Biomedical Sciences ETDs
Publication Date
Spring 5-15-2022
Abstract
Plate reader-based methods for high-throughput measurement of growth rate, cellular survival, and chronological lifespan are a compelling addition to the already powerful toolbox of budding yeast Saccharomyces cerevisiae genetics. These methods have overcome many of the limits of traditional yeast biology techniques, but also present a new bottleneck at the point of data-analysis. Herein, we describe SPOCK (Survival Percentage and Outgrowth Collection Kit), an R-based package for the analysis of data created by high-throughput plate reader based methods. This package allows for the determination of chronological lifespan, cellular growth rate, and survival in an efficient, robust, and reproducible fashion. To further explore a gene associated with aging, Gcn4, RNA-seq was applied to determine expression level changes and genes with a high differential expression level based on p-values were selected and analyzed using chronological lifespan and SPOCK. Based on this exploration a new gene was discovered, YDR149C that had an impact on CLS in S. cerevisiae.
Document Type
Thesis
Language
English
Degree Name
Biomedical Sciences
Level of Degree
Masters
Department Name
Biomedical Sciences Graduate Program
First Committee Member (Chair)
Dr. Mark McCormick
Second Committee Member
Dr. Natalie Adolphi
Third Committee Member
Dr. WC Hines (Curt)
Fourth Committee Member
Dr. Tudor Oprea
Recommended Citation
Felker, Daniel Paul. "Survival Percentage and Outgrowth Collection Kit (SPOCK) development and usage to analyze targets of the transcription factor gcn4 for their impact on chronological lifespan in the model organism S. cerevisiae." (2022). https://digitalrepository.unm.edu/biom_etds/221
