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Phylogenomic datasets provide both precision and accuracy in estimating the timescale of placental mammal phylogeny

Dos Reis, M; Inoue, J; Hasegawa, M; Asher, RJ; Donoghue, PC; Yang, Z; (2012) Phylogenomic datasets provide both precision and accuracy in estimating the timescale of placental mammal phylogeny. Proceedings of the Royal Society B: Biological Sciences , 279 (1742) pp. 3491-3500. 10.1098/rspb.2012.0683.

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Abstract

The fossil record suggests a rapid radiation of placental mammals following the Cretaceous-Paleogene (K-Pg) mass extinction 65 million years ago (Ma); nevertheless, molecular time estimates, while highly variable, are generally much older. Early molecular studies suffer from inadequate dating methods, reliance on the molecular clock, and simplistic and over-confident interpretations of the fossil record. More recent studies have used Bayesian dating methods that circumvent those issues, but the use of limited data has led to large estimation uncertainties, precluding a decisive conclusion on the timing of mammalian diversifications. Here we use a powerful Bayesian method to analyse 36 nuclear genomes and 274 mitochondrial genomes (20.6 million base pairs), combined with robust but flexible fossil calibrations. Our posterior time estimates suggest that marsupials diverged from eutherians 168-178 Ma, and crown Marsupialia diverged 64-84 Ma. Placentalia diverged 88-90 Ma, and present-day placental orders (except Primates and Xenarthra) originated in a ∼20 Myr window (45-65 Ma) after the K-Pg extinction. Therefore we reject a pre K-Pg model of placental ordinal diversification. We suggest other infamous instances of mismatch between molecular and palaeontological divergence time estimates will be resolved with this same approach.

Type: Article
Title: Phylogenomic datasets provide both precision and accuracy in estimating the timescale of placental mammal phylogeny
Location: England
DOI: 10.1098/rspb.2012.0683
Publisher version: http://dx.doi.org/10.1098/rspb.2012.0683
Language: English
Keywords: Animals, Bayes Theorem, Cell Nucleus, DNA Copy Number Variations, Evolution, Molecular, Fossils, Genome, Mitochondrial, Mammals, Phylogeny, Sequence Alignment, Sequence Analysis, DNA, Sequence Analysis, Protein
UCL classification: UCL > Provost and Vice Provost Offices
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences > Div of Biosciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences > Div of Biosciences > Genetics, Evolution and Environment
URI: http://discovery.ucl.ac.uk/id/eprint/1473670
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