Paul's research focused on developing and rigorously testing statistical methods and stochastic models to describe genetic phenomena. These included models and methods to: predict how viruses adapt; show the effect of antibiotic resistance genes encoded on plasmids; predict ancestral relationships among species; and to understand the ecological structure of bacterial communities in biofilms. This broad focus lead to collaborations with researchers in phylogenetics, population genetics, theoretical ecology, microbial ecology, experimental evolution, conservation genetics, and more.
- Bull, JJ, Joyce, P, Gladstone, E, Molineaux, IJ, Empirical complexities in the genetic foundations of lethal mutagenesis. Genetics. 195 (2): 541-552, 2013.
- Bataillon, T., Joyce, P., Sniegowski, P. As it happens: current directions in experimental evolution. Biology Letters 9(1), 20120945, 2013.
- Tyerman, J.G. , Ponciano, J.M., Joyce, P., Forney L.J. and Harmon L.J. The evolution of antibiotic susceptibility and resistance during the formation of Escherichia coli biofilms in the absence of antibiotics, BMC Evolutionary Biology. Doi: 10 11867/1471-2148-13-22, 2013.
- Wojtowicz A.J., Miller C.R., Joyce P. Estimating the number of one step beneficial mutations. Statistical Applications in Genetics and Molecular Biology. 11(4), Article 10, 2012.
- Joyce P., Genz A., Buzbas E.O. Efficient simulation and likelihood methods for non-neutral multi-allele models. Journal of Computational Biology. 19(6): 650-661, 2012.
- Slater G.J., Harmon L.J., Joyce P., Revell L.J., Alfaro M.E. Fitting models of continuous trait evolution to incompletely sampled comparative data using Approximate Bayesian Computation. Evolution. 66(3):752-762, 2012.
- Nagel A.G., Joyce P., Wichman H.A ., Miller C.R. Stickbreaking: a novel fitness landscape model that harbors epistatis and is consistent with commonly observed patterns of adaptive evolution. Genetics 190:669-677, 2012
- Buzbas, E.O., Joyce, P., Rosenberg, N.A. Inference on the strength of balancing selection in epistatically interacting loci. Journal of Theoretical Biology , 79, Issue 3, 102-113, 2011.
- Rokyta D.R., Joyce P., Caudle S.B., Miller C.R., Beisel C.J., Wichman H.A. Epistasis between beneficial mutations and the phenotype-to-fitness map for a ssDNA Virus. PLoS Genetics. Vol. 7, Issue 6. e1002075. Epub 2011.
- Lee K.H., Miller C.R., Nagel A.C., Wichman H.A., Joyce P., Ytreberg F.M.. First-step mutations for adaptation at elevated temperature increase capsid stability in a virus. PLoS One. e25640. Epub 2011.
- Eastman J.M., Harmon L.J., La H.J., Joyce P., Forney L.J. The onion model, a simple neutral model for the evolution of diversity in bacterial biofilms. J Evol Biol. 2496-504, 2011.
- Eastman J.M., Alfaro M.E., Joyce P., Hipp A.L., Harmon L.J. A novel comparative method for identifying shifts in the rate of character evolution on trees. Evolution. 65: 3578-35-89, 2011.
- Miller, C.R., Joyce, P., Wichman, H.A. Mutational effects and population dynamics during viral adaptation challenge current models. Genetics, 187: 185–202, 2011.