Coming to Grips with Evolvability

Evolution: Education and Outreach

Volumn 5, Issue 2, 2012, Pages 231-244

  Pavlicev, Mihaela ^a,b   Wagner, Günter P ^c  

^a UNIVERSITY OF VIENNA   (Austria)

^b Konrad Lorenz Institute for Cognition and Evolution Research   (Austria)

^c YALE UNIVERSITY   (United States)

Author keywords

Canalization; Constraint; Development; Genotype phenotype map; Modularity; Robustness

Indexed keywords

EID: 84907979855     PISSN: 19366426     EISSN: 19366434     Source Type: Journal    
DOI: 10.1007/s12052-012-0430-1     Document Type: Article

References (88)

1. Albert AY, Sawaya S, Vines TH, Knecht AK, Miller CT, Summers BR, et al. The genetics of adaptive shape shift in stickleback: pleiotropy and effect size. Evolution. 2008;62:76-85.
2. Albertson RC, Streelman JT, Kocher TD, Yelick PC. Integration and evolution of the cichlid mandible: the molecular basis of alternate feeding strategies. Proc Natl Acad Sci U S A. 2005;102:16287-92.
3. Altenberg L. The evolution of evolvability in genetic programming. In: Kinnear Jr KE, editor. Advances in genetic programming. Cambridge: MIT Press; 1994. p. 47-74.
4. Amundson R. The changing rule of the embryo in evolutionary thought: roots of evo-devo. Cambridge studies in philosophy and biology. Cambridge: Cambridge University Press; 2005.
5. Ancel Meyers LW, Fontana W. Evolutionary lock-in and the origin of modularity in RNA structure. In: Callebaut W, Rasskin-Gutman D, editors. Modularity: understanding the development and evolution of complex natural systems. Cambridge: MIT Press; 2005.
6. Behe M. Darwin's black box. New York: Free Press; 1996.
7. Berg R. The ecological significance of correlation pleiades. Evolution. 1960;17:171-80.
8. Brigandt I. Typology now: homology and developmental constraints explain evolvability. Biol Philos. 2007;22:709-25.
9. Brigandt I. Intelligent design and the nature of science: philosophical and pedagogical points. In: Kampourakis K, editor. Philosophical issues in biology education. Berlin: Springer; 2012.
10. Colegrave N, Collins S. Experimental evolution: experimental evolution and evolvability. Heredity (Edinb). 2008;100:464-70.
11. Crow JF, Kimura M. An introduction to population genetics theory. New York: Harper & Row; 1970.
12. Darwin C. On the origin of species by means of natural selection, or the preservation of favored races in the struggle for life. London: John Murray; 1859.
13. de Visser JA, Hermisson J, Wagner GP, Ancel Meyers L, Bagheri-Chaichian H, Blanchard JL, et al. Perspective: evolution and detection of genetic robustness. Evolution. 2003;57:1959-72.
14. Delph LF, Steven JC, Anderson IA, Herlihy CR, Brodie 3rd ED. Elmination of a genetic correlation between the sexes via artificial correlational selection. Evolution. 2011;65:2872-80.
15. Draghi JA, Parsons TL, Wagner GP, Plotkin JB. Mutational robustness can facilitate adaptation. Nature. 2010;463:353-5.
16. Ehrich TH, Vaughn TT, Koreishi SF, Linsey RB, Pletscher LS, Cheverud JM. Pleiotropic effects on mandibular morphology I. Developmental morphological integration and differential dominance. J Exp Zool B Mol Dev Evol. 2003;296:58-79.
17. Eldredge N, Gould SJ. Punctuated equilibria: an alternative to phyletic gradualism. In: Schopf TJM, editor. Models in paleobiology. San Francisco: Freeman Cooper; 1972.
18. Finnigan GC, Hanson-Smith V, Stevens TH, Thornton JW. Evolution of increased complexity in a molecular machine. Nature. 2012;481:360-4.
19. Fisher RA. The genetical theory of natural selection. 2nd ed. New York: Dover; 1930.
20. Fodor J, Piatelli-Palmarini M. What Darwin got wrong. 1st ed. New York: Farrar, Straus and Giroux; 2010.
21. Fontana W. Modelling 'evo-devo' with RNA. Bioessays. 2002;24:1164-77.
22. Force A, Cresko WA, Pickett FB, Proulx SR, Amemiya C, Lynch M. The origin of subfunctions and modular gene regulation. Genetics. 2005;170:433-46.
23. Force A, Lynch M, Pickett FB, Amores A, Yan Y, Postlethwait J. Preservation of duplicate genes by complementary, degenerative mutations. Genetics. 1999;151:1531-45.
24. Futuyma DJ. Two critics without a clue. Science. 2010;328:692-3.
25. Galis F. Why do almost all mammals have seven cervical vertebrae? Developmental constraints, Hox genes, and cancer. J Exp Zool. 1999;285:19-26.
26. Garland T, Rose MR. Experimental evolution: concepts, methods, and applications of selection experiments. Berkeley: University of California Press; 2009.
27. Gerhart J, Kirschner M. Cells, embryos and evolution. Malden, MA: Blackwell Science; 1997.
28. Gerhart JC, Kirschner MW. The theory of facilitated variation. PNAS. 2007;104:8582-9.
29. Gould SJ, Eldredge N. Punctuated equilibria: the tempo and mode of evolution reconsidered. Paleobiology. 1977;3:115-51.
30. Gould SJ, Lewontin RC. The spandrels of San Marco and the Panglossian paradigm: a critique of the adaptationist programme. Proc R Soc Lond B Biol Sci. 1979;205:581-98.
31. Hansen TF. Is modularity necessary for evolvability? Remarks on the relationship between pleiotropy and evolvability. Biosystems. 2003;69:83-94.
32. Hansen TF. The evolution of genetic architecture. Annu Rev Ecol Evol Syst. 2006;37:123-57.
33. Hansen TF. Epigenetics: adaptation or contingency? In: Hallgrimsson B, Hall BK, editors. Linking genotype and phenotype in development and evolution. Berkeley: University of California Press; 2011.
34. Hayden EJ, Ferrada E, Wagner A. Cryptic genetic variation promotes rapid evolutionary adaptation in an RNA enzyme. Nature. 2011;474:92-5.
35. Hendrikse JL, Parsons TE, Hallgrimsson B. Evolvability as the proper focus of evolutionary developmental biology. Evol Dev. 2007;9:393-401.
36. Hermisson J, Wagner GP. The population genetic theory of hidden variation and genetic robustness. Genetics. 2004;168:2271-84.
37. Hill WG, Zhang X-S. On the pleiotropic structure of the genotype-phenotype map and the evolvability of complex organisms. Genetics. 2012. doi: 10.1534/genetics.111.135681.
38. Hill WG, Zhang X-S. Assessing pleiotropy and its evolutionary consequences: pleiotropy is not necessarily limited, nor need it hinder the evolution of complexity. Nat Rev Genet. 2012;13:296.
39. Houle D, Govindaraju DR, Omholt S. Phenomics: the next challenge. Nat Rev Genet. 2010;11:855-66.
40. Huynen MA. Exploring phenotype space through neutral evolution. J Mol Evol. 1996;43:165-9.
41. Huynen MA, Stadler PF, Fontana W. Smoothness within ruggedness: the role of neutrality in adaptation. Proc Natl Acad Sci U S A. 1996;93:397-401.
42. Kenney-Hunt JP, Wang B, Norgard EA, Fawcett G, Falk D, Pletscher LS, et al. Pleiotropic patterns of quantitative trait loci for 70 murine skeletal traits. Genetics. 2008;178:2275-88.
43. Kirschner M, Gerhart J. Evolvability. PNAS. 1998;95:8420-27.
44. Kirschner MW, Gerhart JC. The plausibility of life: resolving Darwin's dilemma. New Haven: Yale University Press; 2005.
45. Kirschner MW, Gerhart JC. Facilitated variation. In: Müller GB, Pigliucci M, editors. Evolution - the extended sythesis. Cambridge: MIT Press; 2010.
46. Lynch M. The evolution of genetic networks by non-adaptive processes. Nat Rev Genet. 2007a;8:803-13.
47. Lynch M. The frailty of adaptive hypotheses for the origins of organismal complexity. Proc Natl Acad Sci U S A. 2007b;104 Suppl 1:8597-604.
48. McBride RC, Ogbunugafor CB, Turner PE. Robustness promotes evolvability of thermotolerance in an RNA virus. BMC Evol Biol. 2008;8:231.
49. Mezey JG, Cheverud JM, Wagner GP. Is the genotype-phenotype map modular? A statistical approach using mouse quantitative trait loci data. Genetics. 2000;156:305-11.
50. Montville R, Froissart R, Remold SK, Tenaillon O, Turner PE. Evolution of mutational robustness in an RNA virus. PLoS Biol. 2005;3:e381.
51. Narita Y, Kuratani S. Evolution of the vertebral formulae in mammals: a perspective on developmental constraints. J Exp Zool B Mol Dev Evol. 2005;304:91-106.
52. Olson EC, Miller RL. Morphological integration. Chicago: University of Chicago Press; 1958.
53. Orr AH. Adaptation and the cost of complexity. Evolution. 2000;54:13-20.
54. Parsons KJ, Marquez E, Albertson RC. Constraint and opportunity: the genetic basis and evolution of modularity in the cichlid mandible. Am Nat. 2012;179:64-78.
55. Pavlicev M, Hansen TF. Genotype-phenotype maps maximizing evolvability: modularity revisited. Evol Biol. 2011;38:371-89.
56. Pavlicev M, Wagner GP. A model of developmental evolution: selection, pleiotropy and compensation. Tree. 2012;27:316-22.
57. Pavlicev M, Kenney-Hunt JP, Norgard EA, Roseman CC, Wolf JB, Cheverud JM. Genetic variation in pleiotropy: differential epistasis as a source of variation in the allometric relationship between long bone lengths and body weight. Evolution. 2008;62:199-213.
58. Pelabon C, Armbruster S, Hansen TF. Experimental evidence for the Berg hypothesis: vegetative traits are more sensitive than pollination traits to environmental variation. Funct Ecol. 2011;25:247-57.
59. Pigliucci M. Is evolvability evolvable? Nat Rev Genet. 2008;9:75-82.
60. Rechenberg I. Evolutionsstrategie. Stuttgart: Friedrich Frommann Verlag; 1973.
61. Rensch B. Evolution above the species level. New York: Columbia University Press; 1959.
62. Riedl RJ. Order in living organisms: a systems analysis of evolution. New York: Wiley; 1978.
63. Rohner N, Bercsenyi M, Orban L, Kolanczyk ME, Linke D, Brand M, et al. Duplication of fgfr1 permits Fgf signaling to serve as a target for selection during domestication. Curr Biol. 2009;19:1642-7.
64. Rutherford SL. Between genotype and phenotype: protein chaperones and evolvability. Nat Rev Genet. 2003;4:263-74.
65. Rutherford SL, Lindquist S. Hsp90 as a capacitor for morphological evolution. Nature. 1998;396:336-42.
66. Schoch RR. Riedl's burden and the body plan: selection, constraint, and deep time. J Exp Zool B Mol Dev Evol. 2010;314:1-10.
67. Schuster P, Fontana W. Chance and necessity in evolution: lessons from RNA. Physica D. 1999;133:427-52.
68. Schuster P, Fontana W, Stadler PF, Hofacker IL. From sequences to shapes and back: a case study in RNA secondary structures. Proc Biol Sci. 1994;255:279-84.
69. Simpson GG. The major features of evolution. New York: Simon and Schuster; 1953.
70. Sober E. Fodor's Bubbe Meise against Darwinism. Mind and Lang. 2008;23:42-9.
71. Specchia V, Piacentini L, Tritto P, Fanti L, D'Alessandro R, Palumbo G, et al. Hsp90 prevents phenotypic variation by suppressing the mutagenic activity of transposons. Nature. 2010;463:662-5.
72. Su Z, Zeng Y, Gu X. A preliminary analysis of gene pleiotropy estimated from protein sequences. J Exp Zool B Mol Dev Evol. 2010;314:115-22.
73. Turner PE, Chao L. Sex and the evolution of intrahost competition in RNA virus phi6. Genetics. 1998;150:523-32.
74. Waddington CH. Canalization of development and the inheritance of acquired characters. Nature. 1942;150:563-5.
75. Waddington CH. The strategy of the genes. New York: MacMillan Co.; 1957.
76. Wagner A. Robustness and evolvability in living systems. Princeton studies in complexity. Princeton: Princeton University Press; 2005.
77. Wagner A. The role of robustness in phenotypic adaptation and innovation. Proc Biol Sci. 2012. doi: 10.1098/rspb.2011.2293. Published before print.
78. Wagner GP, Altenberg L. Complex adaptations and evolution of evolvability. Evolution. 1996;50:967-76.
79. Wagner GP, Laubichler MD. Rupert Riedl and the re-synthesis of evolutionary and developmental biology: body plans and evolvability. J Exp Zool B Mol Dev Evol. 2004;302:92-102.
80. Wagner GP, Zhang J. The pleiotropic structure of the genotype-phenotype map: the evolvability of complex organisms. Nat Rev Genet. 2011;12:204-13.
81. Wagner GP, Zhang J. Universal pleiotropy is not a valid null hypothesis: reply to Hill and Zhang. Nat Rev Genet. 2012;13:296.
82. Wagner GP, Pavlicev M, Cheverud JM. The road to modularity. Nat Rev Genet. 2007;8:921-31.
83. Wagner GP, Kenney-Hunt JP, Pavlicev M, Peck JR, Waxman D, Cheverud JM. Pleiotropic scaling of gene effects and the 'cost of complexity'. Nature. 2008;452:470-2.
84. Wang Z, Liao BY, Zhang J. Genomic patterns of pleiotropy and the evolution of complexity. Proc Natl Acad Sci U S A. 2010a;107:18034-9.
85. Wang Z, Dong D, Ru B, Young RL, Han N, Guo T, Zhang S. Digital gene expression tag profiling of bat digits provides robust candidates contributing to wing formation. BMC Genomics. 2010b;11:619.
86. Woods RJ, Barrick JE, Cooper TF, Shrestha U, Kauth MR, Lenski RE. Second-order selection for evolvability in a large Escherichia coli population. Science. 2011;331:1433-6.
87. Young NM, Wagner GP, Hallgrimsson B. Development and the evolvability of human limbs. Proc Natl Acad Sci U S A. 2010;107:3400-5.
88. Zou L, Sriswasdi S, Ross B, Missiuro PV, Liu J, Ge H. Systematic analysis of pleiotropy in C. elegans early embryogenesis. PLoS Comput Biol. 2008;4:e1000003.