Integrated Transcriptomics, Proteomics, and Metabolomics Analyses To Survey Ozone Responses in the Leaves of Rice Seedling

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• 作者：Kyoungwon Cho ; Junko Shibato ; Ganesh Kumar Agrawal ; Young-Ho Jung ; Akihiro Kubo ; Nam-Soo Jwa ; Shigeru Tamogami ; Kouji Satoh ; Shoshi Kikuchi ; Tetsuji Higashi ; Shinzo Kimura ; Hikaru Saji ; Yoshihide Tana
• 刊名：Journal of Proteome Research
• 出版年：2008
• 出版时间：July 2008
• 年：2008
• 卷：7
• 期：7
• 页码：2980 - 2998
• 全文大小：11930K
• 年卷期：v.7,no.7(July 2008)
• ISSN：1535-3907

文摘

Ozone (O₃), a serious air pollutant, is known to significantly reduce photosynthesis, growth, and yield and to cause foliar injury and senescence. Here, integrated transcriptomics, proteomics, and metabolomics approaches were applied to investigate the molecular responses of O₃ in the leaves of 2-week-old rice (cv. Nipponbare) seedlings exposed to 0.2 ppm O₃ for a period of 24 h. On the basis of the morphological alteration of O₃-exposed rice leaves, transcript profiling of rice genes was performed in leaves exposed for 1, 12, and 24 h using rice DNA microarray chip. A total of 1535 nonredundant genes showed altered expression of more than 5-fold over the control, representing 8 main functional categories. Genes involved in information storage and processing (10%) and cellular processing and signaling categories (24%) were highly represented within 1 h of O₃ treatment; transcriptional factor and signal transduction, respectively, were the main subcategories. Genes categorized into information storage and processing (17, 23%), cellular processing and signaling (20, 16%) and metabolism (18, 19%) were mainly regulated at 12 and 24 h; their main subcategories were ribosomal protein, post-translational modification, and signal transduction and secondary metabolites biosynthesis, respectively. Two-dimensional gel electrophoresis-based proteomics analyses in combination with tandem mass spectrometer identified 23 differentially expressed protein spots (21 nonredundant proteins) in leaves exposed to O₃ for 24 h compared to respective control. Identified proteins were found to be involved in cellular processing and signaling (32%), photosynthesis (19%), and defense (14%). Capillary electrophoresis-mass spectrometry-based metabolomic profiling revealed accumulation of amino acids, gamma-aminobutyric acid, and glutathione in O₃ exposed leaves until 24 h over control. This systematic survey showed that O₃ triggers a chain reaction of altered gene, protein and metabolite expressions involved in multiple cellular processes in rice.