ZNF143 deletion alters enhancer/promoter looping and CTCF/cohesin geometry
The transcription factor ZNF143 contains a central domain of seven zinc fingers in a tandem array and is involved in 3D genome construction. However, the mechanism by which ZNF143 functions in chromatin looping remains unclear. Here, we show that ZNF143 directionally recognizes a diverse range of ge...
Gespeichert in:
Veröffentlicht in: | Cell reports (Cambridge) 2024-01, Vol.43 (1), p.113663-113663, Article 113663 |
---|---|
Hauptverfasser: | , , , |
Format: | Artikel |
Sprache: | eng |
Schlagworte: | |
Online-Zugang: | Volltext |
Tags: |
Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
|
Zusammenfassung: | The transcription factor ZNF143 contains a central domain of seven zinc fingers in a tandem array and is involved in 3D genome construction. However, the mechanism by which ZNF143 functions in chromatin looping remains unclear. Here, we show that ZNF143 directionally recognizes a diverse range of genomic sites directly within enhancers and promoters and is required for chromatin looping between these sites. In addition, ZNF143 is located between CTCF and cohesin at numerous CTCF sites, and ZNF143 removal narrows the space between CTCF and cohesin. Moreover, genetic deletion of ZNF143, in conjunction with acute CTCF degradation, reveals that ZNF143 and CTCF collaborate to regulate higher-order topological chromatin organization. Finally, CTCF depletion enlarges direct ZNF143 chromatin looping. Thus, ZNF143 is recruited by CTCF to the CTCF sites to regulate CTCF/cohesin configuration and TAD (topologically associating domain) formation, whereas directional recognition of genomic DNA motifs directly by ZNF143 itself regulates promoter activity via chromatin looping.
[Display omitted]
•ZNF143 recognizes cognate SBS elements in promoters and enhancers in an anti-parallel manner•ZNF143 deletion weakens the strength of chromatin loops between promoters and/or enhancers•Removal of ZNF143 alters 3D genome compartment and narrows the space between CTCF and cohesin•Acute CTCF degradation results in larger-sized ZNF143 loops
Zhang et al. show that the localization of ZNF143 between CTCF and cohesin facilitates CTCF to block cohesin loop extrusion at CBS anchor sites. ZNF143 also regulates long-distance chromatin looping between promoters and/or enhancers via directional recognition of SBS elements in an anti-parallel manner. |
---|---|
ISSN: | 2211-1247 2211-1247 |
DOI: | 10.1016/j.celrep.2023.113663 |