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Title: Synthetic Biochemistry: The Bio-inspired Cell-Free Approach to Commodity Chemical Production

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Trends in Biotechnology
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Journal Name: Trends in Biotechnology Journal Volume: 38 Journal Issue: 7; Journal ID: ISSN 0167-7799
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Bowie, James U., Sherkhanov, Saken, Korman, Tyler P., Valliere, Meaghan A., Opgenorth, Paul H., and Liu, Hongjiang. Synthetic Biochemistry: The Bio-inspired Cell-Free Approach to Commodity Chemical Production. Netherlands: N. p., 2020. Web.
Bowie, James U., Sherkhanov, Saken, Korman, Tyler P., Valliere, Meaghan A., Opgenorth, Paul H., & Liu, Hongjiang. Synthetic Biochemistry: The Bio-inspired Cell-Free Approach to Commodity Chemical Production. Netherlands.
Bowie, James U., Sherkhanov, Saken, Korman, Tyler P., Valliere, Meaghan A., Opgenorth, Paul H., and Liu, Hongjiang. Wed . "Synthetic Biochemistry: The Bio-inspired Cell-Free Approach to Commodity Chemical Production". Netherlands.
title = {Synthetic Biochemistry: The Bio-inspired Cell-Free Approach to Commodity Chemical Production},
author = {Bowie, James U. and Sherkhanov, Saken and Korman, Tyler P. and Valliere, Meaghan A. and Opgenorth, Paul H. and Liu, Hongjiang},
abstractNote = {},
doi = {10.1016/j.tibtech.2019.12.024},
journal = {Trends in Biotechnology},
number = 7,
volume = 38,
place = {Netherlands},
year = {2020},
month = {7}

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Works referenced in this record:

Optimization of a blueprint for in vitro glycolysis by metabolic real-time analysis
journal, March 2011

  • Bujara, Matthias; Schümperli, Michael; Pellaux, René
  • Nature Chemical Biology, Vol. 7, Issue 5
  • DOI: 10.1038/nchembio.541

Synthetic and systems biology for microbial production of commodity chemicals
journal, April 2016

  • Chubukov, Victor; Mukhopadhyay, Aindrila; Petzold, Christopher J.
  • npj Systems Biology and Applications, Vol. 2, Issue 1
  • DOI: 10.1038/npjsba.2016.9

A synthetic biochemistry module for production of bio-based chemicals from glucose
journal, April 2016

  • Opgenorth, Paul H.; Korman, Tyler P.; Bowie, James U.
  • Nature Chemical Biology, Vol. 12, Issue 6
  • DOI: 10.1038/nchembio.2062

Simplified in Vitro and in Vivo Bioaccess to Prenylated Compounds
journal, April 2019

In vitro metabolic engineering for the production of α-ketoglutarate
journal, March 2017

Hydrogenesis in hyperthermophilic microorganisms: Implications for biofuels
journal, November 2008

  • Chou, Chung-Jung; Jenney, Francis E.; Adams, Michael W.W.
  • Metabolic Engineering, Vol. 10, Issue 6, p. 394-404
  • DOI: 10.1016/j.ymben.2008.06.007

An Artificial Pathway for Isoprenoid Biosynthesis Decoupled from Native Hemiterpene Metabolism
journal, January 2019

Developmental strategies and regulation of cell-free enzyme system for ethanol production: a molecular prospective
journal, October 2014

  • Khattak, Waleed Ahmad; Ullah, Muhammad Wajid; Ul-Islam, Mazhar
  • Applied Microbiology and Biotechnology, Vol. 98, Issue 23
  • DOI: 10.1007/s00253-014-6154-0

A molecular rheostat maintains ATP levels to drive a synthetic biochemistry system
journal, July 2017

  • Opgenorth, Paul H.; Korman, Tyler P.; Iancu, Liviu
  • Nature Chemical Biology, Vol. 13, Issue 9
  • DOI: 10.1038/nchembio.2418

Metabolite damage and repair in metabolic engineering design
journal, November 2017

High-yield hydrogen production from biomass by in vitro metabolic engineering: Mixed sugars coutilization and kinetic modeling
journal, April 2015

  • Rollin, Joseph A.; Martin del Campo, Julia; Myung, Suwan
  • Proceedings of the National Academy of Sciences, Vol. 112, Issue 16
  • DOI: 10.1073/pnas.1417719112

Improved strategies for electrochemical 1,4-NAD(P)H2 regeneration: A new era of bioreactors for industrial biocatalysis
journal, January 2018

Beyond detergent micelles: The advantages and applications of non-micellar and lipid-based membrane mimetics for solution-state NMR
journal, October 2019

In vitro production of n-butanol from glucose
journal, November 2013

Production of biofuels and biochemicals by in vitro synthetic biosystems: Opportunities and challenges
journal, November 2015

Cell free biosynthesis of isoprenoids from isopentenol
journal, September 2019

  • Ward, Valerie C. A.; Chatzivasileiou, Alkiviadis Orfefs; Stephanopoulos, Gregory
  • Biotechnology and Bioengineering, Vol. 116, Issue 12
  • DOI: 10.1002/bit.27146

Metabolic engineering for the microbial production of 1,3-propanediol
journal, October 2003

Enzymatic production of biohydrogen: Biotechnology
journal, June 2000

  • Woodward, Jonathan; Orr, Mark; Cordray, Kimberley
  • Nature, Vol. 405, Issue 6790, p. 1014-1015
  • DOI: 10.1038/35016633

The isoprenoid alcohol pathway, a synthetic route for isoprenoid biosynthesis
journal, June 2019

  • Clomburg, James M.; Qian, Shuai; Tan, Zaigao
  • Proceedings of the National Academy of Sciences, Vol. 116, Issue 26
  • DOI: 10.1073/pnas.1821004116

Two-step pathway for isoprenoid synthesis
journal, December 2018

  • Chatzivasileiou, Alkiviadis Orfefs; Ward, Valerie; Edgar, Steven McBride
  • Proceedings of the National Academy of Sciences, Vol. 116, Issue 2
  • DOI: 10.1073/pnas.1812935116

Engineering the third wave of biocatalysis
journal, May 2012

  • Bornscheuer, U. T.; Huisman, G. W.; Kazlauskas, R. J.
  • Nature, Vol. 485, Issue 7397
  • DOI: 10.1038/nature11117

Assembly and multiple gene expression of thermophilic enzymes in Escherichia coli for in vitro metabolic engineering : Multiple Expression of Thermophilic Enzymes
journal, September 2014

  • Ninh, Pham Huynh; Honda, Kohsuke; Sakai, Takaaki
  • Biotechnology and Bioengineering, Vol. 112, Issue 1
  • DOI: 10.1002/bit.25338

Construction and evolution of an Escherichia coli strain relying on nonoxidative glycolysis for sugar catabolism
journal, March 2018

  • Lin, Paul P.; Jaeger, Alec J.; Wu, Tung-Yun
  • Proceedings of the National Academy of Sciences, Vol. 115, Issue 14
  • DOI: 10.1073/pnas.1802191115

Two-phase partitioning bioreactors in fermentation technology
journal, November 2001

A mass spectrometry approach for the identification and localization of small aldehyde modifications of proteins
journal, May 2018

  • Afonso, Catarina B.; Sousa, Bebiana C.; Pitt, Andrew R.
  • Archives of Biochemistry and Biophysics, Vol. 646
  • DOI: 10.1016/

Substrate channeling and enzyme complexes for biotechnological applications
journal, November 2011

Lysate of engineered Escherichia coli supports high-level conversion of glucose to 2,3-butanediol
journal, November 2015

Development of a commercial scale process for production of 1,4-butanediol from sugar
journal, December 2016

Nanodiscs in Membrane Biochemistry and Biophysics
journal, February 2017

GPCR–styrene maleic acid lipid particles (GPCR–SMALPs): their nature and potential
journal, April 2016

  • Wheatley, Mark; Charlton, Jack; Jamshad, Mohammed
  • Biochemical Society Transactions, Vol. 44, Issue 2
  • DOI: 10.1042/BST20150284

Principles of Protein Stability and Their Application in Computational Design
journal, June 2018

Recent advances in systems metabolic engineering tools and strategies
journal, October 2017

Directed evolution of enzyme stability
journal, June 2005

  • Eijsink, Vincent G. H.; Gåseidnes, Sigrid; Borchert, Torben V.
  • Biomolecular Engineering, Vol. 22, Issue 1-3
  • DOI: 10.1016/j.bioeng.2004.12.003

Stabilizing membrane proteins
journal, August 2001

An Overview of Bioinspired and Biomimetic Self-Repairing Materials
journal, March 2019

Transforming biochemical engineering with cell-free biology
journal, December 2011

An integrated cell-free metabolic platform for protein production and synthetic biology
journal, October 2008

  • Jewett, Michael C.; Calhoun, Kara A.; Voloshin, Alexei
  • Molecular Systems Biology, Vol. 4, Issue 1, Article No. 220
  • DOI: 10.1038/msb.2008.57

‘Nothing of chemistry disappears in biology’: the Top 30 damage-prone endogenous metabolites
journal, June 2016

  • Lerma-Ortiz, Claudia; Jeffryes, James G.; Cooper, Arthur J. L.
  • Biochemical Society Transactions, Vol. 44, Issue 3
  • DOI: 10.1042/BST20160073

Efficient multi-enzyme-catalyzed CDP-choline production driven by an ATP donor module
journal, October 2016

  • Liu, Yingmiao; Wang, Junzhi; Xu, Chongmao
  • Applied Microbiology and Biotechnology, Vol. 101, Issue 4
  • DOI: 10.1007/s00253-016-7874-0

Synthetic non-oxidative glycolysis enables complete carbon conservation
journal, September 2013

  • Bogorad, Igor W.; Lin, Tzu-Shyang; Liao, James C.
  • Nature, Vol. 502, Issue 7473
  • DOI: 10.1038/nature12575

Alleviating monoterpene toxicity using a two-phase extractive fermentation for the bioproduction of jet fuel mixtures in Saccharomyces cerevisiae
journal, May 2012

  • Brennan, Timothy C. R.; Turner, Christopher D.; Krömer, Jens O.
  • Biotechnology and Bioengineering, Vol. 109, Issue 10
  • DOI: 10.1002/bit.24536

Rewriting yeast central carbon metabolism for industrial isoprenoid production
journal, September 2016

  • Meadows, Adam L.; Hawkins, Kristy M.; Tsegaye, Yoseph
  • Nature, Vol. 537, Issue 7622
  • DOI: 10.1038/nature19769

A synthetic biochemistry platform for cell free production of monoterpenes from glucose
journal, May 2017

  • Korman, Tyler P.; Opgenorth, Paul H.; Bowie, James U.
  • Nature Communications, Vol. 8, Issue 1
  • DOI: 10.1038/ncomms15526

Emerging Enzymes for ATP Regeneration in Biocatalytic Processes
journal, January 2015

Recent developments in pyridine nucleotide regeneration
journal, August 2003

A high-energy-density sugar biobattery based on a synthetic enzymatic pathway
journal, January 2014

  • Zhu, Zhiguang; Kin Tam, Tsz; Sun, Fangfang
  • Nature Communications, Vol. 5, Issue 1
  • DOI: 10.1038/ncomms4026

Yeast cell-free enzyme system for bio-ethanol production at elevated temperatures
journal, March 2014

A synthetic biochemistry molecular purge valve module that maintains redox balance
journal, June 2014

  • Opgenorth, Paul H.; Korman, Tyler P.; Bowie, James U.
  • Nature Communications, Vol. 5, Issue 1
  • DOI: 10.1038/ncomms5113

Dynamic metabolic control: towards precision engineering of metabolism
journal, January 2018

  • Liu, Di; Mannan, Ahmad A.; Han, Yichao
  • Journal of Industrial Microbiology & Biotechnology, Vol. 45, Issue 7
  • DOI: 10.1007/s10295-018-2013-9

An in vitro synthetic biology platform for the industrial biomanufacturing of myo-inositol from starch: Biomanufacturing by In Vitro Synthetic Biology
journal, May 2017

  • You, Chun; Shi, Ting; Li, Yunjie
  • Biotechnology and Bioengineering, Vol. 114, Issue 8
  • DOI: 10.1002/bit.26314

In vitro metabolic engineering of hydrogen production at theoretical yield from sucrose
journal, July 2014

Regeneration of cofactors for use in biocatalysis
journal, December 2003

Challenges in Engineering Microbes for Biofuels Production
journal, February 2007

Building a Thermostable Membrane Protein
journal, March 2000

Cell-Free Metabolic Engineering: Production of Chemicals by Minimized Reaction Cascades
journal, October 2012

Cell-free synthetic biology: Thinking outside the cell
journal, May 2012

Diverse Bacterial Microcompartment Organelles
journal, September 2014

  • Chowdhury, C.; Sinha, S.; Chun, S.
  • Microbiology and Molecular Biology Reviews, Vol. 78, Issue 3
  • DOI: 10.1128/MMBR.00009-14

A cell-free platform for the prenylation of natural products and application to cannabinoid production
journal, February 2019

  • Valliere, Meaghan A.; Korman, Tyler P.; Woodall, Nicholas B.
  • Nature Communications, Vol. 10, Issue 1
  • DOI: 10.1038/s41467-019-08448-y

A synthetic pathway for the fixation of carbon dioxide in vitro
journal, November 2016

  • Schwander, Thomas; Schada von Borzyskowski, Lennart; Burgener, Simon
  • Science, Vol. 354, Issue 6314
  • DOI: 10.1126/science.aah5237

A review of beetle hindwings: Structure, mechanical properties, mechanism and bioinspiration
journal, June 2019

  • Sun, Jiyu; Liu, Chao; Bhushan, Bharat
  • Journal of the Mechanical Behavior of Biomedical Materials, Vol. 94
  • DOI: 10.1016/j.jmbbm.2019.02.031

Mimicking theEscherichia coli cytoplasmic environment activates long-lived and efficient cell-free protein synthesis
journal, January 2004

  • Jewett, Michael C.; Swartz, James R.
  • Biotechnology and Bioengineering, Vol. 86, Issue 1
  • DOI: 10.1002/bit.20026

Cell-free synthetic biology for in vitro prototype engineering
journal, June 2017

  • Moore, Simon J.; MacDonald, James T.; Freemont, Paul S.
  • Biochemical Society Transactions, Vol. 45, Issue 3
  • DOI: 10.1042/BST20170011

High-Yield Hydrogen Production from Starch and Water by a Synthetic Enzymatic Pathway
journal, May 2007

  • Zhang, Y.-H. Percival; Evans, Barbara R.; Mielenz, Jonathan R.
  • PLoS ONE, Vol. 2, Issue 5, Article No. e456
  • DOI: 10.1371/journal.pone.0000456

An artificial synthetic pathway for acetoin, 2,3-butanediol, and 2-butanol production from ethanol using cell free multi-enzyme catalysis
journal, January 2018

  • Zhang, Liaoyuan; Singh, Raushan; D., Sivakumar
  • Green Chemistry, Vol. 20, Issue 1
  • DOI: 10.1039/C7GC02898A

Biosynthesis of D-xylulose 5-phosphate from D-xylose and polyphosphate through a minimized two-enzyme cascade: Biosynthesis of D-Xylulose 5-Phosphate
journal, September 2015

  • Kim, Jae-Eung; Zhang, Y. -H. Percival
  • Biotechnology and Bioengineering, Vol. 113, Issue 2
  • DOI: 10.1002/bit.25718

Five hard truths for synthetic biology
journal, January 2010

Expanding biological applications using cell-free metabolic engineering: An overview
journal, November 2018

Structure and function of the radical enzyme ribonucleotide reductase
journal, November 2001

  • Eklund, Hans; Uhlin, Ulla; Färnegårdh, Mathias
  • Progress in Biophysics and Molecular Biology, Vol. 77, Issue 3
  • DOI: 10.1016/S0079-6107(01)00014-1

CO2 fixation for malate synthesis energized by starch via in vitro metabolic engineering
journal, September 2019

High-Yield Production of Dihydrogen from Xylose by Using a Synthetic Enzyme Cascade in a Cell-Free System
journal, March 2013

  • Martín del Campo, Julia S.; Rollin, Joseph; Myung, Suwan
  • Angewandte Chemie International Edition, Vol. 52, Issue 17
  • DOI: 10.1002/anie.201300766

O 2 sensitivity and H 2 production activity of hydrogenases—A review
journal, August 2019

  • Lu, Yuan; Koo, Jamin
  • Biotechnology and Bioengineering, Vol. 116, Issue 11
  • DOI: 10.1002/bit.27136

Into new territory: improved microbial synthesis through engineering of the essential metabolic network
journal, April 2016