of Escherichia coli and Saccharomyces cerevisiae.

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Rev. Mod. Phys. 82, 1691– Published 21 May, 2010

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