A gene regulatory network model for cell-fate determination during Arabidopsis thalianal flower development that is robust and recovers experimental gene expression profiles
A gene regulatory network model for cell-fate determination during Arabidopsis thalianal flower development that is robust and recovers experimental gene expression profiles
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DOI：
10.1105/tpc.104.021725
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发表时间：
2004-11-01
期刊：
影响因子：
11.6
通讯作者：
Alvarez-Buylla, ER
中科院分区：
文献类型：
--
作者：
Espinosa-soto, C;Padilla-Longoria, P;Alvarez-Buylla, ER
花是复杂结构发育研究中的标志。250，000种被子植物中的绝大多数都具有在中心具有萼片、花瓣、雄蕊和心皮的保守的器官平面的花。所谓ABC同源异型花基因活性的组合模型指导了拟南芥和许多其他植物物种的广泛实验研究。然而，一个机械和动力学的解释ABC模型和开花植物之间的流行是缺乏的。在这里，我们提出了一个简单的离散模型，假定逻辑规则，正式总结发表的ABC和非ABC基因相互作用的数据拟南芥花器官细胞的命运决定，并将这些数据集成到一个动态的网络模型。该模型表明，所有可能的初始条件收敛到几个稳定的基因活性状态，与野生型和突变体植物的原始花器官细胞中实验观察到的基因表达谱相匹配。因此，这里提出的网络为ABC模型提供了一个动力学解释，并表明精确的信号传导通路不需要将细胞类型限制在拟南芥中，而是由整体基因网络动力学决定的。此外，我们进行了鲁棒性分析，清楚地表明，恢复的细胞类型取决于网络架构，而不是模型的基因相互作用参数的特定值。这些结果支持了这样一个网络构成一个发育模块的假设，并因此提供了一个可能的解释，为整体保护的ABC模式和被子植物的整体花区计划。此外，我们已经能够预测拟南芥和矮牵牛之间的网络架构的差异的影响。
Flowers are icons in developmental studies of complex structures. The vast majority of 250,000 angiosperm plant species have flowers with a conserved organ plan bearing sepals, petals, stamens, and carpels in the center. The combinatorial model for the activity of the so-called ABC homeotic floral genes has guided extensive experimental studies in Arabidopsis thaliana and many other plant species. However, a mechanistic and dynamical explanation for the ABC model and prevalence among flowering plants is lacking. Here, we put forward a simple discrete model that postulates logical rules that formally summarize published ABC and non-ABC gene interaction data for Arabidopsis floral organ cell fate determination and integrates this data into a dynamic network model. This model shows that all possible initial conditions converge to few steady gene activity states that match gene expression profiles observed experimentally in primordial floral organ cells of wild-type and mutant plants. Therefore, the network proposed here provides a dynamical explanation for the ABC model and shows that precise signaling pathways are not required to restrain cell types to those found in Arabidopsis, but these are rather determined by the overall gene network dynamics. Furthermore, we performed robustness analyses that clearly show that the cell types recovered depend on the network architecture rather than on specific values of the model's gene interaction parameters. These results support the hypothesis that such a network constitutes a developmental module, and hence provide a possible explanation for the overall conservation of the ABC model and overall floral plan among angiosperms. In addition, we have been able to predict the effects of differences in network architecture between Arabidopsis and Petunia hybrida.