Phylogenetic approaches for studying diversification

H Morlon - Ecology letters, 2014 - Wiley Online Library
Estimating rates of speciation and extinction, and understanding how and why they vary
over evolutionary time, geographical space and species groups, is a key to understanding …

Diversity dynamics: molecular phylogenies need the fossil record

TB Quental, CR Marshall - Trends in ecology & evolution, 2010 - cell.com
Over the last two decades, new tools in the analysis of molecular phylogenies have enabled
study of the diversification dynamics of living clades in the absence of information about …

Extant timetrees are consistent with a myriad of diversification histories

S Louca, MW Pennell - Nature, 2020 - nature.com
Time-calibrated phylogenies of extant species (referred to here as 'extant timetrees') are
widely used for estimating diversification dynamics. However, there has been considerable …

An inverse latitudinal gradient in speciation rate for marine fishes

DL Rabosky, J Chang, PF Cowman, L Sallan… - Nature, 2018 - nature.com
Far more species of organisms are found in the tropics than in temperate and polar regions,
but the evolutionary and ecological causes of this pattern remain controversial 1, 2. Tropical …

paleotree: an R package for paleontological and phylogenetic analyses of evolution

DW Bapst - Methods in Ecology and Evolution, 2012 - Wiley Online Library
paleotree is a library of functions for the R statistical computing environment dedicated to
analyses that combine paleontological and phylogenetic data sets, particularly the time …

Diversification in vipers: Phylogenetic relationships, time of divergence and shifts in speciation rates

LRV Alencar, TB Quental, FG Grazziotin… - Molecular phylogenetics …, 2016 - Elsevier
Snakes of the cosmopolitan family Viperidae comprise around 329 venomous species
showing a striking heterogeneity in species richness among lineages. While the subfamily …

Species richness at continental scales is dominated by ecological limits

DL Rabosky, AH Hurlbert - The American Naturalist, 2015 - journals.uchicago.edu
Explaining variation in species richness among provinces and other large geographic
regions remains one of the most challenging problems at the intersection of ecology and …

Reconciling molecular phylogenies with the fossil record

H Morlon, TL Parsons… - Proceedings of the …, 2011 - National Acad Sciences
Historical patterns of species diversity inferred from phylogenies typically contradict the
direct evidence found in the fossil record. According to the fossil record, species frequently …

Integrating fossils with molecular phylogenies improves inference of trait evolution

GJ Slater, LJ Harmon, ME Alfaro - Evolution, 2012 - academic.oup.com
Comparative biologists often attempt to draw inferences about tempo and mode in evolution
by comparing the fit of evolutionary models to phylogenetic comparative data consisting of a …

Diversity-dependence brings molecular phylogenies closer to agreement with the fossil record

RS Etienne, B Haegeman, T Stadler… - … of the Royal …, 2012 - royalsocietypublishing.org
The branching times of molecular phylogenies allow us to infer speciation and extinction
dynamics even when fossils are absent. Troublingly, phylogenetic approaches usually …