Comprehensive Identification of Cell Cycle–regulated Genes of the Yeast<i>Saccharomyces cerevisiae</i>by Microarray Hybridization

TLDR

We sought to create a comprehensive catalog of yeast genes whose transcript levels vary periodically within the cell cycle. To this end, we used DNA microarrays on samples from yeast cultures synchronized by α‑factor arrest, elutriation, and a cdc15 temperature‑sensitive mutant. We identified 800 cell‑cycle–regulated genes, more than half of which respond to G1 cyclin Cln3p or B‑type cyclin Clb2p, and promoter analysis showed that several known elements predict regulation, with full data sets available online.

Abstract

We sought to create a comprehensive catalog of yeast genes whose transcript levels vary periodically within the cell cycle. To this end, we used DNA microarrays and samples from yeast cultures synchronized by three independent methods: α factor arrest, elutriation, and arrest of a cdc15 temperature-sensitive mutant. Using periodicity and correlation algorithms, we identified 800 genes that meet an objective minimum criterion for cell cycle regulation. In separate experiments, designed to examine the effects of inducing either the G1 cyclin Cln3p or the B-type cyclin Clb2p, we found that the mRNA levels of more than half of these 800 genes respond to one or both of these cyclins. Furthermore, we analyzed our set of cell cycle–regulated genes for known and new promoter elements and show that several known elements (or variations thereof) contain information predictive of cell cycle regulation. A full description and complete data sets are available at http://cellcycle-www.stanford.edu