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首页> 外文期刊>Proceedings of the National Academy of Sciences of the United States of America >Nucleosome positioning by genomic excluding-energy barriers
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Nucleosome positioning by genomic excluding-energy barriers

机译：通过排除能量障碍的基因组定位核小体

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摘要

Recent genome-wide nucleosome mappings along with bioinfor-matics studies have confirmed that the DNA sequence plays a more important role in the collective organization of nucleosomes in vivo than previously thought. Yet in living cells, this organization also results from the action of various external factors like DNA-binding proteins and chromatin remodelers. To decipher the code for intrinsic chromatin organization, there is thus a need for in vitro experiments to bridge the gap between computational models of nucleosome sequence preferences and in vivo nucleosome occupancy data. Here we combine atomic force microscopy in liquid and theoretical modeling to demonstrate that a major sequence signaling in vivo are high-energy barriers that locally inhibit nucleosome formation rather than favorable positioning motifs. We show that these genomic excluding-energy barriers condition the collective assembly of neighboring nucleosomes consistently with equilibrium statistical ordering principles. The analysis of two gene promoter regions in Saccharomyces cerevisiae and the human genome indicates that these genomic barriers direct the intrinsic nucleosome occupancy of regulatory sites, thereby contributing to gene expression regulation.
机译：最近的全基因组核小体定位图以及生物信息学研究已经证实，DNA序列在体内核小体的集体组织中起着比以前认为的重要的作用。然而，在活细胞中，这种组织也来自各种外部因素（例如DNA结合蛋白和染色质重塑剂）的作用。为了解密固有染色质组织的代码，因此需要进行体外实验，以弥合核小体序列偏好计算模型与体内核小体占用数据之间的差距。在这里，我们结合液体和理论模型中的原子力显微镜来证明体内的主要序列信号是局部抑制核小体形成而不是有利的定位基序的高能屏障。我们表明，这些基因组的排除能量障碍条件一致地平衡平衡的有序原则的相邻核小体的集体大会。对酿酒酵母和人类基因组中两个基因启动子区域的分析表明，这些基因组壁垒指导调控位点的固有核小体占据，从而有助于基因表达调控。

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  • 作者

    Pascale Milani; Guillaume Chevereau; Cedric Vaillant; Benjamin Audit; Zofia Haftek-Terreau; Monique Marilley; Philippe Bouvet; Francoise Argoul; Alain Arneodo;

  • 作者单位

    Universite Claude Bernard Lyon 1, Universite de Lyon, F-69000 Lyon, France Laboratoire Joliot-Curie, Centre National de la Recherche Scientifique/Ecole Normale Superieure de Lyon, F-69007 Lyon, France Laboratoire de Physique, Centre National de la Recherche Scientifique/Ecole Normale Superieure de Lyon, F-69007 Lyon, France;

    Universite Claude Bernard Lyon 1, Universite de Lyon, F-69000 Lyon, France Laboratoire Joliot-Curie, Centre National de la Recherche Scientifique/Ecole Normale Superieure de Lyon, F-69007 Lyon, France Laboratoire de Physique, Centre National de la Recherche Scientifique/Ecole Normale Superieure de Lyon, F-69007 Lyon, France;

    Universite Claude Bernard Lyon 1, Universite de Lyon, F-69000 Lyon, France Laboratoire Joliot-Curie, Centre National de la Recherche Scientifique/Ecole Normale Superieure de Lyon, F-69007 Lyon, France Laboratoire de Physique, Centre National de la Recherche Scientifique/Ecole Normale Superieure de Lyon, F-69007 Lyon, France;

    Universite Claude Bernard Lyon 1, Universite de Lyon, F-69000 Lyon, France Laboratoire Joliot-Curie, Centre National de la Recherche Scientifique/Ecole Normale Superieure de Lyon, F-69007 Lyon, France Laboratoire de Physique, Centre National de la Recherche Scientifique/Ecole Normale Superieure de Lyon, F-69007 Lyon, France;

    Universite Claude Bernard Lyon 1, Universite de Lyon, F-69000 Lyon, France Laboratoire Joliot-Curie, Centre National de la Recherche Scientifique/Ecole Normale Superieure de Lyon, F-69007 Lyon, France;

    Universite Claude Bernard Lyon 1, Universite de Lyon, F-69000 Lyon, France Laboratoire Joliot-Curie, Centre National de la Recherche Scientifique/Ecole Normale Superieure de Lyon, F-69007 Lyon, France;

    Universite Claude Bernard Lyon 1, Universite de Lyon, F-69000 Lyon, France Laboratoire Joliot-Curie, Centre National de la Recherche Scientifique/Ecole Normale Superieure de Lyon, F-69007 Lyon, France Laboratoire de Biologie Moleculaire de la Cellule, Centre National de la Recherche Scientifique/Ecole Normale Superieure de Lyon, F-69007 Lyon, France;

    Universite Claude Bernard Lyon 1, Universite de Lyon, F-69000 Lyon, France Laboratoire Joliot-Curie, Centre National de la Recherche Scientifique/Ecole Normale Superieure de Lyon, F-69007 Lyon, France Laboratoire de Physique, Centre National de la Recherche Scientifique/Ecole Normale Superieure de Lyon, F-69007 Lyon, France;

    Universite Claude Bernard Lyon 1, Universite de Lyon, F-69000 Lyon, France Laboratoire Joliot-Curie, Centre National de la Recherche Scientifique/Ecole Normale Superieure de Lyon, F-69007 Lyon, France Laboratoire de Physique, Centre National de la Recherche Scientifique/Ecole Normale Superieure de Lyon, F-69007 Lyon, France;

  • 收录信息 美国《科学引文索引》(SCI);美国《生物学医学文摘》(MEDLINE);美国《化学文摘》(CA);
  • 原文格式 PDF
  • 正文语种 eng
  • 中图分类
  • 关键词

    nucleosome statistical ordering; chromatin-mediated gene regulation; physical modeling; atomic force microscopy;

    机译：核小体统计排序;染色质介导的基因调控;物理模型;原子力显微镜;

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