Fitting models of continuous trait evolution to incompletely sampled comparative data using approximate bayesian computation

In recent years, a suite of methods has been developed to fit multiple rate models to phylogenetic comparative data. However, most methods have limited utility at broad phylogenetic scales because they typically require complete sampling of both the tree and the associated phenotypic data. Here, we...

Full description

Autores:
Tipo de recurso:
Fecha de publicación:
2011
Institución:
Universidad del Rosario
Repositorio:
Repositorio EdocUR - U. Rosario
Idioma:
eng
OAI Identifier:
oai:repository.urosario.edu.co:10336/27744
Acceso en línea:
https://doi.org/10.1111/j.1558-5646.2011.01474.x
https://repository.urosario.edu.co/handle/10336/27744
Palabra clave:
Approximate Bayesian computation
Brownian motion
Carnivora
Comparative methods
Evolutionary rates
Incomplete phylogenies
Rights
License
Abierto (Texto Completo)
id EDOCUR2_46f49372b430a7858a0bf51b037300f4
oai_identifier_str oai:repository.urosario.edu.co:10336/27744
network_acronym_str EDOCUR2
network_name_str Repositorio EdocUR - U. Rosario
repository_id_str
spelling e6291b32-1b21-4e43-8d74-620d755a6769-14b08f6d5-2b22-4ae4-b0bd-e4bc5178e50b-1cbef191c-7950-4648-8d81-d98068957060-1dba860b4-6d64-4883-9ac9-cd36cd44a5c6-15fe626cc-9fa8-40ff-a954-105329f7fd2d-13b45c9ba-0303-4016-b464-b6b40e9e5e64-12020-08-19T14:43:38Z2020-08-19T14:43:38Z2011-10-03In recent years, a suite of methods has been developed to fit multiple rate models to phylogenetic comparative data. However, most methods have limited utility at broad phylogenetic scales because they typically require complete sampling of both the tree and the associated phenotypic data. Here, we develop and implement a new, tree?based method called MECCA (Modeling Evolution of Continuous Characters using ABC) that uses a hybrid likelihood/approximate Bayesian computation (ABC)?Markov?Chain Monte Carlo approach to simultaneously infer rates of diversification and trait evolution from incompletely sampled phylogenies and trait data. We demonstrate via simulation that MECCA has considerable power to choose among single versus multiple evolutionary rate models, and thus can be used to test hypotheses about changes in the rate of trait evolution across an incomplete tree of life. We finally apply MECCA to an empirical example of body size evolution in carnivores, and show that there is no evidence for an elevated rate of body size evolution in the pinnipeds relative to terrestrial carnivores. ABC approaches can provide a useful alternative set of tools for future macroevolutionary studies where likelihood?dependent approaches are lacking.application/pdfhttps://doi.org/10.1111/j.1558-5646.2011.01474.xISSN: 0014-3820EISSN: 1558-5646https://repository.urosario.edu.co/handle/10336/27744engSociety for the Study of Evolution762No. 3752Evolution: International Journal of Organic EvolutionVol. 66Evolution: International Journal of Organic Evolution, ISSN: 0014-3820;EISSN: 1558-5646, Vol.66, No.3 (March 2011); pp. 752-762https://onlinelibrary.wiley.com/doi/epdf/10.1111/j.1558-5646.2011.01474.xAbierto (Texto Completo)http://purl.org/coar/access_right/c_abf2Evolution: International Journal of Organic Evolutioninstname:Universidad del Rosarioreponame:Repositorio Institucional EdocURApproximate Bayesian computationBrownian motionCarnivoraComparative methodsEvolutionary ratesIncomplete phylogeniesFitting models of continuous trait evolution to incompletely sampled comparative data using approximate bayesian computationAjuste de modelos de evolución continua de rasgos a datos comparativos muestreados de forma incompleta utilizando cálculo bayesiano aproximadoarticleArtículohttp://purl.org/coar/version/c_970fb48d4fbd8a85http://purl.org/coar/resource_type/c_6501Slater, Graham J.Harmon, Luke J.Wegmann, DanielJoyce, PaulRevell, Liam J.Alfaro, Michael E.10336/27744oai:repository.urosario.edu.co:10336/277442021-06-03 00:50:18.43https://repository.urosario.edu.coRepositorio institucional EdocURedocur@urosario.edu.co
dc.title.spa.fl_str_mv Fitting models of continuous trait evolution to incompletely sampled comparative data using approximate bayesian computation
dc.title.TranslatedTitle.spa.fl_str_mv Ajuste de modelos de evolución continua de rasgos a datos comparativos muestreados de forma incompleta utilizando cálculo bayesiano aproximado
title Fitting models of continuous trait evolution to incompletely sampled comparative data using approximate bayesian computation
spellingShingle Fitting models of continuous trait evolution to incompletely sampled comparative data using approximate bayesian computation
Approximate Bayesian computation
Brownian motion
Carnivora
Comparative methods
Evolutionary rates
Incomplete phylogenies
title_short Fitting models of continuous trait evolution to incompletely sampled comparative data using approximate bayesian computation
title_full Fitting models of continuous trait evolution to incompletely sampled comparative data using approximate bayesian computation
title_fullStr Fitting models of continuous trait evolution to incompletely sampled comparative data using approximate bayesian computation
title_full_unstemmed Fitting models of continuous trait evolution to incompletely sampled comparative data using approximate bayesian computation
title_sort Fitting models of continuous trait evolution to incompletely sampled comparative data using approximate bayesian computation
dc.subject.keyword.spa.fl_str_mv Approximate Bayesian computation
Brownian motion
Carnivora
Comparative methods
Evolutionary rates
Incomplete phylogenies
topic Approximate Bayesian computation
Brownian motion
Carnivora
Comparative methods
Evolutionary rates
Incomplete phylogenies
description In recent years, a suite of methods has been developed to fit multiple rate models to phylogenetic comparative data. However, most methods have limited utility at broad phylogenetic scales because they typically require complete sampling of both the tree and the associated phenotypic data. Here, we develop and implement a new, tree?based method called MECCA (Modeling Evolution of Continuous Characters using ABC) that uses a hybrid likelihood/approximate Bayesian computation (ABC)?Markov?Chain Monte Carlo approach to simultaneously infer rates of diversification and trait evolution from incompletely sampled phylogenies and trait data. We demonstrate via simulation that MECCA has considerable power to choose among single versus multiple evolutionary rate models, and thus can be used to test hypotheses about changes in the rate of trait evolution across an incomplete tree of life. We finally apply MECCA to an empirical example of body size evolution in carnivores, and show that there is no evidence for an elevated rate of body size evolution in the pinnipeds relative to terrestrial carnivores. ABC approaches can provide a useful alternative set of tools for future macroevolutionary studies where likelihood?dependent approaches are lacking.
publishDate 2011
dc.date.created.spa.fl_str_mv 2011-10-03
dc.date.accessioned.none.fl_str_mv 2020-08-19T14:43:38Z
dc.date.available.none.fl_str_mv 2020-08-19T14:43:38Z
dc.type.eng.fl_str_mv article
dc.type.coarversion.fl_str_mv http://purl.org/coar/version/c_970fb48d4fbd8a85
dc.type.coar.fl_str_mv http://purl.org/coar/resource_type/c_6501
dc.type.spa.spa.fl_str_mv Artículo
dc.identifier.doi.none.fl_str_mv https://doi.org/10.1111/j.1558-5646.2011.01474.x
dc.identifier.issn.none.fl_str_mv ISSN: 0014-3820
EISSN: 1558-5646
dc.identifier.uri.none.fl_str_mv https://repository.urosario.edu.co/handle/10336/27744
url https://doi.org/10.1111/j.1558-5646.2011.01474.x
https://repository.urosario.edu.co/handle/10336/27744
identifier_str_mv ISSN: 0014-3820
EISSN: 1558-5646
dc.language.iso.spa.fl_str_mv eng
language eng
dc.relation.citationEndPage.none.fl_str_mv 762
dc.relation.citationIssue.none.fl_str_mv No. 3
dc.relation.citationStartPage.none.fl_str_mv 752
dc.relation.citationTitle.none.fl_str_mv Evolution: International Journal of Organic Evolution
dc.relation.citationVolume.none.fl_str_mv Vol. 66
dc.relation.ispartof.spa.fl_str_mv Evolution: International Journal of Organic Evolution, ISSN: 0014-3820;EISSN: 1558-5646, Vol.66, No.3 (March 2011); pp. 752-762
dc.relation.uri.spa.fl_str_mv https://onlinelibrary.wiley.com/doi/epdf/10.1111/j.1558-5646.2011.01474.x
dc.rights.coar.fl_str_mv http://purl.org/coar/access_right/c_abf2
dc.rights.acceso.spa.fl_str_mv Abierto (Texto Completo)
rights_invalid_str_mv Abierto (Texto Completo)
http://purl.org/coar/access_right/c_abf2
dc.format.mimetype.none.fl_str_mv application/pdf
dc.publisher.spa.fl_str_mv Society for the Study of Evolution
dc.source.spa.fl_str_mv Evolution: International Journal of Organic Evolution
institution Universidad del Rosario
dc.source.instname.none.fl_str_mv instname:Universidad del Rosario
dc.source.reponame.none.fl_str_mv reponame:Repositorio Institucional EdocUR
repository.name.fl_str_mv Repositorio institucional EdocUR
repository.mail.fl_str_mv edocur@urosario.edu.co
_version_ 1814167670969335808