Techno-economic analysis of industrial-scale fermentation for formate dehydrogenase (FDH) production

Julia Cunniffe , Vanessa Rondon Berrio , Cameron Hunter , Thuan Nguyen , Sonja Salmon , Nathan Crook , Amy Grunden , William Joe Sagues

Bioresources and Bioprocessing ›› 2025, Vol. 12 ›› Issue (1) : 145

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Bioresources and Bioprocessing ›› 2025, Vol. 12 ›› Issue (1) :145 DOI: 10.1186/s40643-025-00985-3
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Techno-economic analysis of industrial-scale fermentation for formate dehydrogenase (FDH) production

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Abstract

The conversion of carbon dioxide (CO2) into formate offers a promising route to enable a circular, carbon-smart bioeconomy. Formate is increasingly recognized as a versatile and energy-dense platform molecule that can serve as a feedstock for microbial fermentation, energy storage, and sustainable chemical and fuel production. A key bottleneck in this value chain is the availability of cost-effective and scalable formate dehydrogenase (FDH), which catalyze the initial reduction of CO2 to formate. However, little is known about the economic feasibility of producing and purifying FDH at industrial scale. In this study, we developed data-driven techno-economic models to assess the production cost of FDH in Methylorubrum extorquens (M. extorquens) using lab-scale data and projected outcomes across four scenarios: 1 L empirical, 5 L empirical, base, and optimistic. Our results show that the minimum selling price when using FDH as a crude protein preparation ranged from $2300/kg (1 L empirical) to $75/kg (optimistic), while the use of purified FDH resulted in costs ranging from $99,000/kg to $970/kg, respectively. Sensitivity analyses revealed that protein purity has the greatest influence on final production cost, with substrate and electricity costs also contributing significantly to the two empirical scenarios. These findings provide insight into cost bottlenecks and help identify engineering targets for scaling FDH enzyme production, supporting the development of CO2-to-formate technologies and the broader formate-based bioeconomy.

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Formate dehydrogenase / Enzyme production / Industrial biotechnology / Techno-economic analysis / Enzyme catalysis / Carbon dioxide utilization / C1 bioeconomy

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Julia Cunniffe, Vanessa Rondon Berrio, Cameron Hunter, Thuan Nguyen, Sonja Salmon, Nathan Crook, Amy Grunden, William Joe Sagues. Techno-economic analysis of industrial-scale fermentation for formate dehydrogenase (FDH) production. Bioresources and Bioprocessing, 2025, 12(1): 145 DOI:10.1186/s40643-025-00985-3

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References

[1]

Badger N, Mattice D, Atwood M, Amini S. Life cycle assessment of formic acid synthesis utilizing CO2 from direct air capture. RSC Sustain, 2025, 3(5): 2404-2421.

[2]

Baumann P, Hubbuch J. Downstream process development strategies for effective bioprocesses: trends, progress, and combinatorial approaches. Eng Life Sci, 2017, 17(11): 1142-1158.

[3]

Becerra M, Cerdan E, Gonzalez Siso M. Heterologous Kluyveromyces lactis β-galactosidase production and release by Saccharomyces cerevisiae osmotic-remedial thermosensitive autolytic mutants. Biochim Biophys Acta, 1997, 1335(3): 235-241.

[4]

Bierbaumer S, Nattermann M, Schulz L, Zschoche R, Erb TJ, Winkler CK, Tinzl M, Glueck SM. Enzymatic conversion of CO2: from natural to artificial utilization. Chem Rev, 2023, 123(9): 5702-5754.

[5]

Calzadiaz-Ramirez L, Meyer AS. Formate dehydrogenases for CO2 utilization. Curr Opin Biotechnol, 2022, 73: 95-100.

[6]

Cao L. Carrier-bound immobilized enzymes: principles, application and design, 2005, Hoboken. Wiley.

[7]

Carrillo M, Wagner M, Petit F, Dransfeld A, Becker A, Erb TJ. Design and control of extrachromosomal elements in Methylorubrum extorquens AM1. ACS Synth Biol, 2019, 8(11): 2451-2456.

[8]

Cha J, Bak H, Kwon I. Hydrogen-fueled CO2 reduction using oxygen-tolerant oxidoreductases. Front Bioeng Biotechnol, 2023

[9]

Chang M, Ahn SJ, Han T, Yang D. Gene expression modulation tools for bacterial synthetic biology. Biotechnol Sustain Mater, 2024

[10]

Che Hussian CHA, Leong WY. Factors affecting therapeutic protein purity and yield during chromatographic purification. Prep Biochem Biotechnol, 2024, 54(2): 150-158.

[11]

Dahlin LR, Meyers AW, Stefani SW, Webb EG, Wachter B, Subramanian V, Guarnieri MT. Heterologous expression of formate dehydrogenase enables photoformatotrophy in the emerging model microalga, Picochlorum renovo. Front Bioeng Biotechnol, 2023

[12]

Elsner W, Heinrich T, Schwardt H. The ideal neoclassical market and general equilibrium. Microecon Complex Econ, 2015

[13]

Farhan M, Hasani IW, Khafaga DSR, Ragab WM, Ahmed Kazi RN, Aatif M, Muteeb G, Fahim YA. Enzymes as catalysts in industrial diocatalysis: advances in engineering, applications, and sustainable integration. Catalysts, 2025

[14]

Fasano A, Fourmond V, Léger C. Outer-sphere effects on the O2 sensitivity, catalytic bias and catalytic reversibility of hydrogenases. Chem Sci, 2024, 15(15): 5418-5433.

[15]

Ferreira RDG, Azzoni AR, Freitas S. Techno-economic analysis of the industrial production of a low-cost enzyme using E. coli: the case of recombinant β-glucosidase. Biotechnol Biofuels, 2018

[16]

Ferreira RG, Azzoni AR, Freitas S. On the production cost of lignocellulose-degrading enzymes. Biofuels Bioprod Biorefin, 2021, 15(1): 85-99.

[17]

Gao D, Luan Y, Wang Q, Liang Q, Qi Q. Construction of cellulose-utilizing Escherichia coli based on a secretable cellulase. Microb Cell Fact, 2015, 14(1): 159

[18]

Headon DR, Walsh G. The industrial production of enzymes. Biotechnol Adv, 1994, 12(4): 635-646.

[19]

Hong Y, Nizami AS, Pour Bafrani M, Saville BA, Maclean HL. Impact of cellulase production on environmental and financial metrics for lignocellulosic ethanol. Biofuels Bioprod Biorefin, 2013, 7(3): 303-313.

[20]

Huang W. Application of synthetic biology in directed evolution to enhance enzyme catalytic efficiency. Biol Evid, 2024, 14(3): 131-142.

[21]

Ibrahim NA, Eid BM, Amin HA (2021) Sustainable textile finishing processes and pollution control based on enzyme technology. Green chemistry for sustainable textiles: modern design and approaches. pp 385–415. https://doi.org/10.1016/B978-0-323-85204-3.00018-X

[22]

Iliuta I, Larachi F. Direct-air capture conversion of CO2 in fixed-bed microreactors with immobilized formate dehydrogenase and glucose dehydrogenase: concept feasibility. Chem Eng Res des, 2023, 193: 306-319.

[23]

Illanes AIllanes A. Enzyme production. Enzyme biocatalysis, 2008, Dordrecht. Springer.

[24]

Khootama A, Putri DN, Hermansyah H. Techno-economic analysis of lipase enzyme production from Aspergillus niger using agro-industrial waste by solid state fermentation. Energy Proc, 2018, 153: 143-148.

[25]

Klein-Marcuschamer D, Oleskowicz-Popiel P, Simmons BA, Blanch HW. The challenge of enzyme cost in the production of lignocellulosic biofuels. Biotechnol Bioeng, 2012, 109(4): 1083-1087.

[26]

Kumar SM, Asani PC, Baradia H, Chattopadhyay S. Process optimization and techno-economic analysis for the production of lipase from Bacillus sp.. J Taibah Univ Sci, 2023

[27]

Lee J, Kim SM, Jeon BW, Hwang HW, Poloniataki EG, Kang J, Lee S, Ra HW, Na J, Na J-G, Lee J, Kim YH. Molar-scale formate production via enzymatic hydration of industrial off-gases. Nat Chem Eng, 2024, 1(5): 354-364.

[28]

Léger C, Bertrand P. Direct electrochemistry of redox enzymes as a tool for mechanistic studies. Chem Rev, 2008, 108(7): 2379-2438.

[29]

Li X, Kuchinski LM, Park A, Murphy GS, Soto KC, Schuster BS. Enzyme purification and sustained enzyme activity for pharmaceutical biocatalysis by fusion with phase-separating intrinsically disordered protein. Biotechnol Bioeng, 2024, 121(10): 3155-3168.

[30]

Millipore Sigma (2025a) Formate dehydrogenase from Candida boidinii. https://www.sigmaaldrich.com/US/en/product/sigma/f8649?srsltid=AfmBOopjKeGSEqs7uNGfLxY84gXZRF_o6AzyZhx6-fgi7Dpbf0N71_kt. Accessed 23 Apr 2025

[31]

Millipore Sigma (2025b) Laccase from Rhus vernificera. https://www.sigmaaldrich.com/US/en/product/sigma/l2157. Accessed 23 Apr 2025

[32]

Minten IJ, Abello N, Schooneveld-Bergmans MEF, van den Berg MA. Post-production modification of industrial enzymes. Appl Microbiol Biotechnol, 2014, 98(14): 6215-6231.

[33]

Park J, Heo Y, Jeon BW, Jung M, Kim YH, Lee HH, Roh SH. Structure of recombinant formate dehydrogenase from Methylobacterium extorquens (MeFDH1). Sci Rep, 2024

[34]

Paulillo A, Pucciarelli M, Grimaldi F, Lettieri P. The life-cycle environmental performance of producing formate via electrochemical reduction of CO2 in ionic liquid. Green Chem, 2021, 23(17): 6639-6651.

[35]

Pett-Ridge J, Ammar HZ, Aui A, Ashton M, Baker SE, Basso B, Bradford M, Bump AP, Busch I, Calzado ER, Chirigotis JW, Clauser N, Crotty S, Dahl N, Dai T, Ducey M, Dumortier J, Ellebracht NC, Egui RG, Aines RD. Roads to removal: options for carbon dioxide removal in the United States, 2023, Livermore. Lawrence Livermore National Laboratory.

[36]

Peyraud R, Schneider K, Kiefer P, Massou S, Vorholt JA, Portais JC. Genome-scale reconstruction and system level investigation of the metabolic network of Methylobacterium extorquens AM1. BMC Syst Biol, 2011

[37]

Silveira Sbrice Pinto A, Gulpinar N, Liu F, Gibson E, Fuller L, Souter P. Carbon capture and utilization for sustainable supply chain design of intermediate chemicals: the formate factory. ACS Sustain Resour Manag, 2025, 2(5): 733-743.

[38]

Rao RR, Vimudha M, Kamini NR, Gowthaman MK, Chandrasekran B, Saravanan P. Alkaline protease production from Brevibacterium luteolum (MTCC 5982) under solid-state fermentation and its application for sulfide-free unhairing of cowhides. Appl Biochem Biotechnol, 2017, 182(2): 511-528.

[39]

Remans K, Lebendiker M, Abreu C, Maffei M, Sellathurai S, May MM, Vaněk O, de Marco A. Protein purification strategies must consider downstream applications and individual biological characteristics. Microb Cell Fact, 2022

[40]

Rosano GL, Ceccarelli EA. Recombinant protein expression in Escherichia coli: advances and challenges. Front Microbiol, 2014

[41]

Salazar-López NJ, Barco-Mendoza GA, Zuñiga-Martínez BS, Domínguez-Avila JA, Robles-Sánchez RM, Ochoa MAV, González-Aguilar GA. Single-cell protein production as a strategy to reincorporate food waste and agro by-products back into the processing chain. Bioengineering, 2022

[42]

Sosa-Martínez JD, Morales-Oyervides L, Montañez J, Contreras-Esquivel JC, Balagurusamy N, Gadi SK, Salmerón I. Sustainable co-production of xylanase, cellulase, and pectinase through agroindustrial residue valorization using solid-state fermentation: a techno-economic assessment. Sustainability, 2024

[43]

Wahab WAA. Review of research progress in immobilization and chemical modification of microbial enzymes and their application. Microb Cell Fact, 2025

[44]

Walwyn DR, Huddy SM, Rybicki EP. Techno-economic analysis of horseradish peroxidase production using a transient expression system in Nicotiana benthamiana. Appl Biochem Biotechnol, 2015, 175(2): 841-854.

[45]

Xiang H, Miller HA, Bellini M, Christensen H, Scott K, Rasul S, Yu EH. Production of formate by CO2 electrochemical reduction and its application in energy storage. Sustain Energy Fuels, 2019, 4(1): 277-284.

[46]

Xu JM, Wu ZS, Zhao KJ, Xi ZJ, Wang LY, Cheng F, Xue YP, Zheng YG. IPTG-induced high protein expression for whole-cell biosynthesis of L-phosphinothricin. Biotechnol J, 2023

[47]

Yang J, Zaremba O, Andreo J, Gröger H, Wuttke S. Unravelling the potential of crude enzyme extracts for biocatalyst entrapment in metal-organic frameworks. ACS Nano, 2025, 19(15): 14817-14828.

[48]

Zhang Q, Wang Y, Liu L. Carbon tax or low-carbon subsidy? Carbon reduction policy options under CCUS investment. Sustainability, 2023

[49]

Zhuang J, Marchant MA, Nokes SE, Strobel HJ. Economic analysis of cellulase production methods for bio-ethanol. Appl Eng Agric, 2007, 23(5): 679-687.

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Novo Nordisk Fonden(NNF22SA0078767)

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