Evolution with stochastic fitnesses: A role for recombination

Theoretical Population Biology

Volumn 86, Issue , 2013, Pages 29-42

  Carja, Oana ^a   Liberman, Uri ^b   Feldman, Marcus W ^a  

^a STANFORD UNIVERSITY   (United States)

^b TEL AVIV UNIVERSITY   (Israel)

Author keywords

Adaptive evolution; Fluctuating environments; Recombination; Stochastic fitness; Variance modifiers

Indexed keywords

ADAPTATION; ALLELE; ENVIRONMENTAL CHANGE; FITNESS; NATURAL SELECTION; PHENOTYPIC PLASTICITY; RECOMBINATION; STOCHASTICITY;

ARTICLE; BIOLOGICAL MODEL; GENETIC RECOMBINATION; MOLECULAR EVOLUTION; STATISTICS;

EVOLUTION, MOLECULAR; MODELS, GENETIC; RECOMBINATION, GENETIC; STOCHASTIC PROCESSES;

EID: 84878917804     PISSN: 00405809     EISSN: 10960325     Source Type: Journal    
DOI: 10.1016/j.tpb.2013.02.005     Document Type: Article

References (67)

1. Acar M., Mettetal J.T., van Oudenaarden A. Stochastic switching as a survival strategy in fluctuating environments. Nat. Genet. 2008, 40(4):471-475.
2. Ancel L., Fontana W. Plasticity, evolvability and modularity in RNA. J. Exp. Zool. 2000, 288:242-283.
3. Bjornsson H.T., Fallin M.D., Feinberg A.P. An integrated epigenetic and genetic approach to common human disease. Trends Genet. 2004, 20(8):350-358.
4. Bonduriansky R., Day T. Nongenetic inheritance and its evolutionary implications. Annu. Rev. Ecol. Evol. Syst. 2009, 40:103-125.
5. Carja O., Feldman M.W. An equilibrium for phenotypic variance in fluctuating environments owing to epigenetics. J. R. Soc. Interface 2012, 9(69):613-623.
6. Charlesworth B. Recombination modification in a fluctuating environment. Genetics 1976, 83(1):181-195.
7. Charlesworth B. The evolution of sex and recombination in a varying environment. J. Heredity 1993, 84:345-350.
8. Ciliberti S., Martin O.C., Wagner A. Innovation and robustness in complex regulatory networks. Proc. Natl. Acad. Sci. USA 2007, 104(34):13591-13596.
9. Cubas P., Vincent C., Coen E. An epigenetic mutation responsible for natural variation in floral symmetry. Nature 1999, 401:157-161.
10. Danchin E., et al. Beyond DNA: integrating inclusive inheritance into an extended theory of evolution. Nat. Rev. Genet. 2011, 12:475-486.
11. Dempster E.R. Maintenance of genetic heterogeneity. Cold Spring Harbor Symp. Quant. Biol. 1955, 20:25-32.
12. Draghi J., Wagner G.P. The evolutionary dynamics of evolvability in a gene network. J. Evol. Biol. 2009, 22(3):599-611.
13. Earl D.J., Deem Michael W. Evolvability is a selectable trait. Proc. Natl. Acad. Sci. USA 2004, 101:11531-11536.
14. Ewens W.J. The probability of survival of a new mutant in a fluctuating environment. Heredity 1967, 22:438-443.
15. Feinberg A.P., Irizarry R.A. Stochastic epigenetic variation as a driving force of development, evolutionary adaptation, and disease. Proc. Natl. Acad. Sci. USA 2010, 107:1757-1764.
16. Feldman M.W. Equilibrium studies of two locus haploid populations with recombination. Theor. Popul. Biol. 1971, 2:299-317.
17. Feldman M.W., Liberman U. An evolutionary reduction principle for genetic modifiers. Proc. Natl. Acad. Sci. 1986, 83:4824-4827.
18. Felsenstein J. The theoretical population genetics of variable selection and migration. Annu. Rev. Genet. 1976, 10:253-280.
19. Frank S.A. Natural selection. I. Variable environments and uncertain returns on investment. J. Evol. Biol. 2011, 24:2299-2309.
20. Frank S.A., Slatkin M. Evolution in a variable environment. Am. Nat. 1990, 136:244-260.
21. Gillespie J.H. Natural selection with varying selection coefficients-a haploid model. Genet. Res. Camb. 1973, 21:115-120.
22. Gillespie J.H. Polymorphisms in random environments. Theor. Popul. Biol. 1973, 4:193-195.
23. Haldane J.B.S., Jayakar S.D. Polymorphism due to selection of varying direction. J. Genet. 1963, 58:237-242.
24. Hartl D.L., Cook R.D. Balanced polymorphisms or quasineutral alleles. Theor. Popul. Biol. 1973, 4:163-172.
25. Herrera C.M., Pozo M.I., Bazaga P. Jack of all nectars, master of most: DNA methylation and the epigenetic basis of niche width in a flower-living yeast. Mol. Ecol. 2012, 21:2602-2616.
26. Hulse A.M., Cai J.J. Genetic variants contribute to gene expression variability in humans. Genetics 2012, 193:95-108.
27. Jablonka E., Oborny B., Molnar I., Kisdi E., Hofbauer J., Czaran T. The adaptive advantage of phenotypic memory in changing environments. Philos. Trans. R. Soc. Lond. 1995, 350:133-141.
28. Jimenez-Gomez J.M., et al. Genomic analysis of QTLs and genes altering natural variation in stochastic noise. PLoS Genet. 2011, 7:e1002295.
29. Johannes F., et al. Assessing the impact of transgenerational epigenetic variation on complex traits. PLoS Genet. 2009, 5(6):e1000530.
30. Johnson L.J., Tricker P.J. Epigenomic plasticity within populations: its evolutionary significance and potential. Heredity 2010, 105:113-121.
31. Karlin S., Feldman M.W. Linkage and selection: two locus symmetric viability model. Theor. Popul. Biol. 1970, 1:39-71.
32. Karlin S., Levikson B. Temporal fluctuations in selection intensities: case of small population size. Theor. Popul. Biol. 1974, 6:383-412.
33. Karlin S., Liberman U. Random temporal variation in selection intensities: case of large population size. Theor. Popul. Biol. 1974, 6:355-382.
34. Karlin S., Liberman U. Random temporal variation in selection intensities: one-locus two-allele model. J. Math. Biol. 1975, 2:1-17.
35. Karlin S., McGregor J.L. Rates and probabilities of fixation for two locus random mating finite populations without selection. Genetics 1968, 58:141-159.
36. Kashtan N., Noor E., Alon U. Varying environments can speed up evolution. Proc. Natl. Acad. Sci. USA 2007, 104:13711-13716.
37. Kimura M. A stochastic model concerning the maintenance of genetic variability in quantitative characters. Proc. Natl. Acad. Sci. USA 1965, 54:731-737.
38. Kussell E., Leibler S. Phenotypic diversity, population growth, and information in fluctuating environments. Science 2005, 309:2075-2078.
39. Lachmann M., Jablonka E. The inheritance of phenotypes: an adaptation to fluctuating environments. J. Theoret. Biol. 1996, 181:1-9.
40. Lande R. Adaptive topography of fluctuating selection in a Mendelian population. J. Evol. Biol. 2008, 21:1096-1105.
41. Lenormand T., Otto S.P. The evolution of recombination in a heterogeneous environment. Genetics 2000, 156:423-438.
42. Lenski R.E., Barrick J.E., Ofria C. Balancing robustness and evolvability. PLoS Biol. 2006, 4(12):e428. 10.1371/journal.pbio.0040428.
43. Levins R. Evolution in Changing Environments 1968, Princeton University Press.
44. Lewontin R.C., Cohen D. On population growth in a randomly varying environment. Proc. Natl. Acad. Sci. USA 1969, 62:1056-1060.
45. Liberman U., Feldman M.W. Modifiers of mutation rate: a general reduction principle. Theor. Popul. Biol. 1986, 30(1):125-142.
46. Manos H., Liberman U., Feldman M.W. On the product mean fitness and population growth in sexual and asexual populations. Evol. Ecol. Res. 2000, 2:525-545.
47. Ordas B., et al. Genetic variation and quantitative trait loci associated with developmental stability and the environmental correlation between traits in maize. Genet. Res. 2008, 90:385-395.
48. Otto S.P., Michalakis Y. The evolution of recombination in changing environments. Trends Ecol. Evol. 2007, 13:145-151.
49. Reik W. Stability and flexibility of epigenetic gene regulation in mammalian development. Nature 2007, 447:425-432.
50. Robson A.J., Bergstrom C.T., Pritchard J.K. Risky business: sexual and asexual reproduction in variable environments. J. Theoret. Biol. 1999, 197:541-556.
51. Ronnegard L., Valdar W. Detecting major genetic loci controlling phenotypic variability in experimental crosses. Gentics 2011, 188:435-447.
52. Ronnegard L., Valdar W. Recent developments in statistical mehods for detecting genetic loci affecting phenotypic variability. BMC Genet. 2012, 13:63.
53. Ros M. Evidence for genetic control of adult weight plasticity in the snail Helix aspersa. Genetics 2004, 168:2089-2097.
54. Rowe S.J., et al. Genetic heterogeneity of residual variance in broiler chickens. Genet. Sel. Evol. 2006, 38:617-635.
55. Salathe M., Van Cleve J., Feldman M.W. Evolution of stochastic switching rates in asymmetric fitness landscapes. Genetics 2009, 182:1159-1164.
56. Shen X., Pettersson M., Ronnegard L., Carlborg O. Inheritance beyond plain heritability: variance-controlling genes in Arabidopsis thaliana. PLoS Genet. 2012, 8(8):e1002839. 10.1371/journal.pgen.1002839.
57. Sorensen D., Waagepetersen R. Normal linear models with genetically structured residual variance heterogeneity: a case study. Genet. Res. 2003, 82:207-222.
58. Soyer O.S., Pfeiffer T. Evolution under fluctuating environments explains observed robustness in metabolic networks. PLoS Comput. Biol. 2010, 6(8):e1000907. 10.1371/journal.pcbi.1000907.
59. Thattai M., van Oudenaarden A. Stochastic gene expression in fluctuating environments. Genetics 2004, 167:523-530.
60. Veening J-W., Smits W.K., Kuipers O.P. Bistability, epigenetics and bet-hedging in bacteria. Annu. Rev. Microbiol. 2008, 62:193-210.
61. Wagner A. Robustness and Evolvability in Living Systems 2007, Princeton University Press.
62. Wagner A. Robustness and evolvability: a paradox resolved. Proc. R. Soc. B 2008, 275(1630):91-100.
63. Wagner P.G., Altenberg L. Perspective: complex adaptations and the evolution of evolvability. Evolution 1996, 50:967-976.
64. Wakano J.Y., Aoki K. A mixed strategy model for the emergence and intensification of social learning in a periodically changing environment. Theor. Popul. Biol. 2006, 70:486-497.
65. Weissman D.B., Feldman M.W., Fisher D.S. The rate of fitness-valley crossing in sexual populations. Genetics 2010, 186:1389-1410.
66. Wolf D.M., Vazirani V.V., Arkin A.P. Diversity in times of adversity: probabilistic strategies in microbial survival games. J. Theoret. Biol. 2005, 234(2):227-253.
67. Youngson N.A., Whitelaw E. Transgenerational epigenetic effects. Annu. Rev. Genomics Hum. Genet. 2008, 9:233-257.