The Arabidopsis Framework Model version 2 predicts the organism-level effects of circadian clock gene mis-regulation
The Arabidopsis Framework Model version 2 predicts the organism-level effects of circadian clock gene mis-regulation
复制标题
拟南芥框架模型版本 2 预测生物钟基因失调的生物体水平影响
DOI：
10.1101/105437
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发表时间：
2017
期刊：
影响因子：
--
通讯作者：
Chew Y
中科院分区：
文献类型：
--
作者：
Chew Y
从基因型定量预测多细胞生物的表型具有挑战性，因为遗传效应必须跨越尺度传播。生物钟是细胞内调节器，控制时间基因表达模式，从而控制代谢，生理和行为。在这里，我们解释和预测典型表型的昼夜节律的时间在一个多细胞，模式生物。我们使用不同的代谢和生理数据，联合收割机和扩展的数学模型的节奏基因表达，光周期依赖开花，伸长生长和淀粉代谢的营养生长ofArabidopsis thaliana的框架模型，共享模型和数据文件中的结构化，公共资源。校准模型预测在标准实验室条件下改变的昼夜节律对时钟突变植物中每个特定表型的影响。如前所述，储存淀粉的夜间代谢改变是全株生物量减少的主要原因。苹果酸和富马酸的二级储存的动员也被错误调节，这是任何剩余生物量缺陷的原因。测试的三个候选机制不能解释这种有机酸积累。我们的研究结果通过特定的过程将基因型与更高层次的表型联系起来，使我们在整个生物体水平上对微妙的多效性综合征的理解正式化，并验证了从细胞内回路开始理解复杂性状的系统方法。
Predicting a multicellular organism’s phenotype quantitatively from its genotype is challenging, as genetic effects must propagate across scales. Circadian clocks are intracellular regulators that control temporal gene expression patterns and hence metabolism, physiology and behaviour. Here we explain and predict canonical phenotypes of circadian timing in a multicellular, model organism. We used diverse metabolic and physiological data to combine and extend mathematical models of rhythmic gene expression, photoperiod-dependent flowering, elongation growth and starch metabolism within a Framework Model for the vegetative growth ofArabidopsis thaliana, sharing the model and data files in a structured, public resource. The calibrated model predicted the effect of altered circadian timing upon each particular phenotype in clock-mutant plants under standard laboratory conditions. Altered night-time metabolism of stored starch accounted for most of the decrease in whole-plant biomass, as previously proposed. Mobilization of a secondary store of malate and fumarate was also mis-regulated, accounting for any remaining biomass defect. The three candidate mechanisms tested did not explain this organic acid accumulation. Our results link genotype through specific processes to higher-level phenotypes, formalizing our understanding of a subtle, pleiotropic syndrome at the whole-organism level, and validating the systems approach to understand complex traits starting from intracellular circuits.
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对苹果酸和富马酸水平高度降低的拟南芥的分析揭示了这些有机酸作为储存碳分子的作用1[W]
影响因子：
7.4
作者：
Martina B. Zell;Holger Fahnenstich;Alexander Maier;M. Saigo;E. Voznesenskaya;G. Edwards;C. Andreo;F. Schleifenbaum;C. Zell;M. Drincovich;V. Maurino
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影响因子：
18
作者：
N. Pullen;Naichao Zhang;Albor Dobon Alonso;S. Penfield
通讯作者：
S. Penfield
影响因子：
7.4
作者：
Cheung, C. Y. Maurice;Ratcliffe, R. George;Sweetlove, Lee J.
通讯作者：
Sweetlove, Lee J.
影响因子：
7.3
作者：
Mengin, Virginie;Pyl, Eva-Theresa;Stitt, Mark
通讯作者：
Stitt, Mark
影响因子：
4.9
作者：
Niwa, Yusuke;Yamashino, Takafumi;Mizuno, Takeshi
通讯作者：
Mizuno, Takeshi