Institute of Computational Science, ETH Zurich, 8092 Zurich, Switzerland.
Cell. 2010 Apr 16;141(2):355-67. doi: 10.1016/j.cell.2010.02.036.
The genetic code is degenerate. Each amino acid is encoded by up to six synonymous codons; the choice between these codons influences gene expression. Here, we show that in coding sequences, once a particular codon has been used, subsequent occurrences of the same amino acid do not use codons randomly, but favor codons that use the same tRNA. The effect is pronounced in rapidly induced genes, involves both frequent and rare codons and diminishes only slowly as a function of the distance between subsequent synonymous codons. Furthermore, we found that in S. cerevisiae codon correlation accelerates translation relative to the translation of synonymous yet anticorrelated sequences. The data suggest that tRNA diffusion away from the ribosome is slower than translation, and that some tRNA channeling takes place at the ribosome. They also establish that the dynamics of translation leave a significant signature at the level of the genome.
遗传密码是简并的。每个氨基酸最多由六个同义密码子编码;这些密码子之间的选择会影响基因表达。在这里,我们表明,在编码序列中,一旦使用了特定的密码子,随后相同氨基酸的出现不会随机使用密码子,而是倾向于使用相同 tRNA 的密码子。这种效应在快速诱导的基因中很明显,既涉及常见密码子,也涉及稀有密码子,并且只有在随后的同义密码子之间的距离函数上才会缓慢减小。此外,我们发现,在酿酒酵母中,密码子相关性相对于同义但反相关序列的翻译会加速翻译。这些数据表明,tRNA 从核糖体上扩散的速度比翻译慢,并且在核糖体上发生了一些 tRNA 通道。它们还表明,翻译的动力学在基因组水平上留下了显著的特征。