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      A User’s Guide to Cell-Free Protein Synthesis

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          Abstract

          Cell-free protein synthesis (CFPS) is a platform technology that provides new opportunities for protein expression, metabolic engineering, therapeutic development, education, and more. The advantages of CFPS over in vivo protein expression include its open system, the elimination of reliance on living cells, and the ability to focus all system energy on production of the protein of interest. Over the last 60 years, the CFPS platform has grown and diversified greatly, and it continues to evolve today. Both new applications and new types of extracts based on a variety of organisms are current areas of development. However, new users interested in CFPS may find it challenging to implement a cell-free platform in their laboratory due to the technical and functional considerations involved in choosing and executing a platform that best suits their needs. Here we hope to reduce this barrier to implementing CFPS by clarifying the similarities and differences amongst cell-free platforms, highlighting the various applications that have been accomplished in each of them, and detailing the main methodological and instrumental requirement for their preparation. Additionally, this review will help to contextualize the landscape of work that has been done using CFPS and showcase the diversity of applications that it enables.

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          Codon Usage Influences the Local Rate of Translation Elongation to Regulate Co-translational Protein Folding.

          Codon usage bias is a universal feature of eukaryotic and prokaryotic genomes and has been proposed to regulate translation efficiency, accuracy, and protein folding based on the assumption that codon usage affects translation dynamics. The roles of codon usage in translation, however, are not clear and have been challenged by recent ribosome profiling studies. Here we used a Neurospora cell-free translation system to directly monitor the velocity of mRNA translation. We demonstrated that the preferred codons enhance the rate of translation elongation, whereas non-optimal codons slow elongation. Codon usage also controls ribosome traffic on mRNA. These conclusions were supported by ribosome profiling results in vitro and in vivo with template mRNAs designed to increase the signal-to-noise ratio. Finally, we demonstrate that codon usage regulates protein function by affecting co-translational protein folding. These results resolve a long-standing fundamental question and suggest the existence of a codon usage code for protein folding.
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            Cell-free protein synthesis: applications come of age.

            Cell-free protein synthesis has emerged as a powerful technology platform to help satisfy the growing demand for simple and efficient protein production. While used for decades as a foundational research tool for understanding transcription and translation, recent advances have made possible cost-effective microscale to manufacturing scale synthesis of complex proteins. Protein yields exceed grams protein produced per liter reaction volume, batch reactions last for multiple hours, costs have been reduced orders of magnitude, and reaction scale has reached the 100-liter milestone. These advances have inspired new applications in the synthesis of protein libraries for functional genomics and structural biology, the production of personalized medicines, and the expression of virus-like particles, among others. In the coming years, cell-free protein synthesis promises new industrial processes where short protein production timelines are crucial as well as innovative approaches to a wide range of applications. Copyright © 2011 Elsevier Inc. All rights reserved.
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              The dependence of cell-free protein synthesis in E. coli upon naturally occurring or synthetic polyribonucleotides

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                Author and article information

                Journal
                Methods Protoc
                Methods Protoc
                mps
                Methods and Protocols
                MDPI
                2409-9279
                12 March 2019
                March 2019
                : 2
                : 1
                : 24
                Affiliations
                [1 ]Center for Applications in Biotechnology, California Polytechnic State University, San Luis Obispo, CA 93407, USA; negregor@ 123456calpoly.edu (N.E.G.); mzlevine@ 123456calpoly.edu (M.Z.L.)
                [2 ]Department of Chemistry and Biochemistry, California Polytechnic State University, San Luis Obispo, CA 93407, USA
                [3 ]Department of Biological Sciences, California Polytechnic State University, San Luis Obispo, CA 93407, USA
                Author notes
                [* ]Correspondence: joza@ 123456calpoly.edu ; Tel.: +1-805-756-2265
                Author information
                https://orcid.org/0000-0002-7287-209X
                https://orcid.org/0000-0001-8896-6632
                https://orcid.org/0000-0002-2902-6939
                Article
                mps-02-00024
                10.3390/mps2010024
                6481089
                31164605
                11b04a6f-bb92-4e21-a960-480c39d0d86f
                © 2019 by the authors.

                Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license ( http://creativecommons.org/licenses/by/4.0/).

                History
                : 15 February 2019
                : 06 March 2019
                Categories
                Review

                cell-free protein synthesis (cfps),in vitro transcription-translation (tx-tl),cell-free protein expression (cfpe),in vitro protein synthesis,cell-free synthetic biology,cell-free metabolic engineering (cfme)

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