Abstract
The two strands of the M double-stranded RNA species from a killer strain of Saccharomyces cerevisiae have been separated, and the 3'-terminal sequences of these strands have been determined. The positive strand programs the synthesis of the putative killer toxin precursor (M-p32) in a rabbit reticulocyte in vitro translation system. Only the negative strand hybridizes to the positive polarity transcript (m) synthesized in vitro by the virion-associated transcriptase activity. Secondary structural analysis of the extreme 3'-terminus of the negative strand using S1 nuclease is consistent with the presence of a large stem and loop structure previously proposed on the basis of RNA sequence data. This structure, and a similar structure at the corresponding 5'-terminus of the positive strand, may have functional significance in vivo.
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- Bailey J. N., McAllister W. T. Mapping of promoter sites utilized by T3 RNA polymerase on T3 DNA. Nucleic Acids Res. 1980 Nov 11;8(21):5071–5088. doi: 10.1093/nar/8.21.5071. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Bonner W. M., Laskey R. A. A film detection method for tritium-labelled proteins and nucleic acids in polyacrylamide gels. Eur J Biochem. 1974 Jul 1;46(1):83–88. doi: 10.1111/j.1432-1033.1974.tb03599.x. [DOI] [PubMed] [Google Scholar]
- Bostian K. A., Hopper J. E., Rogers D. T., Tipper D. J. Translational analysis of the killer-associated virus-like particle dsRNA genome of S. cerevisiae: M dsRNA encodes toxin. Cell. 1980 Feb;19(2):403–414. doi: 10.1016/0092-8674(80)90514-0. [DOI] [PubMed] [Google Scholar]
- Brennan V. E., Bobek L. A., Bruenn J. A. Yeast deRNA viral transcriptase pause products: identification of the transcript strand. Nucleic Acids Res. 1981 Oct 10;9(19):5049–5059. doi: 10.1093/nar/9.19.5049. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Brennan V. E., Field L., Cizdziel P., Bruenn J. A. Sequences at the 3' ends of yeast viral dsRNAs: proposed transcriptase and replicase initiation sites. Nucleic Acids Res. 1981 Aug 25;9(16):4007–4021. doi: 10.1093/nar/9.16.4007. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Bruenn J. A., Brennan V. E. Yeast viral double-stranded RNAs have heterogeneous 3' termini. Cell. 1980 Apr;19(4):923–933. doi: 10.1016/0092-8674(80)90084-7. [DOI] [PubMed] [Google Scholar]
- Bruenn J. A. Virus-like particles of yeast. Annu Rev Microbiol. 1980;34:49–68. doi: 10.1146/annurev.mi.34.100180.000405. [DOI] [PubMed] [Google Scholar]
- Bruenn J., Bobek L., Brennan V., Held W. Yeast viral RNA polymerase is a transcriptase. Nucleic Acids Res. 1980 Jul 11;8(13):2985–2997. doi: 10.1093/nar/8.13.2985. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Buss W. C., Stalter K. Stimulation of eukaryotic transcription by glycerol and polyhydroxylic compounds. Biochemistry. 1978 Oct 31;17(22):4825–4832. doi: 10.1021/bi00615a033. [DOI] [PubMed] [Google Scholar]
- Dodgson J. B., Wells R. D. Action of single-strand specific nucleases on model DNA heteroduplexes of defined size and sequence. Biochemistry. 1977 May 31;16(11):2374–2379. doi: 10.1021/bi00630a010. [DOI] [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]
- Epstein D. A., Herman R. C., Chien I., Lazzarini R. A. Defective interfering particle generated by internal deletion of the vesicular stomatitis virus genome. J Virol. 1980 Feb;33(2):818–829. doi: 10.1128/jvi.33.2.818-829.1980. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Fried H. M., Fink G. R. Electron microscopic heteroduplex analysis of "killer" double-stranded RNA species from yeast. Proc Natl Acad Sci U S A. 1978 Sep;75(9):4224–4228. doi: 10.1073/pnas.75.9.4224. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Hall T. C., Wepprich R. K. Functional possibilities for aminoacylation of viral RNA in transcription and translation. Ann Microbiol (Paris) 1976 Jan;127A(1):143–152. [PubMed] [Google Scholar]
- Hitzeman R. A., Hagie F. E., Levine H. L., Goeddel D. V., Ammerer G., Hall B. D. Expression of a human gene for interferon in yeast. Nature. 1981 Oct 29;293(5835):717–722. doi: 10.1038/293717a0. [DOI] [PubMed] [Google Scholar]
- Hopper J. E., Bostian K. A., Rowe L. B., Tipper D. J. Translation of the L-species dsRNA genome of the killer-associated virus-like particles of Saccharomyces cerevisiae. J Biol Chem. 1977 Dec 25;252(24):9010–9017. [PubMed] [Google Scholar]
- Joklik W. K. Structure and function of the reovirus genome. Microbiol Rev. 1981 Dec;45(4):483–501. doi: 10.1128/mr.45.4.483-501.1981. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Keene J. D., Schubert M., Lazzarini R. A., Rosenberg M. Nucleotide sequence homology at the 3' termini of RNA from vesicular stomatitis virus and its defective interfering particles. Proc Natl Acad Sci U S A. 1978 Jul;75(7):3225–3229. doi: 10.1073/pnas.75.7.3225. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Keene J. D., Thornton B. J., Emerson S. U. Sequence-specific contacts between the RNA polymerase of vesicular stomatitis virus and the leader RNA gene. Proc Natl Acad Sci U S A. 1981 Oct;78(10):6191–6195. doi: 10.1073/pnas.78.10.6191. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Koper-Zwarthoff E. C., Brederode F. T., Veeneman G., van Boom J. H., Bol J. F. Nucleotide sequences at the 5'-termini of the alfalfa mosaic virus RNAs and the intercistronic junction in RNA 3. Nucleic Acids Res. 1980 Dec 11;8(23):5635–5647. doi: 10.1093/nar/8.23.5635. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Kozak M. Possible role of flanking nucleotides in recognition of the AUG initiator codon by eukaryotic ribosomes. Nucleic Acids Res. 1981 Oct 24;9(20):5233–5252. doi: 10.1093/nar/9.20.5233. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Laemmli U. K. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature. 1970 Aug 15;227(5259):680–685. doi: 10.1038/227680a0. [DOI] [PubMed] [Google Scholar]
- Larsen G. R., Semler B. L., Wimmer E. Stable hairpin structure within the 5'-terminal 85 nucleotides of poliovirus RNA. J Virol. 1981 Jan;37(1):328–335. doi: 10.1128/jvi.37.1.328-335.1981. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Lehrach H., Diamond D., Wozney J. M., Boedtker H. RNA molecular weight determinations by gel electrophoresis under denaturing conditions, a critical reexamination. Biochemistry. 1977 Oct 18;16(21):4743–4751. doi: 10.1021/bi00640a033. [DOI] [PubMed] [Google Scholar]
- Li J. K., Keene J. D., Scheible P. P., Joklik W. K. Nature of the 3'-terminal sequences of the plus and minus strands of the S1 gene of reovirus serotypes 1, 2 and 3. Virology. 1980 Aug;105(1):41–51. doi: 10.1016/0042-6822(80)90154-3. [DOI] [PubMed] [Google Scholar]
- Maxam A. M., Gilbert W. Sequencing end-labeled DNA with base-specific chemical cleavages. Methods Enzymol. 1980;65(1):499–560. doi: 10.1016/s0076-6879(80)65059-9. [DOI] [PubMed] [Google Scholar]
- Pavlakis G. N., Jordan B. R., Wurst R. M., Vournakis J. N. Sequence and secondary structure of Drosophila melanogaster 5.8S and 2S rRNAs and of the processing site between them. Nucleic Acids Res. 1979 Dec 20;7(8):2213–2238. doi: 10.1093/nar/7.8.2213. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Pavlakis G. N., Lockard R. E., Vamvakopoulos N., Rieser L., RajBhandary U. L., Vournakis J. N. Secondary structure of mouse and rabbit alpha- and beta-globin mRNAs: differential accessibility of alpha and beta initiator AUG codons towards nucleases. Cell. 1980 Jan;19(1):91–102. doi: 10.1016/0092-8674(80)90391-8. [DOI] [PubMed] [Google Scholar]
- Sherman F., McKnight G., Stewart J. W. AUG is the only initiation codon in eukaryotes. Biochim Biophys Acta. 1980 Sep 19;609(2):343–346. doi: 10.1016/0005-2787(80)90246-4. [DOI] [PubMed] [Google Scholar]
- Simoncsits A., Brownlee G. G., Brown R. S., Rubin J. R., Guilley H. New rapid gel sequencing method for RNA. Nature. 1977 Oct 27;269(5631):833–836. doi: 10.1038/269833a0. [DOI] [PubMed] [Google Scholar]
- Smith R. E., Morgan M. A., Furuichi Y. Separation of the plus and minus strands of cytoplasmic polyhedrosis virus and human reovirus double-stranded genome RNAs by gel electrophoresis. Nucleic Acids Res. 1981 Oct 24;9(20):5269–5286. doi: 10.1093/nar/9.20.5269. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Szalay A. A., Grohmann K., Sinsheimer R. L. Separation of the complementary strands of DNA fragments on polyacrylamide gels. Nucleic Acids Res. 1977;4(5):1569–1578. doi: 10.1093/nar/4.5.1569. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Thiele D. J., Wang R. W., Leibowitz M. J. Separation and sequence of the 3' termini of M double-stranded RNA from killer yeast. Nucleic Acids Res. 1982 Mar 11;10(5):1661–1678. doi: 10.1093/nar/10.5.1661. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Tinoco I., Jr, Borer P. N., Dengler B., Levin M. D., Uhlenbeck O. C., Crothers D. M., Bralla J. Improved estimation of secondary structure in ribonucleic acids. Nat New Biol. 1973 Nov 14;246(150):40–41. doi: 10.1038/newbio246040a0. [DOI] [PubMed] [Google Scholar]
- Welsh D., Leibowitz M. J. Transcription of killer virion double-stranded RNA in vitro. Nucleic Acids Res. 1980 Jun 11;8(11):2365–2375. doi: 10.1093/nar/8.11.2365. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Welsh J. D., Leibowitz M. J. Localization of genes for the double-stranded RNA killer virus of yeast. Proc Natl Acad Sci U S A. 1982 Feb;79(3):786–789. doi: 10.1073/pnas.79.3.786. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Welsh J. D., Leibowitz M. J., Wickner R. B. Virion DNA-independent RNA polymerase from Saccharomyces cerevisiae. Nucleic Acids Res. 1980 Jun 11;8(11):2349–2363. doi: 10.1093/nar/8.11.2349. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Wickner R. B. The killer double-stranded RNA plasmids of yeast. Plasmid. 1979 Jul;2(3):303–322. doi: 10.1016/0147-619x(79)90015-5. [DOI] [PubMed] [Google Scholar]
- Wurst R. M., Vournakis J. N., Maxam A. M. Structure mapping of 5'-32P-labeled RNA with S1 nuclease. Biochemistry. 1978 Oct 17;17(21):4493–4499. doi: 10.1021/bi00614a021. [DOI] [PubMed] [Google Scholar]