1.中国科学院天津工业生物技术研究所低碳合成工程生物学(全国)重点实验室,天津 300308
2.中国科学院天津工业生物技术研究所体外合成生物学中心,天津 300308
3.合成生物学海河实验室,天津 300308
4.上海交通大学生命科学技术学院,微生物代谢国家重点实验室,上海 200240
5.华东理工大学生物反应器工程国家重点实验室,上海 200237
[ "石婷(1984—),女,博士,副研究员。研究方向为体外合成生物学、酶工程与微生物代谢工程。 E-mail:shi_ting@tib.cas.cn" ]
[ "宋展(1996—),女,博士研究生。研究方向为体外合成生物学、酶工程和代谢工程。 E-mail:song_zhan@sjtu.edu.cn" ]
[ "张以恒(1971—),男,博士,研究员,中国科学院天津工业生物技术研究所低碳合成工程生物学(全国)重点实验室主任,曾任美国弗吉尼亚理工大学终身正教授。研究方向为体外合成生物学、新质生物制造、生物炼制和淀粉储能。E-mail:zhang_xw@tib.cas.cn" ]
收稿:2024-01-07,
修回:2024-03-11,
纸质出版:2024-12-31
移动端阅览
石婷, 宋展, 宋世怡, 张以恒. 体外生物转化(ivBT):生物制造的新前沿[J]. 合成生物学, 2024, 5(6): 1437-1460
SHI Ting, SONG Zhan, SONG Shiyi, ZHANG Yi-Heng P. Job. In vitro BioTransformation (ivBT): a new frontier of industrial biomanufacturing[J]. Synthetic Biology Journal, 2024, 5(6): 1437-1460
石婷, 宋展, 宋世怡, 张以恒. 体外生物转化(ivBT):生物制造的新前沿[J]. 合成生物学, 2024, 5(6): 1437-1460 DOI: 10.12211/2096-8280.2024-004.
SHI Ting, SONG Zhan, SONG Shiyi, ZHANG Yi-Heng P. Job. In vitro BioTransformation (ivBT): a new frontier of industrial biomanufacturing[J]. Synthetic Biology Journal, 2024, 5(6): 1437-1460 DOI: 10.12211/2096-8280.2024-004.
人类社会的重大挑战(如粮食安全、能源安全、气候变化与双碳目标等)驱动全社会寻求创新型技术解决方案。体外生物转化(
in vitro
biotransformation,ivBT)是介于微生物发酵与酶催化之间的新质生物制造平台,多酶分子机器是其超限生物催化剂。它基于大道至简原则,利用多个天然酶、人工酶以及(仿生/天然)辅酶等重构生化途径,摆脱生物体生存局限(如细胞复制、基础代谢、复杂调控和能量供给等),超越细胞合成极限,实现重要生物转化与超限能量转换,尤其是生产低值大宗产品与新能源产品等。工业生物制造的三个平台技术分别是基于细胞工厂的发酵、基于酶分子的生物催化与基于多酶分子机器的ivBT。本综述对ivBT给出明确定义,阐明其多酶途径设计原则与产业化技术研发路径,比较该平台与现有生物制造平台相似性与不同点,介绍多个代表性案例,以及讨论其未来的机会与挑战。ivBT技术发展采用设计-构建-判决-优化的线性策略,开发能够满足国家需求的超高效多酶分子机器。利用ivBT有望形成超过30万亿元生物产品的工业生物制造,助力实现人类社会的多项重要需求,如粮食安全、新型能源体系等。人造淀粉不仅可以帮助中国端牢粮食饭碗,而且将是一个全新且安全的高密度储氢载体(比压缩氢气高2.5倍)与高能储电介质(比锂电池高10倍)。
Huge challenges
such as food security
energy security
climate change
dual-carbon target
and so on
motivate human society to seek disruptive and innovative solutions.
In vitro
biotransformation (ivBT)
bridging the gap between whole-cell-based fermentation and enzyme-based biocatalysis
is an emerging biomanufacturing platform designed for the production of biocommodities (
e.g
.
sy
nthetic starch
healthy sweeteners
organic acids
etc.
) and bioenergy. In ivBT
in vitro
synthetic enzymatic biosystem (ivSEB) is its high-efficiency biocatalyst. Based on the Chinese philosophy that “Tao is simple”
ivSEB is the
in vitro
reconstruction of artificial (non-natural) enzymatic pathways with a number of natural enzymes
artificial enzymes
and/or (biomimetic or natural) coenzymes
and/or artificial membrane
without living cell’s constraints
such as cell duplication
bioenergetics
basic metabolisms
regulation
and so on. ivBT enables it to surpass the limitations of whole-cell fermentation and has multiple advantages
such as theoretical product yield
at least 10-time volumetric productivity
tolerance to toxic substrate/product
and so on. This review defines the concept of ivBT
presents its design principles
distinguishes it from other seemingly-like concepts
such as cell-free protein synthesis and cascade enzyme biocatalysis
introduces several representative examples
and discusses its challenges and opportunities. The development of ivBT is based on the linear strategy of “Design-Build-GoNG-Optimization”
leading to super-biomanufacturing machines that can meet national needs
such as food security and new energy system. To address food security
we propose two out-of-the-box solutions: (1)
in vitro
biotransformation of cellulose to starch
possibly increasing the starch supply by a factor of 10; (2) artificial starch synthesis from CO
2
by combining ivBT and chemical catalysis. Furthermore
the revolutionary production of starch could open a door to the starch-based carbohydrate economy
wherein starch is a high-density hydrogen carrier
more than 2.5 times that of compressed hydrogen
and an ultra-high electricity storage compound
more than 10 times of lithium-ion battery. In a word
ivBT featuring ultra-high energy efficiency and potentially-low-cost production could become a third industrial biomanufacturi
ng platform and help solve huge challenges.
2
ZHANG Y H P , SUN J B , MA Y H . Biomanufacturing: history and perspective [J ] . Journal of Industrial Microbiology & Biotechnology , 2017 , 44 ( 4-5 ): 773 - 784 .
CLOMBURG J M , CRUMBLEY A M , GONZALEZ R . Industrial biomanufacturing: the future of chemical production [J ] . Science , 2017 , 355 ( 6320 ): aag0804 .
SCOWN C D . Prospects for carbon-negative biomanufacturing [J ] . Trends in Biotechnology , 2022 , 40 ( 12 ): 1415 - 1424 .
ROLLIN J A , YE X H , MARTIN DEL CAMPO J , et al . Novel hydrogen bioreactor and detection apparatus [M/OL ] //BAO J, YE Q, ZHONG J J. Bioreactor engineering research and industrial applications Ⅱ . Advances in biochemical engineering/biotechnology. Berlin, Heidelberg: Springer, 2014 [2023-12-01] . https://link.springer.com/chapter/10.1007/10_2014_274 https://link.springer.com/chapter/10.1007/10_2014_274 .
ZHANG Y H P . Production of biocommodities and bioelectricity by cell-free synthetic enzymatic pathway biotransformations: challenges and opportunities [J ] . Biotechnology and Bioengineering , 2010 , 105 ( 4 ): 663 - 677 .
ZHANG Y H P . Substrate channeling and enzyme complexes for biotechnological applications [J ] . Biotechnology Advances , 2011 , 29 ( 6 ): 715 - 725 .
ZHANG Y H P . What is vital (and not vital) to advance economically-competitive biofuels production [J ] . Process Biochemistry , 2011 , 46 ( 11 ): 2091 - 2110 .
ZHANG Y H P . Production of biofuels and biochemicals by in vitro synthetic biosystems: opportunities and challenges [J ] . Biotechnology Advances , 2015 , 33 ( 7 ): 1467 - 1483 .
ZHANG Y H P , ZHU Z G , YOU C , et al . In vitro BioTransformation (ivBT): definitions, opportunities, and challenges [J ] . Synthetic Biology and Engineering , 2023 , 1 ( 2 ): 10013 .
THAUER R K , JUNGERMANN K , DECKER K . Energy conservation in chemotrophic anaerobic bacteria [J ] . Bacteriological Reviews , 1977 , 41 ( 1 ): 100 - 180 .
ZHANG Y H , EVANS B R , MIELENZ J R , et al . High-yield hydrogen production from starch and water by a synthetic enzymatic pathway [J ] . PLoS One , 2007 , 2 ( 5 ): e456 .
KIM J E , KIM E J , CHEN H , et al . Advanced water splitting for green hydrogen gas production through complete oxidation of starch by in vitro metabolic engineering [J ] . Metabolic Engineering , 2017 , 44 : 246 - 252 .
YOU C , CHEN H G , MYUNG S , et al . Enzymatic transformation of nonfood biomass to starch [J ] . Proceedings of the National Academy of Sciences of the United States of America , 2013 , 110 ( 18 ): 7182 - 7187 .
XU X X , ZHANG W , YOU C , et al . Biosynthesis of artificial starch and microbial protein from agricultural residue [J ] . Science Bulletin , 2023 , 68 ( 2 ): 214 - 223 .
ZHANG Y H P . Simpler is better: high-yield and potential low-cost biofuels production through cell-free synthetic pathway biotransformation (SyPaB) [J ] . ACS Catalysis , 2011 , 1 ( 9 ): 998 - 1009 .
HAN P P , WANG X Y , LI Y J , et al . Synthesis of a healthy sweetener D-tagatose from starch catalyzed by semiartificial cell factories [J ] . Journal of Agricultural and Food Chemistry , 2023 , 71 ( 8 ): 3813 - 3820 .
LI Y J , SHI T , HAN P P , et al . Thermodynamics-driven production of value-added D-allulose from inexpensive starch by an in vitro enzymatic synthetic biosystem [J ] . ACS Catalysis , 2021 , 11 ( 9 ): 5088 - 5099 .
YOU C , SHI T , LI Y J , et al . An in vitro synthetic biology platform for the industrial biomanufacturing of myo -inositol from starch [J ] . Biotechnology and Bioengineering , 2017 , 114 ( 8 ): 1855 - 1864 .
CHEN H G , ZHANG Y H P J . Enzymatic regeneration and conservation of ATP: challenges and opportunities [J ] . Critical Reviews in Biotechnology , 2021 , 41 ( 1 ): 16 - 33 .
SHI T , HAN P P , YOU C , et al . An in vitro synthetic biology platform for emerging industrial biomanufacturing: bottom-up pathway design [J ] . Synthetic and Systems Biotechnology , 2018 , 3 ( 3 ): 186 - 195 .
WICHMANN R , VASIC-RACKI D . Cofactor regeneration at the lab scale [J ] . Advances in Biochemical Engineering/Biotechnology , 2005 , 92 : 225 - 260 .
ZHU Z G , WANG Y R , MINTEER S D , et al . Maltodextrin-powered enzymatic fuel cell through a non-natural enzymatic pathway [J ] . Journal of Power Sources , 2011 , 196 ( 18 ): 7505 - 7509 .
NOWAK C , PICK A , LOMMES P , et al . Enzymatic reduction of nicotinamide biomimetic cofactors using an engineered glucose dehydrogenase: providing a regeneration system for artificial cofactors [J ] . ACS Catalysis , 2017 , 7 ( 8 ): 5202 - 5208 .
SONG Y H , LIU M X , XIE L P , et al . A recombinant 12-His tagged Pyrococcus furiosus soluble [NiFe ] -hydrogenaseⅠoverexpressed in Thermococcus kodakarensis KOD1 facilitates hydrogen-powered in vitro NADH regeneration [J ] . Biotechnology Journal , 2019 , 14 ( 4 ): e1800301 .
ANNE A , BOURDILLON C , DANINOS S , et al . Can the combination of electrochemical regeneration of NAD + , selectivity of L-alpha-amino-acid dehydrogenase, and reductive amination of alpha-keto-acid be applied to the inversion of configuration of a L-alpha-amino-acid? [J ] . Biotechnology and Bioengineering , 1999 , 64 ( 1 ): 101 - 107 .
TISHKOV V I , POPOV V O . Protein engineering of formate dehydrogenase [J ] . Biomolecular Engineering , 2006 , 23 ( 2/3 ): 89 - 110 .
WANDREY C . Biochemical reaction engineering for redox reactions [J ] . Chemical Record , 2004 , 4 ( 4 ): 254 - 265 .
INOUE K , MAKINO Y , ITOH N . Purification and characterization of a novel alcohol dehydrogenase from Leifsonia sp. strain S749: a promising biocatalyst for an asymmetric hydrogen transfer bioreduction [J ] . Applied and Environmental Microbiology , 2005 , 71 ( 7 ): 3633 - 3641 .
JOHANNES T W , WOODYER R D , ZHAO H M . Directed evolution of a thermostable phosphite dehydrogenase for NAD(P)H regeneration [J ] . Applied and Environmental Microbiology , 2005 , 71 ( 10 ): 5728 - 5734 .
WANG Y R , ZHANG Y H P . Overexpression and simple purification of the Thermotoga maritima 6-phosphogluconate dehydrogenase in Escherichia coli and its application for NADPH regeneration [J ] . Microbial Cell Factories , 2009 , 8 ( 1 ): 30 .
WANG Y R , HUANG W D , SATHITSUKSANOH N , et al . Biohydrogenation from biomass sugar mediated by in vitro synthetic enzymatic pathways [J ] . Chemistry & Biology , 2011 , 18 ( 3 ): 372 - 380 .
HUANG H , PANDYA C , LIU C L , et al . Panoramic view of a superfamily of phosphatases through substrate profiling [J ] . Proceedings of the National Academy of Sciences of the United States of America , 2015 , 112 ( 16 ): E1974 - E1983 .
VERHEES C H , AKERBOOM J , SCHILTZ E , et al . Molecular and biochemical characterization of a distinct type of fructose-1,6-bisphosphatase from Pyrococcus furiosus [J ] . Journal of Bacteriology , 2002 , 184 ( 12 ): 3401 - 3405 .
TIAN C Y , YANG J G , LIU C , et al . Engineering substrate specificity of HAD phosphatases and multienzyme systems development for the thermodynamic-driven manufacturing sugars [J ] . Nature Communications , 2022 , 13 ( 1 ): 3582 .
WANG W , LIU M X , YOU C , et al . ATP-free biosynthesis of a high-energy phosphate metabolite fructose 1,6-diphosphate by in vitro metabolic engineering [J ] . Metabolic Engineering , 2017 , 42 : 168 - 174 .
ZHOU W , YOU C , MA H W , et al . One-pot biosynthesis of high-concentration α-glucose 1-phosphate from starch by sequential addition of three hyperthermophilic enzymes [J ] . Journal of Agricultural and Food Chemistry , 2016 , 64 ( 8 ): 1777 - 1783 .
SRIVASTAVA D K , BERNHARD S A . Metabolite transfer via enzyme-enzyme complexes [J ] . Science , 1986 , 234 ( 4780 ): 1081 - 1086 .
YOU C , MYUNG S , ZHANG Y H P . Facilitated substrate channeling in a self-assembled trifunctional enzyme complex [J ] . Angewandte Chemie International Edition , 2012 , 51 ( 35 ): 8787 - 8790 .
ZHU Z G , SONG H Y , WANG Y M , et al . Protein engineering for electrochemical biosensors [J ] . Current Opinion in Biotechnology , 2022 , 76 : 102751 .
ZHOU W , HUANG R , ZHU Z G , et al . Coevolution of both thermostability and activity of polyphosphate glucokinase from Thermobifida fusca YX [J ] . Applied and Environmental Microbiology , 2018 , 84 ( 16 ): e01224-18 .
LIU W J , HONG J , BEVAN D R , et al . Fast identification of thermostable beta-glucosidase mutants on cellobiose by a novel combinatorial selection/screening approach [J ] . Biotechnology and Bioengineering , 2009 , 103 ( 6 ): 1087 - 1094 .
MYUNG S , WANG Y R , ZHANG Y H P . Fructose-1,6-bisphosphatase from a hyper-thermophilic bacterium Thermotoga maritima : characterization, metabolite stability, and its implications [J ] . Process Biochemistry , 2010 , 45 ( 12 ): 1882 - 1887 .
ROLLIN J A , TAM T K , ZHANG Y H P . New biotechnology paradigm: cell-free biosystems for biomanufacturing [J ] . Green Chemistry , 2013 , 15 ( 7 ): 1708 - 1719 .
HUANG R , CHEN H , ZHONG C , et al . High-throughput screening of coenzyme preference change of thermophilic 6-phosphogluconate dehydrogenase from NADP + to NAD + [J ] . Scientific Reports , 2016 , 6 : 32644 .
HUANG R , CHEN H , UPP D M , et al . A high-throughput method for directed evolution of NAD(P) + -dependent dehydrogenases for the reduction of biomimetic nicotinamide analogues [J ] . ACS Catalysis , 2019 , 9 ( 12 ): 11709 - 11719 .
MENG D D , LIU M X , SU H , et al . Coenzyme engineering of glucose-6-phosphate dehydrogenase on a nicotinamide-based biomimic and its application as a glucose biosensor [J ] . ACS Catalysis , 2023 , 13 ( 3 ): 1983 - 1998 .
MA C L , WU R R , HUANG R , et al . Directed evolution of a 6-phosphogluconate dehydrogenase for operating an enzymatic fuel cell at lowered anodic pHs [J ] . Journal of Electroanalytical Chemistry , 2019 , 851 : 113444 .
MA C L , LIU M X , YOU C , et al . Engineering a diaphorase via directed evolution for enzymatic biofuel cell application [J ] . Bioresources and Bioprocessing , 2020 , 7 : 23 .
JUMPER J , EVANS R , PRITZEL A , et al . Highly accurate protein structure prediction with AlphaFold [J ] . Nature , 2021 , 596 ( 7873 ): 583 - 589 .
LIU J , GUO Z Y , WU T Q , et al . Enhancing alphafold-multimer-based protein complex structure prediction with MULTICOM in CASP15 [J ] . Communications Biology , 2023 , 6 : 1140 .
STAHL K , GRAZIADEI A , DAU T , et al . Protein structure prediction with in-cell photo-crosslinking mass spectrometry and deep learning [J ] . Nature Biotechnology , 2023 , 41 ( 12 ): 1810 - 1819 .
MYUNG S , ZHANG Y H . Non-complexed four cascade enzyme mixture: simple purification and synergetic co-stabilization [J ] . PLoS One , 2013 , 8 ( 4 ): e61500 .
FREEMAN A , WOODLEY J M , LILLY M D . In situ product removal as a tool for bioprocessing [J ] . Nature Biotechnology , 1993 , 11 ( 9 ): 1007 - 1012 .
LI H P , YOU Z N , LIU Y Y , et al . Continuous-flow microreactor-enhanced clean NAD + regeneration for biosynthesis of 7-oxo-lithocholic acid [J ] . ACS Sustainable Chemistry & Engineering , 2022 , 10 ( 1 ): 456 - 463 .
VASIC-RACKI D . History of industrial biotransformations-dreams and realities [M/OL ] //LIESE A, SEEBALD S, WANDREY C. 2nd Edition . Industrial biotransformations. Weinheim: Wiley-VCH, KGaA , 2006[2023-12-01] . https://onlinelibrary.wiley.com/doi/abs/10.1002/9783527608188.ch1 https://onlinelibrary.wiley.com/doi/abs/10.1002/9783527608188.ch1 .
MICHELS P , ROSAZZA J . The evolution of microbial transformations for industrial applications [J ] . SIM News , 2009 , 2009 : 36 - 52 .
FU J L , YANG Y R , JOHNSON-BUCK A , et al . Multi-enzyme complexes on DNA scaffolds capable of substrate channelling with an artificial swinging arm [J ] . Nature Nanotechnology , 2014 , 9 ( 7 ): 531 - 536 .
LIN J L , PALOMEC L , WHEELDON I . Design and analysis of enhanced catalysis in scaffolded multienzyme cascade reactions [J ] . ACS Catalysis , 2014 , 4 ( 2 ): 505 - 511 .
FRANCE S P , HEPWORTH L J , TURNER N J , et al . Constructing biocatalytic cascades: in vitro and in vivo approaches to de novo multi-enzyme pathways [J ] . ACS Catalysis , 2017 , 7 ( 1 ): 710 - 724 .
WOODLEY J M . Accelerating the implementation of biocatalysis in industry [J ] . Applied Microbiology and Biotechnology , 2019 , 103 ( 12 ): 4733 - 4739 .
DE WILDEMAN S M , SONKE T , SCHOEMAKER H E , et al . Biocatalytic reductions: from lab curiosity to “first choice” [J ] . Accounts of Chemical Research , 2007 , 40 ( 12 ): 1260 - 1266 .
BOZIC M , PRICELIUS S , GUEBITZ G M , et al . Enzymatic reduction of complex redox dyes using NADH-dependent reductase from Bacillus subtilis coupled with cofactor regeneration [J ] . Applied Microbiology and Biotechnology , 2010 , 85 ( 3 ): 563 - 571 .
XU Z N , JING K J , LIU Y , et al . High-level expression of recombinant glucose dehydrogenase and its application in NADPH regeneration [J ] . Journal of Industrial Microbiology & Biotechnology , 2007 , 34 ( 1 ): 83 - 90 .
MERTENS R , LIESE A . Biotechnological applications of hydrogenases [J ] . Current Opinion in Biotechnology , 2004 , 15 ( 4 ): 343 - 348 .
JOHANNES T W , WOODYER R D , ZHAO H M . Efficient regeneration of NADPH using an engineered phosphite dehydrogenase [J ] . Biotechnology and Bioengineering , 2007 , 96 ( 1 ): 18 - 26 .
NAM K Y , STRUCK D K , HOLTZAPPLE M T . ATP regeneration by thermostable ATP synthase [J ] . Biotechnology and Bioengineering , 1996 , 51 ( 3 ): 305 - 316 .
RESNICK S M , ZEHNDER A J . In vitro ATP regeneration from polyphosphate and AMP by polyphosphate: A MP phosphotransferase and adenylate kinase from Acinetobacter johnsonii 210A [J ] . Applied and Environmental Microbiology , 2000 , 66 ( 5 ): 2045 - 2051 .
FRANKE D , MACHAJEWSKI T , HSU C C , et al . One-pot synthesis of L-fructose using coupled multienzyme systems based on rhamnulose-1-phosphate aldolase [J ] . The Journal of Organic Chemistry , 2003 , 68 ( 17 ): 6828 - 6831 .
SCHOEVAART R , VAN RANTWIJK F , SHELDON R A . A four-step enzymatic cascade for the one-pot synthesis of non-natural carbohydrates from glycerol [J ] . The Journal of Organic Chemistry , 2000 , 65 ( 21 ): 6940 - 6943 .
ZHANG J B , SHAO J , KOWAL P , et al ., Enzymatic synthesis of oligosaccharides [M/OL ] //WONG C H. Carbohydrate-based drug discovery . Weinheim: Wiley-VCH Verlag GmbH & Co, KGaA, 2005 , 137 - 167 [2023-12-01] . https://onlinelibrary.wiley.com/doi/10.1002/3527602437.ch6 https://onlinelibrary.wiley.com/doi/10.1002/3527602437.ch6 .
FESSNER W D , HELAINE V . Biocatalytic synthesis of hydroxylated natural products using aldolases and related enzymes [J ] . Current Opinion in Biotechnology , 2001 , 12 ( 6 ): 574 - 586 .
FESSNER W D . Enzyme mediated C—C bond formation [J ] . Current Opinion in Chemical Biology , 1998 , 2 ( 1 ): 85 - 97 .
ENDO T , KOIZUMI S . Large-scale production of oligosaccharides using engineered bacteria [J ] . Current Opinion in Structural Biology , 2000 , 10 ( 5 ): 536 - 541 .
FESSNER W D . Systems Biocatalysis: development and engineering of cell-free “artificial metabolisms” for preparative multi-enzymatic synthesis [J ] . New Biotechnology , 2015 , 32 ( 6 ): 658 - 664 .
HUANG K T , WU B C , LIN C C , et al . Multi-enzyme one-pot strategy for the synthesis of sialyl Lewis X-containing PSGL-1 glycopeptide [J ] . Carbohydrate Research , 2006 , 341 ( 12 ): 2151 - 2155 .
SWARTZ J R . Cell-free bioprocessing [J ] . Chemical Engineering Progress , 2013 , 2013( 11 ): 40 - 45 .
CARLSON E D , GAN R , HODGMAN C E , et al . Cell-free protein synthesis: applications come of age [J ] . Biotechnology Advances , 2012 , 30 ( 5 ): 1185 - 1194 .
SHIMIZU Y , INOUE A , TOMARI Y , et al . Cell-free translation reconstituted with purified components [J ] . Nature Biotechnology , 2001 , 19 ( 8 ): 751 - 755 .
KARIM A S , JEWETT M C . A cell-free framework for rapid biosynthetic pathway prototyping and enzyme discovery [J ] . Metabolic Engineering , 2016 , 36 : 116 - 126 .
HARRIS D C , JEWETT M C . Cell-free biology: exploiting the interface between synthetic biology and synthetic chemistry [J ] . Current Opinion in Biotechnology , 2012 , 23 ( 5 ): 672 - 678 .
CHIBA C H , KNIRSCH M C , AZZONI A R , et al . Cell-free protein synthesis: advances on production process for biopharmaceuticals and immunobiological products [J ] . BioTechniques , 2021 , 70 ( 2 ): 126 - 133 .
PARDEE K , SLOMOVIC S , NGUYEN P Q , et al . Portable, on-demand biomolecular manufacturing [J ] . Cell , 2016 , 167 ( 1 ): 248 - 259.e12 .
STAMATIS C , FARID S S . Process economics evaluation of cell-free synthesis for the commercial manufacture of antibody drug conjugates [J ] . Biotechnology Journal , 2021 , 16 ( 4 ): e2000238 .
STECH M , RAKOTOARINORO N , TEICHMANN T , et al . Synthesis of fluorescently labeled antibodies using non-canonical amino acids in eukaryotic cell-free systems [J ] . Methods in Molecular Biology , 2021 , 2305 : 175 - 190 .
LÜDDECKE T , PAAS A , TALMANN L , et al . A spider toxin exemplifies the promises and pitfalls of cell-free protein production for venom biodiscovery [J ] . Toxins , 2021 , 13 ( 8 ): 575 .
RAMM F , JACK L , KASER D , et al . Cell-free systems enable the production of AB 5 toxins for diagnostic applications [J ] . Toxins , 2022 , 14 ( 4 ): 233 .
PE’ERY T , MATHEWS M B . Synthesis and purification of single-stranded RNA for use in experiments with PKR and in cell-free translation systems [J ] . Methods , 1997 , 11 ( 4 ): 371 - 381 .
LYND L R , WYMAN C E , GERNGROSS T U . Biocommodity engineering [J ] . Biotechnology Progress , 1999 , 15 ( 5 ): 777 - 793 .
ROLLIN J A , MARTIN DEL CAMPO J , MYUNG S , et al . High-yield hydrogen production from biomass by in vitro metabolic engineering: mixed sugars coutilization and kinetic modeling [J ] . Proceedings of the National Academy of Sciences of the United States of America , 2015 , 112 ( 16 ): 4964 - 4969 .
OPGENORTH P H , KORMAN T P , BOWIE J U . A synthetic biochemistry module for production of bio-based chemicals from glucose [J ] . Nature Chemical Biology , 2016 , 12 ( 6 ): 393 - 395 .
ZHU Z G , KIN TAM T , SUN F F , et al . A high-energy-density sugar biobattery based on a synthetic enzymatic pathway [J ] . Nature Communications , 2014 , 5 : 3026 .
CHENG K , ZHENG W M , CHEN H G , et al . Upgrade of wood sugar D-xylose to a value-added nutraceutical by in vitro metabolic engineering [J ] . Metabolic Engineering , 2019 , 52 : 1 - 8 .
SHI T , LIU S , ZHANG Y P J . CO 2 fixation for malate synthesis energized by starch via in vitro metabolic engineering [J ] . Metabolic Engineering , 2019 , 55 : 152 - 160 .
KIM E J , WU C H , ADAMS M W , et al . Exceptionally high rates of biological hydrogen production by biomimetic in vitro synthetic enzymatic pathways [J ] . Chemistry , 2016 , 22 ( 45 ): 16047 - 16051 .
ZHONG C , WEI P , ZHANG Y H P . Enhancing functional expression of codon-optimized heterologous enzymes in Escherichia coli BL21(DE3) by selective introduction of synonymous rare codons [J ] . Biotechnology and Bioengineering , 2017 , 114 ( 5 ): 1054 - 1064 .
CAI T , SUN H B , QIAO J , et al . Cell-free chemoenzymatic starch synthesis from carbon dioxide [J ] . Science , 2021 , 373 ( 6562 ): 1523 - 1527 .
DENG X L , FAN M , WU M , et al . Continuous-flow enzymatic synthesis of chiral lactones in a three-dimensional microfluidic reactor [J ] . Chinese Chemical Letters , 2024 , 35 ( 3 ): 108684 .
DUDLEY Q M , KARIM A S , JEWETT M C . Cell-free metabolic engineering: biomanufacturing beyond the cell [J ] . Biotechnology Journal , 2015 , 10 ( 1 ): 69 - 82 .
OPGENORTH P H , KORMAN T P , IANCU L , et al . A molecular rheostat maintains ATP levels to drive a synthetic biochemistry system [J ] . Nature Chemical Biology , 2017 , 13 ( 9 ): 938 - 942 .
HOLD C , BILLERBECK S , PANKE S . Forward design of a complex enzyme cascade reaction [J ] . Nature Communications , 2016 , 7 : 12971 .
KORMAN T P , OPGENORTH P H , BOWIE J U . A synthetic biochemistry platform for cell free production of monoterpenes from glucose [J ] . Nature Communications , 2017 , 8 : 15526 .
GUTERL J K , GARBE D , CARSTEN J , et al . Cell-free metabolic engineering: production of chemicals by minimized reaction cascades [J ] . ChemSusChem , 2012 , 5 ( 11 ): 2165 - 2172 .
CHEN K , ARNOLD F H . Tuning the activity of an enzyme for unusual environments: sequential random mutagenesis of subtilisin E for catalysis in dimethylformamide [J ] . Proceedings of the National Academy of Sciences of the United States of America , 1993 , 90 ( 12 ): 5618 - 5622 .
KIM E J , KIM J E , ZHANG Y H P J . Ultra-rapid rates of water splitting for biohydrogen gas production through in vitro artificial enzymatic pathways [J ] . Energy & Environmental Science , 2018 , 11 ( 8 ): 2064 - 2072 .
ZHANG Y H , ZHOU W . D-xylose 4-epimerase , mutant thereof and use thereof: CN113122528A [P ] . 2021-07-16 .
SONG Z , LI Y , LI Y J , et al ., Aminomutation catalyzed by CO 2 self-sufficient cascade amino acid decarboxylases [EB/OL ] . bioRxiv , 2023 . 08 . 12 . 552924 . ( 2023-08-12 )[ 2023-12-01 ] . https://www.biorxiv.org/content/10.1101/2023.08.12.552924v1 https://www.biorxiv.org/content/10.1101/2023.08.12.552924v1 .
ZHONG C , YOU C , WEI P , et al . Thermal cycling cascade biocatalysis of myo -inositol synthesis from sucrose [J ] . ACS Catalysis , 2017 , 7 ( 9 ): 5992 - 5999 .
COLODNY L , HOFFMAN R L . Inositol: clinical applications for exogenous use [J ] . Alternative Medicine Review , 1998 , 3 ( 6 ): 432 - 447 .
CHENG K , ZHANG F , SUN F F , et al . Doubling power output of starch biobattery treated by the most thermostable isoamylase from an archaeon Sulfolobus tokodaii [J ] . Scientific Reports , 2015 , 5 : 13184 .
JEON B S , TAGUCHI H , SAKAI H , et al . 4-alpha-glucanotransferase from the hyperthermophilic archaeon Thermococcus litoralis : enzyme purification and characterization, and gene cloning, sequencing and expression in Escherichia coli [J ] . European Journal of Biochemistry , 1997 , 248 ( 1 ): 171 - 178 .
LIAO H H , MYUNG S , ZHANG Y H P . One-step purification and immobilization of thermophilic polyphosphate glucokinase from Thermobifida fusca YX: glucose-6-phosphate generation without ATP [J ] . Applied Microbiology and Biotechnology , 2012 , 93 ( 3 ): 1109 - 1117 .
FLAMHOLZ A , NOOR E , BAR-EVEN A , et al . eQuilibrator: the biochemical thermodynamics calculator [J ] . Nucleic Acids Research , 2012 , 40 ( D1 ): D770 - D775 .
HAN P P , ZHOU X G , YOU C . Efficient multi-enzymes immobilized on porous microspheres for producing inositol from starch [J ] . Frontiers in Bioengineering and Biotechnology , 2020 , 8 : 380 .
HAN P P , YOU C , LI Y J , et al . High-titer production of myo -inositol by a co-immobilized four-enzyme cocktail in biomimetic mineralized microcapsules [J ] . Chemical Engineering Journal , 2023 , 461 : 141946 .
TANG E J , SHEN X L , WANG J , et al . Synergetic utilization of glucose and glycerol for efficient myo -inositol biosynthesis [J ] . Biotechnology and Bioengineering , 2020 , 117 ( 4 ): 1247 - 1252 .
YOU R , WANG L , SHI C R , et al . Efficient production of myo -inositol in Escherichia coli through metabolic engineering [J ] . Microbial Cell Factories , 2020 , 19 ( 1 ): 109 .
欧阳平凯 . 我国工业生物技术发展回顾及展望 [J ] . 生物工程学报 , 2022 , 38 ( 11 ): 3991 - 4000 .
OUYANG P K . The industrial biotechnology in China: development and outlook [J ] . Chinese Journal of Biotechnology , 2022 , 38 ( 11 ): 3991 - 4000 .
FUJISAWA T , FUJINAGA S , ATOMI H . An in vitro enzyme system for the production of myo -inositol from starch [J ] . Applied and Environmental Microbiology , 2017 , 83 ( 16 ): e00550-17 .
LU Y P , WANG L , TENG F , et al . Production of myo -inositol from glucose by a novel trienzymatic cascade of polyphosphate glucokinase, inositol 1-phosphate synthase and inositol monophosphatase [J ] . Enzyme and Microbial Technology , 2018 , 112 : 1 - 5 .
MENG D D , WEI X L , ZHANG Y H P J , et al . Stoichiometric conversion of cellulosic biomass by in vitro synthetic enzymatic biosystems for biomanufacturing [J ] . ACS Catalysis , 2018 , 8 ( 10 ): 9550 - 9559 .
GRANSTRÖM T B , TAKATA G , TOKUDA M , et al . Izumoring: a novel and complete strategy for bioproduction of rare sugars [J ] . Journal of Bioscience and Bioengineering , 2004 , 97 ( 2 ): 89 - 94 .
ZHANG W L , ZHANG T , JIANG B , et al . Enzymatic approaches to rare sugar production [J ] . Biotechnology Advances , 2017 , 35 ( 2 ): 267 - 274 .
IZUMORI K . Izumoring: a strategy for bioproduction of all hexoses [J ] . Journal of Biotechnology , 2006 , 124 ( 4 ): 717 - 722 .
LEVIN G V . Tagatose, the new GRAS sweetener and health product [J ] . Journal of Medicinal Food , 2002 , 5 ( 1 ): 23 - 36 .
CHEETHAM P S J , WOOTTON A N . Bioconversion of D-galactose into D-tagatose [J ] . Enzyme and Microbial Technology , 1993 , 15 ( 2 ): 105 - 108 .
RHIMI M , AGHAJARI N , JUY M , et al . Rational design of Bacillus stearothermophilus US100 L-arabinose isomerase: potential applications for D-tagatose production [J ] . Biochimie , 2009 , 91 ( 5 ): 650 - 653 .
BOSSHART A , HEE C S , BECHTOLD M , et al . Directed divergent evolution of a thermostable D-tagatose epimerase towards improved activity for two hexose substrates [J ] . ChemBioChem , 2015 , 16 ( 4 ): 592 - 601 .
OH H J , KIM H J , OH D K . Increase in D-tagatose production rate by site-directed mutagenesis of L-arabinose isomerase from Geobacillus thermodenitrificans [J ] . Biotechnology Letters , 2006 , 28 ( 3 ): 145 - 149 .
WICHELECKI D J , VETTING M W , CHOU L , et al . ATP-binding cassette (ABC) transport system solute-binding protein-guided identification of novel D-altritol and galactitol catabolic pathways in Agrobacterium tumefaciens C58 [J ] . Journal of Biological Chemistry , 2015 , 290 ( 48 ): 28963 - 28976 .
MORADIAN A , BENNER S A . A biomimetic biotechnological process for converting starch to fructose: thermodynamic and evolutionary considerations in applied enzymology [J ] . Journal of the American Chemical Society , 1992 , 114 ( 18 ): 6980 - 6987 .
WICHELECKI D J , ZHANG Y H P . Enzymatic synthesis of D-tagatose : US62/236226 [P ] . 2015-10-02 .
MA Y H , SUN Y X . Tagatose preparation method : CN106399427A [P ] . 2016-11-01 .
ZHANG Y H , YOU C . Inositol preparation method : CN106148425B [P ] . 2015-04-17 .
OH D K , HONG S H , LEE S H . Aldolase , aldolase mutant , and method and composition for producing tagatose by using same: WO2015016544 A1 [P ] . 2014-07-25 .
MA Y H , SUN Y X , YANG J A , et al . Method for preparing tagatose through whole-cell catalysis : CN107988286B [P ] . 2017-11-02 .
MA Y H , SHI T , LI Y J , et al . Bacillus subtilis gene engineering bacteria for producing tagatose and method for preparing tagatose : CN112342179B [P ] . 2021-01-05 .
MA Y H , SUN Y X , YANG J G , et al . Engineering strain for producing tagatose, and construction method and application thereof : CN109666620A [P ] . 2019-02-20 .
DAI Y W , ZHANG T , JIANG B , et al . Dictyoglomus turgidum DSM 6724 α-glucan phosphorylase: characterization and its application in multi-enzyme cascade reaction for D-tagatose production [J ] . Applied Biochemistry and Biotechnology , 2021 , 193 ( 11 ): 3719 - 3731 .
DAI Y W , ZHANG J X , ZHANG T , et al . Characteristics of a fructose 6-phosphate 4-epimerase from Caldilinea aerophila DSM 14535 and its application for biosynthesis of tagatose [J ] . Enzyme and Microbial Technology , 2020 , 139 : 109594 .
DAI Y W , LI C C , ZHENG L H , et al . Enhanced biosynthesis of D-tagatose from maltodextrin through modular pathway engineering of recombinant Escherichia coli [J ] . Biochemical Engineering Journal , 2022 , 178 : 108303 .
ZHANG W L , YU S H , ZHANG T , et al . Recent advances in D-allulose: physiological functionalities, applications, and biological production [J ] . Trends in Food Science & Technology , 2016 , 54 : 127 - 137 .
JIANG S W , XIAO W , ZHU X X , et al . Review on D-allulose: in vivo metabolism, catalytic mechanism, engineering strain construction, bio-production technology [J ] . Frontiers in Bioengineering and Biotechnology , 2020 , 8 : 26 .
MATSUO T , SUZUKI H , HASHIGUCHI M , et al . D-psicose is a rare sugar that provides no energy to growing rats [J ] . Journal of Nutritional Science and Vitaminology , 2002 , 48 ( 1 ): 77 - 80 .
ZENG Y , ZHANG X X , GUAN Y P , et al . Characteristics and antioxidant activity of Maillard reaction products from psicose-lysine and fructose-lysine model systems [J ] . Journal of Food Science , 2011 , 76 ( 3 ): C398 - C403 .
HAYASHI N , IIDA T , YAMADA T , et al . Study on the postprandial blood glucose suppression effect of D-psicose in borderline diabetes and the safety of long-term ingestion by normal human subjects [J ] . Bioscience, Biotechnology, and Biochemistry , 2010 , 74 ( 3 ): 510 - 519 .
CHUNG M Y , OH D K , LEE K W . Hypoglycemic health benefits of D-psicose [J ] . Journal of Agricultural and Food Chemistry , 2012 , 60 ( 4 ): 863 - 869 .
MOLLER D E , BERGER J P . Role of PPARs in the regulation of obesity-related insulin sensitivity and inflammation [J ] . International Journal of Obesity , 2003 , 27 ( S3 ): S17 - S21 .
YANG S J , CHO H K , LEE Y M , et al . Thermostable fructose 6 -phosphate-3-epimerase and a method for producing allulose using the same : KR102063908B1 [P ] . 2017-12-27 .
WICHELECKI D J , ROGERS E . Enzymatic production of hexoses : WO2018169957A1 [P ] . 2018-03-13 .
MACEACHRAN D , CUNNINGHAM D S , BLAKE W J , et al . Cell-free production of sugars : US20180320210A1 [P ] . 2018-07-12 .
TORRETTA S , SCAGLIOLA A , RICCI L , et al . D-mannose suppresses macrophage IL-1β production [J ] . Nature Communications , 2020 , 11 ( 1 ): 6343 .
GONZALEZ P S , O’PREY J , CARDACI S , et al . Mannose impairs tumour growth and enhances chemotherapy [J ] . Nature , 2018 , 563 ( 7733 ): 719 - 723 .
ZHANG D F , CHIA C , JIAO X , et al . D-mannose induces regulatory T cells and suppresses immunopathology [J ] . Nature Medicine , 2017 , 23 ( 9 ): 1036 - 1045 .
TIAN C Y , YANG J G , LI Y J , et al . Artificially designed routes for the conversion of starch to value-added mannosyl compounds through coupling in vitro and in vivo metabolic engineering strategies [J ] . Metabolic Engineering , 2020 , 61 : 215 - 224 .
ZHANG Y H P . Next generation biorefineries will solve the food, biofuels, and environmental trilemma in the energy-food-water nexus [J ] . Energy Science & Engineering , 2013 , 1 ( 1 ): 27 - 41 .
CHEN H G , ZHANG Y H P . New biorefineries and sustainable agriculture: increased food, biofuels, and ecosystem security [J ] . Renewable & Sustainable Energy Reviews , 2015 , 47 : 117 - 132 .
CASILLAS C E , KAMMEN D M . The energy-poverty-climate nexus [J ] . Science , 2010 , 330 ( 6008 ): 1181 - 1182 .
SHEPPARD A W , GILLESPIE I , HIRSCH M , et al . Biosecurity and sustainability within the growing global bioeconomy [J ] . Current Opinion in Environmental Sustainability , 2011 , 3 ( 1-2 ): 4 - 10 .
ZHANG Y H P , HUANG W D . Constructing the electricity-carbohydrate-hydrogen cycle for a sustainability revolution [J ] . Trends in Biotechnology , 2012 , 30 ( 6 ): 301 - 306 .
ZHANG Y H P . A sweet out-of-the-box solution to the hydrogen economy: is the sugar-powered car science fiction? [J ] . Energy & Environmental Science , 2009 , 2 ( 3 ): 272 - 282 .
HARNISCH F , MOREJÓN M C . Hydrogen from water is more than a fuel: hydrogenations and hydrodeoxygenations for a biobased economy [J ] . Chemical Record , 2021 , 21 ( 9 ): 2277 - 2289 .
THAUER R K , KASTER A K , SEEDORF H , et al . Methanogenic Archaea: ecologically relevant differences in energy conservation [J ] . Nature Reviews Microbiology , 2008 , 6 ( 8 ): 579 - 591 .
CHHEDA J N , HUBER G W , DUMESIC J A . Liquid-phase catalytic processing of biomass-derived oxygenated hydrocarbons to fuels and chemicals [J ] . Angewandte Chemie International Edition , 2007 , 46 ( 38 ): 7164 - 7183 .
HUBER G W , SHABAKER J W , DUMESIC J A . Raney Ni-Sn catalyst for H 2 production from biomass-derived hydrocarbons [J ] . Science , 2003 , 300 ( 5628 ): 2075 - 2077 .
MAEDA T , SANCHEZ-TORRES V , WOOD T K . Metabolic engineering to enhance bacterial hydrogen production [J ] . Microbial Biotechnology , 2008 , 1 ( 1 ): 30 - 39 .
MAEDA T , SANCHEZ-TORRES V , WOOD T K . Hydrogen production by recombinant Escherichia coli strains [J ] . Microbial Biotechnology , 2012 , 5 ( 2 ): 214 - 225 .
YE X H , WANG Y R , HOPKINS R C , et al . Spontaneous high-yield production of hydrogen from cellulosic materials and water catalyzed by enzyme cocktails [J ] . ChemSusChem , 2009 , 2 ( 2 ): 149 - 152 .
MYUNG S , ROLLIN J , YOU C , et al . In vitro metabolic engineering of hydrogen production at theoretical yield from sucrose [J ] . Metabolic Engineering , 2014 , 24 : 70 - 77 .
MARTÍN DEL CAMPO J S , ROLLIN J , MYUNG S , et al . High-yield production of dihydrogen from xylose by using a synthetic enzyme cascade in a cell-free system [J ] . Angewandte Chemie International Edition , 2013 , 52 ( 17 ): 4587 - 4590 .
BEREZINA O V , ZVERLOV V V , LUNINA N A , et al . Gene and properties of thermostable 4-alpha-glucanotransferase of Thermotoga neapolitana [J ] . Journal of Molecular Biology , 1999 , 33 : 801 - 806 .
CHEN H , HUANG R , KIM E J , et al . Building a thermostable metabolon for facilitating coenzyme transport and in vitro hydrogen production at elevated temperature [J ] . ChemSusChem , 2018 , 11 ( 18 ): 3120 - 3130 .
HUANG R , CHEN H , ZHOU W , et al . Engineering a thermostable highly active glucose 6-phosphate dehydrogenase and its application to hydrogen production in vitro [J ] . Applied Microbiology and Biotechnology , 2018 , 102 ( 7 ): 3203 - 3215 .
张以恒 . 中国哲学思想“道法术器”对生物制造的启示 [J ] . 合成生物学 , 2024 , 5 ( 6 ): 1231 - 1241 .
ZHANG Y-H P J . The enlightenment of the Chinese philosophy “Tao-Fa-Shu-Qi” to industrial biomanufacturing [J ] . Synthetic Biology Journal , 2024 , 5 ( 6 ): 1231 - 1241 .
WANG X D , SABA T , YIU H H P , et al . Cofactor NAD(P)H regeneration inspired by heterogeneous pathways [J ] . Chem , 2017 , 2 ( 5 ): 621 - 654 .
ALI I , KHAN T , OMANOVIC S . Direct electrochemical regeneration of the cofactor NADH on bare Ti, Ni, Co and Cd electrodes: the influence of electrode potential and electrode material [J ] . Journal of Molecular Catalysis A: Chemical , 2014 , 387 : 86 - 91 .
MORELLO G , MEGARITY C F , ARMSTRONG F A . The power of electrified nanoconfinement for energising, controlling and observing long enzyme cascades [J ] . Nature Communications , 2021 , 12 : 340 .
CASTAÑEDA-LOSADA L , ADAM D , PACZIA N , et al . Bioelectrocatalytic cofactor regeneration coupled to CO 2 fixation in a redox-active hydrogel for stereoselective C—C bond formation [J ] . Angewandte Chemie International Edition , 2021 , 60 ( 38 ): 21056 - 21061 .
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