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Inferring the Distribution of Fitness Effects (DFE) of Newly-Arising Mutations Using Samples Taken from Evolving Populations in Real Time

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Algorithms for Computational Biology (AlCoB 2017)

Part of the book series: Lecture Notes in Computer Science ((LNBI,volume 10252))

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Abstract

The DFE characterizes the mutational “input” to evolution, while natural selection largely determines how this input gets sorted into an evolutionary “output”. The output cannot contain novel genetic material that is not present in the input and, as such, understanding the DFE and its dynamics is crucial to understanding evolution generally. Despite this centrality to evolution, however, the DFE has remained elusive primarily due to methodological difficulties. Here, we propose and assess a novel framework for estimating the DFE which removes the biasing effects of selection statistically. We propose a statistic for characterizing the difference between two inferred DFEs, taken from two different populations or from the same population at different time points. This allows us to study the evolution of the DFE and monitor for structural changes in the DFE.

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Acknowledgements

We thank Guillaume Martin, Thomas Burr, Paul Sniegowski, Tanya Singh, Thomas Bataillon, and Eduarda Pimentel for helpful discussions, and three anonymous referees. PG carried out some of this work while visiting Aarhus University, Denmark. PG received financial support from NASA grant NNA15BB04A.

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Authors and Affiliations

  1. School of Biology, Georgia Institute of Technology, 310 Ferst St, Atlanta, GA, 30332, USA

    Philip J. Gerrish

  2. Instituto de Ciencias Biomédicas, Universidad Autónoma de Ciudad Juárez, 32310, Chihuahua, Mexico

    Philip J. Gerrish

  3. Theoretical Biology and Biophysics, Los Alamos National Laboratory, MS K710, Los Alamos, NM, 87545, USA

    Philip J. Gerrish & Nick Hengartner

Authors
  1. Philip J. Gerrish
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  2. Nick Hengartner
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Correspondence to Philip J. Gerrish .

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Editors and Affiliations

  1. University of Aveiro, Aveiro, Portugal

    Daniel Figueiredo

  2. Rovira i Virgili University, Tarragona, Spain

    Carlos Martín-Vide

  3. University of Aveiro, Aveiro, Portugal

    Diogo Pratas

  4. University of Extremadura, Caceres, Spain

    Miguel A. Vega-Rodríguez

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Gerrish, P.J., Hengartner, N. (2017). Inferring the Distribution of Fitness Effects (DFE) of Newly-Arising Mutations Using Samples Taken from Evolving Populations in Real Time. In: Figueiredo, D., Martín-Vide, C., Pratas, D., Vega-Rodríguez, M. (eds) Algorithms for Computational Biology. AlCoB 2017. Lecture Notes in Computer Science(), vol 10252. Springer, Cham. https://doi.org/10.1007/978-3-319-58163-7_7

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  • DOI: https://doi.org/10.1007/978-3-319-58163-7_7

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  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-319-58162-0

  • Online ISBN: 978-3-319-58163-7

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