Combining Gal4p-mediated expression enhancement and directed evolution of isoprene synthase to improve isoprene production in Saccharomyces cerevisiae

Metabolic Engineering

Volumn 39, Issue , 2017, Pages 257-266

  Wang, Fan ^a   Lv, Xiaomei ^a   Xie, Wenping ^a   Zhou, Pingping ^a   Zhu, Yongqiang ^a   Yao, Zhen ^a   Yang, Chengcheng ^a   Yang, Xiaohong ^a   Ye, Lidan ^a,b   Yu, Hongwei ^a  

^a ZHEJIANG UNIVERSITY   (China)

^b ZHEJIANG UNIVERSITY   (China)

Author keywords

Directed evolution; GAL4 regulation; Isoprene; Isoprene synthase; Saccharomyces cerevisiae

Indexed keywords

BIOCHEMISTRY; BIOSYNTHESIS; CARBON; CATALYST ACTIVITY; FERMENTATION; GENE EXPRESSION; YEAST;

BIOTECHNOLOGICAL PRODUCTION; DIRECTED EVOLUTION; ENHANCED CATALYTIC ACTIVITY; GAL4 REGULATION; HIGH THROUGHPUT SCREENING METHODS; ISOPRENE SYNTHASE; SACCHAROMYCES CEREVISIAE STRAINS; TRANSCRIPTIONAL ACTIVATORS;

ISOPRENE;

GALACTOSE; ISOPRENE; ISOPRENE SYNTHASE; PROTEIN GAL4P; SUCROSE; SYNTHETASE; TRANSCRIPTION FACTOR; UNCLASSIFIED DRUG; 1,3 BUTADIENE DERIVATIVE; DNA BINDING PROTEIN; GAL4 PROTEIN, S CEREVISIAE; GAL80 PROTEIN, S CEREVISIAE; HEMITERPENE; PENTANE; REPRESSOR PROTEIN; SACCHAROMYCES CEREVISIAE PROTEIN; TRANSFERASE;

ARTICLE; BATCH FERMENTATION; BIOTECHNOLOGICAL PRODUCTION; CARBON SOURCE; CATALYSIS; COMBINATORIAL CHEMISTRY; FED BATCH FERMENTATION; FUNGAL GENE; FUNGAL STRAIN; GAL80 GENE; GENE EXPRESSION SYSTEM; HIGH THROUGHPUT SCREENING; ISPS GENE; METABOLIC ENGINEERING; MUTAGENESIS; NONHUMAN; PRECURSOR; PRIORITY JOURNAL; PROMOTER REGION; REAL TIME POLYMERASE CHAIN REACTION; SACCHAROMYCES CEREVISIAE; BIOSYNTHESIS; DIRECTED MOLECULAR EVOLUTION; GENE EXPRESSION REGULATION; GENETIC ENHANCEMENT; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; PHYSIOLOGY; PROCEDURES; UPREGULATION;

ALKYL AND ARYL TRANSFERASES; BIOSYNTHETIC PATHWAYS; BUTADIENES; DIRECTED MOLECULAR EVOLUTION; DNA-BINDING PROTEINS; GENE EXPRESSION REGULATION, BACTERIAL; GENE EXPRESSION REGULATION, ENZYMOLOGIC; GENETIC ENHANCEMENT; HEMITERPENES; METABOLIC ENGINEERING; METABOLIC NETWORKS AND PATHWAYS; PENTANES; REPRESSOR PROTEINS; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; TRANSCRIPTION FACTORS; UP-REGULATION;

EID: 85008643956     PISSN: 10967176     EISSN: 10967184     Source Type: Journal    
DOI: 10.1016/j.ymben.2016.12.011     Document Type: Article

References (46)

1. Bentley, F.K., Zurbriggen, A., Melis, A., Heterologous expression of the mevalonic acid pathway in cyanobacteria enhances endogenous carbon partitioning to isoprene. Mol. Plant. 7 (2014), 71–86.
2. Brachmann, C.B., Davies, A., Cost, G.J., Caputo, E., Li, J., Hieter, P., Boeke, J.D., Designer deletion strains derived from Saccharomyces cerevisiae S288C: a useful set of strains and plasmids for PCR-mediated gene disruption and other applications. Yeast 14 (1998), 115–132.
3. Chang, M.C.Y., Keasling, J.D., Production of isoprenoid pharmaceuticals by engineered microbes. Nat. Chem. Biol. 2 (2006), 674–681.
4. Faraldos, J.A., Gonzalez, V., Li, A., Yu, F., Koksal, M., Christianson, David W., Allemann, R.K., Probing the mechanism of 1,4-conjugate elimination reactions catalyzed by terpene synthases. J. Am. Chem. Soc. 134 (2012), 20844–20848.
5. Güldener, U., Heck, S., Fiedler, T., Beinhauer, J., Hegemann, J.H., A new efficient gene disruption cassette for repeated use in budding yeast. Nucleic Acids Res. 24 (1996), 2519–2524.
6. Gietz, R.D., Woods, R.A., Yeast transformation by the LiAc/SS carrier DNA/PEG method. Methods Mol. Biol. 313 (2006), 107–120.
7. Gill, G., Ptashne, M., Negative effect of the transcriptional activator GAL4. Nature 334 (2002), 721–724.
8. Giniger, E., Ptashne, M., Cooperative DNA binding of the yeast transcriptional activator GAL4. Proc. Natl. Acad. Sci. USA 85 (1988), 382–386.
9. Guan, C., Cui, W., Cheng, J., Zhou, L., Liu, Z., Zhou, Z., Development of an efficient autoinducible expression system by promoter engineering in Bacillus subtilis. Micro. Cell Fact. 15 (2016), 1–12.
10. Guenther, A.B., Karl, T., Harley, P.C., Geron, C., Estimates of global terrestrial isoprene emissions using MEGAN (Model of Emissions of Gases and Aerosols from Nature). Atmos. Chem. Phys. 6 (2006), 3181–3210.
11. Hoek, P.V., Hulster, E.D., Dijken, J.P.V., Pronk, J.T., Fermentative capacity in high-cell-density fed-batch cultures of baker's yeast. Biotechnol. Bioeng. 68 (2000), 517–523.
12. Hong, K.-K., Nielsen, J., Metabolic engineering of Saccharomyces cerevisiae: a key cell factory platform for future biorefineries. Cell Mol. Life Sci. 69 (2012), 2671–2690.
13. Johnston, M., Flick, J.S., Pexton, T., Multiple mechanisms provide rapid and stringent glucose repression of GAL Gene expression in Saccharomyces cerevisiae. Mol. Cell Biol. 14 (1994), 3834–3841.
14. Johnston, S.A., Hopper, J.E., Isolation of the yeast regulatory gene GAL4 and analysis of its dosage effects on the galactose/melibiose regulon. Proc. Natl. Acad. Sci. USA 79 (1982), 6971–6975.
15. Köksal, M., Zimmer, I., Schnitzler, J.-P., Christianson, D.W., Structure of isoprene synthase illuminates the chemical mechanism of teragram atmospheric carbon emission. J. Mol. Biol. 402 (2010), 363–373.
16. Karim, A.S., Curran, K.A., Alper, H.S., Characterization of plasmid burden and copy number in Saccharomyces cerevisiae for optimization of metabolic engineering applications. FEMS Yeast Res. 13 (2013), 107–116.
17. Keasling, J.D., Synthetic biology and the development of tools for metabolic engineering. Metab. Eng. 102 (2012), 189–195.
18. Kuchner, O., Arnold, F.H., Directed evolution of enzyme catalysts. Trends Biotechnol. 15 (1997), 523–530.
19. Lee, S.-W., Oh, M.-K., A synthetic suicide riboswitch for the high-throughput screening of metabolite production in Saccharomyces cerevisiae. Metab. Eng. 28 (2015), 143–150.
20. Lindberg, P., Park, S., Melis, A., Engineering a platform for photosynthetic isoprene production in cyanobacteria, using Synechocystis as the model organism. Metab. Eng. 12 (2010), 70–79.
21. Livak, K.J., Schmittgen, T.D., Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) method. Methods 25 (2001), 402–408.
22. Lohr, D., Venkov, P., Zlatanova, J., Transcriptional regulation in the yeast GAL gene family: a complex genetic network. FASEB J. 9 (1995), 777–787.
23. Lu, W., Ye, L., Xu, H., Xie, W., Gu, J., Yu, H., Enhanced production of coenzyme Q10 by self-regulating the engineered MEP pathway in Rhodobacter sphaeroides. Biotechnol. Bioeng. 111 (2014), 761–769.
24. Lv, X., Gu, J., Wang, F., Xie, W., Liu, M., Ye, L., Yu, H., Combinatorial pathway optimization in Escherichia coli by directed co-evolution of rate-limiting enzymes and modular pathway engineering. Biotechnol. Bioeng. 9999 (2016), 1–9.
25. Lv, X., Wang, F., Zhou, P., Ye, L., Xie, W., Xu, H., Yu, H., Dual regulation of cytoplasmic and mitochondrial acetyl-CoA utilization for improved isoprene production by Saccharomyces cerevisiae. Nat. Commun., 7, 2016, 12851.
26. Lv, X., Xie, W., Lu, W., Guo, F., Gu, J., Yu, H., Ye, L., Enhanced isoprene biosynthesis in Saccharomyces cerevisiae by engineering of the native acetyl-CoA and mevalonic acid pathways with a push-pull-restrain strategy. J. Biotechnol. 186 (2014), 128–136.
27. Lv, X., Xu, H., Yu, H., Significantly enhanced production of isoprene by ordered coexpression of genes dxs, dxr, and idi in Escherichia coli. Appl. Microbiol. Biotechnol. 97 (2013), 2357–2365.
28. Martegani, E., Brambilla, L., Porro, D., Ranzi, B.M., Alberghina, L., Alteration of cell population structure due to cell lysis in Saccharomyces cerevisiae cells overexpressing the GAL4 gene. Yeast 9 (1993), 575–582.
29. Martin, V.J.J., Pitera, D.J., Withers, S.T., Newman, J.D., Keasling, J.D., Engineering a mevalonate pathway in Escherichia coli for production of terpenoids. Nat. Biotechnol. 21 (2003), 796–802.
30. Nakajima, M., Abe, K., Ferri, S., Sode, K., Development of a light-regulated cell-recovery system for non-photosynthetic bacteria. Microb. Cell Fact. 15 (2016), 1–8.
31. Ohto, C., Muramatsu, M., Obata, S., Sakuradani, E., Shimizu, S., Overexpression of the gene encoding HMG-CoA reductase in Saccharomyces cerevisiae for production of prenyl alcohols. Appl. Microbiol. Biotechnol. 82 (2009), 837–845.
32. Ostergaard, S., Olsson, L., Johnston, M., Nielsen, J., Increasing galactose consumption by Saccharomyces cerevisiae through metabolic engineering of the GAL gene regulatory network. Nat. Biotechnol. 18 (2000), 1283–1286.
33. Polakowski, T., Stahl, U., Lang, C., Overexpression of a cytosolic hydroxymethylglutaryl-CoA reductase leads to squalene accumulation in yeast. Appl. Microbiol. Biotechnol. 49 (1998), 66–71.
34. Sasaki, K., Ohara, K., Yazaki, K., Gene expression and characterization of isoprene synthase from Populus alba. FEBS Lett. 579 (2005), 2514–2518.
35. Seoa, S.W., Yanga, J., Minb, B.E., Janga, S., Limb, J.H., Lima, H.G., Kimb, S.C., Kimb, S.Y., Jeong, J.H., Jung, G.Y., Synthetic biology: tools to design microbes for the production of chemicals and fuels. Biotechnol. Adv. 31 (2013), 811–817.
36. Sharkey, T.D., Gray, D.W., Pell, H.K., Breneman, S.R., Topper, L., Isoprene synthases genes from a monophyletic clade of acyclic terpene synthases in the TPS-B terpene synthase family. Evolution 67 (2012), 1026–1040.
37. Stagoj, M.N., Comino, A., Komel, R., A novel GAL recombinant yeast strain for enhanced protein production. Biomol. Eng. 23 (2006), 195–199.
38. Torchia, T.E., Hamilton, R.W., Cano, C.L., Hopper, J.E., Disruption of regulatory gene GAL80 in Saccharomyces cerevisiae: effects on carbon-controlled regulation of the galactose/melibiose pathway genes. Mol. Cell Biol. 4 (1984), 1521–1527.
39. Withers, S.T., Gottlieb, S.S., Newman, J.D., Keasling, J.D., Identification of isopentenol biosynthetic genes from Bacillus subtilis by a screening method based on isoprenoid precursor toxicity. Appl. Environ. Microbiol. 73 (2007), 6277–6283.
40. Xie, W., Liu, M., Lv, X., Lu, W., Gu, J., Yu, H., Construction of a controllable b-carotene biosynthetic pathway by decentralized assembly strategy in Saccharomyces cerevisiae. Biotechnol. Bioeng. 111 (2014), 125–133.
41. Xie, W., Ye, L., Lv, X., Xu, H., Yu, H., Sequential control of biosynthetic pathways for balanced utilization of metabolic intermediates in Saccharomyces cerevisiae. Metab. Eng. 28 (2015), 8–18.
42. Xue, J., Ahring, B.K., Enhancing isoprene production by genetic modification of the 1-deoxy-d-xylulose-5-phosphate pathway in Bacillus subtilis. Appl. Environ. Microbiol. 77 (2011), 2399–2405.
43. Yang, C., Gao, X., Jiang, Y., Sun, B., Gao, F., Yang, S., Synergy between methylerythritol phosphate pathway and mevalonate pathway for isoprene production in Escherichia coli. Metab. Eng. 37 (2016), 79–91.
44. Ye, L., Lv, X., Yu, H., Engineering microbes for isoprene production. Metab. Eng., 2016.
45. Zhao, Y., Yang, J., Qin, B., Li, Y., Sun, Y., Su, S., Xian, M., Biosynthesis of isoprene in Escherichia coli via methylerythritol phosphate (MEP) pathway. Appl. Microbiol. Biotechnol. 90 (2011), 1915–1922.
46. Zurbriggen, A., Henning, K., Anastasios, M., Isoprene production via the mevalonic acid pathway in Escherichia coli (bacteria). BioEnergy Res. 5 (2012), 814–828.