Establishment of single-cell transcriptional states during seed germination

生物 拟南芥 发芽 转录因子 电池类型 基因表达 基因 胚胎 细胞 细胞生物学 基因表达调控 拟南芥 抄写(语言学) 转录调控 细胞命运测定 遗传学 植物 语言学 哲学 突变体
作者
Lim Chee Liew,Yue You,Lucas Auroux,Marina Oliva,Marta Peirats‐Llobet,Sophia Ng,Muluneh Tamiru‐Oli,Oliver Berkowitz,Uyen Vu Thuy Hong,Asha Haslem,Tim Stuart,Matthew E. Ritchie,George W. Bassel,Ryan Lister,James Whelan,Quentin Gouil,Mathew G. Lewsey
出处
期刊:Nature plants [Springer Nature]
标识
DOI:10.1038/s41477-024-01771-3
摘要

Abstract Germination involves highly dynamic transcriptional programs as the cells of seeds reactivate and express the functions necessary for establishment in the environment. Individual cell types have distinct roles within the embryo, so must therefore have cell type-specific gene expression and gene regulatory networks. We can better understand how the functions of different cell types are established and contribute to the embryo by determining how cell type-specific transcription begins and changes through germination. Here we describe a temporal analysis of the germinating Arabidopsis thaliana embryo at single-cell resolution. We define the highly dynamic cell type-specific patterns of gene expression and how these relate to changing cellular function as germination progresses. Underlying these are unique gene regulatory networks and transcription factor activity. We unexpectedly discover that most embryo cells transition through the same initial transcriptional state early in germination, even though cell identity has already been established during embryogenesis. Cells later transition to cell type-specific gene expression patterns. Furthermore, our analyses support previous findings that the earliest events leading to the induction of seed germination take place in the vasculature. Overall, our study constitutes a general framework with which to characterize Arabidopsis cell transcriptional states through seed germination, allowing investigation of different genotypes and other plant species whose seed strategies may differ.
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