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Yeast zinc cluster proteins paralogs involved in the switch from fermentation to respiration show interdependency for DNA binding revealing a novel type of DNA recognition

ABSTRACT: In budding yeast, fermentation is the most important pathway for energy production. Under low glucose, ethanol is used for synthesis of this sugar requiring a shift to respiration. This process is controlled by the transcriptional regulators Cat8, Sip4, Rds2, and Ert1. We characterized Gsm1, a paralog of Rds2 and Ert1. Genome-wide analysis showed that Gsm1 has a DNA binding profile highly similar to Rds2, suggesting that these factors bind to DNA as heterodimers. Indeed, binding of Gsm1 and Rds2 is interdependent at the gluconeogenic gene FBP1. However, Rds2 is required for Gsm1 to bind at other promoters but not the reverse. Gsm1 and Rds2 also bind to DNA independently of each other. We showed that the DNA binding domains of Gsm1 and Rds2 bind cooperatively in vitro to the FBP1 promoter. In contrast, at the HAP4 gene, Ert1 cooperates with Rds2 for DNA binding. Mutational analysis suggests that Gsm/Rds2 and Ert1/Rds2 bind to short common DNA stretches revealing a novel mode of binding for this class of factors. Two-point mutations in a HAP4 site convert it to a Gsm1 binding site. In summary, our observations add another layer of transcriptional regulation with the formation of different heterodimers at specific promoters.

ORGANISM(S): Saccharomyces cerevisiae

PROVIDER: GSE225348 | GEO | 2024/02/05

REPOSITORIES: GEO

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