Axelsen Jacob Bock, Bernhardsson Sebastian, Sneppen Kim
Centro de Astrobiología, Instituto Nacional de Técnica Aeroespacial, Ctra de Ajalvir km 4, 28850 Torrejón de Ardoz, Madrid, Spain.
BMC Syst Biol. 2008 Mar 4;2:25. doi: 10.1186/1752-0509-2-25.
The relationship between the regulatory design and the functionality of molecular networks is a key issue in biology. Modules and motifs have been associated to various cellular processes, thereby providing anecdotal evidence for performance based localization on molecular networks.
To quantify structure-function relationship we investigate similarities of proteins which are close in the regulatory network of the yeast Saccharomyces Cerevisiae. We find that the topology of the regulatory network only show weak remnants of its history of network reorganizations, but strong features of co-regulated proteins associated to similar tasks. These functional correlations decreases strongly when one consider proteins separated by more than two steps in the regulatory network. The network topology primarily reflects the processes that is orchestrated by each individual hub, whereas there is nearly no remnants of the history of protein duplications.
Our results suggests that local topological features of regulatory networks, including broad degree distributions, emerge as an implicit result of matching a number of needed processes to a finite toolbox of proteins.
调控设计与分子网络功能之间的关系是生物学中的一个关键问题。模块和基序已与各种细胞过程相关联，从而为基于性能的分子网络定位提供了轶事证据。
为了量化结构 - 功能关系，我们研究了酿酒酵母调控网络中相邻蛋白质的相似性。我们发现调控网络的拓扑结构仅显示出其网络重组历史的微弱痕迹，但具有与相似任务相关的共调控蛋白质的强烈特征。当考虑调控网络中相隔两步以上的蛋白质时，这些功能相关性会大幅降低。网络拓扑结构主要反映了每个单独枢纽所协调的过程，而几乎没有蛋白质复制历史的痕迹。
我们的结果表明，调控网络的局部拓扑特征，包括广泛的度分布，是将许多所需过程与有限的蛋白质工具箱相匹配的隐含结果。
