Phylogeny, ecology, and the origins of climate-richness relationships

Ecology

Volumn 93, Issue 8 SPEC. ISSUE, 2012, Pages

  Kozak, Kenneth H ^a   Wiens, John J ^b  

^a UNIVERSITY OF MINNESOTA   (United States)

^b STONY BROOK UNIVERSITY   (United States)

Author keywords

Climate; Diversity; Phylogeny; Plethodontidae; Speciation; Species richness

Indexed keywords

AMPHIBIAN; CLIMATIC REGION; DISPERSAL; EXTINCTION; PHYLOGENETICS; PHYLOGENY; SPECIATION (BIOLOGY); SPECIES POOL; SPECIES RICHNESS;

PLETHODONTIDAE; SALAMANDROIDEA;

EID: 84872513475     PISSN: 00129658     EISSN: None     Source Type: Journal    
DOI: 10.1890/11-0542.1     Document Type: Article

References (63)

1. Adams, D. C., C. M. Berns, K. H. Kozak, and J. J. Wiens. 2009. Are rates of species diversification correlated with rates of morphological evolution? Proceedings of the Royal Society B 276:2729-2738.
2. Algar, A. C., T. J. Kerr, and D. J. Currie. 2009. Evolutionary constraints on regional faunas: whom, but not how many. Ecology Letters 12:57-65.
3. Araujo, M. B., D. Nogues-Bravo, J. A. F. Diniz-Filho, A. M. Haywood, P. J. Valdes, and C. Rahbek. 2008. Quaternary climate change explains diversity among reptiles and amphibians. Ecography 31:8-15.
4. Bambach, R. K. 1977. Species richness in marine benthic habitats through the Phanerozoic. Paleobiology 3:152-167.
5. Buckley, L. B., and W. Jetz. 2007. Environmental and historical constraints on global patterns of amphibian richness. Proceedings of the Royal Society B 274:1167-1173.
6. Cardillo, M., C. D. L. Orme, and I. P. Owens. 2005. Testing for latitudinal bias in diversification rates: an example using New World birds. Ecology 86:2278-2287.
7. Currie, D. J. et al. 2004. Predictions and tests of climate-based hypotheses of broad-scale variation in taxonomic richness. Ecology Letters 7:1121-1134.
8. Drummond, A. J., S. Y. W. Ho, M. J. Phillips, and A. Rambaut. 2006. Relaxed phylogenetics and dating with confidence. PLoS Biology 4:e88
9. ESRI [Environmental Systems Research Institute] 2011. Arc-GIS Desktop. Release 10. ESRI, Redlands, California, USA.
10. Fine, P. V. A., and R. H. Ree. 2006. Evidence for a time-integrated species-area effect on the latitudinal gradient in tree diversity. American Naturalist 168:786-804.
11. Francis, A. P., and D. J. Currie. 2003. A globally consistent richness-climate relationship for angiosperms. American Naturalist 161:523-536.
12. Freckleton, R. P., A. B. Phillimore, and M. Pagel. 2008. Relating traits to diversification: a simple test. American Naturalist 172:102-115.
13. Harmon, L. J., J. Weir, C. C. Brock, R. E. Glor, and W. Challenger. 2008. GEIGER: investigating evolutionary radiations. Bioinformatics 24:961-964.
14. Harrison, S., and H. Cornell. 2008. Toward a better understanding of the regional causes of local community richness. Ecology Letters 11:969-979.
15. Harrison, S., and J. B. Grace. 2007. Biogeographic affinity helps explain productivity-richness relationships at regional and local scales. American Naturalist 170:5-15.
16. Hawkins, B. A., R. Field, H. V. Cornell, D. J. Currie, J.-F. Guegan, D. M. Kaufman, J. T. Kerr, G. G. Mittelbach, T. Oberdorff, E. M. O'Brien, E. E. Porter, and J. R. G. Turner. 2003. Energy, water, and broad-scale geographic patterns of species richness. Ecology 84:3105-3117.
17. Hijmans, R. J., S. E. Cameron, J. L. Parra, P. G. Jones, and A. Jarvis. 2005. Very high resolution interpolated climate surfaces for global land areas. International Journal of Climatology 25:1965-1978. http://worldclim.org
18. Jablonski, D., K. Roy, and J. W. Valentine. 2006. Out of the tropics: evolutionary dynamics of the latitudinal diversity gradient. Science 314:102-106.
19. Jansson, R., and T. J. Davies. 2008. Global variation in diversification rates of flowering plants: energy versus climate change. Ecology Letters 11:173-183.
20. Kisel, Y., L. McInnes, N. H. Toomey, and C. D. L. Orme. 2011. How diversification rates and diversity limits combine to create large-scale species-area relationships. Proceedings of the Royal Society B 366:2514-2525.
21. Knoll, A. H. 1986. Patterns of change in plant communities through geological time. Pages 126-141 in J. Diamond and T. J. Case, editors. Community ecology. Harper and Row, New York, New York, USA.
22. Kozak, K. H., A. Larson, R. M. Bonett, and L. J. Harmon. 2005. Phylogenetic analysis of ecomorphological divergence, community structure, and diversification in dusky salamanders (Plethodontidae: Desmognathus). Evolution 59:2000-2016.
23. Kozak, K. H., R. W. Mendyk, and J. J. Wiens. 2009. Can parallel diversification occur in sympatry? Repeated patterns of body-size evolution in co-existing clades of North American salamanders. Evolution 63:1769-1784.
24. Kozak, K. H., D. W. Weisrock, and A. Larson. 2006. Rapid lineage accumulation in a non-adaptive radiation: phyloge-netic analysis of diversification rates in eastern North American woodland salamanders (Plethodontidae: Pletho-don). Proceedings of the Royal Society B 273:539-546.
25. Kozak, K. H., and J. J. Wiens. 2006. Does niche conservatism promote speciation? A case study in North American salamanders. Evolution 60:2604-2621.
26. Kozak, K. H., and J. J. Wiens. 2010a. Accelerated rates of climatic-niche evolution underlie rapid species diversification. Ecology Letters 13:1378-1389.
27. Kozak, K. H., and J. J. Wiens. 2010b. Niche conservatism drives elevational diversity patterns in Appalachian salamanders. American Naturalist 176:40-54.
28. Maddison, W. P. 2006. Confounding asymmetries in evolutionary diversification and character change. Evolution 60:1743-1746.
29. Magallon, S., and M. J. Sanderson. 2001. Absolute diversification rates in angiosperm clades. Evolution 55:1762-1780.
30. Martins, E. P. 1999. Estimation of ancestral states of continuous characters: A computer simulation study. Systematic Biology 48:642-650.
31. McCain, C. M. 2004. The mid-domain effect applied to elevational gradients: species richness of small mammals in Costa Rica. Journal of Biogeography 31:19-31.
32. McCain, C. M. 2010. Global analysis of reptile elevational diversity. Global Ecology and Biogeography 19:541-553.
33. Mittelbach, G. G., et al. 2007. Evolution and the latitudinal diversity gradient: speciation, extinction and biogeography. Ecology Letters 10:315-331.
34. Morlon, H., M. Potts, and J. Plotkin. 2010. Inferring the dynamics of diversification: a coalescent approach. PloS Biology 8:e1000493.
35. Paradis, E., J. Claude, and K. Strimmer. 2004. APE: Analyses of phylogenetics and evolution in R language. Bioinformatics 20:289-290.
36. Phillimore, A. B., and T. D. Price. 2008. Density dependent cladogenesis in birds. PLoS Biology 6:e71.
37. Pybus, O. G., and P. H. Harvey. 2000. Testing macroevolu-tionary models using incomplete molecular phylogenies. Proceedings of the Royal Society B 267:2267-2271.
38. R Development Core Team. 2009. R: A language and environment for statistical computing. Foundation for Statistical Computing, Vienna, Austria. http://www. R-project.org
39. Rabosky, D. L. 2006. LASER: a maximum likelihood toolkit for detecting temporal shifts in diversification rates from molecular phylogenies. Evolutionary Bioinformatics 173:662-774.
40. Rabosky, D. L. 2009. Ecological limits and diversification rate: alternative paradigms to explain the variation in species richness among clades and regions. Ecology Letters 12:735-743.
41. Ree, R. H., and S. A. Smith. 2008. Maximum-likelihood inference of geographic range evolution by dispersal, local extinction, and cladogenesis. Systematic Biology 57:4-14.
42. Ricklefs, R. E. 2004. A comprehensive framework for global patterns in biodiversity. Ecology Letters 7:1-15.
43. Ricklefs, R. E. 2006. Evolutionary diversification and the origin of the diversity-environment relationship. Ecology 87:S3-S13.
44. Ricklefs, R. E. 2007. Estimating diversification rates from phylogenetic information. Trends in Ecology and Evolution 22:601-610.
45. Sanderson, M. J. 2003. r8s: inferring absolute rates of molecular evolution and divergence times in the absence of a molecular clock. Bioinformatics 19:301-302.
46. Smith, S. A., A. Nieto Montes de Oca, T. W. Reeder, and J. J. Wiens. 2007. A phylogenetic perspective on elevational species richness patterns in Middle American treefrogs: why so few species in lowland tropical rainforests? Evolution 61:1188-1207.
47. Stephens, P. R., and J. J. Wiens. 2003. Explaining species richness from continents to communities: the time-for-speciation effect in emydid turtles. American Naturalist 161:112-128.
48. Stevens, R. D. 2006. Historical processes enhance patterns of diversity along latitudinal gradients. Proceedings of the Royal Society B 273:2283-2289.
49. Svenning, J.-C., F. Borchsenius, S. Bjorholm, and H. Balslev. 2008. High tropical net diversification drives the New World latitudinal gradient in palm (Arecaceae) species richness. Journal of Biogeography 35:394-406.
50. Vamosi, J. C., and S. M. Vamosi. 2011. Key innovations within a geographical context in flowering plants: towards resolving Darwin's abominable mystery. Ecology Letters 13:1270-1279.
51. Waide, R. B., M. R. Willig, C. F. Steiner, G. G. Mittelbach, L. Gough, S. I. Dobson, G. P. Juday, and R. Parmenter. 1999. The relationship between productivity and species richness. Annual Review of Ecology, Evolution, and Systematics 33:475-505.
52. Walker, T. D., and J. W. Valentine. 1984. Equilibrium models of evolutionary species diversity and the number of empty niches. American Naturalist 124:887-899.
53. Wiens, J. J. 2007. Global patterns of species richness and diversification in amphibians. American Naturalist 170:S86-S106.
54. Wiens, J. J. 2011. The causes of species richness patterns across space, time, and clades and the role of "ecological limits." Quarterly Review of Biology 86:75-96.
55. Wiens, J. J., et al. 2010. Niche conservatism as an emerging principle in ecology and conservation biology. Ecology Letters 13:1310-1324.
56. Wiens, J. J., and M. J. Donoghue. 2004. Historical biogeogra-phy, ecology, and species richness. Trends in Ecology and Evolution 19:639-644.
57. Wiens, J. J., and C. H. Graham. 2005. Niche conservatism: integrating evolution, ecology, and conservation biology. Annual Review of Ecology, Evolution, and Systematics 36:519-539.
58. Wiens, J. J., C. H. Graham, D. S. Moen, S. A. Smith, and T. W. Reeder. 2006. Evolutionary and ecological causes of the latitudinal diversity gradient in hylid frogs: treefrog trees unearth the roots of high tropical diversity. American Naturalist 168:579-596.
59. Wiens, J. J., G. Parra-Olea, M. M. Garcia-Paris, and D. B. Wake. 2007. Phylogenetic history underlies elevational patterns of biodiversity in tropical salamanders. Proceedings of the Royal Society B 274:919-928.
60. Wiens, J. J., R. A. Pyron, and D. C. Moen. 2011. Phylogenetic origins of local-scale diversity patterns and causes of Amazonian megadiversity. Ecology Letters 14:643-652.
61. Wiens, J. J., J. Sukumaran, R. A. Pyron, and R. M. Brown. 2009. Evolutionary and biogeographic origins of high tropical diversity in Old World frogs (Ranidae). Evolution 63:1217-1231.
62. Willig, M. R., D. M. Kaufman, and R. D. Stevens. 2003. Latitudinal gradients of biodiversity: pattern, process, scale, and synthesis. Annual Review of Ecology, Evolution, and Systematics 34:273-309.
63. Zheng, Y., R. Peng, M. Kuro-o, and X. Zeng. 2011. Exploring patterns and extent of bias in estimating divergence time from mitochondrial DNA sequence data in a particular lineage: A case study of salamanders (Order: Caudata). Molecular Biology and Evolution 28:2521-2535.