A single determinant dominates the rate of yeast protein evolution
A single determinant dominates the rate of yeast protein evolution
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DOI：
10.1093/molbev/msj038
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发表时间：
2006-02-01
影响因子：
10.7
通讯作者：
Wilke, CO
中科院分区：
文献类型：
--
作者：
Drummond, DA;Raval, A;Wilke, CO
基因序列进化的速率是常用的最基本的进化量之一，但决定进化速率的因素仍不清楚。在这里，我们进行了第一次联合分析的7个预测因子（基因表达水平，dispensability，蛋白质丰度，密码子适应指数，基因长度，蛋白质-蛋白质相互作用的数量，和基因的相互作用网络中的中心性）先前报道的蛋白质进化速率有独立的影响。引人注目的是，我们的分析揭示了一个与翻译事件数量相关的单一显性变量，该变量解释了进化速率的40倍以上的变异，这表明蛋白质进化速率在7个预测因子中具有单一的主要决定因素。占主导地位的变量解释了近一半的同义词和蛋白质进化速率的变化。我们发现，两种最常用的方法来解开进化率的决定因素，偏相关分析和普通的多元回归，产生误导或虚假的结果时，适用于嘈杂的生物数据。我们克服了这些困难，采用主成分回归，对预测变量的主成分的进化率的多元回归。我们的研究结果支持这一假设，即翻译选择控制的同义和蛋白质序列的酵母进化的速度。
A gene's rate of sequence evolution is among the most fundamental evolutionary quantities in common use, but what determines evolutionary rates has remained unclear. Here, we carry out the first combined analysis of seven predictors (gene expression level, dispensability, protein abundance, codon adaptation index, gene length, number of protein-protein interactions, and the gene's centrality in the interaction network) previously reported to have independent influences on protein evolutionary rates. Strikingly, our analysis reveals a single dominant variable linked to the number of translation events which explains 40-fold more variation in evolutionary rate than any other, suggesting that protein evolutionary rate has a single major determinant among the seven predictors. The dominant variable explains nearly half the variation in the rate of synonymous and protein evolution. We show that the two most commonly used methods to disentangle the determinants of evolutionary rate, partial correlation analysis and ordinary multivariate regression, produce misleading or spurious results when applied to noisy biological data. We overcome these difficulties by employing principal component regression, a multivariate regression of evolutionary rate against the principal components of the predictor variables. Our results support the hypothesis that translational selection governs the rate of synonymous and protein sequence evolution in yeast.