Adaptive landscapes and protein evolution

Proceedings of the National Academy of Sciences of the United States of America

Volumn 107, Issue SUPPL. 1, 2010, Pages 1747-1751

  Carneiro, Maurício ^a   Hartl, Daniel L ^a  

^a HARVARD UNIVERSITY   (United States)

Author keywords

Antibiotic resistance; Fitness landscape; Molecular evolution

Indexed keywords

MUTANT PROTEIN; PROTEIN;

AMINO ACID SEQUENCE; ANTIBIOTIC RESISTANCE; CONFERENCE PAPER; CONTROLLED STUDY; GENETIC SELECTION; HOMOZYGOTE; INSECTICIDE RESISTANCE; MOLECULAR EVOLUTION; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN FUNCTION; RANDOMIZATION; SEQUENCE ANALYSIS; SIMULATION; SITE DIRECTED MUTAGENESIS; CHEMISTRY; COMPUTER SIMULATION; GENETICS; MUTATION; REVIEW;

COMPUTER SIMULATION; EVOLUTION, MOLECULAR; MUTATION; PROTEINS;

EID: 76549129324     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.0906192106     Document Type: Article

References (30)

1. Maynard Smith J (1970) Natural selection and the concept of a protein space. Nature 225:563-564.
2. Malcolm BA, Wilson KP, Matthews BW, Kirsch JF, Wilson AC (1990) Ancestral lysozymes reconstructed, neutrality tested, and thermostability linked to hydrocarbon packing. Nature 345:86-89.
3. Aita T, Iwakura M, Hasumi Y (2001) A cross-section of the fitness landscape of dihydrofolate reductase. Protein Eng 14:633-638.
4. Lunzer M, Miller SP, Felsheim R, Dean AM (2005) The biochemical architecture of an ancient adaptive landscape. Science 310:499-501.
5. Weinreich DM, Delaney NF, DePristo MA, Hartl DL (2006) Darwinian evolution can follow only very few mutational paths to fitter proteins. Science 312:111-114.
6. Poelwijk FJ, Kiviet DJ, Weinreich DM, Tans SJ (2007) Empirical fitness landscapes reveal accessible evolutionary paths. Nature 445:383-386.
7. Lozovsky ER, et al. (2009) Stepwise acquisition of pyrimethamine resistance in the malaria parasite. Proc Natl Acad Sci USA 106:12025-12030.
8. Haldane JBS (1931) A mathematical theory of natural selection, part VIII: Metastable populations. Proc Cambridge Philos Soc 27:137-142.
9. Wright S (1932) The roles of mutation, inbreeding, cross-breeding and selection in evolution. Proc Sixth Int Cong Genet 1:356-366.
10. Provine WB (1986) Sewall Wright and Evolutionary Biology (Univ Chicago Press, Chicago).
11. Hartl DL, Clark AG (2007) Principles of Population Genetics (Sinauer, Sunderland, MA).
12. Wright S (1931) Evolution in Mendelian populations. Genetics 16:97-159.
13. Gillespie JH (1984) Molecular evolution over the mutational landscape. Evolution (Lawrence, Kans) 38:1116-1129.
14. Haldane JBS (1927) A mathematical theory of natural and artificial selection, part V: Selection and mutation. Proc Cambridge Philos Soc 28:838-844.
15. Coyne JA, Barton NH, Turelli M (1997) A critique of Sewall Wright's shifting balance theory of evolution. Evolution (Lawrence, Kans) 51:643-671.
16. Weinreich DM, Watson RA, Chao L (2005) Perspective: Sign epistasis and genetic constraint on evolutionary trajectories. Evolution (Lawrence, Kans) 59:1165-1174.
17. Kauffman S, Levin S (1987) Toward a general theory of adaptive walks on rugged landscapes. J Theor Biol 128:11-45.
18. Kauffman SA (1993) The Origins of Order: Self-Organization and Selection in Evolution (Oxford Univ Press, New York).
19. Kauffman SA (1995) At Home in the Universe: The Search for Laws of Self-Organization and Complexity (Oxford Univ Press, New York).
20. Gavrilets S (2004) Fitness Landscapes and the Origin of Species (Princeton Univ Press, Princeton).
21. Frenken K (2005) Innovation, Evolution, and Complexity Theory (Edward Elgar, Cheltenham, UK).
22. Rokyta DR, Beisel CJ, Joyce P (2006) Properties of adaptive walks on uncorrelated landscapes under strong selection and weak mutation. J Theor Biol 243:114-120.
23. Stoltzfus A (2006) Mutation-biased adaptation in a protein NK model. Mol Biol Evol 23:1852-1862.
24. Levitan B, Kauffman SA (1995) Adaptive walks with noisy fitness measurements. Mol Diversity 1:53-68.
25. Kim Y (2007) Rate of adaptive peak shifts with partial genetic robustness. Evolution (Lawrence, Kans) 61:1847-1856.
26. Gravner J, Pitman D, Gavrilets S (2007) Percolation on fitness landscapes: Effects of correlation, phenotype, and incompatibilities. J Theor Biol 248:627-645.
27. Orr HA (2005) The genetic theory of adaptation: A brief history. Nat Rev Genet 6:119-127.
28. Ao P (2009) Global view of bionetwork dynamics: Adaptive landscapes. J Genet Genomics 36:63-73.
29. Kaplan J (2008) The end of the adaptive landscape metaphor? Biol Philos 23:625-638.
30. Wright S (1988) Surfaces of selective value revisited. Am Nat 131:115-123.