Cell-based simulation of dynamic expression patterns in the presomitic mesoderm
Cell-based simulation of dynamic expression patterns in the presomitic mesoderm
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DOI：
10.1016/j.jtbi.2007.05.014
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发表时间：
2007-09-07
影响因子：
2
通讯作者：
de Angelis, Martin Hrabe
中科院分区：
文献类型：
--
作者：
Tiedemann, Hendrik B.;Schneltzer, Elida;de Angelis, Martin Hrabe
为了模拟体细胞发生中的动态表达模式，我们开发了一个java应用程序，用于并行模拟许多细胞中的基因调控网络，并使用Java3D API将结果可视化，从而模拟数千个细胞的集体行为。根据“时钟-波前”模型，脊椎动物胚胎的中胚层分裂是由“分裂时钟”调节的，在小鼠中，“分裂时钟”以大约2小时的周期振荡，而“波前”则随着发育中的中胚层尾端向后移动。生物钟是通过循环表达Hes1和Hes7等基因来实现的，Hes1和Hes7的基因产物在负反馈循环中抑制其编码基因的转录。通过将Hes1 mRNA的衰减耦合到一个与中胚层Fg积分8梯度具有相同特征和形成机制的梯度上，我们可以模拟Hes1在体前中胚层中动态表达模式的典型特征。此外，我们的程序能够通过模拟Delta-Notch信号相互作用同步数千个细胞中的Hes1振荡。(c) 2007 Elsevier Ltd.版权所有。
To model dynamic expression patterns in somitogenesis we developed a Java-application for simulating gene regulatory networks in many cells in parallel and visualising the results using the Java3D API, thus simulating the collective behaviour of many thousand cells. According to the 'clock-and-wave-front' model mesodermal segmentation of vertebrate embryos is regulated by a 'segmentation clock', which oscillates with a period of about 2h in mice, and a 'wave front' moving back with the growing caudal end of the presomitic mesoderm. The clock is realised through cycling expression of genes such as Hes1 and Hes7, whose gene products repress the transcription of their encoding genes in a negative feedback loop. By coupling the decay of the Hes1 mRNA to a gradient with the same features and mechanism of formation as the mesodermal Fg integral 8 gradient we can simulate typical features of the dynamic expression pattern of Hes1 in the presomitic mesoderm. Furthermore, our program is able to synchronise Hes1 oscillations in thousands of cells through simulated Delta-Notch signalling interactions. (c) 2007 Elsevier Ltd. All rights reserved.