Selection of Functional 5′ cis-Acting Elements Promoting Efficient Sindbis Virus Genome Replication

Journal of Virology

Volumn 78, Issue 1, 2004, Pages 61-75

  Gorchakov, Rodion ^a   Hardy, Richard ^b   Rice, Charles M ^c   Frolov, Ilya ^a  

^a University of Texas Medical Branch School of Medicine   (United States)

^b INDIANA UNIVERSITY   (United States)

^c ROCKEFELLER UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADENINE DERIVATIVE; CIS ACTING ELEMENT; OLIGOADENYLIC ACID; UNCLASSIFIED DRUG; VIRUS PROTEIN; VIRUS RNA; VIRUS VECTOR;

3' UNTRANSLATED REGION; 5' UNTRANSLATED REGION; ANIMAL CELL; ARTICLE; CHIMERA; GENE DELETION; GENE MAPPING; GENE REPLICATION; GENE REPRESSION; MOSQUITO; NONHUMAN; PRIORITY JOURNAL; REVERTANT; RNA REPLICATION; RNA SYNTHESIS; RNA TRANSLATION; SEMLIKI FOREST ALPHAVIRUS; SINDBIS VIRUS; VIRUS GENOME; VIRUS REPLICATION;

5' UNTRANSLATED REGIONS; ANIMALS; BASE SEQUENCE; CELL LINE; ENHANCER ELEMENTS (GENETICS); GENOME, VIRAL; MOLECULAR SEQUENCE DATA; PROMOTER REGIONS (GENETICS); RNA, VIRAL; SEMLIKI FOREST VIRUS; SINDBIS VIRUS; VIRUS REPLICATION;

EID: 0346365303     PISSN: 0022538X     EISSN: None     Source Type: Journal    
DOI: 10.1128/JVI.78.1.61-75.2004     Document Type: Article

References (40)

1. Bredenbeek, P. J., I. Frolov, C. M. Rice, and S. Schlesinger. 1993. Sindbis virus expression vectors: packaging of RNA replicons by using defective helper RNAs. J. Virol. 67:6439-6446.
2. Chen, M., K. F. Hu, B. Rozell, C. Orvell, B. Morein, and P. Liljestrom. 2002. Vaccination with recombinant alphavirus or immune-stimulating complex antigen against respiratory syncytial virus. J. Immunol. 169:3208-3216.
3. Davis, N. L., K. W. Brown, G. F. Greenwald, A. J. Zajac, V. L. Zacny, J. F. Smith, and R. E. Johnston. 1995. Attenuated mutants of Venezuelan equine encephalitis virus containing lethal mutations in the PE2 cleavage signal combined with a second-site suppressor mutation in E1. Virology 212:102-110.
4. Frey, R. K., D. L. Gard, and J. H. Strauss. 1979. Biophysical studies on circle formation by Sindbis virus 49S RNA. J. Mol. Biol. 132:1-18.
5. Frolov, I., E. Agapov, T. A. Hoffman, Jr., B. M. Prágai, M. Lippa, S. Schlesinger, and C. M. Rice. 1999. Selection of RNA replicons capable of persistent noncytopathic replication in mammalian cells. J. Virol. 73:3854-3865.
6. Frolov, I., R. Hardy, and C. M. Rice. 2001. cis-Acting RNA elements at the 5′ end of Sindbis virus genome RNA regulate minus- and plus-strand RNA synthesis. RNA 7:1638-1651.
7. Frolov, I., M. S. McBride, and C. M. Rice. 1998. cis-acting RNA elements required for replication of bovine viral diarrhea virus-hepatitis C virus 5′ nontranslated region chimeras. RNA 4:1418-1435.
8. George, J., and R. Raju. 2000. Alphavirus RNA genome repair and evolution: molecular characterization of infectious sindbis virus isolates lacking a known conserved motif at the 3′ end of the genome. J. Virol. 74:9776-9785.
9. Grakoui, A., R. Levis, R. Raju, H. V. Huang, and C. M. Rice. 1989. A cis-acting mutation in the Sindbis virus junction region which affects subgenomic RNA synthesis. J. Virol. 63:5216-5227.
10. Imataka, H., A. Gradi, and N. Sonenberg. 1998. A newly identified N-terminal amino acid sequence of human eIF4G binds poly(A)-binding protein and functions in poly(A)-dependent translation. EMBO J. 17:7480-7489.
11. Kuhn, R. J., Z. Hong, and J. H. Strauss. 1990. Mutagenesis of 3′ nontranslated region of Sindbis virus RNA. J. Virol. 64:1465-1476.
12. Lemm, J. A., R. K. Durbin, V. Stollar, and C. M. Rice. 1990. Mutations which alter the level or structure of nsP4 can affect the efficiency of Sindbis virus replication in a host-dependent manner. J. Virol. 64:3001-3011.
13. Lemm, J. A., and C. M. Rice. 1993. Assembly of functional Sindbis virus RNA replication complexes: requirement for coexpression of P123 and P34. J. Virol. 67:1905-1915.
14. Lemm, J. A., and C. M. Rice. 1993. Roles of nonstructural polyproteins and cleavage products in regulating Sindbis virus RNA replication and transcription. J. Virol. 67:1916-1926.
15. Lemm, J. A., T. Rümenapf, E. G. Strauss, J. H. Strauss, and C. M. Rice. 1994. Polypeptide requirements for assembly of functional Sindbis virus replication complexes: a model for the temporal regulation of minus- and plus-strand RNA synthesis. EMBO J. 13:2925-2934.
16. Levis, R., S. Schlesinger, and H. V. Huang. 1990. Promoter for Sindbis virus RNA-dependent subgenomic RNA transcription. J. Virol. 64:1726-1733.
17. Liljeström, P., and H. Garoff. 1991. A new generation of animal cell expression vectors based on the Semliki Forest virus replicon. Bio/Technology 9:1356-1361.
18. Liljeström, P., S. Lusa, D. Huylebroeck, and H. Garoff. 1991. In vitro mutagenesis of a full-length cDNA clone of Semliki Forest virus: the small 6,000-molecular-weight membrane protein modulates virus release. J. Virol. 65:4107-4113.
19. Lundstrom, K. 2002. Alphavirus-based vaccines. Curr. Opin. Mol. Ther. 4:28-34.
20. Monroe, S. S., and S. Schlesinger. 1983. RNAs from two independently isolated defective interfering particles of Sindbis virus contain a cellular tRNA sequence at their 5′ ends. Proc. Natl. Acad. Sci. USA 80:3279-3283.
21. Niesters, H. G. M., and J. H. Strauss. 1990. Defined mutations in the 5′ nontranslated sequence of Sindbis virus RNA. J. Virol. 64:4162-4168.
22. Niesters, H. G. M., and J. H. Strauss. 1990. Mutagenesis of the conserved 51 nucleotide region of Sindbis virus. J. Virol. 64:1639-1647.
23. Ou, J. H., C. M. Rice, L. Dalgarno, E. G. Strauss, and J. H. Strauss. 1982. Sequence studies of several alphavirus genomic RNAs in the region containing the start of the subgenomic RNA. Proc. Natl. Acad. Sci. USA 79:5235-5239.
24. Ou, J. H., E. G. Strauss, and J. H. Strauss. 1981. Comparative studies of the 3′ terminal sequences of several alphaviruses. Virology 109:281-289.
25. Pardigon, N., E. Lenches, and J. H. Strauss. 1993. Multiple binding sites for cellular proteins in the 3′ end of Sindbis alphavirus minus-sense RNA. J. Virol. 67:5003-5011.
26. Pardigon, N., and J. H. Strauss. 1996. Mosquito homolog of the La autoantigen binds to Sindbis virus RNA. J. Virol. 70:1173-1181.
27. Pugachev, K. V., and T. K. Frey. 1998. Effects of defined muations in the 5′ nontranstated region of rubella virus genome RNA on virus viability and macromolecule synthesis. J. Virol. 72:641-650.
28. Raju, R., M. Hajjou, K. R. Hill, V. Botta, and S. Botta. 1999. In vivo addition of poly(A) tail and AU-rich sequences to the 3′ terminus of the Sindbis virus RNA genome: a novel 3′-end repair pathway. J. Virol. 73:2410-2419.
29. Rice, C. M., R. Levis, J. H. Strauss, and H. V. Huang. 1987. Production of infectious RNA transcripts from Sindbis virus cDNA clones: mapping of lethal mutations, rescue of a temperature-sensitive marker, and in vitro mutagenesis to generate defined mutants. J. Virol. 61:3809-3819.
30. Schlesinger, S., and M. J. Schlesinger. 2001. Togaviridae: the viruses and their replication, p. 895-916. In D. M. Knipe and P. M. Howley (ed.), Fields virology, 4th ed. Lippincott/The Williams & Wilkins Co., Philadelphia, Pa.
31. Shirako, Y., E. G. Strauss, and J. H. Strauss. 2003. Modification of the 5′ terminus of Sindbis virus genomic RNA allows nsP4 RNA polymerases with nonaromatic amino acids at the N terminus to function in RNA replication. J. Virol. 77:2301-2309.
32. Shirako, Y., and J. H. Strauss. 1990. Cleavage between nsP1 and nsP2 initiates the processing pathway of Sindbis virus nonstructural polyprotein P123. Virology 177:54-64.
33. Shirako, Y., and J. H. Strauss. 1994. Regulation of Sindbis virus RNA replication: uncleaved P123 and nsP4 function in minus strand RNA synthesis, whereas cleaved products from P123 are required for efficient plus strand RNA synthesis. J. Virol. 185:1874-1885.
34. Spotts, D. R., R. M. Reich, M. A. Kalkhan, R. M. Kinney, and J. T. Roehrig. 1998. Resistance to alpha/beta interferons correlates with the epizootic and virulence potential of Venezuelan equine encephalitis viruses and is determined by the 5′ noncoding region and glycoproteins. J. Virol. 72:10286-10291.
35. Strauss, E. G., C. M. Rice, and J. H. Strauss. 1984. Complete nucleotide sequence of the genomic RNA of Sindbis virus. Virology 133:92-110.
36. Strauss, J. H., and E. G. Strauss. 1994. The alphaviruses: gene expression, replication, evolution. Microbiol. Rev. 58:491-562.
37. Tsiang, M., S. S. Monroe, and S. Schlesinger. 1985. Studies of defective interfering RNAs of Sindbis virus with or without tRNAAsp sequences at their 5′ termini. J. Virol. 54:38-44.
38. Tsiang, M., B. G. Weiss, and S. Schlesinger. 1988. Effects of 5′-terminal modifications on the biological activity of defective interfering RNAs of Sindbis virus. J. Virol. 62:47-53.
39. Tsuji, M., C. C. Bergmann, Y. Takita-Sonoda, K. Murata, E. G. Rodrigues, R. S. Nussenzweig, and F. Zavala. 1998. Recombinant Sindbis viruses expressing a cytotoxic T-lymphocyte epitope of a malaria parasite or of influenza virus elicit protection against the corresponding pathogen in mice. J. Virol. 72:6907-6910.
40. White, L. J., J. G. Wang, N. L. Davis, and R. E. Johnston. 2001. Role of alpha/beta interferon in Venezuelan equine encephalitis virus pathogenesis: effect of an attenuating mutation in the 5′ untranslated region. J. Virol. 75:3706-3718.