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Predictive design of mRNA translation initiation region to control prokaryotic translation efficiency

Paper ID Volume ID Publish Year Pages File Format Full-Text
31650 44827 2013 8 PDF Available
Title
Predictive design of mRNA translation initiation region to control prokaryotic translation efficiency
Abstract

Precise prediction of prokaryotic translation efficiency can provide valuable information for optimizing bacterial host for the production of biochemical compounds or recombinant proteins. However, dynamic changes in mRNA folding throughout translation make it difficult to assess translation efficiency. Here, we systematically determined the universal folding regions that significantly affect the efficiency of translation in Escherichia coli. By assessing the specific regions for mRNA folding, we could construct a predictive design method, UTR Designer, and demonstrate that proper codon optimization around the 5′-proximal coding sequence is necessary to achieve a broad range of expression levels. Finally, we applied our method to control the threshold value of input signals switching on a genetic circuit. This should increase our understanding of the processes underlying gene expression and provide an efficient design principle for optimizing various biological systems, thereby facilitating future efforts in metabolic engineering and synthetic biology.

► Universal folding regions of mRNA translation initiation region were revealed. ► Using those regions, a predictive design method, UTR Designer, was developed. ► This further provided an additional guideline for proper codon optimization.

Keywords
5′-untranslated region; mRNA secondary structure; Synthetic biology; Translation efficiency
First Page Preview
Predictive design of mRNA translation initiation region to control prokaryotic translation efficiency
Publisher
Database: Elsevier - ScienceDirect
Journal: Metabolic Engineering - Volume 15, January 2013, Pages 67–74
Authors
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Subjects
Physical Sciences and Engineering Chemical Engineering Bioengineering