Predicting the loss of phylogenetic diversity under non-stationary diversification models

Journal of Theoretical Biology

Volumn 337, Issue , 2013, Pages 111-124

  Lambert, Amaury ^a   Steel, Mike ^b  

^a Centre de Recherche Interdisciplinaire en Biologie   (France)

^b UNIVERSITY OF CANTERBURY   (New Zealand)

Author keywords

Diversification process; Field of bullets model; Phylogenetic tree

Indexed keywords

BIODIVERSITY; EVOLUTIONARY THEORY; EXTINCTION; NUMERICAL MODEL; PHYLOGENY; SPECIATION (BIOLOGY);

ARTICLE; BIODIVERSITY; CONVERGENT EVOLUTION; PHYLOGENETIC DIVERSITY; PHYLOGENETIC TREE; PHYLOGENY; PREDICTION; PRIORITY JOURNAL; SPECIES CONSERVATION; SPECIES DIFFERENTIATION; SPECIES EXTINCTION; STATISTICAL ANALYSIS; SURVIVAL RATE;

DIVERSIFICATION PROCESS; FIELD OF BULLETS MODEL; PHYLOGENETIC TREE;

BIODIVERSITY; MODELS, BIOLOGICAL; PHYLOGENY;

EID: 84883781037     PISSN: 00225193     EISSN: 10958541     Source Type: Journal    
DOI: 10.1016/j.jtbi.2013.08.009     Document Type: Article

References (20)

1. Aldous D., Krikun M., Popovic L. Five statistical questions about the tree of life. Systematic Biology 2011, 60:318-328.
2. Aldous D., Popovic L. A critical branching process model for biodiversity. Advances in Applied Probability 2005, 37:1094-1115.
3. Crawford F., Suchard M.A. Diversity, disparity, and evolutionary rate estimation for unresolved Yule trees. Systematic Biology 2012, 62:439-455.
4. Erwin D. Extinction as the loss of evolutionary history. Proceedings of the National Academy of Sciences 2008, 105:11520-11527.
5. Faith D. Conservation evaluation and phylogenetic diversity. Biological Conservation 1992, 61:1-10.
6. Faller B., Pardi F., Steel M. Distribution of phylogenetic diversity under random extinction. Journal of Theoretical Biology 2008, 251:286-296.
7. Faller B., Steel M. Trait-dependent extinction leads to greater expected biodiversity loss. SIAM Journal on Discrete Mathematics 2012, 26:472-482.
8. Geiger, J., Kersting, G., 1997. Depth-first search of random trees, and Poisson point processes. In: Classical and Modern Branching Processes, IMA Journal of Applied Mathematics, vol. 84, Springer, New York, Minneapolis, MN, USA, pp. 111-126.
9. Gernhard T. The conditioned reconstructed process. Journal of Theoretical Biology 2008, 253:769-778.
10. Hey J. Using phylogenetic trees to study speciation and extinction. Evolution 1992, 46:627-640.
11. Lambert A. The contour of splitting trees is a Lévy process. Annals of Probability 2010, 38:348-395.
12. Lambert, A., Stadler, T., 2013. Macro-evolutionary models and coalescent point processes: the shape and probability of reconstructed phylogenies, Eprint arXiv 1308.1289.
13. McPeek M. The ecological dynamics of clade diversification and community assembly. American Naturalist 2008, 172:E270-E284.
14. Mooers A., Gascuel O., Stadler T., Li H., Steel M. Branch lengths on Yule trees and the expected loss of phylogenetic diversity. Systematic Biology 2012, 61:195-203.
15. Morlon H., Potts M., Plotkin J. Inferring the dynamics of diversification. a coalescent approach. PLoS Biology 2010, 8:e1000493. 10.1371/journal.pbio.1000493.
16. Nee S., May R. Extinction and the loss of evolutionary history. Science 1997, 278:692-694.
17. Purvis, A., Agapow, P., Gittleman, J., Mace, G.M., 2000. Nonrandom extinction and the loss of evolutionary history. Science 288, 328-330.
18. Rabosky D., Lovette I. Density-dependent diversification in North American wood warblers. Proceedings of the Royal Society of London, Series B 2008, 275:2363-2371.
19. Rannala B. Gene genealogy in a population of variable size. Heredity 1997, 78:417-423.
20. Raup D. Extinction: Bad Genes or Bad Luck? 1992, W. W. Norton & Company, New York.