Characterization and comparison of chicken U6 promoters for the expression of short hairpin RNAs

Animal Biotechnology

Volumn 18, Issue 3, 2007, Pages 153-162

  Wise, Terry G ^a   Schafer, Darren J ^a   Lambeth, Luke S ^a   Tyack, Scott G ^a   Bruce, Matthew P ^a   Moore, Robert J ^a   Doran, Tim J ^a  

^a CSIRO   (Australia)

Author keywords

Chicken; Pol III promoters; RNAi; ShRNA

Indexed keywords

BIOACTIVITY; CELLS; DNA; ENZYMES; RNA;

CHICKEN PROMOTERS; PROMOTER ACTIVITY; PROMOTER ELEMENT SEQUENCES;

GENE EXPRESSION;

DNA DIRECTED DNA POLYMERASE GAMMA; ENHANCED GREEN FLUORESCENT PROTEIN; GREEN FLUORESCENT PROTEIN; MESSENGER RNA; SMALL INTERFERING RNA; SMALL NUCLEAR RNA; U6 SMALL NUCLEAR RNA; UNCLASSIFIED DRUG;

ANIMAL; ANIMAL DISEASE; ARTICLE; BIOSYNTHESIS; CERCOPITHECUS; CHICKEN; FLUORESCENCE MICROSCOPY; GENETIC TRANSFECTION; GENETICS; MOLECULAR GENETICS; MOUSE; NUCLEOTIDE SEQUENCE; PROMOTER REGION; RNA INTERFERENCE; VERO CELL;

ANIMALS; BASE SEQUENCE; CERCOPITHECUS AETHIOPS; CHICKENS; DNA POLYMERASE III; GREEN FLUORESCENT PROTEINS; MICE; MICROSCOPY, FLUORESCENCE; MOLECULAR SEQUENCE DATA; PROMOTER REGIONS (GENETICS); RNA INTERFERENCE; RNA, MESSENGER; RNA, SMALL INTERFERING; RNA, SMALL NUCLEAR; TRANSFECTION; VERO CELLS;

EID: 34547304939     PISSN: 10495398     EISSN: 15322378     Source Type: Journal    
DOI: 10.1080/10495390600867515     Document Type: Article

References (34)

1. Fire A. RNA-triggered gene silencing. Trends in Genetics 1999; 15:358-363.
2. Hannon GJ. RNA interference. Nature 2002; 418:244-251.
3. Napoli C, Lemieux C, Jorgensen R. Introduction of chimeric chalcone synthase gene into petunia results in reversible co-suppression of homologous gene in trans. The Plant Cell 1990; 2:279-289.
4. Sharp PA. RNAi and double-strand RNA. Genes and Development 1999; 13:139-141.
5. Elbashir SM, Harborth J, Lendeckel W, Yalcin A, Weber K, Tuschl T. Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells. Nature 2001; 411:494-498.
6. Fire A, Xu S, Montgomery MK, Kostas SA, Driver SE, Mello CC. Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature 1998; 391:806-811.
7. Ashrafi K, Chang FY, Watts JL, Fraser AG, Kamath RS, Ahringer J, Ruvkun G. Genome-wide RNAi analysis of Caenorhabditis elegans fat regulatory genes. Nature 2003; 421: 268-272.
8. Williams BR. Role of the double-stranded RNA-activated protein kinase (PKR) in cell regulation. Biochemical Society Transactions 1997; 25:509-513.
9. Stark GR, Kerr IM, Williams BR, Silverman RH, Schreiber RD. How cells respond to interferons. Annual Review of Biochemistry 1998; 67:227-264.
10. Gil J, Alcami J, Esteban M. Induction of apoptosis by double-stranded-RNA-dependent protein kinase (PKR) involves the alpha subunit of eukaryotic translation initiation factor 2 and NF-kappaB. Molecular and Cellular Biology 1999; 19:4653-4663.
11. Paul CP, Good PD, Winer I, Engelke DR. Effective expression of small interfering RNA in human cells. Nature Biotechnology 2002; 20:505-508.
12. Lee NS, Dohjima T, Bauer G, Li H, Li MJ, Ehsani A, Salvaterra P, Rossi J. Expression of small interfering RNAs targeted against HIV-1 rev transcripts in human cells. Nature Biotechnology 2002; 20:500-505.
13. Brummelkamp TR, Bernards R, Agami R. A system for stable expression of short interfering RNAs in mammalian cells. Science 2002; 296:550-553.
14. Yu JY, DeRuiter SL, Turner DL. RNA interference by expression of short-interfering RNAs and hairpin RNAs in mammalian cells. Proceedings of the National Academy of Sciences USA 2002; 99:6047-6052.
15. Paddison PJ, Caudy AA, Bernstein E, Hannon GJ, Conklin DS. Short hairpin RNAs (shRNAs) induce sequence-specific silencing in mammalian cells. Genes and Development 2002; 16:948-958.
16. Devroe E, Silver PA. Therapeutic potential of retroviral RNAi vectors. Expert Opinion on Biological Therapy 2004; 4:319-327.
17. Kunkel GR, Pederson T. Transcription of a human U6 small nuclear RNA gene in vivo withstands deletion of intragenic sequences but not of an upstream TATA box. Nucleic Acids Research 1989; 17:7371-7379.
18. Geiduschek EP, Kassavetis GA. The RNA polymerase III transcription apparatus. Journal of Molecular Biology 2001; 310:1-26.
19. Schramm L, Hernandez N. Recruitment of RNA polymerase III to its target promoters. Genes and Development 2002; 16:2593-2620.
20. Kunkel GR, Pederson T. Upstream elements required for efficient transcription of a human U6 RNA gene resemble those of U1 and U2 genes even though a different polymerase is used. Genes and Development 1988; 2:196-204.
21. Ma B, Hernandez N. Redundant cooperative interactions for assembly of a human U6 transcription initiation complex. Molecular and Cellular Biology 2002; 22:8067-8078.
22. Domitrovich AM, Kunkel GR. Multiple, dispersed human U6 small nuclear RNA genes with varied transcriptional efficiencies. Nucleic Acids Research 2003; 31:2344-2352.
23. Kudo T, Sutou S. Usage of putative chicken U6 promoters for vector-based RNA interference. Journal of Reproduction and Development 2005; 51:411-417.
24. Kim DH, Rossi JJ. Coupling of RNAi-mediated target downregulation with gene replacement. Antisense and Nucleic Acid Drug Development 2003; 13:151-155.
25. Diaz MO, Ziemin S, Le Beau MM, Pitha P, Smith SD, Chilcote RR, Rowley JD. Homozygous deletion of the alpha- and beta 1-interferon genes in human leukemia and derived cell lines. Proceedings of the National Academy of Sciences USA 1988; 85:5259-5263.
26. Diaz MO, Pomykala HM, Bohlander SK, Maltepe E, Malik K, Brownstein B, Olopade OI. Structure of the human type-I interferon gene cluster determined from a YAC clone contig. Genomics 1994; 22:540-552.
27. Kitahara T, Nakamura H. Gene silencing in chick embryos with a vector-based small interfering RNA system. Development, Growth, and Differentiation 2003; 45:361-367.
28. Brown WRA, Hubbard SJ, Tickle C, Wilson SA. The chicken as a model for large-scale analysis of vertebrate gene function. Nature Reviews 2003; 4:87-98.
29. Lobo SM, Lister J, Sullivan ML, Hernandez N. The cloned RNA polymerase IT transcription factor IID selects RNA polymerase III to transcribe the human U6 gene in vitro. Genes and Development 1991; 5:1477-1489.
30. Goomer RS, Kunkel GR. The transcriptional start site for a human U6 small nuclear RNA gene is dictated by a compound promoter element consisting of the PSE and the TATA box. Nucleic Acids Research 1992; 20:4903-4912.
31. Waldschmidt R, Wanandi I, Seifart KH. Identification of transcription factors required for the expression of mammalian U6 genes in vitro. The EMBO Journal 1991; 10: 2595-2603.
32. Simmen KA, Waldschmidt R, Bernues J, Parry HD, Seifart KH, Mattaj IW. Proximal sequence element factor binding and species specificity in vertebrate U6 snRNA promoters. Journal of Molecular Biology 1992; 223:873-884.
33. Dahlberg JE, Lund E. (1988) The genes and transcription of the major small nuclear RNAs. In Structure and Function of Major and Minor Small Nuclear Ribonucleoprotein Particles; Birnstiel ML, Ed; Springer-Verlag, Berlin, 1988;38-70.
34. Sturm RA, Das G, Herr W. The ubiquitous octamer-binding protein Oct-1 contains a POU domain with a homeo box subdomain. Genes and Development 1988; 2:1582-1599.