A comprehensive catalog of the lysine-acetylation targets in rice (Oryza sativa) based on proteomic analyses
A comprehensive catalog of the lysine-acetylation targets in rice (Oryza sativa) based on proteomic analyses
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基于蛋白质组学分析的水稻赖氨酸乙酰化靶点综合目录
DOI：
10.1016/j.jprot.2016.01.019
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发表时间：
2016-04-14
影响因子：
3.3
通讯作者：
Wang, Guo-Liang
中科院分区：
文献类型：
--
作者：
Xiong, Yehui;Peng, Xiaojun;Wang, Guo-Liang
赖氨酸乙酰化是一种动态的、可逆的翻译后修饰，在基因转录调控中起着重要作用。在这里，我们报告高质量的蛋白质组规模的数据赖氨酸乙酰化（Mac）网站和Mac蛋白在水稻（水稻）。在水稻幼苗中共鉴定出716个Mac蛋白的1337个Kac位点，这些蛋白具有不同的生物学功能和亚细胞定位。预测约42%的位点位于叶绿体中。检测到7个推定的乙酰化基序。位于Kac位点上游和下游的苯丙氨酸是该区域周围最保守的氨基酸。此外，蛋白质相互作用网络分析表明，多种信号通路的蛋白质乙酰化的调节。KEGG途径类别富集分析表明，乙醛酸和二羧酸代谢，碳代谢，光合作用途径显着丰富。我们的研究结果提供了深入了解水稻幼苗中的乙酰组，这里描述的方法将有助于系统研究Kac在水稻和其他植物的生长，发育，非生物和生物胁迫反应中的功能。生物学意义：水稻是最重要的作物消费之一，是研究的模式单子叶植物。在这项研究中，我们结合了高灵敏度的免疫亲和纯化方法（使用泛抗乙酰基赖氨酸抗体结合琼脂糖免疫亲和乙酰化肽富集）与高分辨率的LC-MS/MS。在总数，我们确定了1337 Kac网站716 Mac蛋白在水稻细胞。乙酰化蛋白质组的生物信息学分析表明，乙酰化蛋白质参与多种细胞功能，并具有不同的亚细胞定位。我们还确定了7个推定的乙酰化基序的乙酰化蛋白质的水稻。此外，蛋白质相互作用网络分析表明，蛋白质乙酰化调节了多种信号通路。KEGG途径类别富集分析表明，乙醛酸和二羧酸代谢，碳代谢，光合作用途径显着丰富。据我们所知，我们确定的Kac位点的数量是以前报告的23倍，Kac蛋白的数量是以前报告的16倍。我们的研究结果提供了一个深入了解水稻幼苗中的乙酰组，这里描述的方法将有助于系统研究Mac在水稻或其他植物的生长，发育和响应非生物和生物胁迫中的功能。(C)© 2016 Elsevier B. V.版权所有。
Lysine acetylation is a dynamic and reversible post-translational modification that plays an important role in the gene transcription regulation. Here, we report high quality proteome-scale data for lysine-acetylation (Mac) sites and Mac proteins in rice (Oryza sativa). A total of 1337 Kac sites in 716 Mac proteins with diverse biological functions and subcellular localizations were identified in rice seedlings. About 42% of the sites were predicted to be localized in the chioroplast. Seven putative acetylation motifs were detected. Phenylalanine, located in both the upstream and downstream of the Kac sites, is the most conserved amino acid surrounding the regions. In addition, protein interaction network analysis revealed that a variety of signaling pathways are modulated by protein acetylation. KEGG pathway category enrichment analysis indicated that glyoxylate and dicarboxylate metabolism, carbon metabolism, and photosynthesis pathways are significantly enriched. Our results provide an in-depth understanding of the acetylome in rice seedlings, and the method described here will facilitate the systematic study of how Kac functions in growth, development, and abiotic and biotic stress responses in rice and other plants.Biological significance: Rice is one of the most important crops consumption and is a model monocot for research. In this study, we combined a highly sensitive immune-affinity purification method (used pan anti-acetyl-lysine antibody conjugated agarose for immunoaffinity acetylated peptide enrichment) with high-resolution LC-MS/MS. In total, we identified 1337 Kac sites on 716 Mac proteins in rice cells. Bioinformatic analysis of the acetylome revealed that the acetylated proteins are involved in a variety of cellular functions and have diverse subcellular localizations. We also identified seven putative acetylation motifs in the acetylated proteins of rice. In addition, protein interaction network analysis revealed that a variety of signaling pathways were modulated by protein acetylation. KEGG pathway category enrichment analysis indicated that glyoxylate and dicarboxylate metabolism, carbon metabolism, and photosynthesis pathways were significantly enriched. To our knowledge, the number of Kac sites we identified was 23-times greater and the number of Kac proteins was 16-times greater than in a previous report. Our results provide an in-depth understanding of the acetylome in rice seedlings, and the method described here will facilitate the systematic study of how Mac functions in growth, development and responses to abiotic and biotic stresses in rice or other plants. (C) 2016 Elsevier B.V. All rights reserved.