Skip to main content

Progress in RNAi-Based Antiviral Therapeutics

  • Protocol
  • First Online:
Antiviral RNAi

Part of the book series: Methods in Molecular Biology ((MIMB,volume 721))

Abstract

RNA interference (RNAi) refers to the conserved sequence-specific degradation of message RNA mediated by small interfering (si)RNA duplexes 21–25 nucleotides in length. Given the ability to specifically silence any gene of interest, siRNAs offers several advantages over conventional drugs as potential therapeutic agents for the treatment of human maladies including cancers, genetic disorders, and infectious diseases. Antiviral RNAi strategies have received much attention and several compounds are currently being tested in clinical trials. In particular, the development of siRNA-based HIV (human immunodeficiency virus) therapeutics has progressed rapidly and many recent studies have shown that the use of RNAi could inhibit HIV-1 replication by targeting a number of viral or cellular genes. Therefore, the present chapter mainly focuses on the recent progress of RNAi-based anti-HIV gene therapeutics, with particular attention to molecular targets and delivery strategies of the siRNAs.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Protocol
USD 49.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 89.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 119.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD 169.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

References

  1. Fire, A., Xu, S., 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, 806–11.

    Article  PubMed  CAS  Google Scholar 

  2. Zamore, P. D. (2006) RNA interference: big applause for silencing in Stockholm. Cell 127, 1083–6.

    Article  PubMed  CAS  Google Scholar 

  3. Castanotto, D., and Rossi, J. J. (2009) The promises and pitfalls of RNA-interference-based therapeutics. Nature 457, 426–33.

    Article  PubMed  CAS  Google Scholar 

  4. Kim, D. H., and Rossi, J. J. (2007) Strategies for silencing human disease using RNA interference. Nat Rev Genet 8, 173–84.

    Article  PubMed  CAS  Google Scholar 

  5. de Fougerolles, A., Vornlocher, H. P., Maraganore, J., and Lieberman, J. (2007) Interfering with disease: a progress report on siRNA-based therapeutics. Nat Rev Drug Discov 6, 443–53.

    Article  PubMed  Google Scholar 

  6. Kurreck, J. (2009) RNA interference: from basic research to therapeutic applications. Angew Chem Int Ed Engl 48, 1378–98.

    Article  PubMed  CAS  Google Scholar 

  7. Zamore, P. D., Tuschl, T., Sharp, P. A., and Bartel, D. P. (2000) RNAi: double-stranded RNA directs the ATP-dependent cleavage of mRNA at 21 to 23 nucleotide intervals. Cell 101, 25–33.

    Article  PubMed  CAS  Google Scholar 

  8. Song, E., Lee, S. K., Wang, J., Ince, N., Ouyang, N., Min, J., Chen, J., Shankar, P., and Lieberman, J. (2003) RNA interference targeting Fas protects mice from fulminant hepatitis. Nat Med 9, 347–51.

    Article  PubMed  CAS  Google Scholar 

  9. Whitehead, K. A., Langer, R., and Anderson, D. G. (2009) Knocking down barriers: advances in siRNA delivery. Nat Rev Drug Discov 8, 129–38.

    Article  PubMed  CAS  Google Scholar 

  10. Haasnoot, J., Westerhout, E. M., and Berkhout, B. (2007) RNA interference against viruses: strike and counterstrike. Nat Biotechnol 25, 1435–43.

    Article  PubMed  CAS  Google Scholar 

  11. Rossi, J. J., June, C. H., and Kohn, D. B. (2007) Genetic therapies against HIV. Nat Biotechnol 25, 1444–54.

    Article  PubMed  CAS  Google Scholar 

  12. Richman, D. D., Margolis, D. M., Delaney, M., Greene, W. C., Hazuda, D., and Pomerantz, R. J. (2009) The challenge of finding a cure for HIV infection. Science 323, 1304–7.

    Article  PubMed  CAS  Google Scholar 

  13. Scherer, L., Rossi, J. J., and Weinberg, M. S. (2007) Progress and prospects: RNA-based therapies for treatment of HIV infection. Gene Ther 14, 1057–64.

    Article  PubMed  CAS  Google Scholar 

  14. Singh, S. K., and Gaur, R. K. (2009) Progress towards therapeutic application of RNA interference for HIV infection. BioDrugs 23, 269–76.

    Article  PubMed  CAS  Google Scholar 

  15. Li, M. J., Kim, J., Li, S., Zaia, J., Yee, J. K., Anderson, J., Akkina, R., and Rossi, J. J. (2005) Long-term inhibition of HIV-1 infection in primary hematopoietic cells by lentiviral vector delivery of a triple combination of anti-HIV shRNA, anti-CCR5 ribozyme, and a nucleolar-localizing TAR decoy. Mol Ther 12, 900–9.

    Article  PubMed  CAS  Google Scholar 

  16. DiGiusto, D. L., Krishnan, A., Li, L., Li, H., Li, S., Rao, A., Mi, S., Yam, P., Stinson, S., Kalos, M., Alvarnas, J., Lacey, S. F., Yee, J. K., Li, M., Couture, L., Hsu, D., Forman, S. J., Rossi, J. J., and Zaia, J. A. (2010) RNA-based gene therapy for HIV with lentiviral vector-modified CD34(+) cells in patients undergoing transplantation for AIDS-related lymphoma. Sci Transl Med 2, 36ra43.

    Article  Google Scholar 

  17. Berkhout, B., and ter Brake, O. (2009) Towards a durable RNAi gene therapy for HIV-AIDS. Expert Opin Biol Ther 9, 161–70.

    Article  PubMed  CAS  Google Scholar 

  18. Kumar, P., Ban, H. S., Kim, S. S., Wu, H., Pearson, T., Greiner, D. L., Laouar, A., Yao, J., Haridas, V., Habiro, K., Yang, Y. G., Jeong, J. H., Lee, K. Y., Kim, Y. H., Kim, S. W., Peipp, M., Fey, G. H., Manjunath, N., Shultz, L. D., Lee, S. K., and Shankar, P. (2008) T cell-specific siRNA delivery suppresses HIV-1 infection in humanized mice. Cell 134, 577–86.

    Article  PubMed  CAS  Google Scholar 

  19. Tsygankov, A. Y. (2009) Current developments in anti-HIV/AIDS gene therapy. Curr Opin Investig Drugs 10, 137–49.

    PubMed  CAS  Google Scholar 

  20. Podlekareva, D., Mocroft, A., Dragsted, U. B., Ledergerber, B., Beniowski, M., Lazzarin, A., Weber, J., Clumeck, N., Vetter, N., Phillips, A., and Lundgren, J. D. (2006) Factors associated with the development of opportunistic infections in HIV-1-infected adults with high CD4+ cell counts: a EuroSIDA study. J Infect Dis 194, 633–41.

    Article  PubMed  Google Scholar 

  21. Boden, D., Pusch, O., Lee, F., Tucker, L., and Ramratnam, B. (2003) Human immunodeficiency virus type 1 escape from RNA interference. J Virol 77, 11531–5.

    Article  PubMed  CAS  Google Scholar 

  22. 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, 2601–5.

    Article  PubMed  CAS  Google Scholar 

  23. ter Brake, O., t Hooft, K., Liu, Y. P., Centlivre, M., von Eije, K. J., and Berkhout, B. (2008) Lentiviral vector design for multiple shRNA expression and durable HIV-1 inhibition. Mol Ther 16, 557–64.

    Article  PubMed  Google Scholar 

  24. Brass, A. L., Dykxhoorn, D. M., Benita, Y., Yan, N., Engelman, A., Xavier, R. J., Lieberman, J., and Elledge, S. J. (2008) Identification of host proteins required for HIV infection through a functional genomic screen. Science 319, 921–6.

    Article  PubMed  CAS  Google Scholar 

  25. Konig, R., Zhou, Y., Elleder, D., Diamond, T. L., Bonamy, G. M., Irelan, J. T., Chiang, C. Y., Tu, B. P., De Jesus, P. D., Lilley, C. E., Seidel, S., Opaluch, A. M., Caldwell, J. S., Weitzman, M. D., Kuhen, K. L., Bandyopadhyay, S., Ideker, T., Orth, A. P., Miraglia, L. J., Bushman, F. D., Young, J. A., and Chanda, S. K. (2008) Global analysis of host-pathogen interactions that regulate early-stage HIV-1 replication. Cell 135, 49–60.

    Article  PubMed  CAS  Google Scholar 

  26. Zhou, H., Xu, M., Huang, Q., Gates, A. T., Zhang, X. D., Castle, J. C., Stec, E., Ferrer, M., Strulovici, B., Hazuda, D. J., and Espeseth, A. S. (2008) Genome-scale RNAi screen for host factors required for HIV replication. Cell Host Microbe 4, 495–504.

    Article  PubMed  CAS  Google Scholar 

  27. Goff, S. P. (2008) Knockdown screens to knockout HIV-1. Cell 135, 417–20.

    Article  PubMed  CAS  Google Scholar 

  28. Liu, Z., Winters, M., Holodniy, M., and Dai, H. (2007) siRNA delivery into human T cells and primary cells with carbon-nanotube transporters. Angew Chem Int Ed Engl 46, 2023–7.

    Article  PubMed  CAS  Google Scholar 

  29. Weber, N., Ortega, P., Clemente, M. I., Shcharbin, D., Bryszewska, M., de la Mata, F. J., Gomez, R., and Munoz-Fernandez, M. A. (2008) Characterization of carbosilane dendrimers as effective carriers of siRNA to HIV-infected lymphocytes. J Control Release 132, 55–64.

    Article  PubMed  CAS  Google Scholar 

  30. Eguchi, A., Meade, B. R., Chang, Y. C., Fredrickson, C. T., Willert, K., Puri, N., and Dowdy, S. F. (2009) Efficient siRNA delivery into primary cells by a peptide transduction domain-dsRNA binding domain fusion protein. Nat Biotechnol 27, 567–71.

    Article  PubMed  CAS  Google Scholar 

  31. Song, E., Zhu, P., Lee, S. K., Chowdhury, D., Kussman, S., Dykxhoorn, D. M., Feng, Y., Palliser, D., Weiner, D. B., Shankar, P., Marasco, W. A., and Lieberman, J. (2005) Antibody mediated in vivo delivery of small interfering RNAs via cell-surface receptors. Nat Biotechnol 23, 709–17.

    Article  PubMed  CAS  Google Scholar 

  32. Zhou, J., and Rossi, J. J. (2009) The therapeutic potential of cell-internalizing aptamers. Curr Top Med Chem 9, 1144–57.

    Article  PubMed  CAS  Google Scholar 

  33. Zhou, J., Li, H., Li, S., Zaia, J., and Rossi, J. J. (2008) Novel dual inhibitory function aptamer-siRNA delivery system for HIV-1 therapy. Mol Ther 16, 1481–9.

    Article  PubMed  CAS  Google Scholar 

  34. Zhou, J., Swiderski, P., Li, H., Zhang, J., Neff, C. P., Akkina, R., and Rossi, J. J. (2009) Selection, characterization and application of new RNA HIV gp 120 aptamers for facile delivery of Dicer substrate siRNAs into HIV infected cells. Nucleic Acids Res. 37:3094–109

    Article  PubMed  CAS  Google Scholar 

  35. Pham, H. M., Arganaraz, E. R., Groschel, B., Trono, D., and Lama, J. (2004) Lentiviral vectors interfering with virus-induced CD4 down-modulation potently block human immunodeficiency virus type 1 replication in primary lymphocytes. J Virol 78, 13072–81.

    Article  PubMed  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to John J. Rossi .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2011 Humana Press

About this protocol

Cite this protocol

Zhou, J., Rossi, J.J. (2011). Progress in RNAi-Based Antiviral Therapeutics. In: van Rij, R. (eds) Antiviral RNAi. Methods in Molecular Biology, vol 721. Humana Press. https://doi.org/10.1007/978-1-61779-037-9_4

Download citation

  • DOI: https://doi.org/10.1007/978-1-61779-037-9_4

  • Published:

  • Publisher Name: Humana Press

  • Print ISBN: 978-1-61779-036-2

  • Online ISBN: 978-1-61779-037-9

  • eBook Packages: Springer Protocols

Publish with us

Policies and ethics