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Research in the Revell Lab

Published & Submitted Articles

1. Revell, L. J., L. J. Harmon, and R. E. Glor. 2005. Underparameterized model of sequence evolution leads to bias in the estimation of diversification rates from molecular phylogenies. Systematic Biology 54: 973-983. PDF

2. Revell, L. J., L. J. Harmon, R. B. Langerhans, and J. J. Kolbe. 2007. A phylogenetic approach to determining the importance of constraint on phenotypic evolution in the neotropical lizard, Anolis cristatellus. Evolutionary Ecology Research 9: 261-282. PDF

3. Revell, L. J. 2007. The G matrix under fluctuating correlational mutation and selection. Evolution 61: 1857-1872. PDF

4. Revell, L. J. 2007. Testing the genetic constraint hypothesis in a phylogenetic context: A simulation study. Evolution 61: 2720-2727. PDF supplementary material

5. Revell, L. J., M. A. Johnson, J. A. Schulte II, J. J. Kolbe, and J. B. Losos. 2007. A phylogenetic test for adaptive convergence in rock-dwelling lizards. Evolution 61: 2898-2912. PDF supplementary material

6. Johnson, M. A., M. Leal, L. Rodríguez Schettino, A. Chamizo Lara, L. J. Revell, and J. B. Losos. 2008. A phylogenetic perspective on foraging mode evolution in West Indian Anolis lizards. Animal Behaviour 75: 555-563. PDF

7. Revell, L. J. and A. S. Harrison. 2008. PCCA: A program for phylogenetic canonical correlation analysis. Bioinformatics 24: 1018-1020. PDF

8. Revell, L. J. and L. J. Harmon. 2008. Testing quantitative genetic hypotheses about the evolutionary rate matrix for continuous characters. Evolutionary Ecology Research 10: 311-321. PDF

9. Revell, L. J. 2008. On the analysis of evolutionary change along single branches in a phylogeny. American Naturalist 172: 140-147. PDF supplementary appendix

10. Revell, L. J., L. J. Harmon, and D. C. Collar. 2008. Phylogenetic signal, evolutionary process, and rate. Systematic Biology 57: 591-601. PDF

11. Revell, L. J., and D. C. Collar. 2009. Phylogenetic analysis of the evolutionary correlation using likelihood. Evolution 63: 1090-1100. PDF

12. Revell, L. J. 2009. Size-correction and principal components for interspecific comparative studies. Evolution 63: 3258-3268. PDF supplementary appendix

13. Revell, L. J., D. L. Mahler, J. R. Sweeney, M. Sobotka, V. E. Fancher, and J. B. Losos. 2010. Nonlinear selection and the evolution of variances and covariances for continuous characters in an anole. Journal of Evolutionary Biology 23: 407-421. PDF supplementary appendix

14. Lovely, K. R., D. L. Mahler, and L. J. Revell. 2010. The rate and pattern of tail autotomy in five species of Puerto Rican anoles. Evolutionary Ecology Research 12: 67-88. PDF

15. Johnson, M. A., L. J. Revell, and J. B. Losos. 2010. Behavioral convergence and adaptive radiation: Effects of habitat use on territorial behavior in Anolis lizards. Evolution 64: 1151-1159. PDF

16. Lindenfors, P., L. J. Revell, and C. L. Nunn. 2010. Sexual dimorphism in primate aerobic capacity: A phylogenetic test. Journal of Evolutionary Biology 23: 1183-1194. PDF supplementary appendix

17. Mahler, D. L., L. J. Revell, R. E. Glor, and J. B. Losos. 2010. Ecological opportunity and the rate of morphological evolution in the diversification of Greater Antillean anoles. Evolution 64: 2731-2745. PDF supplementary appendix cover (photo by L. Mahler)

18. Revell, L. J. 2010. Phylogenetic signal and linear regression on species data. Methods in Ecology and Evolution 1: 319-329. PDF supplementary appendix

19. Kolbe, J. J., L. J. Revell, B. Szekely, E. D. Brodie III, and J. B. Losos. 2011. Convergent evolution of phenotypic integration and its alignment with morphological diversification in Caribbean Anolis ecomorphs. Evolution 65: 3608-3624. PDF

20. Revell, L. J., D. L. Mahler, P. R. Peres-Neto, and B. D. Redelings. 2012. A new method for identifying exceptional phenotypic diversification. Evolution 66: 135-146. PDF supplementary appendix

21. Sanger, T. J., L. J. Revell, J. J. Gibson-Brown, and J. B. Losos. 2012. Repeated modification of early limb morphogenesis programs underlies the evolution of relative long bone length variation among Anolis lizards. Proceedings of the Royal Society, Series B 279: 739-748. PDF

22. Slater, G. J., L. J. Harmon, D. Wegmann, P. Joyce, L. J. Revell, and M. E. Alfaro. 2012. Fitting models of continuous trait evolution to incompletely sampled comparative data using Approximate Bayesian Computation. Evolution 66: 752-762. PDF

23. Revell, L. J. 2012. phytools: An R package for phylogenetic comparative biology (and other things). Methods in Ecology and Evolution 3: 217-223. PDF

24. Revell, L. J. and R. G. Reynolds. 2012. A new Bayesian method for fitting evolutionary models to comparative data with intraspecific variation. Evolution 66: 2697-2707. PDF

25. Revell, L. J. 2013. A comment on the use of stochastic character maps to estimate evolutionary rate variation in a continuously valued trait. Systematic Biology 62: 339-345. PDF

26. Reynolds, R. G., A. R. Puente-Rolón, R. N. Reed, and L. J. Revell. 2013. Genetic analysis of a novel invasion of Puerto Rico by an exotic constricting snake. Biological Invasions 15: 953-959. PDF

27. Muñoz, M. M., N. G. Crawford, T. J. McGreevy, N. J. Messana, R. D. Tarvin, L. J. Revell, R. M. Zandvliet, J. M. Hopwood, E. Mock, A. L. Schneider, and C. J. Schneider. In press. Divergence in coloration and the evolution of reproductive isolation in the Anolis marmoratus species complex. Molecular Ecology 22: 2668-2682. PDF

28. Puente-Rolón, A. R., R. G. Reynolds, and L. J. Revell. 2013. Preliminary genetic analysis supports cave populations as targets for conservation in the endemic endangered Puerto Rican boa (Boidae: Epicrates inornatus). PLoS ONE 8: e63899. PDF

29. Reynolds, R. G., M. L. Niemiller, S. B. Hedges, A. Dornburg, A. R. Puente-Rolón, and L. J. Revell. 2013. Molecular phylogeny and historical biogeography of West Indian boid snakes (Chilabothrus). Molecular Phylogenetics and Evolution 68: 461-470. PDF

30. Mahler, D. L., T. Ingram, L. J. Revell, and J. B. Losos. 2013. Exceptional convergence on the macroevolutionary landscape in island lizard radiations. Science 341: 292-295. PDF supplementary appendix

31. Revell, L. J. 2013. Two new graphical methods for mapping trait evolution on phylogenies. Methods in Ecology and Evolution 4: 754-759. PDF

32. Reynolds, R. G., M. L. Niemiller, and L. J. Revell. 2014. Toward a tree-of-life for the boas and pythons: Multilocus species-level phylogeny with unprecedented taxon sampling. Molecular Phylogenetics and Evolution 71: 201-213. PDF

33. Revell, L. J. 2014. Ancestral character estimation under the threshold model from quantitative genetics. Evolution 68: 743-759. PDF

34. Reynolds, R. G., A. R. Puente-Rolón, M. Barandiaran, and L. J. Revell. 2014. Hispaniolan boa (Chilabothrus striatus) on Vieques Island, Puerto Rico. Herpetology Notes 7: 121-122. PDF

35. Revell, L. J. 2014. Graphical methods for visualizing comparative data on phylogenies. Chapter 4 in Modern phylogenetic comparative methods and their application in evolutionary biology: Concepts and practice (L. Z. Garamszegi ed.). PDF

36. Revell, L. J. and S. A. Chamberlain. 2014. Rphylip: An R interface for PHYLIP. Methods in Ecology and Evolution 5: 976-981. PDF

37. Stuart, Y. E., T. S. Campbell, R. G. Reynolds, P. A. Hohenlohe, L. J. Revell, and J. B. Losos. 2014. Rapid evolution of a native species following invasion by a congener. Science 346: 463-466. PDF supplementary appendix.

38. Collar, D. C., P. C. Wainwright, M. E. Alfaro, L. J. Revell, and R. S. Mehta. 2014. Biting disrupts evolutionary integration of the skull in eels. Nature Communications 5: 5505. PDF supplementary appendix

39. Reynolds, R. G., A. R. Puente-Rolón, R. Platenberg, K. Tyler, P. J. Tolson, and L. J. Revell. 2015. Large divergence and low diversity suggest genetically informed conservation strategies for the endangered Virgin Islands Boa (Chilabothrus monensis). Global Ecology and Conservation 3: 487-502. PDF

40. Revell, L. J., D. L. Mahler, R. G. Reynolds, and G. J. Slater. 2015. Placing cryptic, recently extinct, or hypothesized taxa into an ultrametric phylogeny using continuous character data: A case study with the lizard Anolis roosevelti. Evolution 69: 1027-1035. PDF

41. Harrison, A. S., L. J. Revell, and J. B. Losos. 2015. Correlated evolution of microhabitat, morphology, and behavior in West Indian Anolis lizards: A test of the habitat matrix model. Behavior 152: 1187-1207. PDF

42. Winchell, K. M., R. G. Reynolds, S. Prado-Irwin, A. R. Puente-Rolón, and L. J. Revell. 2016. Phenotypic shifts in urban areas in the tropical lizard, Anolis cristatellus. Evolution 70: 1009-1022. PDF supplementary appendix

43. Reynolds, R. G., D. C. Collar, S. A. Pasachnik, M. L. Niemiller, A. R. Puente-Rolón, and L. J. Revell. 2016. Ecological specialization and morphological diversification in Greater Antillean boas. Evolution 70: 1882-1895. PDF

44. Tyler, R. K., K. M. Winchell, and L. J. Revell. 2016. Tails of the city: Caudal autotomy in the tropical lizard, Anolis cristatellus, in urban and natural areas of Puerto Rico. Journal of Herpetology 50: 435-441. PDF

45. Arcila, D., G. Ortí, R. Vari, J. W. Armbruster, M. L. J. Stiassny, K. D. Ko, M. H. Sabaj, J. Lundberg, L. J. Revell, and R. Betancur-R. 2017. Genome-wide interrogation advances resolution of recalcitrant groups in the tree of life. Nature Ecology & Evolution 1:0020. PDF supplementary appendix

46. Reynolds, R. G., T. R. Strickland, J. J. Kolbe, B. G. Falk, G. Perry, L. J. Revell, and J. B. Losos. 2017. Archipelagic genetics in a widespread Caribbean anole. Journal of Biogeography 44: 2631-2647. PDF

47. Winchell, K. M., E. J. Carlen, A. R. Puente-Rolón, and L. J. Revell. 2018. Divergent habitat use of two urban lizard species. Ecology and Evolution 8: 25-35. PDF

48. Revell, L. J., L. E. González-Valenzuela, A. Alfonso, L. A. Castellanos-García, C. E. Guarnizo, and A. J. Crawford. 2018. Comparing evolutionary rates between trees, clades, and traits. Methods in Ecology and Evolution 9: 994-1005. PDF

49. Revell, L. J. In press. Comparing the rates of speciation and extinction between phylogenetic trees. Ecology and Evolution. link

50. Winchell, K. M., I. Maayan, J. R. Fredette, and L. J. Revell. In press. Linking locomotor performance to morphological shifts in urban lizards. Proceedings of the Royal Society, B. link

51. Revell, L. J. and M. Leal. Submitted. Reproductive character displacement in an ecological community.

52. Betancur-R., R., X. Vélez-Zauzo, I. Winkelmann, L. J. Revell, M. T. P. Gilbert, and R. Papa. Submitted. Intraspecific phylogenies can be reconstructed from events spanning contemporary timescales using genome-wide data: A study case of the lionfish invasion of the Caribbean.

53. Bawa, K. S., T. Ingty, L. J. Revell, and K. N. Shiva Prakash. Submitted. Kin selection and correlated evolution of flower size and seed number in flowering plants (Monocotyledons).

54. Quach, Q. N., R. G. Reynolds, and L. J. Revell. Submitted. Historical allopatry and secondary contact or primary intergradation in the Puerto Rican Crested Anole, Anolis cristatellus, on Vieques Island.

55. Winchell, K. M., D. Briggs, and L. J. Revell. Submitted. Perils of city life: Patterns of injury and fluctuating asymmetry in urban lizards.

56. Revell, L. J., K. Schliep, E. Valderrama, and J. E. Richardson. Submitted. Graphs in phylogenetic comparative analysis: Anscombe’s quartet revisited.

Research Description

Research in the Revell Lab takes place in two main areas: computational method development for evolutionary biology; and evolutionary ecology of reptiles.

Most computational method development is presently focused on phylogenetic comparative biology as well as phylogenetics generally. Please see my recently released R package, "phytools" (1, 2), my phylogenetic methods blog, and the articles listed above for examples of this work.

In addition to this work, my laboratory also conducts research on evolutionary ecology of reptiles, particularly in the neotropics. My doctoral thesis research focused on the genus Anolis, a species-rich radiation of primarily arboreal lizards known especially for having diversified independently into similar forms on different islands of the Caribbean. Research presently underway in the lab focuses on microevolution in Anolis, and on the evolutionary & conservation genetics of Caribbean snakes. I am interested in all aspects of the evolutionary diversification and contemporary evolution & ecology of tropical reptiles and amphibians.

To the extent that my expertise, funding, and laboratory facilities permit, I would be happy to consider sponsoring graduate students and postdocs with any interest within evolutionary biology.