A guiding role of the Arabidopsis circadian clock in cell differentiation revealed by time-series single-cell RNA sequencing
A guiding role of the Arabidopsis circadian clock in cell differentiation revealed by time-series single-cell RNA sequencing
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DOI：
10.1016/j.celrep.2022.111059
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发表时间：
2022-07-12
期刊：
影响因子：
8.8
通讯作者：
Endo, Motomu
中科院分区：
文献类型：
--
作者：
Torii, Kotaro;Inoue, Keisuke;Endo, Motomu
在多细胞生物体中，昼夜节律和细胞分化的进展是紧密耦合的。然而，由于技术限制，昼夜节律的建立是否调节细胞分化或反之亦然尚未阐明。在这里，我们利用植物细胞的高度细胞命运可塑性，在整个细胞分化过程中进行单细胞RNA测序。通过使用我们开发的方法（PeakMatch）分析在单细胞分辨率下重建的分化过程的实际时间序列，我们发现时钟基因的表达谱在细胞分化之前改变，包括时钟基因LUX ARRYTHMO（LUX）的诱导。ChIP测序分析表明，LUX在早期分化细胞中的诱导直接靶向参与细胞周期进程的基因，以调节细胞分化。这些结果不仅揭示了植物生物钟在细胞分化中的指导作用，而且为单细胞分辨率的时间序列分析提供了一种方法。
Circadian rhythms and progression of cell differentiation are closely coupled in multicellular organisms. How-ever, whether establishment of circadian rhythms regulates cell differentiation or vice versa has not been elucidated due to technical limitations. Here, we exploit high cell fate plasticity of plant cells to perform sin-gle-cell RNA sequencing during the entire process of cell differentiation. By analyzing reconstructed actual time series of the differentiation processes at single-cell resolution using a method we developed (PeakMatch), we find that the expression profile of clock genes is changed prior to cell differentiation, including induction of the clock gene LUX ARRYTHMO (LUX). ChIP sequencing analysis reveals that LUX in-duction in early differentiating cells directly targets genes involved in cell-cycle progression to regulate cell differentiation. Taken together, these results not only reveal a guiding role of the plant circadian clock in cell differentiation but also provide an approach for time-series analysis at single-cell resolution.