Stable histone methylation changes at proteoglycan network genes following ethanol exposure

David P. Gavin, Joel G. Hashimoto, Nathan H. Lazar, Lucia Carbone, John Jr Crabbe, Marina Guizzetti

Research output: Contribution to journalArticle

Abstract

Alcohol use disorder (AUD) is a chronic mental illness in which patients often achieve protracted periods of abstinence prior to relapse. Epigenetic mechanisms may provide an explanation for the persisting gene expression changes that can be observed even after long periods of abstinence and may contribute to relapse. In this study, we examined two histone modifications, histone 3 lysine 4 tri-methylation (H3K4me3) and histone 3 lysine 27 tri-methylation (H3K27me3), in the prefrontal cortex of Withdrawal Seizure Resistant (WSR) mice 21 days after 72 h of ethanol vapor exposure. These histone modifications were selected because they are associated with active promoters (H3K4me3) and repressed gene expression in a euchromatic environment (H3K27me3). We performed a genome-wide analysis to identify differences in H3K4me3 and H3K27me3 levels in post-ethanol exposure vs. control mice by ChIP-seq. We detected a global reduction in H3K4me3 peaks and increase in H3K27me3 peaks in post-ethanol exposure mice compared to controls, these changes are consistent with persistent reductions in gene expression. Pathway analysis of genes displaying changes in H3K4me3 and H3K27me3 revealed enrichment for genes involved in proteoglycan and calcium signaling pathways, respectively. Microarray analysis of 7,683 genes and qPCR analysis identified eight genes displaying concordant regulation of gene expression and H3K4me3/H3K27me3. We also compared changes in H3K4me3 and/or H3K27me3 from our study with changes in gene expression in response to ethanol from published literature and we found that the expression of 52% of the genes with altered H3K4me3 binding and 40% of genes with H3K27me3 differences are altered by ethanol exposure. The chromatin changes associated with the 21-day post-exposure period suggest that this period is a unique state in the addiction cycle that differs from ethanol intoxication and acute withdrawal. These results provide insights into the enduring effects of ethanol on proteoglycan and calcium signaling genes in the brain.

Original languageEnglish (US)
Article number346
JournalFrontiers in Genetics
Volume9
Issue numberAUG
DOIs
StatePublished - Aug 30 2018

Fingerprint

Gene Regulatory Networks
Proteoglycans
Histones
Methylation
Ethanol
Gene Expression
Histone Code
Genes
Calcium Signaling
Lysine
Recurrence
Gene Expression Regulation
Microarray Analysis
Prefrontal Cortex
Epigenomics
Chromatin
Seizures
Chronic Disease
Alcohols
Genome

Keywords

  • Alcohol dependence
  • Alcohol withdrawal
  • Calcium signaling
  • ChIP-seq
  • Histone methylation
  • Proteoglycans

ASJC Scopus subject areas

  • Molecular Medicine
  • Genetics
  • Genetics(clinical)

Cite this

Stable histone methylation changes at proteoglycan network genes following ethanol exposure. / Gavin, David P.; Hashimoto, Joel G.; Lazar, Nathan H.; Carbone, Lucia; Crabbe, John Jr; Guizzetti, Marina.

In: Frontiers in Genetics, Vol. 9, No. AUG, 346, 30.08.2018.

Research output: Contribution to journalArticle

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