Developing an effective RNA interference strategy against a plus-strand RNA virus: Silencing of coxsackievirus B3 and its cognate coxsackievirus-adenovirus receptor

Biological Chemistry

Volumn 386, Issue 9, 2005, Pages 857-863

  Werk, Denise ^a   Schubert, Steffen ^a   Lindig, Vanessa ^b   Grunert, Hans Peter ^b   Zeichhardt, Heinz ^b   Erdmann, Volker A ^a   Kurreck, Jens ^a  

^a FREIE UNIVERSITÄT BERLIN   (Germany)

^b CHARITÉ UNIVERSITÄTSMEDIZIN BERLIN   (Germany)

Author keywords

Picornavirus; siRNA; Small interfering RNA

Indexed keywords

COXSACKIE VIRUS AND ADENOVIRUS RECEPTOR; GENOMIC RNA; GREEN FLUORESCENT PROTEIN; RNA DIRECTED RNA POLYMERASE; RNA POLYMERASE; SMALL INTERFERING RNA; VIRUS RNA;

ADENOVIRUS; ANIMAL CELL; ARTICLE; CONCENTRATION RESPONSE; CONTROLLED STUDY; COXSACKIE VIRUS B3; COXSACKIE VIRUS INFECTION; DRUG SYNTHESIS; GENE FUSION; GENE MUTATION; GENE SILENCING; GENETIC TRANSFECTION; HUMAN; HUMAN CELL; INFECTION PREVENTION; INFECTION RISK; NONHUMAN; PRIORITY JOURNAL; RISK ASSESSMENT; RISK REDUCTION; RNA INTERFERENCE; RNA SEQUENCE; VIRUS GENE; VIRUS INHIBITION; VIRUS MORPHOLOGY; VIRUS STRAIN;

ANIMALS; BLOTTING, WESTERN; CELLS, CULTURED; CERCOPITHECUS AETHIOPS; COS CELLS; COXSACKIEVIRUS INFECTIONS; ENTEROVIRUS B, HUMAN; FEMALE; GENETIC VECTORS; HELA CELLS; HUMANS; RECEPTORS, VIRUS; RNA INTERFERENCE; RNA, SMALL INTERFERING; RNA, VIRAL; TRANSFECTION; VIRUS REPLICATION;

ADENOVIRIDAE; COXSACKIEVIRUS; PICORNAVIRIDAE; RNA VIRUSES;

EID: 26844569459     PISSN: 14316730     EISSN: 14316730     Source Type: Journal    
DOI: 10.1515/BC.2005.100     Document Type: Article

References (46)

1. Amarzguioui, M. and Prydz, H. (2004). An algorithm for selection of functional siRNA sequences. Biochem. Biophys. Res. Commun. 316, 1050-1058.
2. Bergelson, J.M., Cunningham, J.A., Droguett, G., Kurt-Jones, E.A., Krithivas, A., Hong, J.S., Horowitz, M.S., Crowell, R.L., and Finberg, R.W. (1997). Isolation of a common receptor for coxsackie B viruses and adenoviruses 2 and 5. Science 275, 1320-1323.
3. Boden, D., Pusch, O., Lee, F., Tucker, L., and Ramratnam, B. (2003). Human immunodeficiency virus type 1 escapes from RNA interference. J. Virol. 77, 11531-11535.
4. Bohula, E.A., Salisbury, A.J., Sohail, M., Playford, M.P., Riedemann, J., Southern, E.M., and Macaulay, V.M. (2003). The efficacy of small interfering RNAs targeted to the type 1 insulin-like growth factor receptor (IGF1R) is influenced by secondary structure in the IGFR1 transcript. J. Biol. Chem. 278, 15991-15997.
5. Colbère-Garapin, J., Blondel, B., Saulnier, A., Pelletier, I., and Labadie, K. (2005). Silencing viruses by RNA interference. Microbes Infect. 7, 767-775.
6. Coyne, C.B. and Bergelson, J.M. (2005). CAR: a virus receptor within the tight junction. Adv. Drug Deliv. Rev. 57, 869-882.
7. Coyne, C.B., Voelker, T., Pichla, S.L., and Bergelson, J.M. (2004). The coxsackievirus and adenovirus receptor interacts with the multi-PDZ domain protein-1 (MUPP-1) within the tight junction. J. Biol. Chem. 279, 48079-48084.
8. Das, A.T., Brummelkamp, T.R., Westerhout, E.M., Vink, M., Madiredjo, M., Bernards, R., and Berkhout, B. (2004). Human immunodeficiency virus type 1 escapes from RNA interference-mediated inhibition. J. Virol. 78, 2601-2605.
9. Dulbecco, R. (1952). Production of plaques in monolayer tissue cultures by single particles animal virus. Proc. Natl. Acad. Sci. USA 38, 747-752.
10. Editorial (2003). Whither RNAi? Nat. Cell Biol. 5, 489-490.
11. Elbashir, S.M., Harborth, J., Lendeckel, W., Yalcin, A., Weber, K., and Tuschl, T. (2001). Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells. Nature 411, 494-498.
12. Fechner, H., Noutsias, M., Tschoepe, C., Hinze, K., Wang, X., Escher, F., Pauschinger, M., Dekkers, D., Vetter, R., Paul, M., et al. (2003). Induction of coxsackievirus-adenovirus-receptor expression during myocardial tissue formation and remodeling: identification of a cell-to-cell contact-dependent regulatory mechanism. Circulation 107, 876-882.
13. Fire, A., Xu, S.Q., Montgomery, M.K., Kostas, S.A., Driver, S.E., and Mello, C.C. (1998). Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature 391, 806-811.
14. Gitlin, L., Karelsky, S., and Andino, R. (2002). Short interfering RNA confers intracellular antiviral immunity in human cells. Nature 418, 430-434.
15. Grunweller, A., Wyszko, E., Bieber, B., Jahnel, R., Erdmann, V.A., and Kurreck, J. (2003). Comparison of different antisense strategies in mammalian cells using locked nucleic acids, 2′-O-methyl RNA, phosphorothioates and siRNA. Nucleic Acids Res. 31, 3185-3193.
16. Holen, T., Amarzguioui, M., Wiiger, M.T., Babaie, E., and Prydz, H. (2002). Positional effects of short interfering RNAs targeting the human coagulation trigger tissue factor. Nucleic Acids Res. 30, 1757-1766.
17. Jackson, A.L. and Linsley, P.S. (2004). Noise amidst the silence: off-target effects of siRNAs? Trends Genet. 20, 521-524.
18. Joost Haasnoot, P.C., Cupac, D., and Berkhout, B. (2003). Inhibition of virus replication by RNA interference. J. Biomed. Sci. 10, 607-616.
19. Kawasaki, H., Suyama, E., Iyo, M., and Taira, K. (2003). siRNAs generated by recombinant human Dicer induce specific and significant but target site-independent gene silencing in human cells. Nucleic Acids Res. 31, 981-987.
20. Khvorova, A., Reynolds, A., and Jayasena, S.D. (2003). Functional siRNA and miRNA exhibit strand bias. Cell 115, 209-216.
21. Kretschmer-Kazemi Far, R. and Sczakiel, G. (2003). The activity of siRNA in mammalian cells is related to structural target accessibility: a comparison with antisense oligonucleotides. Nucleic Acids Res. 31, 4417-4424.
22. Kühl, U., Pauschinger, M., Schwimmbeck, P.L., Seeberg, B., Lober, C., Noutsias, M., Poller, W., and Schultheiss, H.-P. (2003). Interferon-β treatment eliminates cardiotropic viruses and improves left ventricular function in patients with myocardial persistence of viral genomes and left ventricular dysfunction. Circulation 107, 2793-2798.
23. Luo, K.Q. and Chang, D.C. (2004). The gene-silencing efficiency of siRNA is strongly dependent on the local structure of mRNA at the targeted region. Biochem. Biophys. Res. Commun. 318, 303-310.
24. Martinand-Mari, C., Lebleu, B., and Robbins, I. (2003). Oligonucleotide-based strategies to inhibit human hepatitis C virus. Oligonucleotides 13, 539-548.
25. Meister, G. and Tuschl, T. (2004). Mechanisms of gene silencing by double-stranded RNA. Nature 431, 343-349.
26. Merl, S., Michaelis, C., Jaschke, B., Vorpahl, M., Seidl, S., and Wessely, R. (2005). Targeting 2A protease by RNA interference attenuates coxsackieviral cytopathogenicity and promotes survival in highly susceptible mice. Circulation 111, 1583-1592.
27. Overhoff, M., Alken, M., Far, R.K., Lemaitre, M., Lebleu, B., Sczakiel, G., and Robbins, I. (2005). Local RNA target structure influences siRNA efficacy: a systematic global analysis. J. Mol. Biol. 348, 871-881.
28. Philipson, L. and Petterson, R.F. (2004). The coxsackie-adenovirus receptor - a new receptor in the immunoglobulin family involved in cell adhesion. Curr. Top. Microbiol. Immunol. 273, 87-111.
29. Phipps, K.M., Martinez, A., Lu, J., Heinz, B.A., and Zhao, G. (2004). Small interfering RNA molecules as potential anti-human rhinovirus agents: in vitro potency, specificity and mechanism. Antiviral Res. 61, 49-55.
30. Poller, W., Fechner, H., Noutsias, M., Tschoepe, C., and Schultheiss, H.-P. (2002). Highly variable expression of virus receptors in the human cardiovascular system. Z. Kardiol. 91, 978-991.
31. Poller, W., Fechner, H., Kurreck, J., Pauschinger, M., Kühl, U., Erdmann, V.A., Lamers, J.M.J., and Schultheiss, H.-P. (2004). Nucleic acid-based modulation of cardiac gene expression for the treatment of cardiac diseases. Z. Kardiol. 93, 171-193.
32. Qin, X.-F., An, D.S., Chen, I.S.Y., and Baltimore, D. (2003). Inhibiting HIV-1 infection in human T cells by lentiviral-mediated delivery of small interfering RNA against CCR5. Proc. Natl. Acad. Sci. USA 100, 183-188.
33. Reynolds, A., Leake, D., Boese, Q., Scaringe, S., Marshall, W.S., and Khvorova, A. (2004). Rational siRNA design for RNA interference. Nat. Biotechnol. 22, 326-330.
34. Ryther, R.C.C., Flynt, A.S., Phillips, J.A., and Patton, J.G. (2005). siRNA therapeutics: big potential from small RNAs. Gene Ther. 12, 5-11.
35. Schubert, S. and Kurreck, J. (2005). Oligonucleotide-based antiviral strategies. In: RNA Towards Medicine, V.A. Erdmann, J. Brosius and J. Barciszewski, eds. (Berlin/Heidelberg, Germany: Springer-Verlag), in press.
36. Schubert, S., Grunert, H.-P., Zeichhardt, H., Werk, D., Erdmann, V.A., and Kurreck, J. (2005a). Maintaining inhibition: siRNA double expression vectors against coxsackieviral RNAs. J. Mol. Biol. 346, 457-465.
37. Schubert, S., Grünweller, A., Erdmann, V.A., and Kurreck, J. (2005b). Local RNA target structure influences siRNA efficacy: systematic analysis of intentionally designed binding regions. J. Mol. Biol. 348, 883-893.
38. Selinka, H.-C., Wolde, A., Sauter, M., Kandolf, R., and Klingel, K. (2004). Virus-receptor interactions of coxsackie B viruses and their putative influence on cardiotropism. Med. Miocrobiol. Immunol. 193, 127-131.
39. Shankar, P., Manjunath, N., and Lieberman, J. (2005). The prospect of silencing disease using RNA interference. J. Am. Med. Assoc. 293, 1367-1373.
40. Stein, C.A. (2001). The experimental use of antisense oligonucleotides: a guide for the perplexed. J. Clin. Invest. 108, 641-644.
41. Ui-Tei, K., Naito, Y., Takahashi, F., Haraguchi, T., Ohki-Hamazaki, H., Juni, A., Ueda, R., and Saigo, K. (2004). Guidelines for the selection of highly effective siRNA sequences for mammalian and chick RNA interference. Nucleic Acids Res. 32, 936-948.
42. Vickers, T.A., Koo, S., Bennett, C.F., Crooke, S.T., Dean, N.M., and Baker, B.F. (2003). Efficient reduction of target RNAs by small interfering RNA and RNase H-dependent antisense agents. J. Biol. Chem. 278, 7108-7118.
43. Wilson, J.A., Jayasena, S., Khvorova, A., Sabatinos, S., Rodrigue-Gervais, I.G., Arya, S., Sarangi, F., Harris-Brandts, M., Beaulieu, S., and Richardson, C.D. (2003). RNA interference blocks gene expression and RNA synthesis from hepatitis C replicons propagated in human liver cells. Proc. Natl. Acad. Sci. USA 100, 2783-2788.
44. Yokota, T., Sakamoto, N., Enomoto, N., Tanabe, Y., Miyagishi, M., Maekawa, S., Yi, L., Kurosaki, M., Taira, K., Watanabe, M., and Mizusawa, H. (2003). Inhibition of intracellular hepatitis C virus replication by synthetic and vector-derived small interfering RNAs. EMBO Rep. 4, 602-608.
45. Yuan, J., Cheung, P.K.M., Zhang, H.M., Chau, D., and Yang, D. (2005). Inhibition of Coxsackievirus B3 replication by small interfering RNAs requires perfect sequence match in the central region of viral positive strand. J. Virol. 79, 2151-2159.
46. Zeichhardt, H., and Grunert, H.-P. (2003). Enteroviruses: Polioviruses, Coxsackieviruses, Echoviruses and Enteroviruses 68-71. In: Infectious Diseases, 2nd Ed., J. Cohen, W.G. Powderly and S.M. Opal, eds. (London, UK: Elsevier Health Sciences).