Lethal mutagenesis of bacteria

Genetics

Volumn 180, Issue 2, 2008, Pages 1061-1070

  Bull, James J ^a   Wilke, Claus O ^a  

^a UNIVERSITY OF TEXAS AT AUSTIN   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BACTERIAL GROWTH; BACTERIAL REPRODUCTION; BACTERIAL VIRULENCE; BACTERIUM; CHEMICAL MUTAGENESIS; CONTROLLED STUDY; GENE MUTATION; LETHAL MUTAGENESIS; MUTATION RATE; NONHUMAN; PRIORITY JOURNAL; RNA VIRUS; ANTIBIOTIC RESISTANCE; DNA REPAIR; DRUG EFFECT; GENETICS; MOLECULAR EVOLUTION; MUTAGENESIS; MUTATION;

BACTERIA (MICROORGANISMS); RNA VIRUSES;

MUTAGENIC AGENT;

BACTERIA; DNA REPAIR; DRUG RESISTANCE, BACTERIAL; EVOLUTION, MOLECULAR; MUTAGENESIS; MUTAGENS; MUTATION;

EID: 58149335560     PISSN: 00166731     EISSN: 00166731     Source Type: Journal    
DOI: 10.1534/genetics.108.091413     Document Type: Article

References (56)

1. ANDERSON, J. P., R. DAIFUKU and L. A. LOEB, 2004 Viral error catastrophe by mutagenic nucleosides. Annu. Rev. Microbiol. 58: 183-205.
2. ANDRE, J. B., and B. GODELLE, 2006 The evolution of mutation rate in finite asexual populations. Genetics 172: 611-626.
3. BLOOM, J. D., J. J. SILBERG, C. O. WILKE, D. A. DRUMMOND, C. ADAMI et al., 2005 Thermodynamic prediction of protein neutrality. Proc. Natl. Acad. Sci. USA 102: 606-611.
4. BLOOM, J. D., A. RAVAL and C. O. WILKE, 2007 Thermodynamics of neutral protein evolution. Genetics 175: 255-266.
5. BULL, J. J., R. SANJUAN and C. O. WILKE, 2007 Theory of lethal mutagenesis for viruses. J. Virol. 81: 2930-2939.
6. CHAO, L., C. VARGAS, B. B. SPEAR and E. C. COX, 1983 Transposable elements as mutator genes in evolution. Nature 303: 633-635.
7. CHARAMES, G. S., and B. BAPAT, 2003 Genomic instability and cancer. Curr. Mol. Med. 3: 589-596.
8. CHUNG, D. H., Y. SUN, W. B. PARKER, J. B. ARTERBURN, A. BARTOLUCCI et al., 2007 Ribavirin reveals a lethal threshold of allowable mutation frequency for hantaan virus. J. Virol. 81: 11722-11729.
9. CODOÑER, F. M., J.-A. DARÓS, R. V. SOLÉ and S. F. ELENA, 2006 The fittest versus the flattest: experimental confirmation of the quasispecies effect with subviral pathogens. PLoS Pathog. 2: e136.
10. DAUGHERTY, P. S., G. CHEN, B. L. IVERSON and G. GEORGIOU, 2000 Quantitative analysis of the effect of the mutation frequency on the affinity maturation of single chain Fv antibodies. Proc. Natl. Acad. Sci. USA 97: 2029-2034.
11. DRAKE, J. W., 1993 Rates of spontaneous mutation among RNA viruses. Proc. Natl. Acad. Sci. USA 90: 4171-4175.
12. DRAKE, J. W., B. CHARLESWORTH, D. CHARLESWORTH and J. F. CROW, 1998 Rates of spontaneous mutation. Genetics 148: 1667-1686.
13. DRUMMOND, D. A., B. L. IVERSON, G. GEORGIOU and F. H. ARNOLD, 2005 Why high-error-rate random mutagenesis libraries are enriched in functional and improved proteins. J. Mol. Biol. 350: 806-816.
14. FOSTER, R., C. ADAMI and C. O. WILKE, 2006 Selection for mutational robustness in finite populations. J. Theor. Biol. 243: 181-190.
15. FREISTADT, M. S., G. D. MEADES and C. E. CAMERON, 2004 Lethal mutagens: Broad-spectrum antivirals with limited potential for development of resistance? Drug Res. Updates 7: 19-24.
16. GERDES, S. Y., M. D. SCHOLLE, J. W. CAMPBELL, G. BALAZSI, E. RAVASZ et al., 2003 Experimental determination and system level analysis of essential genes in Escherichia coli MG1655. J. Bacteriol. 185: 5673-5684.
17. GERRISH, P. J., A. COLATO, A. S. PERELSON and P. D. SNIEGOWSKI, 2007 Complete genetic linkage can subvert natural selection. Proc. Natl. Acad. Sci. USA 104: 6266-6271.
18. GESSLER, D. D. G., 1995 The constraints of finite size in asexual populations and the rate of the ratchet. Genet. Res. 66: 241-253.
19. GRACI, J. D., and C. E. CAMERON, 2006 Mechanisms of action of ribavirin against distinct viruses. Rev. Med. Virol. 16: 37-48.
20. GRACI, J. D., D. A. HARKI, V. S. KORNEEVA, J. P. EDATHIL, K. TOO et al., 2007 Lethal mutagenesis of poliovirus mediated by a mutagenic pyrimidine analogue. J. Virol. 81: 11256-11266.
21. GRACI, J. D., K. TOO, E. D. SMIDANSKY, J. P. EDATHIL, E. W. BARR et al., 2008 Lethal mutagenesis of picornaviruses with n-6-modified purine nucleoside analogues. Antimicrob. Agents Chemother. 52: 971-979.
22. GRANDE-PEREZ, A., S. SIERRA, M. G. CASTRO, E. DOMINGO and P. R. LOWENSTEIN, 2002 Molecular indetermination in the transition to error catastrophe: systematic elimination of lymphocytic choriomeningitis virus through mutagenesis does not correlate linearly with large increases in mutant spectrum complexity. Proc. Natl. Acad. Sci. USA 99: 12938-12943.
23. GUO, H. H., J. CHOE and L. A. LOEB, 2004 Protein tolerance to random amino acid change. Proc. Natl. Acad. Sci. USA 101: 9205-9210.
24. HAIGH, J., 1978 The accumulation of deleterious genes in a population - Muller's ratchet. Theor. Popul. Biol. 14: 251-267.
25. JOHNSON, T., 1999a The approach to mutation-selection balance in an infinite asexual population, and the evolution of mutation rates. Proc. R. Soc. Lond. Ser. B: 266: 2389-2397.
26. JOHNSON, T., 1999b Beneficial mutations, hitchhiking and the evolution of mutation rates in sexual populations. Genetics 151: 1621-1631.
27. KIBOTA, T. T., and M. LYNCH, 1996 Estimate of the genomic mutation rate deleterious to overall fitness in E. coli. Nature 381: 694-696.
28. KIMURA, M., and T. MARUYAMA, 1966 The mutational load with epistatic gene interactions in fitness. Genetics 54: 1337-1351.
29. KOHANSKI, M. A., D. J. DWYER, B. HAYETE, C. A. LAWRENCE and J. J. COLLINS, 2007 A common mechanism of cellular death induced by bactericidal antibiotics. Cell 130: 797-810.
30. LENSKI, R. E., V. SOUZA, L. P. DUONG, Q. G. PHAN, T. N. NGUYEN et al., 1994 Epistatic effects of promoter and repressor functions of the tn10 tetracycline-resistance operon of the fitness of escherichia coli. Mol. Ecol. 3: 127-135.
31. LOEB, L. A., J. M. ESSIGMANN, F. KAZAZI, J. ZHANG, K. D. ROSE et al., 1999 Lethal mutagenesis of HIV with mutagenic nucleoside analogs. Proc. Natl. Acad. Sci. USA 96: 1492-1497.
32. MAYNARD SMITH, J., 1978 The Evolution of Sex. Cambridge University Press, Cambridge, UK.
33. MULLER, H. J., 1964 The relation of recombination to mutational advance. Mutat. Res. 1: 2-9.
34. PARIENTE, N., S. SIERRA, P. R. LOWENSTEIN and E. DOMINGO, 2001 Efficient virus extinction by combinations of a mutagen and antiviral inhibitors. J. Virol. 75: 9723-9730.
35. PFEIFFER, J. K., and K. KIRKEGAARD, 2003 A single mutation in polio-virus RNA-dependent RNA polymerase confers resistance to mutagenic nucleotide analogs via increased fidelity. Proc. Natl. Acad. Sci. USA 100: 7289-7294.
36. POON, A., and S. P. OTTO, 2000 Compensating for our load of mutations: freezing the meltdown of small populations. Evolution 54: 1467-1479.
37. ROUZINE, I. M., J. WAKELEY and J. M. COFFIN, 2003 The solitary wave of asexual evolution. Proc. Natl. Acad. Sci. USA 100: 587-592.
38. ROUZINE, I. M., É. BRUNET and C. O. WILKE, 2008 The traveling wave approach to asexual evolution: Muller's ratchet and speed of adaptation. Theor. Popul. Biol. 73: 24-46.
39. SANJUAN, R., A. MOYA and S. F. ELENA, 2004 The distribution of fitness effects caused by single-nucleotide substitutions in an RNA virus. Proc. Natl. Acad. Sci. USA 101: 8396-8401.
40. SANJUÁN, R., J. M. CUEVAS, V. FURIÓ, E. C. HOLMES and A. MOYA, 2007 Selection for robustness in mutagenized RNA viruses. PLoS Genet. 3: e93.
41. SHAKHANI, S., R. A. SIEGEL, E. FERRARI and V. SCHELLENBERGER, 1997 Generation of large libraries of random mutants in bacillus subtilis by PCR-based plasmid multimerization. Biotechniques 23: 304-310.
42. SHAVER, A. C., P. G. DOMBROWSKI, J. Y. SWEENEY, T. TREIS, R. M. ZAPPALA et al., 2002 Fitness evolution and the rise of mutator alleles in experimental Escherichia coli populations. Genetics 162: 557-566.
43. SIERRA, S., M. DÁILA, P. R. LOWENSTEIN and E. DOMINGO, 2000 Response of foot-and-mouth disease virus to increased mutagenesis: influence of viral load and fitness in loss of infectivity. J. Virol. 74: 8316-8323.
44. SMITH, R. A., L. A. LOEB and B. D. PRESTON, 2005 Lethal mutagenesis of HIV. Virus Res. 107: 215-228.
45. SNIEGOWSKI, P., 1997 Evolution: setting the mutation rate. Curr. Biol. 7: R487-R488.
46. SNIEGOWSKI, P. D., P. J. GERRISH and R. E. LENSKI, 1997 Evolution of high mutation rates in experimental populations of E. coli. Nature 387: 703-705.
47. TADDEI, F., M. RADMAN, J. MAYNARD-S MITH, B. TOUPANCE, P. H. GOUYON et al., 1997 Role of mutator alleles in adaptive evolution. Nature 387: 700-702.
48. TANNENBAUM, E., and E. I. SHAKHNOVICH, 2005 Semiconservative replication, genetic repair, and many-gened genomes. Phys. Life Rev. 2: 290-317.
49. TANNENBAUM, E., E. J. DEEDS and E. I. SHAKHNOVICH, 2004 Semiconservative replication in the quasispecies model. Phys. Rev. E 69: 061916.
50. VAN NIMWEGEN, E., J. P. CRUTCHFIELD and M. HUYNEN, 1999 Neutral evolution of mutational robustness. Proc. Natl. Acad. Sci. USA 96: 9716-9720.
51. VIGNUZZI, M., J. K. STONE and R. ANDINO, 2005 Ribavirin and lethal mutagenesis of poliovirus: molecular mechanisms, resistance and biological implications. Virus Res. 107: 173-181.
52. WILKE, C. O., 2001 Selection for fitness versus selection for robustness in RNA secondary structure folding. Evolution 55: 2412-2420.
53. WILKE, C. O., J. L. WANG, C. OFRIA, R. E. LENSKI and C. ADAMI, 2001 Evolution of digital organisms at high mutation rate leads to survival of the flattest. Nature 412: 331-333.
54. WILKE, C. O., J. D. BLOOM, D. A. DRUMMOND and A. RAVAL, 2005 Predicting the tolerance of proteins to random amino acid substitution. Biophys. J. 89: 3714-3720.
55. YANO, Y., T. OGUMA, H. NAGATA and S. SASAKI, 1998 Application of logistic growth model to pharmacodynamic analysis of in vitro bactericidal kinetics. J. Pharm. Sci. 87: 1177-1183.
56. ZELDOVICH, K. B., P. CHEN and E. I. SHAKHNOVICH, 2007 Protein stability imposes limits on organism complexity and speed of molecular evolution. Proc. Natl. Acad. Sci. USA 104: 16152-16157.