Codon optimization, promoter and expression system selection that achieved high-level production of Yarrowia lipolytica lipase in Pichia pastoris

Enzyme and Microbial Technology

Volumn 71, Issue , 2015, Pages 66-72

  Zhou, Wen Jing ^a   Yang, Jiang Ke ^a   Mao, Lin ^a   Miao, Li Hong ^a  

^a WUHAN POLYTECHNIC UNIVERSITY   (China)

Author keywords

De novo design; Fermentation; Lipase; Pichiapink; Synthesis

Indexed keywords

DESIGN; FERMENTATION; GENES; HIGH LEVEL SYNTHESIS; LIPASES; SYNTHESIS (CHEMICAL); YEAST;

COMPARATIVE ANALYSIS; DE NOVO DESIGN; FERMENTATION BROTHS; HIGH LEVEL EXPRESSION; HIGH-LEVEL PRODUCTION; METHANOL-INDUCIBLE; PICHIAPINK; YARROWIA LIPOLYTICA LIPASE;

GENE EXPRESSION;

FORMALDEHYDE DEHYDROGENASE; MESSENGER RNA; NUCLEOTIDE; TRIACYLGLYCEROL LIPASE; TRIACYLGLYCEROL LIPASE 2; UNCLASSIFIED DRUG; CODON; FUNGAL PROTEIN; FUNGAL RNA; LIP2 PROTEIN, YARROWIA LIPOLYTICA; RECOMBINANT PROTEIN;

ALCOHOL METABOLISM; AMINO ACID SEQUENCE; ARTICLE; BIOMASS; CODON; CODON USAGE; CONTROLLED STUDY; DNA BASE COMPOSITION; ENZYME RELEASE; FERMENTATION; GENE; GENE EXPRESSION; GENE EXPRESSION SYSTEM; GENE SYNTHESIS; GENETIC VARIABILITY; GLYCOSYLATION; KOMAGATAELLA PASTORIS; MARKER GENE; MOLECULAR SIZE; MOLECULAR WEIGHT; NONHUMAN; NUCLEOTIDE SEQUENCE; PROCESS OPTIMIZATION; PROMOTER REGION; PROTEIN CONTENT; PROTEIN SECONDARY STRUCTURE; RECOMBINANT GENE; SYN LIP GENE; YARROWIA LIPOLYTICA; CHEMICAL STRUCTURE; CHEMISTRY; CONFORMATION; ENZYMOLOGY; FUNGAL GENE; GENETIC ENGINEERING; GENETICS; METABOLISM; MICROBIOLOGY; PICHIA; YARROWIA;

PICHIA; PICHIA PASTORIS; YARROWIA LIPOLYTICA;

CODON; FERMENTATION; FUNGAL PROTEINS; GENE EXPRESSION; GENES, FUNGAL; GENETIC ENGINEERING; INDUSTRIAL MICROBIOLOGY; LIPASE; MODELS, MOLECULAR; NUCLEIC ACID CONFORMATION; PICHIA; PROMOTER REGIONS, GENETIC; RECOMBINANT PROTEINS; RNA, FUNGAL; RNA, MESSENGER; YARROWIA;

EID: 84924263814     PISSN: 01410229     EISSN: 18790909     Source Type: Journal    
DOI: 10.1016/j.enzmictec.2014.10.007     Document Type: Article

References (27)

1. Meng Y., Wang G., Yang N., Zhou Z., Li Y., Liang X., et al. Two-step synthesis of fatty acid ethyl ester from soybean oil catalyzed by Yarrowia lipolytica lipase. Biotechnol Biofuels 2011, 4(1):6.
2. Casas-Godoy L., Meunchan M., Cot M., Duquesne S., Bordes F., Marty A. Yarrowia lipolytica lipase Lip2: an efficient enzyme for the production of concentrates of docosahexaenoic acid ethyl ester. J Biotechnol 2014, 180:30-36.
3. Cambon E., Piamtongkam R., Bordes F., Duquesne S., André I., Marty A. Rationally engineered double substituted variants of Yarrowia lipolytica lipase with enhanced activity coupled with highly inverted enantioselectivity towards 2-bromo phenyl acetic acid esters. Biotechnol Bioeng 2010, 106(6):852-859.
4. Cregg J.M., Vedvick T.S., Raschke W.C. Recent advances in the expression of foreign genes in Pichia pastoris. Biotechnology (N Y) 1993, 11:905-910.
5. Cregg J.M. Introduction: distinctions between Pichia pastoris and other expression systems. Methods Mol Biol 2007, 389:1-10.
6. Vedvick T.S. Gene expression in yeast: Pichia pastoris. Curr Opin Biotechnol 1991, 2:742-745.
7. Gasser B., Prielhofer R., Marx H., Maurer M., Nocon J., Steiger M., et al. Pichia pastoris: protein production host and model organism for biomedical research. Future Microbiol 2013, 8:191-208.
8. Zur H., Tuller T. Strong association between mRNA folding strength and protein abundance in S. cerevisiae. EMBO Rep 2012, 13:272-277.
9. Park C., Chen X., Yang J.R., Zhang J. Differential requirements for mRNA folding partially explain why highly expressed proteins evolved slowly. Proc Natl Acad Sci USA 2013, 110:E678-E686.
10. Mao Y., Liu H., Liu Y., Tao S. Deciphering the rules by which dynamics of mRNA secondary structure affect translation efficiency in Saccharomyces cerevisiae. Nucleic Acids Res 2014, 42(8):4813-4822.
11. Sinclair G., Choy F.Y. Synonymous codon usage bias and the expression of human glucocerebrosidase in the methylotrophic yeast, Pichia pastoris. Protein Expr Purif 2002, 26(1):96-105.
12. Mirzaei S.A., Yazdi M.T., Sepehrizadeh Z. Secretory expression and purification of a soluble NADH cytochrome b5 reductase enzyme from Mucor racemosus in Pichia pastoris based on codon usage adaptation. Biotechnol Lett 2010, 32(11):1705-1711.
13. Öberg F., Sjöhamn J., Conner M.T., Bill R.M., Hedfalk K. Improving recombinant eukaryotic membrane protein yields in Pichia pastoris: the importance of codon optimization and clone selection. Mol Membr Biol 2011, 28(6):398-411.
14. Quan J., Saaem I., Tang N., Ma S., Negre N., Gong H., et al. Parallel on-chip gene synthesis and application to optimization of protein expression. Nat Biotechnol 2011, 29:449-452.
15. Yang J.K., Liu L.Y., Dai J.H., Li Q. de novo design and synthesis of Candida antarctica lipase B gene and α-factor leads to high-level expression in Pichia pastoris. PLOS ONE 2013, 8(1):e53939.
16. Cregg J.M. Pichia protocols 2007, The Humana Press, Totowa, NJ. 2nd ed.
17. Rouillard J.M., Lee W., Truan G., et al. Gene2Oligo: oligonucleotide design for in vitro gene synthesis. Nucleic Acids Res 2004, 32:W176-W180.
18. Yang J.K., Chen F.Y., Yan X.X., Miao L.H., Dai J.H. A simple and accurate two-step long DNA sequences synthesis strategy to improve heterologous gene expression in Pichia. PLoS ONE 2012, 7(5):e36607.
19. Richard P., Manley J.L. Transcription termination by nuclear RNA polymerases. Genes Dev 2009, 23(11):1247-1269.
20. Cregg J.M., Madden K.R., Barringer K.J., Thill G.P., Stillman C.A. Functional characterization of the two alcohol oxidase genes from the yeast Pichia pastoris. Mol Cell Biol 1989, 9(3):1316-1323.
21. Shen S., Sulter G., Jeffries T.W., Cregg J.M. A strong nitrogen source-regulated promoter for controlled expression of foreign genes in the yeast Pichia pastoris. Gene 1998, 216(1):93-102.
22. Resina D., Serrano A., Valero F., Ferrer P. Expression of a Rhizopus oryzae lipase in Pichia pastoris under control of the nitrogen source-regulated formaldehyde dehydrogenase promoter. J Biotechnol 2004, 109(1-2):103-113.
23. Daly R., Hearn M.T. Expression of heterologous proteins in Pichia pastoris: a useful experimental tool in protein engineering and production. J Mol Recognit 2005, 18:119-138.
24. Resina D., Maurer M., Cos O., Arnau C., Carnicer M., Marx H., et al. Engineering of bottlenecks in Rhizopus oryzae lipase production in Pichia pastoris using the nitrogen source-regulated FLD1 promoter. Nat Biotechnol 2009, 25(6):396-403.
25. Pignède G., Wang H.J., Fudalej F., Seman M., Gaillardin C., Nicaud J.M. Autocloning and amplification of LIP2 in Yarrowia lipolytica. Appl Environ Microbiol 2000, 66(8):3283-3289.
26. Yu M., Lange S., Richter S., Tan T., Schmid R.D. High-level expression of extracellular lipase Lip2 from Yarrowia lipolytica in Pichia pastoris and its purification and characterization. Protein Expr Purif 2007, 53(2):255-263.
27. Wang X., Sun Y., Ke F., Zhao H., Liu T., Xu L., et al. Constitutive expression of Yarrowia lipolytica lipase LIP2 in Pichia pastoris using GAP as promoter. Appl Biochem Biotechnol 2012, 166(5):1355-1367.