Molecular phylogenetics: principles and practice

Z Yang, B Rannala - Nature reviews genetics, 2012 - nature.com
Phylogenies are important for addressing various biological questions such as relationships
among species or genes, the origin and spread of viral infection and the demographic …

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 …

[HTML][HTML] Fungal diversity notes 1387–1511: Taxonomic and phylogenetic contributions on genera and species of fungal taxa

S Boonmee, DN Wanasinghe, MS Calabon… - Fungal Diversity, 2021 - Springer
This article is the 13th contribution in the Fungal Diversity Notes series, wherein 125 taxa
from four phyla, ten classes, 31 orders, 69 families, 92 genera and three genera incertae …

Freshwater fungi from karst landscapes in China and Thailand

J Yang, LL Liu, EBG Jones, KD Hyde, ZY Liu, DF Bao… - Fungal Diversity, 2023 - Springer
Freshwater fungi comprises a highly diverse group of organisms occurring in freshwater
habitats throughout the world. During a survey of freshwater fungi on submerged wood in …

RevBayes: Bayesian phylogenetic inference using graphical models and an interactive model-specification language

S Höhna, MJ Landis, TA Heath, B Boussau… - Systematic …, 2016 - academic.oup.com
Programs for Bayesian inference of phylogeny currently implement a unique and fixed suite
of models. Consequently, users of these software packages are simultaneously forced to …

[HTML][HTML] Fungal diversity notes 929–1035: taxonomic and phylogenetic contributions on genera and species of fungi

R Phookamsak, KD Hyde, R Jeewon, DJ Bhat… - Fungal diversity, 2019 - Springer
This article is the ninth in the series of Fungal Diversity Notes, where 107 taxa distributed in
three phyla, nine classes, 31 orders and 57 families are described and illustrated. Taxa …

MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space

F Ronquist, M Teslenko, P Van Der Mark… - Systematic …, 2012 - academic.oup.com
Since its introduction in 2001, MrBayes has grown in popularity as a software package for
Bayesian phylogenetic inference using Markov chain Monte Carlo (MCMC) methods. With …

Families of Dothideomycetes: In loving memory of Majorie Phyllis Hyde (affectionately known as Mum or Marj), 29 August 1921–18 January 2013—without mum's …

KD Hyde, EBG Jones, JK Liu, H Ariyawansa, E Boehm… - Fungal diversity, 2013 - Springer
Dothideomycetes comprise a highly diverse range of fungi characterized mainly by asci with
two wall layers (bitunicate asci) and often with fissitunicate dehiscence. Many species are …

Bantu expansion shows that habitat alters the route and pace of human dispersals

R Grollemund, S Branford, K Bostoen… - Proceedings of the …, 2015 - National Acad Sciences
Unlike most other biological species, humans can use cultural innovations to occupy a
range of environments, raising the intriguing question of whether human migrations move …

Survey of branch support methods demonstrates accuracy, power, and robustness of fast likelihood-based approximation schemes

M Anisimova, M Gil, JF Dufayard, C Dessimoz… - Systematic …, 2011 - academic.oup.com
Phylogenetic inference and evaluating support for inferred relationships is at the core of
many studies testing evolutionary hypotheses. Despite the popularity of nonparametric …