close
Skip to main content

Thank you for visiting nature.com. You are using a browser version with limited support for CSS. To obtain the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles and JavaScript.

  • Review Article
  • Published:

Innate immune recognition of viral infection

Abstract

Induction of the antiviral innate immune response depends on recognition of viral components by host pattern-recognition receptors. Members of the Toll-like receptor family have emerged as key sensors that recognize viral components such as nucleic acids. Toll-like receptor signaling results in the production of type I interferon and inflammatory cytokines and leads to dendritic cell maturation and establishment of antiviral immunity. Cells also express cytoplasmic RNA helicases that function as alternative pattern-recognition receptors through recognition of double-stranded RNA produced during virus replication. These two classes of pattern-recognition receptor molecules are expressed in different intracellular compartments and induce type I interferon responses via distinct signaling pathways.

This is a preview of subscription content, access via your institution

Access options

Buy this article

USD 39.95

Prices may be subject to local taxes which are calculated during checkout

Figure 1: Recognition of viral nucleic acids by TLR7, TLR8 and TLR9 in pDCs.
ImageThe alternative text for this image may have been generated using AI.
Figure 2: TLR3-dependent signaling pathway.
ImageThe alternative text for this image may have been generated using AI.
Figure 3: Signaling pathway triggered by RIG-I, Mda5 and DNA.
ImageThe alternative text for this image may have been generated using AI.

Similar content being viewed by others

References

  1. Iwasaki, A. & Medzhitov, R. Toll-like receptor control of the adaptive immune responses. Nat. Immunol. 5, 987–995 (2004).

    CAS  PubMed  Google Scholar 

  2. Theofilopoulos, A.N., Baccala, R., Beutler, B. & Kono, D.H. Type I interferons (α/β) in immunity and autoimmunity. Annu. Rev. Immunol. 23, 307–336 (2005).

    CAS  PubMed  Google Scholar 

  3. Takeda, K. & Akira, S. Toll-like receptors in innate immunity. Int. Immunol. 17, 1–14 (2005).

    CAS  PubMed  Google Scholar 

  4. Medzhitov, R. & Janeway, C.A., Jr. Innate immunity: the virtues of a nonclonal system of recognition. Cell 91, 295–298 (1997).

    CAS  PubMed  Google Scholar 

  5. Janeway, C.A., Jr & Medzhitov, R. Innate immune recognition. Annu. Rev. Immunol. 20, 197–216 (2002).

    CAS  PubMed  Google Scholar 

  6. Akira, S., Takeda, K. & Kaisho, T. Toll-like receptors: critical proteins linking innate and acquired immunity. Nat. Immunol. 2, 675–680 (2001).

    CAS  PubMed  Google Scholar 

  7. Takeda, K., Kaisho, T. & Akira, S. Toll-like receptors. Annu. Rev. Immunol. 21, 335–376 (2003).

    CAS  PubMed  Google Scholar 

  8. Le Bon, A. & Tough, D.F. Links between innate and adaptive immunity via type I interferon. Curr. Opin. Immunol. 14, 432–436 (2002).

    CAS  PubMed  Google Scholar 

  9. Takaoka, A. & Taniguchi, T. New aspects of IFN-α/β signalling in immunity, oncogenesis and bone metabolism. Cancer Sci. 94, 405–411 (2003).

    CAS  PubMed  Google Scholar 

  10. Bonizzi, G. & Karin, M. The two NF-κB activation pathways and their role in innate and adaptive immunity. Trends Immunol. 25, 280–288 (2004).

    CAS  PubMed  Google Scholar 

  11. Hemmi, H. et al. Small anti-viral compounds activate immune cells via the TLR7 MyD88-dependent signaling pathway. Nat. Immunol. 3, 196–200 (2002).

    Article  CAS  PubMed  Google Scholar 

  12. Diebold, S.S. et al. Innate antiviral responses by means of TLR7-mediated recognition of single-stranded RNA. Science 303, 1529–1531 (2004).

    CAS  PubMed  Google Scholar 

  13. Heil, F. et al. Species-specific recognition of single-stranded RNA via Toll-like receptor 7 and 8. Science 303, 1526–1529 (2004).

    CAS  PubMed  Google Scholar 

  14. Lund, J.M. et al. Recognition of single-stranded RNA viruses by Toll-like receptor 7. Proc. Natl. Acad. Sci. USA 101, 5598–5603 (2004).

    CAS  PubMed  PubMed Central  Google Scholar 

  15. Krug, A. et al. TLR9-dependent recognition of MCMV by IPC and DC generates coordinated cytokine responses that activate antiviral NK cell function. Immunity 21, 107–119 (2004).

    CAS  PubMed  Google Scholar 

  16. Lund, J., Sato, A., Akira, S., Medzhitov, R. & Iwasaki, A. Toll-like receptor 9-mediated recognition of herpes simplex virus-2 by plasmacytoid dendritic cells. J. Exp. Med. 198, 513–520 (2003).

    CAS  PubMed  PubMed Central  Google Scholar 

  17. Yoneyama, M. et al. The RNA helicase RIG-I has an essential function in double-stranded RNA-induced innate antiviral responses. Nat. Immunol. 5, 730–737 (2004).

    CAS  PubMed  Google Scholar 

  18. Kato, H. et al. Cell type specific involvment of RIG-I in antiviral response. Immunity 23, 19–28 (2005).

    CAS  PubMed  Google Scholar 

  19. Liu, Y.J. IPC: Professional type I interferon-producing cells and plasmacytoid dendritic cell precursors. Annu. Rev. Immunol. 23, 275–306 (2005).

    CAS  PubMed  Google Scholar 

  20. Colonna, M., Trinchieri, G. & Liu, Y.J. Plasmacytoid dendritic cells in immunity. Nat. Immunol. 5, 1219–1226 (2004).

    CAS  PubMed  Google Scholar 

  21. Hornung, V. et al. Sequence-specific potent induction of IFN-α by short interfering RNA in plasmacytoid dendritic cells through TLR7. Nat. Med. 11, 263–270 (2005).

    CAS  PubMed  Google Scholar 

  22. Jurk, M. et al. Human TLR7 or TLR8 independently confer responsiveness to the antiviral compound R-848. Nat. Immunol. 3, 499 (2002).

    CAS  PubMed  Google Scholar 

  23. Hemmi, H. et al. A Toll-like receptor recognizes bacterial DNA. Nature 408, 740–745 (2000).

    CAS  PubMed  Google Scholar 

  24. Hemmi, H., Kaisho, T., Takeda, K. & Akira, S. The roles of Toll-like receptor 9, MyD88, and DNA-dependent protein kinase catalytic subunit in the effects of two distinct CpG DNAs on dendritic cell subsets. J. Immunol. 170, 3059–3064 (2003).

    CAS  PubMed  Google Scholar 

  25. Krug, A. et al. Herpes simplex virus type 1 activates murine natural interferon-producing cells through Toll-like receptor 9. Blood 103, 1433–1437 (2004).

    CAS  PubMed  Google Scholar 

  26. Latz, E. et al. TLR9 signals after translocating from the ER to CpG DNA in the lysosome. Nat. Immunol. 5, 190–198 (2004).

    CAS  PubMed  Google Scholar 

  27. Akira, S. & Takeda, K. Toll-like receptor signalling. Nat. Rev. Immunol. 4, 499–511 (2004).

    CAS  PubMed  Google Scholar 

  28. Deng, L. et al. Activation of the IκB kinase complex by TRAF6 requires a dimeric ubiquitin-conjugating enzyme complex and a unique polyubiquitin chain. Cell 103, 351–361 (2000).

    CAS  PubMed  Google Scholar 

  29. Wang, C. et al. TAK1 is a ubiquitin-dependent kinase of MKK and IKK. Nature 412, 346–351 (2001).

    CAS  PubMed  Google Scholar 

  30. Ishitani, T. et al. Role of the TAB2-related protein TAB3 in IL-1 and TNF signaling. EMBO J. 22, 6277–6288 (2003).

    CAS  PubMed  PubMed Central  Google Scholar 

  31. Jin, G. et al. Identification of a human NF-κB-activating protein, TAB3. Proc. Natl. Acad. Sci. USA 101, 2028–2033 (2004).

    CAS  PubMed  PubMed Central  Google Scholar 

  32. Sato, S. et al. Essential role of TAK1 in innate and adaptive immune responses. Nat. Immunol. 6, 1087–1095 (2005).

    Article  CAS  PubMed  Google Scholar 

  33. Kawai, T., Adachi, O., Ogawa, T., Takeda, K. & Akira, S. Unresponsiveness of MyD88-deficient mice to endotoxin. Immunity 11, 115–122 (1999).

    CAS  PubMed  Google Scholar 

  34. Kawai, T. et al. Lipopolysaccharide stimulates the MyD88-independent pathway and results in activation of IFN-regulatory factor 3 and the expression of a subset of lipopolysaccharide-inducible genes. J. Immunol. 167, 5887–5894 (2001).

    CAS  PubMed  Google Scholar 

  35. Kaisho, T., Takeuchi, O., Kawai, T., Hoshino, K. & Akira, S. Endotoxin-induced maturation of MyD88-deficient dendritic cells. J. Immunol. 166, 5688–5694 (2001).

    CAS  PubMed  Google Scholar 

  36. Hoshino, K., Kaisho, T., Iwabe, T., Takeuchi, O. & Akira, S. Differential involvement of IFN-β in Toll-like receptor-stimulated dendritic cell activation. Int. Immunol. 14, 1225–1231 (2002).

    CAS  PubMed  Google Scholar 

  37. Kawai, T. et al. Interferon-α induction through Toll-like receptors involves a direct interaction of IRF7 with MyD88 and TRAF6. Nat. Immunol. 5, 1061–1068 (2004).

    CAS  PubMed  Google Scholar 

  38. Honda, K. et al. Role of a transductional-transcriptional processor complex involving MyD88 and IRF-7 in Toll-like receptor signaling. Proc. Natl. Acad. Sci. USA 101, 15416–15421 (2004).

    CAS  PubMed  PubMed Central  Google Scholar 

  39. Honda, K. et al. IRF-7 is the master regulator of type-I interferon-dependent immune responses. Nature 434, 772–777 (2005).

    CAS  PubMed  Google Scholar 

  40. Coccia, E.M. et al. Viral infection and Toll-like receptor agonists induce a differential expression of type I and λ-interferons in human plasmacytoid and monocyte-derived dendritic cells. Eur. J. Immunol. 34, 796–805 (2004).

    CAS  PubMed  Google Scholar 

  41. Dai, J., Megjugorac, N.J., Amrute, S.B. & Fitzgerald-Bocarsly, P. Regulation of IFN regulatory factor-7 and IFN-α production by enveloped virus and lipopolysaccharide in human plasmacytoid dendritic cells. J. Immunol. 173, 1535–1548 (2004).

    CAS  PubMed  Google Scholar 

  42. Uematsu, S. et al. Interleukin-1 receptor-associated kinase-1 (IRAK-1) plays an essential role for TLR7- and TLR9-mediated interferon-α induction. J. Exp. Med. 201, 915–923 (2005).

    CAS  PubMed  PubMed Central  Google Scholar 

  43. Honda, K. et al. Spatiotemporal regulation of MyD88-IRF-7 signalling for robust type-I interferon induction. Nature 434, 1035–1040 (2005).

    CAS  PubMed  Google Scholar 

  44. Takaoka, A. et al. Integral role of IRF-5 in the gene induction programme activated by Toll-like receptors. Nature 434, 243–249 (2005).

    CAS  PubMed  Google Scholar 

  45. Schoenemeyer, A. et al. The interferon regulatory factor, IRF5, is a central mediator of TLR7 signaling. J. Biol. Chem. 280, 17005–17012 (2005).

    CAS  PubMed  Google Scholar 

  46. Alexopoulou, L., Holt, A.C., Medzhitov, R. & Flavell, R.A. Recognition of double-stranded RNA and activation of NF-κB by Toll-like receptor 3. Nature 413, 732–738 (2001).

    CAS  PubMed  Google Scholar 

  47. Tabeta, K. et al. Toll-like receptors 9 and 3 as essential components of innate immune defense against mouse cytomegalovirus infection. Proc. Natl. Acad. Sci. USA 101, 3516–3521 (2004).

    CAS  PubMed  PubMed Central  Google Scholar 

  48. Wang, T. et al. Toll-like receptor 3 mediates West Nile virus entry into the brain causing lethal encephalitis. Nat. Med. 10, 1366–1373 (2004).

    CAS  PubMed  Google Scholar 

  49. Schulz, O. et al. Toll-like receptor 3 promotes cross-priming to virus-infected cells. Nature 433, 887–892 (2005).

    CAS  PubMed  Google Scholar 

  50. Matsumoto, M. et al. Subcellular localization of Toll-like receptor 3 in human dendritic cells. J. Immunol. 171, 3154–3162 (2003).

    CAS  PubMed  Google Scholar 

  51. Yamamoto, M. et al. A novel Toll/IL-1 receptor domain-containing adapter that preferentially activates the IFN-β promoter in the Toll-like receptor signaling. J. Immunol. 169, 6668–6672 (2002).

    CAS  PubMed  Google Scholar 

  52. Oshiumi, H., Matsumoto, M., Funami, K., Akazawa, T. & Seya, T. TICAM-1, an adaptor molecule that participates in Toll-like receptor 3-mediated interferon-β induction. Nat. Immunol. 4, 161–167 (2003).

    CAS  PubMed  Google Scholar 

  53. Yamamoto, M. et al. Role of adaptor TRIF in the MyD88-independent Toll-like receptor signaling pathway. Science 301, 640–643 (2003).

    CAS  PubMed  Google Scholar 

  54. Hoebe, K. et al. Identification of Lps2 as a key transducer of MyD88-independent TIR signalling. Nature 424, 743–748 (2003).

    CAS  PubMed  Google Scholar 

  55. Sharma, S. et al. Triggering the interferon antiviral response through an IKK-related pathway. Science 300, 1148–1151 (2003).

    CAS  PubMed  Google Scholar 

  56. Fitzgerald, K.A. et al. IKKε and TBK1 are essential components of the IRF3 signaling pathway. Nat. Immunol. 4, 491–496 (2003).

    CAS  PubMed  Google Scholar 

  57. McWhirter, S.M. et al. IFN-regulatory factor 3-dependent gene expression is defective in Tbk1-deficient mouse embryonic fibroblasts. Proc. Natl. Acad. Sci. USA 101, 233–238 (2004).

    CAS  PubMed  Google Scholar 

  58. Hemmi, H. et al. The roles of two IκB kinase-related kinases in lipopolysaccharide and double-stranded RNA signaling and viral infection. J. Exp. Med. 199, 1641–1650 (2004).

    CAS  PubMed  PubMed Central  Google Scholar 

  59. Perry, A.K., Chow, E.K., Goodnough, J.B., Yeh, W.C. & Cheng, G. Differential requirement for TANK-binding kinase-1 in type I interferon responses to Toll-like receptor activation and viral infection. J. Exp. Med. 199, 1651–1658 (2004).

    CAS  PubMed  PubMed Central  Google Scholar 

  60. Sato, S. et al. Toll/IL-1 receptor domain-containing adaptor inducing IFN-β (TRIF) associates with TNF receptor-associated factor 6 and TANK-binding kinase 1, and activates two distinct transcription factors, NF-κB and IFN-regulatory factor-3, in the Toll-like receptor signaling. J. Immunol. 171, 4304–4310 (2003).

    CAS  PubMed  Google Scholar 

  61. Meylan, E. et al. RIP1 is an essential mediator of Toll-like receptor 3-induced NF-κB activation. Nat. Immunol. 5, 503–507 (2004).

    CAS  PubMed  Google Scholar 

  62. Gohda, J., Matsumura, T. & Inoue, J. TNFR-associated factor (TRAF) 6 is essential for MyD88-dependent pathway but not Toll/IL-1 receptor domain-containing adaptor-inducing IFN-β (TRIF)-dependent pathway in TLR signaling. J. Immunol. 173, 2913–2917 (2004).

    CAS  PubMed  Google Scholar 

  63. Edelmann, K.H. et al. Does Toll-like receptor 3 play a biological role in virus infections? Virology 322, 231–238 (2004).

    CAS  PubMed  Google Scholar 

  64. Lopez, C.B. et al. TLR-independent induction of dendritic cell maturation and adaptive immunity by negative-strand RNA viruses. J. Immunol. 173, 6882–6889 (2004).

    CAS  PubMed  Google Scholar 

  65. Hornung, V. et al. Replication-dependent potent IFN-α induction in human plasmacytoid dendritic cells by a single-stranded RNA virus. J. Immunol. 173, 5935–5943 (2004).

    CAS  PubMed  Google Scholar 

  66. Kang, D.C. et al. mda-5: An interferon-inducible putative RNA helicase with double-stranded RNA-dependent ATPase activity and melanoma growth-suppressive properties. Proc. Natl. Acad. Sci. USA 99, 637–642 (2002).

    CAS  PubMed  PubMed Central  Google Scholar 

  67. Kovacsovics, M. et al. Overexpression of Helicard, a CARD-containing helicase cleaved during apoptosis, accelerates DNA degradation. Curr. Biol. 12, 838–843 (2002).

    CAS  PubMed  Google Scholar 

  68. Andrejeva, J. et al. The V proteins of paramyxoviruses bind the IFN-inducible RNA helicase, Mda-5, and inhibit its activation of the IFN-β promoter. Proc. Natl Acad. Sci. USA 101, 17264–17269 (2004).

    CAS  PubMed  PubMed Central  Google Scholar 

  69. Yoneyama, M. et al. Shared and unique functions of the DExD/H-box helicases RIG-I, MDA5, and LGP2 in antiviral innate immunity. J. Immunol. 175, 2851–2858 (2005).

    CAS  PubMed  Google Scholar 

  70. Rothenfusser, S. et al. The RNA helicase Lgp2 inhibits TLR-independent sensing of viral replication by retinoic acid-inducible gene-I. J. Immunol. 175, 5260–5268 (2005).

    CAS  PubMed  Google Scholar 

  71. Balachandran, S., Thomas, E. & Barber, G.N. A FADD-dependent innate immune mechanism in mammalian cells. Nature 432, 401–405 (2004).

    CAS  PubMed  Google Scholar 

  72. Hoffmann, J.A. The immune response of Drosophila. Nature 426, 33–38 (2003).

    CAS  PubMed  Google Scholar 

  73. Kawai, T. et al. IPS-1; an adaptor triggering RIG-I- and Mda5-mediated type I interferon induction. Nat. Immunol. 6, 981–988 (2005).

    CAS  PubMed  Google Scholar 

  74. Seth, R.B., Sun, L., Ea, C.K. & Chen, Z.J. Identification and characterization of MAVS, a mitochondrial antiviral signaling protein that activates NF-κB and IRF3. Cell 122, 669–682 (2005).

    CAS  PubMed  Google Scholar 

  75. Xu, L.G. et al. VISA is an adapter protein required for virus-triggered IFN-β signaling. Mol. Cell 19, 727–740 (2005).

    CAS  PubMed  Google Scholar 

  76. Meylan, E. et al. Cardif is an adaptor protein in the RIG-I antiviral pathway and is targeted by hepatitis C virus. Nature 437, 1167–1172 (2005).

    CAS  PubMed  Google Scholar 

  77. Sen, G.C. & Sarkar, S.N. Hitching RIG to action. Nat. Immunol. 6, 1074–1076 (2005).

    CAS  PubMed  Google Scholar 

  78. Stack, J. et al. Vaccinia virus protein A46R targets multiple Toll-like-interleukin-1 receptor adaptors and contributes to virulence. J. Exp. Med. 201, 1007–1018 (2005).

    CAS  PubMed  PubMed Central  Google Scholar 

  79. Foy, E. et al. Control of antiviral defenses through hepatitis C virus disruption of retinoic acid-inducible gene-I signaling. Proc. Natl. Acad. Sci. USA 102, 2986–2991 (2005).

    CAS  PubMed  PubMed Central  Google Scholar 

  80. Sumpter, R., Jr. et al. Regulating intracellular antiviral defense and permissiveness to hepatitis C virus RNA replication through a cellular RNA helicase, RIG-I. J. Virol. 79, 2689–2699 (2005).

    CAS  PubMed  PubMed Central  Google Scholar 

  81. Li, K. et al. Immune evasion by hepatitis C virus NS3/4A protease-mediated cleavage of the Toll-like receptor 3 adaptor protein TRIF. Proc. Natl. Acad. Sci. USA 102, 2992–2997 (2005).

    CAS  PubMed  PubMed Central  Google Scholar 

  82. Ferreon, J.C., Ferreon, A.C., Li, K. & Lemon, S.M. Molecular determinants of TRIF proteolysis mediated by the hepatitis C virus NS3/4A protease. J. Biol. Chem. 280, 20483–20492 (2005).

    CAS  PubMed  Google Scholar 

  83. Yu, Y., Wang, S.E. & Hayward, G.S. The KSHV immediate-early transcription factor RTA encodes ubiquitin E3 ligase activity that targets IRF7 for proteosome-mediated degradation. Immunity 22, 59–70 (2005).

    CAS  PubMed  Google Scholar 

  84. Boule, M.W. et al. Toll-like receptor 9-dependent and -independent dendritic cell activation by chromatin–immunoglobulin G complexes. J. Exp. Med. 199, 1631–1640 (2004).

    CAS  PubMed  PubMed Central  Google Scholar 

  85. Means, T.K. et al. Human lupus autoantibody-DNA complexes activate DCs through cooperation of CD32 and TLR9. J. Clin. Invest. 115, 407–417 (2005).

    CAS  PubMed  PubMed Central  Google Scholar 

  86. Yoshida, H., Okabe, Y., Kawane, K., Fukuyama, H. & Nagata, S. Lethal anemia caused by interferon-β produced in mouse embryos carrying undigested DNA. Nat. Immunol. 6, 49–56 (2005).

    CAS  PubMed  Google Scholar 

  87. Ishii, K.J. et al. A Toll-like receptor-independent antiviral response induced by double-stranded B-form DNA. Nat. Immunol. (in the press).

  88. Kim, T. et al. Activation of interferon regulatory factor 3 in response to DNA-damaging agents. J. Biol. Chem. 274, 30686–30689 (1999).

    CAS  PubMed  Google Scholar 

  89. Hur, G.M. et al. The death domain kinase RIP has an essential role in DNA damage-induced NF-κB activation. Genes Dev. 17, 873–882 (2003).

    CAS  PubMed  PubMed Central  Google Scholar 

Download references

Acknowledgements

We thank all members of our laboratory for discussions and insights.

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Shizuo Akira.

Ethics declarations

Competing interests

The authors declare no competing financial interests.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Kawai, T., Akira, S. Innate immune recognition of viral infection. Nat Immunol 7, 131–137 (2006). https://doi.org/10.1038/ni1303

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue date:

  • DOI: https://doi.org/10.1038/ni1303

This article is cited by

Search

Quick links

Nature Briefing

Sign up for the Nature Briefing newsletter — what matters in science, free to your inbox daily.

Get the most important science stories of the day, free in your inbox. Sign up for Nature Briefing