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- Title
Disruption of nuclear speckles reduces chromatin interactions in active compartments.
- Authors
Hu, Shibin; Lv, Pin; Yan, Zixiang; Wen, Bo
- Abstract
Background: Nuclei of eukaryotes contain various higher-order chromatin architectures and nuclear bodies (NBs), which are critical for proper nuclear functions. Recent studies showed that active chromatin regions are associated with nuclear speckles (NSs), a type of NBs involved in RNA processing. However, the functional roles of NSs in 3D genome organization remain unclear. Results: Using mouse hepatocytes as the model, we knocked down SRRM2, a core protein component scaffolding NSs, and performed Hi-C experiments to examine genome-wide chromatin interactions. We found that Srrm2 depletion disrupted the NSs and changed the expression of 1282 genes. The intra-chromosomal interactions were decreased in type A (active) compartments and increased in type B (repressive) compartments. Furthermore, upon Srrm2 knockdown, the insulation of TADs was decreased specifically in active compartments, and the most significant reduction occurred in A1 sub-compartments. Interestingly, the change of intra-TAD chromatin interactions upon Srrm2 depletion was not associated with the alteration of gene expression. Conclusions: We show that disruption of NSs by Srrm2 knockdown causes a global decrease in chromatin interactions in active compartments, indicating critical functions of NSs in the organization of the 3D genome.
- Subjects
SPECKLE interference; EIGENFUNCTIONS; SCAFFOLD proteins; GENE expression; RNA; CHROMATIN
- Publication
Epigenetics & Chromatin, 2019, Vol 12, Issue 1, pN.PAG
- ISSN
1756-8935
- Publication type
Article
- DOI
10.1186/s13072-019-0289-2