Metabolic engineering of Escherichia coli for the utilization of ethanol

Yujin Cao1, Hui Mu2, Jing Guo1, Hui Liu1, Rubing Zhang1, Wei Liu1, Ming Xian1, Huizhou Liu1
1CAS Key Laboratory of Biobased Materials, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China
2Energy Research Institute, Shandong Key Laboratory of Biomass Gasification Technology, Qilu University of Technology (Shandong Academy of Sciences), Jinan, China

Tóm tắt

Abstract Background The fuel ethanol industry has made tremendous progress in the last decades. Ethanol can be obtained by fermentation using a variety of biomass materials as the feedstocks. However, few studies have been conducted on ethanol utilization by microorganisms. The price of petroleum-derived ethanol, easily made by the hydrolysis of ethylene, is even lower than that of bioethanol. If ethanol can be metabolized by microorganisms to produce value-added chemicals, it will open a new door for the utilization of inexpensive ethanol resources. Results We constructed an engineered Escherichia coli strain which could utilize ethanol as the sole carbon source. The alcohol dehydrogenase and aldehyde dehydrogenase from Aspergillus nidulans was introduced into E. coli and the recombinant strain acquired the ability to grow on ethanol. Cell growth continued when ethanol was supplied after glucose starvation and 2.24 g L−1 of ethanol was further consumed during the shake-flasks fermentation process. Then ethanol was further used for the production of mevalonic acid by heterologously expressing its biosynthetic pathway. Deuterium-labeled ethanol-D6 as the feedstock confirmed that mevalonic acid was synthesized from ethanol. Conclusions This study demonstrated the possibility of using ethanol as the carbon source by engineered E. coli strains. It can serve as the basis for the construction of more robust strains in the future though the catabolic capacity of ethanol should be further improved.

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Tài liệu tham khảo

Hahn-Hägerdal B, Galbe M, Gorwa-Grauslund MF, Lidén G, Zacchi G. Bio-ethanol—the fuel of tomorrow from the residues of today. Trends Biotechnol. 2006;24:549–56.

Kim SJ, Lee JE, Lee DY, Park H, Kim KH, Park YC. Multi-omic characterization of laboratory-evolved Saccharomyces cerevisiae HJ7-14 with high ability of algae-based ethanol production. Appl Microbiol Biotechnol. 2018;102:8989–9002.

Satari B, Karimi K. Mucoralean fungi for sustainable production of bioethanol and biologically active molecules. Appl Microbiol Biotechnol. 2018;102:1097–117.

Rao MRR, Stokes JL. Utilization of ethanol by acetic acid bacteria. J Bacteriol. 1953;66:634–8.

Salcedo-Vite K, Sigala J-C, Segura D, Gosset G, Martinez A. Acinetobacter baylyi ADP1 growth performance and lipid accumulation on different carbon sources. Appl Microbiol Biotechnol. 2019;103:6217–29.

Frimmer U, Widdel F. Oxidation of ethanol by methanogenic bacteria. Arch Microbiol. 1989;152:479–83.

Nagpal S, Chuichulcherm S, Livingston A, Peeva L. Ethanol utilization by sulfate-reducing bacteria: an experimental and modeling study. Biotechnol Bioeng. 2000;70:533–43.

Liu Y, Bai C, Liu Q, Xu Q, Qian Z, Peng Q, et al. Engineered ethanol-driven biosynthetic system for improving production of acetyl-CoA derived drugs in crabtree-negative yeast. Metab Eng. 2019;54:275–84.

Domenech F, Christen P, Páca J, Revah S. Ethanol utilization for metabolite production by Candida utilis strains in liquid medium. Acta Biotechnol. 1999;19:27–36.

Gatter M, Ottlik S, Kövesi Z, Bauer B, Matthäus F, Barth G. Three alcohol dehydrogenase genes and one acetyl-CoA synthetase gene are responsible for ethanol utilization in Yarrowia lipolytica. Fungal Genet Biol. 2016;95:30–8.

Cao Y, Zhang H, Liu H, Liu W, Zhang R, Xian M, et al. Biosynthesis and production of sabinene: current state and perspectives. Appl Microbiol Biotechnol. 2018;102:1535–44.

Dawes EA, Foster SM. The formation of ethanol in Escherichia coli. Biochim Biophys Acta. 1956;22:253–65.

Leon RP, Creaser EH. The utilization of ethanol for biosynthesis in Escherichia coli. Can J Biochem Physiol. 1958;36:839–45.

Felenbok B, Flipphi M, Nikolaev I. Ethanol catabolism in Aspergillus nidulans: a model system for studying gene regulation. Prog Nucleic Acid Res Mol Biol. 2001;69:149–204.

Cao HS, Wei D, Yang YD, Shang Y, Li GY, Zhou YQ, et al. Systems-level understanding of ethanol-induced stresses and adaptation in E. coli. Sci Rep. 2017;7:44150. https://doi.org/10.1038/srep44150.

Lyons E, Freeling M, Kustu S, Inwood W. Using genomic sequencing for classical genetics in E. coli K12. PLoS One. 2011;6:e16717.

Lasserre JP, Beyne E, Pyndiah S, Lapaillerie D, Claverol S, Bonneu M. A complexomic study of Escherichia coli using two-dimensional blue native/SDS polyacrylamide gel electrophoresis. Electrophoresis. 2006;27:3306–21.

Membrillo-Hernández J, Echave P, Cabiscol E, Tamarit J, Ros J, Lin ECC. Evolution of the adhE gene product of Escherichia coli from a functional reductase to a dehydrogenase: genetic and biochemical studies of the mutant proteins. J Biol Chem. 2000;275:33869–75.

Shafqat J, Höög JO, Hjelmqvist L, Oppermann UCT, Ibáñez C, Jörnvall H. An ethanol-inducible MDR ethanol dehydrogenase/acetaldehyde reductase in Escherichia coli. Eur J Biochem. 1999;263:305–11.

Limón A, Hidalgo E, Aguilar J. The aldA gene of Escherichia coli is under the control of at least three transcriptional regulators. Microbiology. 1997;143:2085–95.

Flipphi M, Kocialkowska J, Felenbok B. Relationships between the ethanol utilization (alc) pathway and unrelated catabolic pathways in Aspergillus nidulans. Eur J Biochem. 2003;270:3555–64.

Karlsson A, El-Ahmad M, Johansson K, Shafqat J, Jörnvall H, Eklund H, et al. Tetrameric NAD-dependent alcohol dehydrogenase. Chem-Biol Interact. 2003;143–144:239–45.

Nikolaev I, Mathieu M, van de Vondervoort PJI, Visser J, Felenbok B. Heterologous expression of the Aspergillus nidulans alcR–alcA system in Aspergillus niger. Fungal Genet Biol. 2002;37:89–97.

Vasiliou V, Pappa A, Petersen DR. Role of aldehyde dehydrogenases in endogenous and xenobiotic metabolism. Chem Biol Interact. 2000;129:1–19.

Novak K, Flöckner L, Erian AM, Freitag P, Herwig C, Pflügl S. Characterizing the effect of expression of an acetyl-CoA synthetase insensitive to acetylation on co-utilization of glucose and acetate in batch and continuous cultures of E. coli W. Microb Cell Fact. 2018;17:109.

Lin H, Castro NM, Bennett GN, San KY. Acetyl-CoA synthetase overexpression in Escherichia coli demonstrates more efficient acetate assimilation and lower acetate accumulation: a potential tool in metabolic engineering. Appl Microbiol Biotechnol. 2006;71:870–4.

Tabata K, Hashimoto SI. Production of mevalonate by a metabolically-engineered Escherichia coli. Biotechnol Lett. 2004;26:1487–91.

Heinson CD, Williams JM, Tinnerman WN, Malloy TB. Deuterium exchange in ethyl acetoacetate: an undergraduate GC-MS experiment. J Chem Educ. 2005;82:787.

Lindenthal B, von Berginann K. Determination of urinary mevalonic acid using isotope dilution technique. Biol Mass Spectrom. 1994;23:445–50.

Pinkart HC, White DC. Phospholipid biosynthesis and solvent tolerance in Pseudomonas putida strains. J Bacteriol. 1997;179:4219–26.

Gonzalez R, Tao H, Purvis JE, York SW, Shanmugam KT, Ingram LO. Gene array-based identification of changes that contribute to ethanol tolerance in ethanologenic Escherichia coli: comparison of KO11 (parent) to LY01 (resistant mutant). Biotechnol Progr. 2003;19:612–23.

Wang Z, Chen M, Xu Y, Li S, Lu W, Ping S, et al. An ethanol-tolerant recombinant Escherichia coli expressing Zymomonas mobilis pdc and adhB genes for enhanced ethanol production from xylose. Biotechnol Lett. 2008;30:657–63.

Mock J, Zheng Y, Mueller AP, Ly S, Tran L, Segovia S, et al. Energy conservation associated with ethanol formation from H2 and CO2 in Clostridium autoethanogenum involving electron bifurcation. J Bacteriol. 2015;197:2965–80.

Bertsch J, Siemund AL, Kremp F, Müller V. A novel route for ethanol oxidation in the acetogenic bacterium Acetobacterium woodii: the acetaldehyde/ethanol dehydrogenase pathway. Environ Microbiol. 2016;18:2913–22.

Agarwal PK, Webb SP, Hammes-Schiffer S. Computational studies of the mechanism for proton and hydride transfer in liver alcohol dehydrogenase. J Am Chem Soc. 2000;122:4803–12.

Heinstra PWH, Thörig GEW, Scharloo W, Drenth W, Nolte RJM. Kinetics and thermodynamics of ethanol oxidation catalyzed by genetic variants of the alcohol dehydrogenase from Drosophila melanogaster and D. simulans. Biochim Biophys Acta. 1988;967:224–33.

Zhang S, Yang W, Chen H, Liu B, Lin B, Tao Y. Metabolic engineering for efficient supply of acetyl-CoA from different carbon sources in Escherichia coli. Microb Cell Fact. 2019;18:130.

Hasona A, Kim Y, Healy FG, Ingram LO, Shanmugam KT. Pyruvate formate lyase and acetate kinase are essential for anaerobic growth of Escherichia coli on xylose. J Bacteriol. 2004;186:7593–600.

Cao Y, Zhang R, Liu W, Zhao G, Niu W, Guo J, et al. Manipulation of the precursor supply for high-level production of longifolene by metabolically engineered Escherichia coli. Sci Rep. 2019;9:95.

Siavoshian S, Simoneau C, Maugeais P, Marks L, Rodary L, Gardette J, et al. Measurement of mevalonic acid in human urine by bench top gas chromatography-mass spectrometry. Clin Chim Acta. 1995;243:129–36.