Amanda Cline

Instructor: Dr. Shapiro

Topic: Isolating and Characterizing Wild Yeast Strains through Computational Genomics

              Isolating and characterizing various yeast strains in the local area are the two major goals of this project.  In order to better understand the diversity of the region, genomic based tests and experimental procedures following the work of Sneigowski et al. (2002) will be used to revisit previously collected data samples of wild yeast isolates from the region.  Then through several series of mating tests and genotyping using Sanger sequencing methods, the identification of the yeast populations in present day samples will become known.  To validate the sample data found in wild yeast strains, the computational web-based Galaxy platform will be used to input and analyze whole genome sequencing data, with particular interest in genome assembly and polymorphism locations.  Sacchromyces cerevisiae and S. paradoxus strains are of particular interest for this project as they are the most commonly found species in the local area and will be the most comparable over the decades.  In the hopes of expanding upon Sneigowski’s characterizations of the strains found from 2001, this project is geared toward detecting evolutionary changes in DNA sequence from the past isolations to the present time. Ultimately, this experiment takes advantage of the practical use of genetic data to explain phenotypic variances and species-specific evolutionary history.