Inferring the historical patterns of biological evolution

M Pagel - Nature, 1999 - nature.com
Phylogenetic trees describe the pattern of descent amongst a group of species. With the
rapid accumulation of DNA sequence data, more and more phylogenies are being …

Niche dynamics in space and time

PB Pearman, A Guisan, O Broennimann… - Trends in ecology & …, 2008 - cell.com
Niche conservatism, the tendency of a species niche to remain unchanged over time, is
often assumed when discussing, explaining or predicting biogeographical patterns …

The durability of natural infection and vaccine-induced immunity against future infection by SARS-CoV-2

JP Townsend, HB Hassler, P Sah… - Proceedings of the …, 2022 - National Acad Sciences
The durability of vaccine-mediated immunity to SARS-CoV-2, the durations to breakthrough
infection, and the optimal timings of booster vaccination are crucial knowledge for pandemic …

Conceptual and statistical problems with the DEC+ J model of founder‐event speciation and its comparison with DEC via model selection

RH Ree, I Sanmartín - Journal of Biogeography, 2018 - Wiley Online Library
Phylogenetic studies of geographic range evolution are increasingly using statistical model
selection methods to choose among variants of the dispersal‐extinction‐cladogenesis …

phytools 2.0: an updated R ecosystem for phylogenetic comparative methods (and other things)

LJ Revell - PeerJ, 2024 - peerj.com
Phylogenetic comparative methods comprise the general endeavor of using an estimated
phylogenetic tree (or set of trees) to make secondary inferences: about trait evolution …

[HTML][HTML] The ancestral flower of angiosperms and its early diversification

H Sauquet, M Von Balthazar, S Magallón… - Nature …, 2017 - nature.com
Recent advances in molecular phylogenetics and a series of important palaeobotanical
discoveries have revolutionized our understanding of angiosperm diversification. Yet, the …

Detecting hidden diversification shifts in models of trait-dependent speciation and extinction

JM Beaulieu, BC O'Meara - Systematic biology, 2016 - academic.oup.com
The distribution of diversity can vary considerably from clade to clade. Attempts to
understand these patterns often employ state-dependent speciation and extinction models …

Diversitree: comparative phylogenetic analyses of diversification in R

RG FitzJohn - Methods in Ecology and Evolution, 2012 - Wiley Online Library
The R package 'diversitree'contains a number of classical and contemporary comparative
phylogenetic methods. Key included methods are BiSSE (binary state speciation and …

[图书][B] Phylogeography: the history and formation of species

JC Avise - 2000 - books.google.com
Phylogeography is a discipline concerned with various relationships between gene
genealogies—phylogenetics—and geography. The word “phylogeography” was coined in …

Testing for phylogenetic signal in comparative data: behavioral traits are more labile

SP Blomberg, T Garland Jr, AR Ives - Evolution, 2003 - Wiley Online Library
The primary rationale for the use of phylogenetically based statistical methods is that
phylogenetic signal, the tendency for related species to resemble each other, is ubiquitous …