Ahn Hongryul, Jung Inuk, Shin Seon-Ju, Park Jinwoo, Rhee Sungmin, Kim Ju-Kon, Jung Woosuk, Kwon Hawk-Bin, Kim Sun
Department of Computer Science and Engineering, Seoul National UniversitySeoul, South Korea.
Interdisciplinary Program in Bioinformatics, Seoul National UniversitySeoul, South Korea.
Front Plant Sci. 2017 Jun 15;8:1044. doi: 10.3389/fpls.2017.01044. eCollection 2017.
This study was designed to investigate at the molecular level how a transgenic version of rice "Nipponbare" obtained a drought-resistant phenotype. Using multi-omics sequencing data, we compared wild-type rice (WT) and a transgenic version () that had obtained a drought-resistant phenotype by overexpressing , a member of the AP2/ERF transcription factor (TF) family. A comprehensive bioinformatics analysis pipeline, including TF networks and a cascade tree, was developed for the analysis of multi-omics data. The results of the analysis showed that the presence of at the source of the network controlled global gene expression levels in a specific manner to make survive longer than WT. Our analysis of the time-series transcriptome data suggests that diverted more energy to survival-critical mechanisms related to translation, oxidative response, and DNA replication, while further suppressing energy-consuming mechanisms, such as photosynthesis. To support this hypothesis further, we measured the net photosynthesis level under physiological conditions, which confirmed the further suppression of photosynthesis in . In summary, our work presents a comprehensive snapshot of transcriptional modification in transgenic rice and shows how this induced the plants to acquire a drought-resistant phenotype.
本研究旨在从分子水平探究转基因水稻“日本晴”是如何获得抗旱表型的。利用多组学测序数据，我们比较了野生型水稻（WT）和通过过表达AP2/ERF转录因子（TF）家族成员而获得抗旱表型的转基因水稻（）。我们开发了一个综合的生物信息学分析流程，包括TF网络和级联树，用于分析多组学数据。分析结果表明，网络源头处的存在以特定方式控制全局基因表达水平，使得比WT存活时间更长。我们对时间序列转录组数据的分析表明，将更多能量转移到与翻译、氧化反应和DNA复制相关的对生存至关重要的机制上，同时进一步抑制诸如光合作用等耗能机制。为进一步支持这一假设，我们在生理条件下测量了净光合作用水平，这证实了中光合作用的进一步抑制。总之，我们的工作呈现了转基因水稻转录修饰的全面概况，并展示了这是如何诱导植物获得抗旱表型的。
