Enhancer–promoter interactions and transcription are largely maintained upon acute loss of CTCF, cohesin, WAPL or YY1

Hsieh, Tsung-Han S.; Cattoglio, Claudia; Slobodyanyuk, Elena; Hansen, Anders S.; Darzacq, Xavier; Tjian, Robert

doi:10.1038/s41588-022-01223-8

articleNature GeneticsDec 1, 2022HYBRID OA

Enhancer–promoter interactions and transcription are largely maintained upon acute loss of CTCF, cohesin, WAPL or YY1

TSTsung-Han S. Hsieh CCClaudia Cattoglio ESElena Slobodyanyuk ASAnders S. Hansen XDXavier Darzacq

Howard Hughes Medical Institute · University of California, Berkeley · +2 more institutions

PubMed

Indexed incrossrefpubmed

Abstract

It remains unclear why acute depletion of CTCF (CCCTC-binding factor) and cohesin only marginally affects expression of most genes despite substantially perturbing three-dimensional (3D) genome folding at the level of domains and structural loops. To address this conundrum, we used high-resolution Micro-C and nascent transcript profiling in mouse embryonic stem cells. We find that enhancer-promoter (E-P) interactions are largely insensitive to acute (3-h) depletion of CTCF, cohesin or WAPL. YY1 has been proposed as a structural regulator of E-P loops, but acute YY1 depletion also had minimal effects on E-P loops, transcription and 3D genome folding. Strikingly, live-cell, single-molecule imaging revealed that…

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Topics & keywords

Topics

Keywords

CTCF
Biology
Cohesin
Enhancer
Genetics
Transcription (linguistics)
Transcription factor
Cell biology

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