Arabidopsis transcriptome analysis under drought, cold, high-salinity and ABA treatment conditions using a tiling array
Arabidopsis transcriptome analysis under drought, cold, high-salinity and ABA treatment conditions using a tiling array
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DOI：
10.1093/pcp/pcn101
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发表时间：
2008-08-01
影响因子：
4.9
通讯作者：
Seki, Motoaki
中科院分区：
文献类型：
--
作者：
Matsui, Akihiro;Ishida, Junko;Seki, Motoaki
植物对干旱、寒冷和高盐胁迫的反应和适应是为了生存。本研究利用拟南芥Affyesthetictiling芯片研究了干旱、低温、高盐和阿坝处理条件下拟南芥全基因组转录组的变化。使用平铺阵列数据的生物信息学分析表明，在拟南芥基因组的未注释的基因间区域中存在7，719个非AGI转录单位（TU）。这些包括分别由胁迫或阿坝处理诱导和下调的1，275和181个TU。大多数非AGI TU是假设的非蛋白质编码RNA。大约80个非AGI TU属于完全重叠的正义-反义转录物（fSAT）对。在AGI编码/非AGI TU的SAT中观察到正义TU的表达比率（处理/未处理）与反义TU的比率之间的显著线性相关。我们研究了胁迫或ABA诱导的反义RNA的生物发生机制，发现正义TU的表达是胁迫或ABA诱导的反义TU在fSAT中表达所必需的（AGI编码/非AGI TU）。
Plants respond and adapt to drought, cold and high-salinity stresses in order to survive. In this study, we applied Arabidopsis Affymetrix tiling arrays to study the whole genome transcriptome under drought, cold, high-salinity and ABA treatment conditions. The bioinformatic analysis using the tiling array data showed that 7,719 non-AGI transcriptional units (TUs) exist in the unannotated intergenic regions of Arabidopsis genome. These include 1,275 and 181 TUs that are induced and downregulated, respectively, by the stress or ABA treatments. Most of the non-AGI TUs are hypothetical non-protein-coding RNAs. About 80 of the non-AGI TUs belong to pairs of the fully overlapping sense-antisense transcripts (fSATs). Significant linear correlation between the expression ratios (treated/untreated) of the sense TUs and the ratios of the antisense TUs was observed in the SATs of AGI code/non-AGI TU. We studied the biogenesis mechanisms of the stress- or ABA-inducible antisense RNAs and found that the expression of sense TUs is necessary for the stress- or ABA-inducible expression of the antisense TUs in the fSATs (AGI code/non-AGI TU).