Journal ArticleDOI
Resolution of the early placental mammal radiation using Bayesian phylogenetics
William J. Murphy,Eduardo Eizirik,Eduardo Eizirik,Stephen J. O'Brien,Ole Madsen,Mark Scally,Mark Scally,Christophe J. Douady,Christophe J. Douady,Emma C. Teeling,Emma C. Teeling,Oliver A. Ryder,Michael J. Stanhope,Michael J. Stanhope,Wilfried W. de Jong,Mark S. Springer +15 more
TLDR
Crown-group Eutheria may have their most recent common ancestry in the Southern Hemisphere (Gondwana), and placental phylogeny is investigated using Bayesian and maximum-likelihood methods and a 16.4-kilobase molecular data set.Abstract:
Molecular phylogenetic studies have resolved placental mammals into four major groups, but have not established the full hierarchy of interordinal relationships, including the position of the root. The latter is critical for understanding the early biogeographic history of placentals. We investigated placental phylogeny using Bayesian and maximum-likelihood methods and a 16.4-kilobase molecular data set. Interordinal relationships are almost entirely resolved. The basal split is between Afrotheria and other placentals, at about 103 million years, and may be accounted for by the separation of South America and Africa in the Cretaceous. Crown-group Eutheria may have their most recent common ancestry in the Southern Hemisphere (Gondwana).read more
Citations
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Review of the Origins and Biogeography of Bats in South America
TL;DR: General hypotheses of the origin of bats in South America can be inferred based on previous phylogenetic studies, but as new palaeontological data is discovered and comprehensive phylogenies are proposed for more groups, the details of historical biogeography, modes of speciation, and times of diversification will be better resolved and corroborated.
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Environments of Mid-Cretaceous Saharan dinosaurs
TL;DR: A review of topographic, sedimentary and biologic data pertaining to terrestrial mid-Cretaceous equatorial environments broadly supports the climatic inferences of marine studies.
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Primate Origins: Implications of a Cretaceous Ancestry
TL;DR: A statistical analysis of the primate record allowing for major gaps now indicates a Cretaceous origin of euprimates 80–90 Ma ago, and the known early Tertiary primates are re-interpreted as northern continental offshoots of a ‘second wave’ of primate evolution.
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Blood meal analysis of culicoides (Diptera: ceratopogonidae) in central Tunisia.
TL;DR: The results confirm the presence of several Culicoides species, including proven vectors in Central Tunisia, and show that these species will indeed feed on bigger mammals, thereby highlighting the risk that these viruses will be able to spread.
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The use and validity of composite taxa in phylogenetic analysis.
TL;DR: This study demonstrates that composite taxa represent an interesting approach to minimize the amount of missing data in supermatrices and suggests that it is the optimal approach to use in phylogenomic studies to reduce computing time.
References
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Journal ArticleDOI
MRBAYES: Bayesian inference of phylogenetic trees
TL;DR: The program MRBAYES performs Bayesian inference of phylogeny using a variant of Markov chain Monte Carlo, and an executable is available at http://brahms.rochester.edu/software.html.
Journal ArticleDOI
MODELTEST: testing the model of DNA substitution.
David Posada,Keith A. Crandall +1 more
TL;DR: The program MODELTEST uses log likelihood scores to establish the model of DNA evolution that best fits the data.
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An Empirical Test of Bootstrapping as a Method for Assessing Confidence in Phylogenetic Analysis
David M. Hillis,James J. Bull +1 more
TL;DR: This work uses computer simulations and a laboratory-generated phylogeny to test bootstrapping results of parsimony analyses, and indicates that any given bootstrap proportion provides an unbiased but highly imprecise measure of repeatability, unless the actual probability of replicating the relevant result is nearly one.
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A molecular timescale for vertebrate evolution
Sudhir Kumar,S. Blair Hedges +1 more
TL;DR: The clock-like accumulation of sequence differences in some genes provides an alternative method by which the mean divergence time can be estimated, and the molecular times agree with most early and late fossil-based times, but indicate major gaps in the Mesozoic fossil record.
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Markov Chasin Monte Carlo Algorithms for the Bayesian Analysis of Phylogenetic Trees
Bret Larget,DL Simon +1 more
TL;DR: The Bayesian framework for analyzing aligned nucleotide sequence data to reconstruct phylogenies, assess uncertainty in the reconstructions, and perform other statistical inferences is developed and a Markov chain Monte Carlo sampler is employed to sample trees and model parameter values from their joint posterior distribution.