Robustness and epistasis in mutation-selection models

Physical Biology

Volumn 6, Issue 3, 2009, Pages

  Wolff, Andrea ^a   Krug, Joachim ^a  

^a UNIVERSITY OF COLOGNE   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; GENETIC EPISTASIS; MATHEMATICAL COMPUTING; MOLECULAR EVOLUTION; POPULATION DISTRIBUTION; PRIORITY JOURNAL; BIOLOGICAL MODEL; GENETICS; MUTATION; PHENOTYPE;

EPISTASIS, GENETIC; MODELS, GENETIC; MUTATION; PHENOTYPE;

EID: 67649969564     PISSN: 14783967     EISSN: 14783975     Source Type: Journal    
DOI: 10.1088/1478-3975/6/3/036007     Document Type: Article

References (37)

1. de Visser J A G M et al 2003 Perspective: evolution and detection of genetic robustness Evolution 57 1959-72
2. Krakauer D C and Plotkin J B 2002 Redundancy, antiredundancy, and the robustness of genomes Proc. Natl Acad. Sci. 99 1405-9
3. Gerland U and Hwa T 2002 On the selection and evolution of regulatory DNA motifs J. Mol. Evol. 55 386-400
4. Berg J, Willmann S and Lässig M 2004 Adaptive evolution of transcription factor binding sites BMC Evol. Biol. 4 42
5. Peliti L 2002 Quasispecies evolution in general mean-field landscapes Europhys. Lett. 57 745
6. Jain K and Krug J 2007 Adaptation in simple and complex fitness landscapes Structural Approaches to Sequence Evolution: Molecules, Networks and Populations ed U Bastolla, M Porto, H E Roman and M Vendruscolo (Berlin: Springer) pp 299-339
7. Schuster P and Swetina J 1988 Stationary mutant distributions and evolutionary optimization Bull. Math. Biol. 50 635-60
8. Wilke C O, Wang J L, Ofria C, Lenski R E and Adami C 2001 Evolution of digital organisms at high mutation rates leads to survival of the flattest Nature 412 331-3
9. Wilke C 2001 Selection for fitness versus selection for robustness in RNA secondary structure folding Evolution 55 2412
10. Tannenbaum E and Shakhnovich E 2004 Solution of the quasispecies model for an arbitrary gene network Phys. Rev. E 70 021903
11. Codoner F M, Daros J-A, Solé R V and Elena S F 2006 The fittest versus the flattest: experimental confirmation of the quasispecies effect with subviral pathogens PLoS Pathogens 2 e136
12. Sanjuan R, Cuevas J M, Furio V, Holmes E C and Moya A 2007 Selection for robustness in mutagenized RNA viruses PLoS Genet. 3 e93
13. Rolland M, Brander C, Nickle D C, Herbeck J T, Gottlieb G S, Campbell M S, Maust B S and Mullins J I 2007 HIV-1 over time: fitness loss or robustness gain? Nature Rev. Microbiol. 5 1-2
14. Sardanyés J, Elena S F and Solé R V 2008 Simple quasispecies models for the survival-of-the-flattest effect: the role of space J. Theor. Biol. 250 560-8
15. Phillips P C, Otto S P and Whitlock M C 2000 Beyond the average: the evolutionary importance of gene interactions and variability of epistatic effects Epistasis and the Evolutionary Process ed J B Wolf, E D Brodie III and M J Wade (Oxford: Oxford University Press)
16. Wiehe T 1997 Model dependency of error thresholds: the role of fitness functions and contrasts between the finite and infinite sites models Genet. Res. Camb. 69 127-36
17. Jain K 2008 Loss of least-loaded class in asexual populations due to drift and epistasis Genetics 179 2125
18. Hermisson J, Redner O, Wagner H and Baake E 2002 Mutation-selection balance: ancestry, load, and maximum principle Theor. Pop. Biol. 62 9-46
19. Baake E, Baake M, Bovier A and Klein M 2005 An asymptotic maximum principle for essentially linear evolution models J. Math. Biol. 50 83-114
20. Saakian D B and Hu C-K 2006 Exact solution of the Eigen model with general fitness functions and degradation rates Proc. Natl Acad. Sci. 103 4935-9
21. Park J M and Deem M W 2006 Schwinger boson formulation and solution of the Crow-Kimura and Eigen models of quasispecies theory J. Stat. Phys. 125 975
22. Saakian D B 2007 A new method for the solution of model of biological evolution: derivation of exact steady-state distributions J. Stat. Phys. 128 781-98
23. Baake E and Georgii H-O 2007 Mutation, selection, and ancestry in branching models: a variational approach J. Math. Biol. 54 257
24. Sato K and Kaneko K 2007 Evolution equation of phenotype distribution: general formulation and application to error catastrophe Phys. Rev. E 75 061909
25. Tarazona P 1992 Error thresholds for molecular quasispecies as phase transitions: from simple landscapes to spin-glass models Phys. Rev. A 45 6038
26. Eigen M 1971 Selforganization of matter and the evolution of biological macromolecules Naturwissenschaften 58 465
27. Crow J F and Kimura M 1970 An Introduction to Population Genetic Theory (New York: Harper and Row)
28. Hofbauer J 1985 The selection mutation equation J. Math. Biol. 23 41-53
29. Thompson C J and McBride J L 1974 On Eigen's theory of the self-organization of matter and the evolution of biological macromolecules Math. Biosci. 21 127
30. Sornette D 2000 Critical Phenomena in Natural Sciences (Berlin: Springer)
31. Rollnik H 1995 Quantentheorie I (Wiesbaden: Vieweg)
32. Leuthäusser I 1987 Statistical mechanics of Eigen's evolution model J. Stat. Phys. 48 343
33. Baake E and Wagner H 2001 Mutation-selection models solved exactly with methods from statistical mechanics Genet. Res. 78 93
34. Kondrashov F A and Kondrashov A S 2001 Multidimensional epistasis and the disadvantage of sex Proc. Natl Acad. Sci. 98 12089-92
35. Weinreich D M, Watson R A and Chao L 2005 Perspective: sign epistasis and genetic constraint on evolutionary trajectories Evolution 59 1165-74
36. Garske T and Grimm U 2004 A maximum principle for the mutation-selection equilibrium of nucleotide sequences Bull. Math. Biol. 66 397
37. Garske T and Grimm U 2004 Maximum principle and mutation thresholds for four-letter sequence evolution J. Stat. Mech. P07007