1887

Abstract

The consensus secondary structure of the virion proteins (VPs) of tymoviruses was predicted from their amino acid sequences using a combination of computer methods: profile alignment, hydropho- bicity moment and ‘PredictProtein’. All methods predicted that they were eight-stranded anti-parallel -barrels with two α-helical regions. The predicted structure was used to design recombinants of turnip yellow mosaic virus (TYMV) in which selected parts of its VP were replaced with homologous regions of belladonna mottle virus (BeMV) in a cDNA clone encoding the genome of TYMV. Six of ten such recombinants were fully viable and most gave symptoms in Chinese cabbage indistinguishable from those of TYMV, although they did not always infect plants systemically and none infected hosts of BeMV or of other tymoviruses. A TYMV recombinant with the N-terminal part of its VP replaced with the E71 epitope of was also viable, but others with the same region replaced with the V3 region of the lentivirus human immunodeficiency virus type 1 were not. Epitope analysis of antisera prepared against the virions of parental TYMV and some of the recombinants showed that, although the N terminus of the VP is immuno- genically dominant, it is not exposed at the surface of the virion, a finding confirmed by comparing the electrophoretic mobilities of the virions. The recently published structure of the TYMV VP determined by X-ray crystallography confirms the accuracy of the predicted secondary structure of the VP, and hence the utility of the methods used.

Loading

Article metrics loading...

/content/journal/jgv/10.1099/0022-1317-79-2-395
1998-02-01
2022-05-25
Loading full text...

Full text loading...

/deliver/fulltext/jgv/79/2/9472626.html?itemId=/content/journal/jgv/10.1099/0022-1317-79-2-395&mimeType=html&fmt=ahah

References

  1. Argos P. 1981; Secondary structure prediction of plant virus coat proteins. Virology 110:55–62
    [Google Scholar]
  2. Bransom K. L., Weiland J. J., Tsai C., Dreher T. W. 1995; Coding density of the turnip yellow mosaic virus genome: roles of the overlapping virion protein and p206-readthrough coding regions. Virology 206:403–412
    [Google Scholar]
  3. Brunt A. A., Crabtree K., Dallwitz M. J., Gibbs A. J., Watson L., Zurcher E. J. editor 1996 Viruses of Plants: Descriptions and Lists from the VIDE Database Wallingford, UK: CAB International;
    [Google Scholar]
  4. Canady M., Day J., McPherson A. 1995; Preliminary X-ray diffraction analysis of crystals of turnip yellow mosaic virus (TYMV). Proteins: Structure, Function, and Genetics 21:78–81
    [Google Scholar]
  5. Canady M. A., Larson S. B., Day J., McPherson A. 1996; Crystal structure of turnip yellow mosaic virus. Nature: Structural Biology 3:771–781
    [Google Scholar]
  6. Carrington J. C., Morris T. J., Stockley P. G., Harrison S. C. 1987; Structure and assembly of turnip crinkle virus. IV. Analysis of the coat protein gene and implications of the subunit primary structure. Journal of Molecular Biology 194:265–276
    [Google Scholar]
  7. Chapman S., Hills G., Watts J., Baulcombe D. 1992; Mutational analysis of the coat protein gene of potato virus X: effects on virion morphology and viral pathogenicity. Virology 191:223–230
    [Google Scholar]
  8. Colman P. M., Tulloch P. A., Shukla D. D., Gough K. H. 1980; Particle and crystal symmetry of erysimum latent virus. Journal of Molecular Biology 142:263–268
    [Google Scholar]
  9. Ding S.-W., Keese P., Gibbs A. 1989; Nucleotide sequence of the ononis yellow mosaic virus genome. Virology 172:555–563
    [Google Scholar]
  10. Ding S.-W., Keese P., Gibbs A. 1990a; The nucleotide sequence of the genomic RNA of Kennedya yellow mosaic tymovirus-Jervis Bay isolate: relationships with potex- and carlaviruses. Journal of General Virology 71:925–931
    [Google Scholar]
  11. Ding S.-W., Howe J., Mackenzie A., Skotnicki M., Gibbs A. 1990b; Nucleotide sequence of the virion protein gene of belladonna mottle tymovirus. Nucleic Acids Research 18:6138
    [Google Scholar]
  12. Dolja V. V., Haldeman R., Robertson N. L., Dougherty W. G., Carrington J. C. 1994; Distinct functions of capsid protein in assembly and movement of tobacco etch potyvirus in plants. EMBO Journal 13:1482–1491
    [Google Scholar]
  13. Dolja V. V., Haldeman-Cahill R., Montgomery A. E., Vandenbosch K. A., Carrington J. C. 1995; Capsid protein determinants involved in cell-to-cell and long distance movement of tobacco etch potyvirus. Virology 206:1007–1016
    [Google Scholar]
  14. Ehresmann B., Briand J. P., Reinbolt J., Witz J. 1980; Identification of binding sites of turnip yellow mosaic virus protein and RNA by crosslinks induced in situ . European Journal of Biochemistry 108:123–129
    [Google Scholar]
  15. Eisenberg D., Schwarz E., Komaromy M., Wall R. 1984; Analysis of membrane and surface protein sequences with the hydrophobic moment plot. Journal of Molecular Biology 179:125–142
    [Google Scholar]
  16. Gibbs A. J. 1994; Tymoviruses. In Encyclopedia of Virology 3 pp 1500–1502 Granoff A., Webster R. G. Edited by London: Academic Press;
    [Google Scholar]
  17. Gribskov M., McLachlan A. D., Eisenberg D. 1987; Profile analysis: detection of distantly related proteins. Proceedings of the National Academy of Sciences, USA 84:4355–4358
    [Google Scholar]
  18. Guy P. L., Dale J. L., Adena M. A., Gibbs A. J. 1984; A taxonomic study of the host ranges of tymoviruses. Plant Pathology 33:337–346
    [Google Scholar]
  19. Jacob A. N., Murthy M. R., Savithri H. S. 1992; Nucleotide sequence of the 3ʹ terminal region of belladonna mottle virus-Iowa (renamed Physalis mottle virus) RNA and an analysis of the relationships of tymoviral coat proteins. Archives of Virology 123:367–377
    [Google Scholar]
  20. Jagadish M. N., Edwards S. J., Hayden M. B., Grusovin J., Vanden-berg K., Schoofs P., Hamilton R. C., Shukla D. D., Kalnins H., MacNamara M., Haynes J., Nisbet I. T., Ward C. W., Pye D. 1996; Chimeric potyvirus-like particles as vaccine carriers. Intervirology 39:85–92
    [Google Scholar]
  21. Joelson T., Akerblom L., Oxelfelt P., Strandberg B., Tomenius K. 1997; Presentation of a foreign peptide on the surface of tomato bushy stunt virus. Journal of General Virology 75:1213–1217
    [Google Scholar]
  22. Keese P., Mackenzie A., Gibbs A. 1989; Nucleotide sequence of the genome of an Australian isolate of turnip yellow mosaic virus. Virology 172:536–546
    [Google Scholar]
  23. Klug A., Finch J. T. 1960; The symmetries of the protein and nucleic acid in turnip yellow mosaic virus: X-ray diffraction studies. Journal of Molecular Biology 2:201–215
    [Google Scholar]
  24. Klug A., Finch J. T., Franklin R. E. 1957; The structure of turnip yellow mosaic virus : X-ray diffraction studies. Biochimica et Biophysica Acta 25:242–252
    [Google Scholar]
  25. Korber B. 1994; Analysis III-E. In Human Retroviruses and AIDS 1994: A Compilation and Analysis of Nucleic Acid and Amino Acid Sequences Myers G., Wain-Hobson S., Henderson L. E., Mex N. Edited by Los Alamos, N. Mex: Los Alamos National Laboratory;
    [Google Scholar]
  26. Kyte J., Doolittle R. F. 1982; A simple method for displaying the hydropathic character of a protein. Journal of Molecular Biology 157:105–132
    [Google Scholar]
  27. Li Q., GomezYalfal A., Mie-HaLee Y., Hogle J., Chow M. 1994; Poliovirus neutralization by antibodies to internal epitopes of VP4 and VP1 results from reversible exposure of these sequences at physiological temperature. Journal of Virology 68:3965–3970
    [Google Scholar]
  28. Matthews R. E. F. 1991 Plant Virology, 3rd edn. New York: Academic Press;
    [Google Scholar]
  29. Morch M. D., Boyer J. C., Haenni A. L. 1988; Overlapping open reading frames revealed by complete nucleotide sequencing of turnip yellowmosaicvirus genomicRNA. NucleicAcidsResearch 16:6157–6173
    [Google Scholar]
  30. Osorio-Keese M., Keese P., Gibbs A. 1989; Nucleotide sequence of the genome of eggpplant mosaic tymovirus. Virology 172:547–554
    [Google Scholar]
  31. Peterson M. G., Coppel R. L., McIntyre P., Langford C. J., Woodrow G., Brown G. V., Anders R. F., Kemp D. J. 1988; Variation in the precursor to the major merozoite surface antigens of Plasmodium falciparum . Molecular and Biochemical Parasitology 27:291–302
    [Google Scholar]
  32. Porta C., Spall V. E., Lin T., Johnson J. E., Lomonossoff G. P. 1996; The development of cowpea mosaic virus as a potential source of novel vaccines. Intervirology 39:79–84
    [Google Scholar]
  33. Pratt D., Briand J. P., van Regenmortel M. H. 1980; Immunochemical studies of turnip yellow mosaic virus. I. Localization of four antigenic regions in the protein subunit. Molecular Immunology 17:1167–1171
    [Google Scholar]
  34. Quesniaux V., Briand J. P., van Regenmortel M. H. 1983a; Immunochemical studies of turnip yellow mosaic virus. II. Localization of a viral epitope in the N terminal residues of the coat protein. Molecular Immunology 20:179–185
    [Google Scholar]
  35. Quesniaux V., Jaegle M., van Regenmortel M. H. 1983b; Immunochemical studies of turnip yellow mosaic virus. III. Localization of two viral epitopes in residues 5–764 and 183–189 of the coat protein. Biochimica et Biophysica Acta 743:226–231
    [Google Scholar]
  36. Rost B., Sander C., Schneider R. 1994; PHD - an automatic mail server for protein secondary structure prediction. CABIOS 10:53–60
    [Google Scholar]
  37. Sambrook J., Fritsch E. F., Maniatis T. 1989 Molecular Cloning: A Laboratory Manual, 2nd edn.. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory;
    [Google Scholar]
  38. Skotnicki M. L., Mackenzie A. M., Gibbs A. J. 1992; Turnip yellow mosaic virus variants produced from DNA clones encoding their genomes. Archives of Virology 127:25–35
    [Google Scholar]
  39. Srifah P., Keese P., Shukla D., Gibbs A. 1990; The primary structure of the virion protein gene, and encoded protein, of erysimum latent tymovirus. Journal of General Virology 71:3085–3088
    [Google Scholar]
  40. Staden R. 1984; A computer program to enter DNA gel reading data into a computer. Nucleic Acids Research 12:499–503
    [Google Scholar]
  41. Suzuki M., Kuwata S., Kataoka J., Masuta C., Nitta N., Takanami Y. 1991; Functional analysis of deletion mutants of cucumber mosaic virus RNA3 using an in vitro transcription system. Virology 183:106–113
    [Google Scholar]
  42. Titus D. E. 1991 Promega Protocols and Applications Guide, 2nd edn.. Madison, Wisconsin: Promega Corp;
    [Google Scholar]
  43. Verwoerd T. C., Dekker B. M. M., Hoekema A. 1989; A small-scale procedure for the rapid isolation of plant RNAs. NucleicAcids Research 17:2362
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/jgv/10.1099/0022-1317-79-2-395
Loading
/content/journal/jgv/10.1099/0022-1317-79-2-395
Loading

Data & Media loading...

Most cited this month Most Cited RSS feed

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error