Exploring the Dynamic Relationship Between Cellular Metabolism and Chromatin Structure Using SILAC-Mass Spec and ChIP-Sequencing

P. Mews, S. L. Berger

Research output: Chapter in Book/Report/Conference proceedingChapterpeer-review

3 Scopus citations

Abstract

Metabolic state and chromatin structure are tightly linked, enabling adaptation of gene expression to changing environment and metabolism. The bioenergetic pathways and enzymes that provide metabolic cofactors for histone modification have recently emerged as central regulators of chromatin. Current research therefore focuses on the dynamic interface of cellular metabolism and chromatin structure. Here, we provide an adaptable approach to examine broadly in changing physiological states, how chromatin structure is dynamically modulated by metabolic activity. We employ two complementary methods: high-throughput sequencing to establish the location of epigenetic changes, and stable isotope tracing using mass spectrometry to evaluate chromatin modification dynamics. Our two-pronged approach is of particular advantage when interrogating how metabolic and oncogenic mutations influence the dynamic relationship between metabolism, nutritional environment, and chromatin regulation.

Original languageEnglish
Title of host publicationEnzymes of Epigenetics, Part B
EditorsRonen Marmorstein
PublisherAcademic Press Inc.
Pages311-329
Number of pages19
DOIs
StatePublished - 2016
Externally publishedYes

Publication series

NameMethods in Enzymology
Volume574
ISSN (Print)0076-6879
ISSN (Electronic)1557-7988

Keywords

  • Cellular metabolism
  • ChIP-sequencing
  • Chromatin dynamics
  • Epigenetics
  • Histone posttranslational modifications
  • SILAC-mass spectrometry

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