RATES OF FITNESS DECLINE AND REBOUND SUGGEST PERVASIVE EPISTASIS
Autor(a) principal: | |
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Data de Publicação: | 2014 |
Outros Autores: | , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
Texto Completo: | http://hdl.handle.net/10400.7/543 |
Resumo: | Unraveling the factors that determine the rate of adaptation is a major question in evolutionary biology. One key parameter is the effect of a new mutation on fitness, which invariably depends on the environment and genetic background. The fate of a mutation also depends on population size, which determines the amount of drift it will experience. Here, we manipulate both population size and genotype composition and follow adaptation of 23 distinct Escherichia coli genotypes. These have previously accumulated mutations under intense genetic drift and encompass a substantial fitness variation. A simple rule is uncovered: the net fitness change is negatively correlated with the fitness of the genotype in which new mutations appear--a signature of epistasis. We find that Fisher's geometrical model can account for the observed patterns of fitness change and infer the parameters of this model that best fit the data, using Approximate Bayesian Computation. We estimate a genomic mutation rate of 0.01 per generation for fitness altering mutations, albeit with a large confidence interval, a mean fitness effect of mutations of -0.01, and an effective number of traits nine in mutS(-) E. coli. This framework can be extended to confront a broader range of models with data and test different classes of fitness landscape models. |
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RATES OF FITNESS DECLINE AND REBOUND SUGGEST PERVASIVE EPISTASISEpistasisfisher geometrical modelfitness recoverymutation accumulationrate of adaptationUnraveling the factors that determine the rate of adaptation is a major question in evolutionary biology. One key parameter is the effect of a new mutation on fitness, which invariably depends on the environment and genetic background. The fate of a mutation also depends on population size, which determines the amount of drift it will experience. Here, we manipulate both population size and genotype composition and follow adaptation of 23 distinct Escherichia coli genotypes. These have previously accumulated mutations under intense genetic drift and encompass a substantial fitness variation. A simple rule is uncovered: the net fitness change is negatively correlated with the fitness of the genotype in which new mutations appear--a signature of epistasis. We find that Fisher's geometrical model can account for the observed patterns of fitness change and infer the parameters of this model that best fit the data, using Approximate Bayesian Computation. We estimate a genomic mutation rate of 0.01 per generation for fitness altering mutations, albeit with a large confidence interval, a mean fitness effect of mutations of -0.01, and an effective number of traits nine in mutS(-) E. coli. This framework can be extended to confront a broader range of models with data and test different classes of fitness landscape models.LAO/ITQB, FCT, Danish Council for Independent Research.WileyARCAPerfeito, L.Sousa, A.Bataillon, T.Gordo, I.2015-12-22T15:01:18Z2014-012014-01-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/10400.7/543engPerfeito, L., Sousa, A., Bataillon, T. and Gordo, I. (2014), RATES OF FITNESS DECLINE AND REBOUND SUGGEST PERVASIVE EPISTASIS. Evolution, 68: 150–162. doi: 10.1111/evo.1223410.1111/evo.12234info:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2022-11-29T14:34:54Zoai:arca.igc.gulbenkian.pt:10400.7/543Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T16:11:47.764956Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse |
dc.title.none.fl_str_mv |
RATES OF FITNESS DECLINE AND REBOUND SUGGEST PERVASIVE EPISTASIS |
title |
RATES OF FITNESS DECLINE AND REBOUND SUGGEST PERVASIVE EPISTASIS |
spellingShingle |
RATES OF FITNESS DECLINE AND REBOUND SUGGEST PERVASIVE EPISTASIS Perfeito, L. Epistasis fisher geometrical model fitness recovery mutation accumulation rate of adaptation |
title_short |
RATES OF FITNESS DECLINE AND REBOUND SUGGEST PERVASIVE EPISTASIS |
title_full |
RATES OF FITNESS DECLINE AND REBOUND SUGGEST PERVASIVE EPISTASIS |
title_fullStr |
RATES OF FITNESS DECLINE AND REBOUND SUGGEST PERVASIVE EPISTASIS |
title_full_unstemmed |
RATES OF FITNESS DECLINE AND REBOUND SUGGEST PERVASIVE EPISTASIS |
title_sort |
RATES OF FITNESS DECLINE AND REBOUND SUGGEST PERVASIVE EPISTASIS |
author |
Perfeito, L. |
author_facet |
Perfeito, L. Sousa, A. Bataillon, T. Gordo, I. |
author_role |
author |
author2 |
Sousa, A. Bataillon, T. Gordo, I. |
author2_role |
author author author |
dc.contributor.none.fl_str_mv |
ARCA |
dc.contributor.author.fl_str_mv |
Perfeito, L. Sousa, A. Bataillon, T. Gordo, I. |
dc.subject.por.fl_str_mv |
Epistasis fisher geometrical model fitness recovery mutation accumulation rate of adaptation |
topic |
Epistasis fisher geometrical model fitness recovery mutation accumulation rate of adaptation |
description |
Unraveling the factors that determine the rate of adaptation is a major question in evolutionary biology. One key parameter is the effect of a new mutation on fitness, which invariably depends on the environment and genetic background. The fate of a mutation also depends on population size, which determines the amount of drift it will experience. Here, we manipulate both population size and genotype composition and follow adaptation of 23 distinct Escherichia coli genotypes. These have previously accumulated mutations under intense genetic drift and encompass a substantial fitness variation. A simple rule is uncovered: the net fitness change is negatively correlated with the fitness of the genotype in which new mutations appear--a signature of epistasis. We find that Fisher's geometrical model can account for the observed patterns of fitness change and infer the parameters of this model that best fit the data, using Approximate Bayesian Computation. We estimate a genomic mutation rate of 0.01 per generation for fitness altering mutations, albeit with a large confidence interval, a mean fitness effect of mutations of -0.01, and an effective number of traits nine in mutS(-) E. coli. This framework can be extended to confront a broader range of models with data and test different classes of fitness landscape models. |
publishDate |
2014 |
dc.date.none.fl_str_mv |
2014-01 2014-01-01T00:00:00Z 2015-12-22T15:01:18Z |
dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
http://hdl.handle.net/10400.7/543 |
url |
http://hdl.handle.net/10400.7/543 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Perfeito, L., Sousa, A., Bataillon, T. and Gordo, I. (2014), RATES OF FITNESS DECLINE AND REBOUND SUGGEST PERVASIVE EPISTASIS. Evolution, 68: 150–162. doi: 10.1111/evo.12234 10.1111/evo.12234 |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
application/pdf |
dc.publisher.none.fl_str_mv |
Wiley |
publisher.none.fl_str_mv |
Wiley |
dc.source.none.fl_str_mv |
reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação instacron:RCAAP |
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Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
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RCAAP |
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RCAAP |
reponame_str |
Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
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Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
repository.name.fl_str_mv |
Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
repository.mail.fl_str_mv |
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1799130573668614144 |