Cell-free biomanufacturing

Bundy, Bradley C.; Hunt, J. Porter; Jewett, Michael C.; Swartz, James R.; Wood, David W.; Frey, Douglas D.; Rao, Govind

doi:10.1016/j.coche.2018.10.003

Cell-free biomanufacturing

Journal Article · Mon Nov 12 23:00:00 EST 2018 · Current Opinion in Chemical Engineering

DOI:https://doi.org/10.1016/j.coche.2018.10.003· OSTI ID:1612898

Bundy, Bradley C. ^[1]; Hunt, J. Porter ^[2]; Jewett, Michael C. ^[3]; Swartz, James R. ^[4]; ^[5]; Frey, Douglas D. ^[6]; Rao, Govind ^[6]

Brigham Young Univ., Provo, UT (United States); DOE/OSTI
Brigham Young Univ., Provo, UT (United States)
Northwestern Univ., Evanston, IL (United States)
Stanford Univ., CA (United States)
The Ohio State Univ., Columbus, OH (United States)
Univ. of Maryland Baltimore County (UMBC), Baltimore, MD (United States)

Since its early development and use to decipher the genetic code, in vitro or ‘cell-free’ systems have been used as an important research tool to understand biochemical mechanisms and metabolic pathways. More recently, due to important engineering advances the technology is rapidly becoming a biomanufacturing platform for protein therapeutics, vaccines, enzyme biocatalysts, fuels, and commodity chemicals. Herein we report recent applications and advances in the cell-free biomanufacturing field and the potential of this emerging approach.

View Accepted Manuscript (DOE)

Research Organization:: Northwestern Univ., Evanston, IL (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER); National Science Foundation (NSF); US Army Research Office (ARO); US Air Force Office of Scientific Research (AFOSR); Defense Threat Reduction Agency (DTRA); USDOE Office of Energy Efficiency and Renewable Energy (EERE)

Grant/Contract Number:: SC0018249

OSTI ID:: 1612898

Journal Information:: Current Opinion in Chemical Engineering, Journal Name: Current Opinion in Chemical Engineering Journal Issue: C Vol. 22; ISSN 2211-3398

Publisher:: ElsevierCopyright Statement

Country of Publication:: United States

Language:: English

References (66)

Prolonging cell-free protein synthesis with a novel ATP regeneration system Kim, Dong-Myung; Swartz, James R. Biotechnology and Bioengineering, Vol. 66, Issue 3 https://doi.org/10.1002/(SICI)1097-0290(1999)66:3<180::AID-BIT6>3.0.CO;2-S	journal	January 1999
Transforming biochemical engineering with cell-free biology Swartz, James R. AIChE Journal, Vol. 58, Issue 1 https://doi.org/10.1002/aic.13701	journal	December 2011
A combined cell-free transcription-translation system from Saccharomyces cerevisiae for rapid and robust protein synthe Gan, Rui; Jewett, Michael C. Biotechnology Journal, Vol. 9, Issue 5 https://doi.org/10.1002/biot.201300545	journal	March 2014
A cell-free expression and purification process for rapid production of protein biologics Sullivan, Challise J.; Pendleton, Erik D.; Sasmor, Henri H. Biotechnology Journal, Vol. 11, Issue 2 https://doi.org/10.1002/biot.201500214	journal	December 2015
Cell-free protein synthesis of a cytotoxic cancer therapeutic: Onconase production and a just-add-water cell-free system Salehi, Amin S. M.; Smith, Mark Thomas; Bennett, Anthony M. Biotechnology Journal, Vol. 11, Issue 2 https://doi.org/10.1002/biot.201500237	journal	November 2015
Energizing cell-free protein synthesis with glucose metabolism Calhoun, Kara A.; Swartz, James R. Biotechnology and Bioengineering, Vol. 90, Issue 5 https://doi.org/10.1002/bit.20449	journal	January 2005
Microscale to manufacturing scale-up of cell-free cytokine production-a new approach for shortening protein production development timelines Zawada, James F.; Yin, Gang; Steiner, Alexander R. Biotechnology and Bioengineering, Vol. 108, Issue 7 https://doi.org/10.1002/bit.23103	journal	March 2011
Establishing a high yielding streptomyces -based cell-free protein synthesis system: Establishing a Streptomyces -Based CFPS System Li, Jian; Wang, He; Kwon, Yong-Chan Biotechnology and Bioengineering, Vol. 114, Issue 6 https://doi.org/10.1002/bit.26253	journal	February 2017
Rapid in vitro screening for the location‐dependent effects of unnatural amino acids on protein expression and activity Schinn, Song‐Min; Bradley, William; Groesbeck, Ashtyn Biotechnology and Bioengineering, Vol. 114, Issue 10 https://doi.org/10.1002/bit.26305	journal	July 2017
A cell-free platform for rapid synthesis and testing of active oligosaccharyltransferases Schoborg, Jennifer A.; Hershewe, Jasmine M.; Stark, Jessica C. Biotechnology and Bioengineering, Vol. 115, Issue 3 https://doi.org/10.1002/bit.26502	journal	December 2017
Improving the recombinant human erythropoietin glycosylation using microsome supplementation in CHO cell‐free system Gurramkonda, Chandrasekhar; Rao, Aniruddha; Borhani, Shayan Biotechnology and Bioengineering, Vol. 115, Issue 5 https://doi.org/10.1002/bit.26554	journal	February 2018
Creating a completely “cell‐free” system for protein synthesis Smith, Mark Thomas; Bennett, Anthony M.; Hunt, Jeremy M. Biotechnology Progress, Vol. 31, Issue 6 https://doi.org/10.1002/btpr.2157	journal	August 2015
Towards cell-free isobutanol production: Development of a novel immobilized enzyme system Grimaldi, Joseph; Collins, Cynthia H.; Belfort, Georges Biotechnology Progress, Vol. 32, Issue 1 https://doi.org/10.1002/btpr.2197	journal	December 2015
Efficient tRNA degradation and quantification in Escherichia coli cell extract using RNase‐coated magnetic beads: A key step toward codon emancipation Salehi, Amin S. M.; Smith, Mark T.; Schinn, Song‐Min Biotechnology Progress, Vol. 33, Issue 5 https://doi.org/10.1002/btpr.2511	journal	June 2017
Toward Microfluidic Reactors for Cell-Free Protein Synthesis at the Point-of-Care Timm, Andrea C.; Shankles, Peter G.; Foster, Carmen M. Small, Vol. 12, Issue 6 https://doi.org/10.1002/smll.201502764	journal	December 2015
A cell-free biosensor for the detection of transcriptional inducers using firefly luciferase as a reporter Pellinen, Teijo; Huovinen, Tuomas; Karp, Matti Analytical Biochemistry, Vol. 330, Issue 1 https://doi.org/10.1016/j.ab.2004.03.064	journal	July 2004
Reengineering cell-free protein synthesis as a biosensor: Biosensing with transcription, translation, and protein-folding Soltani, Mehran; Davis, Brady R.; Ford, Hayley Biochemical Engineering Journal, Vol. 138 https://doi.org/10.1016/j.bej.2018.06.014	journal	October 2018
Synthesis of 2.3 mg/ml of protein with an all Escherichia coli cell-free transcription–translation system Caschera, Filippo; Noireaux, Vincent Biochimie, Vol. 99 https://doi.org/10.1016/j.biochi.2013.11.025	journal	April 2014
Cell-free protein synthesis: Applications come of age Carlson, Erik D.; Gan, Rui; Hodgman, C. Eric Biotechnology Advances, Vol. 30, Issue 5 https://doi.org/10.1016/j.biotechadv.2011.09.016	journal	September 2012
Paper-Based Synthetic Gene Networks Pardee, Keith; Green, Alexander A.; Ferrante, Tom Cell, Vol. 159, Issue 4 https://doi.org/10.1016/j.cell.2014.10.004	journal	November 2014
Rapid, Low-Cost Detection of Zika Virus Using Programmable Biomolecular Components Pardee, Keith; Green, Alexander A.; Takahashi, Melissa K. Cell, Vol. 165, Issue 5 https://doi.org/10.1016/j.cell.2016.04.059	journal	May 2016
Portable, On-Demand Biomolecular Manufacturing Pardee, Keith; Slomovic, Shimyn; Nguyen, Peter Q. Cell, Vol. 167, Issue 1 https://doi.org/10.1016/j.cell.2016.09.013	journal	September 2016
Cell free protein synthesis: a viable option for stratified medicines manufacturing? . Ogonah, Olotu W.; Polizzi, Karen M.; Bracewell, Daniel G. Current Opinion in Chemical Engineering, Vol. 18 https://doi.org/10.1016/j.coche.2017.10.003	journal	November 2017
The emerging impact of cell-free chemical biosynthesis Wilding, Kristen M.; Schinn, Song-Min; Long, Emily A. Current Opinion in Biotechnology, Vol. 53 https://doi.org/10.1016/j.copbio.2017.12.019	journal	October 2018
The emerging age of cell-free synthetic biology Smith, Mark Thomas; Wilding, Kristen M.; Hunt, Jeremy M. FEBS Letters, Vol. 588, Issue 17 https://doi.org/10.1016/j.febslet.2014.05.062	journal	June 2014
In vitro bioconversion of chitin to pyruvate with thermophilic enzymes Honda, Kohsuke; Kimura, Keisuke; Ninh, Pham Huynh Journal of Bioscience and Bioengineering, Vol. 124, Issue 3 https://doi.org/10.1016/j.jbiosc.2017.04.013	journal	September 2017
Efficient disulfide bond formation in virus-like particles Bundy, Bradley C.; Swartz, James R. Journal of Biotechnology, Vol. 154, Issue 4 https://doi.org/10.1016/j.jbiotec.2011.04.011	journal	July 2011
Enhanced Enzyme Stability Through Site-Directed Covalent Immobilization Wu, Jeffrey Chun Yu; Hutchings, Christopher Hayden; Lindsay, Mark Jeffrey Journal of Biotechnology, Vol. 193 https://doi.org/10.1016/j.jbiotec.2014.10.039	journal	January 2015
Cell-free unnatural amino acid incorporation with alternative energy systems and linear expression templates Shrestha, Prashanta; Smith, Mark Thomas; Bundy, Bradley Charles New Biotechnology, Vol. 31, Issue 1 https://doi.org/10.1016/j.nbt.2013.09.002	journal	January 2014
Biosensing estrogenic endocrine disruptors in human blood and urine: A RAPID cell-free protein synthesis approach Salehi, Amin S. M.; Yang, Seung Ook; Earl, Conner C. Toxicology and Applied Pharmacology, Vol. 345 https://doi.org/10.1016/j.taap.2018.02.016	journal	April 2018
Lysate of engineered Escherichia coli supports high-level conversion of glucose to 2,3-butanediol Kay, Jennifer E.; Jewett, Michael C. Metabolic Engineering, Vol. 32 https://doi.org/10.1016/j.ymben.2015.09.015	journal	November 2015
A cell-free framework for rapid biosynthetic pathway prototyping and enzyme discovery Karim, Ashty S.; Jewett, Michael C. Metabolic Engineering, Vol. 36 https://doi.org/10.1016/j.ymben.2016.03.002	journal	July 2016
Controlling cell-free metabolism through physiochemical perturbations Karim, Ashty S.; Heggestad, Jacob T.; Crowe, Samantha A. Metabolic Engineering, Vol. 45 https://doi.org/10.1016/j.ymben.2017.11.005	journal	January 2018
Cell-Free Protein Synthesis Approach to Biosensing hTRβ-Specific Endocrine Disruptors Salehi, Amin S. M.; Shakalli Tang, Miriam J.; Smith, Mark T. Analytical Chemistry, Vol. 89, Issue 6 https://doi.org/10.1021/acs.analchem.6b04034	journal	March 2017
Complementary Cell-Free Translational Assay for Quantification of Amino Acids Jang, Yeon-Jae; Lee, Kyung-Ho; Yoo, Tae Hyeon Analytical Chemistry, Vol. 89, Issue 18 https://doi.org/10.1021/acs.analchem.7b01956	journal	September 2017
Incorporation of Nonproteinogenic Amino Acids in Class I and II Lantibiotics Kakkar, Nidhi; Perez, Jessica G.; Liu, Wenshe R. ACS Chemical Biology, Vol. 13, Issue 4 https://doi.org/10.1021/acschembio.7b01024	journal	February 2018
Enzymatic Menthol Production: One-Pot Approach Using Engineered Escherichia coli Toogood, Helen S.; Cheallaigh, Aisling Ní; Tait, Shirley ACS Synthetic Biology, Vol. 4, Issue 10 https://doi.org/10.1021/acssynbio.5b00092	journal	June 2015
Cell-Free Mixing of Escherichia coli Crude Extracts to Prototype and Rationally Engineer High-Titer Mevalonate Synthesis Dudley, Quentin M.; Anderson, Kim C.; Jewett, Michael C. ACS Synthetic Biology, Vol. 5, Issue 12 https://doi.org/10.1021/acssynbio.6b00154	journal	July 2016
In Vitro Reconstruction of Nonribosomal Peptide Biosynthesis Directly from DNA Using Cell-Free Protein Synthesis Goering, Anthony W.; Li, Jian; McClure, Ryan A. ACS Synthetic Biology, Vol. 6, Issue 1 https://doi.org/10.1021/acssynbio.6b00160	journal	August 2016
Development of a CHO-Based Cell-Free Platform for Synthesis of Active Monoclonal Antibodies Martin, Rey W.; Majewska, Natalia I.; Chen, Cindy X. ACS Synthetic Biology, Vol. 6, Issue 7 https://doi.org/10.1021/acssynbio.7b00001	journal	April 2017
A Cell-Free Biosensor for Detecting Quorum Sensing Molecules in P. aeruginosa -Infected Respiratory Samples Wen, Ke Yan; Cameron, Loren; Chappell, James ACS Synthetic Biology, Vol. 6, Issue 12 https://doi.org/10.1021/acssynbio.7b00219	journal	October 2017
The Locational Impact of Site-Specific PEGylation: Streamlined Screening with Cell-Free Protein Expression and Coarse-Grain Simulation Wilding, Kristen M.; Smith, Addison K.; Wilkerson, Joshua W. ACS Synthetic Biology, Vol. 7, Issue 2 https://doi.org/10.1021/acssynbio.7b00316	journal	January 2018
Production of Site-Specific Antibody–Drug Conjugates Using Optimized Non-Natural Amino Acids in a Cell-Free Expression System Zimmerman, Erik S.; Heibeck, Tyler H.; Gill, Avinash Bioconjugate Chemistry, Vol. 25, Issue 2 https://doi.org/10.1021/bc400490z	journal	January 2014
An integrated cell-free metabolic platform for protein production and synthetic biology Jewett, Michael C.; Calhoun, Kara A.; Voloshin, Alexei Molecular Systems Biology, Vol. 4, Issue 1, Article No. 220 https://doi.org/10.1038/msb.2008.57	journal	October 2008
Digital-to-biological converter for on-demand production of biologics Boles, Kent S.; Kannan, Krishna; Gill, John Nature Biotechnology, Vol. 35, Issue 7 https://doi.org/10.1038/nbt.3859	journal	May 2017
A synthetic biochemistry platform for cell free production of monoterpenes from glucose Korman, Tyler P.; Opgenorth, Paul H.; Bowie, James U. Nature Communications, Vol. 8, Issue 1 https://doi.org/10.1038/ncomms15526	journal	May 2017
Robust production of recombinant phosphoproteins using cell-free protein synthesis Oza, Javin P.; Aerni, Hans R.; Pirman, Natasha L. Nature Communications, Vol. 6, Issue 1 https://doi.org/10.1038/ncomms9168	journal	September 2015
Cell-free protein synthesis from genomically recoded bacteria enables multisite incorporation of noncanonical amino acids Martin, Rey W.; Des Soye, Benjamin J.; Kwon, Yong-Chan Nature Communications, Vol. 9, Issue 1 https://doi.org/10.1038/s41467-018-03469-5	journal	March 2018
Single-pot glycoprotein biosynthesis using a cell-free transcription-translation system enriched with glycosylation machinery Jaroentomeechai, Thapakorn; Stark, Jessica C.; Natarajan, Aravind Nature Communications, Vol. 9, Issue 1 https://doi.org/10.1038/s41467-018-05110-x	journal	July 2018
Point-of-care production of therapeutic proteins of good-manufacturing-practice quality Adiga, Rajani; Al-adhami, Mustafa; Andar, Abhay Nature Biomedical Engineering, Vol. 2, Issue 9 https://doi.org/10.1038/s41551-018-0259-1	journal	July 2018
Design of glycosylation sites by rapid synthesis and analysis of glycosyltransferases Kightlinger, Weston; Lin, Liang; Rosztoczy, Madisen Nature Chemical Biology, Vol. 14, Issue 6 https://doi.org/10.1038/s41589-018-0051-2	journal	May 2018
Rapid recombinant protein expression in cell-free extracts from human blood Burgenson, David; Gurramkonda, Chandrasekhar; Pilli, Manohar Scientific Reports, Vol. 8, Issue 1 https://doi.org/10.1038/s41598-018-27846-8	journal	June 2018
On-chip automation of cell-free protein synthesis: new opportunities due to a novel reaction mode Georgi, V.; Georgi, L.; Blechert, M. Lab on a Chip, Vol. 16, Issue 2 https://doi.org/10.1039/C5LC00700C	journal	January 2016
Production and stabilization of the trimeric influenza hemagglutinin stem domain for potentially broadly protective influenza vaccines Lu, Y.; Welsh, J. P.; Swartz, J. R. Proceedings of the National Academy of Sciences, Vol. 111, Issue 1 https://doi.org/10.1073/pnas.1308701110	journal	December 2013
Synthetic biology devices for in vitro and in vivo diagnostics Slomovic, Shimyn; Pardee, Keith; Collins, James J. Proceedings of the National Academy of Sciences, Vol. 112, Issue 47 https://doi.org/10.1073/pnas.1508521112	journal	November 2015
The growing impact of lyophilized cell-free protein expression systems Hunt, J. Porter; Yang, Seung Ook; Wilding, Kristen M. Bioengineered, Vol. 8, Issue 4 https://doi.org/10.1080/21655979.2016.1241925	journal	October 2016
Gram-scale production of recombinant microbial enzymes in shake flasks Chrast, Lukas; Chaloupkova, Radka; Damborsky, Jiri FEMS Microbiology Letters, Vol. 365, Issue 2 https://doi.org/10.1093/femsle/fnx265	journal	December 2017
Cell-free co-production of an orthogonal transfer RNA activates efficient site-specific non-natural amino acid incorporation Albayrak, Cem; Swartz, James R. Nucleic Acids Research, Vol. 41, Issue 11 https://doi.org/10.1093/nar/gkt226	journal	April 2013
Cell-free expression as an emerging technique for the large scale production of integral membrane protein Klammt, Christian; Schwarz, Daniel; Lohr, Frank FEBS Journal, Vol. 273, Issue 18, p. 4141-4153 https://doi.org/10.1111/j.1742-4658.2006.05432.x	journal	September 2006
BioBits™ Explorer: A modular synthetic biology education kit Huang, Ally; Nguyen, Peter Q.; Stark, Jessica C. Science Advances, Vol. 4, Issue 8 https://doi.org/10.1126/sciadv.aat5105	journal	August 2018
BioBits™ Bright: A fluorescent synthetic biology education kit Stark, Jessica C.; Huang, Ally; Nguyen, Peter Q. Science Advances, Vol. 4, Issue 8 https://doi.org/10.1126/sciadv.aat5107	journal	August 2018
Cell-free production of scFv fusion proteins: an efficient approach for personalized lymphoma vaccines Kanter, Gregory; Yang, Junhao; Voloshin, Alexei Blood, Vol. 109, Issue 8 https://doi.org/10.1182/blood-2006-07-030593	journal	December 2006
Synthetic metabolic engineering-a novel, simple technology for designing a chimeric metabolic pathway Ye, Xiaoting; Honda, Kohsuke; Sakai, Takaaki Microbial Cell Factories, Vol. 11, Issue 1 https://doi.org/10.1186/1475-2859-11-120	journal	January 2012
A Continuous-Exchange Cell-Free Protein Synthesis System Based on Extracts from Cultured Insect Cells Stech, Marlitt; Quast, Robert B.; Sachse, Rita PLoS ONE, Vol. 9, Issue 5 https://doi.org/10.1371/journal.pone.0096635	journal	May 2014
Column-Free Purification Methods for Recombinant Proteins Using Self-Cleaving Aggregating Tags Fan, Yamin; Miozzi, Jackelyn; Stimple, Samuel Polymers, Vol. 10, Issue 5 https://doi.org/10.3390/polym10050468	journal	April 2018
The therapeutic monoclonal antibody market Ecker, Dawn M.; Jones, Susan Dana; Levine, Howard L. mAbs, Vol. 7, Issue 1 https://doi.org/10.4161/19420862.2015.989042	journal	January 2015

Cited By (5)

DNA amplification with in situ nucleoside to dNTP synthesis, using a single recombinant cell lysate of E. coli Loan, Thomas D.; Easton, Christopher J.; Alissandratos, Apostolos Scientific Reports, Vol. 9, Issue 1 https://doi.org/10.1038/s41598-019-51917-z	journal	October 2019
Bacterial microcompartments: catalysis-enhancing metabolic modules for next generation metabolic and biomedical engineering Kirst, Henning; Kerfeld, Cheryl A. BMC Biology, Vol. 17, Issue 1 https://doi.org/10.1186/s12915-019-0691-z	journal	October 2019
Non-canonical amino acid labeling in proteomics and biotechnology Saleh, Aya M.; Wilding, Kristen M.; Calve, Sarah Journal of Biological Engineering, Vol. 13, Issue 1 https://doi.org/10.1186/s13036-019-0166-3	journal	May 2019
Optimizing Cell-Free Protein Synthesis for Increased Yield and Activity of Colicins Jin, Xing; Kightlinger, Weston; Hong, Seok Hoon Methods and Protocols, Vol. 2, Issue 2 https://doi.org/10.3390/mps2020028	journal	April 2019
Towards On-Demand E. coli-Based Cell-Free Protein Synthesis of Tissue Plasminogen Activator Yang, Seung-Ook; Nielsen, Gregory H.; Wilding, Kristen M. Methods and Protocols, Vol. 2, Issue 2 https://doi.org/10.3390/mps2020052	journal	June 2019

Similar Records

Cell-Free Protein Synthesis for High-Throughput Biosynthetic Pathway Prototyping

Journal Article · Tue Jan 04 23:00:00 EST 2022 · Methods in Molecular Biology · OSTI ID:2298963

Cell-free metabolic engineering: Biomanufacturing beyond the cell

Journal Article · Wed Oct 15 00:00:00 EDT 2014 · BIOTECHNOLOGY JOURNAL · OSTI ID:1210968

Self-Assembling Cell-Free Systems for Scalable Bioconversion

Technical Report · Sat Nov 30 23:00:00 EST 2024 · OSTI ID:2565661

Related Subjects

59 BASIC BIOLOGICAL SCIENCES
Biotechnology & Applied Microbiology
Engineering

Cell-free biomanufacturing

Citation Formats

References (66)

Cited By (5)

Similar Records

Related Subjects