Nielsen, J., Larsson, C., van Maris, A. & Pronk, J. Metabolic engineering of yeast for production of fuels and chemicals. Curr. Opin. Biotechnol. 24, 398–404 (2013).
DiCarlo, J. E. et al. Genome engineering in Saccharomyces cerevisiae using CRISPR-Cas systems. Nucleic Acids Res. 41, 4336–4343 (2013).
Schwartz, C. M., Hussain, M. S., Blenner, M. & Wheeldon, I. Synthetic RNA polymerase III promoters facilitate high-efficiency CRISPR-Cas9-mediated genome editing in Yarrowia lipolytica. ACS Synth. Biol. 5, 356–359 (2016).
Raschmanová, H., Weninger, A., Glieder, A., Kovar, K. & Vogl, T. Implementing CRISPR-Cas technologies in conventional and non-conventional yeasts: Current state and future prospects. Biotechnol. Adv. 36, 641–665 (2018).
Tsai, C. S. et al. Rapid and marker-free refactoring of xylose-fermenting yeast strains with Cas9/CRISPR. Biotechnol. Bioeng. 112, 2406–2411 (2015).
Jessop-Fabre, M. M. et al. EasyClone-MarkerFree: A vector toolkit for marker-less integration of genes into Saccharomyces cerevisiae via CRISPR-Cas9. Biotechnol. J. 11, 1110–1117 (2016).
Wang, L. et al. Efficient CRISPR-Cas9 mediated multiplex genome editing in yeasts. Biotechnol. Biofuels 11, 277 (2018).
Liu, Q. et al. CRISPR-Cas9-mediated genomic multiloci integration in Pichia pastoris. Micro. Cell Fact. 18, 44 (2019).
Holkenbrink, C. et al. EasyCloneYALI: CRISPR/Cas9-based synthetic toolbox for engineering of the yeast Yarrowia lipolytica. Biotechnol. J. 13, e1700543 (2018).
Laughery, M. F. et al. New vectors for simple and streamlined CRISPR-Cas9 genome editing in Saccharomyces cerevisiae. Yeast 32, 711–720 (2015).
Cai, P., Gao, J. & Zhou, Y. CRISPR-mediated genome editing in non-conventional yeasts for biotechnological applications. Micro. Cell Fact. 18, 63 (2019).
Kretzschmar, A. et al. Increased homologous integration frequency in Yarrowia lipolytica strains defective in non-homologous end-joining. Curr. Genet 59, 63–72 (2013).
Babaei, M. et al. Engineering oleaginous yeast as the host for fermentative succinic acid production from glucose. Front Bioeng. Biotechnol. 27, 361 (2019).
Gao, C. et al. Robust succinic acid production from crude glycerol using engineered Yarrowia lipolytica. Biotechnol. Biofuels 9, 179 (2016).
Milne, N. et al. Metabolic engineering of Saccharomyces cerevisiae for the de novo production of psilocybin and related tryptamine derivatives. Metab. Eng. 60, 25–36 (2020).
Makanae, K., Kintaka, R., Makino, T., Kitano, H. & Moriya, H. Identification of dosage-sensitive genes in Saccharomyces cerevisiae using the genetic tug-of-war method. Genome Res 23, 300–311 (2013).
Giaever, G. et al. Functional profiling of the Saccharomyces cerevisiae genome. Nature 418, 387–391 (2002).
Adames, N. R., Gallegos, J. E. & Peccoud, J. Yeast genetic interaction screens in the age of CRISPR/Cas. Curr. Genet 65, 307–327 (2019).
Babaei, M. et al. Expansion of EasyClone-MarkerFree toolkit for Saccharomyces cerevisiae genome with new integration sites. FEMS Yeast Res. 21, foab027 (2021).
Yu, W., Gao, J., Zhai, X. & Zhou, Y. J. Screening neutral sites for metabolic engineering of methylotrophic yeast Ogataea polymorpha. Synth. Syst. Biotechnol. 6, 63–68 (2021).
Li, M. et al. CRISPR-mediated multigene integration enables Shikimate pathway refactoring for enhanced 2-phenylethanol biosynthesis in Kluyveromyces marxianus. Biotechnol. Biofuels 14, 3 (2021).
Brady, J. R. et al. Identifying improved sites for heterologous gene integration using ATAC-seq. ACS Synth. Biol. 9, 2515–2524 (2020).
Lee, M. E., DeLoache, W. C., Cervantes, B. & Dueber, J. E. A highly characterized yeast toolkit for modular, multipart assembly. ACS Synth. Biol. 4, 975–986 (2015).
Nguyen, N., Quail, M. M. F. & Hernday, A. D. An efficient, rapid, and recyclable system for crispr-mediated genome editing in Candida albicans. mSphere 2, e00149–17 (2017).
Gowers, G.-O. F. et al. Improved betulinic acid biosynthesis using synthetic yeast chromosome recombination and semi-automated rapid LC-MS screening. Nat. Commun. 11, 868 (2020).
Zhang, Y. et al. A gRNA-tRNA array for CRISPR-Cas9 based rapid multiplexed genome editing in Saccharomyces cerevisiae. Nat. Commun. 10, 1053 (2019).
Li, X. T. et al. tCRISPRi: tunable and reversible, one-step control of gene expression. Sci. Rep. 6, 39076 (2016).
McCleary, W. R. Application of promoter swapping techniques to control expression of chromosomal genes. Appl Microbiol Biotechnol. 84, 641–648 (2009).
Rajkumar, A. S., Varela, J. A., Juergens, H., Daran, J.-M. G. & Morrissey, J. P. Biological parts for Kluyveromyces marxianus synthetic biology. Front Bioeng. Biotechnol. 7, 97 (2019).
Weninger, A. et al. Expanding the CRISPR/Cas9 toolkit for Pichia pastoris with efficient donor integration and alternative resistance markers. J. Cell Biochem 119, 3183–3198 (2018).
Storici, F., Durham, C. L., Gordenin, D. A. & Resnick, M. A. Chromosomal site-specific double-strand breaks are efficiently targeted for repair by oligonucleotides in yeast. Proc. Natl Acad. Sci. USA 100, 14994–14999 (2003).
Park, Y. K. & Ledesma-Amaro, R. What makes Yarrowia lipolytica well suited for industry? Trends Biotechnol. 41, 242–254 (2023).
Larroude, M., Trabelsi, H., Nicaud, J.-M. & Rossignol, T. A set of Yarrowia lipolytica CRISPR/Cas9 vectors for exploiting wild-type strain diversity. Biotechnol. Lett. 42, 773–785 (2020).
Baisya, D., Ramesh, A., Schwartz, C., Lonardi, S. & Wheeldon, I. Genome-wide functional screens enable the prediction of high activity CRISPR-Cas9 and -Cas12a guides in Yarrowia lipolytica. Nat. Commun. 13, 922 (2022).
Schwartz, C. & Wheeldon, I. CRISPR-Cas9-mediated genome editing and transcriptional control in Yarrowia lipolytica. Methods Mol. Biol. 1772, 327–345 (2018).
Celińska, E. et al. Golden Gate Assembly system dedicated to complex pathway manipulation in Yarrowia lipolytica. Micro. Biotechnol. 10, 450–455 (2017).
Larroude, M. et al. A modular Golden Gate toolkit for Yarrowia lipolytica synthetic biology. Micro. Biotechnol. 12, 1249–1259 (2019).
Li, Y. W. et al. YALIcloneNHEJ: An efficient modular cloning toolkit for NHEJ integration of multigene pathway and terpenoid production in Yarrowia lipolytica. Front Bioeng. Biotechnol. 9, 816980 (2021).
Egermeier, M., Sauer, M. & Marx, H. Golden Gate-based metabolic engineering strategy for wild-type strains of Yarrowia lipolytica. FEMS Microbiol Lett. 366, fnz022 (2019).
Bredeweg, E. L. et al. A molecular genetic toolbox for Yarrowia lipolytica. Biotechnol. Biofuels 10, 2 (2017).
Wong, L., Engel, J., Jin, E., Holdridge, B. & Xu, P. YaliBricks, a versatile genetic toolkit for streamlined and rapid pathway engineering in Yarrowia lipolytica. Metab. Eng. Commun. 5, 68–77 (2017).
He, Q., Szczepańska, P., Yuzbashev, T. V., Lazar, Z. & Ledesma-Amaro, R. De novo production of resveratrol from glycerol by engineering different metabolic pathways in Yarrowia lipolytica. Metab. Eng. Commun. 11, e00146 (2020).
Juretzek, T. et al. Vectors for gene expression and amplification in the yeast Yarrowia lipolytica. Yeast 18, 97–113 (2001).
Albert, H., Dale, E. C., Lee, E. & Ow, D. W. Site-specific integration of DNA into wild-type and mutant lox sites placed in the plant genome. Plant J. 7, 649–659 (1995).
Martínez, L. M., Martinez, A. & Gosset, G. Production of melanins with recombinant microorganisms. Front Bioeng. Biotechnol. 7, 285 (2019).
Shen, B. et al. Fermentative production of Vitamin E tocotrienols in Saccharomyces cerevisiae under cold-shock-triggered temperature control. Nat. Commun. 11, 5155 (2020).
Ben Tahar, I., Kus-Liśkiewicz, M., Lara, Y., Javaux, E. & Fickers, P. Characterization of a nontoxic pyomelanin pigment produced by the yeast Yarrowia lipolytica. Biotechnol. Prog. 36, e2912 (2020).
Luttik, M. A. H. et al. Alleviation of feedback inhibition in Saccharomyces cerevisiae aromatic amino acid biosynthesis: quantification of metabolic impact. Metab. Eng. 10, 141–153 (2008).
Lütke-Eversloh, T. & Stephanopoulos, G. L-tyrosine production by deregulated strains of Escherichia coli. Appl. Microbiol. Biotechnol. 75, 103–110 (2007).
Chao, Y. P., Lai, Z. J., Chen, P. & Chern, J. T. Enhanced conversion rate of L-phenylalanine by coupling reactions of aminotransferases and phosphoenolpyruvate carboxykinase in Escherichia coli K-12. Biotechnol. Prog. 15, 453–458 (1999).
Romagnoli, G. et al. Deletion of the Saccharomyces cerevisiae ARO8 gene, encoding an aromatic amino acid transaminase, enhances phenylethanol production from glucose. Yeast 32, 29–45 (2015).
Liu, Q. et al. Rewiring carbon metabolism in yeast for high level production of aromatic chemicals. Nat. Commun. 10, 4976 (2019).
Gu, Y., Ma, J., Zhu, Y., Ding, X. & Xu, P. Engineering Yarrowia lipolytica as a chassis for de novo synthesis of five aromatic-derived natural products and chemicals. ACS Synth. Biol. 9, 2096–2106 (2020).
Larroude, M., Onésime, D., Rué, O., Nicaud, J. M. & Rossignol, T. A Yarrowia lipolytica strain engineered for pyomelanin production. Microorganisms 9, 838 (2021).
Schmaler-Ripcke, J. et al. Production of pyomelanin, a second type of melanin, via the tyrosine degradation pathway in Aspergillus fumigatus. Appl Environ. Microbiol 75, 493–503 (2009).
Fernández-Cañón, J. M. & Peñalva, M. A. Characterization of a fungal maleylacetoacetate isomerase gene and identification of its human homologue. J. Biol. Chem. 273, 329–337 (1998).
Bassel, J., Hambright, P., Mortimer, R. & Bearden, A. J. Mutant of the yeast Saccharomycopsis lipolytica that accumulates and excretes protorphyrin IX. J. Bacteriol. 123, 118–122 (1975).
Barth, G. & Weber, H. Genetic studies on the yeast Saccharomycopsis lipolytica. Inactivation and mutagenesis. Z. Allg. Mikrobiol. 23, 147–157 (1983).
Tai, M. & Stephanopoulos, G. Engineering the push and pull of lipid biosynthesis in oleaginous yeast Yarrowia lipolytica for biofuel production. Metab. Eng. 15, 1–9 (2013).
Larroude, M., Rossignol, T., Nicaud, J. M. & Ledesma-Amaro, R. Synthetic biology tools for engineering Yarrowia lipolytica. Biotechnol. Adv. 36, 2150–2164 (2018).
Xiong, X. & Chen, S. Expanding toolbox for genes expression of Yarrowia lipolytica to include novel inducible, repressible, and hybrid promoters. ACS Synth. Biol. 9, 2208–2213 (2020).
Zhao, Y. et al. Hybrid promoter engineering strategies in Yarrowia lipolytica: isoamyl alcohol production as a test study. Biotechnol. Biofuels 14, 149 (2021).
Fernández-Cañón, J. M. et al. Maleylacetoacetate isomerase (MAAI/GSTZ)-deficient mice reveal a glutathione-dependent nonenzymatic bypass in tyrosine catabolism. Mol. Cell Biol. 22, 4943–4951 (2002).
Yuzbasheva, E. Y. et al. The mitochondrial citrate carrier in Yarrowia lipolytica: Its identification, characterization and functional significance for the production of citric acid. Metab. Eng. 54, 264–274 (2019).
Sambrook, J., Fritsch, E. F. & Maniatis, T. Molecular Cloning: A Laboratory Manual. (Cold Spring Harbor Laboratory, 1989). https://books.google.co.uk/books/about/Molecular_Cloning.html?id=8WViPwAACAAJ&redir_esc=y. Accessed March 23, 2023.
Gibson, D. G. et al. Enzymatic assembly of DNA molecules up to several hundred kilobases. Nat. Methods 6, 343–345 (2009).
Weber, E., Engler, C., Gruetzner, R., Werner, S. & Marillonnet, S. A modular cloning system for standardized assembly of multigene constructs. PLoS One 6, e16765 (2011).
Yu, D. et al. An efficient recombination system for chromosome engineering in Escherichia coli. Proc. Natl. Acad. Sci. USA 97, 5978–5983 (2000).
Datsenko, K. A. & Wanner, B. L. One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc. Natl. Acad. Sci. USA 97, 6640–6645 (2000).
Russell, C. B. & Dahlquist, F. W. Exchange of chromosomal and plasmid alleles in Escherichia coli by selection for loss of a dominant antibiotic sensitivity marker. J. Bacteriol. 171, 2614–2618 (1989).
Shabbir Hussain, M., Gambill, L., Smith, S. & Blenner, M. A. Engineering promoter architecture in oleaginous yeast Yarrowia lipolytica. ACS Synth. Biol. 5, 213–223 (2016).
Borsenberger, V. et al. Multiple parameters drive the efficiency of CRISPR/Cas9-induced gene modifications in Yarrowia lipolytica. J. Mol. Biol. 430, 4293–4306 (2018).
Blazeck, J., Liu, L., Redden, H. & Alper, H. Tuning gene expression in Yarrowia lipolytica by a hybrid promoter approach. Appl. Environ. Microbiol 77, 7905–7914 (2011).
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