A code for transcription elongation speed
A code for transcription elongation speed
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DOI：
10.1080/15476286.2017.1384118
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发表时间：
2018-01-01
期刊：
影响因子：
4.1
通讯作者：
Tuller, Tamir
中科院分区：
文献类型：
--
作者：
Cohen, Eyal;Zafrir, Zohar;Tuller, Tamir
基因表达的两个主要步骤是转录和翻译。虽然已经发表了数百项关于序列特征对翻译延伸过程的影响的研究，但很少将序列特征与转录延伸率联系起来。我们首次提出，短转录子序列对RNA聚合酶（RNAP）速度具有典型的影响：我们表明核苷酸5聚体倾向于具有典型的RNAP速度（或转录速率），这是一致的沿着不同部分的基因和具有高度相关性的不同基因组之间。我们还表明，相对RNAP速度与内源性和异源性基因的mRNA水平相关。此外，我们表明，估计的转录和翻译延伸率相关的内源基因。最后，我们证明了我们的结果是一致的RNAP密度的不同的高分辨率实验测量。这些结果首次表明，转录延长部分编码的转录本，受密码子使用，并优化进化与基因表达和生物体的健身显着的影响。
The two major steps of gene expression are transcription and translation. While hundreds of studies regarding the effect of sequence features on the translation elongation process have been published, very few connect sequence features to the transcription elongation rate. We suggest, for the first time, that short transcript sub-sequences have a typical effect on RNA polymerase (RNAP) speed: we show that nucleotide 5-mers tend to have typical RNAP speed (or transcription rate), which is consistent along different parts of genes and among different groups of genes with high correlation. We also demonstrate that relative RNAP speed correlates with mRNA levels of endogenous and heterologous genes. Furthermore, we show that the estimated transcription and translation elongation rates correlate in endogenous genes. Finally, we demonstrate that our results are consistent for different high resolution experimental measurements of RNAP densities. These results suggest for the first time that transcription elongation is partly encoded in the transcript, affected by the codon-usage, and optimized by evolution with a significant effect on gene expression and organismal fitness.