The Impact of Defective Viruses on Infection and Immunity

Literature Cited

1. 1. 

   Pathak KB, Nagy PD. 2009. Defective interfering RNAs: foes of viruses and friends of virologists. Viruses 1:895–919
   [Google Scholar]
2. 2. 

   López CB. 2014. Defective viral genomes: critical danger signals of viral infections. J. Virol. 88:8720–23
   [Google Scholar]
3. 3. 

   Rezelj VV, Levi LI, Vignuzzi M 2018. The defective component of viral populations. Curr. Opin. Virol. 33:74–80
   [Google Scholar]
4. 4. 

   Huang AS, Baltimore D. 1970. Defective viral particles and viral disease processes. Nature 226:325–27
   [Google Scholar]
5. 5. 

   Manzoni TB, López CB. 2018. Defective (interfering) viral genomes re-explored: impact on antiviral immunity and virus persistence. Future Virol 13:493–503
   [Google Scholar]
6. 6. 

   Beauclair G, Mura M, Combredet C, Tangy F, Jouvenet N, Komarova AV 2018. DI-tector: defective interfering viral genomes’ detector for next-generation sequencing data. RNA 24:1285–96
   [Google Scholar]
7. 7. 

   Schwartz SL, Lowen AC. 2016. Droplet digital PCR: a novel method for detection of influenza virus defective interfering particles. J. Virol. Methods 237:159–65
   [Google Scholar]
8. 8. 

   Jaworski E, Routh A. 2017. Parallel ClickSeq and Nanopore sequencing elucidates the rapid evolution of defective-interfering RNAs in Flock House virus. PLOS Pathog 13:e1006365
   [Google Scholar]
9. 9. 

   Li D, Aaskov J. 2014. Sub-genomic RNA of defective interfering (D.I.) dengue viral particles is replicated in the same manner as full length genomes. Virology 468–470:248–55
   [Google Scholar]
10. 10. 

    Duhaut S, Dimmock NJ. 2000. Approximately 150 nucleotides from the 5′ end of an influenza A segment 1 defective virion RNA are needed for genome stability during passage of defective virus in infected cells. Virology 275:278–85
    [Google Scholar]
11. 11. 

    Poirier EZ, Mounce BC, Rozen-Gagnon K, Hooikaas PJ, Stapleford KA et al. 2015. Low-fidelity polymerases of alphaviruses recombine at higher rates to overproduce defective interfering particles. J. Virol. 90:2446–54
    [Google Scholar]
12. 12. 

    Liao WY, Ke TY, Wu HY 2014. The 3′-terminal 55 nucleotides of bovine coronavirus defective interfering RNA harbor cis-acting elements required for both negative- and positive-strand RNA synthesis. PLOS ONE 9:e98422
    [Google Scholar]
13. 13. 

    McLaren LC, Holland JJ. 1974. Defective interfering particles from poliovirus vaccine and vaccine reference strains. Virology 60:579–83
    [Google Scholar]
14. 14. 

    Xiao CT, Liu ZH, Yu XL, Ge M, Li RC et al. 2011. Identification of new defective interfering RNA species associated with porcine reproductive and respiratory syndrome virus infection. Virus Res 158:33–36
    [Google Scholar]
15. 15. 

    Kuge S, Saito I, Nomoto A 1986. Primary structure of poliovirus defective-interfering particle genomes and possible generation mechanisms of the particles. J. Mol. Biol. 192:473–87
    [Google Scholar]
16. 16. 

    Davis AR, Hiti AL, Nayak DP 1980. Influenza defective interfering viral RNA is formed by internal deletion of genomic RNA. PNAS 77:215–19
    [Google Scholar]
17. 17. 

    Patel AH, Elliott RM. 1992. Characterization of Bunyamwera virus defective interfering particles. J. Gen. Virol. 73:2389–96
    [Google Scholar]
18. 18. 

    Sheng Z, Liu R, Yu J, Ran Z, Newkirk SJ et al. 2018. Identification and characterization of viral defective RNA genomes in influenza B virus. J. Gen. Virol. 99:475–88
    [Google Scholar]
19. 19. 

    Saira K, Lin X, DePasse JV, Halpin R, Twaddle A et al. 2013. Sequence analysis of in vivo defective interfering-like RNA of influenza A H1N1 pandemic virus. J. Virol. 87:8064–74
    [Google Scholar]
20. 20. 

    Jennings PA, Finch JT, Winter G, Robertson JS 1983. Does the higher order structure of the influenza virus ribonucleoprotein guide sequence rearrangements in influenza viral RNA?. Cell 34:619–27
    [Google Scholar]
21. 21. 

    Boni MF, Zhou Y, Taubenberger JK, Holmes EC 2008. Homologous recombination is very rare or absent in human influenza A virus. J. Virol. 82:4807–11
    [Google Scholar]
22. 22. 

    Vasilijevic J, Zamarreno N, Oliveros JC, Rodriguez-Frandsen A, Gomez G et al. 2017. Reduced accumulation of defective viral genomes contributes to severe outcome in influenza virus infected patients. PLOS Pathog 13:e1006650
    [Google Scholar]
23. 23. 

    Fodor E, Mingay LJ, Crow M, Deng T, Brownlee GG 2003. A single amino acid mutation in the PA subunit of the influenza virus RNA polymerase promotes the generation of defective interfering RNAs. J. Virol. 77:5017–20
    [Google Scholar]
24. 24. 

    Kolakofsky D. 1976. Isolation and characterization of Sendai virus DI-RNAs. Cell 8:547–55
    [Google Scholar]
25. 25. 

    Schubert M, Lazzarini RA. 1981. Structure and origin of a snapback defective interfering particle RNA of vesicular stomatitis virus. J. Virol. 37:661–72
    [Google Scholar]
26. 26. 

    Meier E, Harmison GG, Keene JD, Schubert M 1984. Sites of copy choice replication involved in generation of vesicular stomatitis virus defective-interfering particle RNAs. J. Virol. 51:515–21
    [Google Scholar]
27. 27. 

    Sun Y, Kim EJ, Felt SA, Taylor LJ, Agarwal D et al. 2019. A specific sequence in the genome of respiratory syncytial virus regulates the generation of copy-back defective viral genomes. PLOS Pathog. 154e1007707
28. 28. 

    Kupke SY, Riedel D, Frensing T, Zmora P, Reichl U 2018. A novel type of influenza A virus-derived defective interfering particle with nucleotide substitutions in its genome. J. Virol. 93:e01786–18
    [Google Scholar]
29. 29. 

    Dimmock NJ, Easton AJ. 2014. Defective interfering influenza virus RNAs: time to reevaluate their clinical potential as broad-spectrum antivirals?. J. Virol. 88:5217–27
    [Google Scholar]
30. 30. 

    Ngunjiri JM, Buchek GM, Mohni KN, Sekellick MJ, Marcus PI 2013. Influenza virus subpopulations: exchange of lethal H5N1 virus NS for H1N1 virus NS triggers de novo generation of defective-interfering particles and enhances interferon-inducing particle efficiency. J. Interferon Cytokine Res. 33:99–107
    [Google Scholar]
31. 31. 

    Ngunjiri JM, Lee CW, Ali A, Marcus PI 2012. Influenza virus interferon-inducing particle efficiency is reversed in avian and mammalian cells, and enhanced in cells co-infected with defective-interfering particles. J. Interferon Cytokine Res. 32:280–85
    [Google Scholar]
32. 32. 

    Brinton MA. 1983. Analysis of extracellular West Nile virus particles produced by cell cultures from genetically resistant and susceptible mice indicates enhanced amplification of defective interfering particles by resistant cultures. J. Virol. 46:860–70
    [Google Scholar]
33. 33. 

    Sanchez-Aparicio MT, Garcin D, Rice CM, Kolakofsky D, Garcia-Sastre A, Baum A 2017. Loss of Sendai virus C protein leads to accumulation of RIG-I immunostimulatory defective interfering RNA. J. Gen. Virol. 98:1282–93
    [Google Scholar]
34. 34. 

    Pfaller CK, Mastorakos GM, Matchett WE, Ma X, Samuel CE, Cattaneo R 2015. Measles virus defective interfering RNAs are generated frequently and early in the absence of C protein and can be destabilized by adenosine deaminase acting on RNA-1-like hypermutations. J. Virol. 89:7735–47
    [Google Scholar]
35. 35. 

    Odagiri T, Tobita K. 1990. Mutation in NS2, a nonstructural protein of influenza A virus, extragenically causes aberrant replication and expression of the PA gene and leads to generation of defective interfering particles. PNAS 87:5988–92
    [Google Scholar]
36. 36. 

    Marcus PI, Gaccione C. 1989. Interferon induction by viruses. XIX. Vesicular stomatitis virus—New Jersey: High multiplicity passages generate interferon-inducing, defective-interfering particles. Virology 171:630–33
    [Google Scholar]
37. 37. 

    White CL, Thomson M, Dimmock NJ 1998. Deletion analysis of a defective interfering Semliki Forest virus RNA genome defines a region in the nsP2 sequence that is required for efficient packaging of the genome into virus particles. J. Virol. 72:4320–26
    [Google Scholar]
38. 38. 

    Xie Q, Cao Y, Su J, Wu J, Wu X et al. 2017. Two deletion variants of Middle East respiratory syndrome coronavirus found in a patient with characteristic symptoms. Arch. Virol. 162:2445–49
    [Google Scholar]
39. 39. 

    Zhong P, Agosto LM, Munro JB, Mothes W 2013. Cell-to-cell transmission of viruses. Curr. Opin. Virol. 3:44–50
    [Google Scholar]
40. 40. 

    Salinas Y, Roux L. 2005. Replication and packaging properties of short Paramyxovirus defective RNAs. Virus Res 109:125–32
    [Google Scholar]
41. 41. 

    Re GG, Kingsbury DW. 1988. Paradoxical effects of Sendai virus DI RNA size on survival: inefficient envelopment of small nucleocapsids. Virology 165:331–37
    [Google Scholar]
42. 42. 

    Genoyer E, López CB. 2018. Defective viral genomes alter how Sendai virus interacts with cellular trafficking machinery leading to heterogeneity in the production of viral particles among infected cells. J. Virol. 93:e01579-18
    [Google Scholar]
43. 43. 

    Ziegler CM, Eisenhauer P, Bruce EA, Weir ME, King BR et al. 2016. The lymphocytic choriomeningitis virus matrix protein PPXY late domain drives the production of defective interfering particles. PLOS Pathog 12:e1005501
    [Google Scholar]
44. 44. 

    Ziegler CM, Eisenhauer P, Bruce EA, Beganovic V, King BR et al. 2016. A novel phosphoserine motif in the LCMV matrix protein Z regulates the release of infectious virus and defective interfering particles. J. Gen. Virol. 97:2084–89
    [Google Scholar]
45. 45. 

    Brooke CB, Ince WL, Wrammert J, Ahmed R, Wilson PC et al. 2013. Most influenza A virions fail to express at least one essential viral protein. J. Virol. 87:3155–62
    [Google Scholar]
46. 46. 

    Wichgers Schreur PJ, Kortekaas J 2016. Single-molecule FISH reveals non-selective packaging of Rift Valley fever virus genome segments. PLOS Pathog 12:e1005800
    [Google Scholar]
47. 47. 

    Fonville JM, Marshall N, Tao H, Steel J, Lowen AC 2015. Influenza virus reassortment is enhanced by semi-infectious particles but can be suppressed by defective interfering particles. PLOS Pathog 11:e1005204
    [Google Scholar]
48. 48. 

    von Magnus P. 1954. Incomplete forms of influenza virus. Adv. Virus Res. 2:59–79
    [Google Scholar]
49. 49. 

    von Magnus P. 1947. Studies on interference in experimental influenza. Ark. Kemi. Mineral. Geol. 24:1–6
    [Google Scholar]
50. 50. 

    Paucker K, Cantell K. 1963. Quantitative studies on viral interference in suspended L cells. V. Persistence of protection in growing cultures. Virology 21:22–29
    [Google Scholar]
51. 51. 

    Sokol F, Neurath AR, Vilcek J 1964. Formation of incomplete Sendai virus in embryonated eggs. Acta Virol 8:59–67
    [Google Scholar]
52. 52. 

    Huang AS, Greenawalt JW, Wagner RR 1966. Defective T particles of vesicular stomatitis virus. I. Preparation, morphology, and some biologic properties. Virology 30:161–72
    [Google Scholar]
53. 53. 

    Mims CA. 1956. Rift Valley fever virus in mice. IV. Incomplete virus; its production and properties. Br. J. Exp. Pathol. 37:129–43
    [Google Scholar]
54. 54. 

    Kennedy SI, Bruton CJ, Weiss B, Schlesinger S 1976. Defective interfering passages of Sindbis virus: nature of the defective virion RNA. J. Virol. 19:1034–43
    [Google Scholar]
55. 55. 

    Cole CN, Smoler D, Wimmer E, Baltimore D 1971. Defective interfering particles of poliovirus. I. Isolation and physical properties. J. Virol. 7:478–85
    [Google Scholar]
56. 56. 

    Barrett AD, Dimmock NJ. 1984. Modulation of Semliki Forest virus-induced infection of mice by defective-interfering virus. J. Infect. Dis. 150:98–104
    [Google Scholar]
57. 57. 

    Crouch CF, Mackenzie A, Dimmock NJ 1982. The effect of defective-interfering Semliki Forest virus on the histopathology of infection with virulent Semliki Forest virus in mice. J. Infect. Dis. 146:411–16
    [Google Scholar]
58. 58. 

    Rabinowitz SG, Huprikar J. 1979. The influence of defective-interfering particles of the PR-8 strain of influenza A virus on the pathogenesis of pulmonary infection in mice. J. Infect. Dis. 140:305–15
    [Google Scholar]
59. 59. 

    Gamboa ET, Harter DH, Duffy PE, Hsu KC 1976. Murine influenza virus encephalomyelitis. III. Effect of defective interfering virus particles. Acta Neuropathol 34:157–69
    [Google Scholar]
60. 60. 

    Tapia K, Kim WK, Sun Y, Mercado-Lopez X, Dunay E et al. 2013. Defective viral genomes arising in vivo provide critical danger signals for the triggering of lung antiviral immunity. PLOS Pathog 9:e1003703
    [Google Scholar]
61. 61. 

    Sun Y, Jain D, Koziol-White CJ, Genoyer E, Gilbert M et al. 2015. Immunostimulatory defective viral genomes from respiratory syncytial virus promote a strong innate antiviral response during infection in mice and humans. PLOS Pathog 11:e1005122
    [Google Scholar]
62. 62. 

    Poirier EZ, Goic B, Tome-Poderti L, Frangeul L, Boussier J et al. 2018. Dicer-2-dependent generation of viral DNA from defective genomes of RNA viruses modulates antiviral immunity in insects. Cell Host Microbe 23:353–65
    [Google Scholar]
63. 63. 

    Pesko KN, Fitzpatrick KA, Ryan EM, Shi PY, Zhang B et al. 2012. Internally deleted WNV genomes isolated from exotic birds in New Mexico: function in cells, mosquitoes, and mice. Virology 427:10–17
    [Google Scholar]
64. 64. 

    McCrone JT, Lauring AS. 2018. Genetic bottlenecks in intraspecies virus transmission. Curr. Opin. Virol. 28:20–25
    [Google Scholar]
65. 65. 

    Loney C, Mottet-Osman G, Roux L, Bhella D 2009. Paramyxovirus ultrastructure and genome packaging: cryo-electron tomography of Sendai virus. J. Virol. 83:8191–97
    [Google Scholar]
66. 66. 

    Cuevas JM, Duran-Moreno M, Sanjuan R 2017. Multi-virion infectious units arise from free viral particles in an enveloped virus. Nat. Microbiol. 2:17078
    [Google Scholar]
67. 67. 

    Aguilera ER, Erickson AK, Jesudhasan PR, Robinson CM, Pfeiffer JK 2017. Plaques formed by mutagenized viral populations have elevated coinfection frequencies. mBio 8:e02020–16
    [Google Scholar]
68. 68. 

    Mottet G, Curran J, Roux L 1990. Intracellular stability of nonreplicating paramyxovirus nucleocapsids. Virology 176:1–7
    [Google Scholar]
69. 69. 

    Cane C, McLain L, Dimmock NJ 1987. Intracellular stability of the interfering activity of a defective interfering influenza virus in the absence of virus multiplication. Virology 159:259–64
    [Google Scholar]
70. 70. 

    Li D, Lott WB, Lowry K, Jones A, Thu HM, Aaskov J 2011. Defective interfering viral particles in acute dengue infections. PLOS ONE 6:e19447
    [Google Scholar]
71. 71. 

    Noppornpanth S, Smits SL, Lien TX, Poovorawan Y, Osterhaus ADME, Haagmans BL 2007. Characterization of hepatitis C virus deletion mutants circulating in chronically infected patients. J. Virol. 81:7
    [Google Scholar]
72. 72. 

    Nuesch JP, de Chastonay J, Siegl G 1989. Detection of defective genomes in hepatitis A virus particles present in clinical specimens. J. Gen. Virol. 70:123475–80
    [Google Scholar]
73. 73. 

    Sidhu MS, Crowley J, Lowenthal A, Karcher D, Menonna J et al. 1994. Defective measles virus in human subacute sclerosing panencephalitis brain. Virology 202:10
    [Google Scholar]
74. 74. 

    Xu J, Sun Y, Li Y, Ruthel G, Weiss SR et al. 2017. Replication defective viral genomes exploit a cellular pro-survival mechanism to establish paramyxovirus persistence. Nat. Commun. 8:799
    [Google Scholar]
75. 75. 

    Russell AB, Kowalsky JR, Bloom JD 2018. Single-cell virus sequencing of influenza infections that trigger innate immunity. bioRxiv 437277. https://doi.org/10.1101/437277
    [Crossref]
76. 76. 

    Xu J, Mercado-Lopez X, Grier JT, Kim WK, Chun LF et al. 2015. Identification of a natural viral RNA motif that optimizes sensing of viral RNA by RIG-I. mBio 6:e01265–15
    [Google Scholar]
77. 77. 

    Russell AB, Trapnell C, Bloom JD 2018. Extreme heterogeneity of influenza virus infection in single cells. eLife 7:e32303
    [Google Scholar]
78. 78. 

    Killip MJ, Jackson D, Perez-Cidoncha M, Fodor E, Randall RE 2017. Single-cell studies of IFN-beta promoter activation by wild-type and NS1-defective influenza A viruses. J. Gen. Virol. 98:357–63
    [Google Scholar]
79. 79. 

    Akpinar F, Timm A, Yin J 2016. High-throughput single-cell kinetics of virus infections in the presence of defective interfering particles. J. Virol. 90:1599–612
    [Google Scholar]
80. 80. 

    Sekellick MJ, Marcus PI. 1980. Viral interference by defective particles of vesicular stomatitis virus measured in individual cells. Virology 104:247–52
    [Google Scholar]
81. 81. 

    Sarmiento RE, Tirado R, Gomez B 2002. Characteristics of a respiratory syncytial virus persistently infected macrophage-like culture. Virus Res 84:45–58
    [Google Scholar]
82. 82. 

    Moscona A, Peluso RW. 1993. Persistent infection with human parainfluenza virus 3 in CV-1 cells: analysis of the role of defective interfering particles. Virology 194:399–402
    [Google Scholar]
83. 83. 

    Moscona A. 1991. Defective interfering particles of human parainfluenza virus type 3 are associated with persistent infection in cell culture. Virology 183:821–24
    [Google Scholar]
84. 84. 

    Roux L, Holland JJ. 1979. Role of defective interfering particles of Sendai virus in persistent infections. Virology 93:91–103
    [Google Scholar]
85. 85. 

    Viola MV, Scott C, Duffy PD 1978. Persistent measles virus infection in vitro and in man. Arthritis Rheum 21:S47–51
    [Google Scholar]
86. 86. 

    ter Meulen V, Martin SJ 1976. Genesis and maintenance of a persistent infection by canine distemper virus. J. Gen. Virol. 32:431–40
    [Google Scholar]
87. 87. 

    Ramseur JM, Friedman RM. 1978. Prolonged infection of L cells with vesicular stomatitis virus. Defective interfering forms and temperature-sensitive mutants as factors in the infection. Virology 85:253–61
    [Google Scholar]
88. 88. 

    Calain P, Monroe MC, Nichol ST 1999. Ebola virus defective interfering particles and persistent infection. Virology 262:114–28
    [Google Scholar]
89. 89. 

    van der Zeijst BA, Noyes BE, Mirault ME, Parker B, Osterhaus AD et al. 1983. Persistent infection of some standard cell lines by lymphocytic choriomeningitis virus: transmission of infection by an intracellular agent. J. Virol. 48:249–61
    [Google Scholar]
90. 90. 

    Schmaljohn C, Blair CD. 1977. Persistent infection of cultured mammalian cells by Japanese encephalitis virus. J. Virol. 24:580–89
    [Google Scholar]
91. 91. 

    Stohlman SA, Weiner LP. 1978. Stability of neurotropic mouse hepatitis virus (JHM strain) during chronic infection of neuroblastoma cells. Arch. Virol. 57:53–61
    [Google Scholar]
92. 92. 

    Iwai A, Marusawa H, Takada Y, Egawa H, Ikeda K et al. 2006. Identification of novel defective HCV clones in liver transplant recipients with recurrent HCV infection. J. Viral Hepat. 13:523–31
    [Google Scholar]
93. 93. 

    Yagi S, Mori K, Tanaka E, Matsumoto A, Sunaga F et al. 2005. Identification of novel HCV subgenome replicating persistently in chronic active hepatitis C patients. J. Med. Virol. 77:399–413
    [Google Scholar]
94. 94. 

    Baczko K, Liebert UG, Billeter M, Cattaneo R, Budka H, ter Meulen V 1986. Expression of defective measles virus genes in brain tissues of patients with subacute sclerosing panencephalitis. J. Virol. 59:472–78
    [Google Scholar]
95. 95. 

    Calain P, Roux L, Kolakofsky D 2016. Defective interfering genomes and Ebola virus persistence. Lancet 388:659–60
    [Google Scholar]
96. 96. 

    Laske T, Heldt FS, Hoffmann H, Frensing T, Reichl U 2016. Modeling the intracellular replication of influenza A virus in the presence of defective interfering RNAs. Virus Res 213:90–99
    [Google Scholar]
97. 97. 

    Khan SR, Lazzarini RA. 1977. The relationship between autointerference and the replication of defective interfering particle. Virology 77:189–201
    [Google Scholar]
98. 98. 

    Stauffer Thompson KA, Rempala GA, Yin J 2009. Multiple-hit inhibition of infection by defective interfering particles. J. Gen. Virol. 90:888–99
    [Google Scholar]
99. 99. 

    Baltes A, Akpinar F, Inankur B, Yin J 2017. Inhibition of infection spread by co-transmitted defective interfering particles. PLOS ONE 12:e0184029
    [Google Scholar]
100. 100. 

     Akpinar F, Inankur B, Yin J 2016. Spatial-temporal patterns of viral amplification and interference initiated by a single infected cell. J. Virol. 90:7552–66
     [Google Scholar]
101. 101. 

     Calain P, Roux L. 1995. Functional characterisation of the genomic and antigenomic promoters of Sendai virus. Virology 212:163–73
     [Google Scholar]
102. 102. 

     Tuffereau C, Roux L. 1988. Direct adverse effects of Sendai virus DI particles on virus budding and on M protein fate and stability. Virology 162:417–26
     [Google Scholar]
103. 103. 

     Roux L, Waldvogel FA. 1983. Defective interfering particles of Sendai virus modulate HN expression at the surface of infected BHK cells. Virology 130:91–104
     [Google Scholar]
104. 104. 

     Adachi T, Lazzarini RA. 1978. Elementary aspects of autointerference and the replication of defective interfering virus particles. Virology 87:152–63
     [Google Scholar]
105. 105. 

     Brinton MA, Fernandez AV. 1983. A replication-efficient mutant of West Nile virus is insensitive to DI particle interference. Virology 129:107–15
     [Google Scholar]
106. 106. 

     McLain L, Armstrong SJ, Dimmock NJ 1988. One defective interfering particle per cell prevents influenza virus-mediated cytopathology: an efficient assay system. J. Gen. Virol. 69:61415–19
     [Google Scholar]
107. 107. 

     Fuller FJ, Marcus PI. 1980. Interferon induction by viruses. IV. Sindbis virus: early passage defective-interfering particles induce interferon. J. Gen. Virol. 48:63–73
     [Google Scholar]
108. 108. 

     Fuller FJ, Marcus PI. 1980. Interferon induction by viruses. Sindbis virus: defective-interfering particles temperature-sensitive for interferon induction. J. Gen. Virol. 48:391–94
     [Google Scholar]
109. 109. 

     van den Hoogen BG, van Boheemen S, de Rijck J, van Nieuwkoop S, Smith DJ et al. 2014. Excessive production and extreme editing of human metapneumovirus defective interfering RNA is associated with type I IFN induction. J. Gen. Virol. 95:1625–33
     [Google Scholar]
110. 110. 

     Yount JS, Gitlin L, Moran TM, López CB 2008. MDA5 participates in the detection of paramyxovirus infection and is essential for the early activation of dendritic cells in response to Sendai virus defective interfering particles. J. Immunol. 180:4910–18
     [Google Scholar]
111. 111. 

     Yount JS, Kraus TA, Horvath CM, Moran TM, López CB 2006. A novel role for viral-defective interfering particles in enhancing dendritic cell maturation. J. Immunol. 177:4503–13
     [Google Scholar]
112. 112. 

     Baum A, Sachidanandam R, Garcia-Sastre A 2010. Preference of RIG-I for short viral RNA molecules in infected cells revealed by next-generation sequencing. PNAS 107:16303–8
     [Google Scholar]
113. 113. 

     Mura M, Combredet C, Najburg V, Sanchez David RY, Tangy F, Komarova AV 2017. Nonencapsidated 5′ copy-back defective interfering genomes produced by recombinant measles viruses are recognized by RIG-I and LGP2 but not MDA5. J. Virol. 91:e00643–17
     [Google Scholar]
114. 114. 

     Ho TH, Kew C, Lui PY, Chan CP, Satoh T et al. 2015. PACT- and RIG-I-dependent activation of type I interferon production by a defective interfering RNA derived from measles virus vaccine. J. Virol. 90:1557–68
     [Google Scholar]
115. 115. 

     Strahle L, Garcin D, Kolakofsky D 2006. Sendai virus defective-interfering genomes and the activation of interferon-beta. Virology 351:101–11
     [Google Scholar]
116. 116. 

     Yoshida A, Kawabata R, Honda T, Sakai K, Ami Y et al. 2017. A single amino acid substitution within the paramyxovirus Sendai virus nucleoprotein is a critical determinant for production of interferon-beta-inducing copyback-type defective interfering genomes. J. Virol. 92:e02094–17
     [Google Scholar]
117. 117. 

     Irie T, Okamoto I, Yoshida A, Nagai Y, Sakaguchi T 2014. Sendai virus C proteins regulate viral genome and antigenome synthesis to dictate the negative genome polarity. J. Virol. 88:690–98
     [Google Scholar]
118. 118. 

     Frensing T. 2015. Defective interfering viruses and their impact on vaccines and viral vectors. Biotechnol. J. 10:681–89
     [Google Scholar]
119. 119. 

     Vasou A, Sultanoglu N, Goodbourn S, Randall RE, Kostrikis LG 2017. Targeting pattern recognition receptors (PRR) for vaccine adjuvantation: from synthetic PRR agonists to the potential of defective interfering particles of viruses. Viruses 9:186
     [Google Scholar]
120. 120. 

     Bellocq C, Mottet G, Roux L 1990. Wide occurrence of measles virus subgenomic RNAs in attenuated live-virus vaccines. Biologicals 18:337–43
     [Google Scholar]
121. 121. 

     Gould PS, Easton AJ, Dimmock NJ 2017. Live attenuated influenza vaccine contains substantial and unexpected amounts of defective viral genomic RNA. Viruses 9:269
     [Google Scholar]
122. 122. 

     Fisher DG, Coppock GM, López CB 2018. Virus-derived immunostimulatory RNA induces type I IFN-dependent antibodies and T-cell responses during vaccination. Vaccine 36:4039–45
     [Google Scholar]
123. 123. 

     Mercado-Lopez X, Cotter CR, Kim WK, Sun Y, Munoz L et al. 2013. Highly immunostimulatory RNA derived from a Sendai virus defective viral genome. Vaccine 31:5713–21
     [Google Scholar]
124. 124. 

     Martinez-Gil L, Goff PH, Hai R, Garcia-Sastre A, Shaw ML, Palese P 2013. A Sendai virus-derived RNA agonist of RIG-I as a virus vaccine adjuvant. J. Virol. 87:1290–300
     [Google Scholar]
125. 125. 

     Easton AJ, Scott PD, Edworthy NL, Meng B, Marriott AC, Dimmock NJ 2011. A novel broad-spectrum treatment for respiratory virus infections: influenza-based defective interfering virus provides protection against pneumovirus infection in vivo. Vaccine 29:2777–84
     [Google Scholar]
126. 126. 

     Smith CM, Scott PD, O'Callaghan C, Easton AJ, Dimmock NJ 2016. A defective interfering influenza RNA inhibits infectious influenza virus replication in human respiratory tract cells: a potential new human antiviral. Viruses 8:237
     [Google Scholar]
127. 127. 

     Rast LI, Rouzine IM, Rozhnova G, Bishop L, Weinberger AD, Weinberger LS 2016. Conflicting selection pressures will constrain viral escape from interfering particles: principles for designing resistance-proof antivirals. PLOS Comput. Biol. 12:e1004799
     [Google Scholar]
128. 128. 

     Tanner EJ, Kirkegaard KA, Weinberger LS 2016. Exploiting genetic interference for antiviral therapy. PLOS Genet 12:e1005986
     [Google Scholar]