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Molecular and Cellular Biology, June 2004, p. 4769-4780, Vol. 24, No. 11
0270-7306/04/$08.00+0     DOI: 10.1128/MCB.24.11.4769-4780.2004
Copyright © 2004, American Society for Microbiology. All Rights Reserved.

The Rpd3-Sin3 Histone Deacetylase Regulates Replication Timing and Enables Intra-S Origin Control in Saccharomyces cerevisiae

Jennifer G. Aparicio, Christopher J. Viggiani, Daniel G. Gibson, and Oscar M. Aparicio*

Molecular and Computational Biology Program, Department of Biological Sciences, University of Southern California, Los Angeles, California 90089-1340

Received 14 July 2003/ Returned for modification 19 August 2003/ Accepted 4 March 2004

The replication of eukaryotic genomes follows a temporally staged program, in which late origin firing often occurs within domains of altered chromatin structure(s) and silenced genes. Histone deacetylation functions in gene silencing in some late-replicating regions, prompting an investigation of the role of histone deacetylation in replication timing control in Saccharomyces cerevisiae. Deletion of the histone deacetylase Rpd3 or its interacting partner Sin3 caused early activation of late origins at internal chromosomal loci but did not alter the initiation timing of early origins or a late-firing, telomere-proximal origin. By delaying initiation relative to the earliest origins, Rpd3 enables regulation of late origins by the intra-S replication checkpoint. RPD3 deletion suppresses the slow S phase of clb5{Delta} cells by enabling late origins to fire earlier, suggesting that Rpd3 modulates the initiation timing of many origins throughout the genome. Examination of factors such as Ume6 that function together with Rpd3 in transcriptional repression indicates that Rpd3 regulates origin initiation timing independently of its role in transcriptional repression. This supports growing evidence that for much of the S. cerevisiae genome transcription and replication timing are not linked.

* Corresponding author. Mailing address: Department of Biological Sciences, University of Southern California, 835 W. 37th St., SHS172, Los Angeles, CA 90089-1340. Phone: (213) 821-1269. Fax: (213) 821-1495. E-mail: oaparici{at}usc.edu.

Molecular and Cellular Biology, June 2004, p. 4769-4780, Vol. 24, No. 11
0022-538X/04/$08.00+0     DOI: 10.1128/MCB.24.11.4769-4780.2004
Copyright © 2004, American Society for Microbiology. All Rights Reserved.



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