Multi-gene engineering: Simultaneous expression and knockdown of six genes off a single platform

Biotechnology and Bioengineering

Volumn 96, Issue 5, 2007, Pages 821-834

  Greber, David ^a   Fussenegger, Martin ^a  

^a ETH ZURICH   (Switzerland)

Author keywords

Firefly luciferase; GFP; Heterologous gene regulation; Intron encoded siRNA; Macrolide; Multi cistronic; ptrident; RNA silencing; RNAi; SAMY; SEAP; SeXy; siRNA; Splicing; Streptogramin; Tetracycline; VEGF

Indexed keywords

DRUG PRODUCTS; ENZYMES; GENES; MOLECULAR STRUCTURE; RNA;

FIREFLY LUCIFERASE; HETEROLOGOUS GENE REGULATION; INTRON-ENCODED SIRNA; MACROLIDE; MULTI-CISTRONIC; MULTI-GENE ENGINEERING; RNA SILENCING; SPLICING; STREPTOGRAMIN; TETRACYCLINE;

GENETIC ENGINEERING;

DNA POLYMERASE; ERYTHROMYCIN; OLIGONUCLEOTIDE; PRISTINAMYCIN; SMALL INTERFERING RNA; TETRACYCLINE;

ANIMAL CELL; ARTICLE; CISTRON; CONTROLLED STUDY; EXON; GENE EXPRESSION; GENE OVEREXPRESSION; GENE TARGETING; GENE VECTOR; GENETIC ENGINEERING; INTRON; MULTIGENE FAMILY; NONHUMAN; PLASMID; PROMOTER REGION; PROTEIN DOMAIN; RNA SPLICING; TRANSGENE;

GENE EXPRESSION; GENE SILENCING; GENETIC ENGINEERING; RNA, SMALL INTERFERING; TRANSGENES;

EID: 33947576051     PISSN: 00063592     EISSN: 10970290     Source Type: Journal    
DOI: 10.1002/bit.21303     Document Type: Article

References (63)

1. Ambros V, Lee RC, Lavanway A, Williams PT, Jewell D. 2003. MicroRNAs and other tiny endogenous RNAs in C. elegans. Curr Biol 13(10):807-818.
2. Berger J, Hauber J, Hauber R, Geiger R, Cullen BR. 1988. Secreted placental alkaline phosphatase: A powerful new quantitative indicator of gene expression in eukaryotic cells. Gene 66(1):1-10.
3. Boden D, Pusch O, Silbermann R, Lee F, Tucker L, Ramratnam B. 2004. Enhanced gene silencing of HIV-1 specific siRNA using microRNA designed hairpins. Nucleic Acids Res 32(3):1154-1158.
4. Bottino R, Lemarchand P, Trucco M, Giannoukakis N. 2003. Gene- and cell-based therapeutics for type I diabetes mellitus. Gene Ther 10(10):875-889.
5. Brummelkamp TR, Bernards R, Agami R. 2002. A system for stable expression of short interfering RNAs in mammalian cells. Science 296(5567):550-553.
6. Chung KH, Hart CC, Al-Bassam S, Avery A, Taylor J, Patel PD, Vojtek AB, Turner DL. 2006. Polycistronic RNA polymerase II expression vectors for RNA interference based on BIC/miR-155. Nucleic Acids Res 34(7):e53.
7. Elbashir SM, Harborth J, Lendeckel W, Yalcin A, Weber K, Tuschl T. 2001a. Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells. Nature 411(6836):494-498.
8. Elbashir SM, Lendeckel W, Tuschl T. 2001b. RNA interference is mediated by 21- and 22-nucleotide RNAs. Genes Dev 15(2):188-200.
9. Evans CH, Gouze JN, Gouze E, Robbins PD, Ghivizzani SC. 2004. Osteoarthritis gene therapy. Gene Ther 11(4):379-389.
10. Fedoriw AM, Stein P, Svoboda P, Schultz RM, Bartolomei MS. 2004. Transgenic RNAi reveals essential function for CTCF in H19 gene imprinting. Science 303(5655):238-240.
11. Filipowicz W. 2005. RNAi: The nuts and bolts of the RISC machine. Cell 122(1):17-20.
12. Fluri DA, Kelm JM, Lesage G, El Baba MD, Fussenegger M.Secreted xylanase - A novel mammalian reporter gene (submitted).
13. Furlan R, Butti E, Pluchino S, Martino G. 2004. Gene therapy for autoimmune diseases. Curr Opin Mol Ther 6(5):525-536.
14. Fussenegger M, Mazur X, Bailey JE. 1998a. pTRIDENT, a novel vector family for tricistronic gene expression in mammalian cells. Biotechnol Bioeng 57(1):1-10.
15. Fussenegger M, Morris RP, Fux C, Rimann M, von Stockar B, Thompson CJ, Bailey JE. 2000. Streptogramin-based gene regulation systems for mammalian cells. Nat Biotechnol 18(11):1203-1208.
16. Fussenegger M, Moser S, Mazur X, Bailey JE. 1997. Autoregulated multicistronic expression vectors provide one-step cloning of regulated product gene expression in mammalian cells. Biotechnol Prog 13(6):733-740.
17. Fussenegger M, Schlatter S, Datwyler D, Mazur X, Bailey JE. 1998b. Controlled proliferation by multigene metabolic engineering enhances the productivity of Chinese hamster ovary cells. Nat Biotechnol 16(5):468-472.
18. Fux C, Langer D, Kelm JM, Weber W, Fussenegger M. 2004a. New-generation multicistronic expression platform: pTRIDENT vectors containing size-optimized IRES elements enable homing endonuclease-based cistron swapping into lentiviral expression vectors. Biotechnol Bioeng 86(2):174-187.
19. Fux C, Mitta B, Kramer BP, Fussenegger M. 2004b. Dual-regulated expression of C/EBP-alpha and BMP-2 enables differential differentiation of C2C12 cells into adipocytes and osteoblasts. Nucleic Acids Res 32(1):e1.
20. Fux C, Moser S, Schlatter S, Rimann M, Bailey JE, Fussenegger M. 2001. Streptogramin- and tetracycline-responsive dual regulated expression of p27(Kip1) sense and antisense enables positive and negative growth control of Chinese hamster ovary cells. Nucleic Acids Res 29(4):E19.
21. Gossen M, Bujard H. 1992. Tight control of gene expression in mammalian cells by tetracycline-responsive promoters. Proc Natl Acad Sci USA 89(12):5547-5551.
22. Hartenbach S, Fussenegger M. 2005. Autoregulated, bidirectional and multicistronic gas-inducible mammalian as well as lentiviral expression vectors. J Biotechnol 120(1):83-98.
23. Huang MT, Gorman CM. 1990. Intervening sequences increase efficiency of RNA 3′ processing and accumulation of cytoplasmic RNA. Nucleic Acids Res 18(4):937-947.
24. Jazag A, Kanai F, Ijichi H, Tateishi K, Ikenoue T, Tanaka Y, Ohta M, Imamura J, Guleng B, Asaoka Y, et al. 2005. Single small-interfering RNA expression vector for silencing multiple transforming growth factor-beta pathway components. Nucleic Acids Res 33(15):e131.
25. Lagos-Quintana M, Rauhut R, Lendeckel W, Tuschl T. 2001. Identification of novel genes coding for small expressed RNAs. Science 294(5543):853-858.
26. Lau NC, Lim LP, Weinstein EG, Battel DP. 2001. An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans. Science 294(5543):858-862.
27. Lee RC, Ambros V. 2001. An extensive class of small RNAs in Caenorhabditis elegans. Science 294(5543):862-864.
28. Lee Y, Ahn C, Han J, Choi H, Kim J, Yim J, Lee J, Provost P, Radmark O, Kim S, et al. 2003. The nuclear RNase III Drosha initiates microRNA processing. Nature 425(6956):415-419.
29. Lin SL, Chang D, Wu DY, Ying SY. 2003. A novel RNA splicing-mediated gene silencing mechanism potential for genome evolution. Biochem Biophys Res Commun 310(3):754-760.
30. Malphettes L, Fussenegger M. 2004. Macrolide- and tetracycline-adjustable siRNA-mediated gene silencing in mammalian cells using polymerase II-dependent promoter derivatives. Biotechnol Bioeng 88(4):417-425.
31. Malphettes L, Fussenegger M. 2006a. Impact of RNA interference on gene networks. Metab Eng 8(6):672-683.
32. Malphettes L, Fussenegger M. 2006b. Improved transgene expression fine-tuning in mammalian cells using a novel transcription-translation network. J Biotechnol 124(4):732-746.
33. McCaffrey AP, Meuse L, Pham TT, Conklin DS, Hannon GJ, Kay MA. 2002. RNA interference in adult mice. Nature 418(6893):38-39.
34. Mitta B, Rimann M, Ehrengruber MU, Ehrbar M, Djonov V, Kelm J, Fussenegger M. 2002. Advanced modular self-inactivating lentiviral expression vectors for multigene interventions in mammalian cells and in vivo transduction. Nucleic Acids Res 30(21):e113.
35. Moser S, Rimann M, Fux C, Schlatter S, Bailey JE, Fussenegger M. 2001. Dual-regulated expression technology: A new era in the adjustment of heterologous gene expression in mammalian cells. J Gene Med 3(6):529-549.
36. Moser S, Schlatter S, Fux C, Rimann M, Bailey JE, Fussenegger M. 2000. An update of pTRIDENT multicistronic expression vectors: pTRIDENTs containing novel streptogramin-responsive promoters. Biotechnol Prog 16(5):724-735.
37. Prati EG, Matasci M, Suter TB, Dinter A, Sburlati AR, Bailey JE. 2002. Engineering of coordinated up- and down-regulation of two glycosyl-transferases of the O-glycosylation pathway in Chinese hamster ovary (CHO) cells. Biotechnol Bioeng 79(5):580-585.
38. Rao MK, Pham J, Imam JS, MacLean JA, Murali D, Furuta Y, Sinha-Hikim AP, Wilkinson MF. 2006. Tissue-specific RNAi reveals that WT1 expression in nurse cells controls germ cell survival and spermatogenesis. Genes Dev 20(2):147-152.
39. Rees S, Coote J, Stables J, Goodson S, Harris S, Lee MG. 1996. Bicistronic vector for the creation of stable mammalian cell lines that predisposes all antibiotic-resistant cells to express recombinant protein. Biotechniques 20(1):102-104, 106, 108-110.
40. Rodriguez A, Griffiths-Jones S, Ashurst JL, Bradley A. 2004. Identification of mammalian microRNA host genes and transcription units. Genome Res 14(10A):1902-1910.
41. Samakoglu S, Lisowski L, Budak-Alpdogan T, Usachenko Y, Acuto S, Di Marzo R, Maggio A, Zhu P, Tisdale JF, Riviere I, et al. 2006. A genetic strategy to treat sickle cell anemia by coregulating globin transgene expression and RNA interference. Nat Biotechnol 24(1):89-94.
42. Sandy P, Ventura A, Jacks T. 2005. Mammalian RNAi: A practical guide. Biotechniques 39(2):215-224.
43. Schiffelers RM, Xu J, Storm G, Woodle MC, Scaria PV. 2005. Effects of treatment with small interfering RNA on joint inflammation in mice with collagen-induced arthritis. Arthritis Rheum 52(4):1314-1318.
44. Schlatter S, Rimann M, Kelm J, Fussenegger M. 2002. SAMY, a novel mammalian reporter gene derived from Bacillus stearothermophilus alpha-amylase. Gene 282(1-2):19-31.
45. Schlatter S, Senn C, Fussenegger M. 2003. Modulation of translation-initiation in CHO-K1 cells by rapamycin-induced heterodimerization of engineered eIF4G fusion proteins. Biotechnol Bioeng 83(2):210-225.
46. Schuldiner M, Yanuka O, Itskovitz-Eldor J, Melton DA, Benvenisty N. 2000. Effects of eight growth factors on the differentiation of cells derived from human embryonic stem cells. Proc Natl Acad Sci USA 97(21):11307-11312.
47. Siatskas C, Chan J, Field J, Murphy K, Nasa Z, Toh BH, Alderuccio F. 2006. Gene therapy strategies towards immune tolerance to treat the autoimmune diseases. Curr Gene Ther 6(1):45-58.
48. Stegmeier F, Hu G, Rickles RJ, Hannon GJ, Elledge SJ. 2005. A lentiviral microRNA-based system for single-copy polymerase II-regulated RNA interference in mammalian cells. Proc Natl Acad Sci USA 102(37):13212-13217.
49. Svoboda P, Stein P, Hayashi H, Schultz RM. 2000. Selective reduction of dormant maternal mRNAs in mouse oocytes by RNA interference. Development 127(19):4147-4156.
50. Takahashi Y, Nishikawa M, Kobayashi N, Takakura Y. 2005. Gene silencing in primary and metastatic tumors by small interfering RNA delivery in mice: Quantitative analysis using melanoma cells expressing firefly and sea pansy luciferases. J Control Release 105(3):332-343.
51. Tigges M, Fussenegger M. 2006. Xbp1-based engineering of secretory capacity enhances the productivity of Chinese hamster ovary cells. Metab Eng 8(3):264-272.
52. Tuschl T. 2001. RNA interference and small interfering RNAs. Chembiochem 2(4):239-245.
53. Wannenes F, Ciafre SA, Niola F, Frajese G, Farace MG. 2005. Vector-based RNA interference against vascular endothelial growth factor-A significantly limits vascularization and growth of prostate cancer in vivo. Cancer Gene Ther 12(12):926-934.
54. Weber W, Fux C, Daoud-el Baba M, Keller B, Weber CC, Kramer BP, Heinzen C, Aubel D, Bailey JE, Fussenegger M. 2002. Macrolide-based transgene control in mammalian cells and mice. Nat Biotechnol 20(9):901-907.
55. Weber W, Marty RR, Link N, Ehrbar M, Keller B, Weber CC, Zisch AH, Heinzen C, Djonov V, Fussenegger M. 2003. Conditional human VEGF-mediated vascularization in chicken embryos using a novel temperature-inducible gene regulation (TIGR) system. Nucleic Acids Res 31(12):e69.
56. Wianny F, Zernicka-Goetz M. 2000. Specific interference with gene function by double-stranded RNA in early mouse development. Nat Cell Biol 2(2):70-75.
57. Xia H, Mao Q, Paulson HL, Davidson BL. 2002. siRNA-mediated gene silencing in vitro and in vivo. Nat Biotechnol 20(10):1006-1010.
58. Xia X, Zhou H, Xu Z. 2006. Multiple shRNAs expressed by an inducible pol II promoter can knock down the expression of multiple target genes. Biotechniques 41:64-68.
59. Yang S, Tutton S, Pierce E, Yoon K. 2001. Specific double-stranded RNA interference in undifferentiated mouse embryonic stem cells. Mol Cell Biol 21(22):7807-7816.
60. Ying SY, Lin SL. 2004. Intron-derived microRNAs - Fine tuning of gene functions. Gene 342(1):25-28.
61. Ying SY, Lin SL. 2006. Current perspectives in intronic micro RNAs (miRNAs). J Biomed Sci 13(1):5-15.
62. Yu JY, Taylor J, DeRuiter SL, Vojtek AB, Turner DL. 2003. Simultaneous inhibition of GSK3alpha and GSK3beta using hairpin siRNA expression vectors. Mol Ther 7(2):228-236.
63. Zeng Y, Cai X, Cullen BR. 2005. Use of RNA polymerase II to transcribe artificial microRNAs. Methods Enzymol 392:371-380.