Zhang Ze, Luo Z W, Kishino Hirohisa, Kearsey Mike J
School of Biosciences, University of Birmingham, Birmingham, UK.
Mol Biol Evol. 2005 Mar;22(3):501-5. doi: 10.1093/molbev/msi034. Epub 2004 Nov 3.
The impact of the biological network structures on the divergence between the two copies of one duplicate gene pair involved in the networks has not been documented on a genome scale. Having analyzed the most recently updated Database of Interacting Proteins (DIP) by incorporating the information for duplicate genes of the same age in yeast, we find that there was a highly significantly positive correlation between the level of connectivity of ancient genes and the number of shared partners of their duplicates in the protein-protein interaction networks. This suggests that duplicate genes with a low ancestral connectivity tend to provide raw materials for functional novelty, whereas those duplicate genes with a high ancestral connectivity tend to create functional redundancy for a genome during the same evolutionary period. Moreover, the difference in the number of partners between two copies of a duplicate pair was found to follow a power-law distribution. This suggests that loss and gain of interacting partners for most duplicate genes with a lower level of ancestral connectivity is largely symmetrical, whereas the "hub duplicate genes" with a higher level of ancient connectivity display an asymmetrical divergence pattern in protein-protein interactions. Thus, it is clear that the protein-protein interaction network structures affect the divergence pattern of duplicate genes. Our findings also provide insights into the origin and development of biological networks.
生物网络结构对参与网络的一个重复基因对的两个拷贝之间差异的影响，尚未在全基因组规模上进行记录。通过纳入酵母中相同年龄重复基因的信息，分析了最新更新的相互作用蛋白质数据库（DIP），我们发现在蛋白质 - 蛋白质相互作用网络中，古老基因的连接水平与其重复基因的共享伙伴数量之间存在高度显著的正相关。这表明，祖先连接性低的重复基因倾向于为功能新奇性提供原材料，而那些祖先连接性高的重复基因倾向于在同一进化时期为基因组创造功能冗余。此外，发现重复对的两个拷贝之间伙伴数量的差异遵循幂律分布。这表明，对于大多数祖先连接水平较低的重复基因，相互作用伙伴的丢失和获得在很大程度上是对称的，而具有较高古老连接水平的“枢纽重复基因”在蛋白质 - 蛋白质相互作用中表现出不对称的差异模式。因此，很明显蛋白质 - 蛋白质相互作用网络结构影响重复基因的差异模式。我们的发现也为生物网络的起源和发展提供了见解。
