The R-Loop Atlas of Arabidopsis Development and Responses to Environmental Stimuli[OPEN]
The R-Loop Atlas of Arabidopsis Development and Responses to Environmental Stimuli[OPEN]
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拟南芥发育和对环境刺激的反应的 R 环图谱[打开]
DOI：
10.1105/tpc.19.00802
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发表时间：
2020
期刊：
影响因子：
11.6
通讯作者：
Qianwen Sun
中科院分区：
文献类型：
--
作者：
Wei Xu;Kuan Li;Shuai Li;Quancan Hou;Yushun Zhang;Kunpeng Liu;Qianwen Sun
这项研究提供了拟南芥中 R 环在发育和应激反应过程中的概况，并为未来研究 R 环的多种功能奠定了基础。 R 环是一种常见的染色质特征，在多种细胞过程和疾病中具有重要功能。然而，人们对特定生物体中 R 环的动态模式知之甚少。在这里，使用我们最近开发的全基因组 R 环分析方法，我们生成了一个全面的图谱，量化了 53 个样本中拟南芥 (Arabidopsis thaliana) 在发育过程中和对环境刺激的反应过程中的 R 环模式。 R环模式在处于营养阶段的植物中相当稳定，并且对不同的光谱和其他环境刺激有反应。值得注意的是，R 环在植物生命周期中表现出更替，并且模式在世代之间切换。重要的是，R 环动力学与 RNA 丰度没有很强的相关性，这表明调节 R 环形成和 RNA 积累的机制是独立的。我们还观察到转录因子结合区域中 R 环的富集，表明 R 环可以作为潜在的顺式转录调节因子。本研究概述了拟南芥在发育和胁迫反应过程中的R环动态，强调了开花植物拟南芥中R环的独特动态，并为阐明R环的功能奠定了基础。
This study provides the landscape of R-loops in Arabidopsis during development and stress responses and lays the groundwork for future investigation of the diverse functions of R-loops. R-loops are a common chromatin feature with essential functions in multiple cellular processes and diseases. However, little is known about the dynamic patterns of R-loops in a given organism. Here, using our recently developed genome-wide R-loop profiling method, we generated a comprehensive atlas quantifying the R-loop patterns of Arabidopsis (Arabidopsis thaliana) in 53 samples during development and during responses to environmental stimuli. The R-loop patterns were fairly stable in plants at the vegetative stage and in response to different light spectra and other environmental stimuli. Notably, the R-loops showed turnover during the plant life cycle, with patterns switching between generations. Importantly, R-loop dynamics was not strongly associated with RNA abundance, indicating that the mechanisms regulating R-loop formation and RNA accumulation are independent. We also observed enrichment of R-loops in transcription factor binding regions, suggesting that R-loops could function as potential cis-transcriptional regulators. This study provides an overview of R-loop dynamics in Arabidopsis during development and stress responses, highlights the unique dynamics of R-loops in the flowering plant Arabidopsis, and lays the groundwork for elucidating the functions of R-loops.