Meta-analysis of transcriptome data on oxidative stress response in Saccharomyces cerevisiae cells underlines regulation of carbon, redox and glutathione metabolism

Authors : Ezgi Tanil, Burcu Şirin, Emrah Nikerel

Pages : 8-17

Doi:10.38042/biost.2020.29.01.02

View : 19 | Download : 27

Publication Date : 2020-06-30

Article Type : Research

Abstract :Environmental stress adversely affects living systems within medical as well as industrial context, causing either diseases or resulting in e.g. underperforming production processes. In particular oxidative stress in industrial biotechnology context, manifested as the imbalance in generation of reactive oxygen species and antioxidant capacity causes yield losses both in growth and production in baker’s yeast. Oxidative stress response studies for Saccharomyces cerevisiae at transcriptome level are using either direct induction methods such as treatment with peroxides or indirect induction methods such as treatment with drugs or toxins. To extract common response mechanisms integrating all conditions is of high value. To this end, this study collects, processes and aggregates published transcriptome data from studies that examined the response using both direct and indirect oxidative stress induction methods. Interestingly, carbon metabolism, oxidation reduction processes and glutathione metabolic process were found to be the common mechanisms involved in oxidative stress response. However, ion homeostasis and hexose transport mechanisms have been shown to be affected from direct induction using peroxides. This result illustrates bioinformatics analysis for large, aggregated transcriptome datasets, as a steppingstone for finding common features and further metabolic engineering targets were developed.
Keywords : Oxidative stress, Rank aggregation, Saccharomyces cerevisiae, Meta-analysis, Differential gene expression