Guanosine Distribution and Oxidation Resistance in Eight Eukaryotic Genomes

Journal of the American Chemical Society

Volumn 126, Issue 8, 2004, Pages 2368-2371

  Friedman, Keith A ^a   Heller, Adam ^a  

^a The University of Texas at Austin   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; GENES; OXIDATION RESISTANCE; SCAVENGING; YEAST;

GENOMES; LIVING CELLS;

OXYGEN;

DNA; GUANOSINE; OXIDIZING AGENT; REACTIVE OXYGEN METABOLITE;

ARABIDOPSIS; ARTICLE; CAENORHABDITIS; ENCEPHALITOZOON; EUKARYOTE; EXON; GENOME; HUMAN; HUMAN GENOME; INTRON; NONHUMAN; OXIDATION; PARASITE; PLANT; PLASMODIUM; SACCHAROMYCES; SCAVENGING SYSTEM; SCHIZOSACCHAROMYCES; SPECIES COMPARISON; WORM; YEAST;

ANIMALS; ARABIDOPSIS; CAENORHABDITIS ELEGANS; DROSOPHILA MELANOGASTER; ENCEPHALITOZOON CUNICULI; GENOME; GUANOSINE; HUMANS; KINETICS; OXIDATION-REDUCTION; PLASMODIUM FALCIPARUM; SACCHAROMYCES CEREVISIAE; SCHIZOSACCHAROMYCES;

EID: 1542366714     PISSN: 00027863     EISSN: None     Source Type: Journal    
DOI: 10.1021/ja038217r     Document Type: Article

References (66)

1. Faraggi, M.; Broitman, F.; Trent, J. B. et al. J. Phys. Chem. 1996, 100, 14751-14761.
2. Steenken, S.; Jovanovic, S. V. J. Am. Chem. Soc. 1997, 119, 617-618.
3. Helbock, H. J.; Beckman, K. B.; Shigenaga, M. K. et al. Proc. Natl. Acad. Sci. U.S.A. 1998, 95, 288-293.
4. Setlow, R. B. Mutat. Res. 2001, 477, 1-6.
5. Beckman, K. B.; Ames, B. N. J. Biol. Chem. 1997, 272, 19633-19636.
6. Cooke, M. S.; Evans, M. D.; Dizdaroglu, M.; et al. FASEB J. 2003, 17, 1195-1214.
7. Dizdaroglu, M. Mutat. Res. 1992, 275, 331-342.
8. Dizdaroglu, M.; Jaruga, P.; Birincioglu, M.; et al. Free Radical Biol. Med. 2002, 32, 1102-1115.
9. Guetens, G.; De Boeck, G.; Highley, M.; et al. Crit. Rev. Clin. Lab. Sci. 2002, 39, 331-457.
10. Shibutani, S.; Takeshita, M.; Grollman, A. P. Nature 1991, 349, 431-434.
11. Burrows, C. J.; Muller, J. G. Chem. Rev. 1998, 98, 1109-1151.
12. Kawanishi, S.; Oikawa, S.; Murata, M.; et al. Biochemistry 1999, 38, 16733-16739.
13. Kawanishi, S.; Hiraku, Y.; Oikawa, S. Mutat. Res. 2001, 488, 65-76.
14. Rodriguez, H.; Valentine, M. R.; Holmquist, G. P.; et al. Biochemistry 1999, 38, 16578-16588.
15. Henle, E. S.; Luo, Y.; Gassmann, W.; et al. J. Biol. Chem. 1996, 271, 21177-21186.
16. Henle, E. S.; Linn, S. J. Biol. Chem. 1997, 272, 19095-19098.
17. Kawanishi, S.; Hiraku, Y.; Murata, M.; et al. Free Radical Biol. Med. 2002, 32, 822-832.
18. Driggers, W. J.; Holmquist, G. P.; LeDoux, S. P.; et al. Nucleic Acids Res. 1997, 25, 4362-4369.
19. Saito, I.; Nakamura, T.; Nakatani, K.; et al. J. Am. Chem. Soc. 1998, 120, 12686-12687.
20. Hickerson, R. P.; Prat, F.; Muller, J. G.; et al. J. Am. Chem. Soc. 1999, 121, 9423-9428.
21. Nunez, M. E.; Noyes, K. T.; Barton, J. K. Chem. Biol. 2002, 9, 403-415.
22. Nunez, M. E.; Holmquist, G. P.; Barton, J. K. Biochemistry 2001, 40, 12465-12471.
23. Heller, A. Faraday Discuss. 2000, 116, 1-13.
24. 4 oxidations per day gives ∼1 day for repair, because the oxidation rate equals the repair rate at steady state.
25. 8 bp at 20% ∑G in the Ath genome.
26. Dringen, R. Prog. Neurobiol. 2000, 62, 649-671.
27. Noctor, G.; Arisi, A.-C. M.; Jouanin, L.; et al. J. Exp. Bot. 1998, 49, 623-647.
28. Maki, H.; Sekiguchi, M. Nature 1992, 355, 273-275.
29. Hogan, M. E.; Rooney, T. F.; Austin, R. H. Nature 1987, 328, 554-557.
30. Smerdon, M. J.; Thoma, F. Contemp. Cancer Res. 1942, 2, 199-222.
31. Boone, E.; Schuster, G. B. Nucleic Acids Res. 2002, 30, 830-837.
32. Meggers, E.; Michel-Beyerle, M. E.; Giese, B. J. Am. Chem. Soc. 1998, 120, 12950-12955.
33. O'Neill, P.; Parker, A. W.; Plumb, M. A.; et al. J. Phys. Chem. B 2001, 105, 5283-5290.
34. Sanii, L.; Schuster, G. B. J. Am. Chem. Soc. 2000, 122, 11545-11546.
35. Lewis, F. D.; Liu, X.; Liu, J.; et al. J. Am. Chem. Soc. 2000, 122, 12037-12038.
36. Bixon, M.; Giese, B.; Wessely, S.; et al. Proc. Natl. Acad. Sci. U.S.A. 1999, 96, 11713-11716.
37. Giese, B. Annu. Rev. Biochem. 2002, 71, 51-70.
38. Nunez, M. E.; Hall, D. B.; Barton, J. K. Chem. Biol. 1999, 6, 85-97.
39. Sistare, M. F.; Codden, S. J.; Heimlich, G.; et al. J. Am. Chem. Soc. 2000, 122, 4742-4749.
40. Treadway, C. R.; Hill, M. G.; Barton, J. K. Chem. Phys. 2002, 281, 409-428.
41. Boon, E. M.; Barton, J. K. Curr. Opin. Struct. Biol. 2002, 12, 320-329.
42. Murphy, C. J.; Arkin, M. R.; Jenkins, Y.; et al. Science 1993, 262, 1025-1029.
43. Hall, D. B.; Holmlin, R. E.; Barton, J. K. Nature 1996, 382, 731-735.
44. Oikawa, S.; Tada-Oikawa, S.; Kawanishi, S. Biochemistry 2001, 40, 4763-4768.
45. Szalai, V. A.; Singer, M. J.; Thorp, H. H. J. Am. Chem. Soc. 2002, 124, 1625-1631.
46. Kanvah, S.; Schuster, G. B. J. Am. Chem. Soc. 2002, 124, 11286-11287.
47. Benson, D. A.; Karsch-Mizrachi, I.; Lipman, D. J.; et al. Nucleic Acids Res. 2002, 30, 17-20.
48. International Human Genome Sequencing Consortium. Nature 2001, 409, 860-921.
49. Venter, J. C.; Adams, M. D.; Myers, E. W.; et al. Science 2001, 291, 1304-1351.
50. Adams, M. D.; Celniker, S. E.; Holt, R. A.; et al. Science 2000, 287, 2185-2195.
51. C. elegans Sequencing Consortium. Science 1998, 282, 2012-2018.
52. Arabidopsis Genome Initiative. Nature 2000, 408, 796-815.
53. Goffeau, A.; Barrell, B. G.; Bussey, H.; et al. Science 1996, 274, 546, 563-567.
54. Wood, V.; Gwilliam, R.; Rajandream, M. A.; et al. Nature 2002, 415, 871-880.
55. Katinka, M. D.; Duprat, S.; Cornillot, E.; et al. Nature 2001, 414, 450-453.
56. Chromosomes 2 and 3 constitute only 7% of the Pfa genome, but their ∑G + ∑C mole percentage (20%) is typical of the whole genome (18%) (data in refs 57 and 58).
57. Gardner, M. J.; Tettelin, H.; Carucci, D. J.; et al. Science 1998, 282, 1126-1132.
58. Bowman, S.; Lawson, D.; Basham, D.; et al. Nature 1999, 400, 532-538.
59. Carlo, T.; Sierra, R.; Berget, S. M. Mol. Cell. Biol. 2000, 20, 3988-3995.
60. McCullough, A. J.; Berget, S. M. Mol. Cell. Biol. 2000, 20, 9225-9235.
61. Friedman, K. A.; Heller. A. J. Phys. Chem. B 2001, 105, 11859-11865.
62. Hall, D. B.; Barton, J. K. J. Am. Chem. Soc. 1997, 119, 5045-5046.
63. Bernardi, G. Gene 2000, 259, 31-43.
64. Eyre-Walker, A.; Hurst, L. D. Nat. Rev. Genet. 2001, 2, 549-555.
65. Sueoka, N. J. Mol. Evol. 1992, 34, 95-114.
66. Hamilton, M. L.; Guo, Z.; Fuller, C. D.; et al. Nucleic Acids Res. 2001, 29, 2117-2126.