50.  Klein, E., R. A. Fisher, and T. W. Reeder.  Biogeographic history and coalescent species delimitation of Pacific island lizards (Squamata:  Scincidae:  Emoia cyanura species group).  Journal of Biogeography, submitted.

49.  Harrington, S. M., and T. W. Reeder.  Phylogenetic inference and divergence dating of snakes using molecules, morphology, and fossils:  New insights on convergent evolution of feeding morphology and limb reduction.  Systematic Biology, submitted.

48.  Reeder, T. W., T. M. Townsend, D. G. Mulcahy, B. P. Noonan, J. W. Sites, Jr., and J. J. Wiens.  Integrated analyses resolve conflicts over squamate reptile phylogeny and reveal unexpected placements for fossil taxa.  PLoS ONE, accepted.

47.  Lambert, S. M., T. W. Reeder, and J. J. Wiens.  2014.  When do species-trees and concatenated estimates disagree?  An impirical analysis with higher-level scincid lizard phylogeny.  Molecular Phylogenetics and Evolution, in press.

46.  Grummer, J. A., R. W. Bryson, Jr., and T. W. Reeder.  2014.  Species delimitation using Bayes factors:  Simulations and application to the Sceloporus scalaris species group (Squamata:  Phrynosomatidae).  Systematic Biology 63:119-133.  pdf available below

45.  Wiens, J. J., C. R. Hutter, D. G. Mulcahy, B. P. Noonan, T. M. Townsend, J. W. Sites, Jr., and T. W. Reeder.  2012.  Resolving the phylogeny of lizards and snakes (Squamata) with extensive sampling of genes and species.  Biology Letters 8:1043-1046.  pdf available below

44.  Mulcahy, D. G., B. P. Noonan, T. Moss, T. M. Townsend, T. W. Reeder, J. W. Sites Jr, and J. J. Wiens.  2012.  Estimating divergence dates and evaluating dating methods using phylogenomic and mitochondrial data in squamate reptiles.  Molecular Phylogenetics and Evolution 65:974-991.  pdf available below

43.  Blankers, T., T. M. Townsend, T. W. Reeder, and J. J. Wiens.  2012.  Contrasting global-scale evolutionary radiations: phylogeny, diversification, and morphological evolution in the major clades of iguanian lizards.  Biological Journal of the Linnean Society 108:127-143.  pdf available below

42.  Sites, Jr., J. W., T. W. Reeder, J. J. Wiens.  2011.  Phylogenetic insights on evolutionary novelties in lizards and snakes:  Sex, birth, bodies, food, and venom.  Annual Review of Ecology, Evolution, and Systematics 42:227-244.  pdf available below

41.  Townsend, T. M., D. G. Mulcahy, B. P. Noonan, J. W. Sites, Jr., C. A. Kuczynski, J. J. Wiens, and T. W. Reeder.  2011.  Phylogeny of iguanian lizards inferred from 29 nuclear loci, and a comparison of concatenated and species-tree approaches.  Molecular Phylogenetics and Evolution 61:363-380.  pdf available below

40.  Townsend, T., D. H. Leavitt, and T. W. Reeder.  2011.  Intercontinental dispersal by a microendemic burrowing reptile (Dibamidae).  Proceedings of the Royal Society B 278:2568-2574, doi:10.1098/rspb.2010.2598.  pdf available below

39.  Reeder, T. W., and J. D. Reichert.  2011.  Phylogenetic relationships within the Australian limb-reduced lizard genus Hemiergis (Scincidae; Squamata) as inferred from the Bayesian analysis of mitochondrial rRNA gene sequences.  Copeia 2011:113-120.  pdf available below

38.  Wiens, J. J., C. A. Kuczynski, T. Townsend, T. W. Reeder, D. Mulcahy, and J. W. Sites, Jr.  2010.  Combining phylogenomics and fossils in higher-level squamate reptile phylogeny:  Molecular data changes the placement of fossil taxa. Systematic Biology 59:674-688.  pdf available below

37.  Wiens, J. J., C. A. Kuczynski, S. Arif, and T. W. Reeder.  2010. Phylogenetic relationships of phrynosomatid lizards based on nuclear and mitochondrial DNA, and a revised phylogeny of Sceloporus.  Molecular Phylogenetics and Evolution 54:150-161.  pdf available below

36.  Wiens, J. J., C. A. Kuczynski, S. A. Smith, D. Mulcahy, J. W. Sites, Jr., T. M. Townsend, and T. W. Reeder.  2008. Branch length, support, and congruence: Testing the phylogenomic approach with 20 nuclear loci in snakes. Systematic Biology 57:420-431.  pdf available below

35.  Zaldivar-Riverón, A., A. Nieto Montes de Oca, N. Manríquez-Morán, and T. W. Reeder. 2008. Support of Anelytropsis (Reptilia: Squamata) within Dibamidae based on 16S rDNA sequence evidence. Journal of Herpetology 42:303-311.  pdf available below

34.  Wood, D. A., R. N. Fisher, and T. W. Reeder.  2008. Novel patterns of historical isolation, dispersal, and secondary contact across Baja California in the rosy boa (Lichanura trivirgata). Molecular Phylogenetics and Evolution 46:484-502.  pdf available below

33.  Townsend, T. M., E. R. Alegre, S. T. Kelley, J. J. Wiens, and T. W. Reeder. 2008. Rapid development of multiple nuclear loci for phylogenetic analysis using genomic resources: An example from the squamate reptile Tree of Life project. Molecular Phylogenetics and Evolution 47:129-142.  pdf available below

32.  Crawford, N. G., J. Zalidvar-Rae, C. Hagen, A. Schable, E. B. Rosenblum, M. G. Ritchie T. W. Reeder, J. A. Graves, and T. C. Glenn.  2008. Thirteen polymorphic microsatellite DNA loci from whiptails of the genus Aspidoscelis and related cnemidophorine lizards. Molecular Ecology Resources 8:219-223.  pdf available below

31.  de Quieroz, K. and T. W. Reeder.  2008.  Squamata – Lizards. In B. I. Crother (ed.), Scientific and Standard English Names of Amphibians and Reptiles of North America North of Mexico, 6th Ed., pp. 24-45. SSAR Herpetological Circular 37.  pdf available below

30.  Wiens, J. J., C. A. Kuczynski, W. E. Duellman, and T. W. Reeder.  2007. Loss and re-evolution of complex life cycles in marsupial frogs: Does ancestral trait reconstruction mislead? Evolution 61:1886–1899.  pdf available below

29.  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.  pdf available below

28.  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.  pdf available below

27.  Wiens, J. J., M. C. Brandley, and T. W. Reeder. 2006. Why does a trait evolve multiple times within a clade? Repeated evolution of snake-like body form in squamate reptiles. Evolution 60:123–141.  pdf available below

26.  Wiens, J. J., T. W. Reeder, J. W. Fetzner, C. L. Parkinson, and W. E. Duellman. 2005. Hylid frog phylogeny and sampling strategies for speciose clades. Systematic Biology 54:778–807.  pdf available below

25.  Reeder, T. W., and C. J. Cole. 2005. Letter to the Editor: Aspidoscelis versus Cnemidophorus as a genus of whiptail lizards in North America. Herpetological Review 36:233–234.

24.  Brandley, M. C., A. Schmitz, and T. W. Reeder. 2005. Partitioned Bayesian analyses, partition choice, and the phylogenetic relationships of scincid lizards. Systematic Biology 54:373–390.  pdf available below

23.  Fyler, C. A., T. W. Reeder, A. Berta, G. Antonelis, A. Aguilar, and E. Androukaki. 2005. Historical biogeography and phylogeny of monachine seals (Pinnipedia: Phocidae) based on mitochondrial and nuclear DNA data. Journal of Biogeography 32:1267–1279.  pdf available below

22.  Rychel, A. L., T. W. Reeder, and A. Berta. 2005. Response to Ulfur Arnason: Where’s the beef? Molecular Phylogenetics and Evolution 35:311–312.  pdf available below

21.  Schmitz, A., M. C. Brandley, P. Mausfeld, M. Vences, F. Glaw, R. A. Nussbaum, and T. W. Reeder. 2005. Opening the black box: Phylogenetics and morphological evolution of the Malagasy fossorial lizards of the subfamily “Scincinae”. Molecular Phylogenetics andEvolution 34:118–133.  pdf available below

20.  Gergus, E., T. W. Reeder, and B. K. Sullivan. 2004. Geographic variation in Hyla wrightorum: Advertisement calls, allozymes, mtDNA, and morphology. Copeia 2004:758–769.  pdf available below

19.  Rychel, A. L., T. W. Reeder, and A. Berta. 2004. Phylogeny of mysticete whales based on mitochondrial and nuclear data. Molecular Phylogenetics and Evolution 32:892–901.  pdf available below

18.  Lee, M. S. Y., T. W. Reeder, J. B. Slowinski, and R. Lawson. 2004. Resolving reptile relationships: Molecular and morphological markers. In: Cracraft, J. and M. J. Donoghue (Eds.), Assembling the Tree of Life. Oxford University Press, NY, pp. 451–467.

17.  Crother, B. I., J. Boundy, J. A. Camp bell , K. de Queiroz, D. R. Frost, D. M. Green, R. Highton, J. B. Iverson, P. A. Meylan, T. W. Reeder, M. E. Seidel, J. W. Sites, Jr., T. W. Taggart, S. G. Tilley, and D. B. Wake. 2003. Scientific and standard English names of amphibians and reptiles of North America north of Mexico : An update. Herpetological Review 34:196–203.  pdf available below

16.  Reeder,. T. W. 2003. A phylogeny of the Australian Sphenomorphus group (Scincidae: Squamata) and the phylogenetic placement of the crocodile skinks (Tribolonotus): A Bayesian approaches to assessing congruence and obtaining confidence in maximum likelihood inferred relationships. Molecular Phylogentics and Evolution 27:384-397.  pdf available below

15.  Richmond, J. Q., and T. W. Reeder. 2002. Evidence for parallel ecological speciation in scincid lizards of the Eumeces skiltonianus species group (Squamata: Scincidae). Evolution 56:1498-1513.  pdf available below

14.  Leache, A. D., and T. W. Reeder. 2002. Molecular systematics of the Eastern Fence Lizard (Sceloporus undulatus): A comparison of parsimony, likelihood, and Bayesian approaches. Systematic Biology 51:44-68.  pdf available below

13.  Reeder, T. W., C. J. Cole, and H. C. Dessauer. 2002. Phylogenetic relationships of whiptail lizards of the genus Cnemidophorus (Squamata: Teiidae): A test of monophyly, reevaluation of karyotypic evolution, and review of hybrid origins. American Museum Novitates 3365:1-61.  pdf available below

12.  Reeder, T. W., and R. R. Montanucci. 2001. A phylogenetic analysis of the horned lizards (Phrynosomatidae: Phrynosoma): Evidence from mitochondrial DNA and morphology. Copeia 2001:309-323.  pdf available below

11.  Crother, B. I., J. Boundy, J. A. Campbell, K. de Queiroz, D. R. Frost, R. Highton, J. B. Iverson, P. A. Meylan, T. W. Reeder, M. E. Seidel, J. W. Sites, Jr., T. W. Taggart, S. G. Tilley, and D. B. Wake. 2000. Scientific and standard English names of amphibians and reptiles of North America north of Mexico, with comments regarding the confidence in our understanding. Herpetological Circular No. 29, pp.1-82.  pdf available below

10.  Wiens, J. J., T. W. Reeder, and A. Nieto Montes De Oca, 1999. Molecular phylogenetics and evolution of sexual dichromatism among populations of the Yarrow's spiny lizard (Sceloporus jarrovii). Evolution 53:1884-1897.  pdf available below

9.  Wiens, J. J., and T. W. Reeder. 1997. Phylogeny of the spiny lizards (Sceloporus) based on molecular and morphological evidence. Herpetological Monographs 11:1-101.  2 different pdfs available below (1 without appendices; 1 with only the appendices; complete intact pdf available upon email request)

8.  Dessauer, H. C., T. W. Reeder, C. J. Cole, and A. Knight. 1996. Rapid screening of DNA diversity using dot-blot technology and allele-specific oligonucleotides: Maternity of hybrids and unisexual clones of hybrid origin (Lizards, Cnemidophorus). Molecular Phylogenetics and Evolution 6:366-372.  pdf available below

7.  Reeder, T. W., and J. J. Wiens. 1996. Evolution of the lizard family Phrynosomatidae as inferred from diverse types of data. Herpetological Monographs 10:43-84.   pdf available below

6.  Reeder, T. W. 1996. A new species of Pholidobolus (Squamata: Gymnophthalmidae) from the Huancabamba Depression of northern Peru. Herpetologica 52:282-289. pdf available below

5.  Wiens, J. J., and T. W. Reeder. 1995. Combining data sets with different numbers of taxa for phylogenetic analysis. Systematic Biology 44:548-558.  pdf available below

4.  Reeder, T. W. 1995. Phylogenetic relationships among phrynosomatid lizards as inferred from mitochondrial ribosomal DNA sequences: Substitutional bias and the information content of transitions relative to transversions. Molecular Phylogenetics and Evolution 4: 203-222.  pdf available below

3.  Simmons, A. D., J. L. Longmire, T. W. Reeder, H. A. Wichman, and R. J. Baker. 1992. Restriction fragment lenght polymorphisms in heterochromatic DNA distinguish chromosomal races of Peromyscus leucopus. Molecular Ecology 1:251-254. pdf available below

2.  Reeder, T. W. 1990. Eumeces managuae. Catalogue of American Amphibians and Reptiles (467):1-2.