Assessing Confidence Intervals for Stratigraphic Ranges of Higher Taxa: The Case of Lissamphibia

@inproceedings{Marjanovi2008AssessingCI,
  title={Assessing Confidence Intervals for Stratigraphic Ranges of Higher Taxa: The Case of Lissamphibia},
  author={David Marjanovi{\'c} and Michel Laurin},
  year={2008}
}
To evaluate stratigraphic evidence for the time of origin of the clade of extant amphibians (Lissamphibia), we attempt to establish a confidence interval on the lower bound of the stratigraphic range of this clade. This is based on the stratigraphic distribution of 1207 fossiliferous localities that have yielded lissamphibians, the relative area of sedimentary rocks from various periods (upper Paleozoic to present) exposed on the continents, and ten exponential-growth models of lissamphibian… 

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References

SHOWING 1-10 OF 129 REFERENCES

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 from

Fossil gap analysis supports early Tertiary origin of trophically diverse avian orders

TLDR
The quality of the fossil record is consistent with the classical view that trophically diverse extant bird orders arose and diversified rapidly following the widespread extinction of other terrestrial groups at the K-T boundary.

Initial Diversification of Living Amphibians Predated the Breakup of Pangaea

TLDR
A robust molecular phylogeny based on the nuclear RAG1 gene as well as results from a variety of alternative independent molecular clock calibrations suggest that the origin and early divergence of the three living amphibian orders dates back to the Palaeozoic or early Mesozoic, before the breakup of Pangaea, and soon after the divergence from lobe‐finned fishes.

Confidence intervals on stratigraphic ranges

  • C. Marshall
  • Environmental Science, Geography
    Paleobiology
  • 1990
Observed stratigraphic ranges almost always underestimate true longevities. Strauss and Sadler (1987, 1989) provide a method for calculating confidence intervals on the endpoints of local

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.

Effects of sampling standardization on estimates of Phanerozoic marine diversification

  • J. AlroyC. Marshall A. Webber
  • Environmental Science, Geography
    Proceedings of the National Academy of Sciences of the United States of America
  • 2001
TLDR
A new database of this kind for the Phanerozoic fossil record of marine invertebrates is introduced and four substantially distinct analytical methods that estimate taxonomic diversity by quantifying and correcting for variation through time in the number and nature of inventories are applied.

Global patterns of diversification in the history of modern amphibians

TLDR
A phylogenetic timetree based on a multigene data set of 3.75 kb for 171 species reveals several episodes of accelerated amphibian diversification, which do not fit models of gradual lineage accumulation.

Continental breakup and the ordinal diversification of birds and mammals

THE classical hypothesis for the diversification of birds and mammals proposes that most of the orders diverged rapidly in adaptive radiations after the Cretaceous/Tertiary (K/T) extinction event 65

Dates, nodes and character conflict: Addressing the Lissamphibian origin problem

TLDR
Tests of different crown topologies show that placement of amphibians within lepospondyls is not a significantly worse fit for the whole character set than a close temnospondyl‐lissamphibian relationship, and the latter phylogenetic hypothesis best captures the most coherent assembly of derived lissampshibian apomorphies.

VARIATION IN THE ILIUM OF NORTH AMERICAN BUFO (LISSAMPHIBIA; ANURA) AND ITS IMPLICATIONS FOR SPECIES-LEVEL IDENTIFICATION OF FRAGMENTARY

TLDR
The fact that both morphometric and discrete characters fail to support species-level identification of isolated ilia of extant Bufo indicates that identifications should be restricted to higher taxonomic levels until new ilial characters are established.
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