Abstract
In recent years the reductive glycine pathway (rGlyP) has emerged as a promising pathway for the assimilation of formate and other sustainable C1-feedstocks for future biotechnology. It was originally proposed as an attractive “synthetic pathway” to support formatotrophic growth due to its high ATP efficiency, linear structure, and limited overlap with native pathways in most microbial hosts. Here, we present the current state of research on this pathway including breakthroughs on its engineering. Different variants of the rGlyP are discussed, including its core module for formate to glycine conversion, as well as varying modules for substrate conversion to formate, and glycine assimilation routes. Very recently, the rGlyP has been successfully implemented for synthetic formatotrophic growth, as well as for growth on methanol, in some bacterial hosts. We discuss the engineering strategies employed in these studies, including growth-coupled selection of functional pathway modules. We also compare the rGlyP to other natural and synthetic C1-assimilation pathways. Finally, we provide an outlook on open challenges and opportunities for the rGlyP, including its engineering into more biotechnological hosts, as well as the still-to-be realized production of value-added chemicals via this pathway. We expect that further research on the rGlyP will support the efficient use of sustainable C1-substrates in bioproduction.
Graphical Abstract
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
References
Masson-Delmotte V, Zhai P, Pirani A et al (2021) IPCC, 2021: summary for policymakers. In: Climate change 2021: the physical science basis. Contribution of Working Group I to the sixth assessment report of the intergovernmental panel on climate change. Cambridge University Press, Cambridge
Kätelhön A, Meys R, Deutz S et al (2019) Climate change mitigation potential of carbon capture and utilization in the chemical industry. Proc Natl Acad Sci U S A 166:11187–11194. https://doi.org/10.1073/pnas.1821029116
Hepburn C, Adlen E, Beddington J et al (2019) The technological and economic prospects for CO2 utilization and removal. Nature 575:87–97. https://doi.org/10.1038/s41586-019-1681-6
Artz J, Mu TE, Thenert K et al (2018) Sustainable conversion of carbon dioxide: an integrated review of catalysis and life cycle assessment. Chem Rev 118:434–504. https://doi.org/10.1021/acs.chemrev.7b00435
Blankenship RE, Tiede DM, Barber J et al (2011) Comparing photosynthetic and photovoltaic efficiencies and recognizing the potential for improvement. Science 332:805–809. https://doi.org/10.1126/science.1200165
Claassens NJ, Sousa DZ, dos Santos VAPM et al (2016) Harnessing the power of microbial autotrophy. Nat Rev Microbiol 14:692–706. https://doi.org/10.1038/nrmicro.2016.130
Leger D, Matassa S, Noor E et al (2021) Photovoltaic-driven microbial protein production can use land and sunlight more efficiently than conventional crops. Proc Natl Acad Sci U S A 118. https://doi.org/10.1073/pnas.2015025118
Grim RG, Huang Z, Guarnieri MT et al (2019) Transforming the carbon economy: challenges and opportunities in the convergence of low-cost electricity and reductive CO2 utilization. Energ Environ Sci 13:472–494. https://doi.org/10.1039/C9EE02410G
Satanowski A, Bar-Even A (2020) A one-carbon path for fixing CO2. EMBO Rep 21:e50273. https://doi.org/10.15252/embr.202050273
Claassens NJ, Cotton CAR, Kopljar D, Bar-Even A (2019) Making quantitative sense of electromicrobial production. Nat Catal 2:437–447. https://doi.org/10.1038/s41929-019-0272-0
De LP, Hahn C, Higgins D et al (2019) What would it take for renewably powered electrosynthesis to displace petrochemical processes? Science 364:eaav3506. https://doi.org/10.1126/science.aav3506
Clomburg JM, Crumbley AM, Gonzalez R (2017) Industrial biomanufacturing: the future of chemical production. Science 355. https://doi.org/10.1126/science.aag0804
Becker J, Wittmann C (2015) Advanced biotechnology: metabolically engineered cells for the bio-based production of chemicals and fuels, materials, and health-care products. Angew Chem Int Ed 54:3328–3350. https://doi.org/10.1002/anie.201409033
Li H, Opgenorth PH, Wernick DG et al (2012) Integrated electromicrobial conversion of CO2 to higher alcohols. Science 335:1596–1596. https://doi.org/10.1126/science.1217643
Sydow A, Krieg T, Ulber R, Holtmann D (2017) Growth medium and electrolyte – how to combine the different requirements on the reaction solution in bioelectrochemical systems using Cupriavidus necator. Eng Life Sci:781–791. https://doi.org/10.1002/elsc.201600252
Stöckl M, Harms S, Dinges I et al (2020) From CO2 to bioplastic – coupling the electrochemical CO2 reduction with a microbial product generation by drop-in electrolysis. ChemSusChem 13:4086–4093. https://doi.org/10.1002/cssc.202001235
Yishai O, Lindner SN, Gonzalez de la Cruz J et al (2016) The formate bio-economy. Curr Opin Chem Biol 35:1–9. https://doi.org/10.1016/j.cbpa.2016.07.005
Smith WA, Burdyny T, Vermaas DA, Geerlings H (2019) Pathways to industrial-scale fuel out of thin air from CO2 electrolysis. Joule 3:1822–1834. https://doi.org/10.1016/j.joule.2019.07.009
Cotton CAR, Claassens NJ, Benito-Vaquerizo S, Bar-Even A (2020) Renewable methanol and formate as microbial feedstocks. Curr Opin Biotechnol 62:168–180. https://doi.org/10.1016/j.copbio.2019.10.002
Bertsch J, Müller V (2015) Bioenergetic constraints for conversion of syngas to biofuels in acetogenic bacteria. Biotechnol Biofuels 8. https://doi.org/10.1186/s13068-015-0393-x
Whitaker WB, Sandoval NR, Bennett RK et al (2015) Synthetic methylotrophy: engineering the production of biofuels and chemicals based on the biology of aerobic methanol utilization. Curr Opin Biotechnol 33:165–175. https://doi.org/10.1016/j.copbio.2015.01.007
Heux S, Brautaset T, Vorholt JA et al (2018) Synthetic methylotrophy: past, present, and future. In: Kalyuzhnaya MG, Xing X-H (eds) Methane biocatalysis: paving the way to sustainability. Springer, pp 133–1151
Bar-Even A, Noor E, Flamholz A, Milo R (2013) Design and analysis of metabolic pathways supporting formatotrophic growth for electricity-dependent cultivation of microbes. Biochim Biophys Acta Bioenerg 1827:1039–1047. https://doi.org/10.1016/j.bbabio.2012.10.013
Waber LJ, Wood HG (1979) Mechanism of acetate synthesis from CO2 by Clostridium acidiurici. J Bacteriol 140:468–478
Durrre P, Andreesen JR (1982) Pathway of carbon dioxide reduction to acetate without a net energy requirement in Clostridium purinolyticum. FEMS Microbiol Lett 15:51–56
Schneeberger A, Frings J, Schink B (1999) Net synthesis of acetate from CO2 by Eubacterium acidaminophilum through the glycine reductase pathway. FEMS Microbiol Lett 177:2–7
Kim S, Lindner SN, Aslan S et al (2020) Growth of E. coli on formate and methanol via the reductive glycine pathway. Nat Chem Biol 16:538–545. https://doi.org/10.1038/s41589-020-0473-5
Claassens NJ, Bordanaba-Florit G, Cotton CAR et al (2020) Replacing the Calvin cycle with the reductive glycine pathway in Cupriavidus necator. Metab Eng 62:30–41. https://doi.org/10.1101/2020.03.11.987487
Bang J, Hwang CH, Ahn JH et al (2020) Escherichia coli is engineered to grow on CO2 and formic acid. Nat Microbiol 5:1459–1463. https://doi.org/10.1038/s41564-020-00793-9
Sánchez-Andrea I, Guedes IAIA, Hornung B et al (2020) The reductive glycine pathway allows autotrophic growth of Desulfovibrio desulfuricans. Nat Commun 11:doi.org/10.1038/s41467-020-18906-7 |
Claassens NJ (2021) Reductive glycine pathway: a versatile route for one-carbon biotech. Trends Biotechnol 39:327–329. https://doi.org/10.1016/j.tibtech.2021.02.005
Mejillano MR, Jahansouz H, Matsunaga TO et al (1989) Formation and utilization of formyl phosphate by N10-formyltetrahydrofolate synthetase: evidence for formyl phosphate as an intermediate in the reaction. Biochemistry 28:5136–5145. https://doi.org/10.1021/bi00438a034
Bar-Even A (2016) Formate assimilation: the metabolic architecture of natural and synthetic pathways. Biochemistry 55:3851–3863. https://doi.org/10.1021/acs.biochem.6b00495
Christensen KE, MacKenzie RE (2008) Chapter 14 mitochondrial methylenetetrahydrofolate dehydrogenase, methenyltetrahydrofolate cyclohydrolase, and formyltetrahydrofolate synthetases. Vitam Horm 79:393–410. https://doi.org/10.1016/S0083-6729(08)00414-7
Dev IK, Harvey RJ (1978) A complex of N5,N10-methylentetrahydrofolate dehydrogenase and N5,N10-methenyltetrahydrofolate cyclohydrolase in Escherichia coli. Purification subunit structure, and allosteric inhibition by N10-formyltetrahydrofolate. J Biol Chem 253:4245–4253. https://doi.org/10.1016/s0021-9258(17)34711-7
Tashiro Y, Hirano S, Matson MM et al (2018) Electrical-biological hybrid system for CO2 reduction. Metab Eng 47:211–218. https://doi.org/10.1016/j.ymben.2018.03.015
Kikuchi G, Motokawa Y, Yoshida T, Hiraga K (2008) Glycine cleavage system: reaction mechanism, physiological significance, and hyperglycinemia. Proc Jpn Acad Ser B 84:246–263. https://doi.org/10.2183/pjab/84.246
Hong Y, Ren J, Zhang X et al (2020) Quantitative analysis of glycine related metabolic pathways for one-carbon synthetic biology. Curr Opin Biotechnol 64:70–78. https://doi.org/10.1016/j.copbio.2019.10.001
Tibbetts AS, Appling DR (2010) Compartmentalization of mammalian folate-mediated one-carbon metabolism. Annu Rev Nutr 30:57–81. https://doi.org/10.1146/annurev.nutr.012809.104810
Hassan F, Syed A, Ahmad B (2014) Folate: metabolism, gene, polymorphisms and the associated diseases. Gene 533:11–20. https://doi.org/10.1016/j.gene.2013.09.063
Flamholz A, Noor E, Bar-Even A, Milo R (2012) EQuilibrator – the biochemical thermodynamics calculator. Nucleic Acids Res 40:D770–D775. https://doi.org/10.1093/nar/gkr874
Song Y, Lee JS, Shin J et al (2020) Functional cooperation of the glycine synthasereductase and Wood-Ljungdahl pathways for autotrophic growth of Clostridium drakei. Proc Natl Acad Sci U S A 117:7516–7523. https://doi.org/10.1073/pnas.1912289117
Gonzalez J, Cruz D, Machens F et al (2019) Core catalysis of the reductive glycine pathway demonstrated in yeast. ACS Synth Biol 8:911–917. https://doi.org/10.1021/acssynbio.8b00464
Steiert PS, Stauffer LT, Stauffer GV (1990) The lpd gene product functions as the L protein in the Escherichia coli glycine cleavage enzyme system. J Bacteriol 172:6142–6144. https://doi.org/10.1128/jb.172.10.6142-6144.1990
Hartwich K, Poehlein A, Daniel R (2012) The purine-utilizing bacterium Clostridium acidurici 9a: a genome-guided metabolic reconsideration. PLoS One 7. https://doi.org/10.1371/journal.pone.0051662
Zhang X, Li M, Xu Y et al (2019) Quantitative study of H protein lipoylation of the glycine cleavage system and a strategy to increase its activity by co-expression of LplA. J Biol Eng 13. https://doi.org/10.1186/s13036-019-0164-5
Bar-Even A, Milo R, Noor E, Yishai O (2018) Use of the reductive glycine pathway for generating formatotrophic and autotrophic microorganisms. US Patent 10155933B2
Ren J, Zhou L, Wang C et al (2018) An unnatural pathway for efficient 5 – aminolevulinic acid biosynthesis with glycine from glyoxylate based on retrobiosynthetic design. ACS Synth Biol 7:2750–2757. https://doi.org/10.1021/acssynbio.8b00354
Claassens NJ, Scarinci G, Fischer A et al (2020) Phosphoglycolate salvage in a chemolithoautotroph using the Calvin cycle. Proc Natl Acad Sci U S A 117:22452–22461. https://doi.org/10.1073/pnas.2012288117
Zhao Z, Liu H (2008) A quantum mechanical/molecular mechanical study on the catalysis of the pyridoxal 5′-phosphate-dependent enzyme L-serine dehydratase. J Phys Chem B 112:13091–13100. https://doi.org/10.1021/jp802262m
Mehta PK, Hale TI, Christen P (1993) Aminotransferases: demonstration of homology and division into evolutionary subgroups. Eur J Biochem 214:549–561. https://doi.org/10.1111/j.1432-1033.1993.tb17953.x
Yu H, Liao JC (2018) A modified serine cycle in Escherichia coli coverts methanol and CO2 to two-carbon compounds. Nat Commun 9. https://doi.org/10.1038/s41467-018-06496-4
Kleiner D (1985) Bacterial ammonium transport. FEMS Microbiol Rev 32:87–100
Kim J, Copley SD (2012) Inhibitory cross-talk upon introduction of a new metabolic pathway into an existing metabolic network. Proc Natl Acad Sci U S A 109:16766–16767. https://doi.org/10.1073/pnas.1208509109
Ferguson SJ (2010) ATP synthase: from sequence to ring size to the P/O ratio. Proc Natl Acad Sci U S A 107:16755–16756. https://doi.org/10.1073/pnas.1012260107
Hinkle PC (2005) P/O ratios of mitochondrial oxidative phosphorylation. Biochim Biophys Acta Bioenerg 1706:1–11. https://doi.org/10.1016/j.bbabio.2004.09.004
Nakamura Y, Tolbert NE (1983) Serine:glyoxylate, alanine:glyoxylate, and glutamate:glyoxylate aminotransferase reactions in peroxisomes from spinach leaves. J Biol Chem 258:7631–7638. https://doi.org/10.1016/s0021-9258(18)32225-7
Job V, Marcone GL, Pilone MS, Pollegioni L (2002) Glycine oxidase from Bacillus subtilis. J Biol Chem 277:6985–6993. https://doi.org/10.1074/jbc.M111095200
Von Borzyskowski LS, Severi F, Krüger K et al (2019) Marine Proteobacteria metabolize glycolate via the β-hydroxyaspartate cycle. Nature 575:500–504. https://doi.org/10.1038/s41586-019-1748-4
Kornberg HL, Morris JG (1965) The utilization of glycollate by Micrococcus Denitrificans: the beta-hydroxyaspartate pathway. Biochem J 95:577–586
Claassens NJ, Sánchez-Andrea I, Sousa DZ, Bar-Even A (2018) Towards sustainable feedstocks: a guide to electron donors for microbial carbon fixation. Curr Opin Biotechnol 50:195–205. https://doi.org/10.1016/j.copbio.2018.01.019
Figueroa IA, Barnum TP, Somasekhar PY et al (2017) Metagenomics-guided analysis of microbial chemolithoautotrophic phosphite oxidation yields evidence of a seventh natural CO2 fixation pathway. Proc Natl Acad Sci 115:E92–E101. https://doi.org/10.1073/pnas.1715549114
Maia LB, Moura JJG, Moura I (2015) Molybdenum and tungsten – dependent formate dehydrogenases. J Biol Inorg Chem 20:287–309. https://doi.org/10.1007/s00775-014-1218-2
Tishkov VI, Popov VO (2006) Protein engineering of formate dehydrogenase. Biomol Eng 23:89–110. https://doi.org/10.1016/j.bioeng.2006.02.003
Sauer U, Canonaco F, Heri S et al (2004) The soluble and membrane-bound transhydrogenases UdhA and PntAB have divergent functions in NADPH metabolism of Escherichia coli. J Biol Chem 279:6613–6619. https://doi.org/10.1074/jbc.M311657200
Liliana Calzadiaz-Ramirez CC-T, Stoffel GMM, Lindner SN et al (2020) In vivo selection for formate dehydrogenases with high efficiency and specificity toward NADP+. ACS Catal 10:7512–7525. https://doi.org/10.1021/acscatal.0c01487
Jiang H, Chen Q, Pan J et al (2020) Rational engineering of formate dehydrogenase substrate/cofactor affinity for better performance in NADPH regeneration. Appl Biochem Biotechnol 192:530–543. https://doi.org/10.1007/s12010-020-03317-7
Rousset M, Liebgott P (2014) Engineering hydrogenases for H2 production: bolts and goals. In: Zannoni D, De Philippis R (eds) Microbial BioEnergy: hydrogen production, Advances in photosynthesis and respiration. Springer, Dordrecht, pp 43–77. https://doi.org/10.1007/978-94-017-8554-9
Hong Y, Arbter P, Wang W et al (2020) Introduction of glycine synthase enables uptake of exogenous formate and strongly impacts the metabolism in clostridium pasteurianum. Biotechnol Bioeng 1–15. https://doi.org/10.1002/bit.27658
Buckel W, Thauer RK (2013) Energy conservation via electron bifurcating ferredoxin reduction and proton/Na+ translocating ferredoxin oxidation. Biochim Biophys Acta Bioenerg 1827:94–113. https://doi.org/10.1016/j.bbabio.2012.07.002
Schuchmann K, Müller V (2014) Autotrophy at the thermodynamic limit of life: a model for energy conservation in acetogenic bacteria. Nat Rev Microbiol 12:809–821. https://doi.org/10.1038/nrmicro3365
Liew FM, Martin ME, Tappel RC et al (2016) Gas fermentation-A flexible platform for commercial scale production of low-carbon-fuels and chemicals from waste and renewable feedstocks. Front Microbiol 7. https://doi.org/10.3389/fmicb.2016.00694
Fuchs G (1986) CO2 fixation in acetogenic bacteria: variations on a theme. FEMS Microbiol Lett 39:181–213. https://doi.org/10.1016/0378-1097(86)90446-5
Braakman R, Smith E (2012) The emergence and early evolution of biological carbon-fixation. PLoS Comput Biol 8. https://doi.org/10.1371/journal.pcbi.1002455
Cotton CAR, Edlich-Muth C, Bar-Even A (2018) Reinforcing carbon fixation: CO2 reduction replacing and supporting carboxylation. Curr Opin Biotechnol 49:49–56. https://doi.org/10.1016/j.copbio.2017.07.014
Calzadiaz-Ramirez L, Meyer AS (2022) Formate dehydrogenases for CO2 utilization. Curr Opin Biotechnol 73:95–100. https://doi.org/10.1016/j.copbio.2021.07.011
Schuchmann K, Mueller V (2013) Direct and reversible hydrogenation of CO2 to formate by a bacterial carbon dioxide reductase. Science 342:1382–1386. https://doi.org/10.1126/science.1244758
Yu X, Niks D, Ge X et al (2019) Synthesis of formate from CO2 gas catalyzed by an O2-tolerant NAD-dependent formate dehydrogenase and glucose dehydrogenase. Biochemistry 58:1861–1868. https://doi.org/10.1021/acs.biochem.8b01301
Maia LB, Fonseca L, Moura I, Moura JJG (2016) Reduction of carbon dioxide by a molybdenum-containing formate dehydrogenase: a kinetic and mechanistic study. J Am Chem Soc 138:8834–8846. https://doi.org/10.1021/jacs.6b03941
Leo F, Schwarz FM, Schuchmann K, Müller V (2021) Capture of carbon dioxide and hydrogen by engineered Escherichia coli: hydrogen-dependent CO2 reduction to formate. Appl Microbiol Biotechnol. https://doi.org/10.1007/s00253-021-11463-z
Löwe H, Kremling A (2021) In-depth computational analysis of natural and artificial carbon fixation pathways. BioDesign Res. https://doi.org/10.34133/2021/9898316
Huang J, Yu Z, Groom J et al (2019) Rare earth element alcohol dehydrogenases widely occur among globally distributed, numerically abundant and environmentally important microbes. ISME J 13:2005–2017. https://doi.org/10.1038/s41396-019-0414-z
Chistoserdova L (2011) Modularity of methylotrophy, revisited. Environ Microbiol 13:2603–2622. https://doi.org/10.1111/j.1462-2920.2011.02464.x
Yurimoto H, Oku M, Sakai Y (2011) Yeast methylotrophy: metabolism, gene regulation and peroxisome homeostasis. Int J Microbiol 2011. https://doi.org/10.1155/2011/101298
Krog A, Heggeset TMB, Mueller JEN et al (2013) Methylotrophic bacillus methanolicus encodes two chromosomal and one plasmid born NAD+ dependent methanol dehydrogenase paralogs with different catalytic and biochemical properties. PLoS One 8:e59188. https://doi.org/10.1371/journal.pone.0059188
Meyer F, Keller P, Hartl J et al (2018) Methanol-essential growth of Escherichia coli. Nat Commun 9. https://doi.org/10.1038/s41467-018-03937-y
Wu TY, Chen CT, Liu JTJ et al (2016) Characterization and evolution of an activator-independent methanol dehydrogenase from Cupriavidus necator N-1. Appl Microbiol Biotechnol 100:4969–4983. https://doi.org/10.1007/s00253-016-7320-3
Chen FY, Jung H, Tsuei C, Liao JC (2020) Converting Escherichia coli to a synthetic methylotroph growing solely on methanol. Cell 182:1–14. https://doi.org/10.1016/j.cell.2020.07.010
Keller P, Noor E, Meyer F et al (2020) Methanol-dependent Escherichia coli strains with a complete ribulose monophosphate cycle. Nat Commun 11. https://doi.org/10.1038/s41467-020-19235-5
Smith TJ, Nichol T (2018) Engineering soluble methane monooxygenase for biocatalysis. In: Kalyuzhnaya MG, Xing X-H (eds) Methane biocatalysis: paving the way to sustainability. Springer, pp 153–168
Kim HJ, Huh J, Kwon YW et al (2019) Biological conversion of methane to methanol through genetic reassembly of native catalytic domains. Nat Catal 2:342–353. https://doi.org/10.1038/s41929-019-0255-1
Bennett RK, Dzvova N, Dillon M et al (2021) Expression of soluble methane monooxygenase in Escherichia coli enables methane conversion. bioRxiv. https://doi.org/10.1101/2021.08.05.455234
Claassens NJ, He H, Bar-even A (2019) Synthetic methanol and formate assimilation via modular engineering and selection. Curr Issues Mol Biol 33:237–248. https://doi.org/10.21775/9781912530045.14
Wenk S, Yishai O, Lindner SN (2018) An engineering approach for rewiring microbial metabolism. In: Methods in enzymology1st edn. Elsevier, pp 1–39
Sandberg TE, Salazar MJ, Weng LL et al (2019) The emergence of adaptive laboratory evolution as an efficient tool for biological discovery and industrial biotechnology. Metab Eng 56:1–16. https://doi.org/10.1016/j.ymben.2019.08.004
Neidhardt FC, Ingraham JL, Schaechter M (1990) Building blocks needed to produce 1g of E. coli protoplasm. In: Physiology of the bacterial cell: a molecular approach, pp 134–143
Yishai O, Goldbach L, Tenenboim H et al (2017) Engineered assimilation of exogenous and endogenous formate in Escherichia coli. ACS Synth Biol 6:1722–1731. https://doi.org/10.1021/acssynbio.7b00086
Yishai O, Bouzon M, Döring V, Bar-Even A (2018) In vivo assimilation of one-carbon via a synthetic reductive glycine pathway in Escherichia coli. ACS Synth Biol 7:2023–2028. https://doi.org/10.1021/acssynbio.8b00131
Antonovsky N, Gleizer S, Noor E et al (2016) Sugar synthesis from CO2 in Escherichia coli. Cell 166:1–11. https://doi.org/10.1016/j.cell.2016.05.064
Bang J, Yup S, Lee SY (2018) Assimilation of formic acid and CO2 by engineered Escherichia coli equipped with reconstructed one-carbon assimilation pathways. Proc Natl Acad Sci 115:E9271–E9279. https://doi.org/10.1073/pnas.1810386115
Song S, Timm S, Lindner SN et al (2020) Expression of formate-tetrahydrofolate ligase did not improve growth but interferes with nitrogen and carbon metabolism of Synechocystis sp. PCC 6803. Front Microbiol 11. https://doi.org/10.3389/fmicb.2020.01650
Döring V, Darii E, Yishai O et al (2018) Implementation of a reductive route of one-carbon assimilation in Escherichia coli through directed evolution. ACS Synth Biol 7:2029–2036. https://doi.org/10.1021/acssynbio.8b00167
Bar-Even A, Noor E, Lewis NE, Milo R (2010) Design and analysis of synthetic carbon fixation pathways. Proc Natl Acad Sci U S A 107:8889–8894. https://doi.org/10.1073/pnas.0907176107
Schwander T, Schada von Borzyskowski L, Burgener S et al (2016) A synthetic pathway for the fixation of carbon dioxide in vitro. Science 354:900–904. https://doi.org/10.1126/science.aah5237
Yang X, Yuan Q, Luo H et al (2019) Systematic design and in vitro validation of novel one-carbon assimilation pathways. Metab Eng 56:142–153. https://doi.org/10.1016/j.ymben.2019.09.001
Siegel JB, Smith AL, Poust S et al (2015) Computational protein design enables a novel one-carbon assimilation pathway. Proc Natl Acad Sci 112:3704–3709. https://doi.org/10.1073/pnas.1500545112
Gleizer S, Ben-Nissan R, Bar-on YM et al (2019) Conversion of Escherichia coli to generate all biomass carbon from CO2. Cell 179:1255–1263. https://doi.org/10.1016/j.cell.2019.11.009
Berg IA (2011) Ecological aspects of the distribution of different autotrophic CO2 fixation pathways. Appl Environ Microbiol 77:1925–1936. https://doi.org/10.1128/AEM.02473-10
Wang J, Anderson K, Wang J et al (2021) Enzyme engineering and in vivo testing of a formate-reduction pathway. bioRxiv. https://doi.org/10.1101/2021.02.15.431286
He H, Höper R, Dodenhöft M et al (2020) An optimized methanol assimilation pathway relying on promiscuous formaldehyde-condensing aldolases in E. coli. Metab Eng 60:1–13. https://doi.org/10.1016/j.ymben.2020.03.002
Lu X, Liu Y, Yang Y et al (2019) Constructing a synthetic pathway for acetyl-coenzyme A from one-carbon through enzyme design. Nat Commun 10. https://doi.org/10.1038/s41467-019-09095-z
Müller V (2019) New horizons in acetogenic conversion of one-carbon substrates and biological hydrogen storage. Trends Biotechnol 37:1344–1354. https://doi.org/10.1016/j.tibtech.2019.05.008
Erb TJ (2011) Carboxylases in natural and synthetic microbial pathways. Appl Environ Microbiol 77:8466–8477. https://doi.org/10.1128/AEM.05702-11
Miller TE, Beneyton T, Schwander T et al (2020) Light-powered CO2 fixation in a chloroplast mimic with natural and synthetic parts. Science 368:649–654. https://doi.org/10.1126/science.aaz6802
Satanowski A, Dronsella B, Noor E et al (2020) Awakening a latent carbon fixation cycle in Escherichia coli. Nat Commun 11. https://doi.org/10.1101/2020.05.18.102244
Gassler T, Sauer M, Gasser B et al (2020) The industrial yeast Pichia pastoris is converted from a heterotroph into an autotroph capable of growth on CO2. Nat Biotechnol 38:210–216. https://doi.org/10.1038/s41587-019-0363-0
Mall A, Sobotta J, Huber C et al (2018) Reversibility of citrate synthase allows autotrophic growth of a thermophilic bacterium. Science 359:563–567. https://doi.org/10.1126/science.aao2410
Nunoura T, Chikaraishi Y, Izaki R et al (2018) A primordial and reversible TCA cycle in a facultatively chemolithoautotrophic thermophile. Science 563:559–563. https://doi.org/10.1126/science.aao3407
Noor E, Flamholz A, Bar-Even A et al (2016) The protein cost of metabolic fluxes: prediction from enzymatic rate laws and cost minimization. PLoS Comput Biol. https://doi.org/10.1371/journal.pcbi.1005167
Zhang H, Li Y, Nie J et al (2020) Structure-based dynamic analysis of the glycine cleavage system suggests key residues for control of a key reaction step. Commun Biol 3. https://doi.org/10.1038/s42003-020-01401-6
Bocanegra JA, Scrutton NS, Perham RN (1993) Creation of an NADP-dependent pyruvate dehydrogenase multienzyme complex by protein engineering. Biochemistry 32:2737–2740. https://doi.org/10.1021/bi00062a001
Lindner SN, Calzadiaz Ramirez L, Krü JL et al (2018) NADPH-Auxotrophic E. coli: a sensor strain for testing in vivo regeneration of NADPH. ACS Synth Biol 7:2742–2749. https://doi.org/10.1021/acssynbio.8b00313
Pontrelli S, Chiu T, Lan EI, et al (2018) Escherichia coli as a host for metabolic engineering. Metab Eng 50:16–46. https://doi.org/10.1016/j.ymben.2018.04.008
Panich J, Fong B, Singer SW (2021) Metabolic engineering of Cupriavidus necator H16 for sustainable biofuels from CO2. Trends Biotechnol 39:412–424. https://doi.org/10.1016/j.tibtech.2021.01.001
Bar-Even A (2018) Daring metabolic designs for enhanced plant carbon fixation. Plant Sci 1–13. https://doi.org/10.1016/j.plantsci.2017.12.007
Barenholz U, Davidi D, Reznik E et al (2017) Design principles of autocatalytic cycles constrain enzyme kinetics and force low substrate saturation at flux branch points. Elife 6:1–32. https://doi.org/10.7554/eLife.20667.001
Acknowledgements
The authors are grateful to their mentor Arren Bar-Even. He was supposed to act as an editor and contribute a chapter for this book, which he could sadly not do anymore due to his unexpected, early demise in September 2020. He inspired us and many others to work on the reductive glycine pathway and the C1-bio-economy. In the spirit of Arren we want to further carry his brilliant ideas and work in this research area. NJC acknowledges support from the VENI grant awarded to him by the Dutch Science Organization (NWO) (VI.Veni.192.156). SY is supported by the NWO-Gravitation Project BaSyC (024.003.019). EO and BD are supported by the German Ministry of Education and Research (BMBF) grant Transformate (033RC023G). AS, VB, VR, SW, and SL acknowledge funding by the Max Planck Society.
Declaration of Interests
The authors have no competing interest to declare.
Author information
Authors and Affiliations
Corresponding author
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2022 The Author(s), under exclusive license to Springer Nature Switzerland AG
About this chapter
Cite this chapter
Claassens, N.J. et al. (2022). Engineering the Reductive Glycine Pathway: A Promising Synthetic Metabolism Approach for C1-Assimilation. In: Zeng, AP., Claassens, N.J. (eds) One-Carbon Feedstocks for Sustainable Bioproduction. Advances in Biochemical Engineering/Biotechnology, vol 180. Springer, Cham. https://doi.org/10.1007/10_2021_181
Download citation
DOI: https://doi.org/10.1007/10_2021_181
Published:
Publisher Name: Springer, Cham
Print ISBN: 978-3-031-06853-9
Online ISBN: 978-3-031-06854-6
eBook Packages: Chemistry and Materials ScienceChemistry and Material Science (R0)