Journal Article

Matrin3 mediates differentiation through stabilizing chromatin loop-domain interactions and YY1 mediated enhancer-promoter interactions

Zhu, Qian, Mehta, Stuti, Schlaeger, Thorsten M., Kai, Yan, Cha, Hye Ji, Orkin, Stuart H., Liu, Tianxin, Bingham, Trevor, Wang, Stacy, Yuan, Guo-Cheng

2024

Overview

Although emerging evidence indicates that alterations in proteins within nuclear compartments elicit changes in chromosomal architecture and differentiation, the underlying mechanisms are not well understood. Here we investigate the direct role of the abundant nuclear complex protein Matrin3 (Matr3) in chromatin architecture and development in the context of myogenesis. Using an acute targeted protein degradation platform (dTAG-Matr3), we reveal the dynamics of development-related chromatin reorganization. High-throughput chromosome conformation capture (Hi-C) experiments revealed substantial chromatin loop rearrangements soon after Matr3 depletion. Notably, YY1 binding was detected, accompanied by the emergence of novel YY1-mediated enhancer-promoter loops, which occurred concurrently with changes in histone modifications and chromatin-level binding patterns. Changes in chromatin occupancy by Matr3 also correlated with these alterations. Overall, our results suggest that Matr3 mediates differentiation through stabilizing chromatin accessibility and chromatin loop-domain interactions, and highlight a conserved and direct role for Matr3 in maintenance of chromosomal architecture. Alterations in proteins within nuclear compartments often lead to changes in chromosomal architecture. Here, using acute targeted protein degradation, the authors reveal that the nuclear complex protein Matrin3 directly mediates differentiation through stabilizing chromatin loop domain interactions.

• Publisher: Nature Publishing Group UK,Nature Publishing Group,Nature Portfolio
• Subject: 13/1 / 13/31 / 13/44 / 14 / 14/19 / 38 / 38/109 / 38/15 / 38/23 / 38/39 / 38/88 / 38/90 / 38/91 / 42 / 45 / 45/22 / 631/114 / 631/136 / 631/208/212 / 631/337 / 631/80 / 64/60 / Binding / Biodegradation / Chromatin / Chromosomes / Compartments / Degradation / Differentiation / Histones / Humanities and Social Sciences / multidisciplinary / Myogenesis / Proteins / Science / Science (multidisciplinary)