Predicting fitness effects of beneficial mutations in digital organisms

Proceedings of the 2007 IEEE Symposium on Artificial Life, CI-ALife 2007

Volumn , Issue , 2007, Pages 39-46

  Zhang, Haitao ^a   Travisano, Michael ^a  

^a University of Houston

Author keywords

[No Author keywords available]

Indexed keywords

DATA REDUCTION; EVOLUTIONARY ALGORITHMS; MATHEMATICAL MODELS; STATISTICAL METHODS;

BENEFICIAL MUTATIONS; DIGITAL ORGANISMS; POPULATION GENETICS;

ARTIFICIAL INTELLIGENCE;

EID: 34548757140     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/ALIFE.2007.367656     Document Type: Conference Paper

References (27)

1. R. A. Fisher, The genetical theory of natural selection, Oxford University Press, Oxford, 1930.
2. H. J. Muller, "Some genetic aspects of sex," The American Naturalist, vol. 66, pp.118-138, 1932.
3. M. Kimura, The neutral theory of molecular evolution, Cambridge University Press, Cambridge, UK, 1983.
4. J. Gillespie, "Molecular evolution over the mutational landscape," Evolution, vol. 38, pp.1116-1129, 1984.
5. J. Gillespie, The Causes of Molecular Evolution, Oxford University Press, Oxford, 1991.
6. H. A. Orr, "The population genetics of adaptation: the distribution of factors fixed during adaptive evolution," Evolution, vol. 52, pp.935-949, 1998.
7. N. H. Barton, and P. D. Keightley, "Understanding quantitative genetic variation," Nature Reviews Genetics, vol. 3, pp. 11-21, 2002.
8. R. E. Lenski, M. R. Rose, S. C. Simpson, and S. C. Tadler, "Long-term experimental evolution in Escherichia coli. I. Adaptation and divergence during 2,000 generations," The American Naturalist, vol. 138, pp.1315-1341, 1991.
9. R. E. Lenski, and M. Travisano, "Dynamics of adaptation and diversification: a 10,000-generation experiment with bacterial populations," Proc. Natl. Acad. Sci. U.S.A., vol. 91, pp. 6808-6814, 1994.
10. K. K. Holder and J. J. Bull, "Profiles of adaptation in two similar viruses," Genetics, vol. 159, pp.1393-1404, 2001.
11. F. M. Cohan, and A. A. Hoffmann, "Genetic divergence under uniform selection. II. Different responses to selection for knockdown resistance to ethanol among Drosophila melanogaster populations and their replicate lines," Genetics, vol. 114, pp.145, 1986.
12. S. F. Elena, V. S. Cooper, and R. E. Lenski, "Punctuated evolution caused by selection of rare beneficial mutations," Science, vol. 272, pp. 1802-1804, 1996.
13. C. Ofria, and C. O. Wilke, Avida user's manual (http://dllab.caltech.edu/ avida), 2003.
14. G. Yedid, and G. Bell, "Microevolution in an electronic microcosm," The American Naturalist, vol. 157, pp. 465-487, 2001.
15. G. Yedid, and G. Bell, "Macroevolution simulated with autonomously replicating computer programs," Nature, vol. 420, pp.810-812, 2002.
16. R. E. Lenski, C. Ofria, T. C. Collier, and C. Adami, "Genome complexity, robustness, and genetic interactions in digital organisms," Nature, vol. 400, pp.661-664, 1999.
17. C. O. Wilke, J. L. Wang, C. Ofria, R. E. Lenski, and C. Adami, "Evolution of digital organisms at high mutation rate leads to survival of the flattest," Nature, vol. 412, pp.331-333, 2001.
18. R. E. Lenski, C. Ofria, R. T. Pennock, and C. Adami, "The evolutionary origin of complex features," Nature, vol. 423, pp.139-144, 2003.
19. M. Travisano, J. A. Mongold, A. F. Bennett, and R. E. Lenski, "Experimental tests of the roles of adaptation, chance, and history in evolution," Science, vol. 267, pp.87-90, 1995.
20. F. Vasi, M. Travisano, and R. E. Lenski, "Long-term experimental evolution in Escherichia coli. II. Changes in life-history traits during adaptation to a seasonal environment," The American Naturalist, vol. 144, pp.432-456, 1994.
21. M. J. Schell, and B. Singh. "The reduced monotonic regression method," JASA, vol. 92, pp. 128-35, 1997.
22. D. G. Kleinbaum, and L. L. Küpper, Applied regression analysis and other multivariate methods, Duxbury, North Scituate, Mass, 1978.
23. D. M. Raup, Extinction: bad gene or bad luck? W.W. Norton & Company, Inc, 1991.
24. D. L. Hartl, D. E. Dykhuizen, and A. M. Dean, "Limits of adaptation: the evolution of selective neutrality," Genetics, vol. 111, pp.655-674, 1985.
25. S. Kauffman, "Towards a general theory of adaptive walks on rugged landscapes," J. Theor. Biol., vol. 128, pp. 11-45. 1987.
26. M. Imhof, and C. Schlotterer, "Fitness effects of advantageous mutations in evolving Escherichia coli populations," Proc. Natl. Acad. Sci. U.S.A., vol. 98, pp.1113-1117, 2001.
27. D. E. Rozen, J. A. G. M. De Visser, and P. J. Gerrish, "Fitness effects of adaptations in microbial populations," Curr. Boil., vol. 12, pp.1040-1045, 2002.