STATISTICAL ANALYSIS OF DIVERSIFICATION WITH SPECIES TRAITS

@inproceedings{Paradis2005STATISTICALAO,
  title={STATISTICAL ANALYSIS OF DIVERSIFICATION WITH SPECIES TRAITS},
  author={E. Paradis},
  year={2005}
}
Abstract Testing whether some species traits have a significant effect on diversification rates is central in the assessment of macroevolutionary theories. However, we still lack a powerful method to tackle this objective. I present a new method for the statistical analysis of diversification with species traits. The required data are observations of the traits on recent species, the phylogenetic tree of these species, and reconstructions of ancestral values of the traits. Several traits… Expand
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References

SHOWING 1-10 OF 16 REFERENCES
INFERRING SPECIATION RATES FROM PHYLOGENIES
  • S. Nee
  • Biology, Medicine
  • Evolution; international journal of organic evolution
  • 2001
TLDR
Several methods for constructing confidence intervals for the speciation rate under the simple assumption of a pure birth process are presented and the relationships among these methods are discussed in the hope of clarifying some fundamental theory in this area. Expand
Can extinction rates be estimated without fossils?
  • E. Paradis
  • Medicine, Biology
  • Journal of theoretical biology
  • 2004
TLDR
This study aims at assessing the statistical performance of the birth-death model fitting approach to estimate speciation and extinction rates by comparison to the approach considering fossil data, using a simulation-based approach. Expand
Testing Whether Certain Traits have Caused Amplified Diversification: An Improved Method Based on a Model of Random Speciation and Extinction
One of the more striking patterns of organismal diversity isthe repeated occurrence of taxonomic groups that are conspicuously large as compared to related groups. Well-known examples includeExpand
Inferring Evolutionary Process from Phylogenetic Tree Shape
TLDR
Tree shape may help us detect mass extinctions and adaptive radiations, measure continuos variation in speciation and extinction rates, and associate changes in these rates with ecological or biogeographical causes, and extend well beyond the study of macroevolution. Expand
LIKELIHOOD OF ANCESTOR STATES IN ADAPTIVE RADIATION
TLDR
It is concluded that measures of uncertainty are useful and should always be provided, despite simplistic assumptions about the probabilistic models that underlie them, and if uncertainty is too high, reconstruction should be abandoned. Expand
DOES CLADISTIC INFORMATION AFFECT INFERENCES ABOUT BRANCHING RATES
Despite long-standing interest in reconstructing rates of branching in the history of groups and recent attempts to use cladistic information to make inferences about such rates, the conditions underExpand
Key innovations and the ecology of macroevolution.
  • J. Hunter
  • Biology, Medicine
  • Trends in ecology & evolution
  • 1998
TLDR
Recent key innovation studies comparing species richness in extant sister clades may miss important observations possible only with consideration of the fossil record, traditional higher taxa and phenotypic diversity. Expand
PERSPECTIVE: MODELS OF SPECIATION: WHAT HAVE WE LEARNED IN 40 YEARS?
  • S. Gavrilets
  • Biology, Medicine
  • Evolution; international journal of organic evolution
  • 2003
TLDR
This work describes the Bateson‐Dobzhansky‐Muller (BDM) model of speciation that does not require overcoming selection and describes exactly how the probability of speciation, the average waiting time to speciation, and the average duration of Speciation depend on the mutation and migration rates, population size, and selection for local adaptation. Expand
Stochastic models and descriptive statistics for phylogenetic trees, from Yule to today
In 1924 Yule observed that distributions of number of species per genus were typically long-tailed, and proposed a stochastic model to fit these data. Modern taxonomists often prefer to representExpand
Polytomies and phylogenetically independent contrasts: examination of the bounded degrees of freedom approach.
TLDR
The results of this study suggest that independent contrasts can reliably be applied to real data, even with phylogenetic uncertainty, and degrees of freedom were appropriately bounded for hypothesis testing. Expand
...
1
2
...