Systematic engineering for high-yield production of viridiflorol and amorphadiene in auxotrophic Escherichia coli

Metabolic Engineering

Volumn 55, Issue , 2019, Pages 170-178

  Shukal, Sudha ^a   Chen, Xixian ^a   Zhang, Congqiang ^a  

^a AGENCY FOR SCIENCE   (Singapore)

Author keywords

Enzyme engineering; Metabolic engineering; Promoter engineering; RBS engineering; Statistical analysis; Synthetic biology; Terpenoids

Indexed keywords

BIOCHEMICAL ENGINEERING; ENZYMES; ESCHERICHIA COLI; LIPIDS; STATISTICAL METHODS; SYNTHETIC BIOLOGY;

ANTI-INFLAMMATORIES; ENZYME ENGINEERING; PERSONAL CARE PRODUCTS; STRAIN ENGINEERING; STRAIN OPTIMIZATION; SYSTEMATIC ENGINEERING; TERPENOIDS; TRANSCRIPTIONAL LEVELS;

METABOLIC ENGINEERING;

ARTEMISININ; CAROTENOID; CARYOPHYLLENE; DODECYL SULFATE SODIUM; FARNESYL DIPHOSPHATE; ISOPRENOID; MEVALONIC ACID; SESQUITERPENE; VIRIDIFLOROL; AMORPHA-4,11-DIENE; TERPENE;

ARTICLE; ENZYME ACTIVITY; ENZYME ENGINEERING; ERROR; ESCHERICHIA COLI; FED BATCH FERMENTATION; GENETIC TRANSCRIPTION; GROWTH RATE; METABOLIC ENGINEERING; METABOLISM; NONHUMAN; POLYACRYLAMIDE GEL ELECTROPHORESIS; PRIORITY JOURNAL; PROCESS OPTIMIZATION; PROOF OF CONCEPT; SACCHAROMYCES CEREVISIAE; SYNTHETIC BIOLOGY; TRANSLATION INITIATION; GENETICS;

ESCHERICHIA COLI; METABOLIC ENGINEERING; POLYCYCLIC SESQUITERPENES; TERPENES;

EID: 85069677581     PISSN: 10967176     EISSN: 10967184     Source Type: Journal    
DOI: 10.1016/j.ymben.2019.07.007     Document Type: Article

References (32)

1. Ajikumar, P.K., Tyo, K., Carlsen, S., Mucha, O., Phon, T.H., Stephanopoulos, G., Terpenoids: opportunities for biosynthesis of natural product drugs using engineered microorganisms. Mol. Pharm. 5 (2008), 167–190.
2. Ajikumar, P.K., Xiao, W.-H., Tyo, K.E., Wang, Y., Simeon, F., Leonard, E., Mucha, O., Phon, T.H., Pfeifer, B., Stephanopoulos, G., Isoprenoid pathway optimization for taxol precursor overproduction in Escherichia coli. Science 330 (2010), 70–74.
3. Bian, G., Han, Y., Hou, A., Yuan, Y., Liu, X., Deng, Z., Liu, T., Releasing the potential power of terpene synthases by a robust precursor supply platform. Metab. Eng. 42 (2017), 1–8.
4. Bridgford, J.L., Xie, S.C., Cobbold, S.A., Pasaje, C.F.A., Herrmann, S., Yang, T., Gillett, D.L., Dick, L.R., Ralph, S.A., Dogovski, C., Spillman, N.J., Tilley, L., Artemisinin kills malaria parasites by damaging proteins and inhibiting the proteasome. Nat. Commun., 9, 2018, 3801.
5. Chen, X., Zhang, C., Zou, R., Zhou, K., Stephanopoulos, G., Too, H.P., Statistical experimental design guided optimization of a one-pot biphasic multienzyme total synthesis of amorpha-4,11-diene. PLoS One, 8, 2013, e79650.
6. Datsenko, K.A., Wanner, B.L., One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc. Natl. Acad. Sci. U. S. A 97 (2000), 6640–6645.
7. Du, J., Yuan, Y., Si, T., Lian, J., Zhao, H., Customized optimization of metabolic pathways by combinatorial transcriptional engineering. Nucleic Acids Res., 40, 2012 e142-e142.
8. Farasat, I., Kushwaha, M., Collens, J., Easterbrook, M., Guido, M., Salis, H.M., Efficient search, mapping, and optimization of multi-protein genetic systems in diverse bacteria. Mol. Syst. Biol., 10, 2014 731-731.
9. Gilabert, M., Marcinkevicius, K., Andujar, S., Schiavone, M., Arena, M.E., Bardon, A., Sesqui- and triterpenoids from the liverwort Lepidozia chordulifera inhibitors of bacterial biofilm and elastase activity of human pathogenic bacteria. Phytomedicine 22 (2015), 77–85.
10. Goodman, D.B., Church, G.M., Kosuri, S., Causes and effects of N-terminal codon bias in bacterial genes. Science 342 (2013), 475–479.
11. Hulley, I.M., van Vuuren, S.F., Sadgrove, N.J., van Wyk, B.E., Antimicrobial activity of Elytropappus rhinocerotis (Asteraceae) against micro-organisms associated with foot odour and skin ailments. J. Ethnopharmacol. 228 (2019), 92–98.
12. Kirby, J., Keasling, J.D., Biosynthesis of plant isoprenoids: perspectives for microbial engineering. Annu. Rev. Plant Biol. 60 (2009), 335–355.
13. Leonard, E., Ajikumar, P.K., Thayer, K., Xiao, W.-H., Mo, J.D., Tidor, B., Stephanopoulos, G., Prather, K.L., Combining metabolic and protein engineering of a terpenoid biosynthetic pathway for overproduction and selectivity control. Proc. Natl. Acad. Sci. U. S. A 107 (2010), 13654–13659.
14. Li, R., Chou, W.K., Himmelberger, J.A., Litwin, K.M., Harris, G.G., Cane, D.E., Christianson, D.W., Reprogramming the chemodiversity of terpenoid cyclization by remolding the active site contour of epi-isozizaene synthase. Biochemistry 53 (2014), 1155–1168.
15. Ma, T., Zhou, Y., Li, X., Zhu, F., Cheng, Y., Liu, Y., Deng, Z., Liu, T., Genome mining of astaxanthin biosynthetic genes from Sphingomonas sp. ATCC 55669 for heterologous overproduction in Escherichia coli. Biotechnol. J. 11 (2016), 228–237.
16. Matthews, C.B., Kuo, A., Love, K.R., Love, J.C., Development of a general defined medium for Pichia pastoris. Biotechnol. Bioeng. 115 (2018), 103–113.
17. Paddon, C.J., Westfall, P.J., Pitera, D.J., Benjamin, K., Fisher, K., McPhee, D., Leavell, M.D., Tai, A., Main, A., Eng, D., Polichuk, D.R., Teoh, K.H., Reed, D.W., Treynor, T., Lenihan, J., Fleck, M., Bajad, S., Dang, G., Diola, D., Dorin, G., Ellens, K.W., Fickes, S., Galazzo, J., Gaucher, S.P., Geistlinger, T., Henry, R., Hepp, M., Horning, T., Iqbal, T., Jiang, H., Kizer, L., Lieu, B., Melis, D., Moss, N., Regentin, R., Secrest, S., Tsuruta, H., Vazquez, R., Westblade, L.F., Xu, L., Yu, M., Zhang, Y., Zhao, L., Lievense, J., Covello, P.S., Keasling, J.D., Reiling, K.K., Renninger, N.S., Newman, J.D., High-level semi-synthetic production of the potent antimalarial artemisinin. Nature 496 (2013), 528–532.
18. Padovan, A., Keszei, A., Köllner, T.G., Degenhardt, J., Foley, W.J., The molecular basis of host plant selection in Melaleuca quinquenervia by a successful biological control agent. Phytochemistry 71 (2010), 1237–1244.
19. Pfleger, B.F., Prather, K.L., Biological synthesis unbounded?. Nat. Biotechnol. 33 (2015), 1148–1149.
20. Rosano, G.L., Ceccarelli, E.A., Recombinant protein expression in Escherichia coli: advances and challenges. Front. Microbiol., 5, 2014.
21. Schalk, M., Pastore, L., Mirata, M.A., Khim, S., Schouwey, M., Deguerry, F., Pineda, V., Rocci, L., Daviet, L., Toward a biosynthetic route to sclareol and amber odorants. J. Am. Chem. Soc. 134 (2012), 18900–18903.
22. Schempp, F.M., Drummond, L., Buchhaupt, M., Schrader, J., Microbial cell factories for the production of terpenoid flavor and fragrance compounds. J. Agric. Food Chem. 66 (2018), 2247–2258.
23. Studier, F.W., Protein production by auto-induction in high density shaking cultures. Protein Expr. Purif. 41 (2005), 207–234.
24. Trevizan, L.N.F., Nascimento, K.F.d., Santos, J.A., Kassuya, C.A.L., Cardoso, C.A.L., Vieira, M.d.C., Moreira, F.M.F., Croda, J., Formagio, A.S.N., Anti-inflammatory, antioxidant and anti-Mycobacterium tuberculosis activity of viridiflorol: the major constituent of Allophylus edulis (A. St.-Hil., A. Juss. & Cambess.) Radlk. J. Ethnopharmacol. 192 (2016), 510–515.
25. Vickers, C.E., Bongers, M., Liu, Q., Delatte, T., Bouwmeester, H., Metabolic engineering of volatile isoprenoids in plants and microbes. Plant Cell Environ. 37 (2014), 1753–1775.
26. Whited, G.M., Feher, F.J., Benko, D.A., Cervin, M.A., Chotani, G.K., McAuliffe, J.C., LaDuca, R.J., Ben-Shoshan, E.A., Sanford, K.J., Technology update: development of a gas-phase bioprocess for isoprene-monomer production using metabolic pathway engineering. Ind. Biotechnol. 6 (2010), 152–163.
27. Xu, P., Gu, Q., Wang, W., Wong, L., Bower, A.G.W., Collins, C.H., Koffas, M.A.G., Modular optimization of multi-gene pathways for fatty acids production in E. coli. Nat. Commun., 4, 2013, 1409.
28. Zhang, C., Chen, X., Lindley, N.D., Too, H.P., A “plug-n-play” modular metabolic system for the production of apocarotenoids. Biotechnol. Bioeng. 115 (2018), 174–183.
29. Zhang, C., Seow, V.Y., Chen, X., Too, H.P., Multidimensional heuristic process for high-yield production of astaxanthin and fragrance molecules in Escherichia coli. Nat. Commun., 9, 2018, 1858.
30. Zhang, C., Zou, R., Chen, X., Stephanopoulos, G., Too, H.P., Experimental design-aided systematic pathway optimization of glucose uptake and deoxyxylulose phosphate pathway for improved amorphadiene production. Appl. Microbiol. Biotechnol. 99 (2015), 3825–3837.
31. Zhu, F., Lu, L., Fu, S., Zhong, X., Hu, M., Deng, Z., Liu, T., Targeted engineering and scale up of lycopene overproduction in Escherichia coli. Process Biochem., 2015, 1–6.
32. Zhu, F., Zhong, X., Hu, M., Lu, L., Deng, Z., Liu, T., In vitro reconstitution of mevalonate pathway and targeted engineering of farnesene overproduction in Escherichia coli. Biotechnol. Bioeng. 111 (2014), 1396–1405.