Single-cell transcriptome atlas of the leaf and root of rice seedlings
Single-cell transcriptome atlas of the leaf and root of rice seedlings
复制标题
水稻幼苗叶和根的单细胞转录组图谱
DOI：
10.1016/j.jgg.2021.06.001
复制
发表时间：
2021-10-20
影响因子：
5.9
通讯作者：
Qian, Wenfeng
中科院分区：
文献类型：
--
作者：
Wang, Yu;Huan, Qing;Qian, Wenfeng
水稻作为一种多细胞生物，依靠不同功能细胞间基因表达的多样性来进行遗传转化。然而，细胞分辨率的转录组特征尚未得到充分认识，更不用说对环境刺激的细胞特异性转录反应了。在这项研究中，我们将单细胞RNA测序应用于生长在Kimura B营养液中或暴露于各种非生物胁迫下的水稻幼苗的茎和根，并对总共237，431个单个细胞的转录组进行表征。我们确定了15和9细胞类型的叶和根，分别观察到，共同的转录组功能之间的叶和根在同一组织层，除了内皮或表皮。非生物胁迫刺激主要以细胞类型特异性的方式改变基因表达，但是对于给定的细胞类型，不同的胁迫通常触发大致相同的基因组的转录调控。此外，我们检测细胞群体响应非生物胁迫的比例变化，并通过单细胞重建发育轨迹来研究潜在的分子机制。总的来说，我们的研究代表了水稻幼苗单细胞转录组图谱的基准设定数据资源，并说明了利用这些资源来推动植物生物学的发现。版权所有（C）2021，作者。中国科学院遗传与发育生物学研究所、中国遗传学会。由Elsevier Limited和Science Press出版。
As a multicellular organism, rice flourishes relying on gene expression diversity among cells of various functions. However, cellular-resolution transcriptome features are yet to be fully recognized, let alone cell-specific transcriptional responses to environmental stimuli. In this study, we apply single-cell RNA sequencing to both shoot and root of rice seedlings growing in Kimura B nutrient solution or exposed to various abiotic stresses and characterize transcriptomes for a total of 237,431 individual cells. We identify 15 and 9 cell types in the leaf and root, respectively, and observe that common transcriptome features are often shared between leaves and roots in the same tissue layer, except for endodermis or epidermis. Abiotic stress stimuli alter gene expression largely in a cell type-specific manner, but for a given cell type, different stresses often trigger transcriptional regulation of roughly the same set of genes. Besides, we detect proportional changes in cell populations in response to abiotic stress and investigate the underlying molecular mechanisms through single-cell reconstruction of the developmental trajectory. Collectively, our study represents a benchmark-setting data resource of single-cell transcriptome atlas for rice seedlings and an illustration of exploiting such resources to drive discoveries in plant biology. Copyright (C) 2021, The Authors. Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, and Genetics Society of China. Published by Elsevier Limited and Science Press.