剖析大豆胚胎发育从胚胎形态发生到发芽后的时间遗传网络。

IF 5.3 2区 生物学 Q1 PLANT SCIENCES
Yen-Ching Wang, Wei-Hsun Hsieh, Liang-Peng Lin, Meng-Hsun He, Ya-Ting Jhan, Chu-Jun Huang, Junpeng Zhan, Ching-Chun Chang, Tzung-Fu Hsieh, Jer-Young Lin
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引用次数: 0

摘要

关键信息:干燥阶段的转录因子具有相似的功能,早期的转录因子侧重于干燥耐受性,后期的转录因子侧重于发育。大豆和拟南芥管理胚后期发育的基因网络存在差异。为了了解控制种子胚胎发育的基因活动,我们分析了从胚胎形态发生到发芽后的大豆胚胎转录组。整个胚胎发育过程中的转录组图谱显示,转录本高度流行,分为早期组和晚期组,具有共享和不同的功能。在储存储备积累的中期阶段,上调基因富含转录和染色质水平的调控任务,包括DNA甲基化和染色质重塑。与表观遗传相关的功能在萌芽期的上调基因中也占主导地位,涉及核心组蛋白变体和组蛋白伴侣。基因网络分析揭示了特定阶段的模块和活跃于多个阶段的模块。干燥相关基因模块整合了多种转录因子(TFs),它们在不同干燥阶段依次活跃,从早期的非生物胁迫功能过渡到后期的发育功能。我们在拟南芥过表达系中对活跃于早期和中期干燥阶段的两个转录因子进行了功能评估,以发现它们在干燥过程中的潜在作用。有趣的是,在拟南芥干燥过程中,在干燥相关模块中活跃的大豆 TFs 的拟南芥直向同源物有近一半不活跃。我们的研究结果表明,染色质和转录调控在储藏中期储备积累过程中相互协调,而不同的表观遗传机制则驱动着发芽。此外,基因模块要么具有特定阶段的功能,要么在多个阶段都需要,而且大豆和拟南芥在胚胎后期发生过程中的基因网络存在差异。我们的研究为从胚胎形态发生到萌芽后发育的生物过程和基因网络提供了新的信息。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Dissecting the temporal genetic networks programming soybean embryo development from embryonic morphogenesis to post-germination.

Key message: Desiccation-stage transcription factors perform similar functions, with early ones focused on desiccation tolerance and later ones on development. Gene networks governing late embryo development diverge between soybean and Arabidopsis. To understand gene activities programming seed embryo development, we profiled the soybean embryo transcriptome across embryonic morphogenesis through post-germination. Transcriptomic landscapes across embryo development feature highly prevalent transcripts, categorized into early and late groups, with shared and distinct functions. During the mid-storage reserve accumulation stage, the upregulated genes are enriched with regulatory tasks at both the transcriptional and chromatin levels, including DNA methylation and chromatin remodeling. The epigenetic-related functions also dominate in the upregulated genes during germination, involving core histone variants and histone chaperones. Gene network analysis reveals both stage-specific modules and modules active across multiple stages. The desiccation-associated gene module integrates diverse transcription factors (TFs) that are sequentially active during different desiccation stages, transitioning from abiotic stress functions early on to developmental functions later. Two TFs, active during the early and mid-desiccation stages were functionally assessed in Arabidopsis overexpression lines to uncover their potential roles in desiccation processes. Interestingly, nearly half of the Arabidopsis orthologs of soybean TFs active in the desiccation-associated module are inactive during Arabidopsis desiccation. Our results reveal that chromatin and transcriptional regulation coordinate during mid-storage reserve accumulation, while distinct epigenetic mechanisms drive germination. Additionally, gene modules either perform stage-specific functions or are required across multiple stages, and gene networks during late embryogenesis diverge between soybean and Arabidopsis. Our studies provide new information on the biological processes and gene networks underlying development from embryonic morphogenesis to post-germination.

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来源期刊
Plant Cell Reports
Plant Cell Reports 生物-植物科学
CiteScore
10.80
自引率
1.60%
发文量
135
审稿时长
3.2 months
期刊介绍: Plant Cell Reports publishes original, peer-reviewed articles on new advances in all aspects of plant cell science, plant genetics and molecular biology. Papers selected for publication contribute significant new advances to clearly identified technological problems and/or biological questions. The articles will prove relevant beyond the narrow topic of interest to a readership with broad scientific background. The coverage includes such topics as: - genomics and genetics - metabolism - cell biology - abiotic and biotic stress - phytopathology - gene transfer and expression - molecular pharming - systems biology - nanobiotechnology - genome editing - phenomics and synthetic biology The journal also publishes opinion papers, review and focus articles on the latest developments and new advances in research and technology in plant molecular biology and biotechnology.
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