Genetic and phylogenetic characterization of the type II cyclobutane pyrimidine dimer photolyases encoded by Leporipoxviruses

Virology

Volumn 315, Issue 1, 2003, Pages 10-19

  Bennett, C James ^a   Webb, Melissa ^a   Willer, David O ^a,c   Evans, David H ^a,b  

^a UNIVERSITY OF GUELPH   (Canada)

^b UNIVERSITY OF ALBERTA   (Canada)

^c EMORY UNIVERSITY   (United States)

Author keywords

CPD photolyase; Cyclobutane pyrimidine dimer; DNA repair; Myxoma virus; Shope fibroma virus; UV light; Virus phylogeny

Indexed keywords

CYCLOBUTANE; DEOXYRIBODIPYRIMIDINE PHOTOLYASE; DIMER; DNA BINDING PROTEIN; ENZYME; PROTEIN; PYRIMIDINE;

ANIMAL CELL; ARTICLE; BIOINFORMATICS; CONTROLLED STUDY; DIFFUSION; GENE DELETION; GENETIC CODE; LEPORIPOXVIRUS; LIGHT; NONHUMAN; PHOTOREACTIVITY; PHYLOGENY; POXVIRUS; PRIORITY JOURNAL; PROTEIN MOTIF; ULTRAVIOLET RADIATION; VIRAL GENETICS; VIRION; VIRUS GENOME; WESTERN BLOTTING; WILD TYPE;

ESCHERICHIA COLI; FOWLPOX VIRUS; LEPORIPOXVIRUS; MYXOMA VIRUS; POXVIRIDAE; RABBIT FIBROMA VIRUS;

EID: 0242363110     PISSN: 00426822     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0042-6822(03)00512-9     Document Type: Article

References (40)

1. Afonso C.L., Tulman E.R., Lu Z., Oma E., Kutish G.F., Rock D.L. The genome of Melanoplus sanguinipes entomopoxvirus. J. Virol. 73:(1):1999;533-552.
2. Afonso C.L., Tulman E.R., Lu Z., Zsak L., Kutish G.F., Rock D.L. The genome of fowlpox virus. J. Virol. 74:(8):2000;3815-3831.
3. Bawden A.L., Glassberg K.J., Diggans J., Shaw R., Farmerie W., Moyer R.W. Complete genomic sequence of the Amsacta moorei entomopoxvirus analysis and comparison with other poxviruses . Virology. 274:(1):2000;120-139.
4. Brash D.E., Franklin W.A., Sancar G.B., Sancar A., Haseltine W.A. Escherichia coli DNA photolyase reverses cyclobutane pyrimidine dimers but not pyrimidine-pyrimidone (6-4) photoproducts. J. Biol. Chem. 260:(21):1985;11438- 11441.
5. Cameron C., Hota-Mitchell S., Chen L., Barrett J., Cao J.X., Macaulay C., Willer D., Evans D., McFadden G. The complete DNA sequence of myxoma virus. Virology. 264:(2):1999;298-318.
6. Cao J.X., Teoh M.L., Moon M., McFadden G., Evans D.H. Leporipoxvirus Cu-Zn superoxide dismutase homologs inhibit cellular superoxide dismutase, but are not essential for virus replication or virulence. Virology. 296:(1):2002;125-135.
7. Chandrasekhar D., Van Houten B. In vivo formation and repair of cyclobutane pyrimidine dimers and 6-4 photoproducts measured at the gene and nucleotide level in Escherichia coli. Mutat. Res. 450:(1-2):2000;19-40.
8. Delange A.M., Macaulay C., Block W., Mueller T., McFadden G. Tumorigenic poxviruses construction of the composite physical map of the Shope fibroma virus genome . J. Virol. 50:(2):1984;408-416.
9. Doolittle R.F., Feng D.F., Tsang S., Cho G., Little E. Determining divergence times of the major kingdoms of living organisms with a protein clock. Science. 271:(5248):1996;470-477.
10. Douki T., Cadet J. Individual determination of the yield of the main UV-induced dimeric pyrimidine photoproducts in DNA suggests a high mutagenicity of CC photolesions. Biochemistry. 40:(8):2001;2495-2501.
11. Falkner F.G., Moss B. Escherichia coli gpt gene provides dominant selection for vaccinia virus open reading frame expression vectors. J. Virol. 62:(6):1988;1849-1854.
12. Felsenstein J. PHYLIP - Phylogeny Inference Package (Version 3.2). Cladistics. 5:1989;164-166.
13. Fuerst T.R., Niles E.G., Studier F.W., Moss B. Eukaryotic transient-expression system based on recombinant vaccinia virus that synthesizes bacteriophage T7 RNA polymerase. Proc. Natl. Acad. Sci. USA. 83:(21):1986;8122-8126.
14. Harlow E., Lane D. Using Antibodies A Laboratory Manual . 1999;Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
15. Harm W., Harm H., Rupert C.S. Analysis of photoenzymatic repair of UV lesions in DNA by single light flashes. II. In vivo studies with Escherichia coli cells and bacteriophage. Mutat. Res. 6:(3):1968;371-385.
16. Huelsenbeck J.P., Ronquist F. MRBAYES Bayesian inference of phylogenetic trees . Bioinformatics. 17:(8):2001;754-755.
17. Husain I., Sancar A. Photoreactivation in phr mutants of Escherichia coli K-12. J. Bacteriol. 169:(6):1987;2367-2372.
18. Iyer L.M., Aravind L., Koonin E.V. Common origin of four diverse families of large eukaryotic DNA viruses. J. Virol. 75:(23):2001;11720-11734.
19. Kanai S., Kikuno R., Toh H., Ryo H., Todo T. Molecular evolution of the photolyase-blue-light photoreceptor family. J. Mol. Evol. 45:(5):1997;535-548.
20. Kerr S.M., Johnston L.H., Odell M., Duncan S.A., Law K.M., Smith G.L. Vaccinia DNA ligase complements Saccharomyces cerevisiae cdc9, localizes in cytoplasmic factories and affects virulence and virus sensitivity to DNA damaging agents. EMBO J. 10:(13):1991;4343-4350.
21. 2 → TT) kinetics in Anacystis nidulans photolyase. Biochemistry. 31:(45):1992;11244-11248.
22. Kleiner O., Butenandt J., Carell T., Batschauer A. Class II DNA photolyase from Arabidopsis thaliana contains FAD as a cofactor. Eur. J. Biochem. 264:(1):1999;161-167.
23. Lapointe G., Mori T., Evans D.H. Tobacco plants expressing T4 endonuclease V show enhanced sensitivity to ultraviolet light and DNA alkylating agents. Mutat. Res. 351:(1):1996;19-31.
24. McCullough A.K., Romberg M.T., Nyaga S., Wei Y., Wood T.G., Taylor J.S., Van Etten J.L., Dodson M.L., Lloyd R.S. Characterization of a novel cis-syn and trans- syn-II pyrimidine dimer glycosylase/AP lyase from a eukaryotic algal virus, Paramecium bursaria chlorella virus-1. J. Biol. Chem. 273:(21):1998;13136-13142.
25. McMillan S., Edenberg H.J., Radany E.H., Friedberg R.C., Friedberg E.C. Den V gene of bacteriophage T4 codes for both pyrimidine dimer-DNA glycosylase and apyrimidinic endonuclease activities. J. Virol. 40:(1):1981;211-223.
26. Oliveros M., Yanez R.J., Salas M.L., Salas J., Vinuela E., Blanco L. Characterization of an African swine fever virus 20-kDa DNA polymerase involved in DNA repair. J. Biol. Chem. 272:(49):1997;30899-30910.
27. Opgenorth A., Graham K., Nation N., Strayer D., McFadden G. Deletion analysis of two tandemly arranged virulence genes in myxoma virus, M11L and myxoma growth factor. J. Virol. 66:(8):1992;4720-4731.
28. Parks R.J., Winchcombe-Forhan C., DeLange A.M., Xing X., Evans D.H. DNA ligase gene disruptions can depress viral growth and replication in poxvirus-infected cells. Virus Res. 56:(2):1998;135-147.
29. Perdiz D., Grof P., Mezzina M., Nikaido O., Moustacchi E., Sage E. Distribution and repair of bipyrimidine photoproducts in solar UV-irradiated mammalian cells. Possible role of Dewar photoproducts in solar mutagenesis. J. Biol. Chem. 275:(35):2000;26732-26742.
30. Saitou N., Nei M. The neighbor-joining method a new method for reconstructing phylogenetic trees . Mol. Biol. Evol. 4:(4):1987;406-425.
31. Sancar G.B. Enzymatic photoreactivation 50 years and counting . Mutat. Res. 451:(1-2):2000;25-37.
32. Schul W., Jans J., Rijksen Y.M., Klemann K.H., Eker A.P., de Wit J., Nikaido O., Nakajima S., Yasui A., Hoeijmakers J.H., van der Horst G.T. Enhanced repair of cyclobutane pyrimidine dimers and improved UV resistance in photolyase transgenic mice. EMBO J. 21:(17):2002;4719-4729.
33. Srinivasan V., Schnitzlein W.M., Tripathy D.N. Fowlpox virus encodes a novel DNA repair enzyme, CPD-photolyase, that restores infectivity of UV light-damaged virus. J. Virol. 75:(4):2001;1681-1688.
34. Thompson J.D., Higgins D.G., Gibson T.J. CLUSTAL W improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice . Nucleic Acids Res. 22:(22):1994;4673-4680.
35. Willer D.O., McFadden G., Evans D.H. The complete genome sequence of shope (rabbit) fibroma virus. Virology. 264:(2):1999;319-343.
36. Willer D.O., Yao X.-D., Mann M.J., Evans D.H. In vitro concatemer formation catalyzed by vaccinia virus DNA polymerase. Virology. 278:(2):2000;562-569.
37. Yao X.-D., Evans D.H. Effects of DNA structure and homology length on vaccinia virus recombination. J. Virol. 75:(15):2001;6923-6932.
38. Yasui A., Eker A.P., Yasuhira S., Yajima H., Kobayashi T., Takao M., Oikawa A. A new class of DNA photolyases present in various organisms including aplacental mammals. EMBO J. 13:(24):1994;6143-6151.
39. Yuen L., Moss B. Oligonucleotide sequence signaling transcriptional termination of vaccinia virus early genes. Proc. Natl. Acad. Sci. USA. 84:(18):1987;6417-6421.
40. Zhang W., Evans D.H. DNA strand exchange catalyzed by proteins from vaccinia virus-infected cells. J. Virol. 67:(1):1993;204-212.