Deciphering and Prediction of Transcriptome Dynamics under Fluctuating Field Conditions
Deciphering and Prediction of Transcriptome Dynamics under Fluctuating Field Conditions
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DOI：
10.1016/j.cell.2012.10.048
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发表时间：
2012-12-07
期刊：
影响因子：
64.5
通讯作者：
Izawa, Takeshi
中科院分区：
文献类型：
--
作者：
Nagano, Atsushi J.;Sato, Yutaka;Izawa, Takeshi
在实验室条件下确定基因表达模式的驱动因素比在生物体通常生活的复杂波动环境中更直接。我们收集了稻田中水稻植株叶片的转录组数据以及相应的气象数据，并利用这些数据建立了内源和外部对基因表达影响的统计模型。我们的研究结果表明，转录组动力学主要受内源昼夜节律、环境温度、植物年龄和太阳辐射的控制。这些数据揭示了环境刺激影响转录的昼夜闸门，并指出了昼夜和环境因素对不同代谢基因的相对影响。该模型还预测了温度变化对转录组动力学的影响。我们预计，我们的模型将有助于将实验室积累的知识转化为农业问题，我们破译复杂环境中转录组波动的方法将适用于其他生物体。
Determining the drivers of gene expression patterns is more straightforward in laboratory conditions than in the complex fluctuating environments where organisms typically live. We gathered transcriptome data from the leaves of rice plants in a paddy field along with the corresponding meteorological data and used them to develop statistical models for the endogenous and external influences on gene expression. Our results indicate that the transcriptome dynamics are predominantly governed by endogenous diurnal rhythms, ambient temperature, plant age, and solar radiation. The data revealed diurnal gates for environmental stimuli to influence transcription and pointed to relative influences exerted by circadian and environmental factors on different metabolic genes. The model also generated predictions for the influence of changing temperatures on transcriptome dynamics. We anticipate that our models will help translate the knowledge amassed in laboratories to problems in agriculture and that our approach to deciphering the transcriptome fluctuations in complex environments will be applicable to other organisms.