Phylogenomics and the reconstruction of the tree of life

F Delsuc, H Brinkmann, H Philippe - Nature Reviews Genetics, 2005 - nature.com
As more complete genomes are sequenced, phylogenetic analysis is entering a new era—
that of phylogenomics. One branch of this expanding field aims to reconstruct the …

The unholy trinity: taxonomy, species delimitation and DNA barcoding

R DeSalle, MG Egan, M Siddall - … transactions of the …, 2005 - royalsocietypublishing.org
Recent excitement over the development of an initiative to generate DNA sequences for all
named species on the planet has in our opinion generated two major areas of contention as …

A glimpse on the pattern of rodent diversification: a phylogenetic approach

PH Fabre, L Hautier, D Dimitrov, EJ P Douzery - BMC evolutionary biology, 2012 - Springer
Background Development of phylogenetic methods that do not rely on fossils for the study of
evolutionary processes through time have revolutionized the field of evolutionary biology …

[HTML][HTML] Constraints on the timescale of animal evolutionary history

MJ Benton, PCJ Donoghue, RJ Asher, M Friedman… - 2015 - palaeo-electronica.org
Dating the tree of life is a core endeavor in evolutionary biology. Rates of evolution are
fundamental to nearly every evolutionary model and process. Rates need dates. There is …

Updating the evolutionary history of Carnivora (Mammalia): a new species-level supertree complete with divergence time estimates

K Nyakatura, ORP Bininda-Emonds - BMC biology, 2012 - Springer
Background Although it has proven to be an important foundation for investigations of
carnivoran ecology, biology and evolution, the complete species-level supertree for …

Phylogenetic analysis at deep timescales: unreliable gene trees, bypassed hidden support, and the coalescence/concatalescence conundrum

J Gatesy, MS Springer - Molecular phylogenetics and evolution, 2014 - Elsevier
Large datasets are required to solve difficult phylogenetic problems that are deep in the Tree
of Life. Currently, two divergent systematic methods are commonly applied to such datasets …

Missing data, incomplete taxa, and phylogenetic accuracy

JJ Wiens - Systematic biology, 2003 - academic.oup.com
The problem of missing data is often considered to be the most important obstacle in
reconstructing the phylogeny of fossil taxa and in combining data from diverse characters …

Continuous and arrested morphological diversification in sister clades of characiform fishes: a phylomorphospace approach

B Sidlauskas - Evolution, 2008 - academic.oup.com
Understanding how and why certain clades diversify greatly in morphology whereas others
do not remains a major theme in evolutionary biology. Projecting families of phylogenies into …

[PDF][PDF] Everywhere but Antarctica: using a supertree to understand the diversity and distribution of the Compositae

VA Funk, RJ Bayer, S Keeley, R Chan… - Biol. Skr. 55: 343 …, 2005 - repository.si.edu
One of every 10 flowering plant species is in the family Compositae. With ca. 24,000-30,000
species in 1600-1700 genera and a distribution that is global except for Antarctica, it is the …

Radiation of extant cetaceans driven by restructuring of the oceans

ME Steeman, MB Hebsgaard, RE Fordyce… - Systematic …, 2009 - academic.oup.com
The remarkable fossil record of whales and dolphins (Cetacea) has made them an exemplar
of macroevolution. Although their overall adaptive transition from terrestrial to fully aquatic …