Statistical mechanics of nucleosome ordering by chromatin-structure-induced two-body interactions.
Statistical mechanics of nucleosome ordering by chromatin-structure-induced two-body interactions.
复制标题
染色质结构诱导的两体相互作用的核小体排序的统计力学。
DOI：
10.1103/physreve.83.050903
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发表时间：
2011-05
期刊：
影响因子：
--
通讯作者：
Morozov AV
中科院分区：
文献类型：
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作者：
Chereji RV;Tolkunov D;Locke G;Morozov AV
核小体（DNA结合的组蛋白八聚体被连接体DNA的延伸分开）的一维阵列折叠成高阶染色质结构，最终构成真核染色体。染色质结构的形成导致连接体长度的10-11个碱基对（bp）离散化，如果核小体的旋转设置（由DNA螺旋扭曲定义）是保守的，那么将核小体包装成规则的染色质纤维的自由能成本较小。我们描述核小体的位置沿纤维使用热力学模型的有限大小的粒子具有内在的组蛋白- dna相互作用和有效的两体电位。我们从核小体位置的高通量图直接推断出一体和二体能量。我们发现，高阶染色质结构有助于解释体外和体内核小体在转录区域的排序，并在建立众所周知的10-11 bp核小体位置的全基因组周期性中起主导作用。
One-dimensional arrays of nucleosomes (DNA-bound histone octamers separated by stretches of linker DNA) fold into higher-order chromatin structures which ultimately make up eukaryotic chromosomes. Chromatin structure formation leads to 10–11 base pair (bp) discretization of linker lengths caused by the smaller free energy cost of packaging nucleosomes into regular chromatin fibers if their rotational setting (defined by the DNA helical twist) is conserved. We describe nucleosome positions along the fiber using a thermodynamic model of finite-size particles with both intrinsic histone-DNA interactions and an effective two-body potential. We infer one- and two-body energies directly from high-throughput maps of nucleosome positions. We show that higher-order chromatin structure helps explains in vitro and in vivo nucleosome ordering in transcribed regions, and plays a leading role in establishing well-known 10–11 bp genome-wide periodicity of nucleosome positions.