Whole-Genome Expression Analysis of Snf/Swi Mutants of Saccharomyces cerevisiae

• Published in: Proceedings of the National Academy of Sciences - PNAS Vol. 97; no. 7; pp. 3364 - 3369
• Main Authors: Sudarsanam, Priya, Iyer, Vishwanath R., Brown, Patrick O., Winston, Fred
• Format: Journal Article
• Language: English
• Published: United States National Academy of Sciences of the United States of America 28.03.2000; National Academy of Sciences; The National Academy of Sciences
• Subjects: Acid Phosphatase - genetics; Amino acids; Biological Sciences; Blotting, Northern; Fungal Proteins - genetics; Gene Expression Regulation, Fungal; Genes; Genetic mutation; Genetics; Genome, Fungal; Genomics; MAT1 gene; Mating Factor; MCM1 gene; Messenger RNA; Mutation; Nucleosomes; Peptides - genetics; Proteins; Ratios; Renovations; Repression; RNA; RNA, Messenger - genetics; Saccharomyces cerevisiae; Saccharomyces cerevisiae - genetics; SNF gene; SWI gene; Transcription, Genetic; Yeast
• ISSN: 0027-8424; 1091-6490
• DOI: 10.1073/pnas.050407197

The Saccharomyces cerevisiae Snf/Swi complex has been previously demonstrated to control transcription and chromatin structure of particular genes in vivo and to remodel nucleosomes in vitro. We have performed whole-genome expression analysis, using DNA microarrays, to study mutants deleted for a gene encoding one conserved (Snf2) or one unconserved (Swi1) Snf/Swi component. This analysis was performed on cells grown in both rich and minimal media. The microarray results, combined with Northern blot, computational, and genetic analyses, show that snf2Δ andswi1Δ mutations cause similar effects on mRNA levels, that Snf/Swi controls some genes differently in rich and minimal media, and that Snf/Swi control is exerted at the level of individual genes rather than over larger chromosomal domains. In addition, this work shows that Snf/Swi controls mRNA levels of MATα -specific genes, likely via controlling transcription of the regulators MATα 1andMCM1. Finally, we provide evidence that Snf/Swi acts both as an activator and as a repressor of transcription, and that neither mode of control is an indirect effect of the other.