Conservation and divergence of methylation patterning in plants and animals

DOI Web Site 被引用文献29件
  • Suhua Feng
    Howard Hughes Medical Institute,
  • Shawn J. Cokus
    Department of Molecular, Cell and Developmental Biology, and
  • Xiaoyu Zhang
    Department of Plant Biology, University of Georgia, Athens, GA 30602;
  • Pao-Yang Chen
    Department of Molecular, Cell and Developmental Biology, and
  • Magnolia Bostick
    Department of Molecular, Cell and Developmental Biology, and
  • Mary G. Goll
    Department of Embryology, Carnegie Institution for Science, Baltimore, MD 21218;
  • Jonathan Hetzel
    Department of Molecular, Cell and Developmental Biology, and
  • Jayati Jain
    Department of Embryology, Carnegie Institution for Science, Baltimore, MD 21218;
  • Steven H. Strauss
    Department of Forest Ecosystems and Society, Oregon State University, Corvallis, OR 97331;
  • Marnie E. Halpern
    Department of Embryology, Carnegie Institution for Science, Baltimore, MD 21218;
  • Chinweike Ukomadu
    Division of Gastroenterology, Department of Medicine, Brigham and Women’s Hospital and Harvard Medical School, Boston, MA 02115;
  • Kirsten C. Sadler
    Department of Medicine, Division of Liver Disease and Department of Developmental and Regenerative Biology, Mount Sinai School of Medicine, New York NY 10029; and
  • Sriharsa Pradhan
    New England BioLabs, Ipswich, MA 01938
  • Matteo Pellegrini
    Department of Molecular, Cell and Developmental Biology, and
  • Steven E. Jacobsen
    Howard Hughes Medical Institute,

説明

<jats:p>Cytosine DNA methylation is a heritable epigenetic mark present in many eukaryotic organisms. Although DNA methylation likely has a conserved role in gene silencing, the levels and patterns of DNA methylation appear to vary drastically among different organisms. Here we used shotgun genomic bisulfite sequencing (BS-Seq) to compare DNA methylation in eight diverse plant and animal genomes. We found that patterns of methylation are very similar in flowering plants with methylated cytosines detected in all sequence contexts, whereas CG methylation predominates in animals. Vertebrates have methylation throughout the genome except for CpG islands. Gene body methylation is conserved with clear preference for exons in most organisms. Furthermore, genes appear to be the major target of methylation in Ciona and honey bee. Among the eight organisms, the green alga Chlamydomonas has the most unusual pattern of methylation, having non-CG methylation enriched in exons of genes rather than in repeats and transposons. In addition, the Dnmt1 cofactor Uhrf1 has a conserved function in maintaining CG methylation in both transposons and gene bodies in the mouse, Arabidopsis, and zebrafish genomes.</jats:p>

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