A review of long‐branch attraction

J Bergsten - Cladistics, 2005 - Wiley Online Library
The history of long‐branch attraction, and in particular methods suggested to detect and
avoid the artifact to date, is reviewed. Methods suggested to avoid LBA‐artifacts include …

Incorporating molecular evolution into phylogenetic analysis, and a new compilation of conserved polymerase chain reaction primers for animal mitochondrial DNA

C Simon, TR Buckley, F Frati, JB Stewart… - Annu. Rev. Ecol …, 2006 - annualreviews.org
DNA data has been widely used in animal phylogenetic studies over the past 15 years. Here
we review how these studies have used advances in knowledge of molecular evolutionary …

[图书][B] Randomization, bootstrap and Monte Carlo methods in biology

BFJ Manly - 2018 - taylorfrancis.com
Modern computer-intensive statistical methods play a key role in solving many problems
across a wide range of scientific disciplines. This new edition of the bestselling …

Assembling the squamate tree of life: perspectives from the phenotype and the fossil record

JA Gauthier, M Kearney, JA Maisano, O Rieppel… - Bulletin of the Peabody …, 2012 - BioOne
We assembled a dataset of 192 carefully selected species—51 extinct and 141 extant—and
976 apomorphies distributed among 610 phenotypic characters to investigate the phylogeny …

Approximate likelihood-ratio test for branches: a fast, accurate, and powerful alternative

M Anisimova, O Gascuel - Systematic biology, 2006 - academic.oup.com
We revisit statistical tests for branches of evolutionary trees reconstructed upon molecular
data. A new, fast, approximate likelihood-ratio test (aLRT) for branches is presented here as …

Bayes or bootstrap? A simulation study comparing the performance of Bayesian Markov chain Monte Carlo sampling and bootstrapping in assessing phylogenetic …

ME Alfaro, S Zoller, F Lutzoni - Molecular biology and evolution, 2003 - academic.oup.com
Abstract Bayesian Markov chain Monte Carlo sampling has become increasingly popular in
phylogenetics as a method for both estimating the maximum likelihood topology and for …

Phylogeny of Penicillium and the segregation of Trichocomaceae into three families

J Houbraken, RA Samson - Studies in mycology, 2011 - ingentaconnect.com
Species of Trichocomaceae occur commonly and are important to both industry and
medicine. They are associated with food spoilage and mycotoxin production and can occur …

A phylogeny of legumes (Leguminosae) based on analysis of the plastid matK gene resolves many well‐supported subclades within the family

MF Wojciechowski, M Lavin… - American journal of …, 2004 - Wiley Online Library
Phylogenetic analysis of 330 plastid matK gene sequences, representing 235 genera from
37 of 39 tribes, and four outgroup taxa from eurosids I supports many well‐resolved …

Frequentist properties of Bayesian posterior probabilities of phylogenetic trees under simple and complex substitution models

JP Huelsenbeck, B Rannala - Systematic biology, 2004 - academic.oup.com
What does the posterior probability of a phylogenetic tree mean? This simulation study
shows that Bayesian posterior probabilities have the meaning that is typically ascribed to …

Quartet sampling distinguishes lack of support from conflicting support in the green plant tree of life

JB Pease, JW Brown, JF Walker… - American journal of …, 2018 - Wiley Online Library
Premise of the Study Phylogenetic support has been difficult to evaluate within the green
plant tree of life partly due to a lack of specificity between conflicted versus poorly informed …