A multi-model Framework for the Arabidopsis life cycle
A multi-model Framework for the Arabidopsis life cycle
复制标题
拟南芥生命周期的多模型框架
DOI：
10.1101/358408
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发表时间：
2018
期刊：
影响因子：
--
通讯作者：
Zardilis A
中科院分区：
文献类型：
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作者：
Zardilis A
将我们对不同尺度的生物过程的理解联系起来是生物学中的一个重大概念挑战，并且由于研究方法的差异而加剧。建模可以是巩固我们对传统研究领域的理解的有用方法。实验室模式物种拟南芥被广泛用于研究植物生长过程，最近也在生态生理学和群体遗传学中进行了测试。然而，从作物建模的方法，可能会连接这些领域很少适用于拟南芥。在这里，我们结合联合收割机植物生长模型与物候模型的生理生态学，使用基于代理的建模语言Chromar。我们介绍了一个更简单的拟南芥营养生长框架模型FM-lite。通过将该模型扩展到包括花序和果实生长以及种子休眠，我们提出了一个全生命周期的多模型FM-life，它允许我们在种群水平上模拟各种基因型×环境情景。环境对植物生长的影响区分与先前描述的拟南芥物候兼容的模拟生活史策略。我们的研究结果模拟繁殖成功，是建立在广泛的生理过程熟悉的作物模型，并建议在未来直接模拟进化的方法。
Linking our understanding of biological processes at different scales is a major conceptual challenge in biology and aggravated by differences in research methods. Modelling can be a useful approach to consolidating our understanding across traditional research domains. The laboratory model species Arabidopsis is very widely used to study plant growth processes and has also been tested more recently in ecophysiology and population genetics. However, approaches from crop modelling that might link these domains are rarely applied to Arabidopsis. Here, we combine plant growth models with phenology models from ecophysiology, using the agent-based modelling language Chromar. We introduce a simpler Framework Model of vegetative growth for Arabidopsis, FM-lite. By extending this model to include inflorescence and fruit growth and seed dormancy, we present a whole-life-cycle, multi-model FM-life, which allows us to simulate at the population level in various genotype × environment scenarios. Environmental effects on plant growth distinguish between the simulated life history strategies that were compatible with previously described Arabidopsis phenology. Our results simulate reproductive success that is founded on the broad range of physiological processes familiar from crop models and suggest an approach to simulating evolution directly in future.