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有读书笔记有附件Relationship between nucleosome positioning and DNA methylation

热2 yonghao616 添加于 2010-6-9 14:47 | 1519 次阅读 | 1 个评论

  •  作 者

    Chodavarapu RK, Feng S, Bernatavichute YV, Chen P-Y, Stroud H, Yu Y, Hetzel JA, Kuo F, Kim J, Cokus SJ, Casero D, Bernal M, Huijser P, Clark AT, Krämer U, Merchant SS, Zhang X, Jacobsen SE, Pellegrini M

  •  摘 要

    Nucleosomes compact and regulate access to DNA in the nucleus, and are composed of approximately 147 bases of DNA wrapped around a histone octamer1, 2. Here we report a genome-wide nucleosome positioning analysis of Arabidopsis thaliana using massively parallel sequencing of mononucleosomes. By combining this data with profiles of DNA methylation at single base resolution, we identified 10-base periodicities in the DNA methylation status of nucleosome-bound DNA and found that nucleosomal DNA was more highly methylated than flanking DNA. These results indicate that nucleosome positioning influences DNA methylation patterning throughout the genome and that DNA methyltransferases preferentially target nucleosome-bound DNA. We also observed similar trends in human nucleosomal DNA, indicating that the relationships between nucleosomes and DNA methyltransferases are conserved. Finally, as has been observed in animals, nucleosomes were highly enriched on exons, and preferentially positioned at intron–exon and exon–intron boundaries. RNA polymerase II (Pol II) was also enriched on exons relative to introns, consistent with the hypothesis that nucleosome positioning regulates Pol II processivity. DNA methylation is also enriched on exons, consistent with the targeting of DNA methylation to nucleosomes, and suggesting a role for DNA methylation in exon definition.

  •  详细资料

    • 文献种类:期刊
    • 期刊名称: Nature
    • 期刊缩写: Nature
    • 期卷页: 2010年
    • ISBN: 0028-0836

  • 相关链接 DOI URL 

  •  附 件

    PDF附件Relationship between nucleosome positioning and DNA methylation 

  •  yonghao616 的文献笔记  订阅

    核小体定位和DNA甲基化之间的联系

    这个研究（拟南芥中）通过微球菌核酸酶将染色质降解为单个核小体的形式，然后用Illumina GAII测序仪对每个核小体上的DNA进行测序，并且和单个核苷酸位点分辨率的DNA甲基化的分布模式进行比较，发现：在核小体上残绕的DNA的甲基化比核小体间隔区的DNA上的甲基化水平更高。这表明在全基因组范围内核小体的位置影响了DNA甲基化的模式，DNA甲基化酶倾向于对核小体上的DNA进行修饰。在人类的染色质上也有这种的规律，表明这是保守的。另外还发现，在基因中，核小体更多地集中在外显子区域，并且倾向于定位在外显子-内含子以及内含子-外显子交界区。不但如此，DNA甲基化和RNA聚合酶也集中在外显子区域。这和另外两种猜测一致，即：核小体定位调控RNA聚合酶的合成活性；DNA甲基化对外显子定界的作用。

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