Tamura Keita, Bono Hidemasa
Laboratory of Genome Informatics, Graduate School of Integrated Sciences for Life, Hiroshima University, 3-10-23 Kagamiyama, Higashi-Hiroshima 739-0046, Hiroshima, Japan.
Laboratory of BioDX, Genome Editing Innovation Center, Hiroshima University, 3-10-23 Kagamiyama, Higashi-Hiroshima 739-0046, Hiroshima, Japan.
Life (Basel). 2022 Jul 19;12(7):1079. doi: 10.3390/life12071079.
Hypoxia is an abiotic stress in plants. Flooding resulting from climate change is a major crop threat that increases the risk of hypoxic stress. The molecular mechanisms underlying hypoxia in plants were elucidated in recent years, but new genes related to this stress remain to be discovered. Thus, we aimed to perform a meta-analysis of the RNA sequencing (RNA-Seq) data of Arabidopsis () and rice () under hypoxia. We collected 29 (Arabidopsis) and 26 (rice) pairs of RNA-Seq data involving hypoxic (including submergence) and normoxic (control) treatments and extracted the genes that were commonly upregulated or downregulated in the majority of the experiments. The meta-analysis revealed 40 and 19 commonly upregulated and downregulated genes, respectively, in the two species. Several WRKY transcription factors and cinnamate-4-hydroxylase were commonly upregulated, but their involvement in hypoxia remains unclear. Our meta-analysis identified candidate genes for novel molecular mechanisms in plants under hypoxia.
缺氧是植物面临的一种非生物胁迫。气候变化导致的洪水是主要的作物威胁，增加了缺氧胁迫的风险。近年来，植物缺氧的分子机制已得到阐明，但与这种胁迫相关的新基因仍有待发现。因此，我们旨在对拟南芥和水稻在缺氧条件下的RNA测序（RNA-Seq）数据进行荟萃分析。我们收集了29组（拟南芥）和26组（水稻）涉及缺氧（包括淹水）和常氧（对照）处理的RNA-Seq数据对，并提取了在大多数实验中普遍上调或下调的基因。荟萃分析分别在这两个物种中揭示了40个和19个普遍上调和下调的基因。几个WRKY转录因子和肉桂酸-4-羟化酶普遍上调，但其在缺氧中的作用仍不清楚。我们的荟萃分析确定了植物在缺氧条件下新分子机制的候选基因。
