In Vitro Selection of Packaging Sites in a Double-stranded RNA Virus

Overview

Journal J Virol

Publisher American Society for Microbiology

Date 1997 Mar 1

PMID 9032349

Citations 2

Authors

W Yao

K Adelman

J A Bruenn

Affiliations

Soon will be listed here.

Abstract

The Saccharomyces cerevisiae double-stranded RNA virus ScVL1 recognizes a small sequence in the viral plus strand for both packaging and replication. Viral particles will bind to this viral binding sequence (VBS) with high affinity in vitro. An in vitro selection procedure has been used to optimize binding, and the sequences isolated have been analyzed for packaging and replication in vivo. The selected sequence consists of a stem with a bulged A residue topped by a loop of several bases. Four residues of the 18 bases are absolutely conserved for tight binding. These all fall in regions that appear to be single stranded. Eight more residues have preferred identities, and six of these are in the stem. The VBS is similar to the R17 bacteriophage coat protein binding site. Packaging and replication require tight binding to viral particles.

Citing Articles

Solution structure of the SL1 RNA of the M1 double-stranded RNA virus of Saccharomyces cerevisiae.

Yoo J, Cheong H, Lee B, Kim Y, Cheong C Biophys J. 2001; 80(4):1957-66.

PMID: 11259308 PMC: 1301384. DOI: 10.1016/S0006-3495(01)76165-6.

Functions of conserved motifs in the RNA-dependent RNA polymerase of a yeast double-stranded RNA virus.

Routhier E, Bruenn J J Virol. 1998; 72(5):4427-9.

PMID: 9557735 PMC: 109675. DOI: 10.1128/JVI.72.5.4427-4429.1998.

References

Yao W, Muqtadir K, Bruenn J . Packaging in a yeast double-stranded RNA virus. J Virol. 1995; 69(3):1917-9. PMC: 188807. DOI: 10.1128/JVI.69.3.1917-1919.1995. View

Baumann C, Otridge J, Gollnick P . Kinetic and thermodynamic analysis of the interaction between TRAP (trp RNA-binding attenuation protein) of Bacillus subtilis and trp leader RNA. J Biol Chem. 1996; 271(21):12269-74. DOI: 10.1074/jbc.271.21.12269. View

Fujimura T, RIBAS J, Makhov A, Wickner R . Pol of gag-pol fusion protein required for encapsidation of viral RNA of yeast L-A virus. Nature. 1992; 359(6397):746-9. DOI: 10.1038/359746a0. View

El-Sherbeini M, Tipper D, Mitchell D, Bostian K . Virus-like particle capsid proteins encoded by different L double-stranded RNAs of Saccharomyces cerevisiae: their roles in maintenance of M double-stranded killer plasmids. Mol Cell Biol. 1984; 4(12):2818-27. PMC: 369293. DOI: 10.1128/mcb.4.12.2818-2827.1984. View

Thiele D, Hannig E, Leibowitz M . Multiple L double-stranded RNA species of Saccharomyces cerevisiae: evidence for separate encapsidation. Mol Cell Biol. 1984; 4(1):92-100. PMC: 368662. DOI: 10.1128/mcb.4.1.92-100.1984. View

Wickner R . Double-stranded RNA viruses of Saccharomyces cerevisiae. Microbiol Rev. 1996; 60(1):250-65. PMC: 239427. DOI: 10.1128/mr.60.1.250-265.1996. View

Cheng R, Caston J, Wang G, Gu F, Smith T, Baker T . Fungal virus capsids, cytoplasmic compartments for the replication of double-stranded RNA, formed as icosahedral shells of asymmetric Gag dimers. J Mol Biol. 1994; 244(3):255-8. DOI: 10.1006/jmbi.1994.1726. View

Tuerk C, Gold L . Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase. Science. 1990; 249(4968):505-10. DOI: 10.1126/science.2200121. View

Tzeng T, Tu C, Bruenn J . Ribosomal frameshifting requires a pseudoknot in the Saccharomyces cerevisiae double-stranded RNA virus. J Virol. 1992; 66(2):999-1006. PMC: 240802. DOI: 10.1128/JVI.66.2.999-1006.1992. View

10.

Reilly J, Bruenn J, HELD W . The capsid polypeptides of the yeast viruses. Biochem Biophys Res Commun. 1984; 121(2):619-25. DOI: 10.1016/0006-291x(84)90227-4. View

11.

Antson A, Otridge J, Brzozowski A, Dodson E, Dodson G, Wilson K . The structure of trp RNA-binding attenuation protein. Nature. 1995; 374(6524):693-700. DOI: 10.1038/374693a0. View

12.

Fujimura T, Esteban R, Esteban L, Wickner R . Portable encapsidation signal of the L-A double-stranded RNA virus of S. cerevisiae. Cell. 1990; 62(4):819-28. DOI: 10.1016/0092-8674(90)90125-x. View

13.

Huan B, Shen Y, Bruenn J . In vivo mapping of a sequence required for interference with the yeast killer virus. Proc Natl Acad Sci U S A. 1991; 88(4):1271-5. PMC: 50999. DOI: 10.1073/pnas.88.4.1271. View

14.

Fujimura T, Wickner R . Gene overlap results in a viral protein having an RNA binding domain and a major coat protein domain. Cell. 1988; 55(4):663-71. DOI: 10.1016/0092-8674(88)90225-5. View

15.

Innis M, Holland M, McCabe P, Cole G, Wittman V, Tal R . Expression, Glycosylation, and Secretion of an Aspergillus Glucoamylase by Saccharomyces cerevisiae. Science. 1985; 228(4695):21-6. DOI: 10.1126/science.228.4695.21. View

16.

Diamond M, Dowhanick J, Nemeroff M, Pietras D, Tu C, Bruenn J . Overlapping genes in a yeast double-stranded RNA virus. J Virol. 1989; 63(9):3983-90. PMC: 250995. DOI: 10.1128/JVI.63.9.3983-3990.1989. View

17.

SANGER F, Nicklen S, Coulson A . DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci U S A. 1977; 74(12):5463-7. PMC: 431765. DOI: 10.1073/pnas.74.12.5463. View

18.

Saiki R, Gelfand D, Stoffel S, Scharf S, Higuchi R, Horn G . Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase. Science. 1988; 239(4839):487-91. DOI: 10.1126/science.2448875. View

19.

Romaniuk P, Lowary P, Wu H, Stormo G, Uhlenbeck O . RNA binding site of R17 coat protein. Biochemistry. 1987; 26(6):1563-8. DOI: 10.1021/bi00380a011. View

20.

Schneider D, Tuerk C, Gold L . Selection of high affinity RNA ligands to the bacteriophage R17 coat protein. J Mol Biol. 1992; 228(3):862-9. DOI: 10.1016/0022-2836(92)90870-p. View