Improvement of RNAi Activity and Strand Selectivity of RISC Formation by Modified siRNA Involving Intercalators near 5' Termini

ChemBioChem

Volumn 13, Issue 2, 2012, Pages 311-315

  Ito, Hiroshi ^a   Urushihara, Masaaki ^a   Liang, Xingguo ^a,b   Asanuma, Hiroyuki ^a  

^a NAGOYA UNIVERSITY   (Japan)

^b OCEAN UNIVERSITY OF CHINA   (China)

Author keywords

Chemical modifications; Nucleic acids; RNA; RNA interference; SiRNA

Indexed keywords

AZOBENZENE; LUCIFERASE; METHYL RED; OCTREOTIDE; RNA INDUCED SILENCING COMPLEX; RNA POLYMERASE; SMALL INTERFERING RNA; THIAZOLE ORANGE;

CHEMICAL MODIFICATION; ENZYME INHIBITION; GENE ACTIVITY; GENE EXPRESSION; GENE SILENCING; NOTE; PRIORITY JOURNAL; RNA BINDING; RNA INTERFERENCE; RNA SEQUENCE; RNA STRUCTURE; THERMODYNAMICS; TRANSCRIPTION REGULATION;

AZO COMPOUNDS; BASE SEQUENCE; BENZOTHIAZOLES; INTERCALATING AGENTS; MOLECULAR SEQUENCE DATA; MOLECULAR STRUCTURE; QUINOLINES; RNA INTERFERENCE; RNA, SMALL INTERFERING; RNA-INDUCED SILENCING COMPLEX; SEQUENCE ALIGNMENT;

EID: 84855902811     PISSN: 14394227     EISSN: 14397633     Source Type: Journal    
DOI: 10.1002/cbic.201100570     Document Type: Note

References (29)

1. A. Fire, S. Xu, M. K. Montgomery, S. A. Kostas, S. E. Driver, C. C. Mello, Nature 1998, 391, 806-811.
2. S. M. Elbashir, J. Harborth, W. Lendeckel, A. Yalcin, K. Weber, T. Tuschl, Nature 2001, 411, 494-498.
3. P. D. Zamore, T. Tuschl, P. A. Sharp, D. P. Bartel, Cell 2000, 101, 25-33.
4. S. M. Elbashir, J. Martinez, A. Patkaniowska, W. Lendeckel, T. Tuschl, EMBO J. 2001, 20, 6877-6888.
5. J. Martinez, A. Patkaniowska, H. Urlaub, R. Lührmann, T. Tuschl, Cell 2002, 110, 563-574.
6. D.-H. Kim, M. A. Behlke, S. D. Rose, M.-S. Chang, S. Choi, J. J. Rossi, Nat. Biotechnol. 2005, 23, 222-226.
7. P. R. Clark, J. S. Pober, M. S. Kluger, Nucleic Acids Res. 2008, 36, 1081-1097.
8. H. Hohjoh, FEBS Lett. 2004, 557, 193-198.
9. Y. Ohnishi, K. Tokunaga, H. Honjoh, Biochem. Biophys. Res. Commun. 2005, 329, 516-521.
10. M. Sano, M. Sierant, M. Miyagishi, M. Nakanishi, Y. Takagi, S. Sutou, Nucleic Acids Res. 2008, 36, 5812-5821.
11. X. Sun, H. A. Rogoff, C. J. Li, Nat. Biotechnol. 2008, 26, 1379-1382.
12. C. I. Chang, J. W. Yoo, S. W. Hong, S. E. Lee, H. S. Kang, X. Sun, H. A. Rogoff, C. Ban, S. Kim, C. J. Li, D.-k. Lee, Mol. Ther. 2009, 17, 725-732.
13. D. S. Schwarz, G. Hutvágner, T. Du, Z. Xu, N. Aronin, P. D. Zamore, Cell 2003, 115, 199-208.
14. A. Khvorova, A. Reynolds, S. D. Jayasena, Cell 2003, 115, 209-216.
15. Y.-L. Chiu, T. M. Rana, RNA 2003, 9, 1034-1048.
16. N. M. Bell, J. Micklefield, ChemBioChem 2009, 10, 2691-2703.
17. Y. Li, C. He, P. Jin, Chem. Biol. 2010, 17, 584-589.
18. T. Kubo, Z. Zhelev, H. Ohba, R. Bakalova, Biochem. Biophys. Res. Commun. 2008, 365, 54-61.
19. A. L. Jackson, J. Burchard, D. Leake, A. Reynolds, J, Schelter, J. Guo, J. M. Johnson, L. Lim, J. Karpilow, K. Nichols, W. Marshall, A Khvorova, RNA 2006, 12, 1197-1205.
20. J. Elmén, H. Thonberg, K. Ljungberg, M. Frieden, M. Westergaard, Y. Xu, B. Wahren, Z. Liang, H. Ørum, T. Koch, C. Wahlestedt, Nucleic Acids Res. 2005, 33, 439-447.
21. H. Asanuma, X. Liang, H. Nishioka, D. Matsunaga, M. Liu, M. Komiyama, Nat. Protoc. 2007, 2, 203-212;
22. H. Kashida, X. G. Liang, H. Asanuma, Curr. Org. Chem. 2009, 13, 1065-1084.
23. X. Liang, R. Wakuda, K. Fujioka, H. Asanuma, FEBS J. 2010, 277, 1551-1561.
24. H. Ito, X. Liang, H. Nishioka, H. Asanuma, Org. Biomol. Chem. 2010, 8, 5519-5524.
25. Y. Sato, K. Miyake, H. Kaneoka, S. Iijima, J. Biol. Chem. 2006, 281, 21629-21639.
26. Effect of intercalator on overhanging siRNA depended on the sequence (Figure S7).
27. Y. Hara, T. Fujii, H. Kashida, K. Sekiguchi, X. G. Liang, K. Niwa, T. Takase, Y. Yoshida, H. Asanuma, Angew. Chem. 2010, 122, 5634-5638, Angew. Chem. Int. Ed. 2010, 49, 5502-5506.
28. The melting temperatures of Bl-N, Bl-S07, Bl-S07M, and Bl-S07T were determined as 74.2, 73.2, 73.0, and 69.9°C, respectively. Actual melting curves as well as conditions were depicted in Figure S8.
29. We also investigated the effect of cis-azobenzene isomerized by UV irradiation on siRNA activity. However, we could not detect distinct difference between trans and cis forms (Figure S9).