| Series GSE42152 | Query DataSets for GSE42152 |
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| Status | Public on Sep 30, 2013 |
| Title | Hira-dependent histone H3.3 deposition facilitates PRC2 recruitment at developmental loci in ES cells [ChIP-Seq] |
| Organism | Mus musculus |
| Experiment type | Genome binding/occupancy profiling by high throughput sequencing |
| Summary | Polycomb repressive complex 2 (PRC2) regulates gene expression during lineage specification through trimethylation of lysine 27 on histone H3 (H3K27me3). In Drosophila, polycomb binding sites are dynamic chromatin regions coupled to incorporation of the histone variant H3.3. Here we show in mouse embryonic stem cells (ESCs) that H3.3 is required for proper establishment of H3K27me3 at the promoters of developmentally regulated genes. These promoters show reduced dynamics as determined by deposition of de novo synthesized histones, associated with reduced PRC2 occupancy. H3.3-depleted ESCs show upregulation of extraembryonic trophectoderm, as well as misregulation of other developmental genes upon differentiation. Our data demonstrate the importance of H3.3 incorporation in ESCs and suggest that changes in chromatin dynamics in its absence lead to misregulation of gene expression during differentiation. Moreover, our findings lend support to the emerging notion that H3.3 has multiple functions in distinct genomic locations that are not always correlated with an “active” chromatin state. |
| Overall design | Native ChIP analysis of three histone post-translational modifications (H3K4me3, H3K27me3, H3K27ac) in two mouse embryonic stem cell (ESC) lines (control and H3.3-depleted). Inputs sequenced as control. Native ChIP analysis of H3.3B-HA in control and Suz12-/- ESCs. Crosslinking ChIP analysis of histone H3 using a general H3 antibody in two ESC lines (control and H3.3-depleted). Crosslinking ChIP analysis Hira, UTX, and Jmjd3 in wild type and H3.3 KO ESCs. |
| Contributor(s) | Banaszynski LA, Dewell S, Zheng D, Allis CD |
| Citation(s) | 24074864 |
| Submission date | Nov 08, 2012 |
| Last update date | May 15, 2019 |
| Contact name | Laura Banaszynski |
| E-mail(s) | [email protected] |
| Organization name | UT Southwestern Medical Center |
| Department | Green Center for Reproductive Biology Sciences |
| Street address | 5323 Harry Hines Blvd |
| City | Dallas |
| State/province | TX |
| ZIP/Postal code | 75390-8511 |
| Country | USA |
| Platforms (2) | | GPL11002 | Illumina Genome Analyzer IIx (Mus musculus) | | GPL13112 | Illumina HiSeq 2000 (Mus musculus) |
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Samples (21) Less...  More... | | GSM1033636 | ESC_Control_H3K4me3 | | GSM1033637 | ESC_H33KD1_H3K4me3 | | GSM1033638 | ESC_Control_H3K27me3 |
| GSM1033639 | ESC_H33KD1_H3K27me3 | | GSM1033640 | ESC_Control_H3K27ac | | GSM1033641 | ESC_H33KD1_H3K27ac | | GSM1033642 | ESC_Control_Input | | GSM1033643 | ESC_H33KD1_Input | | GSM1033644 | ESC_Control_H3gen | | GSM1033645 | ESC_H33KD1_H3gen | | GSM1207786 | ESC_Control_H33B-HA | | GSM1207787 | ESC_Suz12null_H33B-HA | | GSM1207788 | ESC_HiraM2 | | GSM1207789 | ESC_WT_Hira | | GSM1207790 | ESC_H33KO2_Hira | | GSM1207791 | ESC_WT_UTX | | GSM1207792 | ESC_H33KO1_UTX | | GSM1207793 | ESC_WT_Jmjd3 | | GSM1207794 | ESC_H33KO1_Jmjd3 | | GSM2271337 | ESC_Hira_WT_H3gen | | GSM2271341 | ESC_Hira_null_H3gen |
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| This SubSeries is part of SuperSeries: |
| GSE42155 | Hira-dependent histone H3.3 deposition facilitates PRC2 recruitment at developmental loci in ES cells |
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| Relations |
| BioProject | PRJNA179215 |
| SRA | SRP017131 |
