Transcriptome analysis of Arabidopsis thaliana shoots and roots, exposed to PEG-induced osmotic shock, PEG+Histidine, PEG+SHAM [20190311_172119_Peg_SHAMf1_res]. Transcriptome analysis of Arabidopsis thaliana shoots and roots, exposed to PEG-induced osmotic shock, PEG+Histidine, PEG+SHAM [20190311_172119_Peg_SHAMf1_res]

In order to better understand the context of root water stress and its relationship to other stresses, I undertook an evaluation of osmotic water stress by transcriptome analyses. Whole transcriptome MARSeq (Diego Adhemar Jaitin, 2017) analysis can enable us to study the changes in gene expression (changes in transcript prevalence) in depth under different treatments. It is a cost effective method to develop transcriptional activity. It uses relatively small amounts of RNA and reads sequences from the 3’-polyA containing end. This method can reveal underlying trends that can help us understand the less obvious processes happening in our system. To carry this out I processed whole transcriptome data separately from WT seedling roots exposure to PEG, and from roots under 30% PEG + 5mM HIS, 30% PEG + 1mM SHAM for 0, 1, 2, 3 h. Overall design: WT Arabidopsis thaliana seedlings were exposed to 30% PEG + 5mM HIS, 30% PEG + 1mM SHAM 0, 1, 2, 3 h, and root RNA was extracted sequenced using the MARSeq protocol.

为更深入地理解根系水分胁迫的研究背景及其与其他胁迫的关联，本研究通过转录组分析对渗透水分胁迫开展系统性评估。全转录组MARSeq测序技术（MARSeq，Diego Adhemar Jaitin等，2017）可帮助我们深度解析不同处理条件下基因表达（转录本丰度变化）的动态变化。该方法具备成本效益优势，可用于表征转录组活性特征，仅需微量RNA样本，且仅对带有3’端polyA尾的RNA序列进行测序读取。该方法能够揭示潜在的表达趋势，助力我们解析实验体系中不易被观测到的微观生物学过程。为完成该分析，本研究分别处理了两类样本的全转录组数据：一是暴露于聚乙二醇（PEG）的野生型（Wild Type, WT）拟南芥幼苗根系样本；二是分别经30% PEG + 5mM 组氨酸（HIS）、30% PEG + 1mM 水杨羟肟酸（SHAM）处理0、1、2、3小时的根系样本。整体实验设计如下：将野生型拟南芥（Arabidopsis thaliana）幼苗分别置于30% PEG + 5mM HIS、30% PEG + 1mM SHAM环境中处理0、1、2、3小时，随后提取根系总RNA并采用MARSeq技术完成测序。