TY - JOUR
T1 - Simultaneous detection of macroevolutionary patterns in phenotypic means and rate of change with and within phylogenetic trees including extinct species
AU - Castiglione, S.
AU - Serio, C.
AU - Mondanaro, A.
AU - Di Febbraro, M.
AU - Profico, A.
AU - Girardi, G.
AU - Raia, P.
PY - 2019/1/1
Y1 - 2019/1/1
N2 - Recognizing evolutionary trends in phenotypic means and rates requires the application of phylogenetic comparative methods (PCMs). Most PCMs are unsuited to make full use of fossil information, which is a drawback, given the inclusion of such data improves, and in some cases even corrects, the proper understanding of trait evolution. Here we present a new computer application, written in R, that allows the simultaneous computation of temporal trends in phenotypic mean and evolutionary rate along a phylogeny, and to contrast such patterns among different clades within the tree. By using simulation experiments, we show the new implementation, names search.trend is as powerful as existing PCM tools in discerning macroevolutionary patterns in phenotypic means and rates, but differently from any other PCM allows comparing individual clades to each other, and provides rich information about trait evolution for all lineages in the tree.
AB - Recognizing evolutionary trends in phenotypic means and rates requires the application of phylogenetic comparative methods (PCMs). Most PCMs are unsuited to make full use of fossil information, which is a drawback, given the inclusion of such data improves, and in some cases even corrects, the proper understanding of trait evolution. Here we present a new computer application, written in R, that allows the simultaneous computation of temporal trends in phenotypic mean and evolutionary rate along a phylogeny, and to contrast such patterns among different clades within the tree. By using simulation experiments, we show the new implementation, names search.trend is as powerful as existing PCM tools in discerning macroevolutionary patterns in phenotypic means and rates, but differently from any other PCM allows comparing individual clades to each other, and provides rich information about trait evolution for all lineages in the tree.
UR - http://www.scopus.com/inward/record.url?scp=85060551084&partnerID=8YFLogxK
U2 - 10.1371/journal.pone.0210101
DO - 10.1371/journal.pone.0210101
M3 - Article
C2 - 30682060
AN - SCOPUS:85060551084
SN - 1932-6203
VL - 14
JO - PLoS ONE
JF - PLoS ONE
IS - 1
M1 - e0210101
ER -