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Series GSE26449 Query DataSets for GSE26449
Status Public on Mar 07, 2011
Title Genome-wide mapping of meiotic double-strand breaks by sequencing Spo11 oligos.
Organism Saccharomyces cerevisiae
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The nonrandom distribution of meiotic recombination shapes patterns of inheritance and genome evolution, but chromosomal features governing this distribution are poorly understood. Formation of the DNA double-strand breaks (DSBs) that initiate recombination results in accumulation of Spo11 protein covalently bound to small DNA fragments. We show here that sequencing these fragments provides a genome-wide DSB map of unprecedented resolution and sensitivity. We use this map to explore the influence of large-scale chromosome structures, chromatin, transcription factors, and local sequence composition on DSB distributions. Our analysis supports the view that the recombination terrain is molded by combinatorial and hierarchical interaction of factors that work on widely different size scales. Mechanistic aspects of DSB formation and early processing steps are also uncovered. This map illuminates the occurrence of DSBs in repetitive DNA elements, repair of which can lead to chromosomal rearrangements. We discuss implications for evolutionary dynamics of recombination hotspots.
 
Overall design We deep sequenced 4 samples of Spo11 oligos on Roche 454 platform. Three samples are technical replicates of Spo11 oligo products prepared from one meiotic culture and the fourth sample was prepared from an independent culture.
 
Contributor(s) Pan J, Sasaki M, Kniewel R, Murakami H, Blitzblau HG, Tischfield SE, Zhu X, Neale MJ, Jasin M, Socci ND, Hochwagen A, Keeney S
Citation(s)
  • Pan J, Sasaki M, Kniewel R, Murakami H et al. A hierarchical combination of factors shapes the genome-wide topography of yeast meiotic recombination initiation. Cell 2011 Mar 4;144(5):719-31. PMID: 21376234
Submission date Jan 05, 2011
Last update date May 15, 2019
Contact name Scott Keeney
E-mail(s) s-keeney@ski.mskcc.org
Phone (212) 639-5182
Organization name Memorial Sloan Kettering Cancer Center
Department Molecular Biology Program
Lab Keeney lab
Street address 1275 York Ave
City New York
State/province NY
ZIP/Postal code 10065
Country USA
 
Platforms (1)
GPL11389 454 GS 20 (Saccharomyces cerevisiae)
Samples (4)
GSM648828 dataset 1A
GSM648829 dataset 1B
GSM648830 dataset 1C
Relations
SRA SRP005381
BioProject PRJNA136551

Download family Format
SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE26449_S288C.Spo11.wiggle.txt.gz 1.3 Mb (ftp)(http) TXT
GSE26449_S288C_spo11_reads.bed.gz 19.4 Mb (ftp)(http) BED
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Processed data are available on Series record

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