Whole-genome expression analysis of snf/swi mutants of Saccharomycescerevisiae
- *Department of Genetics, Harvard Medical School, 200 Longwood Avenue, Boston, MA 02115; and †Department of Biochemistry and Howard Hughes Medical Institute, Stanford University School of Medicine, 300 Pasteur Avenue, Stanford, CA 94305
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Edited by Gerald R. Fink, Whitehead Institute for Biomedical Research, Cambridge, MA, and approved January 6, 2000 (received for review September 22, 1999)
Abstract
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 and swi1Δ 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 MATα1 and MCM1 . 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.
Footnotes
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↵ ‡ To whom reprint requests should be addressed. E-mail: winston{at}rascal.med.harvard.edu or pbrown{at}cmgm.stanford.edu.
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This paper was submitted directly (Track II) to the PNAS office.
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Article published online before print: Proc. Natl. Acad. Sci. USA, 10.1073/pnas.050407197.
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Article and publication date are at www.pnas.org/cgi/doi/10.1073/pnas.050407197
- Copyright © The National Academy of Sciences
