Analysis of target sequences of DDM1s in Brassica rapa by MSAP

Taku Sasaki, Ryo Fujimoto, Sachie Kishitani, Takeshi Nishio

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    17 Citations (Scopus)


    DNA methylation is an important epigenetic modification regulating gene expression and transposon silencing. Although epigenetic regulation is involved in some agricultural traits, there has been relatively little research on epigenetic modifications of genes in Brassica rapa, which includes many important vegetables. In B. rapa, orthologs of DDM1, a chromatin remodeling factor required for maintenance of DNA methylation, have been characterized and DNA hypomethylated knock-down plants by RNAi (ddm1-RNAi plants) have been generated. In this study, we investigated differences of DNA methylation status at the genome-wide level between a wild-type (WT) plant and a ddm1-RNAi plant by methylation-sensitive amplification polymorphism (MSAP) analysis. MSAP analysis detected changes of DNA methylation of many repetitive sequences in the ddm1-RNAi plant. Search for body methylated regions in the WT plant revealed no difference in gene body methylation levels between the WT plant and the ddm1-RNAi plant. These results indicate that repetitive sequences are preferentially methylated by DDM1 genes in B. rapa.

    Original languageEnglish
    Pages (from-to)81-88
    Number of pages8
    JournalPlant Cell Reports
    Issue number1
    Publication statusPublished - 2011 Jan


    • Brassica rapa
    • DNA methylation
    • MSAP
    • Repetitive sequence

    ASJC Scopus subject areas

    • Agronomy and Crop Science
    • Plant Science


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