1887

Abstract

The application of the polymerase chain reaction DNA amplification technique to the detection and typing of isolates of maize streak virus (MSV) and other related geminiviruses of grasses is described. The oligonucleotide primers used for amplification were 17-mers which contained a number of degeneracies. An approximately 250 base pair fragment was amplified from all geminivirus-infected grass and cereal samples tested. The amplification reaction was specific, working down to a concentration of 50 fg/ml of MSV-specific plasmid-cloned DNA and with a 10 dilution of MSV- infected maize DNA extract. DNA could also be amplified from distantly related geminiviruses, including two different sugarcane viruses, digitaria streak virus and another as yet uncharacterized virus of a sp. Amplified DNA from a Mauritian sugarcane isolate (SSV-M) was cloned and sequenced. Sequence comparison and phylogenetic analysis showed that this sequence differed sufficiently from the analogous region of other geminiviruses for SSV-M to be considered a distinct virus. The use of the polymerase chain reaction for the amplification of gemini- and other virus genomes or genomic fragments for typing, mapping, phylogenetic analysis and taxonomy is discussed.

Loading

Article metrics loading...

/content/journal/jgv/10.1099/0022-1317-71-11-2519
1990-11-01
2021-10-21
Loading full text...

Full text loading...

/deliver/fulltext/jgv/71/11/JV0710112519.html?itemId=/content/journal/jgv/10.1099/0022-1317-71-11-2519&mimeType=html&fmt=ahah

References

  1. Andersen M. T., Richardson K. A., Harbison S.-A., Morris B. A. M. 1988; Nucleotide sequence of the geminivirus chloris striate mosaic virus. Virology 164:443–449
    [Google Scholar]
  2. Boulton M. I., Steinkellner H., Donson J., Markham P. G., King D. I., Davies J. W. 1989; Mutational analysis of the virion-sense genes of maize streak virus. Journal of General Virology 70:2309–2323
    [Google Scholar]
  3. Clarke B. A., Rybicki E. P., Hughes F. L., Kirby R., Von Wechmar M. B. 1989; Characterization of southern African isolates of maize streak virus: typing of three isolates by restriction mapping. Intervirology 30:86–95
    [Google Scholar]
  4. Dekker E. L., Pinner M. S., Markham P. G., Van Regenmortel M. H. V. 1988; Characterization of maize streak virus isolates from different plant species by polyclonal and monoclonal antibodies. Journal of General Virology 69:983–990
    [Google Scholar]
  5. Devereux J., Haeberli P., Smithies O. 1984; A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Research 12:387–395
    [Google Scholar]
  6. Donson J., Accotto G. -P., Boulton M. I., Mullineaux P. M., Davies J. W. 1987; The nucleotide sequence of a geminivirus from Digitaria sanguinalis . Virology 161:160–169
    [Google Scholar]
  7. Felsenstein J. 1984; Distance methods for inferring phylogenies: a justification. Evolution 38:16–24
    [Google Scholar]
  8. Fitch W. M., Margoliash E. 1967; Construction of phylogenetic trees. Science 155:279–284
    [Google Scholar]
  9. Gama R. E., Horsnell P. R., Hughes P. J., North C., Bruce C. B., Alnakib W., Stanway G. 1989; Amplification of rhinovirus specific nucleic acids from clinical samples using the polymerase chain reaction. Journal of Medical Virology 28:73–77
    [Google Scholar]
  10. Gibbs A., Fenner F. 1984; Methods for comparing sequence data such as restriction endonuclease maps or nucleotide sequences of viral nucleic acid molecules. Journal of Virological Methods 9:317–324
    [Google Scholar]
  11. Goldbach R. 1987; Genome similarities between plant and animal RNA viruses. Microbiological Sciences 4:197–202
    [Google Scholar]
  12. Goodman R. M. 1981; Geminiviruses. In Handbook of Plant Virus Infections pp. 879–910 Kurstak E. Edited by Amsterdam: Elsevier/North-Holland;
    [Google Scholar]
  13. Howarth A. J., Vandemark G. J. 1989; Phylogeny of geminiviruses. Journal of General Virology 70:2717–2727
    [Google Scholar]
  14. Howell S. H. 1984; Physical structure and genetic organisation of the genome of maize streak virus (Kenyan isolate). Nucleic Acids Research 12:7359–7375
    [Google Scholar]
  15. Hughes F. L., Rybicki E. P., Kirby R., Von Wechmar M. B. 1990; Characterization of the sugarcane streak agent as a distinct geminivirus. Intervirology in press
    [Google Scholar]
  16. Ikegami M., Yazaki K., Chatani M., Mizuta H. 1989; Molecular cloning and physical mapping of the DNA of miscanthus streak geminivirus. Intervirology 30:340–345
    [Google Scholar]
  17. Ish-Horowicz D., Burke J. F. 1981; Rapid and efficient cosmid vector cloning. Nucleic Acids Research 9:2989–2998
    [Google Scholar]
  18. Kirby R., Clarke B. A., Rybicki E. P. 1989; Evolutionary relationship of three southern African maize streak virus isolates. Intervirology 30:96–101
    [Google Scholar]
  19. Lazarowitz S. G. 1987; The molecular characterization of geminiviruses. Plant Molecular Biology Reporter 4:177–192
    [Google Scholar]
  20. Lazarowitz S. G. 1988; Infectivity and complete nucleotide sequence of the genome of a South African isolate of maize streak virus. Nucleic Acids Research 16:229–249
    [Google Scholar]
  21. Lazarowitz S. G., Pinder A. J., Damsteegt V. D., Rogers S. G. 1989; Maize streak virus genes essential for systemic spread and symptom development. EMBO Journal 8:1023–1032
    [Google Scholar]
  22. MacDowell S. W., MacDonald H., Hamilton W. D. O., Coutts R. H. A., Buck K. W. 1985; The nucleotide sequence of cloned wheat dwarf virus DNA. EMBO Journal 4:2173–2180
    [Google Scholar]
  23. Maniatis T., Fritsch E. F., Sambrook J. 1982 Molecular Cloning: A Laboratory Manual New York: Cold Spring Harbor Laboratory;
    [Google Scholar]
  24. Mullineaux P. M., Donson J., Morris-KRSINICH B. A. M., Boulton M. I., Davies J. W. 1984; The nucleotide sequence of maize streak virus DNA. EMBO Journal 3:3063–3068
    [Google Scholar]
  25. Pinner M. S., Markham P. G., Markham R. H., Dekker E. L. 1988; Characterisation of maize streak virus: description of strains, symptoms. Plant Pathology 37:74–87
    [Google Scholar]
  26. Puchta H., Sanger H. L. 1989; Sequence analysis of minute amounts of viroid RNA using the polymerase chain reaction (PCR). Archives of Virology 106:335–340
    [Google Scholar]
  27. Puchta H., Ramm K., Luckinger R., Freimuller K., Sanger H. L. 1989; Nucleotide sequence of a hop stunt viroid (HSVd) isolate from the German grapevine rootstock 5Bb as determined by PCR-mediated sequence analysis. Nucleic Acids Research 17:5841
    [Google Scholar]
  28. Rybicki E. P., Hughes F. L., Clarke B. A., Vonwechmar M. B. 1989; Detection and differentiation of isolates of maize streak virus by use of cloned DNA hybridization probes. In Proceedings of the Eighth South African Maize Breeding Symposium 1988 pp. 27–32 du Plessis J. G. Edited by Pretoria: The Government Printer; Technical Communication No
    [Google Scholar]
  29. Saiki R. K., Gelfand D. H., Stoffel S., Scharf S. J., Higuchi R., Horn T., Mullis K. B., Ehrlich H. A. 1988; Primer directed enzymatic amplification of DNA with a thermostable DNA polymerase. Science 239:487–491
    [Google Scholar]
  30. Saitou N., Nei M. 1987; The neighbour-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution 4:406–425
    [Google Scholar]
  31. Schalk H. -J., Matzeit V., Schiller B., Schell J., Gronenborn B. 1989; Wheat dwarf virus, a geminivirus of graminaceous plants needs splicing for replication. EMBO Journal 8:359–364
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/jgv/10.1099/0022-1317-71-11-2519
Loading
/content/journal/jgv/10.1099/0022-1317-71-11-2519
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