Correlated template-switching events during minus-strand DNA synthesis: A mechanism for high negative interference during retroviral recombination

Journal of Virology

Volumn 72, Issue 2, 1998, Pages 1186-1194

  Anderson, Jeffrey A ^a   Teufel II, Ronald J ^a   Yin, Philip D ^a   Hu, Wei Shau ^a  

^a WEST VIRGINIA UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; DNA SYNTHESIS; DNA TRANSFER; NONHUMAN; PATHOGENESIS; PRIORITY JOURNAL; RETROVIRUS; REVERSE TRANSCRIPTION; VIRUS RECOMBINATION;

EID: 0031931586     PISSN: 0022538X     EISSN: None     Source Type: Journal    
DOI: 10.1128/jvi.72.2.1186-1194.1998     Document Type: Article

References (47)

1. Anderson, J. A., E. H. Bowman, and W.-S. Hu. 1998. Retroviral recombination rates do not increase linearly with distance between markers and are limited by the size of the recombining subpopulation. J. Virol. 72:1195-1202.
2. Chase, M., and A. H. Doermann. 1958. High negative interference over short segments of the genetic structure of bacteriophage T4. Genetics 43:332-353.
3. Clavel, F., M. D. Hoggan, R. L. Willey, K. Strebel, M. A. Martin, and R. Repaske. 1989. Genetic recombination of human immunodeficiency virus. J. Virol. 63:1455-1459.
4. Cocchi, F., A. L. DeVico, A. Garzino-Demo, A. Cara, R. C. Gallo, and P. Lusso. 1996. The V3 domain of the HIV-1 gp120 envelope glycoprotein is critical for chemokine-mediated blockade of infection. Nat. Med. 2:1244-1247.
5. Coffin, J. M. 1979. Structure, replication, and recombination of retrovirus genomes: some unifying hypotheses. J. Gen. Virol. 42:1-26.
6. De Jong, J.-J., A. De Ronde, W. Keulen, M. Tersmette, and J. Goudsmit. 1992. Minimal requirements for the human immunodeficiency virus type 1 V3 domain to support the syncytium-inducing phenotype: analysis by single amino acid substitution. J. Virol. 66:6777-6780.
7. Gilboa, E., S. W. Mitra, S. Goff, and D. Baltimore. 1979. A detailed model of reverse transcription and tests of crucial aspects. Cell 18:93-100.
8. Gritz, L., and J. Davies. 1979. Plasmid encoded hygromycin-b resistance: the sequence of hygromycin-b phosphotransferase and its expression. Gene 25: 179-188.
9. Gu, Z., O. Gao, E. A. Faust, and M. A. Wainberg. 1995. Possible involvement of cell fusion and viral recombination in generation of human immunodeficiency virus variants that display dual resistance to AZT and 3TC. J. Gen. Virol. 76:2601-2605.
10. Higucci, R. 1989. Simple and rapid preparation of samples for PCR, p. 31-38. In H. A. Erlich (ed.), PCR technology. Stockton Press, New York, N.Y.
11. Hu, W.-S., and H. M. Temin. 1990. Retroviral recombination and reverse transcription. Science 250:1227-1233.
12. Hu, W.-S., and H. M. Temin. 1990. Genetic consequences of packaging two RNA genomes in one retroviral particle: pseudodiploidy and high rate of genetic recombination. Proc. Natl. Acad. Sci. USA 87:1556-1560.
13. Hu, W.-S., and H. M. Temin. 1992. Effect of gamma radiation on ritroviral recombination. J. Virol. 66:4457-4463.
14. Hu, W.-S., E. H. Bowman, K. A. Delviks, and V. K. Pathak. 1997. Homologous recombination occurs in a distinct retroviral subpopulation and exhibits high negative interference. J. Virol. 71:6028-6036.
15. Jacobsen, H., K. Yasargil, D. C. Winslow, J. C. Craig, A. Kohn, I. B. Duncan, and J. Mous. 1995. Characterization of human immunodeficiency virus type 1 mutants with decreased sensitivity to proteinase inhibitor Ro 31-8959. Virology 206:527-534.
16. Jacobsen, H., M. Hanggi, M. Ott, I. B. Duncan, S. Owen, M. Andreoni, S. Vella, and J. Mous. 1996. In vivo resistance to a human immunodeficiency virus type 1 proteinase inhibitor: mutations, kinetics, and frequencies. J. Infect. Dis. 173:1379-1387.
17. Jones, J. S., R. W. Allan, and H. M. Temin. 1994. One retroviral RNA is sufficient for synthesis of viral DNA. J. Virol. 68:207-216.
18. Jorgensen, R. A., S. J. Rothstein, and W. J. Reznikoff. 1979. A restriction enzyme cleavage map of Tn5 and location of a region encoding neomycin resistance. Mol. Gen. Genet. 117:65-72.
19. - vectors: development of novel self-inactivating and self-activating retroviral vectors for safer gene therapy. J. Virol. 69:6839-6846.
20. Junghans, R. P., L. Boone, and A. M. Skalka. 1982. Retroviral DNA H structure: displacement-assimilation model of recombination. Cell 30:53-62.
21. Katz, R. A., and A. M. Skalka. 1990. Genetic diversity in retroviruses. Annu. Rev. Genet. 24:409-445.
22. Kawai, S., and H. Hanafusa. 1972. Genetic recombination with avian tumor virus. Virology 49:37-44.
23. Kawai, S., and M. Nishizawa. 1984. New procedure for DNA transfection with polycation and dimethyl sulfoxide. Mol. Cell. Biol. 4:1172-1174.
24. Kellam, P., and B. A. Larder. 1994. Retroviral recombination can lead to linkage of reverse transcriptase mutations that confer increased zidovudine resistance. J. Virol. 69:669-674.
25. Kellam, P., C. Boucher, and B. A. Larder. 1992. Fifth mutation in human immunodeficiency virus type 1 reverse transcriptase contributes to the development of high-level resistance to zidovudine. Proc. Natl. Acad. Sci. USA 89:1934-1938.
26. Kozak, C. A., and S. Ruscetti. 1992. Retroviruses in rodents, p. 405-481. In J. A. Levy (ed.), The retroviridae. Plenum Press, New York, N.Y.
27. Larder, B. A., and S. D. Kemp. 1989. Multiple mutations in HIV-1 reverse transcriptase confer high-level resistance to zidovudine (AZT). Science 246: 1155-1158.
28. Leis, J., A. Aiyar, and D. Cobrinik. 1993. Regulation of initiation of reverse transcription of retroviruses, p. 33-47. In A. M. Skalka and S. P. Goff (ed.), Reverse transcriptase. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y.
29. Linial, M., and S. Brown. 1979. High-frequency recombination with the gag gene of Rous sarcoma virus. J. Virol. 31:257-260.
30. Linial, M., and D. Blair. 1985. Genetics of retroviruses, p. 147-185. In R. Weiss, N. Teich, H. Varmus, and J. Coffin (ed.), RNA tumor viruses. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y.
31. Maniatis, T., E. F. Fritsch, and J. Sambrook. 1982. Molecular cloning: a laboratory manual. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y.
32. McKeating, J. A., J. Gow, J. Goudsmit, L. H. Pearl, C. Mulder, and R. A. Weiss. 1989. Characterization of HIV-1 neutralization escape mutants. AIDS 3:777-784.
33. Mikkelsen, J. G., A. H. Lund, K. D. Kristensen, M. Duch, M. S. Sørensen, P. Jørgensen, and F. S. Pedersen. 1996. A preferred region for recombinational patch repair in the 5′ untranslated region of primer binding site-impaired murine leukemia virus vectors. J. Virol. 70:1439-1447.
34. Panganiban, A. T., and D. Fiore. 1988. Ordered interstrand and intrastrand DNA transfer during reverse transcription. Science 241:1064-1069.
35. Phillips, R. E., S. Rowland-Jones, D. F. Nixon, F. M. Gotch, J. P. Edwards, A. O. Ogunlesi, J. G. Elvin, J. A. Rothbard, C. R. M. Bangham, C. R. Rizza, and A. J. McMichael. 1991. Human immunodeficiency virus genetic variation that can escape cytotoxic T cell recognition. Nature 354:453-459.
36. Pulsinelli, G. A., and H. M. Temin. 1994. High rate of mismatch extension during reverse transcription in a single round of retrovirus replication. Proc. Natl. Acad. Sci. USA 91:9490-9494.
37. Reitz, M. S., C. Wilson, C. Nangle, R. C. Gallo, and M. Robert-Guroff. 1988. Generation of a neutralization-resistant variant of HIV-1 is due to selection for a point mutation in the envelope gene. Cell 54:57-63.
38. Riggs, J. L., R. M. McAllister, and E. H. Lennette. 1974. Immunofluorescent studies of RD-114 virus replication in cell culture. J. Gen. Virol. 25:21-29.
39. Sharpless, N. E., W. A. O'Brien, E. Verdin, C. V. Kufta, I. S. Y. Chen, and M. Dubois-Dalcq. 1992. Human immunodeficiency virus type 1 tropism for brain microglial cells is determined by a region of the env glycoprotein that also controls macrophage tropism. J. Virol. 66:2588-2593.
40. Shioda, T., J. A. Levy, and C. Cheng-Mayer. 1992. Small amino acid changes in the V3 hypervariable region of gp120 can affect the T cell line and macrophage tropism of human immunodeficiency virus type 1. Proc. Natl. Acad. Sci. USA 89:9434-9438.
41. Tisdale, M., S. D. Kemp, N. R. Parry, and B. A. Larder. 1993. Rapid in vitro selection of human immunodeficiency virus type 1 resistant to 3′ thiacytidine inhibitors due to a mutation in the YMDD region of reverse transcriptase. Proc. Natl. Acad. Sci. USA 90:5653-5656.
42. Varmus, H., and R. Swanstrom. 1985. Replication of retroviruses, p. 75-134. In R. Weiss, N. Teich, H. Varmus, and J. Coffin (ed.), RNA tumor viruses. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y.
43. Vogt, P. K. 1971. Genetically stable reassortment of markers during mixed infection with avian tumor viruses. Virology 46:947-952.
44. Weiss, R. A., W. S. Mason, and P. K. Vogt. 1973. Genetic recombinants and heterozygotes derived from endogenous and exogenous avian RNA tumor viruses. Virology 52:535-552.
45. Westervelt, P., D. B. Trowbridge, L. G. Epstein, B. M. Blumberg, Y. Li, B. H. Hahn, G. M. Shaw, R. W. Price, and L. Ratner. 1992. Macrophage tropism determinants of human immunodeficiency virus type 1 in vivo. J. Virol. 66:2577-2582.
46. White, R. L., and M. S. Fox. 1974. On the molecular basis of high negative interference. Proc. Natl. Acad. Sci. USA 71:1544-1548.
47. Xu, H., and J. D. Boeke. 1987. High frequency deletion between homologous sequences during retrotransposition of Ty elements in Saccharomyces cerevisiae. Proc. Natl. Acad. Sci. USA 84:8553-8557.