Sauters, T. J. C., Roth, C., Murray, D., Sun, S., Floyd Averette, A., Onyishi, C. U., May, R. C., Heitman, J., Magwene, P. M. 2023. Amoeba predation of Cryptococcus: A quantitative and population genomic evaluation of the accidental pathogen hypothesis. PLoS Pathogens. 19(11):e1011763. Website.
Vijayraghavan S., S. G. Kozmin, P. K. Strope, D. A. Skelly, P. M. Magwene, F. S. Dietrich, and J. H. McCusker. 2023. RNA viruses, M satellites, chromosomal killer genes, and killer/non-killer phenotypes in the 100-genomes S. cerevisiae strains. G3: Genes, Genomes, Genetics, 2023 Jul 27:jkad167. Website
Gusa, A., Yadav, V., Roth, C., Williams, J. D., Shouse, E. M., Magwene, P., Heitman, J., & Jinks-Robertson, S. 2023. Genome-wide analysis of heat stress-stimulated transposon mobility in the human fungal pathogen Cryptococcus deneoformans. Proceedings of the National Academy of Sciences, 120(4), e2209831120. Website
Priest, S. J., Yadav, V., Roth, C., Dahlmann, T. A., Kück, U., Magwene, P. M., & Heitman, J. 2022. Uncontrolled transposition following RNAi loss causes hypermutation and antifungal drug resistance in clinical isolates of Cryptococcus neoformans. Nature Microbiology, 7(8), 1239–1251. Website
Sun, S. C. Roth, A. F. Averette, P. M. Magwene, J. Heitman. 2022. Epistatic genetic interactions govern morphogenesis during sexual reproduction and infection in a global human fungal pathogen. Proceedings of the National Academy of Sciences, 119(8):e2122293119. Website
Roth, C., D. Murray, A. Scott, C. Fu, A. F. Averette, S. Sun, J. Heitman, P. M. Magwene. 2021. Pleiotropy and epistasis within and between signaling pathways defines the genetic architecture of fungal virulence. PLoS Genetics 17(1):e1009313. Website
Montoya, M. C., P. M. Magwene, J. R. Perfect. 2021. Associations between Cryptococcus genotypes, phenotypes, and clinical parameters of human Disease: A review. Journal of Fungi, 7(4):260. Website.
Vijayraghavan S., S. G. Kozmin, P. K. Strope, D. A. Skelly, A. Lin, J. Kennell, P. M. Magwene, F. S. Dietrich, J. H. McCusker. 2019. Mitochondrial genome variation affects multiple respiration and non-respiration phenotypes in Saccharomyces cerevisiae. Genetics, 211(2):773-786. [Website]
Kayikçi, Ö. and P. M. Magwene. 2018. Divergent roles for cAMP--PKA signaling in the regulation of filamentous growth in Saccharomyces cerevisiae and Saccharomyces bayanus. G3: Genes, Genomes, Genetics, 8(11): 3529-3538.[Website]
Roth, C., S. Sun, R. B. Billmyre, J. Heitman, and P. M. Magwene. 2018. A high resolution map of meiotic recombination in Cryptococcus deneoformans demonstrates decreased recombination in unisexual reproduction. Genetics, 209(2): 567-578. [Website]
Ehrenreich, I. M. and P. M. Magwene. 2017. Genetic analysis of complex traits in Saccharomyces cerevisiae. Cold Spring Harbor Protocols, 2017(6):pdb.top077602. [Website].
Skelly, D. A., P. M. Magwene, B. Meeks, and H. A. Murphy. 2017. Known mutator alleles do not markedly increase mutation rate in clinical Saccharomyces cerevisiae strains. Proc. R. Soc. B 284: 20162672. [Website].
Maxwell, C. S. and P. M. Magwene. 2017. When sensing is gambling: An experimental system reveals how plasticity can generate tunable bet-hedging strategies. Evolution, 71 (4):859-871. [Website].
Maxwell, C. S. and P. M. Magwene. 2017. The quick and the dead: Microbial demography at the yeast thermal limit. Molecular Ecology. [Website].
Skelly, D. A., P. M. Magwene, and E. A. Stone. 2016. Sporadic, global linkage disequilibrium between unlinked segregating sites. Genetics, 202(2):427-37. Pubmed PMID: 26715671. [Website].
Skelly, D. A. and P. M. Magwene. 2016. Population perspectives on functional genomic variation in yeast. Briefings in Functional Genomics, 15(2):138-46. PubMed PMID: 26467711. [Website].
Strope, P. K., S. G. Kozmin, D. A. Skelly, P. M. Magwene, F. S. Dietrich, and J. H. McCusker. 2015. 2μ plasmid in Saccharomyces species and in Saccharomyces cerevisiae. FEMS Yeast Research, 15(8): fov090. PubMed PMID: 26463005. [Website].
Strope, P. K., D. A. Skelly, S.G. Kozmin, G. Mahadevan, E. A. Stone, P. M. Magwene, F. S. Dietrich, and J. H. McCusker. 2015. The 100-genomes strains, an S. cerevisiae resource that illuminates its natural phenotypic and genotypic variation and emergence as an opportunistic pathogen. Genome Research 25:762-74. [Pubmed].
Magwene, P. M. 2014. Revisiting Mortimer’s Genome Renewal Hypothesis: Heterozygosity, homothallism, and the potential for adaptation in yeast. In, C. Landry and N. Aubin-Horth, editors. Ecological Genomics: Ecology and the Evolution of Genes and Genomes. Springer. [Pubmed].
Gonzales, K., Ö. Kayikçi, D. G. Schaeffer, and P. M. Magwene. 2013. Modeling mutant phenotypes and oscillatory dynamics in the Saccharomyces cerevisiae cAMP-PKA pathway. BMC Systems Biology 7:40. [Website]
Granek, J. A., D. Murray, Ö. Kayıkçı, and P. M. Magwene. 2013. The genetic architecture of biofilm formation in a clinical isolate of Saccharomyces cerevisiae. Genetics 193(2):587-600. [Website]
Magwene, P. M. and J. J. Socha. 2013. Biomechanics of turtle shells: How whole shells fail in compression. J. Exp. Zool. 319(2):86-98. [Website]
Magwene, P. M., J. H. Willis, and J. K. Kelly. 2011. The statistics of bulk segregant analysis using next-generation sequencing. PLoS Computational Biology 7(11):e1002255. [Website]
Granek, J. A., Ö. Kayıkçı, and P. M. Magwene. 2011. Pleiotropic signaling pathways orchestrate yeast development. Current Opinion in Microbiology 14(6):676-681. [Website]
Lee, H. N., P. M. Magwene, and R. B. Brem. 2011. Natural genetic variation in CDC28 underlies morphological phenotypes in an environmental yeast isolate. Genetics 188(3):723-730. [Website]
Magwene, P. M., Ö. Kayıkçı, J.A. Granek, J.M. Reininga, Z. Scholl, and D. Murray. 2011. Outcrossing, mitotic recombination, and life-history tradeoffs shape genome evolution in Saccharomyces cerevisiae. Proceedings of the National Academy of Sciences, USA 108(5):1987-1992. [Website]
Granek, J. A. and P. M. Magwene. 2010. Environmental and genetic determinants of colony morphology in yeast. PLoS Genetics 6(1):e1000823. [Website].
Munger, S. C. , D. L. Aylor, H. A. Syed, P. M. Magwene, D. W. Threadgill, and B. Capel. 2009. Elucidation of the transcription network governing mammalian sex determination by exploiting strain-specific susceptibility to sex reversal. Genes and Development 23(21):2521-2536. [Website].
Magwene, P. M. 2009. Statistical methods for studying modularity: A reply to Mitteroecker and Bookstein. Systematic Biology 58(1):146-149. [Website].
Magwene, P. M. 2008. Using correlation proximity graphs to study phenotypic integration. Evol. Biol. doi:10.1007/s11692-008-9030-y. [Website].
Magwene, P. M. 2006. Integration and modularity in biological systems: A review. Acta Zoologica Sinica. 52(Supp. 1):490-493 [Website].
Magwene, P. M. and J. Kim. 2004. Estimating genomic co-expression networks using first-order conditional independence. Genome Biology 5(12):R100. [Open Access Article], [Pubmed].
Kim, J. and P. M. Magwene. 2004. Computational challenges for integrative genomics. Genomics and Informatics 2(1):7-18. [Website].
Stearns, S. C. and P. M. Magwene. 2003. The naturalist in a world of genomics. American Naturalist 161(2):171-180. [Pubmed].
Magwene, P. M., P. Lizardi, and J. Kim. 2003. Reconstructing the temporal ordering of biological samples using microarray data. Bioinformatics 19(7):842-850. [Pubmed]
Magwene, P. M. 2001. New tools for studying integration and modularity. Evolution 55(9):1734-1745. [Pubmed]
Magwene, P. M. 2001. Comparing ontogenetic trajectories using growth process data. Systematic Biology 50(5):640-656. [Pubmed]
Chernoff, B. and P. M. Magwene. 1999. Morphological Integration: Forty Years Later. Pp. 319-353 in Olsen, E. C. and R. L. Miller. Morphological Integration. University of Chicago Press.
Sereno, P.C. and D.B. Dutheil, M. Iarochene, H. Larrson, G. Lyon, P. Magwene, C. Sidor, D. Varricchio, and J. Wilson. 1996. Predatory dinosaurs from the Sahara and late Cretaceous faunal differntiation. Science 272:986-991. [Pubmed]