Systems Biology of Tomato Fruit Development: Combined Transcript, Protein, and Metabolite Analysis of Tomato Transcription Factor (nor, rin) and Ethylene Receptor (Nr) Mutants Reveals Novel Regulatory Interactions
Systems Biology of Tomato Fruit Development: Combined Transcript, Protein, and Metabolite Analysis of Tomato Transcription Factor (nor, rin) and Ethylene Receptor (Nr) Mutants Reveals Novel Regulatory Interactions
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DOI：
10.1104/pp.111.175463
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发表时间：
2011-09-01
期刊：
影响因子：
7.4
通讯作者：
Fernie, Alisdair R.
中科院分区：
文献类型：
--
作者：
Osorio, Sonia;Alba, Rob;Fernie, Alisdair R.
番茄（Solanum lycopersicum）是研究肉质果实发育和成熟的既定模型。番茄成熟受乙烯和转录因子（包括非成熟因子（NOR）和成熟抑制剂（RIN））独立和协同调控。 NOR、RIN 和乙烯受体 Never-ripe (Nr) 的突变可阻断乙烯感知并抑制成熟，已被证明是增进我们对成熟调控发育程序的理解的重要工具。在这项研究中，我们对发育和成熟过程中的nor、rin和Nr在转录组、蛋白质组和代谢组水平上进行了系统分析。代谢谱显着初级代谢代谢物丰度的变化，导致成熟过程中代谢活性降低。结合转录组和蛋白质组数据，揭示了成熟过程中代谢调节的几个方面。首先，在早熟过程中很少观察到转录物表达水平与其相应蛋白质丰度之间的相关性，这表明转录后调控机制在这些阶段发挥着重要作用；然而，这种相关性在后期阶段更大。其次，我们观察到成熟相关转录本与特定代谢物组（例如有机酸、糖和细胞壁相关代谢物）之间存在非常强的相关性，强调了这些代谢途径在果实成熟过程中的重要性。这些结果进一步揭示了番茄成熟过程中多个与乙烯相关的事件，为乙烯介导的成熟调控网络的分子生物学提供了新的见解。
Tomato (Solanum lycopersicum) is an established model to study fleshy fruit development and ripening. Tomato ripening is regulated independently and cooperatively by ethylene and transcription factors, including nonripening (NOR) and ripening-inhibitor (RIN). Mutations of NOR, RIN, and the ethylene receptor Never-ripe (Nr), which block ethylene perception and inhibit ripening, have proven to be great tools for advancing our understanding of the developmental programs regulating ripening. In this study, we present systems analysis of nor, rin, and Nr at the transcriptomic, proteomic, and metabolomic levels during development and ripening. Metabolic profiling marked shifts in the abundance of metabolites of primary metabolism, which lead to decreases in metabolic activity during ripening. When combined with transcriptomic and proteomic data, several aspects of the regulation of metabolism during ripening were revealed. First, correlations between the expression levels of a transcript and the abundance of its corresponding protein were infrequently observed during early ripening, suggesting that posttranscriptional regulatory mechanisms play an important role in these stages; however, this correlation was much greater in later stages. Second, we observed very strong correlation between ripening-associated transcripts and specific metabolite groups, such as organic acids, sugars, and cell wall-related metabolites, underlining the importance of these metabolic pathways during fruit ripening. These results further revealed multiple ethylene-associated events during tomato ripening, providing new insights into the molecular biology of ethylene-mediated ripening regulatory networks.