A comprehensive map coupling histone modifications with gene regulation in adult dopaminergic and serotonergic neurons

Research output: Contribution to journalArticle


The brain is composed of hundreds of different neuronal subtypes, which largely retain their identity throughout the lifespan of the organism. The mechanisms governing this stability are not fully understood, partly due to the diversity and limited size of clinically relevant neuronal populations, which constitute a technical challenge for analysis. Here, using a strategy that allows for ChIP-seq combined with RNA-seq in small neuronal populations in vivo, we present a comparative analysis of permissive and repressive histone modifications in adult midbrain dopaminergic neurons, raphe nuclei serotonergic neurons, and embryonic neural progenitors. Furthermore, we utilize the map generated by our analysis to show that the transcriptional response of midbrain dopaminergic neurons following 6-OHDA or methamphetamine injection is characterized by increased expression of genes with promoters dually marked by H3K4me3/H3K27me3. Our study provides an in vivo genome-wide analysis of permissive/repressive histone modifications coupled to gene expression in these rare neuronal subtypes.


  • Erik Södersten
  • Konstantinos Toskas
  • Vilma Rraklli
  • Katarina Tiklova
  • Åsa K. Björklund
  • Markus Ringnér
  • Thomas Perlmann
  • Johan Holmberg
External organisations
  • Karolinska Institutet
  • Uppsala University
Research areas and keywords

Subject classification (UKÄ) – MANDATORY

  • Neurosciences
Original languageEnglish
Article number1226
JournalNature Communications
Issue number1
Publication statusPublished - 2018 Mar 26
Publication categoryResearch