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| Status |
Public on Jun 01, 2013 |
| Title |
SAM domain polymerization links subnuclear clustering of PRC1 to silencing detected using expression data and ChIP experiments |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by array
Genome binding/occupancy profiling by array
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Polycomb group (PcG) proteins mediate heritable but reversible silencing of developmental regulator genes by modifying their chromatin configuration. Accumulating evidence documents a role for PcG proteins in regulating higher order chromatin structures likely by their clustering, however, underlying mechanisms and its impact on transcriptional regulation remain obscure. In this study, we found that subnuclear clustering of PRC1 at canonical PcG target genes depended on head-to-tail polymerization property of SAM domain of Phc2 and likely Phc1. We show that Phc2-SAM polymerization limits the dynamic nature of PRC1, thereby promotes stable association of PRC1 with PcG target genes and contributes to their robust silencing. Our findings suggest a novel model by which SAM polymerization of Phc2 modulates the structural organization of PcG complexes to enable robust yet reversible PcG-mediated repression during development.
This SuperSeries is composed of the SubSeries listed below.
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| Overall design |
Refer to individual Series
ChIP on chip analysis was carried out using the Mouse Promoter ChIP-on-chip Microarray Set (G4490A, Agilent, Palo Alto, Calif., USA). MEFs were subjected to ChIP assay using a Ring1B antibody. Purified immunoprecipitated and input DNA was subjected to T7 RNA polymerase-based amplification. Labeling, hybridization and washing were carried out according to the Agilent mammalian ChIP-on-chip protocol (ver.9.0). Scanned images were quantified with Agilent Feature Extraction software under standard conditions.
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| Contributor(s) |
Isono K, Fujita M, Yamada D, Endo TA, Koseki H |
| Citation(s) |
24091011 |
| Submission date |
May 23, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Takaho A. Endo |
| E-mail(s) |
takaho.endo@riken.jp
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| Organization name |
RIKEN
|
| Department |
IMS
|
| Lab |
Laboratory for Integrative Genomics
|
| Street address |
1-7-22 Suehiro, Tsurumi
|
| City |
Yokohama |
| State/province |
Kanagawa |
| ZIP/Postal code |
230-0045 |
| Country |
Japan |
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| Platforms (5)
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| GPL1261 |
[Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array |
| GPL9250 |
Illumina Genome Analyzer II (Mus musculus) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
| GPL14573 |
Agilent-014716 Mouse Promoter ChIP-on-Chip Set 244K, Microarray 1 of 2 (G4490A) (Probe Name version) |
| GPL14597 |
Agilent-014717 Mouse Promoter ChIP-on-Chip Set 244K, Microarray 2 of 2 (G4490A) (Probe Name version) |
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| Samples (10)
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| This SuperSeries is composed of the following SubSeries:
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| GSE37346 |
SAM domain polymerization links subnuclear clustering of PRC1 to silencing (Affymetrix) |
| GSE37526 |
SAM domain polymerization links subnuclear clustering of PRC1 to silencing (ChIP-chip) |
| GSE37530 |
SAM domain polymerization links subnuclear clustering of PRC1 to silencing |
| GSE42801 |
SAM domain polymerization links subnuclear clustering of PRC1 to silencing (Ring1B ChIP-Seq) |
|
| Relations |
| BioProject |
PRJNA167348 |
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