Abstract
The sequence of the 3'-terminal 1210 nucleotides of RNA 1 and the complete sequence of 3389 nucleotides of RNA 2 of tobacco rattle virus (TRV) strain TCM has been deduced. The sequence of the 3'-terminal 1099 nucleotides of RNAs 1 and 2 was found to be identical. Thus the genome of this TRV strain is partially diploid, encoding a 16K protein in both RNA 1 and RNA 2. The sequence that is unique to RNA 2 contains two open reading frames: the coat protein cistron and a cistron for a 29.1K protein, which shows no homology with the RNA 1 encoded 28.8K protein. cDNA probes corresponding to these two open reading frames cross-hybridized to pea early-browning virus RNA 2, but not to RNA 2 of five other tobraviruses tested.
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Selected References
These references are in PubMed. This may not be the complete list of references from this article.
- Bergh S. T., Koziel M. G., Huang S. C., Thomas R. A., Gilley D. P., Siegel A. The nucleotide sequence of tobacco rattle virus RNA-2 (CAM strain). Nucleic Acids Res. 1985 Dec 9;13(23):8507–8518. doi: 10.1093/nar/13.23.8507. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Biggin M. D., Gibson T. J., Hong G. F. Buffer gradient gels and 35S label as an aid to rapid DNA sequence determination. Proc Natl Acad Sci U S A. 1983 Jul;80(13):3963–3965. doi: 10.1073/pnas.80.13.3963. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Boccara M., Hamilton W. D., Baulcombe D. C. The organisation and interviral homologies of genes at the 3' end of tobacco rattle virus RNA1. EMBO J. 1986 Feb;5(2):223–229. doi: 10.1002/j.1460-2075.1986.tb04202.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Bol J. F., Brederode F. T., Janze G. C., Rauh D. K. Studies on sequence homology between the RNA's of alfalfa mosaic virus. Virology. 1975 May;65(1):1–15. doi: 10.1016/0042-6822(75)90002-1. [DOI] [PubMed] [Google Scholar]
- Cornelissen B. J., Linthorst H. J., Brederode F. T., Bol J. F. Analysis of the genome structure of tobacco rattle virus strain PSG. Nucleic Acids Res. 1986 Mar 11;14(5):2157–2169. doi: 10.1093/nar/14.5.2157. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Donis-Keller H., Maxam A. M., Gilbert W. Mapping adenines, guanines, and pyrimidines in RNA. Nucleic Acids Res. 1977 Aug;4(8):2527–2538. doi: 10.1093/nar/4.8.2527. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Fritsch C., Mayo M. A., Hirth L. Further studies on the translation products of tobacco rattle virus RNA in vitro. Virology. 1977 Apr;77(2):722–732. doi: 10.1016/0042-6822(77)90494-9. [DOI] [PubMed] [Google Scholar]
- Harrison B. D., Robinson D. J. The tobraviruses. Adv Virus Res. 1978;23:25–77. doi: 10.1016/s0065-3527(08)60097-4. [DOI] [PubMed] [Google Scholar]
- Henikoff S. Unidirectional digestion with exonuclease III creates targeted breakpoints for DNA sequencing. Gene. 1984 Jun;28(3):351–359. doi: 10.1016/0378-1119(84)90153-7. [DOI] [PubMed] [Google Scholar]
- Kieny M. P., Lathe R., Lecocq J. P. New versatile cloning and sequencing vectors based on bacteriophage M13. Gene. 1983 Dec;26(1):91–99. doi: 10.1016/0378-1119(83)90039-2. [DOI] [PubMed] [Google Scholar]
- Koper-Zwarthoff E. C., Lockard R. E., Alzner-deWeerd B., RajBhandary U. L., Bol J. F. Nucleotide sequence of 5' terminus of alfalfa mosaic virus RNA 4 leading into coat protein cistron. Proc Natl Acad Sci U S A. 1977 Dec;74(12):5504–5508. doi: 10.1073/pnas.74.12.5504. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Mayo M. A., Fritsch C., Hirth L. Translation of tobacco rattle virus RNA in vitro using wheat germ extracts. Virology. 1976 Feb;69(2):408–415. doi: 10.1016/0042-6822(76)90472-4. [DOI] [PubMed] [Google Scholar]
- Messing J. New M13 vectors for cloning. Methods Enzymol. 1983;101:20–78. doi: 10.1016/0076-6879(83)01005-8. [DOI] [PubMed] [Google Scholar]
- Peattie D. A. Direct chemical method for sequencing RNA. Proc Natl Acad Sci U S A. 1979 Apr;76(4):1760–1764. doi: 10.1073/pnas.76.4.1760. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Peattie D. A., Gilbert W. Chemical probes for higher-order structure in RNA. Proc Natl Acad Sci U S A. 1980 Aug;77(8):4679–4682. doi: 10.1073/pnas.77.8.4679. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Sanger F., Nicklen S., Coulson A. R. DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci U S A. 1977 Dec;74(12):5463–5467. doi: 10.1073/pnas.74.12.5463. [DOI] [PMC free article] [PubMed] [Google Scholar]