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Molecular and Cellular Biology, February 2006, p. 1014-1027, Vol. 26, No. 3
0270-7306/06/$08.00+0     doi:10.1128/MCB.26.3.1014-1027.2006
Copyright © 2006, American Society for Microbiology. All Rights Reserved.

Global Analysis of the Relationship between the Binding of the Bas1p Transcription Factor and Meiosis-Specific Double-Strand DNA Breaks in Saccharomyces cerevisiae

Piotr A. Mieczkowski,^1, Margaret Dominska,^1, Michael J. Buck,^1,2 Jennifer L. Gerton,³ Jason D. Lieb,^1,2 and Thomas D. Petes^1*

Department of Biology and Curriculum in Genetics and Molecular Biology,¹ Carolina Center for Genome Sciences, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599-3280,² Stowers Institute for Medical Research, Kansas City, Missouri 64110³

Received 2 June 2005/ Returned for modification 28 June 2005/ Accepted 3 November 2005

In the yeast Saccharomyces cerevisiae, certain genomic regions have very high levels of meiotic recombination (hot spots). The hot spot activity associated with the HIS4 gene requires the Bas1p transcription factor. To determine whether this relationship between transcription factor binding and hot spot activity is general, we used DNA microarrays to map all genomic Bas1p binding sites and to map the frequency of meiosis-specific double-strand DNA breaks (as an estimate of the recombination activity) of all genes in both wild-type and bas1 strains. We identified sites of Bas1p-DNA interactions upstream of 71 genes, many of which are involved in histidine and purine biosynthesis. Our analysis of recombination activity in wild-type and bas1 strains showed that the recombination activities of some genes with Bas1p binding sites were dependent on Bas1p (as observed for HIS4), whereas the activities of other genes with Bas1p binding sites were unaffected or were repressed by Bas1p. These data demonstrate that the effect of transcription factors on meiotic recombination activity is strongly context dependent. In wild-type and bas1 strains, meiotic recombination was strongly suppressed in large (25- to 150-kb) chromosomal regions near the telomeres and centromeres and in the region flanking the rRNA genes. These results argue that both local and regional factors affect the level of meiotic recombination.

Supplemental material for this article may be found at http://mcb.asm.org/.

Present address: Department of Molecular Genetics and Microbiology, Box 3054, Duke University School of Medicine, Durham, NC 27710.

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