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Journal ArticleDOI

Establishing a time-scale for plant evolution

TLDR
A post-Jurassic origin of angiosperms and a post-Cambrian origin of land plants are rejected, and it is suggested that the establishment of the major embryophyte lineages occurred at a much slower tempo than suggested in most previous studies.
Abstract
• Plants have utterly transformed the planet, but testing hypotheses of causality requires a reliable time-scale for plant evolution. While clock methods have been extensively developed, less attention has been paid to the correct interpretation and appropriate implementation of fossil data. • We constructed 17 calibrations, consisting of minimum constraints and soft maximum constraints, for divergences between model representatives of the major land plant lineages. Using a data set of seven plastid genes, we performed a cross-validation analysis to determine the consistency of the calibrations. Six molecular clock analyses were then conducted, one with the original calibrations, and others exploring the impact on divergence estimates of changing maxima at basal nodes, and prior probability densities within calibrations. • Cross-validation highlighted Tracheophyta and Euphyllophyta calibrations as inconsistent, either because their soft maxima were overly conservative or because of undetected rate variation. Molecular clock analyses yielded estimates ranging from 568-815 million yr before present (Ma) for crown embryophytes and from 175-240 Ma for crown angiosperms. • We reject both a post-Jurassic origin of angiosperms and a post-Cambrian origin of land plants. Our analyses also suggest that the establishment of the major embryophyte lineages occurred at a much slower tempo than suggested in most previous studies. These conclusions are entirely compatible with current palaeobotanical data, although not necessarily with their interpretation by palaeobotanists.

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Citations
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Journal ArticleDOI

Does host‐plant diversity explain species richness in insects? A test using Coccidae (Hemiptera)

TL;DR: The megadiverse herbivores and their host plants are a major component of biodiversity, and their interactions have been hypothesised to drive the diversification of both.
Journal ArticleDOI

Phylogenetically vetted and stratigraphically constrained fossil calibrations within Aves

TL;DR: Seven phylogenetically vetted fossil calibrations for major divergences within crown Aves representing the splits between Anatoidea, Sphenisciformes, Coracioidea and Upupiformes are provided to provide a starting point for workers interested in estimating confidence intervals or outlining prior age distribution curves.
Journal ArticleDOI

A review of the effect of relaxed clock method, long branches, genes, and calibrations in the estimation of angiosperm age

TL;DR: It is hypothesized that model misspecifi cation may play a role in the observed molecular clock/fossil discrepancy, considering the gradually increasing abundance, diversity and geographical distribution of angiosperms in the fossil record; the ordered progression of their morphological and functional diversifi cations; and the agreement in the sequence of appearance of lineages in the stratigraphic record and in molecular phylogenies.
Journal ArticleDOI

Ginkgo biloba's footprint of dynamic Pleistocene history dates back only 390,000 years ago

TL;DR: The hypothesis that during the Pleistocene cooling periods G. biloba expanded its distribution range in China repeatedly is elaborated and present-day directional West-East admixture of genetic diversity is shown to be the result of pronounced effects of the last cooling period.
Journal ArticleDOI

Early Archean origin of heterodimeric Photosystem I

TL;DR: This work shows, using sequence comparisons and Bayesian relaxed molecular clocks, that this gene duplication event may have occurred in the early Archean more than 3.4 billion years ago, long before the most recent common ancestor of crown group Cyanobacteria and the Great Oxidation Event.
References
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Journal ArticleDOI

PAML 4: Phylogenetic Analysis by Maximum Likelihood

TL;DR: PAML, currently in version 4, is a package of programs for phylogenetic analyses of DNA and protein sequences using maximum likelihood (ML), which can be used to estimate parameters in models of sequence evolution and to test interesting biological hypotheses.
Journal ArticleDOI

Relaxed Phylogenetics and Dating with Confidence

TL;DR: In this paper, the authors introduce a new approach to perform relaxed phylogenetic analysis, which can be used to estimate phylogenies and divergence times in the face of uncertainty in evolutionary rates and calibration times.
Book

A Geologic time scale

W. B. Harland
BookDOI

A Geologic Time Scale 2004

TL;DR: Gradstein et al. as discussed by the authors proposed a chronostratigraphy approach for linking time and rock in the context of geologic time scales, including the geomagnetic polarity time scale and stable isotope geochronology.
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