Reprogramming of Root Cells during Nitrogen-Fixing Symbiosis Involves Dynamic Polysome Association of Coding and Noncoding RNAs
Reprogramming of Root Cells during Nitrogen-Fixing Symbiosis Involves Dynamic Polysome Association of Coding and Noncoding RNAs
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DOI：
10.1105/tpc.19.00647
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发表时间：
2019-11
期刊：
影响因子：
11.6
通讯作者：
Soledad Traubenik;M. Reynoso;K. Hobecker;Marcos Lancia;Maureen Hummel;B. Rosen;C. Town;J. Bailey-Serres;F. Blanco;M. Zanetti
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文献类型：
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作者：
Soledad Traubenik;M. Reynoso;K. Hobecker;Marcos Lancia;Maureen Hummel;B. Rosen;C. Town;J. Bailey-Serres;F. Blanco;M. Zanetti
TRAP-seq 分析强调了翻译控制和 mRNA 衰减对于豆科植物蒺藜苜蓿模型中成功建立固氮共生的重要性。翻译控制是一种广泛的机制，允许细胞快速调节基因表达，从而为真核生物提供灵活性和适应性。我们应用翻译核糖体亲和纯化结合 RNA 测序来表征蒺藜苜蓿和苜蓿中华根瘤菌之间建立的固氮共生早期阶段 mRNA 的翻译调控。我们的分析揭示了转录和翻译变化之间的相关性较差，并鉴定了数百种受调节的蛋白质编码和长非编码RNA (lncRNA)，其中一些在特定细胞类型中受到调节。我们证明了 lncRNA 反式作用小干扰 RNA3 (TAS3) 的短变体增加了其与响应根瘤菌的翻译机制的关联。功能分析表明，TAS3 的这种短变体可能作为捕获 microRNA390 的目标模拟物，有助于减少反式作用的小干扰生长素反应因子的产生并调节根瘤形成和根瘤菌感染。对替代转录物变体的分析发现了编码 SUPERKILLER 复合物 (SKI3) 亚基 3 的翻译上调 mRNA，该亚基参与 mRNA 衰减。 SKI3的敲除减少了结节的发生和发展，以及结节内细菌的存活。我们的结果强调了翻译控制和 mRNA 衰减途径对于成功建立固氮共生的重要性。
TRAP-seq analysis highlights the importance of translational control and mRNA decay for the successful establishment of the nitrogen-fixing symbiosis in the model legume Medicago truncatula. Translational control is a widespread mechanism that allows the cell to rapidly modulate gene expression in order to provide flexibility and adaptability to eukaryotic organisms. We applied translating ribosome affinity purification combined with RNA sequencing to characterize translational regulation of mRNAs at early stages of the nitrogen-fixing symbiosis established between Medicago truncatula and Sinorhizobium meliloti. Our analysis revealed a poor correlation between transcriptional and translational changes and identified hundreds of regulated protein-coding and long noncoding RNAs (lncRNAs), some of which are regulated in specific cell types. We demonstrated that a short variant of the lncRNA Trans-acting small interference RNA3 (TAS3) increased its association to the translational machinery in response to rhizobia. Functional analysis revealed that this short variant of TAS3 might act as a target mimic that captures microRNA390, contributing to reduce trans acting small interference Auxin Response Factor production and modulating nodule formation and rhizobial infection. The analysis of alternative transcript variants identified a translationally upregulated mRNA encoding subunit 3 of the SUPERKILLER complex (SKI3), which participates in mRNA decay. Knockdown of SKI3 decreased nodule initiation and development, as well as the survival of bacteria within nodules. Our results highlight the importance of translational control and mRNA decay pathways for the successful establishment of the nitrogen-fixing symbiosis.