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Series GSE66364 Query DataSets for GSE66364
Status Public on Mar 06, 2017
Title PML protein organizes heterochromatin domains where it regulates histone H3.3 deposition by ATRX/DAXX
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary Maintenance of chromatin homeostasis involves proper delivery of histone variants to the genome. The interplay between different chaperones regulating the supply of histone variants to distinct chromatin domains remains largely undeciphered. We report a role of promyelocytic leukemia (PML) protein in the routing of histone variant H3.3 to chromatin and in the organization of megabase-size heterochromatic PML-associated domains that we call PADs. Loss of PML alters the heterochromatic state of PADs by shifting the histone H3 methylation balance from K9me3 to K27me3. Loss of PML impairs deposition of H3.3 by ATRX and DAXX in PADs but preserves the H3.3 loading function of HIRA in these regions. Our results unveil an unappreciated role of PML in the large-scale organization of chromatin and demonstrate a PML-dependent role of ATRX/DAXX in the deposition of H3.3 in PADs. Our data suggest that H3.3 loading by HIRA and ATRX-dependent H3K27 trimethylation constitute mechanisms ensuring maintenance of heterochromatin when the integrity of these domains is compromised.
 
Overall design Examination of H3, H3.3-3xFlag, H3K9me3, H3K27me3 and PML genomic localization by ChIP-seq, and transcriptome analysis by RNA-seq, in wild-type and PML knock-out MEFs
 
Contributor(s) Spirkoski J, Delbarre E, Ivanauskiene K, K√ľntziger T, Shah A, Collas P
Citation(s) 28341773
Submission date Feb 27, 2015
Last update date May 15, 2019
Contact name Philippe Collas
Organization name University of Oslo
Department Institute of Basic Medical Sciences
Street address PO Box 1112 Blindern
City Oslo
ZIP/Postal code 0317
Country Norway
 
Platforms (2)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (20)
GSM1621016 PMLKO_H3
GSM1621017 PMLKO_H33
GSM1621018 PMLKO_H3K27me3
Relations
BioProject PRJNA276664
SRA SRP055570

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

Supplementary file Size Download File type/resource
GSE66364_PMLKO_fpkm.csv.gz 162.5 Kb (ftp)(http) CSV
GSE66364_RAW.tar 2.1 Gb (http)(custom) TAR (of BED, BW, CSV)
GSE66364_WT_fpkm.csv.gz 154.4 Kb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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