Embryogenesis represents a critical phase in the life cycle of flowering plants. Here, we characterize transcriptome landscapes associated with key stages of embryogenesis by combining an optimized method for the isolation of developing Arabidopsis embryos with high-throughput RNA-seq. The resulting RNA-seq datasets identify distinct overlapping patterns of gene expression, as well as temporal shifts in gene activity across embryogenesis. Network analysis revealed stage-specific and multi-stage gene expression clusters and biological functions associated with key stages of embryo development. Methylation-related gene expression was associated with early- and middle-stage embryos, initiation of photosynthesis components with the late embryogenesis stage, and storage/energy-related protein activation with late and mature embryos. These results provide a comprehensive understanding of transcriptome programming in Arabidopsis embryogenesis and identify modules of gene expression corresponding to key stages of embryo development. This dataset and analysis are a unique resource to advance functional genetic analysis of embryo development in plants.

中文翻译：

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拟南芥中胚胎发育的基因表达图谱。

胚胎发生是开花植物生命周期中的关键阶段。在这里，我们通过结合优化的拟南芥分离方法来表征与胚胎发生关键阶段相关的转录组景观。具有高通量RNA序列的胚胎。所得的RNA-seq数据集识别出不同的基因表达重叠模式，以及整个胚胎发生过程中基因活性的时间变化。网络分析揭示了阶段特异性和多阶段基因表达簇以及与胚胎发育关键阶段相关的生物学功能。甲基化相关的基因表达与早期和中期胚胎，胚胎后期的光合作用启动以及晚期和成熟胚胎的贮藏/能量相关蛋白活化有关。这些结果提供了对拟南芥中转录组编程的全面理解。胚胎发生并鉴定与胚胎发育关键阶段相对应的基因表达模块。该数据集和分析是推进植物胚胎发育的功能遗传分析的独特资源。