A single Rep protein initiates replication of multiple genome components of faba bean necrotic yellows virus, a single-stranded DNA virus of plants

Journal of Virology

Volumn 73, Issue 12, 1999, Pages 10173-10182

  Timchenko, Tatiana ^a   De Kouchkovsky, Françoise ^a   Katul, Lina ^b   David, Chantal ^a   Vetten, Heinrich Josef ^b   Gronenborn, Bruno ^a  

^a INSTITUT DES SCIENCES DU VÉGÉTAL   (France)

^b INSTITUTE FOR EPIDEMIOLOGY AND PATHOGEN DIAGNOSTICS   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ADENOSINE TRIPHOSPHATE; HELICASE; LYSINE; NUCLEOSIDE TRIPHOSPHATE; SINGLE STRANDED DNA; TYROSINE;

ARTICLE; CATALYSIS; DNA CLEAVAGE; GENE REPLICATION; HYDROLYSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; PLANT VIRUS; PRIORITY JOURNAL; PROTEIN BINDING; SITE DIRECTED MUTAGENESIS;

EID: 0032708385     PISSN: 0022538X     EISSN: None     Source Type: Journal    
DOI: 10.1128/jvi.73.12.10173-10182.1999     Document Type: Article

References (82)

1. Akbar Behjatnia, S. A., I. B. Dry, and M. Ali Rezaian. 1998. Identification of the replication-associated protein binding domain within the intergenic region of tomato leaf curl geminivirus. Nucleic Acids Res. 26:925-931.
2. Angulo, J. F., E. Rouer, A. Mazin, M. G. Mattei, A. Tissier, P. Horellou, R. Benarous, and R. Devoret. 1991. Identification and expression of the cDNA of KIN17, a zinc-finger gene located on mouse chromosome 2, encoding a new DNA-binding protein. Nucleic Acids Res. 19:5117-5123.
3. Argüello-Astorga, G. R., R. G. Guevara-Gonzalez, L. R. Herrera-Estrella, and R. F. Rivera-Bustamante. 1994. Geminivirus replication origins have a group-specific organization of iterative elements: a model for replication. Virology 203:90-100.
4. Aronson, M., T. Timchenko, A. Meyer, F. de Kouchkovsky, L. Katul, H.-J. Vetten, and B. Gronenborn. 1998. CLINK, a cell cycle link protein from ssDNA plant virus, p. 56. In Proceedings of the Fifth McGill University International Conference on Regulation of Eukaryotic DNA Replication, St. Sauveur, Quebec, Canada.
5. Aronson, M. N., A. D. Meyer, J. Györgyey, L. Katul, H. J. Vetten, B. Gronenborn, and T. Timchenko. Clink, a nanovirus encoded protein binds both pRB and SKP1. Submitted for publication.
6. Auborn, K., M. Guo, and C. Prives. 1989. Helicase, DNA-binding, and immunological properties of replication-defective simian virus 40 mutant T antigens. J. Virol. 63:912-918.
7. Baas, P. D., and H. S. Jansz. 1988. Single-stranded DNA phage origins. Curr. Top. Microbiol. Immunol. 136:31-70.
8. Bassami, M. R., D. Berryman, G. E. Wilcox, and S. R. Raidal. 1998. Psittacine beak and feather disease virus nucleotide sequence analysis and its relationship to porcine circovirus, plant circoviruses, and chicken anaemia virus. Virology 249:453-459.
9. Beetham, P. R., G. J. Hafner, R. M. Harding, and J. L. Dale. 1997. Two mRNAs are transcribed from banana bunchy top virus DNA-1. J. Gen. Virol. 78:229-236.
10. Beetham, P. R., R. M. Harding, and J. L. Dale. 1999. Banana bunchy top virus DNA-2 to 6 are monocistronic. Arch. Virol. 144:89-105.
11. Berns, K. I. 1990. Parvovirus replication. Microbiol. Rev. 54:316-329.
12. Bisaro, D. M. 1996. Geminivirus DNA replication, p. 833-854. In M. L. DePamphilis (ed.), DNA replication in eukaryotic cells. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
13. Boevink, P., P. W. Chu, and P. Keese. 1995. Sequence of subterranean clover stunt virus DNA: affinities with the geminiviruses. Virology 207:354-361.
14. Burns, T. M., R. M. Harding, and J. L. Dale. 1995. The genome organization of banana bunchy top virus: analysis of six ssDNA components. J. Gen. Virol. 76:1471-1482.
15. Castellino, A. M., P. Cantalupo, I. M. Marks, J. V. Vartikar, K. W. C. Peden, and J. M. Pipas. 1997. trans-Dominant and non-trans-dominant mutant simian virus 40 large T antigens show distinct responses to ATP. J. Virol. 71:7549-7559.
16. Chejanovsky, N., and B. J. Carter. 1990. Mutation of a consensus purine nucleotide binding site in the adeno-associated virus rep gene generates a dominant negative phenotype for DNA replication. J. Virol. 64:1764-1770.
17. Choi, I. R., and D. C. Stenger. 1996. The strain-specific cis-acting element of beet curly top geminivirus DNA replication maps to the directly repeated motif of the ori. Virology 226:122-126.
18. Choi, I. R., and D. C. Stenger. 1995. Strain-specific determinants of beet curly top geminivirus DNA replication. Virology 206:904-912.
19. Chu, P. W. G., P. Boevink, B. Surin, P. Larkin, P. Keese, and P. M. Waterhouse. 1995. Non-geminated single-stranded DNA plant viruses, p. 311-341. In R. P. Singh, U. S. Singh, and K. Kohmoto (ed.), Pathogenesis and host specificity in plant diseases, vol. III. Viruses and viroids. Pergamon Press, Elmsford, N.Y.
20. Costello, E., P. Saudan, E. Winocour, L. Pizer, and P. Beard. 1997. High mobility group chromosomal protein 1 binds to the adeno-associated virus replication protein (Rep) and promotes Rep-mediated site-specific cleavage of DNA, ATPase activity and transcriptional repression. EMBO J. 16:5943-5954.
21. Cotmore, S. E., and P. Tattersall. 1996. Parvovirus DNA replication, p. 799-813. In M. L. DePamphilis (ed.), DNA replication in eukaryotic cells. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
22. Desbiez, C., C. David, A. Mettouchi, J. Laufs, and B. Gronenborn. 1995. Rep protein of tomato yellow leaf curl geminivirus has an ATPase activity required for viral DNA replication. Proc. Natl. Acad. Sci. USA 92:5640-5644.
23. Dry, I. B., L. R. Krake, J. E. Rigden, and M. A. Rezaian. 1997. A novel subviral agent associated with a geminivirus: the first report of a DNA satellite. Proc. Natl. Acad. Sci. USA 94:7088-7093.
24. Fontes, E. P., P. A. Eagle, P. S. Sipe, V. A. Luckow, and L. Hanley-Bowdoin. 1994. Interaction between a geminivirus replication protein and origin DNA is essential for viral replication. J. Biol. Chem. 269:8459-8465.
25. Fontes, E. P., H. J. Gladfelter, R. L. Schaffer, I. T. Petty, and L. Hanley-Bowdoin. 1994. Geminivirus replication origins have a modular organization. Plant Cell 6:405-416.
26. Fontes, E. P., V. A. Luckow, and L. Hanley-Bowdoin. 1992. A geminivirus replication protein is a sequence-specific DNA binding protein. Plant Cell 4:597-608.
27. Franz, A., K. M. Makkouk, L. Katul, and H. J. Vetten. 1996. Monoclonal antibodies for the detection and differentiation of faba bean necrotic yellows virus isolates. Ann. Appl. Biol. 128:255-268.
28. Frisch, D. A., L. W. Harris-Haller, N. T. Yokubaitis, T. L. Thomas, S. H. Hardin, and T. C. Hall. 1995. Complete sequence of the binary vector Bin 19. Plant Mol. Biol. 27:405-409.
29. Gilbert, W., and D. Dressier. 1968. DNA replication: the rolling circle model. Cold Spring Harbor Symp. Quant. Biol. 33:473-484.
30. Goodman, R. M. 1977. Infectious DNA from a whitefly-transmitted virus of Phaseolus vulgaris. Nature 266:54-55.
31. Gruss, A., and S. D. Ehrlich. 1989. The family of highly interrelated single-stranded deoxyribonucleic acid plasmids. Microbiol. Rev. 53:231-241.
32. Hafner, G. J., R. M. Harding, and J. L. Dale. 1997. A DNA primer associated with banana bunchy top virus. J. Gen. Virol. 78:479-486.
33. Hafner, G. J., M. R. Stafford, L. C. Wolter, R. M. Harding, and J. L. Dale. 1997. Nicking and joining activity of banana bunchy top virus replication protein in vitro. J. Gen. Virol. 78:1795-1799.
34. Hamel, A. L., L. L. Lin, and G. P. S. Nayar. 1998. Nucleotide sequence of porcine circovirus associated with postweaning multisystemic wasting syndrome in pigs. J. Virol. 72:5262-5267.
35. Hanson, S. F., R. A. Hoogstraten, P. Ahlquist, R. L. Gilbertson, D. R. Russell, and D. P. Maxwell. 1995. Mutational analysis of a putative NTP-binding domain in the replication-associated protein (AC1) of bean golden mosaic geminivirus. Virology 211:1-9.
36. Harding, R. M., T. M. Burns, G. Hafner, R. G. Dietzgen, and J. L. Dale. 1993. Nucleotide sequence of one component of the banana bunchy top virus genome contains a putative replicase gene. J. Gen. Virol. 74:323-328.
37. Harrison, B. D., H. Barker, K. R. Bock, E. J. Guthrie, G. Meredith, and M. Atkinson. 1977. Plant viruses with circular single-stranded DNA. Nature 270:760-762.
38. Hassel. B. A., and B. T. Brinton. 1996. SV40 and polyomavirus DNA replication, p. 639-677. In M. L. DePamphilis (ed.), DNA replication in eukaryotic cells. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
39. Heyraud, F., V. Matzeit, S. Schaefer, J. Schell, and B. Gronenborn. 1993. The conserved nonanucleotide motif of the geminivirus stem-loop sequence promotes replicational release of virus molecules from redundant copies. Biochimie 75:605-615.
40. Heyraud-Nitschke, F., S. Schumacher, J. Laufs, S. Schaefer, J. Schell, and B. Gronenborn. 1995. Determination of the origin cleavage and joining domain of geminivirus Rep proteins. Nucleic Acids Res. 23:910-916.
41. Hoekema, A., P. R. Hirsch, P. J. J. Hooykaas, and R. A. Schilperoort. 1983. A binary plant vector strategy based on separation of vir- and T-region of Agrobacterium tumefaciens Ti-plasmid. Nature 303:179-180.
42. Hoogstraten, R. A., S. F. Hanson, and D. P. Maxwell. 1996. Mutational analysis of the putative nicking motif in the replication-associated protein (AC1) of bean golden mosaic geminivirus. Mol. Plant-Microbe Interact. 9:594-599.
43. Horsch, R. B., S. G. Rogers, and R. T. Fraley. 1985. Transgenic plants. Cold Spring Harbor Symp. Quant. Biol. 50:433-437.
44. Ilyina, T. V., and E. V. Koonin. 1992. Conserved sequence motifs in the initiator proteins for rolling circle DNA replication encoded by diverse replicons from eubacteria, eucaryotes and archaebacteria. Nucleic Acids Res. 20:3279-3285.
45. Im, D. S., and N. Muzyczka. 1990. The AAV origin binding protein Rep68 is an ATP-dependent site-specific endonuclease with DNA helicase activity. Cell 61:447-457.
46. Jupin, I., F. Hericourt, B. Benz, and B. Gronenborn. 1995. DNA replication specificity of TYLCV geminivirus is mediated by the amino-terminal 116 amino acids of the Rep protein. FEBS Lett. 362:116-120.
47. Karan, M., R. M. Harding, and J. L. Dale. 1994. Evidence for two groups of banana bunchy top virus isolates. J. Gen. Virol. 75:3541-3546.
48. Katul, L., E. Maiss, S. Y. Morozov, and H. J. Vetten. 1997. Analysis of six DNA components of the faba bean necrotic yellows virus genome and their structural affinity to related plant virus genomes. Virology 233:247-259.
49. Katul, L., E. Maiss, and H. J. Vetten. 1995. Sequence analysis of a faba bean necrotic yellows virus DNA component containing a putative replicase gene. J. Gen. Virol. 76:475-479.
50. Katul, L., T. Timchenko, B. Gronenborn, and H. J. Vetten. 1998. Ten distinct circular ssDNA components, four of which encode putative replication-associated proteins, are associated with the faba bean necrotic yellows virus genome. J. Gen. Virol. 79:3101-3109.
51. Kornberg, A., and T. A. Baker. 1992. DNA replication, 2nd ed. W. H. Freeman, New York, N.Y.
52. Laufs, J., I. Jupin, C. David, S. Schumacher, F. Heyraud-Nitschke, and B. Gronenborn. 1995. Geminivirus replication: genetic and biochemical characterization of Rep protein function, a review. Biochimie 77:765-773.
53. Laufs, J., S. Schumacher, N. Geisler, I. Jupin, and B. Gronenborn. 1995. Identification of the nicking tyrosine of geminivirus Rep protein. FEBS Lett. 377:258-262.
54. Laufs, J., W. Traut, F. Heyraud, V. Matzeit, S. G. Rogers, J. Schell, and B. Gronenborn. 1995. In vitro cleavage and joining at the viral origin of replication by the replication initiator protein of tomato yellow leaf curl virus. Proc. Natl. Acad. Sci. USA 92:3879-3883.
55. Lazarowitz, S. G. 1992. Geminiviruses: genome structure and function. Crit. Rev. Plant Sci. 11:327-349.
56. Mankertz, A., J. Mankertz, K. Wolf, and H. J. Buhk. 1998. Identification of a protein essential for replication of porcine circovirus. J. Gen. Virol. 79: 381-384.
57. Marsin, S., and P. Forterre. 1998. A rolling circle replication initiator protein with a nucleotidyl-transferase activity encoded by the plasmid pGT5 from the hyperthermophilic archaeon Pyrococcus abyssi. Mol. Microbiol. 27:1183-1192.
58. Maxam, A. M., and W. Gilbert. 1980. Sequencing end-labeled DNA with base-specific chemical cleavages. Methods Enzymol. 65:499-560.
59. McCarry, D. M., T.-H. Ni, and N. Muzyczka. 1992. Analysis of mutations in adeno-associated virus Rep protein in vivo and in vitro. J. Virol. 66:4050-4057.
60. Meehan, B. M., J. L. Creelan, M. S. McNulty, and D. Todd. 1997. Sequence of porcine circovirus DNA: affinities with plant circoviruses. J. Gen. Virol. 78:221-227.
61. Mozo, T., and P. J. Hooykaas. 1991. Electroporation of megaplasmids into Agrobacterium. Plant Mol. Biol. 16:917-918.
62. Niagro, F. D., A. N. Forsthoefel, R. P. Lawther, L. Kamalanathan, B. W. Ritchie, K. S. Latimer, and P. D. Lukert. 1998. Beak and feather disease virus and porcine circovirus genomes: intermediates between the geminiviruses and plant circoviruses. Arch. Virol. 143:1723-1744.
63. Ooms, G., P. J. Hooykaas, R. J. Van Veen, P. Van Beelen, T. J. Regensburg-Tuink, and R. A. Schilperoort. 1982. Octopine Ti-plasmid deletion mutants of Agrobaclerium tumefaciens with emphasis on the right side of the T-region. Plasmid 7:15-29.
64. Orozco, B. M., H. J. Gladfelter, S. B. Settlage, P. A. Eagle, R. N. Gentry, and L. Hanley-Bowdoin. 1998. Multiple cis elements contribute to geminivirus origin function. Virology 242:346-356.
65. Orozco, B. M., and L. Hanley-Bowdoin. 1998. Conserved sequence and structural motifs contribute to the DNA binding and cleavage activities of a geminivirus replication protein. J. Biol. Chem. 273:24448-24456.
66. Orozco, B. M., A. B. Miller, S. B. Settlage, and L. Hanley-Bowdoin. 1997. Functional domains of a geminivirus replication protein. J. Biol. Chem. 272:9840-9846.
67. Pringle, C. R. 1998. Virus taxonomy - San Diego 1998. Arch. Virol. 143: 1449-1459.
68. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
69. Sanders, C. M., and A. Stenlund. 1998. Recruitment and loading of the E1 initiator protein: an ATP-dependent process catalysed by a transcription factor. EMBO J. 17:7044-7055.
70. Sano, Y., M. Wada, Y. Hashimoto, T. Matsumoto, and M. Kojima. 1998. Sequences of ten circular ssDNA components associated with the milk vetch dwarf virus genome. J. Gen. Virol. 79:3111-3118.
71. Sanz-Burgos, A. P., and C. Gutiérrez. 1998. Organization of the cis-acting element required for wheat dwarf geminivirus DNA replication and visualization of a Rep protein-DNA complex. Virology 243:119-129.
72. Smith, R. H., A. J. Spano, and R. M. Kotin. 1997. The Rep78 gene product of adeno-associated virus (AAV) self-associates to form a hexameric complex in the presence of AAV on sequences. J. Virol. 71:4461-4471.
73. Stahl, H., P. Droge, and R. Knippers. 1986. DNA helicase activity of SV40 large tumor antigen. EMBO J. 5:1939-1944.
74. Stenger, D. C. 1998. Replication specificity elements of the Worland strain of beet curly top virus are compatible with those of the CFH strain but not those of the Cal/Logan strain. Phytopathology 88:1174-1178.
75. Studier, F. W., A. H. Rosenberg, J. J. Dunn, and J. W. Dubendorff. 1990. Use of T7 RNA polymerase to direct expression of cloned genes. Methods Enzymol. 185:60-89.
76. Tischer, I., H. Gelderblom, W. Vettermann, and M. A. Koch. 1982. A very small porcine virus with circular single-stranded DNA. Nature 295:64-66.
77. Walker, J. E., M. Saraste, M. J. Runswick, and N. J. Gay. 1982. Distantly related sequences in the alpha- and beta-subunits of ATP synthase, myosin, kinases and other ATP-requiring enzymes and a common nucleotide binding fold. EMBO J. 1:945-951.
78. Welsshart, K., P. Taneja, and E. Fanning. 1998. The replication protein A binding site in simian virus 40 (SV40) T antigen and its role in the initial steps of SV40 DNA replication. J. Virol. 72:9771-9781.
79. Wu, R. Y., and L. R. You. Nucleotide sequence of DNA III and DNA IV associated with banana bunchy top virus and their relation to other closely related virus DNAs. GenBank accession no. U12586 and U12587.
80. Wu, R. Y., L. R. You, and T. S. Soong. 1994. Nucleotide sequences of two circular single-stranded DNAs associated with banana bunchy top virus. Phytopathology 84:952-958.
81. Yanisch-Perron, C., J. Vieira, and J. Messing. 1985. Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors. Gene 33:103-119.
82. Yasukawa, H., T. Hase, A. Sakai, and Y. Misamune. 1991. Rolling-circle replication of the plasmid pKYM isolated from a gram-negative bacterium. Proc. Natl. Acad. Sci. USA 88:10282-10286.