Journal of Molecular Evolution

, Volume 67, Issue 4, pp 418–426

Divergence and Polymorphism Under the Nearly Neutral Theory of Molecular Evolution

Article

DOI: 10.1007/s00239-008-9146-9

Cite this article as:
Welch, J.J., Eyre-Walker, A. & Waxman, D. J Mol Evol (2008) 67: 418. doi:10.1007/s00239-008-9146-9

Abstract

The nearly neutral theory attributes most nucleotide substitution and polymorphism to genetic drift acting on weakly selected mutants, and assumes that the selection coefficients for these mutants are drawn from a continuous distribution. This means that parameter estimation can require numerical integration, and this can be computationally costly and inaccurate. Furthermore, the leading parameter dependencies of important quantities can be unclear, making results difficult to understand. For some commonly used distributions of mutant effects, we show how these problems can be avoided by writing equations in terms of special functions. Series expansion then allows for their rapid calculation and, also, illuminates leading parameter dependencies. For example, we show that if mutants are gamma distributed, the neutrality index is largely independent of the effective population size. However, we also show that such results are not robust to misspecification of the functional form of distribution. Some implications of these findings are then discussed.

Keywords

Genetic driftDistribution of mutant effectsNeutrality indexSpecial functions

Copyright information

© Springer Science+Business Media, LLC 2008

Authors and Affiliations

  • John J. Welch
    • 1
    • 2
  • Adam Eyre-Walker
    • 2
  • David Waxman
    • 2
  1. 1.Institute of Evolutionary Biology, School of Biological SciencesUniversity of EdinburghEdinburghUK
  2. 2.Centre for the Study of Evolution, School of Life SciencesUniversity of SussexFalmer, BrightonUK