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An empirical examination of the standard errors of maximum likelihood phylogenetic parameters under the molecular clock via bootstrapping
Schrago, C. G.
Afiliação
  • Schrago, C. G; Universidade Federal do Rio de Janeiro. Departamento de Genética. Rio de Janeiro. BR
Genet. mol. res. (Online) ; Genet. mol. res. (Online);5(1): 233-241, Mar. 31, 2006. ilus, tab, graf
Article em En | LILACS | ID: lil-449129
Biblioteca responsável: BR1.1
ABSTRACT
The molecular clock theory has greatly enlightened our understanding of macroevolutionary events. Maximum likelihood (ML) estimation of divergence times involves the adoption of fixed calibration points, and the confidence intervals associated with the estimates are generally very narrow. The credibility intervals are inferred assuming that the estimates are normally distributed, which may not be the case. Moreover, calculation of standard errors is usually carried out by the curvature method and is complicated by the difficulty in approximating second derivatives of the likelihood function. In this study, a standard primate phylogeny was used to examine the standard errors of ML estimates via the bootstrap method. Confidence intervals were also assessed from the posterior distribution of divergence times inferred via Bayesian Markov Chain Monte Carlo. For the primate topology under evaluation, no significant differences were found between the bootstrap and the curvature methods. Also, Bayesian confidence intervals were always wider than those obtained by ML.
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Texto completo: 1 Coleções: 01-internacional Base de dados: LILACS Assunto principal: Filogenia / Primatas / Evolução Molecular / Modelos Genéticos Tipo de estudo: Health_economic_evaluation / Prognostic_studies Limite: Animals / Humans Idioma: En Revista: Genet. mol. res. (Online) Assunto da revista: BIOLOGIA MOLECULAR / GENETICA Ano de publicação: 2006 Tipo de documento: Article País de afiliação: Brasil País de publicação: Brasil
Texto completo: 1 Coleções: 01-internacional Base de dados: LILACS Assunto principal: Filogenia / Primatas / Evolução Molecular / Modelos Genéticos Tipo de estudo: Health_economic_evaluation / Prognostic_studies Limite: Animals / Humans Idioma: En Revista: Genet. mol. res. (Online) Assunto da revista: BIOLOGIA MOLECULAR / GENETICA Ano de publicação: 2006 Tipo de documento: Article País de afiliação: Brasil País de publicação: Brasil