The chromatin factor ROW cooperates with BEAF-32 in regulating long-range inducible genes

Neta Herman, Sebastian Kadener*, Sagiv Shifman*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

Abstract

Insulator proteins located at the boundaries of topological associated domains (TAD) are involved in higher-order chromatin organization and transcription regulation. However, it is still not clear how long-range contacts contribute to transcriptional regulation. Here, we show that relative-of-WOC (ROW) is essential for the long-range transcription regulation mediated by the boundary element-associated factor of 32kD (BEAF-32). We find that ROW physically interacts with heterochromatin proteins (HP1b and HP1c) and the insulator protein (BEAF-32). These proteins interact at TAD boundaries where ROW, through its AT-hook motifs, binds AT-rich sequences flanked by BEAF-32-binding sites and motifs. Knockdown of row downregulates genes that are long-range targets of BEAF-32 and bound indirectly by ROW (without binding motif). Analyses of high-throughput chromosome conformation capture (Hi-C) data reveal long-range interactions between promoters of housekeeping genes bound directly by ROW and promoters of developmental genes bound indirectly by ROW. Thus, our results show cooperation between BEAF-32 and the ROW complex, including HP1 proteins, to regulate the transcription of developmental and inducible genes through long-range interactions.

Original languageAmerican English
Article numbere54720
JournalEMBO Reports
Volume23
Issue number12
DOIs
StatePublished - 6 Dec 2022

Bibliographical note

Publisher Copyright:
© 2022 The Authors. Published under the terms of the CC BY NC ND 4.0 license.

Keywords

  • Drosophila
  • gene regulation
  • heterochromatin proteins
  • insulator proteins
  • topological associated domains (TADs)

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