Monitoring the three-dimensional motion of chromatin at single molecule resolution

以单分子分辨率监测染色质的三维运动

• 批准号: 10501770
• 负责人: Jing Liu
• 金额: $ 35.17万
• 依托单位: INDIANA UNIV-PURDUE UNIV AT INDIANAPOLIS
• 依托单位国家: 美国
• 财政年份: 2022
• 资助国家: 美国
• 起止时间: 2022-09-20 至 2027-06-30
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10501770
• 关键词: 3-Dimensional; Biological Process; Cell Nucleus; Chromatin; Computer software; DNA; DNA Damage; Data; Data Science; Disease; Epigenetic Process; Etiology; Gene Expression; Gene Expression Profile; Genetic Transcription; Genome; Goals; Interphase; Investigation; Link; Maps; Measures; Mission; Modification; Monitor; Motion; National Institute of General Medical Sciences; Phenotype; Public Health; Reaction; Research; Resolution; Role; Therapeutic Intervention; Three-Dimensional Imaging; Untranslated RNA; chromatin remodeling; chromosomal location; epigenetic regulation; imaging informatics; imaging system; innovation; interdisciplinary approach; mathematical model; nanometer resolution; nanoscale; physical property; single molecule; therapeutic development; tool; transcription factor

PROJECT SUMMARY The notion that the positions of chromosomal loci within the interphase nucleus are not static, but move, is not new. However, the mechanistic role of the chromatin motion is usually underestimated. In fact, the nanoscale motion of chromatin may modulate the interaction of DNA with regulatory molecules, including chromatin effectors, transcription factors and non-coding RNAs, thus impacting the global patterns of gene expression. Unfortunately, experimental evidence supporting an essential role of chromatin motion in these activities is sparse. Thus, it is unclear if changes in chromatin dynamics facilitate these biological processes or are simply consequences. The goal of this project is to quantify the chromatin motion throughout the mammalian nucleus and to explore its mechanistic role in genome functions. To this end, the proposed research combines multidisciplinary approaches to concentrate on the link of chromatin motion with epigenetic regulation, DNA damage, and transcription, with the ultimate goal to understand the causality from epigenetic modification to phenotypic gene expression. The proposed projects are listed as below, Project 1 Map the chromatin motion in 3D with nanometer resolution. We will heavily incorporate the data science approach into our innovative imaging system to optimize the toolbox of measuring the chromatin. The toolbox will include the data-driven 3D imaging system and data science supported image informatics software. Project 2 Investigate the link between chromatin motion and epigenetic modification and transcription. We will explore the reciprocal interactions between chromatin motion and epigenetic modifications as well as transcription, respectively. These experimental investigations can feed proper mathematical models, therefore to formalize the reaction network in chromatin remodeling and gene expression. Results generated from these projects have great potential to reveal fundamental links between chromatin motion and gene expression, which will transform our understanding of disease mechanism and facilitate the development of therapeutic intervention.

项目摘要 染色体基因座中相间核内染色体基因座的位置不是静态的，而是移动的观念不是 新的。但是，通常低估了染色质运动的机械作用。实际上，纳米级 染色质的运动可能调节DNA与调节分子的相互作用，包括染色质 效应子，转录因子和非编码RNA，从而影响基因表达的全局模式。 不幸的是，支持染色质运动在这些活动中的重要作用的实验证据是 疏。因此，尚不清楚染色质动力学的变化是否促进了这些生物学过程还是简单地 结果。 该项目的目的是量化整个哺乳动物核的染色质运动并探索 它在基因组功能中的机械作用。为此，拟议的研究结合了多学科 专注于染色质运动与表观遗传调节，DNA损伤和 转录，其最终目标是了解从表观遗传修饰到表型基因的因果关系 表达。拟议的项目如下所示 项目1用纳米分辨率绘制3D染色质运动。我们将大量合并数据 科学方法对我们的创新成像系统进行了优化测量染色质的工具箱。这 工具箱将包括数据驱动的3D成像系统和数据科学支持的图像信息学软件。 项目2研究染色质运动与表观遗传修饰和转录之间的联系。 我们将探讨染色质运动和表观遗传修饰之间的相互相互作用以及 分别转录。这些实验研究可以为适当的数学模型提供 在染色质重塑和基因表达中形式化反应网络。 这些项目产生的结果有很大的潜力来揭示染色质之间的基本联系 运动和基因表达，这将改变我们对疾病机制的理解并促进 治疗干预的发展。