A new bayesian method for fitting evolutionary models to comparative data with intraspecific variation

Phylogenetic comparative methods that incorporate intraspecific variability are relatively new and, so far, not especially widely used in empirical studies. In the present short article we will describe a new Bayesian method for fitting evolutionary models to comparative data that incorporates intra...

Descripción completa

Detalles Bibliográficos
Autores Principales: Revell, Liam J., Reynolds, R. Graham
Formato: Artículo (Article)
Lenguaje:Inglés (English)
Publicado: Society for the Study of Evolution 2012
Materias:
Acceso en línea:https://repository.urosario.edu.co/handle/10336/27620
https://doi.org/10.1111/j.1558-5646.2012.01645.x
id ir-10336-27620
recordtype dspace
spelling ir-10336-276202022-05-02T12:37:13Z A new bayesian method for fitting evolutionary models to comparative data with intraspecific variation Un nuevo método bayesiano para ajustar modelos evolutivos a datos comparativos con variación intraespecífica Revell, Liam J. Reynolds, R. Graham Comparative method Interspecific data Phylogenetic tree Phylogenetic comparative methods that incorporate intraspecific variability are relatively new and, so far, not especially widely used in empirical studies. In the present short article we will describe a new Bayesian method for fitting evolutionary models to comparative data that incorporates intraspecific variability. This method differs from an existing likelihood?based approach in that it requires no a priori inference about species means and variances; rather it takes phenotypic values from individuals and a phylogenetic tree as input, and then samples species means and variances, along with the parameters of the evolutionary model, from their joint posterior probability distribution. One of the most novel and intriguing attributes of this approach is that jointly sampling the species means with the evolutionary model parameters means that the model and tree can influence our estimates of species mean trait values, not just the reverse. In the present implementation, we first apply this method to the most widely used evolutionary model for continuously valued phenotypic trait data (Brownian motion). However, the general approach has broad applicability, which we illustrate by also fitting the ? model, another simple model for quantitative trait evolution on a phylogeny. We test our approach via simulation and by analyzing two empirical datasets obtained from the literature. Finally, we have implemented the methods described herein in a new function for the R statistical computing environment, and this function will be distributed as part of the ‘phytools’ R library. 2012-04-03 2020-08-19T14:43:01Z info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion ISSN: 0014-3820 EISSN: 1558-5646 https://repository.urosario.edu.co/handle/10336/27620 https://doi.org/10.1111/j.1558-5646.2012.01645.x eng info:eu-repo/semantics/openAccess application/pdf Society for the Study of Evolution instname:Universidad del Rosario
institution EdocUR - Universidad del Rosario
collection DSpace
language Inglés (English)
topic Comparative method
Interspecific data
Phylogenetic tree
spellingShingle Comparative method
Interspecific data
Phylogenetic tree
Revell, Liam J.
Reynolds, R. Graham
A new bayesian method for fitting evolutionary models to comparative data with intraspecific variation
description Phylogenetic comparative methods that incorporate intraspecific variability are relatively new and, so far, not especially widely used in empirical studies. In the present short article we will describe a new Bayesian method for fitting evolutionary models to comparative data that incorporates intraspecific variability. This method differs from an existing likelihood?based approach in that it requires no a priori inference about species means and variances; rather it takes phenotypic values from individuals and a phylogenetic tree as input, and then samples species means and variances, along with the parameters of the evolutionary model, from their joint posterior probability distribution. One of the most novel and intriguing attributes of this approach is that jointly sampling the species means with the evolutionary model parameters means that the model and tree can influence our estimates of species mean trait values, not just the reverse. In the present implementation, we first apply this method to the most widely used evolutionary model for continuously valued phenotypic trait data (Brownian motion). However, the general approach has broad applicability, which we illustrate by also fitting the ? model, another simple model for quantitative trait evolution on a phylogeny. We test our approach via simulation and by analyzing two empirical datasets obtained from the literature. Finally, we have implemented the methods described herein in a new function for the R statistical computing environment, and this function will be distributed as part of the ‘phytools’ R library.
format Artículo (Article)
author Revell, Liam J.
Reynolds, R. Graham
author_facet Revell, Liam J.
Reynolds, R. Graham
author_sort Revell, Liam J.
title A new bayesian method for fitting evolutionary models to comparative data with intraspecific variation
title_short A new bayesian method for fitting evolutionary models to comparative data with intraspecific variation
title_full A new bayesian method for fitting evolutionary models to comparative data with intraspecific variation
title_fullStr A new bayesian method for fitting evolutionary models to comparative data with intraspecific variation
title_full_unstemmed A new bayesian method for fitting evolutionary models to comparative data with intraspecific variation
title_sort new bayesian method for fitting evolutionary models to comparative data with intraspecific variation
publisher Society for the Study of Evolution
publishDate 2012
url https://repository.urosario.edu.co/handle/10336/27620
https://doi.org/10.1111/j.1558-5646.2012.01645.x
_version_ 1740172976318316544
score 12,111491