Dynamics as a cause for the nanoscale organization of the genome.

Roman Barth, Genevieve Fourel, Haitham A Shaban
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引用次数: 11

Abstract

Chromatin 'blobs' were recently identified by live super-resolution imaging of labeled nucleosomes as pervasive but fleeting structural entities. However, the mechanisms leading to the formation of these blobs and their functional implications are unknown. We explore here whether causal relationships exist between parameters that characterize the chromatin blob dynamics and structure, by adapting a framework for spatio-temporal Granger-causality inference. Our analysis reveals that chromatin dynamics is a key determinant for both blob area and local density. Such causality, however, could be demonstrated only in 10-20% of the nucleus, suggesting that chromatin dynamics and structure at the nanometer scale are dominated by stochasticity. We show that the theory of active semiflexible polymers can be invoked to provide potential mechanisms leading to the organization of chromatin into blobs. Our results represent a first step toward elucidating the mechanisms that govern the dynamic and stochastic organization of chromatin in the cell nucleus.

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动力学是基因组纳米级组织的原因。
染色质“斑点”最近被标记核小体的实时超分辨率成像鉴定为普遍存在但转瞬即逝的结构实体。然而,导致这些斑点形成的机制及其功能含义尚不清楚。本文通过采用时空格兰杰因果推理的框架,探讨表征染色质团动力学和结构的参数之间是否存在因果关系。我们的分析表明,染色质动力学是斑点面积和局部密度的关键决定因素。然而,这种因果关系只能在10-20%的细胞核中被证明,这表明在纳米尺度上染色质的动力学和结构是由随机性主导的。我们表明,活性半柔性聚合物的理论可以调用,以提供潜在的机制,导致组织成团的染色质。我们的结果代表了向阐明控制细胞核中染色质的动态和随机组织的机制迈出的第一步。
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