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Series GSE123690 Query DataSets for GSE123690
Status Public on Jul 01, 2020
Title β-catenin safeguards the ground state of pluripotency by strengthening the robustness of the transcriptional apparatus [ATAC-seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Mouse embryonic stem cells (ESCs) cultured with inhibitors of MEK and GSK3 (2iL) more closely resemble the pre-implantation embryo inner cell mass than cultures in serum/LIF (SL). Unveiling the differences between both systems is important for understanding development and could also assist in isolating an ESC equivalent for other mammalian species. In SL, pluripotency and cell cycle gene transcription is a multistep process requiring release of promoter-proximal paused RNA polymerase II (Pol2) by the histone acetylation reader BRD4 and the Pol2 kinase CDK9. Here, we show that recruitment of co-regulators including Mediator and Cohesin by β-catenin changes the mode of transcriptional regulation at BRD4/CDK9-bound loci in 2iL. This switch renders pluripotency genes more reliant on transcriptional initiation and less on Pol2 pause release for effective gene body elongation. Conversely, cell cycle genes are not bound by β-catenin and are still dependent on Pol2 pause release. Thus, pluripotency is more resistant to BRD4/CDK9 suppression in 2iL while self-renewal remains highly sensitive. Our findings help to explain how pluripotency is shielded in the ground state and provide insight into transcriptional adaptation upon network perturbation in other contexts.
Overall design ATAC-seq of mouse ESCs cultured in different conditions.
Contributor(s) Lai Y
Citation(s) 32832621
Submission date Dec 12, 2018
Last update date Sep 08, 2020
Contact name Yiwei Lai
Organization name Guangzhou Institutes of Biomedicine and Health,Chinese Academy of Sciences
Department South China Institute for Stem Cell Biology and Regenerative Medicine Key Laboratory of Regenerative Biology, CAS
Lab Miguel
Street address 190 Kai Yuan Avenue, Science Park
City Guangzhou
State/province Guangdong
ZIP/Postal code 510530
Country China
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (6)
GSM3509508 mESC_ATAC-seq_SL_rep1
GSM3509509 mESC_ATAC-seq_SL_rep2
GSM3509510 mESC_ATAC-seq_SL_rep3
This SubSeries is part of SuperSeries:
GSE123692 β-catenin safeguards the ground state of pluripotency by strengthening the robustness of the transcriptional apparatus
BioProject PRJNA509605
SRA SRP173318

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Supplementary file Size Download File type/resource
GSE123690_RAW.tar 1.9 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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