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| Status |
Public on Jun 01, 2014 |
| Title |
Rif1 regulates initiation timing of late replication origins throughout the S. cerevisiae genome [ChIP-Seq] |
| Organism |
Saccharomyces cerevisiae |
| Experiment type |
Other
|
| Summary |
Chromosomal DNA replication involves the coordinated activity of hundreds to thousands of replication origins. Individual replication origins are subject to epigenetic regulation of their activity during S-phase, resulting in differential efficiencies and timings of replication initiation during S-phase. This regulation is thought to involve chromatin structure and organization into timing domains with differential ability to recruit limiting replication factors. Rif1 has recently been identified as a genome-wide regulator of replication timing in fission yeast and in mammalian cells. However, previous studies in budding yeast have suggested that Rif1’s role in controlling replication timing may be limited to subtelomeric domains and derives from its established role in telomere length regulation. We have analyzed replication timing by analyzing BrdU incorporation genome-wide, and report that Rif1 regulates the timing of late/dormant replication origins throughout the S. cerevisiae genome. Analysis of pfa4∆ cells, which are defective in palmitoylation and membrane association of Rif1, suggests that replication timing regulation by Rif1 is independent of its role in localizing telomeres to the nuclear periphery. Intra-S checkpoint signaling is intact in rif1∆ cells, and checkpoint-defective mec1∆ cells do not comparably deregulate replication timing, together indicating that Rif1 regulates replication timing through a mechanism independent of this checkpoint. Our results indicate that the Rif1 mechanism regulates origin timing irrespective of proximity to a chromosome end, and suggest instead that telomere sequences merely provide abundant binding sites for proteins that recruit Rif1. Still, the abundance of Rif1 binding in telomeric domains may facilitate Rif1-mediated repression of non-telomeric origins that are more distal from centromeres.
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| Overall design |
4 samples BrdU-IP-seq in HU, 2 strains with 2-replicates each (strains:WT and rif1 delta)
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| Contributor(s) |
Peace JM, Ter-Zakarian A, Aparicio OM |
| Citation(s) |
24879017 |
| Submission date |
Feb 19, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Jared M Peace |
| Organization name |
University of Southern California
|
| Department |
Molecular and Computational Biology
|
| Lab |
Oscar Aparicio
|
| Street address |
1050 Childs Way RRI 203
|
| City |
Los Angeles |
| State/province |
CA - California |
| ZIP/Postal code |
90089 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL13821 |
Illumina HiSeq 2000 (Saccharomyces cerevisiae) |
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| Samples (4)
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| This SubSeries is part of SuperSeries: |
| GSE55156 |
Rif1 regulates initiation timing of late replication origins throughout the S. cerevisiae genome |
|
| Relations |
| BioProject |
PRJNA238650 |
| SRA |
SRP038124 |
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