ARID1A loss impairs enhancer-mediated gene regulation and drives colon cancer in mice

Nat Genet. 2017 Feb;49(2):296-302. doi: 10.1038/ng.3744. Epub 2016 Dec 12.

Abstract

Genes encoding subunits of SWI/SNF (BAF) chromatin-remodeling complexes are collectively mutated in ∼20% of all human cancers. Although ARID1A is the most frequent target of mutations, the mechanism by which its inactivation promotes tumorigenesis is unclear. Here we demonstrate that Arid1a functions as a tumor suppressor in the mouse colon, but not the small intestine, and that invasive ARID1A-deficient adenocarcinomas resemble human colorectal cancer (CRC). These tumors lack deregulation of APC/β-catenin signaling components, which are crucial gatekeepers in common forms of intestinal cancer. We find that ARID1A normally targets SWI/SNF complexes to enhancers, where they function in coordination with transcription factors to facilitate gene activation. ARID1B preserves SWI/SNF function in ARID1A-deficient cells, but defects in SWI/SNF targeting and control of enhancer activity cause extensive dysregulation of gene expression. These findings represent an advance in colon cancer modeling and implicate enhancer-mediated gene regulation as a principal tumor-suppressor function of ARID1A.

MeSH terms

  • Animals
  • Cell Line, Tumor
  • Chromatin / genetics
  • Chromatin Assembly and Disassembly / genetics
  • Colonic Neoplasms / genetics*
  • DNA-Binding Proteins / genetics
  • Enhancer Elements, Genetic / genetics*
  • Gene Expression Regulation / genetics*
  • HCT116 Cells
  • Humans
  • Mice
  • Mutation / genetics
  • Nuclear Proteins / genetics*
  • Transcription Factors / genetics*
  • beta Catenin / genetics

Substances

  • ARID1A protein, human
  • Chromatin
  • DNA-Binding Proteins
  • Nuclear Proteins
  • Transcription Factors
  • beta Catenin