DNA unmethylome profiling by covalent capture of CpG sites

Edita Kriukiene, Viviane Labrie, Tarang Khare, Giedre Urbanavičiute, Audrone Lapinaite, Karolis Koncevičius, Daofeng Li, Ting Wang, Shraddha Pai, Carolyn Ptak, Juozas Gordevičius, Sun Chong Wang, Arturas Petronis, Saulius Klimašauskas

Research output: Contribution to journalArticlepeer-review

33 Scopus citations

Abstract

Dynamic patterns of cytosine-5 methylation and successive hydroxylation are part of epigenetic regulation in eukaryotes, including humans, which contributes to normal phenotypic variation and disease risk. Here we present an approach for the mapping of unmodified regions of the genome, which we call the unmethylome. Our technique is based on DNA methyltransferase-directed transfer of activated groups and covalent biotin tagging of unmodified CpG sites followed by affinity enrichment and interrogation on tiling microarrays or next generation sequencing. Control experiments and pilot studies of human genomic DNA from cultured cells and tissues demonstrate that, along with providing a unique cross-section through the chemical landscape of the epigenome, the methyltransferase-directed transfer of activated groups-based approach offers high precision and robustness as compared with existing affinity-based techniques.

Original languageEnglish (US)
Article number2190
JournalNature communications
Volume4
DOIs
StatePublished - 2013

ASJC Scopus subject areas

  • Chemistry(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Physics and Astronomy(all)

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