Comparative analysis of MBD-seq and MeDIP-seq and estimation of gene expression changes in a rodent model of schizophrenia

Jennifer L. Neary, Stephanie M. Perez, Kara Peterson, Daniel J. Lodge, Melanie A. Carless

Research output: Contribution to journalArticlepeer-review

20 Scopus citations


We conducted a comparative study of multiplexed affinity enrichment sequence methodologies (MBD-seq and MeDIP-seq) in a rodent model of schizophrenia, induced by in utero methylazoxymethanol acetate (MAM) exposure. We also examined related gene expression changes using a pooled sample approach. MBD-seq and MeDIP-seq identified 769 and 1771 differentially methylated regions (DMRs) between F2 offspring of MAM-exposed rats and saline control rats, respectively. The assays showed good concordance, with ~ 56% of MBD-seq-detected DMRs being identified by or proximal to MeDIP-seq DMRs. There was no significant overlap between DMRs and differentially expressed genes, suggesting that DNA methylation regulatory effects may act upon more distal genes, or are too subtle to detect using our approach. Methylation and gene expression gene ontology enrichment analyses identified biological processes important to schizophrenia pathophysiology, including neuron differentiation, prepulse inhibition, amphetamine response, and glutamatergic synaptic transmission regulation, reinforcing the utility of the MAM rodent model for schizophrenia research.

Original languageEnglish (US)
Pages (from-to)204-213
Number of pages10
Issue number3-4
StatePublished - Jul 2017


  • DNA methylation
  • MBD-seq
  • MeDIP-seq
  • Methylazoxymethanol acetate
  • RNA-seq
  • Schizophrenia

ASJC Scopus subject areas

  • Genetics


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