Transcriptome Sequencing and iTRAQ of Different Rice Cultivars Provide Insight into Molecular Mechanisms of Cold-Tolerance Response in Japonica Rice
Transcriptome Sequencing and iTRAQ of Different Rice Cultivars Provide Insight into Molecular Mechanisms of Cold-Tolerance Response in Japonica Rice
复制标题
不同水稻品种的转录组测序和iTRAQ为研究粳稻耐冷响应的分子机制提供了新的视角
DOI：
10.1186/s12284-020-00401-8
复制
发表时间：
2020-06-22
期刊：
影响因子：
5.5
通讯作者：
Zhao, Hongwei
中科院分区：
文献类型：
--
作者：
Jia, Yan;Liu, Hualong;Zhao, Hongwei
背景水稻（Oryza sativaL.）是热带和温带地区种植的最重要的作物之一。然而，它对冷应激高度敏感，寒冷应激限制了它的氮素吸收和代谢。为了确定与耐冷性相关的基因和途径，特别是氮代谢途径中的基因和途径，我们比较了耐冷品种东农428（DN）和冷敏感品种松粳10（SJ）之间的基因和蛋白质表达差异。结果 使用同量异位标签进行相对或绝对定量 (iTRAQ) 和高通量 mRNA 测序 (RNA-seq) 技术，我们鉴定了 DN 中的 5549 个基因和 450 个蛋白质，以及 SJ 中的 6145 个基因和 790 个蛋白质，这些基因和蛋白质在低水温 (T-w) 处理期间存在差异表达。共有354个转录因子（TF）基因（212个下调，142个上调）和366个TF基因（220个下调，146个上调），包括47个基因家族，分别在对照DN（CKDN）与低T-w下DN（D15DN）和对照下SJ（CKSJ）与低T（w）D15SJ下SJ中差异表达。与水稻寒冷相关生物合成途径相关的基因，特别是丝裂原激活蛋白激酶（MAPK）信号、玉米素生物合成和植物激素信号转导途径，在两个水稻品种中表达显着差异。与水稻冷相关生物合成途径相关的差异表达蛋白（DEP），特别是谷胱甘肽代谢，在两个水稻品种中表达显着差异。氮代谢途径的转录组和蛋白质组分析表明，参与γ-氨基丁酸（GABA）和谷氨酰胺合成的主要基因和蛋白质在冷胁迫下下调。结论 生殖生长过程中的冷应激条件导致冷应激生物合成途径相关基因和蛋白在DN和SJ中表达显着差异。本研究证实了已知的冷应激相关基因，并鉴定了新的假定的冷反应基因。我们还发现冷应激下的翻译调控在耐冷 DN 中发挥着重要作用。低T(w)处理影响了水稻的氮素吸收和氮素代谢，并促进了冷敏感型SJ的谷氨酸代谢和鸟氨酸和脯氨酸的合成。
Background Rice (Oryza sativaL.) is one of the most important crops cultivated in both tropical and temperate regions. However, it has a high sensitivity to cold stress and chilling stress limits its nitrogen uptake and metabolism. To identify the genes and pathways involved in cold tolerance, specifically within nitrogen metabolism pathways, we compared gene and protein expression differences between a cold-tolerant cultivar, Dongnong428 (DN), and a cold-sensitive cultivar, Songjing10 (SJ). Results Using isobaric tags for relative or absolute quantification (iTRAQ) with high-throughput mRNA sequencing (RNA-seq) techniques, we identified 5549 genes and 450 proteins in DN and 6145 genes and 790 proteins in SJ, which were differentially expressed during low water temperature (T-w) treatments. There were 354 transcription factor (TF) genes (212 downregulated, 142 upregulated) and 366 TF genes (220 downregulated, 146 upregulated), including 47 gene families, differentially expressed in DN under control (CKDN) vs. DN under low-T-w(D15DN) and SJ under control (CKSJ) vs. SJ under low-T(w)D15SJ, respectively. Genes associated with rice cold-related biosynthesis pathways, particularly the mitogen-activated protein kinase (MAPK) signaling, zeatin biosynthesis, and plant hormone signal transduction pathways, were significantly differentially expressed in both rice cultivars. Differentially expressed proteins (DEPs) associated with rice cold-related biosynthesis pathways, and particularly glutathione metabolism, were significantly differentially expressed in both rice cultivars. Transcriptome and proteome analysis of the nitrogen metabolism pathways showed that major genes and proteins that participated in gamma-aminobutyric acid (GABA) and glutamine synthesis were downregulated under cold stress. Conclusion Cold stress conditions during reproductive growth, resulted in genes and proteins related to cold stress biosynthesis pathways being significantly differentially expressed in DN and SJ. The present study confirmed the known cold stress-associated genes and identified new putative cold-responsive genes. We also found that translational regulation under cold stress plays an important role in cold-tolerant DN. Low-T(w)treatments affected N uptake and N metabolism in rice, as well as promoted Glu metabolism and the synthesis of ornithine and proline in cold-sensitive SJ.