| Accession |
PRJCA011584 |
| Title |
CTCF-binding element regulates ESC differentiation via orchestrating long-range chromatin interaction between enhancers and HoxA |
| Relevance |
Medical |
| Data types |
Raw sequence reads
|
| Organisms |
Mus musculus
|
| Description |
Proper Homeobox A (HoxA) cluster genes expression is essential for embryonic stem cells (ESCs) differentiation and individual development. However, the mechanisms controlling the precise spatiotemporal expression of HoxA cluster genes during early ESCs differentiation remain largely unknown. Here, we find a CTCF binding element (CBE+47kb) closest to the 3'-end of HoxA locus within a topologically associated domains (TAD) in ESCs. CRISPR-Cas9 mediated the CBE+47kb knockout significantly promotes expression of HoxA cluster genes and early ESCs differentiation induced by RA compared with wild type cells. In mechanism, we found that there was a significant differently long-range chromatin interactions between its adjacent enhancers and HoxA in CBE+47kb knockout cells through chromosome conformation capture assay (Capture-C), indicating that CBE+47kb can precisely organize interactions between its adjacent enhancers and HoxA chromatins. Furthermore, we also showed that its adjacent enhancers deletion shows significantly synthetic inhibition effect on HoxA genes expression, suggesting that these enhancers are required for RA-induced HoxA genes expression. Our study reveals that a new functional CBE+47 can regulate HoxA genes expression through orchestrating long-range chromatin interactions between its adjacent enhancers and HoxA, thus maintaining RA-induced early ESCs proper differentiation. |
| Sample scope |
Multiisolate |
| Release date |
2022-08-31 |
| Publication |
| PubMed ID |
Article title |
Journal name |
DOI |
Year |
|
|
CTCF-binding element regulates ESC differentiation via orchestrating long-range chromatin interaction between enhancers and HoxA
|
The Journal of biological chemistry
|
10.1016/j.jbc.2021.100413
|
2021
|
|
|
| Grants |
| Agency |
program |
Grant ID |
Grant title |
| Ministry of Science and Technology of the People's Republic of China (MOST)
|
National Key Technologies R&D Program
|
2017YFA0102600
|
|
|
|
| Accessions in other database |
| Accession |
Database name |
| SRP272096
|
NCBI
|
|
|
| Submitter |
Wenbin
Wang (sciencedb@gibh.ac.cn)
|
| Organization |
Nankai University |
| Submission date |
2022-08-31 |
