Extinction during evolutionary radiations: Reconciling the fossil record with molecular phylogenies

Evolution

Volumn 63, Issue 12, 2009, Pages 3158-3167

  Quental, Tiago B ^a   Marshall, Charles R ^a  

^a HARVARD UNIVERSITY   (United States)

Author keywords

statistic; Birth death models; Cladogenesis; Density dependent diversification; Speciation rate

Indexed keywords

ADAPTIVE RADIATION; COMPUTER SIMULATION; DENSITY DEPENDENCE; DIVERGENCE; EXTINCTION; FOSSIL RECORD; PALEONTOLOGY; PHYLOGENY; SPECIATION (BIOLOGY);

ANIMAL; ARTICLE; BIOLOGICAL MODEL; FOSSIL; PHYLOGENY; SPECIES DIFFERENCE; SPECIES EXTINCTION;

ANIMALS; EXTINCTION, BIOLOGICAL; FOSSILS; MODELS, BIOLOGICAL; PHYLOGENY; SPECIES SPECIFICITY;

EID: 70450193809     PISSN: 00143820     EISSN: 15585646     Source Type: Journal    
DOI: 10.1111/j.1558-5646.2009.00794.x     Document Type: Article

References (38)

1. Alroy, J. 1996. Constant extinction, constrained diversification, and uncoordinated stasis in North American mammals. Palaeogeogr. Palaeoclim. Palaeoecol. 127 : 285 311.
2. Alroy, J. 1998. Equilibrial diversity dynamics in North American mammals. Pp. 232 287 in M. L. McKinney and J. Drake, eds. Biodiversity dynamics: turnover of populations, taxa and communities. Columbia Univ. Press, New York.
3. Alroy, J. 1999. The fossil record of North American mammals: evidence for a Paleocene evolutionary radiation. Syst. Biol. 48 : 107 118.
4. Alroy, J. 2000. New methods for quantifying macroevolutionary patterns and processes. Paleobiology 26 : 707 733.
5. Alroy, J. 2008. Dynamics of origination and extinction in the marine fossil record. Proc. Natl. Acad. Sci. USA 105 (Suppll 11536 11542.
6. Alroy, J. 2009. Speciation and extinction in the fossil record of North American mammals. Pp. 301 323 in R. Butlin, J. Bridle, and D. Schluter, eds. Cambridge Univ. Press, Cambridge, MA.
7. Benton, M. J., and B. C. Emerson. 2007. How did life become so diverse? The dynamics of diversification according to the fossil record and molecular phylogenies. Paleontology 50 : 23 40.
8. Bokma, F. 2009. Problems detecting density-dependent diversification on phylogenies. Proc R. Soc. Lond. B. 276 : 993 994.
9. Foote, M., and D. M. Raup. 1996. Fossil preservation and the stratigraphic ranges of taxa. Paleobiology 22 : 121 140.
10. Harmon, L. J., J. T. Weir, C. Brock, R. E. Glor, and W. E. Challenger. 2008. GEIGER: investigating evolutionary radiations. Bioinformatics 24 : 129 131.
11. Harvey, P. H., R. M. May, and S. Nee. 1994. Phylogenies without fossils: estimating lineage birth and death rates. Evolution 48 : 523 529.
12. Kendall, D. G. 1948. On the generalized "birth-death" process. Ann. Math. Stat. 19 : 1 15.
13. Levinton, J. S. 1979. A theory of diversity equilibrium and morphological evolution. Science 204 : 335 336.
14. Losos, J. B., and D. Schluter 2000. Analysis of an evolutionary species-area relationship. Nature 408 : 847 850.
15. MacArthur, R. H., and E. O. Wilson. 1967. The theory of island biogeography. Princeton Univ. Press, Princeton, NJ, 203 pp.
16. McPeek, M. A. 2008. The ecological dynamics of clade diversification and community assembly. Am. Nat. 172 : E270 E284.
17. Nee, S. 2006. Birth-death models in Macroevolution. Ann. Rev. Ecol. Evol. Syst. 37 : 1 17.
18. Nee, S., A. Mooers, and P. H. Harvey. 1992. Tempo and mode of evolution revealed from molecular phylogenies. Proc. Natl. Acad. Sci. USA 89 : 8322 8326.
19. Nee, S., E. C. Holmes, R. M. May, and P. H. Harvey. 1994a. Extinction rates can be estimated from molecular phylogenies. Proc R. Soc. Lond. B. 344 : 77 82.
20. Nee, S., R. M. May, and P. H. Harvey. 1994b. Phylogenies without fossils. Evolution 48 : 523 529.
21. Paradis, E. 2004. Can extinction rates be estimated without fossils? J. Theor. Biol. 229 : 19 30.
22. Paradis, E., J. Claude, and K. Strimmer. 2004. APE: Analysis of phylogenetics and evolution in R language. Bioinformatics 20 : 289 290.
23. Phillimore, A. B., and T. D. Price. 2008. Density-dependent cladogenesis in birds. PLOS Biol. 6 : 483 489.
24. Purvis, A. 2008. Phylogenetic approaches to the study of extinction. Ann. Rev. Ecol. Evol. Syst. 39 : 301 319.
25. Purvis, A., S. Nee, and P. H. Harvey. 1995. Macroevolutionary inferences from primate phylogeny. Proc. R. Soc. Lond. B. 260 : 329 333.
26. Pybus, O. G., and P. H. Harvey. 2000. Testing macro-evolutionary models using incomplete molecular phylogenies. Proc. R. Soc. Lond. B. 267 : 2267 2272.
27. Rabosky, D. L. Heritability of extinction rates link diversification patterns in molecular phylogenies and fossils. Syst. Bio. In press.
28. Rabosky, D. L., and I. J. Lovette. 2008a. Explosive evolutionary radiations: decreasing speciation or increasing extinction through time? Evolution 62 : 1866 1875.
29. Rabosky, D. L., and I. J. Lovette. 2008b. Density-dependent diversification in North American wood warblers. Proc. R. Soc. Lond. B. 275 : 2363 2371.
30. Rabosky, D. L., and I. J. Lovette. 2009. Problems detecting density-dependent diversification on phylogenies: reply to Bokma. Proc. R. Soc. Lond. B. 276 : 995 997.
31. Raup, D. 1972. Taxonomic diversity during the Phanerozoic. Science 177 : 1065 1071.
32. Ricklefs, R. E. 2007. Estimating diversification rates from phylogenetic information. Trends Ecol. Evol. 22 : 601 610.
33. Rosenzweig, M. L., and S. Vetault. 1992. Calculating speciation and extinction rates in fossil clades. Evol. Ecol. 6 : 90 93.
34. Sepkoski, J. J., Jr. 1978. A kinetic model of Phanerozoic taxonomic diversity. I. Analysis of marine orders. Paleobiology 4 : 223 251.
35. Sepkoski, J. J., Jr. 1979. A kinetic model of Phanerozoic taxonomic diversity. II. Phanerozoic families and multiple equilibria. Paleobiology 5 : 222 251.
36. Sepkoski, J. J., Jr. 1984. A kinetic model of Phanerozoic taxonomic diversity. III. Post-Paleozoic families and mass extinctions. Paleobiology 7 : 36 53.
37. Stanley, S. M. 2007. An analysis of the history of marine animal diversity. Paleobiology 33 : 1 55 Suppl.
38. Turgeon, J., R. Stoks, R. A. Thum, J. M. Brown, and M. A. McPeek 2005. Simultaneous Quaternary radiations of three damselfly clades across the Holartic. Am. Nat. 165 : E78 E107.