Rotavirus RNA replication requires a single-stranded 3' end for efficient minus-strand synthesis

Journal of Virology

Volumn 72, Issue 9, 1998, Pages 7387-7396

  Chen, Dayue ^a   Patton, John T ^a  

^a NATIONAL INSTITUTE OF ALLERGY AND INFECTIOUS DISEASES   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

VIRUS RNA;

ANIMAL CELL; ARTICLE; CELL FREE SYSTEM; DIARRHEA; DRUG RECEPTOR BINDING; ENZYME ACTIVITY; MESSENGER RNA SYNTHESIS; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PRIORITY JOURNAL; PROTEIN SECONDARY STRUCTURE; RNA REPLICATION; ROTAVIRUS; VIRION;

EID: 0031870250     PISSN: 0022538X     EISSN: None     Source Type: Journal    
DOI: 10.1128/jvi.72.9.7387-7396.1998     Document Type: Article

References (49)

1. Anzola, J. V., Z. Xu, T. Asamizu, and D. L. Nuss. 1987. Segment-specific inverted repeats found adjacent to conserved terminal sequences in wound tumor virus genome and defective interfering RNAs. Proc. Natl. Acad. Sci. USA 84:8301-8305.
2. Beekwilder, M. J., R. Nieuwenhuizen, and J. van Duin. 1995. Secondary structure model for the last two domains of single-stranded RNA phage Q beta. J. Mol. Biol. 247:903.
3. Bican, P., J. Cohen, A. Charpilienne, and R. Scherrer. 1982. Purification and characterization of bovine rotavirus cores. J. Virol. 43:1113-1117.
4. Chappell, J., M. I. Goral, S. E. Rodgers, C. W. dePamphilis, and T. S. Dermody. 1994. Sequence diversity within the reovirus S2 gene: reovirus genes reassort in nature, and their termini are predicted to form a panhandle motif. J. Virol. 68:750-756.
5. Chen, D. Y., C. Q.-Y. Zeng, M. J. Wentz, M. Gorziglia, M. K. Estes, and R. F. Ramig. 1994. Template-dependent, in vitro replication of rotavirus RNA. J. Virol. 68:7030-7039.
6. Cohen, J. 1977. Ribonucleic acid polymerase activity associated with purified calf rotavirus. J. Gen. Virol. 36:395-402.
7. Cohen, J., A. Charpilienne, S. Chilmonczyk, and M. K. Estes. 1989. Nucleotide sequence of bovine rotavirus gene 1 and expression of the gene product in baculovirus. J. Virol. 170:131-140.
8. Desselberger, U., and M. A. McCrae. 1994. The rotavirus genome. Curr. Top. Microbiol. Immunol. 68:5945-5952.
9. Desselberger, U., V. R. Racaniello, J. J. Zazra, and P. Palase. 1980. The 3′ and 5′-terminal sequences of influenza A, B and C virus RNA segments are highly conserved and show partial inverted complementarity. Gene 8:315-328.
10. Estes, M. K. 1996. Rotaviruses and their replication, p. 731-761. In B. N. Fields, D. Knipe, P. M. Howley, et al. (ed.), Fundamental virology, 3rd ed. Lippincott-Raven Publishers, Philadelphia, Pa.
11. Fodor, E., D. C. Pritlove, and G. G. Brownlove. 1994. The influenza virus panhandle is involved in the initiation of transcription. J. Virol. 68:4092-4096.
12. Gallie, D. R., J. N. Feder, R. T. Schmke, and V. Walbot. 1991. Functional analysis of the tobacco mosaic virus tRNA-like structure in cytoplasmic gene regulation. Nucleic Acids Res. 19:5031-5036.
13. Harrison, G. P., and A. M. Lever, 1992. The human immunodeficiency virus type 1 packaging signal and major splice donor region have a conserved stable secondary structure. J. Virol. 66:4144-4153.
14. Hsu, M.-T., J. D. Parvin, S. Gupta, M. Krystal, and P. Palese. 1987. Genomic RNAs of influenza viruses are held in circular conformation in virions and in infected cells by a terminal panhandle. Proc. Natl. Acad. Sci. USA 84:8140-8144.
15. Imai, M., M. A. Richardson, N. Ikegami, A. J. Shatkin, and Y. Furuichi. 1983. Molecular cloning of double-stranded RNA viruses genomes. Proc. Natl. Acad. Sci. USA 80:373-377.
16. Kapikian, A. Z. 1996. Overview of viral gastroenteritis. Arch. Virol. 12:7-19.
17. Kattoura, M., L. L. Clapp, and J. T. Patton. 1992. The rotavirus non-structural protein, NS35, is a non-specific RNA-binding protein. Virology 191:698-708.
18. Labbe, M., P. Baudoux, A. Charpilienne, D. Poncet, and J. Cohen. 1994. Identification of the nucleic acid binding domain of the rotavirus VP2 protein. J. Gen. Virol. 75:3423-3430.
19. Laemmli, U. K. 1970. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature (London) 227:680-685.
20. Lawton, J. A., C. Q.-Y. Zeng, S. K. Mukherjee, J. Cohen, M. K. Estes, and B. V. V. Prasad. 1997. Three-dimensional structural analysis of recombinant rotavirus-like particles with intact and amino-terminal-deleted VP2: implications for the architecture of the VP2 capsid layer. J. Virol. 71:7353-7360.
21. Leathers, V., R. Tanguay, M. Kobayashi, and D. R. Gallie. 1993. A phylogenetically conserved sequence within viral 3′ untranslated RNA pseudoknots regulates translation. Mol. Cell. Biol. 13:5331-5347.
22. Mansell, E. A., and J. T. Patton. 1990. Rotavirus RNA replication: VP2, but not VP6, is necessary for viral replicase activity. J. Virol. 64:4988-4996.
23. McBride, M. S., and A. T. Panganiban. 1996. The human immunodeficiency virus type 1 encapsidation site is a multipartite RNA element composed of functional hairpin structures. J. Virol. 70:2963-2973.
24. Mirmomeni, M. H., P. J. Hughes, and G. Stanway. 1997. An RNA tertiary structure in the 3′-translated region of enteroviruses is necessary for efficient replication. J. Virol. 71:2363-2370.
25. Nibert, M. L., L. A. Schiff, and B. N. Fields. 1996. Reoviruses and their replication, p. 1555-1596. In B. N. Fields, D. Knipe, P. M. Howley, et al. (ed.), Fundamental virology, 3rd ed. Lippincott-Raven Publishers, Philadelphia, Pa.
26. Okada, Y., M. A. Richardson, N. Ikegami, A. Nomoto, and Y. Furuichi. 1984. Nucleotide sequence of the human rotavirus genome segment 10, an RNA encoding a glycosylated virus protein. J. Virol. 51:856-859.
27. Patton, J. T. 1996. Rotavirus VP1 alone specifically binds to the 3′ end of viral mRNA but the interaction is not sufficient to initiate minus-strand synthesis. J. Virol. 70:7940-7947.
28. Patton, J. T., L. Salter-Cid, A. Kalbach, E. A. Mansell, and M. Kattoura. 1993. Nucleotide and amino acid sequence analysis of the rotavirus non-structural RNA-binding protein NS35. Virology 192:438-446.
29. Patton, J. T., M. Wentz, J. Xiaobo, and R. F. Ramig. 1996. cis-acting signals that promote genome replication in rotavirus mRNAs. J. Virol. 70:3961-3971.
30. Patton, J. T., M. T. Jones, A. N. Kalbach, Y.-W. He, and J. Xiaobo. 1997. Rotavirus RNA polymerase requires the core shell protein to synthesize the double-stranded RNA genome. J. Virol. 71:9618-9626.
31. Pizarro, J. L., A. M. Sandino, J. M. Pizarro, J. Fernandez, and E. Spencer. 1991. Characterization of rotavirus guanylyltransferase activity associated with polypeptide VP3. J. Gen. Virol. 72:325-332.
32. Prasad, B. V. V., G. J. Wang, J. P. M. Clerx, and W. Chiu. 1988. Three-dimensional structure of rotavirus. J. Mol. Biol. 199:269-275.
33. Prasad, B. V. V., R. Rothnagel, C. Q.-Y. Zeng, J. Jakana, J. A. Lawton, W. Chiu, and M. K. Estes. 1996. Visualization of ordered genomic RNA and localization of transcriptional complexes in rotavirus. Nature (London) 382: 471-473.
34. Roy, P. 1996. Orbiviruses and their replication, p. 1709-1734. In B. N. Fields, D. Knipe, P. M. Howley, et al. (ed.), Fundamental virology, 3rd ed. Lippincott-Raven Publishers, Philadelphia, Pa.
35. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1992. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y.
36. Sanger, F., S. Nicklen, and A. R. Coulsen. 1977. DNA sequencing with chain-terminating inhibitors. Proc. Natl. Acad. Sci. USA 74:5463-5467.
37. Serra, M. J., D. H. Turner, and S. M. Freier. 1995. Predicting thermodynamic properties of RNA. Methods Enzymol. 259:243-261.
38. Shaw, A. L., R. Rothnagel, D. Chen, R. F. Ramig, W. Chiu, and B. V. V. Prasad. 1993. Three dimensional visualization of the rotavirus hemagglutinin structure. Cell 74:693-701.
39. Stoeckle, M. Y., M. W. Shaw, and P. W. Choppin. 1987. Segment-specific and common nucleotide sequences in the noncoding regions of influenza B virus genome RNAs. Proc. Natl. Acad. Sci. USA 84:2703-2707.
40. Uyeda, I., H. Kudo, T. Takahashi, T. Sano, K. Ohshima, T. Matsumura, and E. Shikata. Nucleotide sequence of the rice dwarf virus genome segment 9. J. Gen. Virol. 70:1297-1300.
41. Valenzuela, S., J. Pizarro, A. M. Sandino, M. Vasquez, J. Fernandez, O. Hernandez, J. Patton, and E. Spencer. 1991. Photoaffinity labeling of rota-virus VP1 with 8-azido-ATP: identification of the viral RNA polymerase. J. Virol. 65:3964-3967.
42. Walter, A. E., D. H. Turner, J. Kim, M. H. Lyttle, P. Muller, D. H. Mathews, and M. Zuker. 1994. Coaxial stacking of helixes enhances binding of oligoribonucleotides and improves predictions of RNA folding. Proc. Natl. Acad. Sci. USA 91:9218-9222.
43. Wentz, M. J., C. Q.-Y. Zeng, J. T. Patton, M. K. Estes, and R. F. Ramig. 1996. Identification of the minimal replicase, and the minimal promoter of (-)-strand synthesis, functional in rotavirus RNA replication In vitro. Arch. Virol. 12:59-67.
44. Wentz, M. J., J. T. Patton, and R. F. Ramig. 1996. The 3′-terminal consensus sequence of rotavirus mRNA is the minimal promoter of negative-strand RNA synthesis. J. Virol. 70:7833-7841.
45. Xu, Z., J. V. Anzola, C. M. Nalin, and D. L. Nuss. 1989. The 3′-terminal sequence of a wound tumor virus transcript can influence conformational and functional properties associated with the 5′-terminus. Virology 170:511-522.
46. Zeng, C. Q.-Y., M. J. Wentz, M. K. Estes, and R. F. Ramig. 1996. Characterization and replicase activity of double-layered and single-layered rotavirus-like particles expressed from baculovirus recombinants. J. Virol. 70: 2736-2742.
47. Zeng, C. Q.-Y., M. K. Estes, A. Charpilienne, and J. Cohen. 1998. The N terminus of rotavirus VP2 is necessary for encapsidation of VP1 and VP3. J. Virol. 72:201-208.
48. Zuker, M. 1989. The use of dynamic programming algorithms in RNA secondary structure prediction, p. 159-184. In M. S. Waterman (ed.), Mathematical methods for DNA sequences. CRC Press, Inc., Boca Raton, Fla.
49. Zuker, M. 1994. Prediction of RNA secondary structure by energy minimization, p. 267-294. In A. M. Griffin and H. G. Griffin (ed.), Computer analysis of sequence data, part II, vol. 25. CRC Press, Inc., Totowa, N.J.