ARID1a-DNA interactions are required for promoter occupancy by SWI/SNF

Mol Cell Biol. 2013 Jan;33(2):265-80. doi: 10.1128/MCB.01008-12. Epub 2012 Nov 5.

Abstract

Every known SWI/SNF chromatin-remodeling complex incorporates an ARID DNA binding domain-containing subunit. Despite being a ubiquitous component of the complex, physiological roles for this domain remain undefined. Here, we show that disruption of ARID1a-DNA binding in mice results in embryonic lethality, with mutant embryos manifesting prominent defects in the heart and extraembryonic vasculature. The DNA binding-defective mutant ARID1a subunit is stably expressed and capable of assembling into a SWI/SNF complex with core catalytic properties, but nucleosome substrate binding and promoter occupancy by ARID1a-containing SWI/SNF complexes (BAF-A) are impaired. Depletion of ARID domain-dependent, BAF-A associations at THROMBOSPONDIN 1 (THBS1) led to the concomitant upregulation of this SWI/SNF target gene. Using a THBS1 promoter-reporter gene, we further show that BAF-A directly regulates THBS1 promoter activity in an ARID domain-dependent manner. Our data not only demonstrate that ARID1a-DNA interactions are physiologically relevant in higher eukaryotes but also indicate that these interactions facilitate SWI/SNF binding to target sites in vivo. These findings support the model wherein cooperative interactions among intrinsic subunit-chromatin interaction domains and sequence-specific transcription factors drive SWI/SNF recruitment.

Publication types

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

MeSH terms

  • Alleles
  • Amino Acid Sequence
  • Animals
  • Chromatin / chemistry
  • Chromatin Assembly and Disassembly / genetics*
  • Computational Biology
  • DNA / genetics
  • DNA / metabolism*
  • DNA-Binding Proteins / genetics
  • DNA-Binding Proteins / metabolism*
  • Embryo, Mammalian / embryology
  • Embryo, Mammalian / metabolism
  • Embryonic Stem Cells / metabolism
  • Female
  • Gene Deletion
  • Gene Expression Regulation, Developmental
  • Genotype
  • Mice
  • Mice, Inbred C57BL
  • Molecular Sequence Data
  • Nuclear Proteins / genetics
  • Nuclear Proteins / metabolism*
  • Nucleosomes / metabolism
  • Oligonucleotide Array Sequence Analysis
  • Plasmids
  • Pregnancy
  • Promoter Regions, Genetic*
  • RNA, Small Interfering
  • Thrombospondin 1 / genetics
  • Thrombospondin 1 / metabolism
  • Transcription Factors
  • Transfection
  • Up-Regulation

Substances

  • Arid1a protein, mouse
  • Chromatin
  • DNA-Binding Proteins
  • Nuclear Proteins
  • Nucleosomes
  • RNA, Small Interfering
  • Thrombospondin 1
  • Transcription Factors
  • DNA