Genome-wide DNA hypomethylation and RNA:DNA hybrid accumulation in Aicardi–Goutières syndrome

Yoong Wearn Lim, Lionel A. Sanz, Xiaoqin Xu, Stella R. Hartono, Frederic Chedin

Research output: Contribution to journalArticle

59 Citations (Scopus)

Abstract

Aicardi–Goutières syndrome (AGS) is a severe childhood inflammatory disorder that shows clinical and genetic overlap with systemic lupus erythematosus (SLE). AGS is thought to arise from the accumulation of incompletely metabolized endogenous nucleic acid species owing to mutations in nucleic acid-degrading enzymes TREX1 (AGS1), RNase H2 (AGS2, 3 and 4), and SAMHD1 (AGS5). However, the identity and source of such immunogenic nucleic acid species remain undefined. Using genome-wide approaches, we show that fibroblasts from AGS patients with AGS1-5 mutations are burdened by excessive loads of RNA:DNA hybrids. Using MethylC-seq, we show that AGS fibroblasts display pronounced and global loss of DNA methylation and demonstrate that AGS-specific RNA:DNA hybrids often occur within DNA hypomethylated regions. Altogether, our data suggest that RNA:DNA hybrids may represent a common immunogenic form of nucleic acids in AGS and provide the first evidence of epigenetic perturbations in AGS, furthering the links between AGS and SLE.

Original languageEnglish (US)
Article numbere08007
JournaleLife
Volume4
Issue numberJULY2015
DOIs
StatePublished - Jul 16 2015

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Nucleic Acids
Genes
Genome
RNA
DNA
Fibroblasts
Ribonucleases
Systemic Lupus Erythematosus
Mutation
DNA Methylation
Enzymes
Epigenomics

ASJC Scopus subject areas

  • Neuroscience(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Immunology and Microbiology(all)

Cite this

Genome-wide DNA hypomethylation and RNA:DNA hybrid accumulation in Aicardi–Goutières syndrome. / Lim, Yoong Wearn; Sanz, Lionel A.; Xu, Xiaoqin; Hartono, Stella R.; Chedin, Frederic.

In: eLife, Vol. 4, No. JULY2015, e08007, 16.07.2015.

Research output: Contribution to journalArticle

Lim, Yoong Wearn ; Sanz, Lionel A. ; Xu, Xiaoqin ; Hartono, Stella R. ; Chedin, Frederic. / Genome-wide DNA hypomethylation and RNA:DNA hybrid accumulation in Aicardi–Goutières syndrome. In: eLife. 2015 ; Vol. 4, No. JULY2015.
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