Flann Nicholas S, Mohamadlou Hamid, Podgorski Gregory J
Department of Computer Science, Utah State University, United States.
Biosystems. 2013 May;112(2):131-8. doi: 10.1016/j.biosystems.2013.03.005. Epub 2013 Mar 14.
The tissues of multicellular organisms are made of differentiated cells arranged in organized patterns. This organization emerges during development from the coupling of dynamic intra- and intercellular regulatory networks. This work applies the methods of information theory to understand how regulatory network structure both within and between cells relates to the complexity of spatial patterns that emerge as a consequence of network operation. A computational study was performed in which undifferentiated cells were arranged in a two dimensional lattice, with gene expression in each cell regulated by identical intracellular randomly generated Boolean networks. Cell-cell contact signalling between embryonic cells is modeled as coupling among intracellular networks so that gene expression in one cell can influence the expression of genes in adjacent cells. In this system, the initially identical cells differentiate and form patterns of different cell types. The complexity of network structure, temporal dynamics and spatial organization is quantified through the Kolmogorov-based measures of normalized compression distance and set complexity. Results over sets of random networks that operate in the ordered, critical and chaotic domains demonstrate that: (1) ordered and critical networks tend to create the most information-rich patterns; (2) signalling configurations in which cell-to-cell communication is non-directional mostly produce simple patterns irrespective of the internal network domain; and (3) directional signalling configurations, similar to those that function in planar cell polarity, produce the most complex patterns, but only when the intracellular networks function in non-chaotic domains.
多细胞生物的组织由以有组织的模式排列的分化细胞组成。这种组织在发育过程中通过动态的细胞内和细胞间调节网络的耦合而出现。这项工作应用信息论方法来理解细胞内和细胞间调节网络结构如何与作为网络运作结果而出现的空间模式的复杂性相关。进行了一项计算研究,其中未分化细胞排列在二维晶格中,每个细胞中的基因表达由相同的细胞内随机生成的布尔网络调节。胚胎细胞之间的细胞间接触信号传导被建模为细胞内网络之间的耦合,以便一个细胞中的基因表达可以影响相邻细胞中基因的表达。在这个系统中,最初相同的细胞分化并形成不同细胞类型的模式。通过基于科尔莫戈罗夫的归一化压缩距离和集合复杂性的度量来量化网络结构、时间动态和空间组织的复杂性。在有序、临界和混沌域中运行的随机网络集的结果表明:(1)有序和临界网络倾向于创建最丰富信息的模式;(2)细胞间通信是非定向的信号配置大多产生简单模式,而与内部网络域无关;(3)类似于平面细胞极性中起作用的定向信号配置产生最复杂的模式,但仅当细胞内网络在非混沌域中起作用时。