Recombinant protein production in yeasts

Methods in Molecular Biology

Volumn 824, Issue , 2012, Pages 329-358

  Mattanovich, Diethard ^a   Branduardi, Paola ^b   Dato, Laura ^b   Gasser, Brigitte ^a   Sauer, Michael ^a   Porro, Danilo ^b  

^a UNIVERSITY OF NATURAL RESOURCES AND LIFE SCIENCES   (Austria)

^b UNIVERSITY OF MILANO BICOCCA   (Italy)

Author keywords

Expression; Heterologous proteins; Industrial Biotechnology; Yeast

Indexed keywords

RECOMBINANT PROTEIN;

ARTICLE; BIOLOGICAL MODEL; BIOSYNTHESIS; BIOTECHNOLOGY; CYTOPLASM; GENE EXPRESSION REGULATION; GENE VECTOR; GENETIC TRANSFORMATION; GENETICS; GLYCOSYLATION; METABOLISM; METHODOLOGY; PHYSIOLOGY; PICHIA; PROMOTER REGION; SACCHAROMYCES CEREVISIAE; SECRETION; SYSTEMS BIOLOGY;

BIOTECHNOLOGY; CYTOPLASM; GENE EXPRESSION REGULATION, FUNGAL; GENETIC VECTORS; GLYCOSYLATION; MODELS, BIOLOGICAL; PICHIA; PROMOTER REGIONS, GENETIC; RECOMBINANT PROTEINS; SACCHAROMYCES CEREVISIAE; SYSTEMS BIOLOGY; TRANSFORMATION, GENETIC;

BACTERIA (MICROORGANISMS); EUKARYOTA; MAMMALIA; PICHIA ANGUSTA; PICHIA PASTORIS; SACCHAROMYCES CEREVISIAE;

EID: 84855932983     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-61779-433-9_17     Document Type: Article

References (139)

1. Goodman M (2009) Market watch: Sales of biologics to show robust growth through to 2013. Nat. Rev. Drug Discov. 8, 837.
2. Macdonald, G. (2009) Bio drugs to dominate top ten list by 2014. In-Pharma Technologist. http://www.in-pharmatechnologist.com/Industry-Drivers/ Bio-drugs-to-dominatetop- ten-list-by-2014. Accessed 15 October 2010.
3. Freedonia Group (2009) World Enzymes to 2013. The Freedonia Group, Inc.
4. Ferrer-Miralles, N., Domingo-Espín, J., Corchero, J., Vázquez, E., and Villaverde, A. (2009) Microbial factories for recombinant pharmaceuticals. Microb. Cell Fact. 8, 17.
5. Panda, A.K. (2003) Bioprocessing of therapeutic proteins from the inclusion bodies of Escherichia coli. Adv. Biochem. Eng. Biotechnol. 85, 43-93.
6. Tripathi, N.K., Sathyaseelan, K., Jana, A.M., and Rao, P.V.L. (2009) High yield production of heterologous proteins with Escherichia coli. Defence Science Journal 59, 137-146.
7. Ni, Y., and Chen, R. (2009) Extracellular recombinant protein production from Escherichia coli. Biotechnol. Lett. 31, 1661-1670.
8. Pandhal, J., and Wright, P.C. (2010) N-Linked glycoengineering for human therapeutic proteins in bacteria. Biotechnol. Lett. 32, 1189-1198.
9. Hitzeman, R.A., Hagie, F.E., Levine, H.L., Goeddel, D.V., Ammerer, G., and Hall, B.D. (1981) Expression of a human gene for interferon in yeast. Nature 293, 717-722. (Pubitemid 12241927)
10. Reiser, J., Glumoff, V., Kalin, M., and Ochsner, U. (1990) Transfer and expression of heterologous genes in yeasts other than Saccharomyces cerevisiae. Adv. Biochem. Eng. Biotechnol. 43, 75-102.
11. Romanos, M.A., Scorer, C.A., and Clare, J.J. (1992) Foreign gene expression in yeast: A review. Yeast 8, 423-488.
12. Porro, D., Venturini, M., Brambilla, L., Alberghina, L., and Vanoni, M. (2000) Relating growth dynamics and glucoamylase excretion of individual Saccharomyces cerevisiae cells. J. Microbiol. Methods 42, 49-55.
13. Sudbery, P.E., Gleeson, M.A., Veale, R.A., Ledeboer, A.M., and Zoetmulder, M.C. (1988) Hansenula polymorpha as a novel yeast system for the expression of heterologous genes. Biochem. Soc. Trans. 16, 1081-1083. (Pubitemid 19015934)
14. van Dijk, R., Faber, K.N., Kiel, J.A., Veenhuis, M., and van der Klei, I. (2000) The methylotrophic yeast Hansenula polymorpha : A versatile cell factory. Enzyme Microb. Technol. 26, 793-800. (Pubitemid 30345548)
15. Gellissen, G., Kunze, G., Gaillardin, C., Cregg, J.M., Berardi, E., Veenhuis, M., and van der Klei, I. (2005) New yeast expression platforms based on methylotrophic Hansenula polymorpha and Pichia pastoris and on dimorphic Arxula adeninivorans and Yarrowia lipolytica - a comparison. FEMS Yeast Res. 5, 1079-1096. (Pubitemid 41564061)
16. Cregg, J.M., Cereghino, J.L., Shi, J., and Higgins, D.R. (2000) Recombinant protein expression in Pichia pastoris. Mol. Biotechnol. 16, 23-52.
17. Macauley-Patrick, S., Fazenda, M.L., McNeil, B., and Harvey, L.M. (2005) Heterologous protein production using the Pichia pastoris expression system. Yeast 22, 249-270. (Pubitemid 40528349)
18. van Ooyen, A., Dekker, P., Huang, M., Olsthoorn, M., Jacobs, D., Colussi, P., and Taron, C. (2006) Heterologous protein production in the yeast Kluyveromyces lactis. FEMS Yeast Res. 6, 381-392.
19. Fonseca, G.G., Heinzle, E., Wittmann, C., and Gombert, A.K. (2008) The yeast Kluyveromyces marxianus and its biotechnological potential. Appl. Microbiol. Biotechnol. 79, 339-354.
20. Madzak, C., Gaillardin, C., and Beckerich, J.M. (2004) Heterologous protein expression and secretion in the non-conventional yeast Yarrowia lipolytica : A review. J. Biotechnol. 109, 63-81. (Pubitemid 38452572)
21. Boer, E., Piontek, M., and Kunze, G. (2009) Xplor 2-an optimized transformation/expression system for recombinant protein production in the yeast Arxula adeninivorans. Appl. Microbiol. Biotechnol. 84, 583-594.
22. Stockmann C, Scheidle, M., Dittrich, B., et al. (2009) Process development in Hansenula polymorpha and Arxula adeninivorans, a reassessment. Microb. Cell Fact. 8 : 22.
23. Raymond, C.K., Bukowski, T., Holderman, S.D., Ching, A.F., Vanaja, E., and Stamm, M.R. (1998) Development of the methylotrophic yeast Pichia methanolica for the expression of the 65 kilodalton isoform of human glutamate decarboxylase. Yeast 14, 11-23. (Pubitemid 28035340)
24. Takegawa, K., Tohda, H., Sasaki, M., et al. (2009) Production of heterologous proteins using the fi ssion-yeast ( Schizosaccharomyces pombe ) expression system. Biotechnol. Appl. Biochem. 53, 227-235.
25. Dato, L., Branduardi, P., Passolunghi, S., Cattaneo, D., Riboldi, L., Frascotti, G., Valli, M., and Porro, D. (2010) Advances in the development of Zygosaccharomyces bailii as host for biotechnological productions and construction of the fi rst auxotrophic mutant. FEMS Yeast Res. 10, 894-908.
26. Ogawa, Y., Tatsumi, H., Murakami, S., Ishida, Y., Murakami, K., Masaki, A., Kawabe, H., Arimura, H., Nakano, E., Motai, H., et al. 1990. Secretion of Aspergillus oryzae alkaline protease in an osmophilic yeast, Zygosaccharomyces rouxii. Agric. Biol. Chem. 54, 2521-2529.
27. Den Haan, R. and Van Zyl, W.H. (2001) Differential expression of the Trichoderma reesei beta-xylanase II (xyn2) gene in the xylose-fermenting yeast Pichia stipitis. Appl. Microbiol. Biotechnol. 57, 521-527. (Pubitemid 33044130)
28. Buckholz, R.G., and Gleeson, M.A. (1991) Yeast systems for the commercial production of heterologous proteins. Biotechnology (N Y) 9, 1067-1072.
29. Gellissen, G., and Hollenberg, C.P. (1997) Application of yeasts in gene expression studies: A comparison of Saccharomyces cerevisiae, Hansenula polymorpha and Kluyveromyces lactis-a review. Gene 190, 87-97. (Pubitemid 27214274)
30. Dominguez, A., Ferminan, E., Sanchez, M., Gonzalez, F.J., Perez-Campo, F.M., Garcia, S., Herrero, A.B., San Vicente, A., Cabello, J., Prado, M., Iglesias, F.J., Choupina, A., Burguillo, F.J., Fernandez-Lago, L., and Lopez, M.C. (1998) Non-conventional yeasts as hosts for heterologous protein production. Int. Microbiol. 1, 131-142. (Pubitemid 128731324)
31. Cereghino, G.P., and Cregg, J.M. (1999) Applications of yeast in biotechnology: protein production and genetic analysis. Curr. Opin. Biotechnol. 10, 422-427. (Pubitemid 29457265)
32. Boer, E., Steinborn, G., Kunze, G., and Gellissen, G. (2007) Yeast expression platforms. Appl. Microbiol. Biotechnol. 77, 513-523. (Pubitemid 350125520)
33. Rocha SN., Abrahao-Neto, J., Cerdan, M.E., Gonzalez-Siso, M.I. and Gombert, A.K. (2010) Heterologous expression of glucose oxidase in the yeast Kluyveromyces marxianus. Microb. Cell Fact. 9 : 4.
34. Kurtzman, C.P. (2003) Phylogenetic circumscription of Saccharomyces, Kluyveromyces and other members of the Saccharomycetaceae, and the proposal of the new genera Lachancea, Nakaseomyces, Naumovia, Vanderwaltozyma and Zygotorulaspora. FEMS Yeast Res. 4, 233-245. (Pubitemid 37494721)
35. Makdesi, A.K., and Beuchat, L.R. (1996) Evaluation of media for enumerating heatstressed, benzoate-resistant Zygosaccharomyces bailii. Int. J. Food Microbiol. 33, 169-181. (Pubitemid 26373668)
36. Sousa, M.J., Miranda, L., Corte-Real, M., and Leao, C. (1996) Transport of acetic acid in Zygosaccharomyces bailii : effects of ethanol and their implications on the resistance of the yeast to acidic environments. Appl. Environ. Microbiol. 62, 3152-3157. (Pubitemid 26304094)
37. Wegener, G.H., and Harder, W. (1987) Methylotrophic yeasts-1986. Antonie van Leeuwenhoek 53, 29-36.
38. Thill, G., Davis, G., Stillman, C., et al. (1987) The methylotrophic yeast Pichia pastoris as a host for heterologous protein production. In: Microbial growth on C1 compounds. Eds: (van Verseveld, H., Duine, W., Nijhoff, J.A., eds.) Dordrecht, pp. 289-296.
39. Yurimoto, H. (2009) Molecular basis of methanol-inducible gene expression and its application in the methylotrophic yeast Candida boidinii. Biosci. Biotechnol. Biochem. 73, 793-800.
40. Yurimoto, H., and Sakai, Y. (2009) Methanolinducible gene expression and heterologous protein production in the methylotrophic yeast Candida boidinii. Biotechnol. Appl. Biochem. 53, 85-92.
41. Kuroda, K., Kobayashi, K., Tsumura, H., Komeda, T., Chiba, Y., and Jigami, Y. (2006) Production of Man5GlcNAc2-type sugar chain by the methylotrophic yeast Ogataea minuta. FEMS Yeast Res. 6, 1052-1062. (Pubitemid 44568862)
42. Hartner, F.S., Ruth, C., Langenegger, D., et al. (2008) Promoter library designed for fi ne-tuned gene expression in Pichia pastoris. Nucleic Acids Res. 36, e76.
43. Shen, S., Sulter, G., Jeffries, T.W., and Cregg, J.M. (1998) A strong nitrogen source-regulated promoter for controlled expression of foreign genes in the yeast Pichia pastoris. Gene 216, 93-102. (Pubitemid 28389106)
44. Resina, D., Serrano, A., Valero, F., and Ferrer, P. (2004) Expression of a Rhizopus oryzae lipase in Pichia pastoris under control of the nitrogen source-regulated formaldehyde dehydrogenase promoter. J. Biotechnol. 109, 103-113. (Pubitemid 38452575)
45. Waterham, H.R., Digan, M.E., Koutz, P.J., Lair, S.V., and Cregg, J.M. (1997) Isolation of the Pichia pastoris glyceraldehyde-3- phosphate dehydrogenase gene and regulation and use of its promoter. Gene 186, 37-44. (Pubitemid 27084827)
46. Hollenberg, C.P., and Gellissen, G. (1997) Production of recombinant proteins by methylotrophic yeasts. Curr. Opin. Biotechnol. 8, 554-560. (Pubitemid 27455330)
47. De Schutter, K., Lin, Y.C., Tiels, P., et al. (2009) Genome sequence of the recombinant protein production host Pichia pastoris. Nat. Biotechnol. 27, 561-566.
48. Mattanovich, D., Graf, A., Stadlmann, J., et al. (2009) Genome, secretome and glucose transport highlight unique features of the protein production host Pichia pastoris. Microb. Cell. Fact. 8, 29.
49. Ramezani-Rad, M., Hollenberg, C.P., Lauber, J., et al. (2003) The Hansenula polymorpha (strain CBS4732) genome sequencing and analysis. FEMS Yeast Res. 4, 207-215.
50. Burgers, P.M., and Percival, K.J. (1987) Transformation of yeast spheroplasts without cell fusion. Anal. Biochem. 163, 391-397.
51. Gietz, R.D., and Woods, R.A. (2002) Transformation of Yeast by the LiAc/ss Carrier DNA/PEG. Method. Meth. in Enzymol. 350, 87-96.
52. Sanchez, M., Iglesias, F.J., Santamaria, C., and Dominguez, A. (1993) Transformation of Kluyveromyces lactis by electroporation. Appl. Environm. Microbiol. 59, 2087-2092. (Pubitemid 23205793)
53. Goffeau, A., Barrell, B.G., Bussey, H., et al. (1996) Life with 6000 genes. Science 274, 563-547.
54. Bergkamp, R.J., Kool, I.M., Geerse, R.H., and Planta, R.J. (1992) Multiple-copy integration of the alpha-galactosidase gene from Cyamopsis tetragonoloba into the ribosomal DNA of Kluyveromyces lactis. Curr. Genet. 21, 365-370.
55. Liu, B., Gong, X., Chang, S., et al. (2009) Disruption of the OCH1 and MNN1 genes decrease N-glycosylation on glycoprotein expressed in Kluyveromyces lactis. J. Biotechnol. 143, 95-102.
56. Dujon, B., Sherman, D., Fischer, G., et al. (2004) Genome evolution in yeasts. Nature 430, 35-44. (Pubitemid 38915217)
57. Klabunde, J., Kunze, G., Gellissen, G., and Hollenberg, C.P. (2003) Integration of heterologous genes in several yeast species using vectors containing a Hansenula polymorpha - derived rDNA-targeting element. FEMS Yeast Res. 4, 185-193.
58. Jeffries, T., Grigoriev, I., Grimwood, J., et al. (2007) Genome sequence of the lignocellulosebioconverting and xylose-fermenting yeast Pichia stipitis. Nat. Biotechnol. 25, 319-326. (Pubitemid 46398771)
59. Le Dall, M.T., Nicaud, J.M., and Gaillardin, C. (1994) Multiple-copy integration in the yeast Yarrowia lipolytica. Curr. Genet. 26, 38-44. (Pubitemid 24192847)
60. Song, Y., Choi, M.H., Park, J.N., Kim, M.W., Kim, E.J., Kang, H.A. and Kim, J.Y. (2007) Engineering of the yeast Yarrowia lipolytica for the production of glycoproteins lacking the outer-chain mannose residues of N-glycans. Appl. Environ. Microbiol. 73, 4446-4454. (Pubitemid 47122587)
61. Wartmann, T., and Kunze, G. (2000) Genetic transformation and biotechnological application of the yeast Arxula adeninivorans. Appl Microbiol Biotechnol 54, 619-624.
62. Marx, H., Mecklenbräuker, A., Gasser, B., Sauer, M., and Mattanovich, D. (2009) Directed gene copy number amplifi cation in Pichia pastoris by vector integration into the ribosomal DNA locus. FEMS Yeast Res. 9, 1260-1270.
63. Hamilton, S., and Gerngross, T. (2007) Glycosylation engineering in yeast: the advent of fully humanized yeast. Curr. Opin. Biotechnol. 18, 387-392. (Pubitemid 350116586)
64. Cox, H., Mead, D., Sudbery, P., Eland, R.M., Mannazzu, I., and Evans, L. (2000) Constitutive expression of recombinant proteins in the methylotrophic yeast Hansenula polymorpha using the PMA1 promoter. Yeast 16, 1191-1203.
65. Oh, D.B., Park, J.S., Kim, M.W., et al. (2008) Glycoengineering of the methylotrophic yeast Hansenula polymorpha for the production of glycoproteins with trimannosyl core N-glycan by blocking core oligosaccharide assembly. Biotechnol. J. 3, 659-668. (Pubitemid 351803376)
66. Hasslacher, M., Schall, M., Hayn, M., et al. (1997) High-level intracellular expression of hydroxynitrile lyase from the tropical rubber tree Hevea brasiliensis in microbial hosts. Protein Expr. Purif. 11, 61-71. (Pubitemid 27434133)
67. Clare, J,J,, Rayment, F.B., Ballantine, S.P., Sreekrishna, K., and Romanos, M.A. (1991) High-level expression of tetanus toxin fragment C in Pichia pastoris strains containing multiple tandem integrations of the gene. Bio/Technology 9, 455-460.
68. Richardson, P.T., Roberts, L.M., Gould, J.H., and Lord, J.M. (1988) The expression of functional ricin B-chain in Saccharomyces cerevisiae. Biochim. Biophys. Acta 950, 385-394.
69. Binder, M., Schanz, M., and Hartig, A. (1991) Vector-mediated overexpression of catalase A in the yeast Saccharomyces cerevisiae induces inclusion body formation. Eur. J. Cell Biol. 54, 305-312.
70. Choi, S.Y., Lee, S.Y., and Bock, R.M. (1993) High level expression in Saccharomyces cerevisiae of an artifi cial gene encoding a repeated tripeptide aspartyl-phenylyalanyl-lysine. J. Biotechnol. 30, 211-223. (Pubitemid 23248357)
71. Weik, R., Francky, A., Striedner, G., Raspor, P., Bayer, K., and Mattanovich, D. (1998) Recombinant expression of alliin lyase from garlic ( Allium sativum ) in bacteria and yeasts. Planta Med. 64, 387-388. (Pubitemid 28234286)
72. Idiris, A., Tohda, H., Kumagai, H., and Takegawa, K. (2010) Engineering of protein secretion in yeast: strategies and impact on protein production. Appl. Microbiol. Biotechnol. 86, 403-417.
73. Barr, K.A., Hopkins, S.A., and Sreekrishna, K. (1992) Protocol for effi cient secretion of HSA developed from Pichia pastoris. Pharm. Eng. 12, 48-51.
74. Kauffman, K.J., Pridgen, E.M., Doyle, F.J. 3rd, Dhurjati, P.S., and Robinson, A.S. (2002) Decreased protein expression and intermittent recoveries in BiP levels result from cellular stress during heterologous protein expression in Saccharomyces cerevisiae. Biotechnol. Prog. 18, 942-950. (Pubitemid 35218676)
75. Hohenblum, H., Borth, N., and Mattanovich, D. (2003) Assessing viability and cell-associated product of recombinant protein producing Pichia pastoris with fl ow cytometry. J. Biotechnol. 102, 281-290. (Pubitemid 36555666)
76. Hohenblum, H., Gasser, B., Maurer, M., Borth, N., and Mattanovich, D. (2004) Effects of gene dosage, promoters, and substrates on unfolded protein stress of recombinant Pichia pastoris. Biotechnol Bioeng. 85, 367-375. (Pubitemid 38186091)
77. Kohno, K. (2010) Stress-sensing mechanisms in the unfolded protein response: similarities and differences between yeast and mammals. J. Biochem. 147, 27-33.
78. Mori, K. (2009) Signalling pathways in the unfolded protein response: development from yeast to mammals. J. Biochem. 146, 743-750.
79. Gasser, B., Saloheimo, M., Rinas, U., et al. (2008) Protein folding and conformational stress in microbial cells producing recombinant proteins: A host comparative overview. Microb. Cell. Fact. 7, 11.
80. Valkonen, M., Penttila, M., and Saloheimo, M. (2003) Effects of inactivation and constitutive expression of the unfolded- protein response pathway on protein production in the yeast Saccharomyces cerevisiae. Appl. Environ. Microbiol. 69, 2065-2072. (Pubitemid 36443621)
81. Gasser, B., Maurer, M., Gach, J., Kunert, R., and Mattanovich, D. (2006) Engineering of Pichia pastoris for improved production of antibody fragments. Biotechnol. Bioeng. 94, 353-361. (Pubitemid 43799534)
82. Pakula, T.M., Laxell, M., Huuskonen, A., Uusitalo, J., Saloheimo, M., and Penttila, M. (2003) The effects of drugs inhibiting protein secretion in the fi lamentous fungus Trichoderma reesei. Evidence for down-regulation of genes that encode secreted proteins in the stressed cells. J. Biol. Chem. 278, 45011-45020. (Pubitemid 37377261)
83. Swaim, C., Anton, B., Sharma, S., Taron, C., and Benner, J. (2008) Physical and computational analysis of the yeast Kluyveromyces lactis secreted proteome. Proteomics 8, 2714-2723. (Pubitemid 351988575)
84. Vai, M., Brambilla, L., Orlandi, I., Rota, N., Ranzi, B.M., Alberghina, L., and Porro, D. (2000) Improved secretion of native human insulin-like growth factor 1 from gas1 mutant Saccharomyces cerevisiae cells. Appl. Environ. Microbiol. 66, 5477-5479. (Pubitemid 32217159)
85. Marx, H., Sauer, M., Resina, D., et al. (2006) Cloning, disruption and protein secretory phenotype of the GAS1 homologue of Pichia pastoris. FEMS Microbiol. Lett. 264, 40-47. (Pubitemid 44511052)
86. Passolunghi, S., Riboldi, L., Dato, L., Porro, D., and Branduardi, P. (2010) Cloning of the Zygosaccharomyces bailii GAS1 homologue and effect of cell wall engineering on protein secretory phenotype. Microb. Cell. Fact. 9, 7.
87. Resina, D., Maurer, M., Cos, O., et al. (2009) Engineering of bottlenecks in Rhizopus oryzae lipase production in Pichia pastoris using the nitrogen source-regulated FLD1 promoter. N. Biotechnol. 25, 396-403.
88. Gemmill, T.R., and Trimble, R.B. (1999) Overview of N- and O-linked oligosaccharide structures found in various yeast species. Biochim. Biophys. Acta. 1426, 227-237. (Pubitemid 29027941)
89. Gellissen, G. (2000) Heterologous protein production in methylotrophic yeasts. Appl. Microbiol. Biotechnol. 54, 741-750. (Pubitemid 32009733)
90. Nakayama, K., Nagasu, T., Shimma, Y., Kuromitsu, J., and Jigami, Y. (1992) OCH1 encodes a novel membrane bound mannosyltransferase: outer chain elongation of asparagine- linked oligosaccharides. EMBO J. 11, 2511-2519.
91. Zhou, J., Zhang, H., Liu, X., Wang, P.G., and Qi, Q. (2007) Infl uence of N-glycosylation on Saccharomyces cerevisiae morphology: A golgi glycosylation mutant shows cell division defects. Curr. Microbiol. 55, 198-204. (Pubitemid 47237939)
92. Jacobs, P.P., Geysens, S., Vervecken, W., Contreras, R., and Callewaert, N. (2009) Engineering complex-type N-glycosylation in Pichia pastoris using GlycoSwitch technology. Nat. Protoc. 4, 58-70.
93. Wildt, S., and Gerngross, T.U. (2005) The humanization of N-glycosylation pathways in yeast. Nat. Rev. Microbiol. 3, 119-128. (Pubitemid 40207593)
94. Chiba, Y., and Akeboshi, H. (2009) Glycan engineering and production of 'humanized' glycoprotein in yeast cells. Biol. Pharm. Bull. 32, 786-795.
95. De Pourcq, K., De Schutter, K., and Callewaert, N. (2010) Engineering of glycosylation in yeast and other fungi: current state and perspectives. Appl. Microbiol. Biotechnol. 87, 1617-1631.
96. Potgieter, T.I., Cukan, M., Drummond, J.E., et al. (2009) Production of monoclonal antibodies by glycoengineered Pichia pastoris. J. Biotechnol. 139, 318-325.
97. Goto, M. (2007) Protein O-glycosylation in fungi: diverse structures and multiple functions. Biosci. Biotechnol. Biochem. 71, 1415-1427. (Pubitemid 47012011)
98. Chigira, Y., Oka, T., Okajima, T., and Jigami, Y. (2008) Engineering of a mammalian O-glycosylation pathway in the yeast Saccharomyces cerevisiae : production of O-fucosylated epidermal growth factor domains. Glycobiology 18, 303-314. (Pubitemid 351461063)
99. Sumi, A., Okuyama, K., Kobayashi, K., Ohtani, W., Ohmura, T., and Yokoyama, K. (1999) Purifi cation of recombinant human serum albumin. Effi cient purifi cation using STREAMLINE. Bioseparation 8, 195-200. (Pubitemid 30023457)
100. Westerhoff, H., and Palsson, B. (2004) The evolution of molecular biology into systems biology. Nat. Biotechnol. 22, 1249-1252. (Pubitemid 39336777)
101. Olivares-Hernandez R, Usaite, R., and Nielsen, J. (2010) Integrative analysis using proteome and transcriptome data from yeast to unravel regulatory patterns at posttranscriptional level. Biotechnol. Bioeng. doi: 10.1002/bit.22868
102. Zhang, J., Vemuri, G., and Nielsen, J. (2010) Systems biology of energy homeostasis in yeast. Curr. Opin. Microbiol. 13, 382-388.
103. Han, M., Lee, J., Lee, S., and Yoo, J. (2008) Proteome-level responses of Escherichia coli to long-chain fatty acids and use of fatty acid inducible promoter in protein production. J. Biomed. Biotechnol. 2008, 735101.
104. Fürch, T., Wittmann, C., Wang, W., Franco- Lara, E., Jahn, D., and Deckwer, W. (2007) Effect of different carbon sources on central metabolic fl uxes and the recombinant production of a hydrolase from Thermobifi da fusca in Bacillus megaterium. J. Biotechnol. 132, 385-394. (Pubitemid 350051072)
105. Wang, Y., Xue, W., Sims, A.H., et al. (2008) Isolation of four pepsin-like protease genes from Aspergillus niger and analysis of the effect of disruptions on heterologous laccase expression. Fungal. Genet. Biol. 45, 17-27. (Pubitemid 350101287)
106. Kimura, S., Maruyama, J., Takeuchi, M., and Kitamoto, K. (2008) Monitoring global gene expression of proteases and improvement of human lysozyme production in the nptB gene disruptant of Aspergillus oryzae. Biosci Biotechnol Biochem 72, 499-505. (Pubitemid 351353688)
107. Wong, D., Wong, K., Nissom, P., Heng, C., and Yap, M. (2006) Targeting early apoptotic genes in batch and fed-batch CHO cell cultures. Biotechnol. Bioeng. 95, 350-361. (Pubitemid 44495370)
108. Pizarro, F., Vargas, F., and Agosin, E. (2007) A systems biology perspective of wine fermentations. Yeast 24, 977-991. (Pubitemid 350238160)
109. Takors, R., Bathe, B., Rieping, M., Hans, S., Kelle, R., and Huthmacher, K. (2007) Systems biology for industrial strains and fermentation processes-example: amino acids. J. Biotechnol. 129, 181-190. (Pubitemid 46546600)
110. Mukhopadhyay, A., Redding, A., Rutherford, B., and Keasling, J. (2008) Importance of systems biology in engineering microbes for biofuel production. Curr. Opin. Biotechnol. 19, 228-234.
111. Graf, A., Dragosits, M., Gasser, B., and Mattanovich, D. (2009) Yeast systems biotechnology for the production of heterologous proteins. FEMS Yeast Res. 9, 335-348.
112. Sauer, M., Branduardi, P., Gasser, B., Valli, M., Maurer, M., Porro, D., and Mattanovich, D. (2004) Differential gene expression in recombinant Pichia pastoris analysed by heterologous DNA microarray hybridisation. Microb. Cell. Fact. 3, 17.
113. Gasser, B., Maurer, M., Rautio, J., et al. (2007) Monitoring of transcriptional regulation in Pichia pastoris under protein production conditions. BMC Genomics 8, 179.
114. Dragosits, M., Stadlmann, J., Albiol, J., et al. (2009) The effect of temperature on the proteome of recombinant Pichia pastoris. J. Proteome Res. 8, 1380-1392.
115. Dragosits, M., Stadlmann, J., Graf, A., et al. (2010) The response to unfolded protein is involved in osmotolerance of Pichia pastoris. BMC Genomics 11, 207.
116. Gonzalez, R., Andrews, B., Molitor, J., and Asenjo, J. (2003) Metabolic analysis of the synthesis of high levels of intracellular human SOD in Saccharomyces cerevisiae rhSOD 2060 411 SGA122. Biotechnol. Bioeng. 82, 152-169. (Pubitemid 36362916)
117. Heyland, J., Fu, J., Blank, L.M., and Schmid, A. (2010) Quantitative physiology of Pichia pastoris during glucose-limited high-cell density fed-batch cultivation for recombinant protein production. Biotechnol. Bioeng. 107, 357-368.
118. Gasser B, Sauer, M., Maurer, M., Stadlmayr, G. and Mattanovich, D. (2007) Transcriptomicsbased identifi cation of novel factors enhancing heterologous protein secretion in yeasts. Appl. Environ. Microbiol. 73 : 6499-6507. (Pubitemid 47623708)
119. Dragosits, M., Frascotti, G., Bernard-Granger, L., et al 2010) Infl uence of growth temperature on the production of antibody Fab fragments in different microbes: A host comparative analysis Biotechnology Progress, accepted for publication
120. Mattanovich, D., Gasser, B., Hohenblum, H., and Sauer, M. (2004) Stress in recombinant protein producing yeasts. J. Biotechnol. 113, 121-135. (Pubitemid 39237075)
121. van Zutphen, T., Baerends, R.J., Susanna, K.A., de Jong, A., Kuipers, O.P., Veenhuis, M., and van der Klei, I.J. (2010) Adaptation of Hansenula polymorpha to methanol: A transcriptome analysis. BMC Genomics 11, 1.
122. Solà, A., Maaheimo, H., Ylönen, K., Ferrer, P. and Szyperski, T. (2004) Amino acid biosynthesis and metabolic fl ux profi ling of Pichia pastoris. Eur. J. Biochem. 271, 2462-2470. (Pubitemid 38813577)
123. Solà, A., Jouhten, P., Maaheimo, H., Sánchez- Ferrando, F., Szyperski, T. and Ferrer, P. (2007) Metabolic fl ux profi ling of Pichia pastoris grown on glycerol/methanol mixtures in chemostat cultures at low and high dilution rates. Microbiology 153, 281-290. (Pubitemid 46111843)
124. Rautio, J.J., Kataja, K., Satokari, R., Penttila, M., Soderlund, H., and Saloheimo, M. (2006) Rapid and multiplexed transcript analysis of microbial cultures using capillary electophoresis-detectable oligonucleotide probe pools. J. Microbiol. Methods. 65, 404-416. (Pubitemid 43673948)
125. Weik, R., Striedner, G., Francky, A., Raspor, P., Bayer, K., and Mattanovich, D. (1999) Induction of oxidofermentative ethanol formation in recombinant cells of Saccharomyces cerevisiae yeasts. Food Technol. Biotechnol. 37, 191-194. (Pubitemid 129621461)
126. Hong, F., Meinander, N.Q. and Jonsson, L.J. (2002) Fermentation strategies for improved heterologous expression of laccase in Pichia pastoris. Biotechnol. Bioeng. 79, 438-449. (Pubitemid 34847321)
127. Zhang, W., Smith, L.A., Plantz, B.A., Schlegel, V.L., and Meagher, M.M. (2002) Design of methanol feed control in Pichia pastoris fermentations based upon a growth model. Biotechnol Prog. 18, 1392-1399. (Pubitemid 35450899)
128. Jahic, M., Veide, A., Charoenrat,T., Teeri, T., and Enfors, S.O. (2006) Process technology for production and recovery of heterologous proteins with Pichia pastoris. Biotechnol. Prog. 22, 1465-1473. (Pubitemid 44912651)
129. Kim, S.J., Lee, J.A., Kim, Y.H., and Song, B.K. (2009) Optimization of the functional expression of Coprinus cinereus peroxidase in Pichia pastoris by varying the host and promoter. J. Microbiol. Biotechnol. 19, 966-971.
130. Pla, I.A., Damasceno, L.M., Vannelli, T., Ritter, G., Batt, C.A., and Shuler, M.L. (2006) Evaluation of Mut+ and MutS Pichia pastoris phenotypes for high level extracellular scFv expression under feedback control of the methanol concentration. Biotechnol. Prog. 22, 881-888. (Pubitemid 43877458)
131. d'Anjou, M.C., and Daugulis, A.J. (2001) A rational approach to improving productivity in recombinant Pichia pastoris fermentation. Biotechnol. Bioeng. 72, 1-11. (Pubitemid 32085886)
132. Jungo, C., Marison, I., and von Stockar, U. (2007) Mixed feeds of glycerol and methanol can improve the performance of Pichia pastoris cultures: A quantitative study based on concentration gradients in transient continuous cultures. J. Biotechnol. 128, 824-837. (Pubitemid 46341482)
133. Kobayashi, K., Kuwae, S., Ohya, T., Ohda, T., Ohyama, M., and Tomomitsu, K. (2000) High level secretion of recombinant human serum albumin by fed-batch fermentation of the methylotrophic yeast, Pichia pastoris, based on optimal methanol feeding strategy. J. Biosci. Bioeng. 90, 280-288.
134. Curvers, S., Brixius, P., Klauser, T., Thommes, J., Weuster-Botz, D., Takors, R., and Wandrey, C. (2001) Human chymotrypsinogen B production with Pichia pastoris by integrated development of fermentation and downstream processing. Part 1. Fermentation. Biotechnol Prog 17, 495-502. (Pubitemid 32532778)
135. Maurer, M., Kuhleitner, M., Gasser, B., and Mattanovich, D. (2006) Versatile modeling and optimization of fed batch processes for the production of secreted heterologous proteins with Pichia pastoris. Microb. Cell Fact. 5, 37.
136. Potgieter, T.I., Kersey, S.D., Mallem, M.R., Nylen, A.C., and d'Anjou, M. (2010) Antibody expression kinetics in glycoengineered Pichia pastoris. Biotechnol. Bioeng. 106, 918-927.
137. Goodey, A.R. (1993) The production of heterologous plasma proteins. Trends Biotechnol. 11, 430-433. (Pubitemid 23311187)
138. Porro, D., Martegani, E., Ranzi, B.M., and Alberghina, L. (1991) Heterologous gene expression in continuous cultures of budding yeast. Appl. Microbiol. Biotechnol. 34, 632-636.
139. Stephanopoulos, G., Aristodou, A., and Nielsen, J. 1998) Metabolic engineering. Academic Press Inc, San Diego, Calif.