Applications of Genome Editing in Yeast with an Example of Tup1 Mutants Construction

Open Access

Issue		BIO Web Conf. Volume 72, 2023 2023 International Conference on Food Science and Bio-medicine (ICFSB 2023)


Article Number		01012
Number of page(s)		6
Section		Food Ingredients Application and Food Safety Identification
DOI		https://doi.org/10.1051/bioconf/20237201012
Published online		08 November 2023

Bernardi B, Wendland J. Homologous recombination: a GRAS yeast genome editing tool[J]. Fermentation, 2020, 6(2): 57. [CrossRef] [Google Scholar]
Zhang Z X, Wang L R, Xu Y S, et al. Recent advances in the application of multiplex genome editing in Saccharomyces cerevisiae[J]. Applied Microbiology and Biotechnology, 2021, 105(10): 3873-3882. [CrossRef] [PubMed] [Google Scholar]
Bailey T B, Whitty P A, Selker E U, et al. Tup1 is critical for transcriptional repression in Quiescence in S. cerevisiae[J]. Plos Genetics, 2022, 18(12): e1010559. [Google Scholar]
Khan S H. Genome-editing technologies: concept, pros, and cons of various genome-editing techniques and bioethical concerns for clinical application[J]. Molecular Therapy-Nucleic Acids, 2019, 16: 326-334. [CrossRef] [Google Scholar]
Jabalameli H R, Zahednasab H, Karimi-Moghaddam A, et al. Zinc finger nuclease technology: advances and obstacles in modelling and treating genetic disorders[J]. Gene, 2015, 558(1): 1-5. [CrossRef] [PubMed] [Google Scholar]
Becker S, Boch J. TALE and TALEN genome editing technologies[J]. Gene and Genome Editing, 2021, 2: 100007. [CrossRef] [Google Scholar]
Li H, Yang Y, Hong W, et al. Applications of genome editing technology in the targeted therapy of human diseases: mechanisms, advances and prospects[J]. Signal transduction and targeted therapy, 2020, 5(1): 1. [CrossRef] [PubMed] [Google Scholar]
Mak A N S, Bradley P, Cernadas R A, et al. The crystal structure of TAL effector PthXo1 bound to its DNA target[J]. Science, 2012, 335(6069): 716-719. [NASA ADS] [CrossRef] [PubMed] [Google Scholar]
Deng D, Yan C, Pan X, et al. Structural basis for sequence-specific recognition of DNA by TAL effectors[J]. Science, 2012, 335(6069): 720-723. [NASA ADS] [CrossRef] [PubMed] [Google Scholar]
Karimian A, Azizian K, Parsian H, et al. CRISPR/Cas9 technology as a potent molecular tool for gene therapy[J]. Journal of cellular physiology, 2019, 234(8): 12267-12277. [CrossRef] [PubMed] [Google Scholar]
Makarova K S, Haft D H, Barrangou R, et al. Evolution and classification of the CRISPR–Cas systems[J]. Nature Reviews Microbiology, 2011, 9(6): 467-477. [CrossRef] [PubMed] [Google Scholar]
Zhuo C, Zhang J, Lee J H, et al. Spatiotemporal control of CRISPR/Cas9 gene editing[J]. Signal Transduction and Targeted Therapy, 2021, 6(1): 238. [CrossRef] [PubMed] [Google Scholar]
Wang H X, Li M, Lee C M, et al. CRISPR/Cas9-based genome editing for disease modeling and therapy: challenges and opportunities for nonviral delivery[J]. Chemical reviews, 2017, 117(15): 9874-9906. [CrossRef] [PubMed] [Google Scholar]
Zheng N, Li L, Wang X. Molecular mechanisms, off‐ target activities, and clinical potentials of genome editing systems[J]. Clinical and Translational Medicine, 2020, 10(1): 412-426. [CrossRef] [PubMed] [Google Scholar]
Gupta R M, Musunuru K. Expanding the genetic editing tool kit: ZFNs, TALENs, and CRISPRCas9[J]. The Journal of clinical investigation, 2014, 124(10): 4154-4161. [CrossRef] [PubMed] [Google Scholar]
Chandrasegaran S. Recent advances in the use of ZFN-mediated gene editing for human gene therapy[J]. Cell & gene therapy insights, 2017, 3(1): 33. [CrossRef] [PubMed] [Google Scholar]
Pattanayak V, Ramirez C L, Joung J K, et al. Revealing off-target cleavage specificities of zincfinger nucleases by in vitro selection[J]. Nature methods, 2011, 8(9): 765-770. [CrossRef] [PubMed] [Google Scholar]
Mussolino C, Alzubi J, Fine E J, et al. TALENs facilitate targeted genome editing in human cells with high specificity and low cytotoxicity[J]. Nucleic acids research, 2014, 42(10): 6762-6773. [CrossRef] [PubMed] [Google Scholar]
Guilinger J P, Pattanayak V, Reyon D, et al. Broad specificity profiling of TALENs results in engineered nucleases with improved DNA-cleavage specificity[J]. Nature methods, 2014, 11(4): 429-435. [CrossRef] [PubMed] [Google Scholar]
Yip B H. Recent advances in CRISPR/Cas9 delivery strategies[J]. Biomolecules, 2020, 10(6): 839. [CrossRef] [PubMed] [Google Scholar]
Zarei A, Razban V, Hosseini S E, et al. Creating cell and animal models of human disease by genome editing using CRISPR/Cas9[J]. The journal of gene medicine, 2019, 21(4): e3082. [CrossRef] [PubMed] [Google Scholar]
Zhang X H, Tee L Y, Wang X G, et al. Off-target effects in CRISPR/Cas9-mediated genome engineering[J]. Molecular Therapy-Nucleic Acids, 2015, 4: e264. [CrossRef] [Google Scholar]
Gabriel R, Lombardo A, Arens A, et al. An unbiased genome-wide analysis of zinc-finger nuclease specificity[J]. Nature biotechnology, 2011, 29(9): 816-823. [CrossRef] [PubMed] [Google Scholar]
Yan W, Smith C, Cheng L. Expanded activity of dimer nucleases by combining ZFN and TALEN for genome editing[J]. Scientific reports, 2013, 3(1): 1-6. [Google Scholar]
Riesenberg S, Chintalapati M, Macak D, et al. Simultaneous precise editing of multiple genes in human cells[J]. Nucleic acids research, 2019, 47(19): e116-e116. [CrossRef] [PubMed] [Google Scholar]
Zhang Q, Xing H L, Wang Z P, et al. Potential highfrequency off-target mutagenesis induced by CRISPR/Cas9 in Arabidopsis and its prevention[J]. Plant molecular biology, 2018, 96: 445-456. [CrossRef] [PubMed] [Google Scholar]
Legrand M, Jaitly P, Feri A, et al. Candida albicans: an emerging yeast model to study eukaryotic genome plasticity[J]. Trends in Genetics, 2019, 35(4): 292-307. [CrossRef] [Google Scholar]
Lee Y G, Kim B Y, Bae J M, et al. Genome-edited Saccharomyces cerevisiae strains for improving quality, safety, and flavor of fermented foods[J]. Food Microbiology, 2022, 104: 103971. [CrossRef] [PubMed] [Google Scholar]
Cai P, Gao J, Zhou Y. CRISPR-mediated genome editing in non-conventional yeasts for biotechnological applications[J]. Microbial cell factories, 2019, 18: 1-12. [CrossRef] [PubMed] [Google Scholar]
Navarrete C, Martínez J L. Non-conventional yeasts as superior production platforms for sustainable fermentation based bio-manufacturing processes[J]. Aims Bioengineering, 2020, 7(4): 289-305. [CrossRef] [Google Scholar]
Kachroo A H, Vandeloo M, Greco B M, et al. Humanized yeast to model human biology, disease and evolution[J]. Disease Models & Mechanisms, 2022, 15(6): dmm049309. [CrossRef] [PubMed] [Google Scholar]
Wang L, Zhang W, Cao Y, et al. Interdependent recruitment of CYC8/TUP1 and the transcriptional activator XYR1 at target promoters is required for induced cellulase gene expression in Trichoderma reesei[J]. PLoS Genetics, 2021, 17(2): e1009351. [Google Scholar]
Lee J E, Oh J H, Ku M H, et al. Ssn6 has dual roles in Candida albicans filament development through the interaction with Rpd31[J]. FEBS letters, 2015, 589(4): 513-520. [CrossRef] [PubMed] [Google Scholar]
Kumawat R, Tomar R S. Heavy metal exposure induces Yap1 and Hac1 mediated derepression of GSH1 and KAR2 by Tup1-Cyc8 complex[J]. Journal of Hazardous Materials, 2022, 429: 128367. [CrossRef] [PubMed] [Google Scholar]
Hanlon S E, Rizzo J M, Tatomer D C, et al. The stress response factors Yap6, Cin5, Phd1, and Skn7 direct targeting of the conserved co-repressor Tup1-Ssn6 in S. cerevisiae[J]. PloS one, 2011, 6(4): e19060. [Google Scholar]
Chen K, Wilson M A, Hirsch C, et al. Stabilization of the promoter nucleosomes in nucleosome-free regions by the yeast Cyc8–Tup1 corepressor[J]. Genome research, 2013, 23(2): 312-322. [CrossRef] [PubMed] [Google Scholar]
Jennings B H, Ish-Horowicz D. The Groucho/TLE/Grg family of transcriptional corepressors[J]. Genome biology, 2008, 9(1): 1-7. [Google Scholar]
Córdova P, Alcaíno J, Bravo N, et al. Regulation of carotenogenesis in the red yeast Xanthophyllomyces dendrorhous: the role of the transcriptional corepressor complex Cyc8–Tup1 involved in catabolic repression[J]. Microbial Cell Factories, 2016, 15(1): 1-19. [CrossRef] [PubMed] [Google Scholar]
Chujo M, Yoshida S, Ota A, et al. Acquisition of the ability to assimilate mannitol by Saccharomyces cerevisiae through dysfunction of the general corepressor Tup1-Cyc8[J]. Applied and environmental microbiology, 2015, 81(1): 9-16. [CrossRef] [PubMed] [Google Scholar]
West R M, Gronvall G K. CRISPR Cautions: Biosecurity implications of gene editing[J]. Perspectives in biology and medicine, 2020, 63(1): 73-92. [CrossRef] [PubMed] [Google Scholar]
Tartas A, Zarkadas C, Palaiomylitou M, et al. Tup1Ssn6 global transcriptional co-repressor: Role of the N-terminal glutamine-rich region of Ssn6[J]. PloS one, 2017, 12(10): e0186363. [Google Scholar]
Kaul A K, Schuster E F, Jennings B H. Recent insights into Groucho co-repressor recruitment and function[J]. Transcription, 2015, 6(1): 7-11. [CrossRef] [PubMed] [Google Scholar]

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