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Characterization of the effects of terminators and introns on recombinant gene expression in the basidiomycete Ceriporiopsis subvermispora

  • Microbial Genetics, Genomics and Molecular Biology
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Abstract

Terminators and introns are vital regulators of gene expression in many eukaryotes; however, the functional importance of these elements for controlling gene expression in Agaricomycetes remains unclear. In this study, the effects of Ceriporiopsis subvermispora terminators and introns on the expression of a recombinant hygromycin B phosphotransferase gene (hph) were characterized. Using a transient transformation system, we proved that a highly active terminator (e.g., the gpd terminator) is required for the efficient expression of the hph gene. Mutational analyses of the C. subvermispora gpd terminator revealed that hph expression was dictated by an A-rich region, which included a putative positioning element, and polyadenylation sites. In contrast, our results indicated that introns are not required for the expression of hph directed by the Csβ1-tub and Csgpd promoters in C. subvermispora. This study provides insights into the functions and cis-element requirements of transcriptional terminators in Agaricomycetes, which may be relevant for designing recombinant genes for this important fungal class.

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References

  • Burns, C., Gregory, K.E., Kirby, M., Cheung, M.K., Riqueime, M., Elliott, T.J., Challen, M.P., Bailey, A., and Foster, G.D. 2005. Efficient GFP expression in the mushrooms Agaricus bisporus and Coprinus cinereus requires introns. Fungal Genet. Biol. 42, 191–199.

    CAS  PubMed  Google Scholar 

  • Chan, S., Choi, E.A., and Shi, Y. 2011. Pre-mRNA 3′-end processing complex assembly and function. Wiley Interdiscrip. Rev. RNA 2, 321–335.

    CAS  PubMed  Google Scholar 

  • Chorev, M. and Carmel, L. 2012. The function of introns. Front. Genet. 3, 55.

    PubMed  PubMed Central  Google Scholar 

  • Curran, K.A., Karim, A.S., Gupta, A., and Alper, H.S. 2013. Use of expression-enhancing terminators in Sacchromycetes cerevisiae to increase mRNA half-life and improve gene expression control for metabolic engineering applications. Metab. Eng. 19, 88–97.

    CAS  PubMed  PubMed Central  Google Scholar 

  • de Mattos-Shipley, K.M.J., Ford, K.L., Alberti, F., Banks, A.M., Bailey, A.M., and Foster, G.D. 2016. The good, the bad and the tasty: The many role of mushrooms. Stud. Mycol. 85, 125–157.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Fernandez-Fueyo, E., Ruiz-Dueñas, F.J., Ferreira, P., Floudas, D., Hibbett, D.S., Canessa, P., Larrondo, L.F., James, T.Y., Seelenfreund, D., Lobos, S., et al. 2012. Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis. Proc. Natl. Acad. Sci. USA 109, 5458–5463.

    CAS  PubMed  Google Scholar 

  • Fitzgerald, M. and Shenk, T. 1981. The sequence 5′-AAUAAA-3′ forms part of the recognition site for polyadenylation of late SV40 mRNAs. Cell 24, 251–260.

    CAS  PubMed  Google Scholar 

  • Ford, K.L., Baumgarner, K., Henricot, B., Bailey, A.M., and Foster, G.D. 2016. A native promoter and inclusion of an intron is necessary for efficient expression of GFP or mRFP in Armillaria mellea. Sci. Rep. 6, 29226.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Gaunitz, F., Heise, H., and Gebhardt, R. 2004. A silencer element in the first intron of the glutamine synthetase gene represses induction by glucocorticoids. Mol. Endocrinol. 18, 63–69.

    CAS  PubMed  Google Scholar 

  • Gouka, R.J., Punt, P.J., Hessing, J.G., and van den Hondel, C.A. 1996. Analysis of heterologous protein production in defined recombinant Aspergillus awamori strains. Appl. Environ. Microbiol. 62, 1951–1957.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Guo, Z. and Sherman, F. 1996. 3′-end-forming signals of yeast mRNA. Trends Biochem. Sci. 21, 477–481.

    CAS  PubMed  Google Scholar 

  • Hibbett, D.S. and Donoghue, M.J. 2001. Analysis of character correlation among wood decay mechanisms, mating systems, and substrate ranges in homobasidiomycetes. Syst. Biol. 50, 215–242.

    CAS  PubMed  Google Scholar 

  • Honda, Y., Tanigawa, E., Tsukihara, T., Nguyen, X.D., Kawabe, H., Sakatoku, N., Watari, J., Sato, H., Yano, S., Tachiki, T., et al. 2019. Stable and transient transformation, and a promoter assay in the selective lignin-degrading fungus, Ceriporopsis subvermispora. AMB Express 9, 92.

    PubMed  PubMed Central  Google Scholar 

  • Hoshida, H., Konda, M., Kobayashi, T., Yarimizu, T., and Akada, R. 2017. 5′-UTR introns enhance protein expression in the yeast Sacchoromyces cerevisiare. Appl. Microbiol. Biotechnol. 101, 241–251.

    CAS  PubMed  Google Scholar 

  • Huang, M.T. and Gorman, C.M. 1990. Intervening sequences increase efficiency of RNA 3′ processing and accumulation of cytoplasmic RNA. Nucleic Acids Res. 18, 937–947.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Ito, Y., Yamanishi, M., Ikeuchi, A., Imamura, C., Tokuhiro, K., Kitagawa, T., and Matsuyama, T. 2013. Characterization of five terminator region that increase the protein yield of transgene in Saccharomyces cerevisiae. J. Biotechnol. 168, 486–492.

    CAS  PubMed  Google Scholar 

  • Itoh, H., Wada, M., Honda, Y., Kuwahara, M., and Watanabe, T. 2003. Bioorganosolve pretreatments for simultaneous saccharification and fermentation of beech wood by ethanolysis and white rot fungi. J. Biotechnol. 103, 273–280.

    CAS  PubMed  Google Scholar 

  • Jung, K., Park, J., Choi, J., Park, B., Kim, S., Ahn, K., Choi, J., Choi, D., Kang, S., and Lee, Y.H. 2008. SNUGB: a versatile genome browser supporting comparative and functional fungal genomics. BMC Genomics 9, 586.

    PubMed  PubMed Central  Google Scholar 

  • Kilaru, S., Hoegger, P.J., Majcherczyk, A., Burns, C., Shishido, K., Bailey, A., Foster, G.D., and Kües, U. 2006. Expression of laccase gene lcc1 in Coprinopsis cinerea under control of various basidiomycetous promoters. Appl. Microbiol. Biotechnol. 71, 200–210.

    CAS  PubMed  Google Scholar 

  • Kuo, C.Y., Chou, S.Y., Hseu, R.S., and Huang, C.T. 2010. Heterologous expression of EGFP in enoki mushroom Flammulina velutipes. Bot. Stud. 51, 303–309.

    CAS  Google Scholar 

  • Landowski, C.P., Huuskonen, A., Wahl, R., Westerholm-Parvinen, A., Kanerva, A., Hänninen, A.L., Salovuoni, N., Penttilä, M., Natunen, J., Ostermeiner, C., et al. 2015. Enabling low cost biopharmaceuticals: a systematic approach to delete proteases from a well-known protein production host Trichoderma reesei. PLoS ONE 10, e0134723.

    PubMed  PubMed Central  Google Scholar 

  • Liu, K., Sun, B., You, H., Tu, J.L., Yu, X., Zhao, P., and Xu, J.W. 2020. Dual sgRNA-directed gene deletion in basidiomycetes Ganoderma lucidum using the CRISPR/Cas9 system. Microb. Biotechnol. 13, 386–386.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Lugones, L.G., Scholtmeijer, K., Klootwijk, R., and Wessels, J.G. 1999. Introns are necessary for mRNA accumulation in Schizophyllum commune. Mol. Microbiol. 32, 681–689.

    CAS  PubMed  Google Scholar 

  • Ma, B., Mayfield, M.B., and Gold, M.H. 2001. The green fluorescent protein gene functions as a reporter of gene expression in Phanerochaete chrysosporium. Appl. Environ. Microbiol. 67, 948–955.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Mandel, C.R., Bai, Y., and Tong, L. 2008. Protein factors in premRNA 3′-end processing. Cell. Mol. Life Sci. 65, 1099–1122.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Messner, K. and Srebotnik, E. 1994. Biopulping: An overview of developments in an environmentally safe paper-making technology. FEMS Microbiol. Rev. 13, 351–364.

    CAS  Google Scholar 

  • Millevoi, S. and Vagner, S. 2010. Molecular mechanisms of eukaryotic pre-mRNA 3′ end processing regulation. Nucleic Acids Res. 38, 2757–2774.

    CAS  PubMed  Google Scholar 

  • Müller, T., Benjdia, M., Avolio, M., Voigt, B., Menzel, D., Pardo, A., Frommer, W.B., and Wipf, D. 2006. Functional expression of the green fluorescent protein in the ectomycorrhizal model fungus Hebeloma cylindrosporum. Mycorrhiza 16, 437–442.

    PubMed  Google Scholar 

  • Nambu-Nishida, Y., Sakihama, Y., Ishii, J., Hasunuma, T., and Kondo, A. 2018. Selection of yeast Sacchromycetes cerevisiae promoters available for xylose cultivation and fermentation. J. Biosci. Bioeng. 125, 76–86.

    CAS  PubMed  Google Scholar 

  • Nayan, N., Sonnenberg, A.S.M., Hendriks, W.H., and Cone, J.W. 2018. Screening of white-rot fungi for bioprocessing of wheat straw into ruminant feed. J. Appl. Microbiol. 125, 468–479.

    CAS  PubMed  Google Scholar 

  • Neve, J., Patel, R., Wang, Z., Louey, A., and Furger, A.M. 2017. Cleavage and polyadenylation: ending the message expands gene regulation. RNA Biol. 14, 865–890.

    PubMed  PubMed Central  Google Scholar 

  • Nguyen, D.X., Sakaguchi, T., Nakazawa, T., Sakamoto, M., and Honda, Y. 2020. A 14-bp stretch plays a critical role in regulating gene expression from ß1-tubulin promoters of basidiomycetes. Curr. Genet. 66, 217–228.

    CAS  PubMed  Google Scholar 

  • Nishida, H. 2015. Relationship between chromosomal GC content and isoelectric points of histones in fungi. J. Gen. Appl. Microbiol. 61, 24–26.

    CAS  PubMed  Google Scholar 

  • Peterson, R. and Nevalainen, H. 2012. Trichoderma reesei RUT-C30-thirty years of strain improvement. Microbiology 158, 59–68.

    Google Scholar 

  • Sato, M., Kurahashi, A., Nishibori, K., and Fujimori, F. 2015. Development of a transformation system for the edible mushroom Grifola frondosa: Demonstrating heterologous gene expression and RNAi-mediated gene silencing. Mycoscience 56, 364–372.

    CAS  Google Scholar 

  • Scholtmeijer, K., Wösten, H.A.B., Springer, J., and Wessels, J.G.H. 2001. Effect of introns and AT-rich sequences on expression of the bacterial hygromycin B resistance gene in the basidiomycete Schizophyllum commune. Appl. Environ. Microbiol. 67, 481–483.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Schuren, F.H.J. and Wessels, J.G.H. 1998. Expression of heterologous genes in Schizophyllum commune is often hampered by the formation of truncated transcripts. Curr. Genet. 33, 151–156.

    CAS  PubMed  Google Scholar 

  • Shaul, O. 2017. How intron enhance gene expression. Int. J. Biochem. Cell Biol. 91, 145–155.

    CAS  PubMed  Google Scholar 

  • Shi, L., Fang, X., Li, M., Mu, D., Ren, A., Tan, Q., and Zhao, M. 2012. Development of a simple and efficient transformation system for the basidiomycetous medicinal fungus Ganoderma lucidum. World J. Microbiol. Biotechnol. 28, 283–291.

    PubMed  Google Scholar 

  • Tanaka, M., Sakai, Y., Yamada, O., Shintani, T., and Gomi, K. 2011. In silico analysis of 3′-end processing signal in Aspergillus oryzae using expressed sequence tags and genomic sequencing data. DNA Res. 18, 189–200.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Tian, B. and Graber, J.H. 2012. Signals for pre-mRNA cleavage and polyadenylation. Wiley Interdiscip. Rev. RNA 3, 385–396.

    CAS  PubMed  Google Scholar 

  • Todd, R.B., Zhou, M., Ohm, R.A., Leeggangers, H.A.C.F., Visser, L., and de Vries, R.P. 2014. Prevalence of transcription factor in ascomycetes and basidiomycetes fungi. BMC Genomics 15, 214.

    PubMed  PubMed Central  Google Scholar 

  • Tokuoka, M., Tanaka, M., Ono, K., Takagi, S., Shintani, T., and Gomi, K. 2008. Codon optimization increases steady-state mRNA levels in Aspegillus oryzae heterologous gene expression. Appl. Environ. Microbiol. 74, 6538–6546.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Tourmente, S., Chapel, S., Dreau, D., Drake, M.E., Bruhat, A., Couders, J.L., and Dastugue, B. 1993. Enhancer and silencer elements within the first intron mediate the transcriptional regulation of the β3 tubulin gene by 20-hydroxyecdysone in Drosophila Kc cells. Insect Biochem. Mol. Biol. 23, 137–143.

    CAS  PubMed  Google Scholar 

  • Zhao, J., Hyman, L., and Moore, C. 1999. Formation of mRNA 3′ ends in Eukaryotes: mechanism, regulation and interrelationships with other steps in mRNA synthesis. Microbiol. Mol. Biol. Rev. 63, 405–445.

    CAS  PubMed  PubMed Central  Google Scholar 

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Acknowledgments

This work was supported by research grants from the Noda Institute for Scientific Research and the Sugiyama Institute of Industrial Chemistry as well as KAKENHI grants (25660137; 15K14771 and 19K22332 to YH).

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Correspondence to Yoichi Honda.

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The authors declare no financial conflicts of interest.

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Nguyen, D.X., Nishisaka, E., Kawauchi, M. et al. Characterization of the effects of terminators and introns on recombinant gene expression in the basidiomycete Ceriporiopsis subvermispora. J Microbiol. 58, 1037–1045 (2020). https://doi.org/10.1007/s12275-020-0213-2

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