1887

Abstract

Cloned cDNA copies of the genomic RNA of melon necrotic spot virus (MNSV) have been sequenced and the sizes and locations of predicted viral proteins have been deduced. The genome consists of at least 4262 nucleotides and the positive strand contains three to five open reading frames (ORFs) which may be expressed. The 5′ proximal ORF encodes a 29K protein (p29) and terminates with an amber codon which may be read through to produce an 89K protein (p89). Two small centrally located ORFs each encode a 7K protein (p7A and p7B). As p7A is in frame with p7B, readthrough of the amber codon terminating p7A may occur, producing a 14K protein (pi4). The 3′ proximal ORF encodes the 42K coat protein. The genomic organization of MNSV, its probable translation strategy and the amino acid sequences of its putative proteins closely resemble those of known carmoviruses, suggesting that MNSV should be classified as a member of the carmovirus group. Unusual properties of the putative MNSV replicase (p89) suggest that MNSV should be classified in a new virus supergroup with several other viruses sharing these properties.

Loading

Article metrics loading...

/content/journal/jgv/10.1099/0022-1317-71-9-1887
1990-09-01
2024-04-19
Loading full text...

Full text loading...

/deliver/fulltext/jgv/71/9/JV0710091887.html?itemId=/content/journal/jgv/10.1099/0022-1317-71-9-1887&mimeType=html&fmt=ahah

References

  1. Argos P. 1988; A sequence motif in many polymerases. Nucleic Acids Research 16:9909–9916
    [Google Scholar]
  2. Barr P. J., Thayer R. M., Laybourn P., Najarian R. C., Seela F., Tolan D. R. 1986; 7-deaza-2′-deoxyguanosine-5′-triphosphate: enhanced resolution in M13 dideoxy sequencing. BioTechniques 4:428–432
    [Google Scholar]
  3. Bos L., van Dorst H. J. M., Huttinga H., Maat D. Z. 1984; Further characterization of melon necrotic spot virus causing severe disease in glasshouse cucumbers in the Netherlands and its control. Netherlands Journal of Plant Pathology 90:55–69
    [Google Scholar]
  4. Carrington J. C., Morris T. J. 1986; High resolution mapping of carnation mottle virus-associated RNAs. Virology 150:196–206
    [Google Scholar]
  5. 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]
  6. Carrington J. C., Heaton L. A., Zuidema D., Hillman B. I., Morris T. J. 1989; The genome structure of turnip crinkle virus. Virology 170:219–226
    [Google Scholar]
  7. Dayhoff M. O., Schwartz R. M., Orcutt B. C. 1978; .A model of evolutionary change in proteins. In Atlas of Protein Sequence and Structure 5 pp. 345–352 Dayhoff M. O. Edited by Washington, D.C: National Biomedical Research Foundation;
    [Google Scholar]
  8. Feng D., Doolittle R. F. 1987; Progressive sequence alignment as a prerequisite to correct phylogenetic trees. Journal of Molecular Evolution 25:351–360
    [Google Scholar]
  9. Goldbach R. 1987; Genome similarities between plant and animal RNA viruses. Microbiological Sciences 4:197–202
    [Google Scholar]
  10. Gorbalenya A. E., Koonin E. V., Donchenko A. P., Blinov V. M. 1988; A conserved NTP-motif in putative helicases. Nature; London: 33322
    [Google Scholar]
  11. Gorbalenya A. E., Blinov V. M., Donchenko A. P., Koonin E. V. 1989; An NTP-binding motif is the most conserved sequence in a highly diverged monophyletic group of proteins involved in positive strand RNA viral replication. Journal of Molecular Evolution 28:256–268
    [Google Scholar]
  12. Guilley H., Carrington J. C., Balazs E., Jonard G., Richards K., Morris T. J. 1985; Nucleotide sequence and genome organization of carnation mottle virus RNA. Nucleic Acids Research 13:6663–6677
    [Google Scholar]
  13. Habili N., Symons R. H. 1989; Evolutionary relationship between luteoviruses and other RNA plant viruses based on sequence motifs in their putative RNA polymerases and nucleic acid helicases. Nucleic Acids Research 17:9543–9555
    [Google Scholar]
  14. Harbison S.-A., Davies J. W., Wilson T. M. A. 1985; Expression of high molecular weight polypeptides by carnation mottle virus RNA. Journal of General Virology 66:2597–2604
    [Google Scholar]
  15. Henikoff S. 1984; Unidirectional digestion with exonuclease III creates targeted breakpoints for DNA sequencing. Gene 28:351–359
    [Google Scholar]
  16. Hibi T., Furuki I. 1985; Melon necrotic spot virus. CMI/AAB Descriptions of Plant Viruses302
    [Google Scholar]
  17. Hillman B. I., Hearne P., Rochon D., Morris T. J. 1989; Organization of tomato bushy stunt virus genome: characterization of the coat protein gene and the 3′ terminus. Virology 169:42–50
    [Google Scholar]
  18. Hodgman T. C. 1988; A new superfamily of replicative proteins. Nature; London: 33322–23
    [Google Scholar]
  19. Kamer G., Argos P. 1984; Primary structural comparison of RNA-dependent polymerases from plant, animal and bacterial viruses. Nucleic Acids Research 12:7269–7282
    [Google Scholar]
  20. Korneluk R. G., Quan F., Gravel R. A. 1985; Rapid and reliable dideoxy sequencing of double-stranded DNA. Gene 40:317–323
    [Google Scholar]
  21. Mcmaster G. K., Carmichael G. C. 1977; Analysis of single- and double-stranded nucleic acids on polyacrylamide and agarose gels by using glyoxal and acridine orange. Proceedings of the National Academy of Sciences, U.S.A 74:4835–4838
    [Google Scholar]
  22. Martin R. 1987; Overcoming DNA sequencing artifacts: stops and compressions. Focus 9,(1)8–10 Gaithersburg: BRL;
    [Google Scholar]
  23. Miller R. H., Purcell R. H. 1990; Hepatitis C virus shares amino acid sequence similarity with pestiviruses and flaviviruses as well as members of two plant virus supergroups. Proceedings of the National Academy of Sciences, U.S.A 87:2057–2061
    [Google Scholar]
  24. Miller W. A., Waterhouse P. M., Gerlach W. L. 1988; Sequence and organization of barley yellow dwarf virus genomic RNA. Nucleic Acids Research 16:6097–6111
    [Google Scholar]
  25. Morris T. J., Carrington J. C. 1988; Carnation mottle virus and viruses with similar properties. In The Plant Viruses 3 pp. 73–112 Koenig R. Edited by New York: Plenum Press;
    [Google Scholar]
  26. Needleman S. B., Wunsch C. D. 1970; General method applicable to the search for similarities in the amino acid sequence of two proteins. Journal of Molecular Biology 48:443–453
    [Google Scholar]
  27. Nutter R. C., Scheets K., Panganiban L. C., Lommel S. A. 1989; The complete nucleotide sequence of the maize chlorotic mottle virus genome. Nucleic Acids Research 17:3163–3177
    [Google Scholar]
  28. Pearson W. R., Lipman D. J. 1988; Improved tools for biological sequence comparison. Proceedings of the National Academy of Sciences, U.S.A 85:2444–2448
    [Google Scholar]
  29. Pustell J., Kafatos F. C. 1984; Convenient and adaptable package of computer programs for DNA protein sequence management, analysis and homology determination. Nucleic Acids Research 12:643–655
    [Google Scholar]
  30. Rao A. L. N., Dreher T. W., Marsh L. E., Hall T. C. 1989; Telomeric function of the tRNA-like structure of brome mosaic virus RNA. Proceedings of the National Academy of Sciences, U.S.A 86:5335–5339
    [Google Scholar]
  31. Rigby P. W. J., Dieckmann M., Rhodes C., Berg P. 1977; Labelling deoxyribonucleic acid to high specific activity in vitro by nick translation with DNA polymerase I. Journal of Molecular Biology 113:237–251
    [Google Scholar]
  32. Riviere C. J., Pot J., Tremaine J. H., Rochon D. M. 1989; Coat protein of melon necrotic spot carmovirus is more similar to those of tombusviruses than those of carmoviruses. Journal of General Virology 70:3033–3042
    [Google Scholar]
  33. Rochon D. M., Tremaine J. H. 1989; Complete nucleotide sequence of the cucumber necrosis virus genome. Virology 169:251–259
    [Google Scholar]
  34. Sanger F., Nicklen S., Coulson A. R. 1977; DNA sequencing with chain-terminating inhibitors. Proceedings of the National Academy of Sciences, U.S.A 74:5463–5467
    [Google Scholar]
  35. Siegel A., Hari V., Montgomery I., Kolacz K. 1976; A messenger RNA for capsid protein isolated from tobacco mosaic virus-infected tissue. Virology 73:363–371
    [Google Scholar]
  36. Staden R. 1982; An interactive graphics program for comparing and aligning nucleic acid and amino acid sequences. Nucleic Acids Research 10:2951–2961
    [Google Scholar]
  37. Tabor S., Richardson C. C. 1987; DNA sequence analysis with a modified bacteriophage T7 DNA polymerase. Proceedings of the National Academy of Sciences, U.S.A 84:4767–4771
    [Google Scholar]
  38. Toneguzzo F., Glynn S., Levi E., Mjolsness S., Hayday A. 1988; Use of a chemically modified T7 DNA polymerase for manual and automated sequencing of supercoiled DNA. Bio-Techniques 6:460–469
    [Google Scholar]
  39. Vrati S., Mann D. A., Reed K. C. 1987; Alkaline northern blots: transfer of RNA from agarose gels to Zeta-ProbeTM membrane in dilute NaOH. Molecular Biology Reports 1,(3)1–4 Richmond: Bio-Rad;
    [Google Scholar]
  40. Xiong Z., Lommel S. A. 1989; The complete nucleotide sequence and genome organization of red clover necrotic mosaic virus RNA-1. Virology 171:543–554
    [Google Scholar]
  41. Zimmern D. 1988; Evolution of RNA viruses. In RNA Genetics II Retroviruses, Viroids and RNA Recombination pp. 211–240 Domingo E., Holland J. J., Ahlquist P. Edited by Boca Raton: CRC Press;
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/jgv/10.1099/0022-1317-71-9-1887
Loading
/content/journal/jgv/10.1099/0022-1317-71-9-1887
Loading

Data & Media loading...

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