Puya is an understudied genus in the family Bromeliaceae. It is native to South America and is a characteristic feature of the high-Andean páramo. Its phylogeny is not well-resolved for many reasons, including that it has a poor collecting record and species have a high instance of hybridization. Molecular phylogenetics is a technique that uses DNA loci to reconstruct species phylogenies. The molecular phylogeny of Puya has only been reconstructed in two studies previously. In these studies, chloroplast DNA yielded a topology that was incongruent with the nuclear DNA topology and suggested an interesting history of introgression and chloroplast capture among the most ancestral lineages. The purpose of this thesis is to re-test the existing hypothesis with new molecular data and expanded sampling of the taxa from Chile. Polymerase chain reaction was used to amplify an additional nuclear locus, g3pdh. This locus was Sanger sequenced to reconstruct the phylogeny of the Chilean Puya and place them within the broader genus. This phylogeny was used to critique and expand the hypothesis of introgression and chloroplast capture, and to place the evolutionary history of the Chilean Puya within geological time through the process of molecular dating. Results found species within a previously hypothesized blue-flowered clade placed into two groups rather than one, and identified a novel clade of yellow-flowered Chilean species with other, more northern-Andean taxa. This new clade was named the Elevational Disjunct clade. Additional nuclear loci will be required to more fully explore the relationships between Chilean Puya and the rest of the genus. Including more collections within the northern Andes might better place the yellow-flowered Chilean taxa and allow for testing of an intriguing biogeographic history.