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Relationship between nucleosome positioning and DNA methylation

xianglanxue 添加于 2010-8-18 15:14 | 1811 次阅读 | 0 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
标签

nucleosome positioning
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xianglanxue 的文献笔记订阅

核小体定位和DNA甲基化间的关系

1.识别了核小体-绑定DNA的DNA甲基化状态中的10-碱基的周期性，同时还发现核小体DNA的甲基化程度要高于侧翼DNA

2.在全基因组范围，核小体定位对于DNA甲基化模式是有影响的，DNA甲基转移酶优先靶向核小体-绑定的DNA。我们还观察到人类核小体DNA中的类似的趋势，这表明核小体和DNA甲基转移酶间的关系是保守的。

3.核小体在外显子上高度富集，优先定位在内含子-外显子和外显子-内含子交界处。RNA聚合酶II相对于内含子而言也在外显子上富集，这和核小体定位调控Pol II的持续合成能力（processivity）的假设是一致的。DNA甲基化也在外显子上富集，这和DNA甲基化对于核小体的靶向是一致的，暗示了DNA甲基化在外显子定义上的作用。