Dr. Darin R. Rokyta
Laboratory Home Page
Ph.D., University of Idaho, 2006
Graduate Faculty Status
POSITIONS AVAILABLE for postdoctoral investigators, graduate students, and undergraduate students (starting in 2008).
My research investigates the molecular and statistical properties of adaptive evolution. The overarching goal of my work is to develop a robust, quantitative model of adaptive evolution at the molecular level and the statistical methology to test the model predictions and assumptions, but the available empirical data are insufficient for evaluating the strengths and weaknesses of current models and guiding future efforts. My research therefore also involves generating empirical data sets using experimental evolution approaches.Selected Publications:
Rokyta D. R., K. P. Wray, J. J McGivern, and M. J. Margres. 2015. The transcriptomic and proteomic basis for the evolution of a novel venom phenotype within the Timber Rattlesnake (Crotalus horridus). Toxicon 98:34-48.
Wray K. P., M. J. Margres, M. Seavy, and D. R. Rokyta. 2015. Early significant ontogenetic changes in snake venoms. Toxicon 96:74-81.
Margres M. J., J. J. McGivern, M. Seavy, K. P. Wray, J. Facente, and D. R. Rokyta. 2015. Contrasting modes and tempos of venom expression evolution in two snake species. Genetics 199:165-176.
McGivern J. J., K. P. Wray, M. J. Margres, M. E. Couch, S. P. Mackessy, and D. R. Rokyta. 2014. RNA-seq and high-definition mass spectrometry reveal the complex and divergent venoms of two rear-fanged colubrid snakes. BMC Genomics 15:1061.
McGee, L. W., E. W. Aitchison, S. B. Caudle, A. J. Morrison, L. Zheng, W. Yang, and D. R. Rokyta. 2014. Payoffs, not tradeoffs, in the adaptation of a virus to ostensibly conflicting selective pressures. PLoS Genetics 10:e1004611.
Rokyta, D. R., K. P. Wray, A. R. Lemmon, E. C. Moriarty Lemmon, and 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 57:657-671.
Rokyta, D. R., and H. A. Wichman. 2009. Genic incompatibilities in two hybrid bacteriophages. Molecular Biology and Evolution 26:2831-2839.
Rokyta, D. R., Z. Abdo, and H. A. Wichman. 2009. The genetics of adaptation for eight microvirid bacteriophages. Journal of Molecular Evolution 69:229-239.
Joyce, P., D. R. Rokyta, C. J. Beisel, and H. A. Orr. 2008. A general extreme value theory model for the adaptation of DNA sequences under strong selection and weak mutation. Genetics 180:1627-1643.
Rokyta, D. R., C. J. Beisel, P. Joyce, M. T. Ferris, C. L. Burch, and H. A. Wichman. 2008. Beneficial fitness effects are not exponential for two viruses. Journal of Molecular Evolution 67:368-376.
Beisel, C. J., D. R. Rokyta, H. A. Wichman, and P. Joyce. 2007. Testing the extreme value domain of attraction for distributions of beneficial fitness effects. Genetics 176:2441-2449.
Rokyta, D. R., C. J. Beisel, and P. Joyce. 2006. Properties of adaptive walks on uncorrelated landscapes under strong selection and weak mutation. Journal of Theoretical Biology 243:114120.
Rokyta, D. R., C. L. Burch, S. B. Caudle, and H. A. Wichman. 2006. Horizontal gene transfer and the evolution of microvirid coliphage genomes. Journal of Bacteriology 188:11341142 (featured on the cover).
Rokyta, D. R., P. Joyce, S. B. Caudle, and H. A. Wichman. 2005. An empirical test of the mutational landscape model of adaptation using a single-stranded DNA virus. Nature Genetics 37: 441444 (featured in News and Views).
Bull, J. J., M. R. Badgett, D. Rokyta, and I. J. Molineux. 2003. Experimental evolution yields hundreds of mutations in a functional viral genome. Journal of Molecular Evolution 57:241248.
Rokyta, D., M. R. Badgett, I. J. Molineux, and J. J. Bull. 2002. Experimental genomic evolution: extensive compensation for loss of DNA ligase activity in a virus. Molecular Biology and Evolution 19:230238.Postdoctoral Associates: