The Conformation of the 3′ End of the Minus-Strand DNA Makes Multiple Contributions to Template Switches during Plus-Strand DNA Synthesis of Duck Hepatitis B Virus

Journal of Virology

Volumn 77, Issue 23, 2003, Pages 12401-12411

  Habig, Jeffrey W ^a   Loeb, Daniel D ^a  

^a UNIVERSITY OF WISCONSIN MADISON   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DOUBLE STRANDED DNA; DUPLEX LINEAR DNA; UNCLASSIFIED DRUG; VIRUS DNA;

ANIMAL CELL; ARTICLE; BINDING SITE; CHICKEN; CIRCULARIZATION; CONTROLLED STUDY; DNA CONFORMATION; DNA STRAND; DNA STRUCTURE; DNA SYNTHESIS; DNA TEMPLATE; DONOR SITE; GENE SWITCHING; GENE TRANSLOCATION; HEPADNAVIRIDAE; HEPATITIS B VIRUS; HEPATOMA CELL; NONHUMAN; PLUS STRAND DNA SYNTHESIS; PRIORITY JOURNAL; PROTEIN FOLDING; TEMPLATE SWITCH; ANIMAL; CHEMISTRY; CONFORMATION; DNA REPLICATION; GENE DELETION; GENETICS; HEPATITIS VIRUS; PROTEIN CONFORMATION; TUMOR CELL LINE;

ANIMALS; CELL LINE, TUMOR; CHICKENS; DNA REPLICATION; DNA, VIRAL; HEPATITIS VIRUS, DUCK; NUCLEIC ACID CONFORMATION; PROTEIN CONFORMATION; SEQUENCE DELETION; TEMPLATES, GENETIC;

EID: 0242577755     PISSN: 0022538X     EISSN: None     Source Type: Journal    
DOI: 10.1128/JVI.77.23.12401-12411.2003     Document Type: Article

References (27)

1. Calvert, J., and J. Summers. 1994. Two regions of an avian hepadnavirus RNA pregenome are required in cis for encapsidation. J. Virol. 68:2084-2090.
2. Condreay, L. D., C. E. Aldrich, L. Coates, W. S. Mason, and T. T. Wu. 1990. Efficient duck hepatitis B virus production by an avian liver tumor cell line. J. Virol. 64:3249-3258.
3. Ganem, D. 1996. Hepadnaviridae and their replication, p. 2703-2737. In B. N. Fields, D. M. Knipe, P. M. Howley, et al. (ed.), Fields virology, 3rd ed. Lippincott-Raven, Philadelphia, Pa.
4. Habig, J. W., and D. D. Loeb. 2002. Small DNA hairpin negatively regulates in situ priming during duck hepatitis B virus reverse transcription. J. Virol. 76:980-989.
5. Havert, M. B., L. Ji, and D. D. Loeb. 2002. Analysis of duck hepatitis B virus reverse transcription indicates a common mechanism for the two template switches during plus-strand DNA synthesis. J. Virol. 76:2763-2769.
6. Havert, M. B., and D. D. Loeb. 1997. cis-acting sequences in addition to donor and acceptor sites are required for template switching during synthesis of plus-strand DNA for duck hepatitis B virus. J. Virol. 71:5336-5344.
7. Hirao, I., G. Kawai, S. Yoshizawa, Y. Nishimura, Y. Ishido, K. Watanabe, and K. Miura. 1994. Most compact hairpin-turn structure exerted by a short DNA fragment, d(GCGAAGC) in solution: an extraordinarily stable structure resistant to nucleases and heat. Nucleic Acids Res. 22:576-582.
8. Hirao, I., G. Kawai, S. Yoshizawa, Y. Nishimura, Y. Ishido, K. Watanabe, and K. Miura. 1993. Structural features and properties of an extraordinarily stable hairpin-turn structure of d(GCGAAGC). Nucleic Acids Symp. Ser. 29:205-206.
9. Hirao, I., Y. Nishimura, Y. Tagawa, K. Watanabe, and K. Miura. 1992. Extraordinarily stable mini-hairpins: electrophoretical and thermal properties of the various sequence variants of d(GCGAAAGC) and their effect on DNA sequencing. Nucleic Acids Res. 20:3891-3896.
10. Hirsch, R. C., J. E. Lavine, L. J. Chang, H. E. Varmus, and D. Ganem. 1990. Polymerase gene products of hepatitis B viruses are required for genomic RNA packaging as well as for reverse transcription. Nature 344:552-555.
11. Kane, M. A. 1998. Status of hepatitis B immunization programmes in 1998. Vaccine 16(Suppl.):S104-S108.
12. Kawaguchi, T., K. Nomura, Y. Hirayama, and T. Kitagawa. 1987. Establishment and characterization of a chicken hepatocellular carcinoma cell line, LMH. Cancer Res. 47:4460-4464.
13. Lien, J. M., C. E. Aldrich, and W. S. Mason. 1986. Evidence that a capped oligoribonucleotide is the primer for duck hepatitis B virus plus-strand DNA synthesis. J. Virol. 57:229-236.
14. Liu, N., R. Tian, and D. D. Loeb. 2003. Base pairing among three cis-acting sequences contributes to template switching during hepadnavirus reverse transcription. Proc. Natl. Acad. Sci. USA 100:1984-1989.
15. Loeb, D. D., K. J. Gulya, and R. Tian. 1997. Sequence identity of the terminal redundancies on the minus-strand DNA template is necessary but not sufficient for the template switch during hepadnavirus plus-strand DNA synthesis. J. Virol. 71:152-160.
16. Loeb, D. D., R. C. Hirsch, and D. Ganem. 1991. Sequence-independent RNA cleavages generate the primers for plus strand DNA synthesis in hepatitis B viruses: implications for other reverse transcribing elements. EMBO J. 10:3533-3540.
17. Loeb, D. D., and R. Tian. 2001. Mutations that increase in situ priming also decrease circularization for duck hepatitis B virus. J. Virol. 75:6492-6497.
18. Loeb, D. D., and R. Tian. 1995. Transfer of the minus strand of DNA during hepadnavirus replication is not invariable but prefers a specific location. J. Virol. 69:6886-6891.
19. Mir, K. U., and E. M. Southern. 1999. Determining the influence of structure on hybridization using oligonucleotide arrays. Nat. Biotechnol. 17:788-792.
20. Nakano, M., E. M. Moody, J. Liang, and P. C. Bevilacqua. 2002. Selection for thermodynamically stable DNA tetraloops using temperature gradient gel electrophoresis reveals four motifs: d(cGNNAg), d(cGNABg), d(cCNNGg), and d(gCNNGc), Biochemistry 41:14281-14292.
21. Sprengel, R., C. Kuhn, H. Will, and H. Schaller. 1985. Comparative sequence analysis of duck and human hepatitis B virus genomes. J. Med. Virol. 15:323-333.
22. Staprans, S., D. D. Loeb, and D. Ganem. 1991. Mutations affecting hepadnavirus plus-strand DNA synthesis dissociate primer cleavage from translocation and reveal the origin of linear viral DNA. J. Virol. 65:1255-1262.
23. Summers, J., and W. S. Mason. 1982. Replication of the genome of a hepatitis B-like virus by reverse transcription of an RNA intermediate. Cell 29:403-415.
24. Yang, W., and J. Summers. 1995. Illegitimate replication of linear hepadnavirus DNA through nonhomologous recombination. J. Virol. 69:4029-4036.
25. Yang, W., and J. Summers. 1998. Infection of ducklings with virus particles containing linear double-stranded duck hepatitis B virus DNA: illegitimate replication and reversion. J. Virol. 72:8710-8717.
26. Yoshizawa, S., G. Kawai, K. Watanabe, K. Miura, and I. Hirao. 1997. GNA trinucleotide loop sequences producing extraordinarily stable DNA minihairpins. Biochemistry 36:4761-4767.
27. Zhang, Y. Y., and J. Summers. 2000. Low dynamic state of viral competition in a chronic avian hepadnavirus infection. J. Virol. 74:5257-5265.