Coevolution of gene expression among interacting proteins
Coevolution of gene expression among interacting proteins
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DOI：
10.1073/pnas.0402591101
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发表时间：
2004-06-15
影响因子：
11.1
通讯作者：
Eisen, MB
中科院分区：
文献类型：
--
作者：
Fraser, HB;Hirsh, AE;Eisen, MB
物理相互作用的蛋白质或蛋白质的一部分预计将以协调的方式进化，以保持适当的相互作用。这种在氨基酸序列水平上的共同进化是有据可查的，并已被用于预测相互作用的蛋白质，结构域和氨基酸。相互作用的蛋白质也经常精确地彼此共表达，大概是为了维持相互作用组分之间的适当化学计量。在这里，我们表明，物理相互作用的蛋白质的表达水平共同进化。我们估计的平均表达水平的基因从四个密切相关的真菌属酵母使用密码子适应指数，并显示相互作用的蛋白质的表达水平在这些不同的物种表现出协调的变化。我们发现，这种共同进化的表达是一个更强大的预测物理相互作用比共同进化的氨基酸序列。这些结果表明，基因表达水平可以共同进化，增加了另一个维度的相互作用的蛋白质的共同进化的研究，并强调在进化过程中保持相互作用的蛋白质的共同表达的重要性。我们的研究结果还表明，表达协同进化可用于蛋白质-蛋白质相互作用的计算预测。
Physically interacting proteins or parts of proteins are expected to evolve in a coordinated manner that preserves proper interactions. Such coevolution at the amino acid-sequence level is well documented and has been used to predict interacting proteins, domains, and amino acids. Interacting proteins are also often precisely coexpressed with one another, presumably to maintain proper stoichiometry among interacting components. Here, we show that the expression levels of physically interacting proteins coevolve. We estimate average expression levels of genes from four closely related fungi of the genus Saccharomyces using the codon adaptation index and show that expression levels of interacting proteins exhibit coordinated changes in these different species. We find that this coevolution of expression is a more powerful predictor of physical interaction than is coevolution of amino acid sequence. These results demonstrate that gene expression levels can coevolve, adding another dimension to the study of the coevolution of interacting proteins and underscoring the importance of maintaining coexpression of interacting proteins over evolutionary time. Our results also suggest that expression coevolution can be used for computational prediction of protein-protein interactions.