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Series GSE48493 Query DataSets for GSE48493
Status Public on Sep 11, 2013
Title Supression of genetic recombination in the pseudoautosomal region and at subtelomeres in mice with a hypomorphic spo11 allele
Organism Mus musculus
Experiment type Genome variation profiling by high throughput sequencing
Summary Homologous recombination is the key process that generates genetic diversity and drives evolution. SPO11 protein triggers recombination by introducing DNA double stranded breaks at discreet areas of the genome called recombination hotspots. The hotspot locations are largely determined by the DNA binding specificity of the PRDM9 protein in human, mice and most other mammals. In budding yeast Saccharomyces cerevisae, which lacks a Prdm9 gene, meiotic breaks are formed opportunistically in the regions of accessible chromatin, primarily at gene promoters. The genome-wide distribution of hotspots in this organism can be altered by tethering Spo11 protein to Gal4 recognition sequences in the strain expressing Spo11 attached to the DNA binding domain of the Gal4 transcription factor. To establish whether similar re-targeting of meiotic breaks can be achieved in PRDM9-containing organisms we have generated a Gal4BD-Spo11 mouse that expresses SPO11 protein joined to the DNA binding domain of yeast Gal4. We have mapped the genome-wide distribution of the recombination initiation sites in the Gal4BD-Spo11 mice. More than two hundred of the hotspots in these mice were novel and were likely defined by Gal4BD, as the Gal4 consensus motif was clustered around the centers in these hotspots. Surprisingly, meiotic DNA breaks in the Gal4BD-Spo11 mice were significantly depleted near the ends of chromosomes. The effect is particularly striking at the pseudoautosomal region of the X and Y chromosomes – normally the hottest region in the genome. Our data suggest that specific, yet-unidentified factors influence the initiation of meiotic recombination at subtelomeric chromosomal regions.
Overall design Detection of meiotic double strand breaks in mice with a hypomorphic Spo11 allele.
Contributor(s) Smagulova F, Brick K, Pu Y, Sengupta U, Camerini-Otero R, Petukhova G
Citation(s) 23870400
Submission date Jul 02, 2013
Last update date May 15, 2019
Contact name Kevin Brick
Organization name NIDDK
Department GBB
Street address 5/205 Memorial Drive
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
Platforms (2)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (9)
GSM1179917 C57Bl6/J Hop2-/- Anti-DMC1 Sample A
GSM1179918 C57Bl6/J Hop2-/- Anti-DMC1 Sample B
GSM1179919 Spo11 Gal/- Anti-DMC1 Sample A
BioProject PRJNA210323
SRA SRP026489

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SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE48493_C57Bl6J_Hop2ko_peaks.bedgraph.gz 84.7 Kb (ftp)(http) BEDGRAPH
GSE48493_C57Bl6J_peaks.bedgraph.gz 192.0 Kb (ftp)(http) BEDGRAPH
GSE48493_C57Bl6_Hop2ko_H3K4me3_peaks.bedgraph.gz 744.2 Kb (ftp)(http) BEDGRAPH
GSE48493_C57Bl6_Hop2ko_ssDNA.bed.gz 22.9 Mb (ftp)(http) BED
GSE48493_SpoGalHom_H3K4me3_peaks.bedgraph.gz 585.1 Kb (ftp)(http) BEDGRAPH
GSE48493_SpoGal_Het_peaks.bedgraph.gz 72.1 Kb (ftp)(http) BEDGRAPH
GSE48493_SpoGal_Het_ssDNA.bed.gz 91.4 Mb (ftp)(http) BED
GSE48493_SpoGal_Hom_Hop2ko_H3K4me3_peaks.bedgraph.gz 636.4 Kb (ftp)(http) BEDGRAPH
GSE48493_SpoGal_Hom_Hop2ko_peaks.bedgraph.gz 141.1 Kb (ftp)(http) BEDGRAPH
GSE48493_SpoGal_Hom_Hop2ko_ssDNA.bed.gz 169.6 Mb (ftp)(http) BED
GSE48493_SpoGal_Hom_peaks.bedgraph.gz 105.6 Kb (ftp)(http) BEDGRAPH
GSE48493_SpoGal_Hom_ssDNA.bed.gz 124.1 Mb (ftp)(http) BED
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