Delayed-response phylogenetic correlation: An optimization-based method to test covariation of continuous characters

Autores
Giannini, Norberto Pedro; Goloboff, Pablo Augusto
Año de publicación
2010
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
A new phylogenetic comparative method is proposed, based on mapping two continuous characters on a tree to generate data pairs for regression or correlation analysis, which resolves problems ofmultiple character reconstructions, phylogenetic dependence, and asynchronous responses (evolutionary lags). Data pairs are formed in two ways (tree-down and tree-up) by matching corresponding changes, ▶x and ▶y. Delayed responses (▶y occurring later in the tree than ▶x) are penalized by weighting pairs using nodal or branch-length distance between ▶x and ▶y; immediate (same-node) responses are given maximum weight. All combinations of character reconstructions (or a random sample thereof) are used to find the observed range of the weighted coefficient of correlation r (orweighted slope b). This range is used as test statistic, and the null distribution is generated by randomly reallocating changes (▶x and ▶y) in the topology. Unlike randomization of terminal values, this procedure complies with Generalized Monte Carlo requirements while saving considerable computation time. Phylogenetic dependence is avoided by randomization without data transformations, yielding acceptable type-I error rates and statistical power. We show that ignoring delayed responses can lead to falsely nonsignificant results. Issues that arise from considering delayed responses based on optimization are discussed.
Fil: Giannini, Norberto Pedro. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico - Tucumán. Unidad Ejecutora Lillo; Argentina. American Museum of Natural History; Estados Unidos. Universidad Nacional de Tucumán. Facultad de Ciencias Naturales e Instituto Miguel Lillo. Programa de Investigación de Biodiversidad Argentina; Argentina
Fil: Goloboff, Pablo Augusto. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico - Tucumán. Unidad Ejecutora Lillo; Argentina
Materia
Continuous Characters
Phylogenetic Comparative Methods
Phylogenetic Correlation
Phylogenetic Dependence
Randomization Testing
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/75160
Acceder
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network_name_str CONICET Digital (CONICET)
spelling Delayed-response phylogenetic correlation: An optimization-based method to test covariation of continuous charactersGiannini, Norberto PedroGoloboff, Pablo AugustoContinuous CharactersPhylogenetic Comparative MethodsPhylogenetic CorrelationPhylogenetic DependenceRandomization Testinghttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1A new phylogenetic comparative method is proposed, based on mapping two continuous characters on a tree to generate data pairs for regression or correlation analysis, which resolves problems ofmultiple character reconstructions, phylogenetic dependence, and asynchronous responses (evolutionary lags). Data pairs are formed in two ways (tree-down and tree-up) by matching corresponding changes, ▶x and ▶y. Delayed responses (▶y occurring later in the tree than ▶x) are penalized by weighting pairs using nodal or branch-length distance between ▶x and ▶y; immediate (same-node) responses are given maximum weight. All combinations of character reconstructions (or a random sample thereof) are used to find the observed range of the weighted coefficient of correlation r (orweighted slope b). This range is used as test statistic, and the null distribution is generated by randomly reallocating changes (▶x and ▶y) in the topology. Unlike randomization of terminal values, this procedure complies with Generalized Monte Carlo requirements while saving considerable computation time. Phylogenetic dependence is avoided by randomization without data transformations, yielding acceptable type-I error rates and statistical power. We show that ignoring delayed responses can lead to falsely nonsignificant results. Issues that arise from considering delayed responses based on optimization are discussed.Fil: Giannini, Norberto Pedro. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico - Tucumán. Unidad Ejecutora Lillo; Argentina. American Museum of Natural History; Estados Unidos. Universidad Nacional de Tucumán. Facultad de Ciencias Naturales e Instituto Miguel Lillo. Programa de Investigación de Biodiversidad Argentina; ArgentinaFil: Goloboff, Pablo Augusto. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico - Tucumán. Unidad Ejecutora Lillo; ArgentinaWiley Blackwell Publishing, Inc2010-07info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/75160Giannini, Norberto Pedro; Goloboff, Pablo Augusto; Delayed-response phylogenetic correlation: An optimization-based method to test covariation of continuous characters; Wiley Blackwell Publishing, Inc; Evolution; 64; 7; 7-2010; 1885-18980014-3820CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/https://onlinelibrary.wiley.com/doi/full/10.1111/j.1558-5646.2010.00956.xinfo:eu-repo/semantics/altIdentifier/doi/10.1111/j.1558-5646.2010.00956.xinfo:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-10-15T14:51:02Zoai:ri.conicet.gov.ar:11336/75160instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-10-15 14:51:03.165CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Delayed-response phylogenetic correlation: An optimization-based method to test covariation of continuous characters
title Delayed-response phylogenetic correlation: An optimization-based method to test covariation of continuous characters
spellingShingle Delayed-response phylogenetic correlation: An optimization-based method to test covariation of continuous characters
Giannini, Norberto Pedro
Continuous Characters
Phylogenetic Comparative Methods
Phylogenetic Correlation
Phylogenetic Dependence
Randomization Testing
title_short Delayed-response phylogenetic correlation: An optimization-based method to test covariation of continuous characters
title_full Delayed-response phylogenetic correlation: An optimization-based method to test covariation of continuous characters
title_fullStr Delayed-response phylogenetic correlation: An optimization-based method to test covariation of continuous characters
title_full_unstemmed Delayed-response phylogenetic correlation: An optimization-based method to test covariation of continuous characters
title_sort Delayed-response phylogenetic correlation: An optimization-based method to test covariation of continuous characters
dc.creator.none.fl_str_mv Giannini, Norberto Pedro
Goloboff, Pablo Augusto
author Giannini, Norberto Pedro
author_facet Giannini, Norberto Pedro
Goloboff, Pablo Augusto
author_role author
author2 Goloboff, Pablo Augusto
author2_role author
dc.subject.none.fl_str_mv Continuous Characters
Phylogenetic Comparative Methods
Phylogenetic Correlation
Phylogenetic Dependence
Randomization Testing
topic Continuous Characters
Phylogenetic Comparative Methods
Phylogenetic Correlation
Phylogenetic Dependence
Randomization Testing
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.6
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv A new phylogenetic comparative method is proposed, based on mapping two continuous characters on a tree to generate data pairs for regression or correlation analysis, which resolves problems ofmultiple character reconstructions, phylogenetic dependence, and asynchronous responses (evolutionary lags). Data pairs are formed in two ways (tree-down and tree-up) by matching corresponding changes, ▶x and ▶y. Delayed responses (▶y occurring later in the tree than ▶x) are penalized by weighting pairs using nodal or branch-length distance between ▶x and ▶y; immediate (same-node) responses are given maximum weight. All combinations of character reconstructions (or a random sample thereof) are used to find the observed range of the weighted coefficient of correlation r (orweighted slope b). This range is used as test statistic, and the null distribution is generated by randomly reallocating changes (▶x and ▶y) in the topology. Unlike randomization of terminal values, this procedure complies with Generalized Monte Carlo requirements while saving considerable computation time. Phylogenetic dependence is avoided by randomization without data transformations, yielding acceptable type-I error rates and statistical power. We show that ignoring delayed responses can lead to falsely nonsignificant results. Issues that arise from considering delayed responses based on optimization are discussed.
Fil: Giannini, Norberto Pedro. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico - Tucumán. Unidad Ejecutora Lillo; Argentina. American Museum of Natural History; Estados Unidos. Universidad Nacional de Tucumán. Facultad de Ciencias Naturales e Instituto Miguel Lillo. Programa de Investigación de Biodiversidad Argentina; Argentina
Fil: Goloboff, Pablo Augusto. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico - Tucumán. Unidad Ejecutora Lillo; Argentina
description A new phylogenetic comparative method is proposed, based on mapping two continuous characters on a tree to generate data pairs for regression or correlation analysis, which resolves problems ofmultiple character reconstructions, phylogenetic dependence, and asynchronous responses (evolutionary lags). Data pairs are formed in two ways (tree-down and tree-up) by matching corresponding changes, ▶x and ▶y. Delayed responses (▶y occurring later in the tree than ▶x) are penalized by weighting pairs using nodal or branch-length distance between ▶x and ▶y; immediate (same-node) responses are given maximum weight. All combinations of character reconstructions (or a random sample thereof) are used to find the observed range of the weighted coefficient of correlation r (orweighted slope b). This range is used as test statistic, and the null distribution is generated by randomly reallocating changes (▶x and ▶y) in the topology. Unlike randomization of terminal values, this procedure complies with Generalized Monte Carlo requirements while saving considerable computation time. Phylogenetic dependence is avoided by randomization without data transformations, yielding acceptable type-I error rates and statistical power. We show that ignoring delayed responses can lead to falsely nonsignificant results. Issues that arise from considering delayed responses based on optimization are discussed.
publishDate 2010
dc.date.none.fl_str_mv 2010-07
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/75160
Giannini, Norberto Pedro; Goloboff, Pablo Augusto; Delayed-response phylogenetic correlation: An optimization-based method to test covariation of continuous characters; Wiley Blackwell Publishing, Inc; Evolution; 64; 7; 7-2010; 1885-1898
0014-3820
CONICET Digital
CONICET
url http://hdl.handle.net/11336/75160
identifier_str_mv Giannini, Norberto Pedro; Goloboff, Pablo Augusto; Delayed-response phylogenetic correlation: An optimization-based method to test covariation of continuous characters; Wiley Blackwell Publishing, Inc; Evolution; 64; 7; 7-2010; 1885-1898
0014-3820
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/url/https://onlinelibrary.wiley.com/doi/full/10.1111/j.1558-5646.2010.00956.x
info:eu-repo/semantics/altIdentifier/doi/10.1111/j.1558-5646.2010.00956.x
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
application/pdf
dc.publisher.none.fl_str_mv Wiley Blackwell Publishing, Inc
publisher.none.fl_str_mv Wiley Blackwell Publishing, Inc
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
collection CONICET Digital (CONICET)
instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
_version_ 1846083035864236032
score 13.22299

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