a publish-subscribe model of genetic networks基因网络的发布-订阅模型.pdfVIP

A Publish-Subscribe Model of Genetic Networks 1,2 3 4,5 Brett Calcott , Duygu Balcan , Paul A. Hohenlohe * 1 Philosophy Program, RSSS, Australian National University, Canberra, Australia, 2 Centre for Macroevolution and Macroecology, Australian National University, Canberra, Australia, 3 School of Informatics, Indiana University, Bloomington, Indiana, United States of America, 4 Department of Zoology, Oregon State University, Corvallis, Oregon, United States of America, 5 Center for Ecology and Evolutionary Biology, University of Oregon, Eugene, Oregon, United States of America Abstract We present a simple model of genetic regulatory networks in which regulatory connections among genes are mediated by a limited number of signaling molecules. Each gene in our model produces (publishes) a single gene product, which regulates the expression of other genes by binding to regulatory regions that correspond (subscribe) to that product. We explore the consequences of this publish-subscribe model of regulation for the properties of single networks and for the evolution of populations of networks. Degree distributions of randomly constructed networks, particularly multimodal in- degree distributions, which depend on the length of the regulatory sequences and the number of possible gene products, differed from simpler Boolean NK models. In simulated evolution of populations of networks, single mutations in regulatory or coding regions resulted in multiple changes in regulatory connections among genes, or alternatively in neutral change that had no effect on phenotype. This resulted in remarkable evolvability in both number and length of attractors, leading to evolved networks far beyond the expectation of these measures based on random distributions. Surprisingly, thi