Wolfe, A. D., P. D. Blischak, and L. S. Kubatko. 2021. Phylogenetics of a rapid, continental radiation: Diversification, biogeography, and circumscription of the Beardtongues (Penstemon; Plantaginaceae). [preprint]
Blischak, P. D., M. Sajan\(^{\ddagger}\), M. S. Barker, R. N. Gutenkunst. In press. Demographic History Inference and the Polyploid Continuum. Genetics. \(^{\ddagger}\)Undergraduate researcher. [link :: preprint :: GitHub]
Blischak, P. D., M. S. Barker, and R. N. Gutenkunst. 2021. Chromosome-scale inference of hybrid speciation and admixture with convolutional neural networks. Molecular Ecology Resources 21:2676–2688. [link :: preprint :: GitHub]
Kang, L., L. Qian, M. Zheng, L. Chen, H. Chen, L. Yang, L. You, B. Yang, M. Yan, Y. Gu, T. Wang, S.-V. Schiessl, H. An, P. D. Blischak, X. Liu, H. Lu, D. Zhang, Y. Rao, D. Jia, D. Zhou, H. Xiao, Y. Wang, X. Xiong, A. S. Mason, J. C. Pires, R. J. Snowdon, W. Hua, and Z. Liu. 2021. Genomic insights into the origin, domestication and diversification of Brassica juncea. Nature Genetics 53:1392–1402. [link]
Li, Z., M. T. W. McKibben, G. S. Finch, P. D. Blischak, B. L. Sutherland, and M. S. Barker. 2021. Patterns and processes of diploidization in land plants. Annual Review of Plant Biology 72:387–410. [link :: preprint]
Qi, X., H. An, T. E. Hall, C. Di, P. D. Blischak, M. T. W. McKibben, Y. Hao, G. C. Conant, J. C. Pires, and M. S. Barker. 2021. Genes derived from ancient polyploidy have higher genetic diversity and are associated with domestication in Brassica rapa. New Phytologist 230:372–386. [link :: preprint]
Mabry, M. E., J. M. Brose, P. D. Blischak, B. Sutherland, W. T. Dismukes, C. A. Bottoms, P. P. Edger, J. D. Washburn, H. An, J. C. Hall, M. R. McKain, I. Al-Shehbaz, M. S. Barker, M. E. Schranz, G. C. Conant, and J. C. Pires. 2020. Phylogeny and multiple independent whole-genome duplication events in the Brassicales. American Journal of Botany 107:1148–1164. [link :: preprint]
Blischak, P. D., M. S. Barker, and R. N. Gutenkunst. 2020. Inferring the demographic history of inbred species from genome-wide SNP frequency data. Molecular Biology and Evolution 37:2124–2136. [link :: preprint :: GitHub]
Grindstaff, B.\(^{\ddagger}\), M. E. Mabry, P. D. Blischak, M. Quinn, and J. C. Pires. 2019. Affordable remote monitoring of plant growth and facilities using Raspberry Pi computers. Applications in Plant Sciences 7:e11280. \(^{\ddagger}\)Undergraduate author. [link :: preprint :: GitHub]
Titus, B. M., P. D. Blischak, and M. Daly. 2019. Genomic signatures of sympatric speciation with historical and contemporary gene flow in a tropical anthozoan. Molecular Ecology 28:3572–3586. [link :: preprint :: GitHub]
Blischak, P. D.*, M. E. Mabry*, G. C. Conant, and J. C. Pires. 2018. Integrating networks, phylogenomics, and population genomics for the study of polyploidy. Annual Review of Ecology, Evolution, and Systematics 49:253–278. *Co-first authors. [link]
Blischak, P. D., J. Chifman, A. D. Wolfe, and L. S. Kubatko. 2018. HyDe: a Python package for genome-scale hybridization detection. Systematic Biology 67:821–829. [link :: preprint :: GitHub]
Blischak, P. D., M. Latvis, D. F. Morales-Briones, J. C. Johnson, V. S. Di Stilio, A. D. Wolfe, and D. C. Tank. 2018. Fluidigm2PURC: automated processing and haplotype inference for double-barcoded PCR amplicons. Applications in Plant Sciences 6:e1156. [link :: preprint :: GitHub :: Docker]
Blischak, P. D., L. S. Kubatko, and A. D. Wolfe. 2018. SNP genotyping and parameter estimation in polyploids using low-coverage sequencing data. Bioinformatics 34:407–415. [link :: preprint :: GitHub]
Latvis, M., S. J. Jacobs, S. M. E. Mortimer, M. Richards, P. D. Blischak, S. Mathews, and D. C. Tank. 2017. Primers for Castilleja and their utility across Orobanchaceae: II. single-copy nuclear loci. Applications in Plant Sciences 5:1700038. [link]
Wolfe, A. D., T. Necamp, S. Fassnacht, P. D. Blischak, and L. S. Kubatko. 2016. Population genetics of Penstemon albomarginatus (Plantaginaceae), a rare Mojave Desert species of conservation concern. Conservation Genetics 17:1245–1255. [link]
Blischak, P. D., L. S. Kubatko, and A. D. Wolfe. 2016. Accounting for genotype uncertainty in the estimation of allele frequencies in autopolyploids. Molecular Ecology Resources 16:742–754. [link :: preprint :: Dryad :: GitHub]
Blischak, P. D., A. J. Wenzel, and A. D. Wolfe. 2014. Gene prediction and annotation in Penstemon (Plantaginaceae): a workflow for marker development from extremely low-coverage genome sequencing. Applications in Plant Sciences 2:1400044. [link :: Dryad]
Blischak, P. D., C. E. Thompson, E. M. Waight, L. S. Kubatko, and A. D. Wolfe. 2023. “Inferring patterns of hybridization and polyploidy in the plant genus Penstemon (Plantaginaceae).” In L. S. Kubatko and L. Lacey Knowles (ed.), Species Tree Inference: A Guide to Methods and Applications, Princeton University Press, pp. 175–190. [preprint]