Secondary structure analysis of a minimal avian leukosis-sarcoma virus packaging signal

Journal of Virology

Volumn 74, Issue 1, 2000, Pages 456-464

  Banks, Jennifer D ^a   Linial, Maxine L ^a,b  

^a Fred Hutchinson Cancer Research Center   (United States)

^b UNIVERSITY OF WASHINGTON   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL CELL; ARTICLE; AVIAN LEUKOSIS ONCOVIRUS; COMPUTER MODEL; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PHYLOGENY; POINT MUTATION; PRIORITY JOURNAL; RNA STRUCTURE; VIRUS ASSEMBLY;

EID: 0033988486     PISSN: 0022538X     EISSN: None     Source Type: Journal    
DOI: 10.1128/JVI.74.1.456-464.2000     Document Type: Article

References (25)

1. Aronoff, R., and M. L. Linial. 1991. Specificity of retroviral RNA packaging. J. Virol. 65:71-80.
2. Banks, J. D., K. L. Beemon, and M. L. Linial. 1997. RNA regulatory elements in the genomes of simple retroviruses. Semin. Virol. 8:194-204.
3. Banks, J. D., B. O. Kealoha, and M. L. Linial. 1999. An MΨ-containing heterologous RNA, but not env mRNA, is efficiently packaged into avian retroviral particles. J. Virol. 73:8926-8933.
4. Banks, J. D., A. Yeo, K. Green, F. Cepeda, and M. L. Linial. 1998. A minimal avian retroviral packaging sequence has a complex structure. J. Virol. 72: 6190-6194.
5. Berkowitz, R., J. Fisher, and S. P. Goff. 1996. RNA packaging. Curr. Top. Microbiol. Immunol. 214:177-218.
6. Chen, C., and H. Okayama. 1987. High efficiency transformation of mammalian cells by plasmid DNA. Mol. Cell. Biol. 7:2745-2752.
7. Corpet, F. 1988. Multiple sequence alignment with hierarchical clustering. Nucleic Acids Res. 16:10881-10890.
8. Donze, O., P. Damay, and P. F. Spahr. 1995. The first and third uORFs in RSV leader RNA are efficiently translated: implications for translational regulation and viral RNA packaging. Nucleic Acids Res. 23:861-868.
9. Donze, O., and P. F. Spahr. 1992. Role of the open reading frames of Rous sarcoma virus leader RNA in translation and genome packaging. EMBO J. 11:3747-3757.
10. Doria-Rose, N. A., and V. M. Vogt. 1998. In vivo selection of Rous sarcoma virus mutants with randomized sequences in the packaging signal. J. Virol. 72:8073-8082.
11. Dugaiczyk, A., J. A. Haron, E. M. Stone, O. E. Dennison, K. N. Rothblum, and R. J. Schwartz. 1983. Cloning and sequencing of a deoxyribonucleic acid copy of glyceraldehyde-3-phosphate dehydrogenase messenger ribonucleic acid isolated from chicken muscle. Biochemistry 22:1605-1613.
12. Fosse, P., N. Motte, A. Roumier, C. Gabus, D. Muriaux, J. L. Darlix, and J. Paoletti. 1996. A short autocomplementary sequence plays an essential role in avian sarcoma-leukosis virus RNA dimerization. Biochemistry 35:16601-16609.
13. Hackett, P. B., M. W. Dalton, D. P. Johnson, and R. B. Petersen. 1992. Phylogenetic and physical analysis of the 5′ leader RNA sequences of avian retroviruses. Nucleic Acids Res. 19:6929-6934.
14. Knight, J. B., Z. H. Si, and C. M. Stoltzfus. 1994. A base-paired structure in the avian sarcoma virus 5′ leader is required for efficient encapsidation of RNA. J. Virol. 68:4493-4502.
15. Lee, E.-G., A. Yeo, B. Kraemer, M. Wickens, and M. L. Linial. 1999. The Gag domains for avian retroviral RNA encapsidation determined by two independent methods. J. Virol. 73:6282-6292.
16. Linial, M. 1987. Creation of a processed pseudogene by retroviral infection. Cell 49:93-102.
17. Moustakas, A., T. S. Sonstegard, and P. B. Hackett. 1993. Alterations of the three short open reading frames in the rous sarcoma virus leader RNA modulate viral replication and gene expression. J. Virol. 67:4337-41349.
18. Nowakowski, J., and I. Tinoco, Jr. 1997. RNA Structure and Stability. Semin. Virol. 8:153-165.
19. Oertle, S., and P. F. Spahr. 1990. Role of the Gag polyprotein precursor in packaging and maturation of Rous sarcoma virus genomic RNA. J. Virol. 64:5757-5763.
20. gag. J. Virol. 70:6542-6552.
21. Stoker, A. W., and M. J. Bissell. 1988. Development of avian sarcoma and leukosis virus-based vector-packaging cell lines. J. Virol. 62:1008-1015.
22. Tikhonenko, A. T., D. J. Black, and M. L. Linial. 1996. Viral Myc oncoproteins in infected fibroblasts down-modulate thrombospondin-1, a possible tumor suppressor gene. J. Biol. Chem. 271:30741-30747.
23. 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.
24. Weeks, K. M. and D. M. Crothers. 1993. Major groove accessibility of RNA. Science 261:1574-1577.
25. Zuker, M. 1989. On finding all suboptimal foldings of an RNA molecule. Science 244:48-52.