Abstract
Yarrowia lipolytica has emerged as an alternative expression system for heterologous protein production and enzyme evolution. Several different expression systems dedicated for this species have been developed, ranging from the simple cloning of expression vectors to recently developed high-throughput methodologies using efficient cloning and assembly such as Gateway and Golden Gate strategies. The latter strategies, due to their modular character, enable multiple vector construction and the construction of expression cassettes containing different genes or a gene under different promoters of various strengths.
Here, we present the Golden Gate cloning strategy for the construction of multiple expression cassettes, the transformation into Y. lipolytica, and the selection of efficient enzyme-producing strains using an insect alpha-amylase as a reporter detected via a thermal cycler-based microassay.
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References
Madzak C (2015) Yarrowia lipolytica: recent achievements in heterologous protein expression and pathway engineering. Appl Microbiol Biotechnol 99:4559–4577. https://doi.org/10.1007/s00253-015-6624-z
Madzak C, Beckerich J-M (2013) Heterologous protein expression and secretion in Yarrowia lipolytica. In: Barth G (ed) Yarrowia lipolytica: biotechnological applications. Springer Berlin Heidelberg, Berlin, Heidelberg, pp 1–76. https://doi.org/10.1007/978-3-642-38583-4_1
Le Dall MT, Nicaud JM, Gaillardin C (1994) Multiple-copy integration in the yeast Yarrowia lipolytica. Curr Genet 26(1):38–44
Pignede G, Wang H-J, Fudalej F, Seman M, Gaillardin C, Nicaud J-M (2000) Autocloning and amplification of LIP2 in Yarrowia lipolytica. Appl Environ Microbiol 66(8):3283–3289. https://doi.org/10.1128/aem.66.8.3283-3289.2000
Nicaud J-M, Madzak C, van den Broek P, Gysler C, Duboc P, Niederberger P, Gaillardin C (2002) Protein expression and secretion in the yeast Yarrowia lipolytica. FEMS Yeast Res 2(3):371–379. https://doi.org/10.1111/j.1567-1364.2002.tb00106.x
Ogrydziak DM, Nicaud JM (2012) Characterization of Yarrowia lipolytica XPR2 multi-copy strains over-producing alkaline extracellular protease—a system for rapidly increasing secretory pathway cargo loads. FEMS Yeast Res 12(8):938–948. https://doi.org/10.1111/j.1567-1364.2012.00846.x
Madzak C, Treton B, Blanchin-Roland S (2000) Strong hybrid promoters and integrative expression/secretion vectors for quasi-constitutive expression of heterologous proteins in the yeast Yarrowia lipolytica. J Mol Microbiol Biotechnol 2(2):207–216
Bordes F, Fudalej F, Dossat V, Nicaud JM, Marty A (2007) A new recombinant protein expression system for high-throughput screening in the yeast Yarrowia lipolytica. J Microbiol Methods 70(3):493–502
Juretzek T, Le Dall M-T, Mauersberger S, Gaillardin C, Barth G, Nicaud J-M (2001) Vectors for gene expression and amplification in the yeast Yarrowia lipolytica. Yeast 18(2):97–113. https://doi.org/10.1002/1097-0061(20010130)18:2<97::aid-yea652>3.0.co;2-u
Barth G, Gaillardin C (1996) The dimorphic fungus Yarrowia lipolytica. In: Wolf K (ed) Genetics, biochemistry and molecular biology of non conventional yeasts. Springer Verlag, Heidelberg, pp 313–388
Müller S, Sandal T, Kamp-Hansen P, Dalbøge H (1998) Comparison of expression systems in the yeasts Saccharomyces cerevisiae, Hansenula polymorpha, Klyveromyces lactis, Schizosaccharomyces pombe and Yarrowia lipolytica. Cloning of two novel promoters from Yarrowia lipolytica. Yeast 14(14):1267–1283. https://doi.org/10.1002/(sici)1097-0061(1998100)14:14<1267::aid-yea327>3.0.co;2-2
Sumita T, Iida T, Yamagami S, Horiuchi H, Takagi M, Ohta A (2002) YlALK1 encoding the cytochrome P450ALK1 in Yarrowia lipolytica is transcriptionally induced by n-alkane through two distinct cis-elements on its promoter. Biochem Biophys Res Commun 294(5):1071–1078. https://doi.org/10.1016/S0006-291X(02)00607-1
Trassaert M, Vandermies M, Carly F, Denies O, Thomas S, Fickers P, Nicaud J-M (2017) New inducible promoter for gene expression and synthetic biology in Yarrowia lipolytica. Microb Cell Factories 16:141. https://doi.org/10.1186/s12934-017-0755-0
Carly F, Vandermies M, Telek S, Steels S, Thomas S, Nicaud J-M, Fickers P (2017) Enhancing erythritol productivity in Yarrowia lipolytica using metabolic engineering. Metab Eng 42:19–24. https://doi.org/10.1016/j.ymben.2017.05.002
Engler C, Gruetzner R, Kandzia R, Marillonnet S (2009) Golden Gate shuffling: a one-pot DNA shuffling method based on type IIs restriction enzymes. PLoS One 4(5):e5553. https://doi.org/10.1371/journal.pone.0005553
Celinska E, Ledesma-Amaro R, Larroude M, Rossignol T, Pauthenier C, Nicaud JM (2017) Golden Gate Assembly system dedicated to complex pathway manipulation in Yarrowia lipolytica. Microb Biotechnol 10(2):450–455. https://doi.org/10.1111/1751-7915.12605
Celińska E, Borkowska M, Białas W (2016) Evaluation of heterologous alpha-amylase production in two expression platforms dedicated for Yarrowia lipolytica—commercial Po1g-pYLSC (php4d) and custom-made A18-pYLTEF (pTEF). Yeast 33(5):165–181. https://doi.org/10.1002/yea.3149
Celińska E, Borkowska M, Białas W (2016) Evaluation of a recombinant insect-derived amylase performance in simultaneous saccharification and fermentation process with industrial yeasts. Appl Microbiol Biotechnol 100(6):2693–2707. https://doi.org/10.1007/s00253-015-7098-8
Celińska E, Białas W, Borkowska M, Grajek W (2015) Cloning, expression, and purification of insect (Sitophilus oryzae) alpha-amylase, able to digest granular starch, in Yarrowia lipolytica host. Appl Microbiol Biotechnol 99(6):2727–2739. https://doi.org/10.1007/s00253-014-6314-2
Leplat C, Nicaud J-M, Rossignol T (2015) High-throughput transformation method for Yarrowia lipolytica mutant library screening. FEMS Yeast Res 15(6). https://doi.org/10.1093/femsyr/fov052
Chen DC, Beckerich JM, Gaillardin C (1997) One-step transformation of the dimorphic yeast Yarrowia lipolytica. Appl Microbiol Biotechnol 48(2):232–235. https://doi.org/10.1007/s002530051043
Back A, Rossignol T, Krier F, Nicaud J-M, Dhulster P (2016) High-throughput fermentation screening for the yeast Yarrowia lipolytica with real-time monitoring of biomass and lipid production. Microb Cell Factories 15(1):147. https://doi.org/10.1186/s12934-016-0546-z
Beneyton T, Thomas S, Griffiths AD, Nicaud J-M, Drevelle A, Rossignol T (2017) Droplet-based microfluidic high-throughput screening of heterologous enzymes secreted by the yeast Yarrowia lipolytica. Microb Cell Factories 16(1):18. https://doi.org/10.1186/s12934-017-0629-5
Ledesma-Amaro R, Dulermo T, Nicaud J (2015) Engineering Yarrowia lipolytica to produce biodiesel from raw starch. Biotechnol Biofuels 8(1):148
Dulermo R, Brunel F, Dulermo T, Ledesma-Amaro R, Vion J, Trassaert M, Thomas S, Nicaud J-M, Leplat C (2017) Using a vector pool containing variable-strength promoters to optimize protein production in Yarrowia lipolytica. Microb Cell Factories 16(1):31. https://doi.org/10.1186/s12934-017-0647-3
Borkowska M, Białas W, Kubiak M, Celinska E (2017) Micro-assays for determination of amylolytic activity using a thermalcycler: miniaturization of Somogyi-Nelson and Starch-Iodine Tests. To be published
Acknowledgment
The experiments conducted by EC were financially supported by the Polish Ministry of Sciences and Higher Education (Project No IP2015 011074).
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Soudier, P., Larroude, M., Celińska, E., Rossignol, T., Nicaud, JM. (2019). Selection of Heterologous Protein-Producing Strains in Yarrowia lipolytica. In: Gasser, B., Mattanovich, D. (eds) Recombinant Protein Production in Yeast. Methods in Molecular Biology, vol 1923. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-9024-5_6
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DOI: https://doi.org/10.1007/978-1-4939-9024-5_6
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