Phylogenies reveal new interpretation of speciation and the Red Queen

Nature

Volumn 463, Issue 7279, 2010, Pages 349-352

  Venditti, Chris ^a   Meade, Andrew ^a   Pagel, Mark ^a,b  

^a UNIVERSITY OF READING   (United Kingdom)

^b SANTA FE INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL; EVOLUTIONARY BIOLOGY; FUNGUS; HYPOTHESIS TESTING; PHYLOGENY; PLANT; RED QUEEN HYPOTHESIS; SPECIATION (BIOLOGY);

ADAPTATION; ANIMAL; ARTICLE; ENVIRONMENT; EVOLUTIONARY DEVELOPMENTAL BIOLOGY; FUNGUS; GENETIC LINKAGE; HYPOTHESIS; ISOLATION PROCEDURE; NATURAL SCIENCE; NONHUMAN; PHYLOGENY; PLANT; PRIORITY JOURNAL; REPRODUCTION; SPECIES DIFFERENTIATION; STOCHASTIC MODEL;

ADAPTATION, PHYSIOLOGICAL; ANIMALS; GENETIC SPECIATION; MODELS, BIOLOGICAL; PHYLOGENY; SELECTION, GENETIC; STOCHASTIC PROCESSES;

ANIMALIA;

EID: 75149189785     PISSN: 00280836     EISSN: 14764687     Source Type: Journal    
DOI: 10.1038/nature08630     Document Type: Article

References (30)

1. Van Valen, L. A new evolutionary law. Evol. Theory 1, 1-30 (1973).
2. Stenseth, N. C. & Maynard Smith, J. Coevolution in ecosystems: Red Queen evolution or stasis? Evolution 38, 870-880 (1984).
3. Rabosky, D. L. & Lovette, I. J. Explosive evolutionary radiations: decreasing speciation or increasing extinction through time? Evolution 62, 1866-1875 (2008).
4. Benton, M. J. in Palaeobiology: A Synthesis (eds Briggs, D. E. G. & Crowther, P. R.) 119-124 (Blackwells, 1990).
5. Pearson, P. N. Survivorship analysis of fossil taxa when real-time extinction rates vary: the Paleogene planktonic foraminifera. Paleobiology 18, 115-131 (1992).
6. Nee, S., Mooers, A. O. & Harvey, P. H. Tempo and mode of evolution revealed from molecular phylogenies. Proc. Natl Acad. Sci. USA 89, 8322-8326 (1992).
7. Nee, S. Birth-death models in macroevolution. Annu. Rev. Ecol. Evol. Syst. 37, 1-17 (2006).
8. Pagel, M. & Meade, A. A phylogenetic mixture model for detecting pattern-heterogeneity in gene sequence or character-state data. Syst. Biol. 53, 571-581 (2004).
9. Venditti, C., Meade, A. & Pagel, M. Phylogenetic mixture models can reduce node-density artifacts. Syst. Biol. 57, 286-293 (2008).
10. Venditti, C., Meade, A. & Pagel, M. Detecting the node-density artifact in phylogeny reconstruction. Syst. Biol. 55, 637-643 (2006).
11. Pagel, M., Venditti, C. & Meade, A. Large punctuational contribution of speciation to evolutionary divergence at the molecular level. Science 314, 119-121 (2006).
12. Gillespie, D. J. H. The Causes of Molecular Evolution (Oxford Univ. Press, 1991).
13. Pagel, M., Meade, A. & Scott, D. Assembly rules for protein networks derived from phylogenetic-statistical analysis of whole genomes. BMC Evol. Biol. 7, S16 (2007).
14. Pagel, M. & Meade, A. Bayesian analysis of correlated evolution of discrete characters by reversible-jump Markov chain Monte Carlo. Am. Nat. 167, 808-825 (2006).
15. Raftery, A. E. in Markov Chain Monte Carlo in Practice (eds Gilks, W. R., Richardson, S. & Spiegelhalter, D. J.) 145-161 (Chapman & Hall, 1996).
16. Colless, D. H. Phylogenetics: the theory and practice of phylogenetic systematics II (book review). Syst. Zool. 31, 100-104 (1982).
17. Yule, G. U. A mathematical theory of evolution, based on the conclusions of Dr. JC Willis, FRS. Phil. Trans. R. Soc. Lond. B. 213, 21-87 (1925).
18. Smith, S. A. & Donoghue, M. J. Rates of molecular evolution are linked to life history in flowering plants. Science 322, 86-89 (2008).
19. Gillespie, J. H. The molecular clock may be an episodic clock. Proc. Natl Acad. Sci. USA 81, 8009-8013 (1984).
20. Coyne, J. A. & Orr, H. A. Speciation 411-442 (Sinauer Associates, 2004).
21. Soltis, D. E., Soltis, P. S. & Tate, J. A. Advances in the study of polyploidy since plant speciation. New Phytol. 161, 173-191 (2003).
22. Mitsainas, G. P., Rovatsos, M. T. H., Rizou, E. I. & Giagia-Athanasopoulou, E. Sex chromosome variability outlines the pathway to the chromosomal evolution in Microtus thomasi (Rodentia, Arvicolinae). Biol. J. Linn. Soc. 96, 685-695 (2009).
23. Navarro, A. & Barton, N. H. Chromosomal speciation and molecular divergence-accelerated evolution in rearranged chromosomes. Science 300, 321-324 (2003).
24. Orr, H. A. & Turelli, M. The evolution of postzygotic isolation: accumulating Dobzhansky-Muller incompatibilities. Evolution 55, 1085-1094 (2001).
25. Seehausen, O. et al. Speciation through sensory drive in cichlid fish. Nature 455, 620-626 (2008).
26. Mallet, J. Hybrid speciation. Nature 446, 279-283 (2007).
27. Green, P. J. Reversible jump Markov chain Monte Carlo computation and Bayesian model determination. Biome 82, 711-732 (1995).
28. Castoe, T. A. & Parkinson, C. L. Bayesian mixed models and the phylogeny of pitvipers (Viperidae: Serpentes). Mol. Phylogenet. Evol. 39, 91-110 (2006).
29. Cameron, S. A., Hines, H. M. & Williams, P. H. A comprehensive phylogeny of the bumble bees (Bombus). Biol. J. Linn. Soc. 91, 161-188 (2007).
30. Fritsch, P. W., Cruz, B. C., Almeda, F., Wang, Y. & Shi, S. Phylogeny of Symplocos based on DNA sequences of the chloroplast trnC-trnD intergenic region. Syst. Bot. 31, 181-192 (2006).