|
| Status |
Public on Oct 20, 2021 |
| Title |
Relaxed 3D genome conformation facilitates the pluripotent to totipotent-like state transition in embryonic stem cells |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
The 3D genome organization is crucial for gene regulation. Although recent studies have revealed a uniquely relaxed genome conformation in totipotent early blastomeres of both fertilized and cloned embryos, how weakened higher-order chromatin structure is functionally linked to totipotency acquisition remains elusive. Using low-input Hi-C, ATAC-seq, and ChIP-seq, we systematically examined the dynamics of 3D genome and epigenome during pluripotent to totipotent-like state transition in mouse embryonic stem cells (ESCs). The spontaneously converted 2-cell-embryo-like cells (2CLCs) exhibited more relaxed chromatin architecture compared to ESCs, including global weakening of both enhancer-promoter interactions and TAD insulation. While the former correlated with inactivation of ESC enhancers and down-regulation of pluripotent genes, the latter might facilitate contacts between the putative new enhancers arising in 2CLCs and neighboring 2C genes. Importantly, disruption of chromatin organization by depleting CTCF or the cohesin complex promoted the ESC to 2CLC transition. Our results thus establish a critical role of 3D genome organization in totipotency acquisition.
|
| |
|
| Overall design |
Refer to individual Series
|
| |
|
| Citation(s) |
34791385 |
| Submission date |
Oct 19, 2020 |
| Last update date |
Dec 15, 2021 |
| Contact name |
Li Shen |
| E-mail(s) |
shenlab@zju.edu.cn
|
| Phone |
86-0571-88981751
|
| Organization name |
Life Sciences Institute, Zhejiang University
|
| Lab |
Shenlab
|
| Street address |
866 Yuhangtang Road
|
| City |
Hangzhou |
| State/province |
Zhejiang Province |
| ZIP/Postal code |
310058 |
| Country |
China |
| |
|
| Platforms (2) |
|
| Samples (42)
|
|
| This SuperSeries is composed of the following SubSeries: |
| GSE159621 |
Relaxed 3D genome conformation facilitates the pluripotent to totipotent-like state transition in embryonic stem cells [ATAC-seq, ChIP-seq, RNA-seq, CUT&Tag] |
| GSE159622 |
Relaxed 3D genome conformation facilitates the pluripotent to totipotent-like state transition in embryonic stem cells [Hi-C] |
|
| Relations |
| BioProject |
PRJNA669845 |
Less...
More...