Dr. Emily C. Lemmon
Lemmon Lab Department Page
Lemmon Lab Page
Ph.D., University of Texas, Austin, 2007
Graduate Faculty Status
POSITIONS AVAILABLE for graduate and undergraduate students (starting in 2016).
One of the most exciting questions in biology is How do new species arise? This question has intrigued and fascinated biologists from Darwin to the present. The goal of my research program is to gain insight into the process of speciation in order to understand the origin of biodiversity. I employ an integrative approach to studying speciation, which involves several fields of biology, including behavioral ecology, phylogenetics, phylogeography, population genetics, genomics, and ecology. I use amphibians as model systems for studying this process, focusing primarily on North American and South American taxa.
Current projects include (1) studying speciation-in-action driven by reinforcement in contact zones of chorus frogs, (2) developing improved methods for phylogeography, (3) investigating the evolution of acoustic signals across frog clades, (4) employing genomic approaches to developing markers for amphibian genetics, and (5) implementing genomic tools for targeted phylogenomics in amphibians.Selected Publications:
Engebretsen K., L. Barrow, E. Rittenmeyer, J.M. Brown, and E. Moriarty Lemmon. Submitted. Quantifying the spatio-temporal dynamics in a chorus frog hybridization zone (Pseudacris) over 30 years. Evolution.
Chen, X., A. R. Lemmon, E. Moriarty Lemmon, R. A. Pyron, and F. T. Bubrink. Comparing methods for estimating the phylogeny of ratsnakes from phylogenomic data. In revision.
Breinholt, J. W., A. R. Lemmon, E. Moriarty Lemmon, L. Xiao, and A. Y. Kawahara. Anchored hybrid enrichment in Lepidoptera: Leveraging genomic data for studies on the megadiverse butterflies and moths. In revision.
Lemmon, E. Moriarty and T. Juenger. Geographic variation in hybridization across a reinforcement contact zone of chorus frogs (Pseudacris). In revision.
Dornburg, A., J. Townsend, E. Spriggs, R. Eytan, J. Moore, P. Wainwright, A. Lemmon, E. Moriarty Lemmon, T. Near. Submitted. Phylogenomic informativeness facilitates resolution of the sister lineage of Percomorph fishes with an Anchored Hybrid Enrichment dataset. Molecular Phylogenetics and Evolution.
Pyron, A. R., C. R. Hendry, F. Hsieh, A. R. Lemmon, E. Moriarty Lemmon. Submitted. A generalized integrative approach to genomic phylogeography and species delimitation in Brown and Red-bellied snakes (Storeria). Molecular Ecology.
Edwards, S. V., Z. Xi, A. Janke, B. C. Faircloth, J. E. McCormack, T. C. Glenn, B. Zhong, S. Wu, E. Moriarty Lemmon, A. R. Lemmon, A. D. Leache, L. Liu, C. C. Davis. In press. Implementing and testing the multispecies coalescent model: a valuable paradigm for phylogenomics. Molecular Phylogenetics and Evolution.
Funk, W. C., M. A. Murphy, K. L. Hoke, E. Muths, S. M. Amburgey, E. Moriarty Lemmon, and A. R. Lemmon. In press. Elevational speciation in action? Restricted gene flow associated with adaptive divergence across an altitudinal gradient. Journal of Evolutionary Biology doi: 10.1111/jeb.12760
Prum, R. O., J. S. Berv, A. Dornburg, D. J. Field, J. P. Townsend, E. Moriarty Lemmon, and A. R. Lemmon. 2015. A comprehensive phylogeny of birds (Aves) using targeted next generation DNA sequencing. Nature 526:569-573.
Ruane, S., C. J. Raxworthy, A. R. Lemmon, E. Moriarty Lemmon, F. T. Burbrink. 2015. Comparing species-tree estimation with large anchored phylogenomic and small Sanger-sequenced molecular datasets: An empirical study on Malagasy pseudoxyrhophiine snakes. BMC Evolutionary Biology 15:221. DOI 10.1186/s12862-015-0503-1
Barrow, L. N., A. Bigelow, C. Phillips, E. Moriarty Lemmon. 2015. Phylogeographic inference using Bayesian model comparison across a fragmented chorus frog species complex. Molecular Ecology 24:4739–4758.
Eytan, R., B. Evans, A. Dornburg, A. Lemmon, E. Moriarty Lemmon, P. Wainwright, T. Near. 2015. Are 100 enough? Inferring Acanthomorph teleost phylogeny using Anchored Hybrid Enrichment. BMC Evolutionary Biology 15:113. doi 10.1186/s12862-015-0415-0
Warwick, A., J. Travis, E. Moriarty Lemmon. 2015. Geographic variation in the Pine Barrens treefrog (Hyla andersonii): concordance of genetic, morphometric, and acoustic signal data. Molecular Ecology 24:3281-3298.
Brandley, M., S. Singal, J. Bragg, C. Jennings, A. R. Lemmon, E. Moriarty Lemmon, C. Moritz. 2015. Evaluating the phylogenetic informativeness of anchored enrichment loci at the tips of the tree of life: an empirical study using Eugongylus group scincid lizards. BMC Evolutionary Biology 15:62. doi: 10.1186/s12862-015-0318-0
Peloso, P., D. Frost, S. Richards, M. Rodrigues, M. Matsui, C. Raxworthy, S. Donnellan, S. Biju, E. Moriarty Lemmon, A. Lemmon, W. Wheeler. 2015. The impact of Anchored Phylogenomics and taxon sampling on phylogenetic inference in narromouthed frogs (Anura, Microhylidae). Cladistics 2015:1-28.
Pyron, A. R., C. R. Hendry, V. M. Chou, E. Moriarty Lemmon, A. R. Lemmon, F. T. Burbrink. 2014. Effectiveness of Phylogenomic Data and Coalescent Species-Tree Methods for Resolving Difficult Nodes in the Phylogeny of Advanced Snakes (Serpentes: Caenophidia). Molecular Phylogenetics and Evolution 81:221-231.
Warwick, A., J. Travis, E. Moriarty Lemmon. 2014. Development and characterization of 21 microsatellite loci for the Pine Barrens treefrog (Hyla andersonii). Conservation Genetic Resources doi:10.1007/s12686-014-0197-5.
Barrow, L. N., C. A. Phillips, E. Moriarty Lemmon. 2014. Development and characterization of 24 microsatellite loci for the Illinois Chorus Frog (Pseudacris illinoensis) and Strecker's Chorus Frog (P. streckeri). Conservation Genetic Resources doi:10.1007/s12686-014-0158-z.
Malone, J. H., J. Ribado, E. Moriarty Lemmon. 2014. Sensory drive does not explain reproductive character displacement of male acoustic signals in the Upland Chorus Frog (Pseudacris feriarum). Evolution 68:1306–1319.
Barrow, L. N., H. F. Ralicki, S. A. Emme, E. Moriarty Lemmon. 2014. Species tree estimation of North American chorus frogs (Hylidae: Pseudacris) with parallel tagged amplicon sequencing. Molecular Phylogenetics and Evolution 75:78–90.
Lemmon, E. Moriarty, and A. R. Lemmon. 2013. High-throughput genomic data in systematics and phylogenetics. Annual Review of Ecology, Evolution and Systematics 44:99–121.
Lemmon, A. R., S. Emme, E. Moriarty Lemmon. 2012. Anchored hybrid enrichment for massively high-throughput phylogenomics. Systematic Biology 61:727–744.
Lemmon, A. R., E. Moriarty Lemmon. 2012. High-throughput development of informative nuclear markers for shallow-scale phylogenetics and phylogeography. Systematic Biology 61:745–761.
Carstens, B., A. R. Lemmon, and E. Moriarty Lemmon. 2012. The promises and pitfalls of next-generation sequencing data in phylogeography. Systematic Biology 61:713–715.
Rokyta, D. R., K. P. Wray, A. R. Lemmon, E. Moriarty Lemmon, S. B. Caudle. 2011. A high-throughput venom-gland transcriptome for the Eastern Diamondback Rattlesnake (Crotalus adamanteus) and evidence for pervasive positive selection across toxin classes. Toxicon 57:657671. PDF
Moriarty Lemmon, E., M. Murphy, and T. E. Juenger. 2011. Identification and characterization of nuclear microsatellite loci for multiple species of chorus frogs (Pseudacris) for population genetic analyses. Conservation Genetics Resources 3:233237. PDF
Moriarty Lemmon, E., and A. R. Lemmon. 2010. Reinforcement in chorus frogs: lifetime fitness estimates including intrinsic natural selection and sexual selection against hybrids. Evolution 64:17481761. PDF
Brown, J. M., A. R. Lemmon, S. M. Hedke, and E. Moriarty Lemmon. 2010. When trees grow too long: investigating the causes of highly inaccurate Bayesian branch length estimates. Systematic Biology 59:145-161. PDF
Moriarty Lemmon, E. 2009. Diversification of conspecific signals in sympatry: geographic overlap drives multi-dimensional reproductive character displacement in frogs. Evolution 63:1155-1170. PDF
Lemmon, A. R., J. M. Brown, K. Stanger-Hall, and E. Moriarty Lemmon. 2009. The effect of ambiguous data on phylogenetic esimates obtained by maximum likeklihood and Bayesian inference. Systematic Biology 58:130-145. PDF
Lemmon, A. R. and E. Moriarty Lemmon. 2008. A likelihood framework for estimating phylogeographic history using geographically continuous genetic data. Systematic Biology 57:544-561. PDF
Moriarty Lemmon, E., A. R. Lemmon, J. T. Collins, and D. C. Cannatella. 2008. A new North American chorus frog species (Amphibia: Hylidae: Pseudacris) from the south-central United States. Zootaxa 1675:1-30. PDF
Moriarty Lemmon, E., A. R. Lemmon, and D. C. Cannatella. 2007. Geological and climatic forces driving speciation in the continentally distributed trilling chorus frogs (Pseudacris). Evolution 61:20862103. PDF
Moriarty Lemmon, E., A. R. Lemmon, J. A. Lee-Yaw, J. T. Collins, and D. C. Cannatella. 2007. Phylogeny-based delimitation of species boundaries and contact zones in the trilling chorus frogs (Pseudacris). Molecular Phylogenetics and Evolution 44:10681082. PDF
Moriarty, E. C. 2005. Pseudacris triseriata species complex. Pages 485-488 in Lannoo, M. (Ed.). Amphibian Declines: The Conservation Status of United States Species. University of California Press, Berkley, California.
Moriarty, E. C., and D. C. Cannatella. 2004. Phylogenetic relationships of North American chorus frogs (Pseudacris). Molecular Phylogenetics and Evolution 30:409420. PDF
Lemmon, A. R., and E. C. Moriarty. 2004. The importance of proper model assumption in Bayesian phylogenetics. Systematic Biology 53:265277. PDF
Sever, D. M., T. R. Halliday, E. C. Moriarty, and B. Arano. 2001. Sperm storage in the smooth newt (Triturus v. vulgaris) II. Ultrastructure of the spermathecae after the breeding season. Acta Zoologica 82:4956. PDF
Sever, D. M., E. C. Moriarty, L.C. Rania, and W.C. Hamlett. 2001. Sperm storage in the oviduct of an internally fertilizing frog, Ascaphus truei. Journal of Morphology 248:121. PDF
Sever, D. M., T. R. Halliday, V. Waights, J. Brown, H. Davies, and E. C. Moriarty. 1999. Sperm storage in females of the smooth newt (Triturus v. vulgaris) I. Ultrastructure of the spermathecae during the breeding season. Journal of Experimental Zoology 283:5170. PDF