Alexandr V. Vikhorev, Michael M. Rempel, Oksana O. Polesskaya, Ivan V. Savelev, Max V. Myakishev-Rempel
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引用次数: 0
Abstract
Transposable elements (TEs) constitute a significant portion of eukaryotic
genomes, yet their role in chromatin organization remains poorly understood.
This study investigates the distribution patterns of TEs around chromatin
ligation points (LPs) identified through Micro-C experiments in human cells. We
analyzed the density of various TE families within a 100kb window centered on
LPs, focusing on major families such as Alu and LINE-1 (L1) elements. Our
findings reveal distinct, non-random distribution patterns that differ between
TE families and exhibit consistent strand-specific biases. These patterns were
reproducible across two independent datasets and showed marked differences from
random genomic distributions. Notably, we observed family-specific variations
in TE density near LPs, with some families showing depletion at LPs followed by
periodic fluctuations in density. The consistency of these patterns across TE
families and their orientation relative to chromosome arms suggest a
fundamental relationship between TEs and higher-order chromatin structure. Our
results provide new insights into the potential role of TEs in genome
organization and challenge the notion of TEs as passive genomic components.
This study lays the groundwork for future investigations into the functional
implications of TE distribution in chromatin architecture and gene regulation.
可转座元件(Transposable elements,TEs)在真核基因组中占很大比例,但它们在染色质组织中的作用却鲜为人知。本研究调查了通过人类细胞中的Micro-C实验确定的染色质连接点(LPs)周围TEs的分布模式。我们分析了以 LPs 为中心的 100kb 窗口内各种 TE 家族的密度,重点分析了 Alu 和 LINE-1 (L1) 元件等主要家族。我们的发现揭示了不同 TE 族之间不同的、非随机的分布模式,并表现出一致的链特异性偏倚。这些模式在两个独立的数据集上都可以重现,并显示出与随机基因组分布的明显差异。值得注意的是,我们观察到了LPs附近TE密度的家族特异性变化,一些家族在LPs处显示出耗竭,随后密度出现周期性波动。这些模式在TE家族间的一致性以及它们相对于染色体臂的取向表明,TE与高阶染色质结构之间存在基本关系。我们的研究结果为TEs在基因组组织中的潜在作用提供了新的见解,并对TEs作为被动基因组元件的概念提出了挑战。这项研究为今后研究TE在染色质结构和基因调控中的分布的功能含义奠定了基础。