Phyloclimatic modeling: Combining phylogenetics and bioclimatic modeling

Systematic Biology

Volumn 55, Issue 5, 2006, Pages 785-802

  Yesson, C ^a   Culham, A ^a  

^a UNIVERSITY OF READING   (United Kingdom)

Author keywords

Ancestral state reconstruction; Bioclimatic modeling; Droseraceae; Palaeo climates; Phylogenetics

Indexed keywords

RAIN;

ACCLIMATIZATION; ARTICLE; AUSTRALIA; BAYES THEOREM; CLASSIFICATION; CLIMATE; DROSERA; GENETIC VARIABILITY; GENETICS; PHYLOGENY; TEMPERATURE; THEORETICAL MODEL;

ACCLIMATIZATION; AUSTRALIA; BAYES THEOREM; CLIMATE; DROSERA; MODELS, THEORETICAL; PHYLOGENY; RAIN; TEMPERATURE; VARIATION (GENETICS);

EID: 34249784717     PISSN: 10635157     EISSN: 1076836X     Source Type: Journal    
DOI: 10.1080/1063515060081570     Document Type: Article

References (59)

1. Ackerly, D. D., and M. J. Donoghue. 1998. Leaf size, sapling allometry, and Corner's rules: Phylogeny and correlated evolution in maples (Acer). Am. Nat. 152:767-791. (Pubitemid 28542298)
2. Busby, J. R. 1991. BIOCLIM - A bioclimatic analysis and prediction system. Pages 4-15 in Nature conservation: Cost effective biological surveys and data analysis (C. R. Margules and M. P. Austin, eds.). CSIRO, Canberra.
3. Cameron, K. M., K. J. Wurdack, and R. W. Jobson. 2002. Molecular evidence for the common origin of snap-traps among carnivorous plants. Am. J. Bot. 89:1503-1509.
4. Chanda, S. 1965. The pollen morphology of Droseraceae with special reference to taxonomy. Pollen Spores 7:509-528.
5. Chandler, M. E. J. 1961. Flora of the Lower Headon Beds of Hampshire and the Isle of Wight. Bull. Br. Mus. Nat. Hist. Geol. 5:93-157.
6. Christophel, D. C., and D. R. Greenwood. 1989. Changes in climate and vegetation in Australia during the tertiary. Rev. Palaeobot. Palynol. 58:95-109.
7. Clement, W. L., M. C. Tebbitt, L. L. Forrest, J. E. Blair, L. Brouillet, T. Eriksson, and S. M. Swensen. 2004. Phylogenetic position and biogeography of Hillebrandia sandwicensis (Begoniaceae): A rare Hawaiian relict. Am. J. Bot. 91:905-917. (Pubitemid 43191722)
8. Culham, A. 1993. A systematic study of the Droseraceae Salisbury. PhD Thesis. University of Leicester.
9. Davies, T. J., V. Savolainen, M. W. Chase, J. Moat, and T. G. Barraclough. 2004. Environmental energy and evolutionary rates in flowering plants. Proc. R. Soc. Lond. B Biol. Sci. 271:2195-2200.
10. Degreef, J. D. 1997. Fossil Aldrovanda. Carniv. Plants Newsl. 26:93-97.
11. Elith, J., C. H. Graham, R. P. Anderson, M. Dudik, S. Ferrier, A. Guisan, R. J. Hijmans, F. Huettmann, J. R. Leathwick, A. Lehmann, J. Li, L. G. Lohmann, B. A. Loiselle, G. Manion, C. Moritz, M. Nakamura, Y. Nakazawa, J. M. Overton, A. T. Peterson, S. J. Phillips, K. Richardson, R. Scachetti-Pereira, R. E. Schapire, J. Soberon, S. Williams, M. S. Wisz, and N. E. Zimmermann. 2006. Novel methods improve prediction of species' distributions from occurrence data. Ecography 29:129-151.
12. Felsenstein, J. 1988. Phylogenies from molecular sequences: Inference and reliability. Annu. Rev. Genet. 22:521-565. (Pubitemid 19156673)
13. Graham, C. H., S. R. Ron, J. C. Santos, C. J. Schneider, and C. Moritz. 2004. Integrating phylogenetics and environmental niche models to explore speciation mechanisms in dendrobatid frogs. Evolution 58:1781-1793. (Pubitemid 39151508)
14. Greenwood, D. R. 1994. Palaeobotanical evidence for Tertiary climates. Pages 44-59 in History of the Australian vegetation: Cretaceous to Recent (R. S. Hill, ed.). Cambridge University Press, Cambridge, UK.
15. Hardy, C., R., and H. P. Linder. 2005. Intraspecific variability and timing in ancestral ecology reconstruction: A test case from the Cape Flora. Syst. Biol. 54:299-316.
16. Hilbert, D. W., M. Bradford, T. Parker, and D. A. Westcott. 2004. Golden bowerbird (Prionodura newtonia) habitat in past, present and future climates: Predicted extinction of a vertebrate in tropical highlands due to global warming. Biol. Conservat. 116:367-377. (Pubitemid 38161782)
17. Hoffmann, M. H. 2005. Evolution of the realized climatic niche in the genus Arabidopsis (Brassicaceae). Evolution 59:1425-1436. (Pubitemid 41098436)
18. Huelsenbeck, J. P., F. Ronquist, R. Nielsen, and J. P. Bollback. 2001. Evolution - Bayesian inference of phylogeny and its impact on evolutionary biology. Science 294:2310-2314. (Pubitemid 33140548)
19. Hugall, A., C. Moritz, A. Moussalli, and J. Stanisic. 2002. Reconciling paleodistribution models and comparative phylogeography in the wet tropics rainforest land snail Gnarosophia bellendenkerensis (Brazier 1875). Proc. Natl. Acad. Sci. USA 99:6112-6117. (Pubitemid 34493274)
20. Knobloch, E., and D. H. Mai. 1984. Neue Gattungen nach Früchten and Samen aus dem Cenoman bis Maastricht (Kreide) von Mitteleuropa. Feddes Repertorium 95:3-41.
21. Krutzsch, W. 1970. Zur Kenntnis fossiler disperser Tetradenpollen. Palaontol. Abhandl. 3:399-433.
22. Lavin, M., P. S. Herendeen, and M. F. Wojciechowski. 2005. Evolutionary rates analysis of Leguminosae implicates a rapid diversification of lineages during the tertiary. Syst. Biol. 54:575-594. (Pubitemid 41356470)
23. Lowrie, A. 1987. Carnivorous plants of Australia, volume 1. University of Western Australia Press, Nedlands.
24. Lowrie, A. 1989. Carnivorous plants of Australia, volume 2. University of Western Australia Press, Nedlands.
25. Lowrie, A. 1998. Carnivorous plants of Australia, volume 3. University of Western Australia Press, Nedlands.
26. Maddison, W. P., and D. R. Maddison. 2004. Mesquite: A modular system for evolutionary analysis, version 1.05. http://mesquiteproject.org.
27. Magallon, S. A. 2004. Dating lineages: Molecular and paleontological approaches to the temporal framework of clades. Int. J. Plant Sci. 165:S7-S21. (Pubitemid 39320847)
28. Martinez-Meyer, E., A. T. Peterson, and A. G. Navarro-Siguenza. 2004. Evolution of seasonal ecological niches in the Passerina buntings (Aves : Cardinalidae). Proc. R. Soc. Lond. B Biol. Sci. 271:1151-1157. (Pubitemid 38736847)
29. Meimberg, H., P. Dittrich, G. Bringmann, J. Schlauer, and G. Heubl. 2000. Molecular phylogeny of Caryophyllidae s.l. based on MatK sequences with special emphasis on carnivorous taxa. Plant Biol. 2:218-228. (Pubitemid 30194833)
30. Muller, J. 1981. Fossil pollen records of extant angiosperms. Bot. Rev. 47:1-142.
31. Nix, H. A. 1986. A biogeographic analysis of Australian Elapid snakes. Pages 4-15 in Australian flora and fauna Series Number 7: Atlas of Elapid snakes of Australia (R. Longmore, ed.). Australian Government Publishing Service, Canberra.
32. Nylander, J. A. 2004. MrModelTest 2.0. Program distributed by the author. Evolutionary Biology Centre, Uppsala University.
33. Pearson, R. G., T. P. Dawson, P. M. Berry, and P. A. Harrison. 2002. SPECIES: A spatial evaluation of climate impact on the envelope of species. Ecol. Model. 154:289-300. (Pubitemid 34793523)
34. Perry, A. L., P. J. Low, J. R. Ellis, and J. D. Reynolds. 2005. Climate change and distribution shifts in marine fishes. Science 308:1912-1915. (Pubitemid 40941875)
35. Peterson, A. T., E. Martinez-Meyer, and C. Gonzalez-Salazar. 2004. Reconstructing the Pleistocene geography of the Aphelocoma jays (Corvidae). Divers. Distrib. 10:237-246. (Pubitemid 38889508)
36. Peterson, A. T., M. A. Ortega-Huerta, J. Bartley, V. Sanchez-Cordero, J. Soberon, R. H. Buddemeier, and D. R. B. Stockwell. 2002. Future projections for Mexican faunas under global climate change scenarios. Nature 416:626-629. (Pubitemid 34406761)
37. Peterson, A. T., J. Soberon, and V. Sanchez-Cordero. 1999. Conservatism of ecological niches in evolutionary time. Science 285:1265-1267. (Pubitemid 29398613)
38. Peterson, A. T., and D. A. Vieglais. 2001. Predicting species invasions using ecological niche modeling: New approaches from bioinformatics attack a pressing problem. Bioscience 51:363-371. (Pubitemid 32550420)
39. Prinzing, A., W. Durka, S. Klotz, and R. Brandl. 2001. The niche of higher plants: Evidence for phylogenetic conservatism. Proc. R. Soc. Lond. B Biol. Sci. 268:2383-2389. (Pubitemid 33096104)
40. Raxworthy, C. J., E. Martinez-Meyer, N. Horning, R. A. Nussbaum, G. E. Schneider, M. A. Ortega-Huerta, and A. T. Peterson. 2003. Predicting distributions of known and unknown reptile species in Madagascar. Nature 426:837-841. (Pubitemid 38056868)
41. Reid, E. M., & M. E. J. Chandler. 1926. Catalogue of Cainozoic plants in the Department of Geology. Volume 1. The Bembridge flora. British Museum of Natural History, London.
42. Rivadavia, F., K. Kondo, M. Kato, and M. Hasebe. 2003. Phytogeny of the sundews, Drosera (Droseraceae), based on chloroplast rbcL and nuclear 18S ribosomal DNA sequences. Am. J. Bot. 90:123-130. (Pubitemid 38170886)
43. Robertson, M. P., N. Caithness, and M. H. Villet. 2001. A PCA-based modeling technique for predicting environmental suitability for organisms from presence records. Divers. Distrib. 7:1-2.
44. Ronquist, F., and J. P. Huelsenbeck. 2003. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572-1574. (Pubitemid 37038874)
45. Sanderson, M. J. 2002. Estimating absolute rates of molecular evolution and divergence times: A penalized likelihood approach. Mol. Biol. Evol. 19:101-109. (Pubitemid 34008052)
46. Sanderson, M. J. 2004. r8s v1.70. Computer program and documentation available from http://ginger.ucdavis.edu/r8s/index.htrnl.
47. Sanderson, M. J., and J. A. Doyle. 2001. Sources of error and confidence intervals in estimating the age of angiosperms from rbcL and 18S rDNA data. Am. J. Bot. 88:1499-1516.
48. Sanderson, M. J., J. L. Thome, N. Wikstrom, and K. Bremer. 2004. Molecular evidence on plant divergence times. Am. J. Bot. 91:1656-1665. (Pubitemid 43193724)
49. Stockwell, D. R. B., and D. P. Peters. 1999. The GARP modeling system: Problems and solutions to automated spatial prediction. Int. J. Geog. Inform. Sys. 13:143-158.
50. Swofford, D. L. 2002. PAUP*: Phylogenetic analysis using parsimony (*and other methods), version 4.0 b10. Sinauer Associates, Sunderland, Massachusetts.
51. Takahashi, H., and K. Sohma. 1982. Pollen morphology of the Droseraceae and its related taxa. Science Reports of the Research Institutes Tohoku University, 4th Series, Biology 38:81-156.
52. Thomas, C. D., A. Cameron, R. E. Green, M. Bakkenes, L. J. Beaumont, Y. C. Collingham, B. F. N. Erasmus, M. F. de Siqueira, A. Grainger, L. Hannah, L. Hughes, B. Huntley, A. S. van Jaarsveld, G. F. Midgley, L. Miles, M. A. Ortega-Huerta, A. T. Peterson, O. L. Phillips, and S. E. Williams. 2004. Extinction risk from climate change. Nature 427:145-148. (Pubitemid 38094953)
53. Truswell, E. M., and N. G. Marchant. 1986. Early Tertiary pollen of probable Droseracean affinity from Central Australia. Spec. Paper Palaeont. 35:163-178.
54. Valdes, P. J. 2000. Palaeo-climate modeling. Pages 465-488 in Numerical modeling of the global atmosphere in the climate system (P. Mote, and A. O'Neill, eds.). Kluwer Academic Publishers, Dordrecht.
55. Wikstrom, N., V. Savolainen, and M. W. Chase. 2001. Evolution of the angiosperms: calibrating the family tree. Proc. R. Soc. Lond. B Biol. Sci. 268:2211-2220. (Pubitemid 33032897)
56. Williams, S. E., V. A. Albert, and M. W. Chase. 1994. Relationships of Droseraceae - a cladistic-analysis of rbcL sequence and morphological data. Am. J. Bot. 81:1027-1037. (Pubitemid 2129368)
57. Willis, K. J., and J. C. McElwain. 2002. The evolution of plants. Oxford University Press, Oxford, UK.
58. Yakubovskaya, T. V. 1991. The genus Aldrovanda (Droseraceae) in the Pleistocene of Belorussia. Botanicheskii Zhurnal (St Petersburg) 76:109-118.
59. Yesson, C., and A. Culham. 2006. A phyloclimatic study of cyclamen. BMC Evolutionary Biology 6:72.