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Series GSE57618 Query DataSets for GSE57618
Status Public on May 14, 2014
Title HDACs act on ribosomal DNA to control the yeast replication program and the competition between origins for limiting initiation factors [Mnase-seq]
Organism Saccharomyces cerevisiae
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary In S. cerevisiae, replication timing is controlled by epigenetic mechanisms restricting the accessibility of origins to limiting initiation factors. About 30% of these origins are located within repetitive DNA sequences such as the ribosomal DNA (rDNA) array, but their regulation is poorly understood. Here, we have investigated how histone deacetylases (HDACs) control the replication program in budding yeast. This analysis revealed that two HDACs, Rpd3 and Sir2, control replication timing in an opposite manner. Whereas Rpd3 delays initiation at late origins, Sir2 is required for the timely activation of early origins. Moreover, Sir2 represses initiation at rDNA origins whereas Rpd3 counteracts this effect. Remarkably, deletion of SIR2 restored normal replication in rpd3 cells by reactivating rDNA origins. Together, these data indicate that HDACs control the replication timing program in budding yeast by modulating the ability of repeated origins to compete with single-copy origins for limiting initiation factors.
 
Overall design MNase-seq analysis of nucleosome position in wt, sir2 and rpd3 cells, aligned against genomic DNA (sacCer3; *sorted_s3.bed) and rDNA sequences (*rdna_nucleosomes.bed)
 
Contributor(s) Yoshida K, Bacal J, Padioleau I, Lengronne A, Pasero P
Citation(s) 24856221
Submission date May 13, 2014
Last update date May 15, 2019
Contact name Philippe Pasero
E-mail(s) ppasero@igh.cnrs.fr
Organization name Institute of Human Genetics - CNRS
Lab Pasero
Street address 141 rue de la Cardonille
City Montpellier
ZIP/Postal code 34396
Country France
 
Platforms (1)
GPL17143 Illumina MiSeq (Saccharomyces cerevisiae)
Samples (4)
GSM1385584 wt
GSM1385585 sir2
GSM1385586 rpd3
This SubSeries is part of SuperSeries:
GSE57619 HDACs act on ribosomal DNA to control the yeast replication program and the competition between origins for limiting initiation factors
Relations
BioProject PRJNA247144
SRA SRP041939

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Supplementary file Size Download File type/resource
GSE57618_RAW.tar 193.5 Mb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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