Modelling the secondary structures of slippage-prone hypervariable RNA regions: The example of the tiger beetle 18S rRNA variable region V4

Nucleic Acids Research

Volumn 26, Issue 7, 1998, Pages 1689-1699

  Hancock, John M ^a   Vogler, Alfried P ^b,c  

^a HAMMERSMITH HOSPITAL   (United Kingdom)

^b DEPARTMENT OF LIFE SCIENCES   (United Kingdom)

^c IMPERIAL COLLEGE LONDON   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

RIBOSOME RNA;

ALGORITHM; ARTICLE; BEETLE; GENE MUTATION; MODEL; NONHUMAN; PHYLOGENY; PRIORITY JOURNAL; RNA STRUCTURE; SEQUENCE HOMOLOGY; SPECIES DIFFERENCE; STATISTICAL ANALYSIS;

ANIMALS; BASE SEQUENCE; BEETLES; COMPUTER SIMULATION; EVOLUTION, MOLECULAR; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; PHYLOGENY; RNA, RIBOSOMAL, 18S; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY, NUCLEIC ACID; SOFTWARE; VARIATION (GENETICS);

EID: 0032053179     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/26.7.1689     Document Type: Article

References (26)

1. Schnare, M.N., Damberger, S.H., Gray, M.W. and Gutell, R.R. (1996) J. Mol. Biol. 256, 701-719.
2. Hickson, R.E., Simon, C., Cooper, A., Spicer, G.S., Sullivan, J. and Penny, D. (1996) Mol. Biol. Evol. 13, 150-169.
3. Vawter, L. and Brown, W.M. (1993) Genetics 134, 597-608.
4. Brockdorff, N., Ashworth, A., Kay, G.F., McCabe, V.M., Morris, D.P., Cooper, P.J., Swift, S. and Rastan, S. (1992) Cell 71, 515-516.
5. Hoelzel, A.R., Hancock, J.M. and Dover, G.A. (1993) J. Mol. Evol. 37, 190-197.
6. Hancock, J.M., Chaleeprom, W., Chaleeprom, W., Dale, J. and Gibbs, A. (1995) J. Gen. Virol. 76, 3229-3232.
7. Hancock, J.M. and Dover, G.A. (1988) Mol. Biol. Evol. 5, 377-391
8. Hancock, J.M. (1995) J. Mol. Evol. 40, 629-639.
9. Vogler, A.P., Welsh, A. and Hancock, J.M. (1997) Mol. Biol. Evol. 14, 6-19.
10. Zuker, M. (1989) Science 244, 48-52.
11. Jaeger, J.A., Turner, D.H. and Zuker, M. (1990) Methods Enzymol. 183, 281-306.
12. Zuker, M., Jaeger, J.A. and Turner, D.H. (1991) Nucleic Acids Res. 19, 2707-2714
13. Zuker, M. (1994) Methods Mol. Biol. 25, 267-294.
14. Van de Peer, Y., Jansen, J., De Rijk, P. and De Wachter, R. (1997) Nucleic Acids Res. 25, 111-116.
15. De Rijk, P., Neefs, J.M., Van de Peer, Y. and De Wachter, R. (1992) Nucleic Acids Res. 20, 2075-2089.
16. Tautz, D., Hancock, J.M., Webb, D.A., Tautz, C. and Dover, G.A. (1988) Mol. Biol. Evol. 5, 366-376.
17. Hendriks, L.R., De Baere, R., Van Broekhoven, C. and De Wachter, R. (1988) FEBS Lett. 232, 115-120.
18. GCG (1994) Program Manual for the Wisconsin Package. Version 8, August 1994. Genetics Computer Group, 575 Science Drive, Madison, Wisconsin, USA 53711.
19. Vogler, A.P. and Pearson, D.L. (1996) Mol. Phylogenet. Evol. 6, 321-338.
20. Maddison, W.P. and Maddison, D.R. (1992) MacClade: Analysis of Phylogeny and Character Evolution. Version 3.0, Sinauer Associates, Sunderland, Massachusetts.
21. Neefs, J.-M. and De Wachter, R. (1990) Nucleic Acids Res. 18, 5695-5704.
22. Maidak, B.L., Olsen, G.J., Larsen, N., Overbeek, R., McCaughey, M.J. and Woese, C.R. (1997) Nucleic Acids Res. 25, 109-110.
23. Gutell, R.R., Larsen, N. and Woese, C.R. (1994) Microbiol. Rev. 58, 10-26.
24. Hancock, J.M., Tautz, D. and Dover, G.A. (1988) Mol. Biol. Evol. 5, 393-414.
25. Nickrent, D.L. and Sargent, M.L. (1991) Nucleic Acids Res. 19, 227-235.
26. Kwon, G.-Y. Ogino, K. and Ishikawa, H. (1991) Eur. J. Biochem. 202, 827-833.