Divergence time estimation using fossils as terminal taxa and the origins of Lissamphibia.

@article{Pyron2011DivergenceTE,
  title={Divergence time estimation using fossils as terminal taxa and the origins of Lissamphibia.},
  author={R. A. Pyron},
  journal={Systematic biology},
  year={2011},
  volume={60 4},
  pages={
          466-81
        }
}
  • R. A. Pyron
  • Published 2011
  • Biology, Medicine
  • Systematic biology
Were molecular data available for extinct taxa, questions regarding the origins of many groups could be settled in short order. As this is not the case, various strategies have been proposed to combine paleontological and neontological data sets. The use of fossil dates as node age calibrations for divergence time estimation from molecular phylogenies is commonplace. In addition, simulations suggest that the addition of morphological data from extinct taxa may improve phylogenetic estimation… Expand

Paper Mentions

Phylogeny and Divergence Times of Lemurs Inferred with Recent and Ancient Fossils in the Tree.
TLDR
This is the first study to combine morphological and DNA sequence data from extinct and extant primates to infer evolutionary relationships and divergence times, and the results shed new light on the tempo of lemur evolution and the efficacy of combined phylogenetic analyses. Expand
Assessment of cladistic data availability for living mammals
TLDR
The amount of morphological (cladistic) data available for living mammals and how this data was phylogenetically distributed across orders was investigated, suggesting that increased morphological data collection efforts for living taxa are needed to produce accurate Total Evidence phylogenies. Expand
Assessment of cladistic data availability for living mammals
TLDR
The amount of morphological (cladistic) data available for living mammals and how this data was phylogenetically distributed across orders was investigated, suggesting that increased morphological data collection efforts for living taxa are needed to produce accurate Total Evidence phylogenies. Expand
Molecular and morphological clocks for estimating evolutionary divergence times
TLDR
The findings suggest that node- and tip-calibration approaches may be better suited for nodes with many taxa, and the importance of evaluating the concordance of intrinsic time structure in morphological and molecular data before any dating analysis using combined datasets is highlighted. Expand
Molecular and morphological clocks for estimating evolutionary divergence times
TLDR
The findings suggest that node‐ and tip‐calibration approaches may be better suited for nodes with many taxa, and highlight the importance of evaluating the concordance of intrinsic time structure in morphological and molecular data before any dating analysis using combined datasets. Expand
Combining fossil and molecular data to date the diversification of New World Primates
TLDR
The results corroborate the hypothesis that living platyrrhines diversified in the last 20 Ma and that Miocene Patagonian fossils compose an independent evolutionary radiation that diversify in the late Oligocene and show that morphological data can be analysed using the same methodological framework applied in relaxed molecular clock studies. Expand
Treating fossils as terminal taxa in divergence time estimation reveals ancient vicariance patterns in the palpimanoid spiders.
TLDR
This analysis provides a rare example, and perhaps the most strongly supported, where a dated phylogeny confirms a biogeographical hypothesis based on vicariance due to the breakup of the ancient continental plates. Expand
A revised dated phylogeny of the arachnid order Opiliones
TLDR
These analyses support basal diversification of Opiliones in the Ordovician-Devonian period, corroborating the inferred ancient origins of this arthropod order, and underscore the importance of diversity discovery—both paleontological and neontological—in evolutionary inference. Expand
Taxonomy and Phylogeny Can Yield Comparable Results in Comparative Paleontological Analyses.
TLDR
The results suggest that under particular circumstances and after careful consideration some taxonomies, or composite trees that incorporate taxonomic information, could be used in place of a formal analytical solution, but workers must be cautious. Expand
Bayesian estimation of fossil phylogenies and the evolution of early to middle Paleozoic crinoids (Echinodermata)
TLDR
Results support several clades recognized in previous analyses sampling only Ordovician taxa, but also reveal instances where phylogenetic affinities are more complex and extensive revisions are necessary, particularly among the Cladida. Expand
...
1
2
3
4
5
...

References

SHOWING 1-10 OF 110 REFERENCES
Paleontology, genomics, and combined-data phylogenetics: can molecular data improve phylogeny estimation for fossil taxa?
  • J. Wiens
  • Biology, Medicine
  • Systematic biology
  • 2009
TLDR
Simulation results suggest that improvements in molecular phylogenetics can potentially benefit phylogeny reconstruction for fossil taxa in the context of a combined analysis of morphological and molecular data for living and fossilTaxa. Expand
Phylogeny of extant and fossil Juglandaceae inferred from the integration of molecular and morphological data sets.
TLDR
The results clearly show that the amount of missing data in any given taxon is not by itself an operational guideline for excluding fossils from analysis, and each of the methods provided reasonable placement of both fossils and simulated "artificial fossils" in the phylogeny previously inferred only from extant taxa. Expand
Combining phylogenomics and fossils in higher-level squamate reptile phylogeny: molecular data change the placement of fossil taxa.
TLDR
Significant promise is suggested for an integrated and comprehensive Tree of Life by combining molecular and morphological data for living and fossil taxa. Expand
Fossils, molecules, divergence times, and the origin of lissamphibians.
A review of the paleontological literature shows that the early dates of appearance of Lissamphibia recently inferred from molecular data do not favor an origin of extant amphibians fromExpand
Tests of turtle phylogeny: molecular, morphological, and paleontological approaches.
TLDR
Branch-length analysis and independent dates from the fossil record suggest that these unresolved nodes may represent a rapid radiation of the major cryptodiran lineages 90-120 million years ago. Expand
Impact of increased character sampling on the phylogeny of Cetartiodactyla (Mammalia): combined analysis including fossils
The phylogenetic position of Cetacea (whales, dolphins and porpoises) is an important exemplar problem for combined data parsimony analyses because the clade is ancient and includes many well‐knownExpand
Phylogenetic relationships of the Cretaceous frog Beelzebufo from Madagascar and the placement of fossil constraints based on temporal and phylogenetic evidence
TLDR
A metric is derived, Δt, to quantify temporal divergence among chronograms and finds that errors resulting from mis‐specified calibrations are localized when additional nodes throughout the tree are properly calibrated. Expand
Hylid frog phylogeny and sampling strategies for speciose clades.
TLDR
The results show that hemiphractine hylids are not closely related to other hyLids and should be recognized as a distinct family, and that the speciose genus Hyla is polyphyletic, but that its species can be arranged into three monophyletic genera. Expand
How Does the Inclusion of Fossil Data Change Our Conclusions about the Phylogenetic History of Euphyllophytes?
TLDR
Tests reveal that relationships among major groups of vascular plants are far less completely understood than claimed by some and that ferns s.l. are probably a polyphyletic assemblage and suggest that the impressive successes of gene sequence data in resolving relationships within smaller clades may not be easily duplicated when addressing deep internal nodes of the polysporangiophyte tree. Expand
Mitogenomic perspectives on the origin and phylogeny of living amphibians.
TLDR
It is suggested that the temnospondyl-origin hypothesis for lissamphibians is more credible than other hypotheses, and under this timescale, the potential geographic origins of the main living amphibian groups are discussed. Expand
...
1
2
3
4
5
...