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 …
of Life. Currently, two divergent systematic methods are commonly applied to such datasets …
Attenuated evolution of mammals through the Cenozoic
The Cenozoic diversification of placental mammals is the archetypal adaptive radiation. Yet,
discrepancies between molecular divergence estimates and the fossil record fuel ongoing …
discrepancies between molecular divergence estimates and the fossil record fuel ongoing …
Bat biology, genomes, and the Bat1K project: to generate chromosome-level genomes for all living bat species
Bats are unique among mammals, possessing some of the rarest mammalian adaptations,
including true self-powered flight, laryngeal echolocation, exceptional longevity, unique …
including true self-powered flight, laryngeal echolocation, exceptional longevity, unique …
The taming of the neural crest: a developmental perspective on the origins of morphological covariation in domesticated mammals
MR Sánchez-Villagra, M Geiger… - Royal Society open …, 2016 - royalsocietypublishing.org
Studies on domestication are blooming, but the developmental bases for the generation of
domestication traits and breed diversity remain largely unexplored. Some phenotypic …
domestication traits and breed diversity remain largely unexplored. Some phenotypic …
Likelihood-based tree reconstruction on a concatenation of aligned sequence data sets can be statistically inconsistent
The reconstruction of a species tree from genomic data faces a double hurdle. First, the
(gene) tree describing the evolution of each gene may differ from the species tree, for …
(gene) tree describing the evolution of each gene may differ from the species tree, for …
Primate phylogenetic relationships and divergence dates inferred from complete mitochondrial genomes
The origins and the divergence times of the most basal lineages within primates have been
difficult to resolve mainly due to the incomplete sampling of early fossil taxa. The main …
difficult to resolve mainly due to the incomplete sampling of early fossil taxa. The main …
Shotgun mitogenomics provides a reference phylogenetic framework and timescale for living xenarthrans
Xenarthra (armadillos, sloths, and anteaters) constitutes one of the four major clades of
placental mammals. Despite their phylogenetic distinctiveness in mammals, a reference …
placental mammals. Despite their phylogenetic distinctiveness in mammals, a reference …
[HTML][HTML] Marine mammals harbor unique microbiotas shaped by and yet distinct from the sea
Marine mammals play crucial ecological roles in the oceans, but little is known about their
microbiotas. Here we study the bacterial communities in 337 samples from 5 body sites in 48 …
microbiotas. Here we study the bacterial communities in 337 samples from 5 body sites in 48 …
The interrelationships of placental mammals and the limits of phylogenetic inference
Placental mammals comprise three principal clades: Afrotheria (eg, elephants and tenrecs),
Xenarthra (eg, armadillos and sloths), and Boreoeutheria (all other placental mammals), the …
Xenarthra (eg, armadillos and sloths), and Boreoeutheria (all other placental mammals), the …
Integrating fossils with molecular phylogenies improves inference of trait evolution
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 …
by comparing the fit of evolutionary models to phylogenetic comparative data consisting of a …