Ruiz-Vargas, N., K. Ramanauskas, A. S. Tyszka, E. C. Bretz, M. T. S. Yeo, R. J. Mason-Gamer, and J. F. Walker. 2024. Transcriptome data from silica-preserved leaf tissue reveal gene flow patterns in a Caribbean bromeliad. Annals of Botany mcae002, https://doi.org/10.1093/aob/mcae002.
White, D. M., J. P. Huang, O. A. Jara-Muñoz, S. Madriñán, R. H. Ree, and R. J. Mason-Gamer. 2021. The origins of coca: museum genomics reveals multiple independent domestications from progenitor Erythroxylum gracilipes. Systematic Biology 70:1–13.
Widhelm, T. J., F. Grewe, J. P. Huang, K. Ramanauskas, R. J. Mason-Gamer, and H. T. Lumbsch. 2021. Using RADseq to understand the circum-Antarctic distribution of the lichenized fungus Pseudocyphellaria glabra. Journal of Biogeography 48:78–90.
McCarthy, D. M. and R. J. Mason-Gamer. 2020. Morphological variation in North American Tilia and its value in species delineation. International Journal of Plant Sciences 181(2):175–195.
Crouch, N. M. A. and R. J. Mason-Gamer. 2019. Mass estimation of extinct taxa and phylogenetic data both influence analyses of character evolution in a large clade of birds (Telluraves). Proceedings of the Royal Society of London, Series B 286:2019745.
Widhelm, T. J., F. Grewe, J. P. Huang, J. Mercado, R. J. Mason-Gamer, B. Goffinet, R. Lücking, I. Schmitt, B. Moncada, and H. T. Lumbsch. 2019. Multiple historical processes obscure phylogenetic relationships in a taxonomically difficult group (Lobariaceae, Ascomycota). Nature Scientific Reports 9:8968.
Crouch, N. M. A. and R. J. Mason-Gamer. 2019. Identifying ecological drivers of interspecific variation in song complexity in songbirds (Passeriformes, Passeri). Journal of Avian Biology 50(3):e020202.
White, D. M., M. B. Islam, and R. J. Mason-Gamer. 2019. Phylogenetic inference in section Erythroxylum informs taxonomy, biogeography, and the domestication of coca (Erythroxylum spp., Erythroxylaceae). American Journal of Botany 106(1):154–165.
Widhelm, T. J., Huang, J. P., Sérusiaux, E., Moncada, B., Lücking, R., Mercado-Díaz, J. A., Magain, N., Goffinet, B., Crouch, N., Mason-Gamer, R., Bertoletti, F. R., Asztalos, M. J. H., and Lumbsch, T. 2018. Oligocene origin and drivers of diversification in the genus Sticta (Lobariaceae, Ascomycota). Molecular Phylogenetics and Evolution 126:58–73.
Crouch, N. M. A. and R. J. Mason-Gamer, 2018. Structural equation modeling as a tool to investigate correlates of extra-pair paternity in birds. PLoS-ONE 13(2):e0193365.
Markova, M., and R. J. Mason-Gamer. 2017. Transcriptional activity of PIF and Pong-like transposable elements in Triticeae. BMC Evolutionary Biology 17:178.
McCarthy, D., and R. J. Mason-Gamer. 2016. Chloroplast DNA-based phylogeography of Tilia americana. Systematic Botany 41:865–880.
Markova, D., and R. J. Mason-Gamer. 2015. The role of vertical and horizontal transfer in the evolutionary dynamics of PIF-like transposable elements in Triticeae. PLoS ONE 10(9):e0137648.
Markova, D., and R. J. Mason-Gamer. 2015. Diversity, abundance, and evolutionary dynamics of Pong-like transposable elements in Triticeae. Molecular Phylogenetics and Evolution 93:318–330.
Minaya, M., A. Díaz-Pérez, R. J. Mason-Gamer, M. Pimentel, and P. Catalán. 2015. Evolution of the beta-amylase gene in the temperate grasses: non-purifying selection, recombination, semiparalogy, homeology, and phylogenetic signal. Molecular Phylogenetics and Evolution 91:68–85.
Mason-Gamer, R. J. 2013. Phylogeny of a genomically diverse group of Elymus (Poaceae) allopolyploids reveals multiple levels of reticulation. PloS ONE 8:e78449.
Minaya, M., M. Pimentel, R. J. Mason-Gamer, and P. Catalán. 2013. Distribution and evolutionary dynamics of Stowaway miniature inverted repeat elements (MITEs) in grasses. Molecular Phylogenetics and Evolution 68:106–118.
Jorgensen, M. C., P. Sierwald, and R. J. Mason-Gamer. 2013. A critical review of subspecies recognition through a literature survey of Polydesmida millipedes with a revision of the subspecies of Euryuridae. Zoologica Scripta 42:317–326.
Fishbein, M., D. Chuba, C. Ellison, R. J. Mason-Gamer, and S. P. Lynch. 2011. Phylogenetic relationships of Asclepias (Apocynaceae) inferred from non-coding chloroplast DNA sequences. Systematic Botany 36:1008–1023.
Naum, M., E. W. Brown, and R. J. Mason-Gamer. 2011. Is a robust phylogeny of the enterobacterial plant pathogens attainable? Cladistics 27:80–93.
Mason-Gamer, R. J., M. M. Burns, and M. Naum. 2010. Reticulate evolutionary history of a complex group of grasses: phylogeny of ElymusStStHH allotetraploids based on three nuclear genes. PloS ONE 5:10989.
Mason-Gamer, R. J., M. M. Burns, and M. Naum. 2010. Phylogenetic relationships and reticulation among Asian Elymus allotetraploids: analysis of three nuclear genes. Molecular Phylogenetics and Evolution 54:10–22.
Naum, M., E. W. Brown, and R. J. Mason-Gamer. 2009. Phylogenetic evidence for extensive horizontal gene transfer of Type III secretion system genes among enterobacterial plant pathogens. Microbiology 155:3187–3199.
Naum, M., E. W. Brown, and R. J. Mason-Gamer. 2008. Is 16S rDNA a reliable phylogenetic marker to characterize relationships below the family level in the Enterobacteriaceae? Journal of Molecular Evolution 66:630–642.
Mason-Gamer, R. J. 2008. Allohexaploidy, introgression, and the complex history of Elymus repens (Poaceae). Molecular Phylogenetics and Evolution 47:598–611.
Mason-Gamer, R. J. 2007. Multiple homoplasious insertions and excisions of a Triticeae (Poaceae) DNA transposon: a phylogenetic perspective. BMC Evolutionary Biology 7:92.
Mason-Gamer, R. J. 2007. Allopolyploids of the genus Elymus (Triticeae, Poaceae): a phylogenetic perspective. Aliso 23:372–379.
Simeone, M. C., K. R. Gedye, R. J. Mason-Gamer, B. S. Gill, and C. F. Morris. 2006. Conserved regulatory elements identified from a comparative survey of puroindoline gene sequences of Triticum and Aegilops diploid taxa. Journal of Cereal Science 44:21–33.
Mason-Gamer, R. J. 2005. The β-amylase genes of grasses and a phylogenetic analysis of the Triticeae (Poaceae). American Journal of Botany 92:1045–1058.
Mason-Gamer, R. J., M. M. Burns, and M. Naum. 2005. Polyploidy, introgression, and complex phylogenetic patterns within Elymus. Proceedings of the Fifth International Triticeae Symposium, Czech Journal of Genetics and Plant Breeding 41:21–26 (not peer-reviewed).
Helfgott, D. M. and R. J. Mason-Gamer. 2004. The evolution of North American Elymus (Triticeae, Poaceae) allotetraploids: evidence from phosphoenolpyruvate carboxylase gene sequences. Systematic Botany 29:850–861.
Cox, R., R. J. Mason-Gamer, C. L. Jackson, and N. Segev. 2004. Phylogenetic analysis of Sec7-domain-containing Arf nucleotide exchangers. Molecular Biology of the Cell 15:1487–1505.
Mason-Gamer, R. J. 2004. Reticulate evolution, introgression, and intertribal gene capture in an allohexaploid grass. Systematic Biology 53:25–37.
Mason-Gamer, R. J., C. M. Anderson, and N. L. Orme. 2002. Phylogenetic analysis of North American Elymus and the monogenomic Triticeae (Poaceae) using three chloroplast DNA data sets. Genome 45:991–1002.
Mathews, S., R. E. Spangler, R. J. Mason-Gamer, and E. A. Kellogg. 2002. Phylogeny of the Andropogoneae inferred from phytochrome B, GBSSI, and ndhF gene sequences. International Journal of Plant Sciences 163:441-450.
Mason-Gamer, R. J and D. M. Helfgott. 2002. Molecular phylogenetic investigation of allopolyploid Elymus in North America. Pp. 21–25 in The Proceedings of the Fourth International Triticeae Symposium (not peer-reviewed).
Mason-Gamer, R. J. 2001. Origin of North American Elymus (Poaceae: Triticeae) allotetraploids based on granule-bound starch synthase gene sequences. Systematic Botany 26:757–768.
Morris, C. F., M. C. Simeone, B. S. Gill, R. J. Mason-Gamer, and M. Lillemo. 2001. Comparison of puroindoline sequences from various diploid members of the Triticeae and modern cultivated hexaploid wheats. Cereals 2000: Proceedings of the 11th ICC International Cereal and Bread Congress, Royal Australian Chemical Institute (not peer-reviewed).
Grass Phylogeny Working Group [Barker N. P., L. G. Clark, J. I. Davis, M. R. Duvall, G. F. Guala, C. Hsiao, E. A. Kellogg, H. P. Linder, R. J. Mason-Gamer, S. Y. Mathews, M. P. Simmons, R. J. Soreng, R. E. Spangler]. 2001. Phylogeny and subfamilial classification of the grasses (Poaceae). Annals of the Missouri Botanical Garden 88:373–457.
Grass Phylogeny Working Group [Barker N. P., L. G. Clark, J. I. Davis, M. R. Duvall, G. F. Guala, C. Hsiao, E. A. Kellogg, H. P. Linder, R. J. Mason-Gamer, S. Y. Mathews, M. P. Simmons, R. J. Soreng, R. E. Spangler]. 2000. A phylogeny of the grass family (Poaceae), as inferred from eight character sets. In: Grasses: Systematics and Evolution, S. W. L. Jacobs and J. Everett, eds. CSIRO Publishing (peer-reviewed).
Mason-Gamer, R. J. and E. A. Kellogg. 2000. Phylogenetic analysis of the Triticeae using a starch synthase gene, and preliminary analysis of some North American Elymus species. In: Grasses: Systematics and Evolution, S. W. L. Jacobs and J. Everett, eds. CSIRO Publishing (peer-reviewed).
Mason-Gamer, R. J., K. E. Holsinger, and R. K. Jansen. 1999. Chloroplast DNA variation in Coreopsis nuecensoides and C. nuecensis (Asteraceae), a presumed progenitor-derivative species pair. Plant Systematics and Evolution 218:5–12.
Holsinger, K. E., R. J. Mason-Gamer, and J. Whitton. 1999. Genes, demes, and plant conservation. In: Genetics and the Extinction of Species, L. F. Landweber and A. P. Dobson, eds. Princeton University Press (peer-reviewed).
Mason-Gamer, R. J., C. Weil, and E. A. Kellogg. 1998. Granule-bound starch synthase: structure, function, and phylogenetic utility. Molecular Biology and Evolution 15:1658–1673.
Mason-Gamer, R. J., and E. A. Kellogg. 1996. Testing for phylogenetic conflict among molecular data sets in the tribe Triticeae (Gramineae). Systematic Biology 45:524–545.
Kellogg, E. A., R. Appels, and R. J. Mason-Gamer. 1996. When gene trees tell different stories: Incongruent gene trees for diploid genera of the Triticeae (Gramineae). Systematic Botany 21:321–347.
Holsinger, K. E., and R. J. Mason-Gamer. 1996. Hierarchical analysis of haplotype diversity in geographically structured populations. Genetics 142:629–639.
Mason-Gamer, R. J., and E. A. Kellogg. 1996. Chloroplast DNA analysis of the monogenomic Triticeae: Phylogenetic implications and genome-specific markers. In: Methods of Genome Analysis in Plants: Their Merits and Pitfalls, P. P. Jauhar, ed. CRC Press, Inc. (peer-reviewed).
Francisco-Ortega, J., R. K. Jansen, R. J. Mason-Gamer, and R. S. Wallace. 1996. Application of chloroplast DNA restriction site studies for conservation genetics. In: Molecular Genetic Approaches to Conservation, T. B. Smith and R. Wayne, eds. Oxford University Press (peer-reviewed).
Mason-Gamer, R. J., K. E. Holsinger, and R. K. Jansen 1995. Chloroplast DNA haplotype variation within and among populations of Coreopsis grandiflora (Asteraceae). Molecular Biology and Evolution 12:371–381.
Mason, R. J., K. E. Holsinger, and R. K. Jansen. 1994. Biparental inheritance of the chloroplast genome in Coreopsis (Asteraceae). Journal of Heredity 85:171–173.