Structural homology between bamboo mosaic virus and its satellite RNAs in the 5′untranslated region

References

1. Annamalai P., Hsu Y. H., Liu Y. P., Tsai C. H., Lin N. S. 2003; Structural and mutational analyses of cis -acting sequences in the 5′-untranslated region of satellite RNA of bamboo mosaic potexvirus. Virology 311:229–239 [CrossRef]
   [Google Scholar]
2. Bink H. H. J., Hellendoorn K., van der Meulen J., Pleij C. W. A. 2002; Protonation of non-Watson–Crick base pairs and encapsidation of turnip yellow mosaic virus RNA. Proc Natl Acad Sci U S A 99:13465–13470 [CrossRef]
   [Google Scholar]
3. Chang B. Y., Lin N. S., Liou D. Y., Chen J. P., Liou G. G., Hsu Y. H. 1997; Subcellular localization of the 28 kDa protein of the triple-gene-block of bamboo mosaic potexvirus. J Gen Virol 78:1175–1179
   [Google Scholar]
4. Chen I. H., Chou W. J., Lee P. Y., Hsu Y. H., Tsai C. H. 2005; The AAUAAA motif of bamboo mosaic virus RNA is involved in minus-strand RNA synthesis and plus-strand RNA polyadenylation. J Virol 79:14555–14561 [CrossRef]
   [Google Scholar]
5. Chen H. C., Hsu Y. H., Lin N. S. 2007a; Downregulation of Bamboo mosaic virus replication requires the 5′ apical hairpin stem loop structure and sequence of satellite RNA. Virology 365:271–284 [CrossRef]
   [Google Scholar]
6. Chen S. C., van den Born E., van den Worm S. H., Pleij C. W. A., Snijder E. J., Olsthoorn R. C. L. 2007b; New structure model for the packaging signal in the genome of group IIa coronaviruses. J Virol 81:6771–6774 [CrossRef]
   [Google Scholar]
7. Cheng C. P., Tsai C. H. 1999; Structural and functional analysis of the 3′ untranslated region of bamboo mosaic potexvirus genomic RNA. J Mol Biol 288:555–565 [CrossRef]
   [Google Scholar]
8. Cheng J. H., Peng C. W., Hsu Y. H., Tsai C. H. 2002; The synthesis of minus-strand RNA of bamboo mosaic potexvirus initiates from multiple sites within the poly(A) tail. J Virol 76:6114–6120 [CrossRef]
   [Google Scholar]
9. Hellendoorn K., Verlaan P. W., Pleij C. W. A. 1997; A functional role for the conserved protonatable hairpins in the 5′ untranslated region of turnip yellow mosaic virus RNA. J Virol 71:8774–8779
   [Google Scholar]
10. Hsu Y. H., Lee Y. S., Liu J. S., Lin N. S. 1998; Differential interactions of bamboo mosaic potexvirus satellite RNAs, helper virus, and host plants. Mol Plant Microbe Interact 11:1207–1213 [CrossRef]
    [Google Scholar]
11. Huang C. Y., Huang Y. L., Meng M., Hsu Y. H., Tsai C. H. 2001; Sequences at the 3′ untranslated region of bamboo mosaic potexvirus RNA interact with the viral RNA-dependent RNA polymerase. J Virol 75:2818–2824 [CrossRef]
    [Google Scholar]
12. Kwon S. J., Park M. R., Kim K. W., Plante C. A., Hemenway C. L., Kim K. H. 2005; cis -Acting sequences required for coat protein binding and in vitro assembly of Potato virus X . Virology 334:83–97 [CrossRef]
    [Google Scholar]
13. Lin N. S., Hsu Y. H. 1994; A satellite RNA associated with bamboo mosaic potexvirus. Virology 202:707–714 [CrossRef]
    [Google Scholar]
14. Lin N. S., Lin B. Y., Lo N. W., Hu C. C., Chow T. Y., Hsu Y. H. 1994; Nucleotide sequence of the genomic RNA of bamboo mosaic potexvirus. J Gen Virol 75:2513–2518 [CrossRef]
    [Google Scholar]
15. Lin M. K., Chang B. Y., Liao J. T., Lin N. S., Hsu Y. H. 2004; Arg-16 and Arg-21 in the N-terminal region of the triple-gene-block protein 1 of Bamboo mosaic virus are essential for virus movement. J Gen Virol 85:251–259 [CrossRef]
    [Google Scholar]
16. Lin J. W., Chiu H. N., Chen I. H., Chen T. C., Hsu Y. H., Tsai C. H. 2005; Structural and functional analysis of the cis -acting elements required for plus-strand RNA synthesis of Bamboo mosaic virus . J Virol 79:9046–9053 [CrossRef]
    [Google Scholar]
17. Lough T. J., Lee R. H., Emerson S. J., Forster R. L., Lucas W. J. 2006; Functional analysis of the 5′ untranslated region of potexvirus RNA reveals a role in viral replication and cell-to-cell movement. Virology 351:455–465 [CrossRef]
    [Google Scholar]
18. Lowman H. B., Draper D. E. 1986; On the recognition of helical RNA by cobra venom V1 nuclease. J Biol Chem 261:5396–5403
    [Google Scholar]
19. Miller E. D., Plante C. A., Kim K. H., Brown J. W., Hemenway C. 1998; Stem-loop structure in the 5′ region of potato virus X genome required for plus-strand RNA accumulation. J Mol Biol 284:591–608 [CrossRef]
    [Google Scholar]
20. Miller E. D., Kim K. H., Hemenway C. 1999; Restoration of a stem-loop structure required for potato virus X RNA accumulation indicates selection for a mismatch and a GNRA tetraloop. Virology 260:342–353 [CrossRef]
    [Google Scholar]
21. Simon A. E., Roossinck M. J., Havelda Z. 2004; Plant virus satellite and defective interfering RNAs: new paradigms for a new century. Annu Rev Phytopathol 42:415–437 [CrossRef]
    [Google Scholar]
22. Tsai C. H., Cheng C. P., Peng C. W., Lin B. Y., Lin N. S., Hsu Y. H. 1999; Sufficient length of a poly(A) tail for the formation of a potential pseudoknot is required for efficient replication of bamboo mosaic potexvirus RNA. J Virol 73:2703–2709
    [Google Scholar]
23. Yeh T. Y., Lin B. Y., Chang Y. C., Hsu Y. H., Lin N. S. 1999; A defective RNA associated with bamboo mosaic virus and the possible common mechanisms for RNA recombination in potexviruses. Virus Genes 18:121–128 [CrossRef]
    [Google Scholar]
24. Zuker M. 2003; Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res 31:3406–3415 [CrossRef]
    [Google Scholar]