Cargando…

Transient amplifiers of selection and reducers of fixation for death-Birth updating on graphs

The spatial structure of an evolving population affects the balance of natural selection versus genetic drift. Some structures amplify selection, increasing the role that fitness differences play in determining which mutations become fixed. Other structures suppress selection, reducing the effect of...

Descripción completa

Detalles Bibliográficos
Autores principales: Allen, Benjamin, Sample, Christine, Jencks, Robert, Withers, James, Steinhagen, Patricia, Brizuela, Lori, Kolodny, Joshua, Parke, Darren, Lippner, Gabor, Dementieva, Yulia A.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6968840/
https://www.ncbi.nlm.nih.gov/pubmed/31951612
http://dx.doi.org/10.1371/journal.pcbi.1007529
_version_ 1783489213259317248
author Allen, Benjamin
Sample, Christine
Jencks, Robert
Withers, James
Steinhagen, Patricia
Brizuela, Lori
Kolodny, Joshua
Parke, Darren
Lippner, Gabor
Dementieva, Yulia A.
author_facet Allen, Benjamin
Sample, Christine
Jencks, Robert
Withers, James
Steinhagen, Patricia
Brizuela, Lori
Kolodny, Joshua
Parke, Darren
Lippner, Gabor
Dementieva, Yulia A.
author_sort Allen, Benjamin
collection PubMed
description The spatial structure of an evolving population affects the balance of natural selection versus genetic drift. Some structures amplify selection, increasing the role that fitness differences play in determining which mutations become fixed. Other structures suppress selection, reducing the effect of fitness differences and increasing the role of random chance. This phenomenon can be modeled by representing spatial structure as a graph, with individuals occupying vertices. Births and deaths occur stochastically, according to a specified update rule. We study death-Birth updating: An individual is chosen to die and then its neighbors compete to reproduce into the vacant spot. Previous numerical experiments suggested that amplifiers of selection for this process are either rare or nonexistent. We introduce a perturbative method for this problem for weak selection regime, meaning that mutations have small fitness effects. We show that fixation probability under weak selection can be calculated in terms of the coalescence times of random walks. This result leads naturally to a new definition of effective population size. Using this and other methods, we uncover the first known examples of transient amplifiers of selection (graphs that amplify selection for a particular range of fitness values) for the death-Birth process. We also exhibit new families of “reducers of fixation”, which decrease the fixation probability of all mutations, whether beneficial or deleterious.
format Online
Article
Text
id pubmed-6968840
institution National Center for Biotechnology Information
language English
publishDate 2020
publisher Public Library of Science
record_format MEDLINE/PubMed
spelling pubmed-69688402020-01-26 Transient amplifiers of selection and reducers of fixation for death-Birth updating on graphs Allen, Benjamin Sample, Christine Jencks, Robert Withers, James Steinhagen, Patricia Brizuela, Lori Kolodny, Joshua Parke, Darren Lippner, Gabor Dementieva, Yulia A. PLoS Comput Biol Research Article The spatial structure of an evolving population affects the balance of natural selection versus genetic drift. Some structures amplify selection, increasing the role that fitness differences play in determining which mutations become fixed. Other structures suppress selection, reducing the effect of fitness differences and increasing the role of random chance. This phenomenon can be modeled by representing spatial structure as a graph, with individuals occupying vertices. Births and deaths occur stochastically, according to a specified update rule. We study death-Birth updating: An individual is chosen to die and then its neighbors compete to reproduce into the vacant spot. Previous numerical experiments suggested that amplifiers of selection for this process are either rare or nonexistent. We introduce a perturbative method for this problem for weak selection regime, meaning that mutations have small fitness effects. We show that fixation probability under weak selection can be calculated in terms of the coalescence times of random walks. This result leads naturally to a new definition of effective population size. Using this and other methods, we uncover the first known examples of transient amplifiers of selection (graphs that amplify selection for a particular range of fitness values) for the death-Birth process. We also exhibit new families of “reducers of fixation”, which decrease the fixation probability of all mutations, whether beneficial or deleterious. Public Library of Science 2020-01-17 /pmc/articles/PMC6968840/ /pubmed/31951612 http://dx.doi.org/10.1371/journal.pcbi.1007529 Text en © 2020 Allen et al http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
spellingShingle Research Article
Allen, Benjamin
Sample, Christine
Jencks, Robert
Withers, James
Steinhagen, Patricia
Brizuela, Lori
Kolodny, Joshua
Parke, Darren
Lippner, Gabor
Dementieva, Yulia A.
Transient amplifiers of selection and reducers of fixation for death-Birth updating on graphs
title Transient amplifiers of selection and reducers of fixation for death-Birth updating on graphs
title_full Transient amplifiers of selection and reducers of fixation for death-Birth updating on graphs
title_fullStr Transient amplifiers of selection and reducers of fixation for death-Birth updating on graphs
title_full_unstemmed Transient amplifiers of selection and reducers of fixation for death-Birth updating on graphs
title_short Transient amplifiers of selection and reducers of fixation for death-Birth updating on graphs
title_sort transient amplifiers of selection and reducers of fixation for death-birth updating on graphs
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6968840/
https://www.ncbi.nlm.nih.gov/pubmed/31951612
http://dx.doi.org/10.1371/journal.pcbi.1007529
work_keys_str_mv AT allenbenjamin transientamplifiersofselectionandreducersoffixationfordeathbirthupdatingongraphs
AT samplechristine transientamplifiersofselectionandreducersoffixationfordeathbirthupdatingongraphs
AT jencksrobert transientamplifiersofselectionandreducersoffixationfordeathbirthupdatingongraphs
AT withersjames transientamplifiersofselectionandreducersoffixationfordeathbirthupdatingongraphs
AT steinhagenpatricia transientamplifiersofselectionandreducersoffixationfordeathbirthupdatingongraphs
AT brizuelalori transientamplifiersofselectionandreducersoffixationfordeathbirthupdatingongraphs
AT kolodnyjoshua transientamplifiersofselectionandreducersoffixationfordeathbirthupdatingongraphs
AT parkedarren transientamplifiersofselectionandreducersoffixationfordeathbirthupdatingongraphs
AT lippnergabor transientamplifiersofselectionandreducersoffixationfordeathbirthupdatingongraphs
AT dementievayuliaa transientamplifiersofselectionandreducersoffixationfordeathbirthupdatingongraphs