The repressive genome compartment is established early in the cell cycle before forming the lamina associated domains

T. R. Luperchio, M. E.G. Sauria, V. E. Hoskins, X. Wong, E. DeBoy, M. C. Gaillard, P. Tsang, K. Pekrun, R. A. Ach, N. A. Yamada, J. Taylor, K. L. Reddy

Research output: Contribution to journalArticlepeer-review

Abstract

Three-dimensional (3D) genome organization is thought to be important for regulation of gene expression. Chromosome conformation capture-based studies have uncovered ensemble organizational principles such as active (A) and inactive (B) compartmentalization. In addition, large inactive regions of the genome associate with the nuclear lamina, the Lamina Associated Domains (LADs). Here we investigate the dynamic relationship between A/B-compartment organization and the 3D organization of LADs. Using refined algorithms to identify active (A) and inactive (B) compartments from Hi-C data and to define LADs from DamID, we confirm that the LADs correspond to the B-compartment. Using specialized chromosome conformation paints, we show that LAD and A/B-compartment organization are dependent upon chromatin state and A-type lamins. By integrating single-cell Hi-C data with live cell imaging and chromosome conformation paints, we demonstrate that self-organization of the B-compartment within a chromosome is an early event post-mitosis and occurs prior to organization of these domains to the nuclear lamina.

Original languageEnglish (US)
JournalUnknown Journal
DOIs
StatePublished - Nov 29 2018

Keywords

  • A/B-compartments
  • cell cycle
  • chromatin
  • chromatin
  • chromosome
  • chromosome paints
  • DamID
  • FISH
  • genome organization
  • Hi-C
  • Lamina Associated Domains (LADs)
  • lamins
  • LMNA/C
  • nuclear architecture
  • peripheral zone
  • single-cell

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)
  • Immunology and Microbiology(all)
  • Neuroscience(all)
  • Pharmacology, Toxicology and Pharmaceutics(all)

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