CUX1 regulates human hematopoietic stem cell chromatin accessibility via the BAF complex

Cell Rep. 2024 May 28;43(5):114227. doi: 10.1016/j.celrep.2024.114227. Epub 2024 May 11.

Abstract

CUX1 is a homeodomain-containing transcription factor that is essential for the development and differentiation of multiple tissues. CUX1 is recurrently mutated or deleted in cancer, particularly in myeloid malignancies. However, the mechanism by which CUX1 regulates gene expression and differentiation remains poorly understood, creating a barrier to understanding the tumor-suppressive functions of CUX1. Here, we demonstrate that CUX1 directs the BAF chromatin remodeling complex to DNA to increase chromatin accessibility in hematopoietic cells. CUX1 preferentially regulates lineage-specific enhancers, and CUX1 target genes are predictive of cell fate in vivo. These data indicate that CUX1 regulates hematopoietic lineage commitment and homeostasis via pioneer factor activity, and CUX1 deficiency disrupts these processes in stem and progenitor cells, facilitating transformation.

Keywords: BAF complex; CP: Molecular biology; CP: Stem cell research; CUX1; chromatin remodeler; differentiation; enhancer; epigenetic regulation; hematopoietic stem cells; myeloid neoplasms; pioneer factor; transcription factor.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Cell Differentiation
  • Cell Lineage
  • Chromatin Assembly and Disassembly
  • Chromatin* / metabolism
  • DNA-Binding Proteins / genetics
  • DNA-Binding Proteins / metabolism
  • Enhancer Elements, Genetic / genetics
  • Hematopoietic Stem Cells* / cytology
  • Hematopoietic Stem Cells* / metabolism
  • Homeodomain Proteins* / genetics
  • Homeodomain Proteins* / metabolism
  • Humans
  • Mice
  • Nuclear Proteins / genetics
  • Nuclear Proteins / metabolism
  • Repressor Proteins* / genetics
  • Repressor Proteins* / metabolism
  • Transcription Factors / genetics
  • Transcription Factors / metabolism

Substances

  • Homeodomain Proteins
  • Chromatin
  • CUX1 protein, human
  • Repressor Proteins
  • Transcription Factors
  • Nuclear Proteins
  • DNA-Binding Proteins