Jesse Breinholt, Ph.D.

Crayfish evolution

Post Doctoral Associate
Florida Museum of Natural History
McGuire Center for Lepidoptera and Biodiversity
University of Florida
PO Box 112710
Gainesville, FL 32611-2710

Ph.D.  Brigham Young University June 2012

Ph.D. dissertation focused on freshwater crayfish evolution in the Crandall Lab.


The core of my research interests is based in phylogenetics and population genetics. Through the use of phylogenetics and population genetics I address my interests in evolution, conservation biology, and taxonomy. I specialize in working with crustaceans specifically fresh water crayfish. My work in the Kawahara lab will focus on Lepidoptera evolution. My main focus in the Kawahara lab is developing bioinformatic scripts for Lepidoptera Phylotranscriptomic anaylysis. Below Is a link to tip and scripts I have been developing for use on the UF High performance computing cluster.

UF HPC Tips and Scripts


Kawahara, A.Y., J.W. Breinholt, F. Ponce, J. Haxaire, L. Xiao, G.P.A Lamarre,  D. Rubinoff, and I. J. Kitching (Accepted). Phylogeny and evolution of Manduca sexta and relatives: Ancestral biogeographical Analysis reveals a Central American origin for the genus. Molecular Phylogenetics and Evolution. (Accepted).

Bracken-Grissom, H.D., S. Ahyong,  J.W. Breinholt,  R. Wilkinson, Z. Yang, R. Feldmann, C. Schweitzer, F. Palero, T-Y. Chan, K.H. Chu, D.L. Felder, R. Robles, D. Kim, M. Tsang, J. Martin, and K.A Crandall. The Emergence of the Lobsters: Phylogenetic Relationships, Morphological Evolution and Divergence Time Comparisons of a Fossil Rich Group (Achelata, Astacidea, Glypheidea, Polychelida). Systematic Biology (Submitted)

Robison, H.W., C.T. McAllister, J.W. Breinholt, and K.A. Crandall. (Accepted). Status and distribution of Blair’s Fencing Crayfish, Faxonella blairi (Decapoda:Cambaridae). Southwestern Naturalist. (Accepted).

Vandergast AG, R.D. Inman, K.R Barr, K.E. Nussear, T.C. Esque, S.A. Hathaway, D.A.  Wood, P.A. Medica, J.W. Breinholt, C.L. Stephen, A.D. Gottscho, S.B. Marks, W.B Jennings, and R.N. Fisher.(2013). Evolutionary Hotspots in the Mojave Desert. Diversity. 2013; 5(2):293-319.

Ainscough, B., J.W. Breinholt, H. Robison, and K. A. Crandall. (2013). Molecular phylogenetics of the burrowing crayfish genus Fallicambarus (Decapoda: Cambaridae). Zoologica Scripta online 4 Jan 2013 DOI: 10.1111/zsc.12006

Breinholt, J.W., M. Porter, and K. A. Crandall. (2012). Testing Phylogenetic Hypotheses of the Subgenera of the Freshwater Crayfish Genus Cambarus (Decapoda: Cambaridae). PLoS ONE 7(9): e46105. doi:10.1371/journal.pone.0046105.

Stephen, C. L., Reynoso, V. H., Collett, W. S., Hasbun, C. R., and J.W. Breinholt. (2012), Geographical structure and cryptic lineages within common green iguanas, Iguana iguana. Journal of Biogeography. doi: 10.1111/j.1365-2699.2012.02780.x.

Pedraza-Lara, C., I. Doadrio, J.W. Breinholt, and K.A. Crandall. (2012). Phylogeny and evolutionary patterns in the dwarf crayfish subfamily (Decapoda:Cambarellinae). PLoS ONE 7(11): e48233. doi:10.1371/journal.pone.0048233.

Breinholt, J.W., P. Moler, and K. A. Crandall. (2011).  Population structure of two crayfish with diverse physiological requirements. In C. Held, A. Wegener, S. Koenemann, and C. D. Schubart, eds. Phylogeography and Population Genetics in Crustacea (Crustacean Issues 19). CRC Press, Florida.

Pérez-Losada, M., R. Bloch, J.W. Breinholt, M. Pfenninger, and J. Dominguez. (2011). Phylogenetic analysis of the earthworm genus Aporrectodea Örley, 1885 (Oligochaeta: Lumbricidae) using DNA barcodes. European Journal of Soil Biology.  doi:10.1016/j.ejsobi.2011.10.003

Pérez-Losada, M., J.W. Breinholt, P.G. Porto, M. Aira, and J. Dominguez. (2011) An    Earthworm Riddle: Systematics and Phylogeography of the Spanish Lumbricid Postandrilus. PLoS ONE 6(11): e28153. doi:10.1371/journal.pone.0028153

Breinholt, J.W., M. Préze-Losada, and K. A. Crandall. 2009. The Timing of the   Diversification of the Freshwater Crayfishes. Pp. 305-318 in J. W. Martin, K. A. Crandall, and D. L. Felder, eds. Decapod Crustacean Phylogenetics (Crustacean Issues 18). CRC Press, Florida.

Breinholt, J.W., R. Van Buren, O. R. Kopp, and C. L. Stephen. 2009. Population genetic structure of an endangered Utah endemic, Astragalus ampullarioides (Fabaceae). American Journal of Botany. 96:661-667.

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