Genetic accommodation and behavioural evolution: Insights from genomic studies

Animal Behaviour

Volumn 85, Issue 5, 2013, Pages 1012-1022

  Renn, Suzy C P ^a   Schumer, Molly E ^b  

^a REED COLLEGE   (United States)

^b PRINCETON UNIVERSITY   (United States)

Author keywords

Behavioural phenotype; Behavioural plasticity; Developmental plasticity; Gene expression plasticity; Genetic accommodation; Genetic assimilation; Genomic approaches; Norm of reaction

Indexed keywords

BEHAVIORAL RESPONSE; EVOLUTIONARY BIOLOGY; EXPERIMENTAL DESIGN; GENE EXPRESSION; GENOMICS; LIFE HISTORY TRAIT; PHENOTYPIC PLASTICITY; PHYSIOLOGY; REACTION NORM;

ANIMALIA;

EID: 84877632133     PISSN: 00033472     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.anbehav.2013.02.012     Document Type: Article

References (161)

1. Alaux C., Sinha S., Hasadsri L., Hunt G.J., Guzmán-Novoa E., DeGrandi-Hoffman G., Uribe-Rubio J.L., Southey B.R., Rodriguez-Zas S., Robinson G.E. Honey bee aggression supports a link between gene regulation and behavioral evolution. Proceedings of the National Academy of Sciences, U.S.A. 2009, 106:15400-15405.
2. Alvarez D., Bell A.M. Sticklebacks from streams are more bold than sticklebacks from ponds. Behavioural Processes 2007, 76:215-217.
3. Ament S.A., Blatti C.A., Alaux C., Wheeler M.M., Toth A.L., Le Conte Y., Hunte G.J., Guzmán-Novoa E., DeGrandi-Hoffman G., Uribe-Rubio J.L., et al. New meta-analysis tools reveal common transcriptional regulatory basis for multiple determinants of behavior. Proceedings of the National Academy of Sciences, U.S.A. 2012, 109:E1801-E1810.
4. Atwell J.W., Cardoso G.C., Whittaker D.J., Campbell-Nelson S., Robertson K.W., Ketterson E.D. Boldness behavior and stress physiology in a novel urban environment suggest rapid correlated evolutionary adaptation. Behavioral Ecology 2012, 23:960-969.
5. Aubin-Horth N., Renn S.C.P. Genomic reaction norms: using integrative biology to understand molecular mechanisms of phenotypic plasticity. Molecular Ecology 2009, 18:3763-3780.
6. Aubin-Horth N., Landry C.R., Letcher B.H., Hofmann H.A. Alternative life histories shape brain gene expression profiles in males of the same population. Proceedings of the Royal Society B 2005, 272:1655-1662.
7. Aubin-Horth N., Desjardins J.K., Martei Y.M., Balshine S., Hofmann H.A. Masculinized dominant females in a cooperatively breeding species. Molecular Ecology 2007, 16:1349-1358.
8. Aubret F., Shine R. Genetic assimilation and the post-colonisation erosion of phenotypic plasticity in island tiger snakes. Current Biology 2009, 19:1932-1936.
9. Badyaev A.V. Stress-induced variation in evolution: from behavioural plasticity to genetic assimilation. Proceedings of the Royal Society B 2005, 272:877-886.
10. Badyaev A.V. Evolutionary significance of phenotypic accommodation in novel environments: an empirical test of the Baldwin effect. Philosophical Transactions of the Royal Society B 2009, 364:1125-1141.
11. Baldwin J. A new factor in evolution. Science 1896, 4:139.
12. Baldwin J.M. Development and Evolution 1902, Macmillan, New York.
13. Barlow G.W., Lee J.S.F. Sex-reversed dominance and aggression in the cichlid fish Julidochromis marlieri. Annales Zoologici Fennici 2005, 42:477-483.
14. Bar-Or C., Novikov E., Reiner A., Czosnek H., Koltai H. Utilizing microarray spot characteristics to improve cross-species hybridization results. Genomics 2007, 90:636-645.
15. Beldade P., McMillan W.O., Papanicolaou A. Butterfly genomics eclosing. Heredity 2008, 100:150-157.
16. Beldade P., Mateus A.R., Keller R.A. Evolution and molecular mechanisms of adaptive developmental plasticity. Molecular Ecology 2011, 20:1347-1363.
17. The Evolutionary Biology of the Threespine Stickleback 1994, Oxford University Press, Oxford. M.A. Bell, S.A. Foster (Eds.).
18. Bell A.M., Robinson G.E. Behavior and the dynamic genome. Science 2011, 332:1161-1162.
19. Bell A.M., Sih A. Exposure to predation generates personality in threespine sticklebacks (Gasterosteus aculeatus). Ecology Letters 2007, 10:828-834.
20. Bell A.M., Stamps J.A. Development of behavioural differences between individuals and populations of sticklebacks, Gasterosteus aculeatus. Animal Behaviour 2004, 68:1339-1348.
21. Bloch G., Grozinger C.M. Social molecular pathways and the evolution of bee societies. Philosophical Transactions of the Royal Society B 2011, 366:2155-2170.
22. Brenowitz E.A., Margoliash D., Nordeen K.W. An introduction to birdsong and the avian song system. Journal of Neurobiology 1997, 33:495-500.
23. Buckley B.A. Comparative environmental genomics in non-model species: using heterologous hybridization to DNA-based microarrays. Journal of Experimental Biology 2007, 210:1602-1606.
24. Buckley B.A., Gracey A.Y., Somero G.N. Gene expression profiling in a eurythermic goby exposed to an elevated temperature cycle. Comparative Biochemistry and Physiology A, Supplement 2005, 141:S349-S357.
25. Carroll S.P., Corneli P.S. The evolution of behavioral norms of reaction as a problem in ecological genetics: theory, methods and data. Geographic Variation in Behavior: Perspectives on Evolutionary Mechanisms 1999, 52-68. Oxford University Press, New York. S.A. Foster, J.A. Endler (Eds.).
26. Chapman L.J., Galis F., Shinn J. Phenotypic plasticity and the possible role of genetic assimilation: hypoxia-induced trade-offs in the morphological traits of an African cichlid. Ecology Letters 2000, 3:387-393.
27. Cheviron Z.A., Whitehead A., Brumfield R.T. Transcriptomic variation and plasticity in rufous-collared sparrows (Zonotrichia capensis) along an altitudinal gradient. Molecular Ecology 2008, 17:4556-4569.
28. Cossins A.R., Crawford D.L. Opinion: fish as models for environmental genomics. Nature Reviews Genetics 2005, 6:324-333.
29. Costa, V., Angelini, C., De Feis, I. & Ciccodicola, A. 2010. Uncovering the complexity of transcriptomes with RNA-seq. Journal of Biomedicine and Biotechnology, 2010, Article ID 853916, doi:10.1155/2010/853916.
30. Cresko W., McGuigan K., Phillips P., Postlethwait J. Studies of threespine stickleback developmental evolution: progress and promise. Genetica 2007, 129:105-126.
31. Crispo E. The Baldwin effect and genetic assimilation: revisiting two mechanisms of evolutionary change mediated by phenotypic plasticity. Evolution 2007, 61:2469-2479.
32. Cummings M.E., Larkins-Ford J., Reilly C.R.L., Wong R.Y., Ramsey M., Hofmann H.A. Sexual and social stimuli elicit rapid and contrasting genomic responses. Proceedings of the Royal Society B 2008, 275:393-402.
33. Dingemanse N.J., Wright J., Kazem A.J.N., Thomas D.K., Hickling R., Dawnay N. Behavioural syndromes differ predictably between 12 populations of three-spined stickleback. Journal of Animal Ecology 2007, 76:1128-1138.
34. Dingemanse N.J., Kazem A.J.N., Reale D., Wright J. Behavioural reaction norms: animal personality meets individual plasticity. Trends in Ecology & Evolution 2010, 25:81-89.
35. Duckworth R.A. The role of behavior in evolution: a search for mechanism. Evolutionary Ecology 2009, 23:513-531.
36. Dukas R. Effects of learning on evolution: robustness, innovation and speciation. Animal Behaviour 2013, 85:1023-1030.
37. Ekblom R., Galindo J. Applications of next generation sequencing in molecular ecology of non-model organisms. Heredity 2011, 107:1-15.
38. Espinosa-Soto C., Martin O.C., Wagner A. Phenotypic plasticity can facilitate adaptive evolution in gene regulatory circuits. BMC Evolutionary Biology 2011, 11:5. 10.1186/1471-2148-11-5.
39. Evans J., Boudreau K., Hyman J. Behavioural syndromes in urban and rural populations of song sparrows. Ethology 2010, 116:588-595.
40. Forsgren E., Amundsen T., Borg A.A., Bjelvenmark J. Unusually dynamic sex roles in a fish. Nature 2004, 429:551-554.
41. Foster S.A. Inference of evolutionary pattern: diversionary displays of threespine stickleback. Behavioral Ecology 1994, 5:114-121.
42. Foster S.A. Understanding the evolution of behaviour in threespine stickleback: the value of geographic variation. Behaviour 1995, 132:1107-1129.
43. Foster S.A. Evolution of behavioural phenotypes: influences of ancestry and expression. Animal Behaviour 2013, 85:1061-1075.
44. Foster S.A., Wund M.A. Plasticity and evolution in the adaptive radiation of the threespine stickleback. Epigenetics: Linking Genotype and Phenotype in Development and Evolution 2011, 317-336. University of California Press, Berkeley. B. Hallgrimsson, B.K. Hall (Eds.).
45. Foster S.A., Scott R.J., Cresko W.A. Nested biological variation and speciation. Philosophical Transactions of the Royal Society of London, Series B 1998, 353:207-218.
46. Fraser B.A., Weadick C.J., Janowitz I., Rodd F.H., Hughes K.A. Sequencing and characterization of the guppy (Poecilia reticulata) transcriptome. BMC Genomics 2011, 12:202. 10.1186/1471-2164-12-202.
47. Ghalambor C.K., McKay J.K., Carrol S.P., Reznick D.N. Adaptive versus non-adaptive phenotypic plasticity and the potential for contemporary adaptation in new environments. Functional Ecology 2007, 21:394-407.
48. Ghalambor C.K., Angeloni L.M., Carroll S.P. Behavior as phenotypic plasticity. Evolutionary Behavioral Ecology 2010, 90-107. Oxford University Press, Chicago. D.F. Westneat, C.F. Fox (Eds.).
49. Gibbons J.G., Janson E.M., Hittinger C.T., Johnston M., Abbot P., Rokas A. Benchmarking next-generation transcriptome sequencing for functional and evolutionary genomics. Molecular Biology and Evolution 2009, 26:2731-2744.
50. Gibson G., Dworkin I. Uncovering cryptic genetic variation. Nature Reviews Genetics 2004, 5:681-690.
51. Grabherr M.G., Haas B.J., Yassour M., Levin J.Z., Thompson D.A., Amit I., Adiconis X., Fan L., Raychowdhury R., Zeng Q., et al. Full-length transcriptome assembly from RNA-seq data without a reference genome. Nature Biotechnology 2011, 29:644-652.
52. Hackenberg M. MicroRNA expression profiling and discovery. Bioinformatics for High Throughput Sequencing 2012, 191-208. Springer, New York. M. Hackenberg (Ed.).
53. Hanna D., Blouin-Demers G., Wilson D.R., Mennill D.J. Anthropogenic noise affects song structure in red-winged blackbirds (Agelaius phoeniceus). Journal of Experimental Biology 2011, 214:3549-3556.
54. Harrison R.J. Understanding genetic variation and function: the applications of next generation sequencing. Seminars in Cell and Developmental Biology 2012, 2:230-236.
55. Heil M., Greiner S., Meimberg H., Kruger R., Noyer J.L., Heubl G., Linsenmair K.E., Boland W. Evolutionary change from induced to constitutive expression of an indirect plant resistance. Nature 2004, 430:205-208.
56. Hodgins-Davis A., Adomas A.B., Warringer J., Townsend J.P. Abundant gene-by-environment interactions in gene expression reaction norms to copper within Saccharomyces cerevisiae. Genome Biology and Evolution 2012, 4:1061-1079.
57. Hohenlohe P.A., Bassham S., Ettern P.D., Stiffler N., Johnson E.A., Cresko W.A. Population genomics of parallel adaptation in threespine stickleback using sequenced RAD tags. PLoS Genetics 2010, 6:e1000862.
58. Huey R.B., Hertz P.E., Sinervo B. Behavioral drive versus behavioral inertia in evolution: a null model approach. American Naturalist 2003, 161:357-366.
59. Huntingford F.A. Do interspecific and intraspecific aggression vary in relation to predation pressure in sticklebacks?. Animal Behaviour 1982, 30:909-916.
60. Huntingford F.A., Wright P.J., Tierney J.F. Adaptive variation in antipredator behaviour in threespine stickleback. The Evolutionary Biology of the Threespine Stickleback 1994, 277-296. Oxford University Press, Oxford. M.A. Bell, S.A. Foster (Eds.).
61. Hutchings J.A. Old wine in new bottles: reaction norms in salmonid fishes. Heredity 2011, 106:421-437.
62. Itzkowitz M., Santangelo N., Richter M. Parental division of labour and the shift from minimal to maximal role specializations: an examination using a biparental fish. Animal Behaviour 2001, 61:1237-1245.
63. Linsenmair K.E., Boland W. Evolutionary change from induced to constitutive expression of an indirect plant resistance. Nature 2004, 430:205-208.
64. Jeukens J., Renaut S., St-Cyr J., Nolte A.W., Bernatchez L. The transcriptomics of sympatric dwarf and normal lake whitefish (Coregonus clupeaformis spp., Salmonidae) divergence as revealed by next-generation sequencing. Molecular Ecology 2010, 19:5389-5403.
65. Johnson B.R., Tsutsui N.D. Taxonomically restricted genes are associated with the evolution of sociality in the honeybee. BMC Genomics 2011, 12:164. 10.1186/1471-2164-12-164.
66. Jones F.C., Grabherr M.G., Chan Y.F., Russell P., Maucceli E., Johnson J., Swofford R., Pirun M., Zody M.C., White S., et al. The genomic basis of adaptive evolution in threespine sticklebacks. Nature 2012, 484:55-61.
67. Kasumovic A.A. The multidimensional consequences of the juvenile environment: towards an integrative view of the adult phenotype. Animal Behaviour 2013, 85:1049-1059.
68. Keogh J.S., Scott I.A.W., Hayes C. Rapid and repeated origin of insular gigantism and dwarfism in Australian tiger snakes. Evolution 2005, 59:226-233.
69. Khaitovich P., Weiss G., Lachmann M., Hellmann I., Enard W., Muetzel B., Wirkner U., Ansorge W., Paabo S. A neutral model of transcriptome evolution. PLoS Biology 2004, 2:682-689.
70. Kingsley D.M., Peichel C.L. The molecular genetics of evolutionary change in sticklebacks. Biology of the Three-spined Stickleback 2007, 41-81. CRC Press, Boca Raton, Florida. S. östlund-Nilsson, I. Mayer, F.A. Huntingford (Eds.).
71. Kitano J., Lema S.C., Luckenbach J.A., Mori S., Kawagishi Y., Kusakabe M., Swanson P., Peichel C.L. Adaptive divergence in the thyroid hormone signaling pathway in the stickleback radiation. Current Biology 2010, 20:2124-2130.
72. Labaj P.P., Leparc G.G., Linggi B.E., Markillie L.M., Wiley H.S., Kreil D.P. Characterization and improvement of RNA-seq precision in quantitative transcript expression profiling. Bioinformatics 2011, 27:I383-I391.
73. Lacasse J., Aubin-Horth N. A test of the coupling of predator defense morphology and behavior variation in two threespine stickleback populations. Current Zoology 2012, 58:53-65.
74. Landry C.R., Lemos B., Rifkin S.A., Dickinson W.J., Hartl D.L. Genetic properties influencing the evolvability of gene expression. Science 2007, 317:118-121.
75. Latta L.C., Weider L.J., Colbourne J.K., Pfrender M.E. The evolution of salinity tolerance in Daphnia: a functional genomics approach. Ecology Letters 2012, 15:794-802.
76. Lee C.E., Kiergaard M., Gelembiuk G.W., Eads B.D., Posavi M. Pumping ions: rapid parallel evolution of ionic regulation following habitat invasions. Evolution 2011, 65:2229-2244.
77. Leichty A.R., Pfennig D.W., Jones C.D., Pfennig K.S. Relaxed genetic constraint is ancestral to the evolution of phenotypic plasticity. Integrative and Comparative Biology 2012, 52:16-30.
78. Li B., Dewey C.N. RSEM: accurate transcript quantification from RNA-seq data with or without a reference genome. BMC Bioinformatics 2011, 12:323. 10.1186/1471-2105-12-323.
79. London S.E., Clayton D.F. The neurobiology of zebra finch song: insights from gene expression studies. Emu 2010, 110:219-232.
80. Lynch K.S., Ramsey M.E., Cummings M.E. The mate choice brain: comparing gene profiles between female choice and male coercive poeciliids. Genes Brain and Behavior 2012, 11:222-229.
81. Machado H.E., Pollen A.A., Hofmann H.A., Renn S.C.P. Interspecific profiling of gene expression informed by comparative genomic hybridization: a review and a novel approach in African cichlid fishes. Integrative and Comparative Biology 2009, 49:644-659.
82. McKinnon J.S., Rundle H.D. Speciation in nature: the threespine stickleback model systems. Trends in Ecology & Evolution 2002, 17:480-488.
83. McManus C.J., Coolon J.D., Duff M.O., Eipper-Mains J., Graveley B.R., Wittkopp P.J. Regulatory divergence in Drosophila revealed by mRNA-seq. Genome Research 2010, 20:816-825.
84. McPhail J.D. Speciation and the evolution of reproductive isolation in the sticklebacks (Gasterosteus) of south-western British Columbia. The Evolutionary Biology of the Threespine Stickleback 1994, 399-437. Oxford University Press, Oxford. M.A. Bell, S.A. Foster (Eds.).
85. Matzkin L.M. Population transcriptomics of cactus host shifts in Drosophila mojavensis. Molecular Ecology 2012, 21:2428-2439.
86. Matzkin L.M., Watts T.D., Bitler B.G., Machado C.A., Markow T.A. Functional genomics of cactus host shifts in Drosophila mojavensis. Molecular Ecology 2006, 15:4635-4643.
87. Mery F., Kawecki T.J. The effect of learning on experimental evolution of resource preference in Drosophila melanogaster. Evolution 2004, 58:757-767.
88. Meyer E., Aglyamova G.V., Matz M.V. Profiling gene expression responses of coral larvae (Acropora millepora) to elevated temperature and settlement inducers using a novel RNA-seq procedure. Molecular Ecology 2011, 20:3599-3616.
89. Miller M.R., Dunham J.P., Amores A., Cresko W.A., Johnson E.A. Rapid and cost-effective polymorphism identification and genotyping using restriction site associated DNA (RAD) markers. Genome Research 2007, 17:240-248.
90. Mobley K.B., Small C.M., Jones A.G. The genetics and genomics of Syngnathidae: pipefishes, seahorses and seadragons. Journal of Fish Biology 2011, 78:1624-1646.
91. Morgan C.L. Habit and Instinct 1896, Arnold, London.
92. Morris M.R., de Queiroz K., Morizot D.C. Phylogenetic relationships among populations of northern swordtails (Xiphophorus) as inferred from allozyme data. Copeia 2001, 2001:65-81.
93. Morris M.R., Moretz J.A., Farley K., Nicoletto P. The role of sexual selection in the loss of sexually selected traits in the swordtail fish Xiphophorus continens. Animal Behaviour 2005, 69:1415-1424.
94. Odling-Smee F.J. Niche constructing phenotypes. The Role of Behavior in Evolution 1988, 1-17. MIT Press, Cambridge, Massachusetts. H.C. Plotkin (Ed.).
95. Oleksiak M.F., Churchill G.A., Crawford D.L. Variation in gene expression within and among natural populations. Nature Genetics 2002, 32:261-266.
96. Osborn H.F. Organic selection. Science 1897, 15:583-587.
97. Palmer A.R. Developmental plasticity and the origin of novel forms: unveiling cryptic genetic variation via 'use and disuse'. Journal of Experimental Zoology (Molecular Development and Evolution) 2011, 318B:466-479.
98. Pavey S.A., Collin H., Nosil P., Rogers S.M. The role of gene expression in ecological speciation. Annals of the New York Academy of Sciences 2010, 1206:110-129.
99. Peterson M.P., Whittaker D.J., Ambreth S., Sureshchandra S., Mockatis K., Buechlein A., Podicheti R., Choi J.H., Lai Z., Colbourne J.K., et al. De novo transcriptome sequencing in a songbird, the dark-eyed junco (Junco hyemalis): genomic tools for an ecological model system. BMC Genomics 2012, 13:305. 10.1186/1471-2164-13-305.
100. Pfennig D.W., Wund M.A., Snell-Rood E.C., Cruickshank T., Schlichting C.D., Moczek A.P. Phenotypic plasticity's impacts on diversification and speciation. Trends in Ecology & Evolution 2010, 26:459-467.
101. Pigliucci M., Murren C.J. Genetic assimilation and a possible evolutionary paradox: can macroevolution sometimes be so fast as to pass us by?. Evolution 2003, 57:1455-1464.
102. Pigliucci M., Murren C.J., Schlichting C.D. Phenotypic plasticity and evolution by genetic assimilation. Journal of Experimental Biology 2006, 209:2362-2367.
103. Price T.D., Qvarnstrom A., Irwin D.E. The role of phenotypic plasticity in driving genetic evolution. Proceedings of the Royal Society B 2003, 270:1433-1440.
104. Qiu J., Cui X. Evaluation of a statistical equivalence test applied to microarray data. Journal of Biopharmaceutical Statistics 2010, 20:240-266.
105. Rauchenberger M., Kallman K.D., Morizot D.C. Monophyly and geography of the Río Pánuco Basin swordtails (genus Xiphophorus) with descriptions of four new species. American Museum Novitates 1990, 2975:1-41.
106. Remy J.-J. Stable inheritance of an acquired behavior in Caenorhabditis elegans. Current Biology 2010, 20:R877-R878.
107. Renn S.C.P., Siemens D.H. Ecological genomics-changing perspectives on Darwin's basic concerns. Molecular Ecology 2010, 19:3025-3030.
108. Renn S.C.P., Aubin-Horth N., Hofmann H.A. Biologically meaningful expression profiling across species using heterologous hybridization to a cDNA microarray. BMC Genomics 2004, 5:42. 10.1186/1471-2164-5-42.
109. Renn S.C.P., Machado H.E., Jones A., Soneji K., Kulathinal R.J., Hofmann H.A. Using comparative genomic hybridization to survey genomic sequence divergence across species: a proof-of-concept from Drosophila. BMC Genomics 2010, 11:271. 10.1186/1471-2164-11-271.
110. Replogle K., Arnold A.P., Ball G.F., Band M., Bensch S., Brenowitz E.A., Dong S., Drnevich J., Ferris M., George J.M., et al. The songbird neurogenomics (SoNG) initiative: community-based tools and strategies for study of brain gene function and evolution. BMC Genomics 2008, 9:131. 10.1186/1471-2164-9-131.
111. Rios-Cardenas O., Morris M.R. Precopulatory sexual selection in Poeciliidae. Ecology and Evolution of Poeciliid Fishes 2011, 187-196. University of Chicago Press, Chicago. J. Evans, A. Pilastro, I. Schlupp (Eds.).
112. Robertson G., Schein J., Chiu R., Corbett R., Field M., Jackman S.D., Mungall K., Lee S., Okada H.M., Qian J.Q., et al. De novo assembly and analysis of RNA-seq data. Nature Methods 2010, 7:909-912.
113. Rodríguez R.L., Rebar D., Fowler-Finn K.D. The evolution and evolutionary consequences of social plasticity in mate preferences. Animal Behaviour 2013, 85:1041-1047.
114. Rosin D., Hornung G., Tirosh I., Gispan A., Barkai N. Promoter nucleosome organization shapes the evolution of gene expression. PLoS Genetics 2012, 8:e1002579.
115. Rutherford S.L., Lindquist S. Hsp90 as a capacitor for morphological evolution. Nature 1998, 396:336-342.
116. Ryan M.J., Wagner W.E. Asymmetries in mating preferences between species: female swordtails prefer heterospecific males. Science 1987, 236:595-597.
117. Sanogo Y.O., Band M.A., Blatti C., Sinha S., Bell A.M. Transcriptional regulation of brain gene expression in response to a territorial intrusion. Proceedings of the Royal Society B 2012, 279:4929-4938.
118. Santure A.W., Gratten J., Mossman J.A., Sheldon B.C., Slate J. Characterisation of the transcriptome of a wild great tit Parus major population by next generation sequencing. BMC Genomics 2011, 12:283. 10.1186/1471-2164-12-283.
119. Scales J., Hyman J., Hughes M. Behavioral syndromes break down in urban song sparrow populations. Ethology 2011, 117:887-895.
120. Schlichting C.D. The role of phenotypic plasticity in diversification. Phenotypic Plasticity: Functional and Conceptual Approaches 2004, 191-200. Oxford University Press, Oxford. T.J. DeWitt, S.M. Scheiner (Eds.).
121. Schlichting C.D. Hidden reaction norms, cryptic genetic variation, and evolvability. Annals of the New York Academy of Sciences 2008, 1133:187-203.
122. Schlichting C.D., Pigliucci M. Phenotypic Evolution: a Reaction Norm Perspective 1998, Sinauer, Sunderland, Massachusetts.
123. Schmalhausen I.I. Factors of Evolution 1949, Blakiston, Philadelphia.
124. Schumer M.E., Krishnakant K., Renn S.C.P. Comparative gene expression profiles for highly similar aggressive phenotypes in male and female cichlid fishes (Julidochromis). Journal of Experimental Biology 2011, 214:3269-3278.
125. Scoville A.G., Pfrender M.E. Phenotypic plasticity facilitates recurrent rapid adaptation to introduced predators. Proceedings of the National Academy of Sciences, U.S.A. 2010, 107:4260-4263.
126. Sen Sarma M., Rodriguez-Zas S.L., Hong F., Zhong S., Robinson G.E. Transcriptomic profiling of central nervous system regions in three species of honey bee during dance communication behavior. PLoS One 2009, 4:e6408.
127. Shaw K.A., Scotti M.L., Foster S.A. Ancestral plasticity and the evolutionary diversification of courtship behaviour in threespine stickleback. Animal Behaviour 2007, 73:415-422.
128. Simon J.C., Pfrender M.E., Tollrian R., Tagu D., Colbourne J.K. Genomics of environmentally induced phenotypes in 2 extremely plastic arthropods. Journal of Heredity 2011, 102:512-525.
129. Slabbekoorn H. Songs of the city; noise-dependent plasticity in the acoustic phenotype of urban birds. Animal Behaviour 2013, 85:1089-1099.
130. Slabbekoorn H., Ripmeester E.A.P. Birdsong and anthropogenic noise: implications and applications for conservation. Molecular Ecology 2008, 17:72-83.
131. Snell-Rood E.C. An overview of the evolutionary causes and consequences of behavioural plasticity. Animal Behaviour 2013, 85:1004-1011.
132. Snell-Rood E.C., Van Dyken J.D., Cruickshank T., Wade M.J., Moczek A.P. Toward a population genetic framework of developmental evolution: the costs, limits, and consequences of phenotypic plasticity. Bioessays 2010, 32:71-81.
133. Snell-Rood E.C., Cash A., Han M.V., Kijimoto T., Andrews J., Moczek A.P. Developmental decoupling of alternative phenotypes: insights from the transcriptomes of horn-polyphenic beetles. Evolution 2011, 65:231-245.
134. Spalding D. Instinct with original observations on young animals. Macmillan's Magazine 1873, 27:282-293.
135. Stillman J.H., Teranishi K.S., Tagmount A., Lindquist E.A., Brokstein P.B. Construction and characterization of EST libraries from the porcelain crab, Petrolisthes cinctipes. Integrative and Comparative Biology 2006, 46:919-930.
136. Suzuki Y., Nihout H.F. Evolution of a polyphenism by genetic accommodation. Science 2006, 311:650-652.
137. Thomas K., Kvitek R.G., Bretz C. Effects of human activity on the foraging behavior of sanderlings Calidris alba. Biological Conservation 2003, 109:67-71.
138. Tirosh I., Barkai N., Verstrepen K.J. Promoter architecture and the evolvability of gene expression. Journal of Biology 2009, 8:95.
139. Toth A.L., Varala K., Newman T.C., Miguez F.E., Hutchison S.K., Willoughby D.A., Simons J.F., Egholm M., Hunt J.H., Hudson M.E., et al. Wasp gene expression supports an evolutionary link between maternal behavior and eusociality. Science 2007, 318:441-444.
140. Via S., Lande R. Genotype-environment interaction and the evolution of phenotypic plasticity. Evolution 1985, 39:505-522.
141. Waddington C.H. Canalization of development and the inheritance of acquired characters. Nature 1942, 150:563-565.
142. Waddington C.H. Selection of the genetic basis for an acquired character. Nature 1952, 169:278.
143. Waddington C.H. Genetic assimilation of an acquired character. Evolution 1953, 7:118-126.
144. Waddington C.H. Genetic assimilation. Advances in Genetics 1961, 10:257-293.
145. Wang Z., Gerstein M., Snyder M. RNA-seq: a revolutionary tool for transcriptomics. Nature Reviews Genetics 2009, 10:57-63.
146. Ward J.A., Ponnala L., Weber C.A. Strategies for transcriptome analysis in nonmodel plants. American Journal of Botany 2012, 99:267-276.
147. Wark A.R., Greenwood A.K., Taylor E.M., Yoshida K., Peichel C.L. Heritable differences in schooling behavior among threespine stickleback populations revealed by a novel assay. PLoS One 2011, 6:e18316.
148. Warren W.C., Clayton D.F., Ellegren H., Arnold A.P., Hillier L.W., Kunstner A., Searle S., White S., Vilella A.J., Fairley S., et al. The genome of a songbird. Nature 2010, 464:757-762.
149. Wcislo W.T. Behavioral environments and evolutionary change. Annual Review of Ecology and Systematics 1989, 20:137-169.
150. West-Eberhard M.J. Developmental Plasticity and Evolution 2003, Oxford University Press, New York.
151. Whitehead A. Comparative genomics in ecological physiology: toward a more nuanced understanding of acclimation and adaptation. Journal of Experimental Biology 2012, 215:884-891.
152. Whitehead A., Roach J.L., Zhang S., Galvez F. Genomic mechanisms of evolved physiological plasticity in killifish distributed along an environmental salinity gradient. Proceedings of the National Academy of Sciences, U.S.A. 2011, 108:6193-6198.
153. Whitehead A., Roach J.L., Zhang S., Galvez F. Salinity- and population-dependent genome regulatory response during osmotic acclimation in the killifish (Fundulus heteroclitus) gill. Journal of Experimental Biology 2012, 215:1293-1305.
154. Whitehead A., Pilcher W., Champlin D., Nacci D. Common mechanism underlies repeated evolution of extreme pollution tolerance. Proceedings of the Royal Society B 2012, 279:427-433.
155. Whitfield C.W., Band M.R., Bonaldo M.F., Kumar C.G., Liu L., Pardinas J.R., Robertson H.M., Soares M.B., Robinson G.E. Annotated expressed sequence tags and cDNA microarrays for studies of brain and behavior in the honey bee. Genome Research 2002, 12:555-566.
156. Wilhelm B.T., Landry J.-R. RNA-seq-quantitative measurement of expression through massively parallel RNA-sequencing. Methods 2009, 48:249-257.
157. Wolf J.B.W., Lindell J., Backstrom N. Speciation genetics: current status and evolving approaches. Philosophical Transactions of the Royal Society B 2010, 365:1717-1733.
158. Wund M.A., Baker J.A., Clancy B., Golub J.L., Foster S.A. A test of the 'flexible stem' model of evolution: ancestral plasticity, genetic accommodation, and morphological divergence in the threespine stickleback radiation. American Naturalist 2008, 172:449-462.
159. Yandell M., Ence D. A beginner's guide to eukaryotic genome annotation. Nature Reviews Genetics 2012, 13:329-342.
160. Yibayiri O.S., Hankison S., Band M., Obregon A., Bell A.M. Brain transcriptomic response of threespine sticklebacks to cues of a predator. Brain, Behavior and Evolution 2011, 77:270-285.
161. Zerbino D.R., Birney E. Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Research 2008, 18:821-829.