Identification and analysis of adenine N 6-methylation sites in the rice genome

Chao Zhou, Changshi Wang, Hongbo Liu, Qiangwei Zhou, Qian Liu, Yan Guo, Ting Peng, Jiaming Song, Jianwei Zhang, Lingling Chen, Yu Zhao, Zhixiong Zeng, Dao Xiu Zhou

    Research output: Contribution to journalLetterpeer-review

    113 Scopus citations


    DNA N6-methyladenine (6mA) is a non-canonical DNA modification that is present at low levels in different eukaryotes1–8, but its prevalence and genomic function in higher plants are unclear. Using mass spectrometry, immunoprecipitation and validation with analysis of single-molecule real-time sequencing, we observed that about 0.2% of all adenines are 6mA methylated in the rice genome. 6mA occurs most frequently at GAGG motifs and is mapped to about 20% of genes and 14% of transposable elements. In promoters, 6mA marks silent genes, but in bodies correlates with gene activity. 6mA overlaps with 5-methylcytosine (5mC) at CG sites in gene bodies and is complementary to 5mC at CHH sites in transposable elements. We show that OsALKBH1 may be potentially involved in 6mA demethylation in rice. The results suggest that 6mA is complementary to 5mC as an epigenomic mark in rice and reinforce a distinct role for 6mA as a gene expression-associated epigenomic mark in eukaryotes.

    Original languageEnglish (US)
    Pages (from-to)554-563
    Number of pages10
    JournalNature plants
    Issue number8
    StatePublished - Aug 1 2018

    ASJC Scopus subject areas

    • Plant Science


    Dive into the research topics of 'Identification and analysis of adenine N 6-methylation sites in the rice genome'. Together they form a unique fingerprint.

    Cite this