Abstract
Biological adaptations appear designed for a purpose, and so they result from a “creative process” almost by definition. Traditional evolutionary theory assigns a special role in this process to natural selection, with theorists invoking selection both to explain the appearance of purpose, and to predict what the purpose of adaptations will be. At the same time, traditional theory recognizes that many other factors might influence the evolution of adaptations. These factors might, for example, increase evolvability and accelerate adaptation, or bias evolution towards a subset of the possible adaptive outcomes. Such factors are also creative in a sense, but not in the same sense as natural selection. Challenges to traditional theory have sometimes championed organisms as a neglected source of creativity in evolution. This could be interpreted as the radical claim that non-human organisms—like people—are novel sources of purpose in nature, generating apparently designed outcomes that are not directed at reproductive success. But it might also be interpreted as the uncontroversial claim that organisms—like many other things—sometimes act in a way that accelerates adaptation or makes some adaptive outcomes more probable than others. Ambiguity about their claims has led to theories attracting unwarranted enthusiasm and unwarranted scepticism, and distracts us from the criteria by which the theories should be judged.
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Notes
- 1.
The main alternative topic would be speciation, such that “creative factors” lead to the origin of new species. But this cannot be natural selection’s uniquely creative role, because biologists have long recognized that speciation can occur in lots of different ways (see, e.g., Mayr 2001). With speciation, as with evolvability (§5.3.1.1), a major challenge is to determine the relative importance of the different factors; and as with evolvability too, another major challenge may be to explain why speciation is so slow (e.g., Felsenstein 1981; Barton 2020; §5.3.1.2).
- 2.
This is why “traditional thinking” will not be identified with any single historical period. “The Modern Synthesis” is, moreover, very variously and often unhelpfully characterized, sometimes as a quasi-mythical event, like the Dissociation of Sensibility, and sometimes as a shorthand for a strict set of tenets, difficult to identify with any actual scientists. These are historical idealizations as bold as any found in population genetics.
- 3.
Darwin, for example, found it “difficult to imagine that eyes, although useless, could be in any way injurious to animals living in darkness” (1859: 137; see also Weismann 1889: 86), and the fitness benefits of eye loss remain hypothetical. Anderson (1893) speculated that eyes might be “exposed to injury, destructive inflammation, and the attacks of parasites”, while Protas et al. (2007) called attention to the metabolic and energetic cost of eye maintenance (Young 1971; Linsenmeier and Braun 1992); these costs increase in perpetual darkness (Kimble et al. 1980; Wangsa-Wirawan and Linsenmeier 2003), and may be at a particular premium for teleost fish (Damsgaard et al. 2020), and in caves (Simon et al. 2017).
- 4.
Of course, much scientific effort has been devoted to refining and formalizing Darwin’s claim (e.g., Hamilton 1964), and the version quoted is potentially misleading (oak galls, for example, are part of oaks, but form for the exclusive good of wasps).
- 5.
The role of drift in quantitative genetics is easy to miss because the modelling tracks phenotypic distributions instead of allele frequencies (e.g., Walsh and Lynch 2018), but when the genotype-to-phenotype map is sufficiently complex, selection on single alleles will often be weak, so that many allelic substitutions are driven by drift (Frank 2013: 55; Barton 2017: 98, 104). Quantitative genetic theory allows us to model evolution when the map is arbitrarily complex (Fisher 1918; Barton 2017: 96; Barton et al. 2017), although this point is also obscured when the theory is identified with its first-order approximations like the Breeder’s Equation.
- 6.
Bergson, for example, proposed his theory of “Creative Evolution” because “adaptation explains the sinuosities of the movement of evolution, but not its general directions” (Bergson 1907/1998: 102). Simpson (1949, Ch. 11) argued that most of the non-illusory trends were adaptive; although for Simpson this implied that “orientation in evolution is not determined solely by some characteristic within the evolving organisms or solely by external factors in their environments, but by both and by interplay between the two” (1949: 142; see also 149–50).
- 7.
Note that Wright himself, unlike the authors cited, did not call drift creative (e.g., Wright 1980), confirming that the word is used in different ways.
- 8.
A variety of results have questioned whether drift is required for peak shifts—especially when selection pressures vary in space and time (Wright 1931: 167; Fisher and Ford 1950; Weatherhead 1986; Williams 1992, Ch. 4; Price et al. 1993; Whitlock 1997; Weinreich and Chao 2005; Whibley et al. 2006; Bell 2010). And while many populations are spatially subdivided (Provine 1986: 270; Harrison and Taylor 1997; Yang et al. 2019), there is no evidence that levels of drift match the “sweet spot” required to maximize evolvability (Coyne et al. 1997; Barton 2017), or have any tendency to evolve in that direction (e.g., Peck 1992). Nor is there evidence that large well-mixed populations are conspicuously maladapted. Regarding mutational biases, a range of different results suggest that adaptation might not be limited by the rate of beneficial mutation (e.g. because frequent beneficial substitutions can interfere with one another; Weissman and Barton 2012; but see also Wright 1932; Maynard Smith 1976; Maynard Smith et al. 1991; Arnold 1996; Schluter 2000; Welch and Jiggins 2014; Rousselle et al. 2020; Barton 2020). Other work has shown that decreasing the severity of deleterious mutations might lead to extinction, because weakly deleterious mutations persist for longer (Gabriel et al. 1993; see also Kondrashov 1988). Biases that make beneficial mutations more likely, or deleterious mutations less severe, need not, therefore, lead to substantial increases in evolvability. It is important to note that none of these arguments is conclusive. The decisive measurements—on real-world fitness landscapes, or levels of maladaptation relative to some hypothetical optimal kind—remain very difficult (Maynard Smith 1978; Williams 1992, Chs. 4, 9 and 10; Crespi 2000; Hereford et al. 2004; Kaznatcheev 2019); and there is still no consensus about the relative contributions to adaptation of large- and small-effect mutations (Simpson 1947: 494-5; Bell 2010; Rockman 2012; Boyle et al. 2017; Barton 2017: 105-6; Barghi et al. 2020). In addition, some developmental biases are difficult to quantify, while others, like “key innovations”, evolved only once (Williams 1992: 35); so unlike with sex and recombination, we cannot use natural or induced variation to perform tests.
- 9.
- 10.
Overall mutation rates, like recombination rates, are the subject of a generalised reduction principle (e.g., Altenberg et al. 2017), but unlike recombination rates, there is no evidence that mutation rates can be reduced to zero, especially in stressful conditions, when all sorts of biological functions are poorly performed.
- 11.
Of the four bases in DNA, C and T are pyrimidines with a single ring, while A and G are purines with two rings. Transition substitutions are pyrimidine-to-pyrimidine or purine-to-purine, and so conserve the number of rings, while transversions change the number of rings. There are twice as many possible transversions as transitions, allowing us to define a “surprising” overrepresentation of transitions.
- 12.
Note, however, that the controls used by Payne et al. (2019), involving neutral sites and the redundancy of the genetic code, are rarely available for other types of mutational or developmental bias.
- 13.
This view is culturally specific (e.g., Niu and Sternberg 2006), but it does seem to be the relevant one for debates about evolutionary theory.
- 14.
Waddington’s major complaint about population genetics seems to have been its failure to mention things explicitly (so there is “no explicit mention of the phenotype”, “no hint that phenotypes can be affected by environments”, and “no mention of the fact that the effect of a given gene is influenced by the rest of the genotype” 1969/2008: 259). Of course, mentioning things explicitly is not always a theoretical virtue (Gilbert 1994: 153; Strevens 2008) and in any case, all these things are mentioned explicitly in standard quantitative genetics (Fisher 1918; Hill and Kirkpatrick 2010; Walsh and Lynch 2018).
- 15.
Assessing the importance of plasticity to evolvability is difficult for some unique reasons (e.g. Lewontin 1985). How should the benefits of plasticity in a given trait be weighed against the benefits arising from most other traits being stably expressed? And how should we deal with the fact that much adaptive plasticity aims precisely at stabilizing other aspects of the phenotype?
- 16.
Waddington also claimed that his theory—like sexual selection before and kin selection after—explained a whole new class of adaptations; but these were “pseudo-exogenous adaptations”—which look like physiological adaptations but aren’t—and so are not distinguished by a characteristic type of function (Waddington 1953b: 134; Simpson 1953: 113).
- 17.
- 18.
References
Aardema ML, Stiassny MLJ, Alter SE (2020) Genomic analysis of the only blind cichlid reveals extensive inactivation in eye and pigment formation genes. Genome Biol Evol 12(8):1392–1406. https://doi.org/10.1093/gbe/evaa144
Achtman M (2008) Evolution, population structure, and phylogeography of genetically monomorphic bacterial pathogens. Annu Rev Microbiol 62:53–70. https://doi.org/10.1146/annurev.micro.62.081307.162832
Alberch P, Gale EA (1985) A developmental analysis of an evolutionary trend: digital reduction in amphibians. Evolution 39:8–23
Ali MA, Klyne MA (1985) Vision in vertebrates. Springer, Boston, MA. https://doi.org/10.1007/978-1-4684-9129-6
Allee WC (1940) Concerning the origin of sociality in animals. Scientia 34:154–160
Allen GE (1980) The evolutionary synthesis: Morgan and natural selection revisited. In: Mayr E, Provine WB (eds) The evolutionary synthesis: perspectives on the unification of biology. Harvard University Press, Cambridge, MA, pp 356–382
Altenberg L, Liberman U, Feldman MW (2017) Unified reduction principle for the evolution of mutation, migration, and recombination. Proc Natl Acad Sci USA 114(12):E2392–E2400. https://doi.org/10.1073/pnas.1619655114
Ancel LW (2000) Undermining the Baldwin expediting effect: does phenotypic plasticity accelerate evolution? Theoret Popul Biol 58(4):307–319. https://doi.org/10.1006/tpbi.2000.1484
Anderson A (1893) Blind animals in caves. Nature 47(1219):439–439
Ariew A (2003) Ernst Mayr’s ‘ultimate/proximate’ distinction reconsidered and reconstructed. Biol Philos 18:553–565
Arnold M (1996) Natural hybridization and introgression. Princeton University Press, Princeton, NJ
Arthur W (2004) Biased embryos and evolution. Cambridge University Press, Cambridge, UK
Audra P, Palmer AN (2011) The pattern of caves: controls of the epigenic speleogenesis. Géomorphol Relief, Process Environ 17:359–378
Avital E, Jablonka E (2000) Animal traditions: behavioural inheritance in evolution. Cambridge University Press, Cambridge
Bachtrog D (2008) The temporal dynamics of processes underlying Y chromosome degeneration. Genetics 179(3):1513–1525. https://doi.org/10.1534/genetics.107.084012
Badyaev AV (2005) Stress-induced variation in evolution: from behavioural plasticity to genetic assimilation. Proc R Soc Lond B Biol Sci 272:877–886
Baldwin JM (1896) A New Factor in Evolution. Am Nat 30(354):441–451. https://doi.org/10.1086/276408
Barghi N, Hermisson J, Schlötterer C (2020) Polygenic adaptation: a unifying framework to understand positive selection. Nat Rev Genet 21(12):769–781. https://doi.org/10.1038/s41576-020-0250-z
Barton NH (1992) On the spread of new gene combinations in the third phase of Wright's shifting-balance. Evolution 46(2):551–557. https://doi.org/10.1111/j.1558-5646.1992.tb02058.x
Barton NH (1995) A general model for the evolution of recombination. Genet Res 65:123–145
Barton NH (2010) Genetic linkage and natural selection. Phil Trans R Soc B 365:2559–2569. https://doi.org/10.1098/rstb.2010.0106
Barton NH (2017) How does epistasis influence the response to selection? Heredity 118(1):96–109. https://doi.org/10.1038/hdy.2016.109
Barton NH (2020) On the completion of speciation. Philos Trans R Soc Lond B Biol Sci 375(1806):20190530. https://doi.org/10.1098/rstb.2019.0530
Barton NH, Etheridge AM, Véber A (2017) The infinitesimal model: definition, derivation, and implications. Theor Popul Biol 118:50–73. https://doi.org/10.1016/j.tpb.2017.06.001
Bateson G (1958) The new conceptual frames for behavioral research. In: Proceedings of the sixth annual psychiatric conference at the New Jersey Neuro-Psychiatric Institute. Princeton, NJ, pp 54–71
Bateson P (2004) The Active Role of Behaviour in Evolution. Biol Philos 19:283–298
Beatty J (2016) The creativity of natural selection? Part I: Darwin, Darwinism, and the Mutationists. J Hist Biol 49:659–684. https://doi.org/10.1007/s10739-016-9456-5
Beatty J (2019) The creativity of natural selection? Part II: the synthesis and since. J Hist Biol 52:705–731. https://doi.org/10.1007/s10739-019-09583-4
Becks L, Agrawal AF (2012) The evolution of sex is favoured during adaptation to new environments. PLoS Biol 10:e1001317. https://doi.org/10.1371/journal.pbio.1001317
Bedau M (1992) Where’s the good in teleology? Philos Phenomenol Res 52(4):781–806. https://doi.org/10.2307/2107911
Bell G (1982) The masterpiece of nature: the evolution and genetics of sexuality. Croom Helm Ltd., London
Bell G (2010) The oligogenic view of adaptation. Cold Spring Harb Symp Quant Biol 74:139–144. https://doi.org/10.1101/sqb.2009.74.003
Bennett JH (1956) Population genetics and natural selection. Genetica 28:297–307
Bennett JH (ed) (1983) Natural selection, heredity, and eugenics. Oxford University Press, Oxford, Including selected correspondence of R.A. Fisher with Leonard Darwin and others
Bergson H (1907/1998) Creative evolution (Trans. Arthur Mitchell). Dover, Mineola, NY.
Bilandžija H, Hollifield B, Steck M, Meng G, Ng M, Koch AD, Gračan R, Ćetković H, Porter ML, Renner KJ, Jeffery W (2020) Phenotypic plasticity as a mechanism of cave colonization and adaptation. Elife 9:e51830. https://doi.org/10.7554/eLife.51830
Blair JM, Webber MA, Baylay AJ, Ogbolu DO, Piddock LJ (2015) Molecular mechanisms of antibiotic resistance. Nat Rev Microbiol 13(1):42–51. https://doi.org/10.1038/nrmicro3380
Bock DG, Kantar MB, Caseys C, Matthey-Doret R, Rieseberg LH (2018) Evolution of invasiveness by genetic accommodation. Nat Ecol Evol 2(6):991–999. https://doi.org/10.1038/s41559-018-0553-z
Boyle EA, Li YI, Pritchard JK (2017) An expanded view of complex traits: from polygenic to omnigenic. Cell 169(7):1177–1186
Burt A (2000) Sex, recombination, and the efficacy of selection – was Weismann right? Evolution 54:337–351
Caballero A, Toro MA, Lopez-Fanjul C (1991) The response to artificial selection from new mutations in Drosophila melanogaster. Genetics 127:89–102
Cain AJ (1964) The perfection of animals. In: Carthy JD, Duddington CL (eds) Viewpoints I Biology, iii. Butterworth and Co., London, pp 36–63
Calcott B (2009) Lineage Explanations: explaining how biological mechanisms change. Br J Philos Sci 60:51–78
Cartwright P, Halgedahl S, Hendricks J, Jarrard R, Marques A, Collins A, Lieberman B (2007) Exceptionally preserved jellyfishes from the Middle Cambrian. PLoS One 2:e1121
Charlesworth B (1993) Directional selection and the evolution of sex and recombination. Genet Res 61(3):205–224. https://doi.org/10.1017/S0016672300031372
Charlesworth B (2006) Conflicts of interest. Curr Biol 16:R1009–R1011
Charlesworth B, Barton NH (1996) Recombination load associated with selection for increased recombination. Genet Res 67(1):27–41. https://doi.org/10.1017/s0016672300033450
Charlesworth D, Barton NH, Charlesworth B (2017) The sources of adaptive variation. Proc Biol Sci 284(1855):20162864. https://doi.org/10.1098/rspb.2016.2864
Chevin L-M, Lande R (2011) Adaptation to marginal habitats by evolution of increased phenotypic plasticity. J Evol Biol 24(7):1462–1476. https://doi.org/10.1111/j.1420-9101.2011.02279.x
Chisholm RM (1964) Human freedom and the self. In: Kane R (ed) Free will. Blackwell, Oxford
Chouteau M, Arias M, Joron M (2016) Natural selection and warning signals. Proc Natl Acad Sci USA 113(8):2164–2169. https://doi.org/10.1073/pnas.1519216113
Cloudsley-Thompson J (1995) Insects that mimic reptiles. British Herpetol Soc Bull 53:31–33
Coates MM (2003) Visual ecology and functional morphology of Cubozoa (Cnidaria). Integr Comp Biol 43:542–548
Cohen D (1966) Optimizing reproduction in a randomly varying environment. J Theor Biol 12(1):119–129. https://doi.org/10.1016/0022-5193(66)90188-3
Connolly C (1938) Enemies of promise. George Routledge & Sons, London
Cooper TF (2007) Recombination speeds adaptation by reducing competition between beneficial mutations in populations of Escherichia coli. PLoS Biol 5:1899–1905
Coyne JA, Barton NH, Turelli M (1997) Perspective: a critique of Sewall Wright’s shifting balance theory of evolution. Evolution 51:643–671
Crespi BJ (2000) The evolution of maladaptation. Heredity 84:623–629. https://doi.org/10.1046/j.1365-2540.2000.00746.x
Cressler CE, McLeod DV, Rozins C, Van Den Hoogen J, Day T (2016) The adaptive evolution of virulence: a review of theoretical predictions and empirical tests. Parasitology 143(7):915–930. https://doi.org/10.1017/S003118201500092X
Crispo E (2007) The Baldwin effect and genetic assimilation: revisiting two mechanisms of evolutionary change mediated by phenotypic plasticity. Evolution 61(11):2469–2479. https://doi.org/10.1111/j.1558-5646.2007.00203.x
Crow JF (1991) Was wright right? Science 253:973
Crow JF (2008) Mid-century controversies in population genetics. Annu Rev Genet 42:1–16. https://doi.org/10.1146/annurev.genet.42.110807.091612
Cuénot L (1914) Théorie de la préadaptation. Scientia 16:60–73
Culver DC (1982) Cave life: evolution and ecology. Harvard University Press, Cambridge
Culver DC, Pipan T (2015) Shifting paradigms in the evolution of cave life. Acta Carsologica 44(3):415–425
Cunningham JT (1893) Blind Animals in Caves. Nature 47(1219):439–439
D’Costa VM, King CE, Kalan L, Morar M, Sung WW, Schwarz C, Froese D, Zazula G, Calmels F, Debruyne R, Golding GB, Poinar HN, Wright GD (2011) Antibiotic resistance is ancient. Nature 477:457–461. https://doi.org/10.1038/nature10388
Damsgaard C, Lauridsen H, Harter TS, Kwan GT, Thomsen JS, Funder AM, Supuran CT, Tresguerres M, Matthews G, Brauner CJ (2020) A novel acidification mechanism for greatly enhanced oxygen supply to the fish retina. Elife 25(9):e58995. https://doi.org/10.7554/eLife.58995
Darwin CR (1859) The origin of species, 1st edn. John Murray, London
Darwin CR (1872) The origin of species, 6th edn. John Murray, London
Davenport CB (1903) The animal ecology of the Cold Spring sand spit, with remarks on the theory of adaptation (10: 157–176). The Decennial Publications, University of Chicago, Chicago
Davidson AM, Jennions M, Nicotra AB (2011) Do invasive species show higher phenotypic plasticity than native species and, if so, is it adaptive? A meta-analysis. Ecol Lett 14(4):419–431. https://doi.org/10.1111/j.1461-0248.2011.01596.x
Davis MA (2009) Invasion biology. Oxford University Press, Oxford
Dawkins R (1976) The selfish gene. Oxford University Press, Oxford
Dawkins R (1980) Good strategy or evolutionarily stable strategy. In: Barlow GW, Silverberg J (eds) Sociobiology: beyond nature/nurture. Westview Press, Boulder, pp 331–367
Dawkins R (1982) The extended phenotype. Oxford University Press, Oxford
Dawkins R (2004) Extended phenotype – but not too extended. A reply to Laland, turner and Jablonka. Biol Philos 19:377–396
de Vos JM, Augustijnen H, Bätscher L, Lucek K (2020) Speciation through chromosomal fusion and fission in Lepidoptera. Phil Trans R Soc B 375:20190539. https://doi.org/10.1098/rstb.2019.0539
Dennett DC (1975) Why the Law of Effect will not go away. J Theory Soc Behav 5(2):169–188
Dennett DC (1987) The intentional stance. MIT Press, Cambridge MA
Dennett DC (1995) Darwin’s Dangerous idea: evolution and the meanings of life. Simon & Schuster, NY
Dennett DC (2003) The self as a responding - and responsible - artifact. Ann NY Acad Sci 1001:39–50. https://doi.org/10.1196/annals.1279.003
Dennett DC (2019) Clever evolution. Metascience 28:355–358. https://doi.org/10.1007/s11016-019-00450-w
Dobzhansky T (1974) Chance and creativity in evolution. In: Ayala FJ, Dobzhansky T (eds) Studies in the philosophy of biology. Palgrave, London. https://doi.org/10.1007/978-1-349-01892-5_18
Eckert CG (2002) The loss of sex in clonal plants. Evol Ecol 15:501–520
Edelaar P, Bolnick DI (2019) Appreciating the multiple processes increasing individual or population fitness. Trends Ecol Evol 34(5):435–446. https://doi.org/10.1016/j.tree.2019.02.001
Eldholm V, Balloux F (2016) Antimicrobial resistance in Mycobacterium tuberculosis: the odd one out. Trends Microbiol 24(8):637–648. https://doi.org/10.1016/j.tim.2016.03.007
Eldredge N (1995) Reinventing Darwin: the great evolutionary debate. Weidenfeld & Nicolson, London
Elton C (1927) Animal ecology, 1st edn. Sidgwick and Jackson, London
Elton C (1930) Animal ecology and evolution. Oxford University Press, London
Endler JA (1986) Natural selection in the wild. Princeton University Press, Princeton, NJ
Endler JA, McLellan T (1988) The processes of evolution: toward a newer synthesis. Ann Rev Ecol Sys 19:395–421. https://doi.org/10.1146/annurev.es.19.110188.002143
Erwin DH (2015) Novelty and innovation in the history of life. Curr Biol 25:R930–R940. https://doi.org/10.1016/j.cub.2015.08.019
Eshel I (2005) Asymmetric population games and the legacy of Maynard Smith: from evolution to game theory and back? Theor Popul Biol 68:11–17. https://doi.org/10.1016/j.tpb.2004.11.003
Eshel I, Matessi C (1998) Canalization, genetic assimilation and preadaptation. A quantitative genetic model. Genetics 149(4):2119–2133
Feldman MW, Liberman U (1986) An evolutionary reduction principle for genetic modifiers. Proc Natl Acad Sci USA 83(13):4824–4827. https://doi.org/10.1073/pnas.83.13.4824
Felsenstein J (1981) Skepticism towards Santa Rosalia, or why are there so few kinds of animals. Evolution 35:124–138. https://doi.org/10.2307/2407946
Felsenstein J (2000) From population genetics to evolutionary genetics: a view through the trees. In: Singh RS, Krimbas CB (eds) Evolutionary genetics: from molecules to morphology. Cambridge University Press, Cambridge, pp 609–627
Fernald RD (2006) Casting a genetic light on the evolution of eyes. Science 313(5795):1914–1918. https://doi.org/10.1126/science.1127889
Fisher RA (1918) The correlation between relatives on the supposition of Mendelian inheritance. Trans R Soc Edinb 52:399–433
Fisher RA (1930) The genetical theory of natural selection. Oxford University Press, Oxford
Fisher RA (1934) Indeterminism and natural selection. Philos Sci 1:99–117
Fisher RA (1936) The measurement of selective intensity. In: A discussion of the present state of the theory of Natural Selection. Proc Roy Soc B 121:52–62
Fisher RA (1950) Creative aspects of natural law. Cambridge University Press, Cambridge
Fisher RA, Ford EB (1950) The “Sewall wright effect”. Heredity 4:117–119. https://doi.org/10.1038/hdy.1950.8
Fisher RA, Stock CS (1915) Cuénot on preadaptation: a criticism. Eugen Rev 7(1):46–61
Fodor JA (1990) A Theory of content and other essays. MIT Press
Fodor JA, Piattelli-Palmarini M (2010) What Darwin got wrong. Farrar, Straus and Giroux, New York
Foley R (2004) Sex under pressure. Review of N. Eldredge. Why we do it: rethinking sex and the selfish gene. Nature 430:613–614
Frank SA (2013) “Wright’s adaptive landscape versus Fisher’s Fundamental Theorem”. Ch. 4. In: Svensson E, Calsbeek R (eds) The adaptive landscape in evolutionary biology. Oxford University Press, Oxford. https://doi.org/10.1093/acprof:oso/9780199595372.003.0004
Fraser HB (2020) Detecting selection with a genetic cross. Proc Natl Acad Sci USA 117(36):22323–22330. https://doi.org/10.1073/pnas.2014277117
Fuller RC, Houle D, Travis J (2005) Sensory bias as an explanation for the evolution of mate preferences. Am Nat 166(4):437–446. https://doi.org/10.1086/444443
Gabriel W, Lynch M, Bürger R (1993) Muller's ratchet and mutational meltdowns. Evolution 47(6):1744–1757. https://doi.org/10.1111/j.1558-5646.1993.tb01266.x
Ganai RA, Johansson E (2016) DNA Replication-A Matter of Fidelity. Mol Cell 62(5):745–755. https://doi.org/10.1016/j.molcel.2016.05.003
Gardner A (2013) Ultimate explanations concern the adaptive rationale for organism design. Biol Philos 28:787–791. https://doi.org/10.1007/s10539-013-9379-x
Gardner A (2017) The purpose of adaptation. Interface Focus 7:20170005
Gardner A (2019) The agent concept is a scientific tool. Metascience 28:359–363. https://doi.org/10.1007/s11016-019-00451-9
Garm A, Ekström P, Boudes M, Nilsson D-E (2006) Rhopalia are integrated parts of the central nervous system in box jellyfish. Cell Tissue Res 325:333–343
Garm A, O'Connor M, Parkefelt L, Nilsson D-E (2007) Visually guided obstacle avoidance in the box jellyfish Tripedalia cystophora and Chiropsella bronzie. J Exp Biol 210:3616–3623. https://doi.org/10.1242/jeb.004044
Garm A, Oskarsson M, Nilsson D-E (2011) Box jellyfish use terrestrial visual cues for navigation. Curr Biol 21(9):798–803. https://doi.org/10.1016/j.cub.2011.03.054
Garm A, Bielecki J, Petie R, Nilsson DE (2016) Hunting in bioluminescent light: vision in the nocturnal box jellyfish Copula sivickisi. Front Physiol 30(7):99. https://doi.org/10.3389/fphys.2016.00099
Garson J (2019) What biological functions are and why they matter. Cambridge University Press. https://doi.org/10.1017/9781108560764
Gavrilets S (1996) On Phase III of the shifting balance theory. Evolution 50(3):1034–1041. https://doi.org/10.1111/j.1558-5646.1996.tb02344.x
Gerhart J, Kirschner M (1997) Cells, embryos and evolution. Wiley–Blackwell, London
Ghiselin MT (1983) Lloyd Morgan's canon in evolutionary context. Behav Brain Sci 6:362–363
Gilbert SF (1994) Dobzhansky, Waddington, and Schmalhausen: Embryology and the modern synthesis. Evolution of theodosius dobzhansky: essays on his life and thought in Russia and America, pp. 143–154.
Gingerich D (1983) Rates of evolution: effects of time and temporal scaling. Science 222(4620):159–161. https://doi.org/10.1126/science.222.4620.159
Gingerich D (2009) Rates of evolution. Annu Rev Ecol Evol Syst 40(1):657–675. https://doi.org/10.1146/annurev.ecolsys.39.110707.173457
Godfrey-Smith P (2017) The subject as cause and effect of evolution. Interface Focus 7:20170022. https://doi.org/10.1098/rsfs.2017.0022
Gojobori T, Li WH, Graur D (1982) Patterns of nucleotide substitution in pseudogenes and functional genes. J Mol Evol 18(5):360–369. https://doi.org/10.1007/Bf01733904
Goldschmitdt RB (1940) The material basis of evolution. Yale Univ Press, New Haven CT
Goodnight CJ, Wade MJ (2000) The ongoing synthesis: a reply to Coyne, Barton, and Turelli. Evolution 54(1):317–324. https://doi.org/10.1111/j.0014-3820.2000.tb00034.x
Gould SJ (1982) The uses of heresy. An introduction to Richard Goldschmidt’s material basis of evolution. In: The material basis of evolution. Yale University Press, New Haven, pp xiii–xlii
Gould SJ, Lewontin RC (1979) The spandrels of San Marco and the Panglossian paradigm: a critique of the adaptationist programme. Phil Trans R Soc B 205:581–598
Grafen A (1988) On the uses of data on lifetime reproductive success. Ch. 28. In: Clutton-Brock TH (ed) Reproductive success. Chicago University Press, Chicago, pp 454–471
Grafen A (1999) Formal Darwinism, the individual-as-maximising-agent analogy, and bet-hedging. Proc R Soc B 266:799–803
Grafen A (2003) Fisher the evolutionary biologist. J R Stat Soc Series D (The Statistician). 52:319–329
Grafen A (2018) The left hand side of the fundamental theorem of natural selection. J Theor Biol 456:175–189. https://doi.org/10.1016/j.jtbi.2018.07.022
Haig D (2007) Weismann rules! OK? Epigenetics and the Lamarckian temptation. Biol Philos 22:415–428. https://doi.org/10.1007/s10539-006-9033-y
Haig D (2020) From Darwin to Derrida selfish genes, social selves, and the meanings of life. MIT Press, London
Haldane JBS (1924) A mathematical theory of natural and artificial selection, Part I. Trans Camb Philos Soc 23:19–41
Haldane JBS (1954) Introducing Douglas Spalding. British J Anim Behav 2:1
Haldane JBS (1959) Natural selection. In: Bell R (ed) Darwin’s biological work: some aspects reconsidered. Wiley, New York, pp 101–149
Hamilton WD (1964) The genetical evolution of social behaviour I. J Theoret Biol 7:1–16
Hammerstein P (1996) Streetcar theory and long-term evolution. Science 273:1032. https://doi.org/10.1126/science.273.5278.1032
Hansen TF (2013) “Adaptive landscapes and macroevolutionary dynamics”. Ch. 13. In: Svensson E, Calsbeek R (eds) The adaptive landscape in evolutionary biology. Oxford University Press, Oxford. https://doi.org/10.1093/acprof:oso/9780199595372.003.0013
Hansen TF, Alvarez-Castro JM, Carter AJR, Hermisson J, Wagner G (2006) Evolution of genetic architecture under directional selection. Evolution 60:1523–1536
Harrison S, Taylor AD (1997) “Empirical evidence for metapopulation dynamics”. Ch. 2. In: Hanski I, Gilpin ME (eds) Metapopulation biology. Academic Press, London, pp 27–42. https://doi.org/10.1016/B978-012323445-2/50004-3
Harvey H, Bull JJ, Pemberton M, Paxton RJ (1982) The evolution of aposematic coloration in distasteful prey: a family model. Am Nat 119:710–719
Hayden L, Lochovska K, Sémon M, Renaud S, Delignette-Muller ML, Vilcot M, Peterkova R, Hovorakova M, Pantalacci S (2020) Developmental variability channels mouse molar evolution. Elife 9:e50103. https://doi.org/10.7554/eLife.50103
Hayes A, Lacey JA, Morris JM, Davies MR, Tong SYC (2020) Restricted sequence variation in Streptococcus pyogenes penicillin binding proteins. Clin Sci Epidemiol 5(2):e00090–e00020
Hedrick W, Levin DA (1984) Kin-founding and the fixation of chromosomal variants. Am Nat 124:789–797
Hendry A (2016) Key questions on the role of phenotypic plasticity in eco-evolutionary dynamics. J Hered 107(1):25–41. https://doi.org/10.1093/jhered/esv060
Henshaw JM, Jones AG (2020) Fisher's lost model of runaway sexual selection. Evolution 74(2):487–494. https://doi.org/10.1111/evo.13910
Hereford J, Hansen TF, Houle D (2004) Comparing strengths of directional selection: how strong is strong? Evolution 58(10):2133–2143. https://doi.org/10.1111/j.0014-3820.2004.tb01592.x
Hill WG, Kirkpatrick M (2010) What animal breeding has taught us about evolution. Annual Rev Ecol Evol Syst 41(1):1–19
Hobhouse LT (1901) Mind in evolution. Macmillan, London
Horn DL, Zabriskie JB, Austrian R, Cleary P, Ferretti JJ, Fischetti VA, Gotschlich E, Kaplan EL, McCarty M, Opal SM, Roberts RB, Tomasz A, Wachtfogel Y (1998) Why have group A streptococci remained susceptible to penicillin? Report on a symposium. Clin Infect Dis 26(6):1341–1345. https://doi.org/10.1086/516375
Houle D, Bolstad GH, van der Linde K, Hansen TF (2017) Mutation predicts 40 million years of fly wing evolution. Nature 548(7668):447–450. https://doi.org/10.1038/nature23473
Houston AI, McNamara JM (2005) John Maynard Smith and the importance of consistency in evolutionary game theory. Biol Philos 20:933–950. https://doi.org/10.1007/s10539-005-9016-4
Huey RB, Hertz E, Sinervo B (2003) Behavioral drive versus behavioral inertia in evolution: a null model approach. Am Nat 161(3):357–366. https://doi.org/10.1086/346135
Hughes AL (2012) Evolution of adaptive phenotypic traits without positive Darwinian selection. Heredity 108:347–353. https://doi.org/10.1038/hdy.2011.97
Hull DL (1973) Darwin and his critics: the reception of Darwin’s theory of evolution by the scientific community. Harvard University Press, Cambridge, Mass.
Hull DL (1999) The Use and Abuse of Sir Karl Popper. Biol Philos 14:481–504. https://doi.org/10.1023/A:1006554919188
Huxley JS (1942) Evolution. The modern synthesis. Allen and Unwin, London
Jeffery WR (2009) Regressive evolution in Astyanax cavefish. Annu Rev Genet 43:25–47. https://doi.org/10.1146/annurev-genet-102108-134216
Jones LP, Frankham R, Barker JS (1968) The effects of population size and selection intensity in selection for a quantitative character in Drosophila. II. Long-term response to selection. Genet Res 12(3):249–266. https://doi.org/10.1017/s001667230001185x
Juan C, Guzik MT, Jaume D, Cooper SJB (2010) Evolution in caves: Darwin’s ‘wrecks of ancient life’ in the molecular era. Mol Ecol 19:3865–3880
Kaznatcheev A (2019) Computational complexity as an ultimate constraint on evolution. Genetics 212:245–265. https://doi.org/10.1534/genetics.119.302000
Keller I, Bensasson D, Nichols RA (2007) Transition-transversion bias is not universal: a counter example from grasshopper pseudogenes. PLoS Genet 3:e22
Kimble EA, Svoboda RA, Ostroy SE (1980) Oxygen consumption and ATP changes of the vertebrate photoreceptor. Exp Eye Res 31:271–278
Kirkpatrick M (1987) Sexual selection by female choice in polygynous animals. Annu Rev Ecol Syst 18:43–70
Kirschner M, Gerhart J (2005) The plausibility of life: resolving Darwin's dilemma. Yale University Press
Kitcher P (2001) “How (and how not) to resist genetic determinism”. Ch. 20. In: Singh RS, Krimbas CB, Paul DB, Beatty J (eds) Thinking about evolution: historical, philosophical, and political perspectives. Cambridge University Press, Cambridge, pp 396–414
Kokko H (2021) The stagnation paradox: the ever-improving but (more or less) stationary population fitness. Proc R Soc B 288:20212145. https://doi.org/10.1098/rspb.2021.2145
Kondrashov AS (1988) Deleterious mutations and the evolution of sexual reproduction. Nature 336:435–440
Kosheleva K, Desai MM (2018) Recombination alters the dynamics of adaptation on standing variation in laboratory yeast populations. Mol Biol Evol 35(1):180–201. https://doi.org/10.1093/molbev/msx278
Krimbas CB (1984) On adaptation, neo-Darwinism tautology and population fitness. Evol Biol 17:1–57
Küpper C, Stocks M, Risse JE, Dos Remedios N, Farrell LL, McRae SB, Morgan TC, Karlionova N, Pinchuk P, Verkuil YI, Kitaysky AS, Wingfield JC, Piersma T, Zeng K, Slate J, Blaxter M, Lank DB, Burke T (2016) A supergene determines highly divergent male reproductive morphs in the ruff. Nat Genet 48(1):79–83. https://doi.org/10.1038/ng.3443
Labandeira CC (2007) The origin of herbivory on land: initial patterns of plant tissue consumption by arthropods. Insect Sci 14:259–275
Laland K (2018) Evolution unleashed. Aeon 17 January 2018. https://aeon.co/essays/science-in-flux-is-a-revolution-brewing-in-evolutionary-theory.
Laland KN, Sterelny K (2006) Perspective: seven reasons (not) to neglect niche construction. Evolution 60(9):1751–1762
Laland KN, Sterelny K, Odling-Smee J, Hoppitt W, Uller T (2011) Cause and effect in biology revisited: is Mayr’s proximate-ultimate dichotomy still useful? Science 16 334(6062):1512–1516. https://doi.org/10.1126/science.1210879
Laland KN, Uller T, Feldman MW, Sterelny K, Müller GB, Moczek A, Jablonka E, Odling-Smee J (2015) The extended evolutionary synthesis: its structure, assumptions and predictions. Proc R Soc B 282:20151019. https://doi.org/10.1098/rspb.2015.1019
Land MF, Nilsson D-E (2012) Animal vision, 2nd edn. Oxford University Press, Oxford
Lande R (1981) Models of speciation by sexual selection on polygenic traits. Proc Nat Acad Sci USA 78:3721–3725
Lande R (2015) Evolution of phenotypic plasticity in colonizing species. Mol Ecol 24(9):2038–2045. https://doi.org/10.1111/mec.13037
Lange A, Müller GB (2017) Polydactyly in development, inheritance, and evolution. Q Rev Biol 92(1):1–38. https://doi.org/10.1086/690841
Lankester ER (1893) Blind animals in caves. Nature 47(1217):389
Larsen J, Raisen CL, Ba X, Sadgrove NJ, Padilla-González GF, Simmonds MSJ, Loncaric I, Kerschner H, Apfalter P, Hartl R, Deplano A, Vandendriessche S, Černá Bolfíková B, Hulva P, Arendrup MC, Hare RK, Barnadas C, Stegger M, Sieber RN, Skov RL, Petersen A, Angen Ø, Rasmussen SL, Espinosa-Gongora C, Aarestrup FM, Lindholm LJ, Nykäsenoja SM, Laurent F, Becker K, Walther B, Kehrenberg C, Cuny C, Layer F, Werner G, Witte W, Stamm I, Moroni P, Jørgensen HJ, de Lencastre H, Cercenado E, García-Garrote F, Börjesson S, Hæggman S, Perreten V, Teale CJ, Waller AS, Pichon B, Curran MD, Ellington MJ, Welch JJ, Peacock SJ, Seilly DJ, Morgan FJE, Parkhill J, Hadjirin NF, Lindsay JA, Holden MTG, Edwards GF, Foster G, Paterson GK, Didelot X, Holmes MA, Harrison EM, Larsen AR (2022) Emergence of methicillin resistance predates the clinical use of antibiotics. Nature 602:135–141. https://doi.org/10.1038/s41586-021-04265-w
Lee J, Hartman M, Kornfeld H (2009) Macrophage apoptosis in tuberculosis. Yonsei Med J 50:1–11. https://doi.org/10.3349/ymj.2009.50.1.1
Lehtonen J, Jennions MD, Kokko H (2012) The many costs of sex. Trends Ecol Evol 27(3):172–178. https://doi.org/10.1016/j.tree.2011.09.016
Leigh Jr., E. G. (2001) “Adaptation, adaptationism and optimality”. Ch. 12 In Orzack S. H. and Sober E. (Eds). Adaptationism and optimality. Cambridge University Press, Cambridge: 358-387.
Lenormand T, Roze D, Rousset F (2009) Stochasticity in evolution. Trends Ecol Evol 24:157–165
Levin DA (1970) Developmental instability and evolution in peripheral isolates. Am Nat 104:343–353
Levin S, Grafen A (2019) Inclusive fitness is an indispensable approximation for understanding organismal design. Evolution 73:1066–1076. https://doi.org/10.1111/evo.13739
Levins R, Lewontin RC (1985) The dialectical biologist. Harvard University Press, Cambridge
Lewens T (2005) The problems of biological design. In: O’Hear A (ed) Philosophy, biology and life. Cambridge University Press, pp 177–192. https://doi.org/10.1017/S1358246100008833
Lewontin RC (1977) Caricature of darwinism. Nature 266:283–284
Lewontin RC (1978) Adaptation. Sci Am 239:212–230
Lewontin RC (1985) “The organism as the subject and object of evolution”. Ch. 3. In: Levins R, Lewontin RC (eds) The dialectical biologist. Harvard University Press, Cambridge, pp 85–106
Lewontin RC (2002) Directions in evolutionary biology. Annu Rev Genet 36(1):1–18
Lewontin RC (2010) Not so natural selection. New York Rev 57(9):34–36
Linsenmeier RA, Braun RD (1992) Oxygen distribution and consumption in the cat retina during normoxia and hypoxemia. J Gen Physiol 99(2):177–197. https://doi.org/10.1085/jgp.99.2.177
Liu C, Wolter C, Xian W, Jeschke JM (2020) Most invasive species largely conserve their climatic niche. Proc Natl Acad Sci USA 117:23643–23651
Lloyd Morgan C (1896) On modification and variation. Science 4:733–740
Long H, Behringer MG, Williams E, Te R, Lynch M (2016) Similar mutation rates but highly diverse mutation spectra in ascomycete and basidiomycete yeasts. Genome Biol Evol 8(12):3815–3821. https://doi.org/10.1093/gbe/evw286
Lovelock JE, Margulis L (1974) Atmospheric homeostasis by and for the biosphere—the Gaia hypothesis. Tellus 26:2–10
Lynch M (2007) The origins of genome architecture. Sinauer Associates, NY
MacBride EW (1925) The blindness of cave-animals. Nature 116(2927):818
MacNamara JM, Houston AI, Don Santos MM, Kokko H, Brooks R (2003) Quantifying male attractiveness. Proc R Soc B f270:1925–1932
Mallet J (2010) Shift happens! Shifting balance and the evolution of diversity in warning colour and mimicry. Ecol Entomol 35(Suppl. 1):90–104. https://doi.org/10.1111/j.1365-2311.2009.01137.x
Mallet J, Barton NH (1989) Strong natural selection in a warning-color hybrid zone. Evolution 43(2):421–431. https://doi.org/10.1111/j.1558-5646.1989.tb04237.x
Martinez L, Verma R, Croda J, Horsburgh CR Jr, Walter KS, Degner N, Middelkoop K, Koch A, Hermans S, Warner DF, Wood R, Cobelens F, Andrews JR (2019) Detection, survival and infectious potential of Mycobacterium tuberculosis in the environment: a review of the evidence and epidemiological implications. Eur Respir J 53(6):1802302. https://doi.org/10.1183/13993003.02302-2018
Maynard Smith J (1952) The importance of the nervous system in the evolution of animal flight. Evolution 6:127–129
Maynard Smith J (1958) The theory of evolution. Penguin Books, London
Maynard Smith J (1960) Continuous, quantized and modal variation. Proc Roy Soc Lond B 152:397–409
Maynard Smith J (1969) The status of Neo-Darwinism. In: Waddington CH (ed) Towards a theoretical biology, vol 2: Sketches. Edinburgh University Press, Edinburgh, pp 82–89
Maynard Smith J (1970) Natural selection and the concept of protein space. Nature 225:563–564
Maynard Smith J (1976) What determines the rate of evolution? Am Nat 110(973):331–338
Maynard Smith J (1978) Optimization theory in evolution. Ann Rev Ecol Syst 9:31–56
Maynard Smith J (1981) Overview – unsolved evolutionary problems. In: Dover GA, Flavell RB (eds) Genome evolution. Genome conference, Cambridge. Academic Press, London, pp 375–382
Maynard Smith J (2001) Reconciling Marx and Darwin. Evolution 55:1496–1498
Maynard Smith J, Burian R, Kauffman S, Alberch P, Campbell J, Goodwin B, Lande R, Raup D, Wolpert L (1985) Developmental constraints and evolution. Quart Rev Biol 60:265–287
Maynard Smith J, Dowson CG, Spratt BG (1991) Localized sex in bacteria. Nature 349:29–31
Mayr E (1951) Speciation in birds. Proc. Xth Int. Ornith, Congress, Uppsala, pp. 91–131.
Mayr E (1960) The emergence of evolutionary novelties. In: Tax S (ed) Evolution after Darwin, vol I. University of Chicago Press, Chicago, pp 349–380
Mayr E (1961) Cause and effect in biology. Science 134:1501–1506
Mayr E (1963) Animal species and evolution. The Belknap Press of Harvard University Press, Cambridge, MA
Mayr E (1983) How to carry out the adaptationist program? Am Nat 121:324–334
Mayr E (1992) The idea of teleology. J Hist Ideas 53:117–135
Mayr E (2001) Wu’s genic view of speciation. J Evol Biol 14:866–867
McLeod DV, Gandon S (2021) Understanding the evolution of multiple drug resistance in structured populations. eLife 10:e65645. https://doi.org/10.7554/eLife.65645
McNamara JM, Leimar O (2020) Game theory in biology. Oxford University Press, Oxford
Meany MK, Conner WR, Richter SV, Bailey JA, Turelli M, Cooper BS (2019) Loss of cytoplasmic incompatibility and minimal fecundity effects explain relatively low Wolbachia frequencies in Drosophila mauritiana. Evolution 73(6):1278–1295. https://doi.org/10.1111/evo.13745
Merilä J, Sheldon B, Kruuk L (2001) Explaining stasis: microevolutionary studies in natural populations. Genetica 112:199–222. https://doi.org/10.1023/A:1013391806317
Merrill RM, Dasmahapatra KK, Davey JW, Dell'Aglio DD, Hanly JJ, Huber B, Jiggins CD, Joron M, Kozak KM, Llaurens V, Martin SH, Montgomery SH, Morris J, Nadeau NJ, Pinharanda AL, Rosser N, Thompson MJ, Vanjari S, Wallbank RW, Yu Q (2015) The diversification of Heliconius butterflies: what have we learned in 150 years? J Evol Biol 28(8):1417–1438. https://doi.org/10.1111/jeb.12672
Mivart SGJ (1871) On the genesis of species. Macmillan & Co, London
Morrissey MB, Hadfield JD (2012) Directional selection in temporally replicated studies is remarkably consistent. Evolution 66(2):435–442. https://doi.org/10.1111/j.1558-5646.2011.01444.x
Müller F (1879) Ituna and Thyridia; a remarkable case of mimicry in butterflies. Trans Ent Soc London, 1879, xx–xxix (transl. by Ralph Meldola from the original German article in Kosmos, May 1879: 100).
Muller HJ (1947) Redintegration of the symposium on genetics, paleontology, and evolution. In: Jepsen GL, Simpson GG, Mayr E (eds) Genetics, paleontology, and evolution. Princeton University Press, Princeton, NJ
Muller HJ (1949) The Darwinian and modern conceptions of natural selection. Proc Am Philos Soc 93:459–470
Nagel E (1977) Goal-directed processes in biology. J Philos 74(5):261–279
Neander K (1991) Functions as selected effects: the conceptual analyst’s defense. Philos Sci 58(2):168–184
Neander K (2017) Functional analysis and the species design. Synthese 194(4):1147–1168
Neander K, Rosenberg A (2012) Solving the circularity problem for functions: a response to Nanay. J Philos 109(10):613–622
Nilsson D-E (2013) Eye evolution and its functional basis. Vis Neurosci 30(1-2):5–20. https://doi.org/10.1017/S0952523813000035
Nilsson D-E, Gislén L, Coates MM, Skogh C, Garm A (2005) Advanced optics in a jellyfish eye. Nature 435(7039):201–205. https://doi.org/10.1038/nature03484
Niu W, Sternberg RJ (2006) The philosophical roots of Western and Eastern conceptions of creativity. J Theor Philos Psychol 26(1-2):18–38. https://doi.org/10.1037/h0091265
Normark BB, Judson OP, Moran NA (2003) Genomic signatures of ancient asexual lineages. Biol J Linnean Soc 79:69–84
Novelo Galicia E, Luis Martínez MA, Cordero C (2019) False head complexity and evidence of predator attacks in male and female hairstreak butterflies (Lepidoptera: Theclinae: Eumaeini) from Mexico. PeerJ 7:e7143. https://doi.org/10.7717/peerj.7143
Nowak MA, McAvoy A, Allen B, Wilson EO (2017) The general form of Hamilton's rule makes no predictions and cannot be tested empirically. Proc Natl Acad Sci USA 114(22):5665–5670. https://doi.org/10.1073/pnas.1701805114
O’Connor M, Nilsson D-E, Garm A (2010) Temporal properties of the lens eyes of the box jellyfish Tripedalia cystophora. J Comp Physiol A 196:213–220. https://doi.org/10.1007/s00359-010-0506-8
Odling-Smee FJ, Laland KN, Feldman MW (2003) Niche construction: the neglected process in evolution. In: Monographs in population biology, vol 37. Princeton University Press, Princeton
Olsen RJ, Zhu L, Musser JM (2020) A single amino acid replacement in Penicillin-Binding Protein 2X in Streptococcus pyogenes significantly increases fitness on subtherapeutic benzylpenicillin treatment in a mouse model of necrotizing myositis. Am J Pathol 190(8):1625–1631. https://doi.org/10.1016/j.ajpath.2020.04.014
Orr HA (1998) Testing natural selection vs. genetic drift in phenotypic evolution using quantitative trait locus data. Genetics 149:2099–2104
Orr HA (2000) Adaptation and the cost of complexity. Evolution 54(1):13–20. https://doi.org/10.1111/j.0014-3820.2000.tb00002.x
Orr HA (2013) Awaiting a New Darwin. The New York Review of Books, Feb 7, 2013.
Osborn HF (1921) Orthogenesis as observed from paleontological evidence beginning in the year 1889. Am Nat 56(643):134–143
Osório NS, Rodrigues F, Gagneux S, Pedrosa J, Pinto-Carbó M, Castro AG, Young D, Comas I, Saraiva M (2013) Evidence for diversifying selection in a set of Mycobacterium tuberculosis genes in response to antibiotic- and nonantibiotic-related pressure. Mol Biol Evol 30(6):1326–1336. https://doi.org/10.1093/molbev/mst038
Ospovat D (1978) Perfect adaptation and teleological explanation: approaches to the problem of the history of life in the mid-nineteenth century. Stud Hist Biol 2:33–56
Ospovat D (1980) God and natural selection: the Darwinian idea of design. J Hist Biol 13(2):169–194
Otto S (2009) The evolutionary enigma of sex. Am Nat 174(Suppl 1):S1–S14. https://doi.org/10.1086/599084
Owen R (1868) On the anatomy of vertebrates. Vol. III mammals. Longmans, Green and Co, London
Paley W (1802) Natural theology or evidences of the existence and attributes of the deity. R. Faulder, London
Papineau D (2005) Social learning and the Baldwin Effect. In: Zilhão A (ed) Evolution, rationality, and cognition: a cognitive science for the twenty-first century. Routledge, London
Pavlicev M, Cheverud JM, Wagner G (2011) Evolution of adaptive phenotypic variation patterns by direct selection for evolvability. Proc Biol Sci 278(1713):1903–1912. https://doi.org/10.1098/rspb.2010.2113
Payne JL, Menardo F, Trauner A, Borrell S, Gygli SM, Loiseau C, Gagneux S, Hall AR (2019) Transition bias influences the evolution of antibiotic resistance in Mycobacterium tuberculosis. PLoS Biol 17(5):e3000265. https://doi.org/10.1371/journal.pbio.3000265
Pearson DL (1989) What is the adaptive significance of multicomponent defensive repertoires? Oikos 54(2):251–253
Peck JR (1992) Group selection, individual selection, and the evolution of genetic drift. J Theor Biol 159:163–187
Pfennig DW, Wund MA, Snell-Rood EC, Cruickshank T, Schlichting CD, Moczek A (2010) Phenotypic plasticity's impacts on diversification and speciation. Trends Ecol Evol 25(8):459–467. https://doi.org/10.1016/j.tree.2010.05.006
Philippi T, Seger J (1989) Hedging one's evolutionary bets, revisited. Trends Ecol Evol 4(2):41–44. https://doi.org/10.1016/0169-5347(89)90138-9
Piatigorsky J (2008) A genetic perspective on eye Evolution: gene sharing, convergence and parallelism. Evo Edu Outreach 1:403–414. https://doi.org/10.1007/s12052-008-0077-0
Picciani N, Kerlin JR, Sierra N, Swafford AJM, Ramirez MD, Roberts NG, Cannon JT, Daly M, Oakley TH (2018) Prolific origination of eyes in Cnidaria with co-option of non-visual opsins. Curr Biol 28(15):2413–2419.e4. https://doi.org/10.1016/j.cub.2018.05.055
Pigliucci M (2007) Do we need an extended evolutionary synthesis? Evolution 61:2743–2749
Pigliucci M, Murren CJ, Schlichting CD (2006) Phenotypic plasticity and evolution by genetic assimilation. J Exp Biol 209(12):2362–2367. https://doi.org/10.1242/jeb.02070
Platnick NI, Rosen DE (1987) Popper and evolutionary novelties. Hist Philos Life Sci 9:5–16
Pomiankowski A, Iwasa Y, Nee S (1991) The evolution of costly mate preferences 1. Fisher and biased mutation. Evolution 45:1422–1430
Popper KR (1972) Objective knowledge: an evolutionary approach. At the Clarendon Press, Oxford
Popper KR (1974) Darwinism as a metaphysical research programme. In: Schilpp PA (ed) The philosophy of karl popper. Open Court, La Salle, IL, pp 133–143
Popper KR (1976) Unended Quest: an intellectual autobiography. Fontana/Collins, London
Popper KR (1978) Natural Selection and the Emergence of Mind. Dialectica 32:339–355
Popper KR (1984) In search of a better world: lectures and essays from thirty years. Routledge, London
Popper KR, Eccles JC (1977) The self and its brain: an argument for interactionism. Routledge and Kegan Paul PLC, London
Poulson TL, White WB (1969) The cave environment. Science 165(3897):971–981. https://doi.org/10.1126/science.165.3897.971
Price T, Turelli M, Slatkin M (1993) Peak shifts produced by correlated response to selection. Evolution 47(1):280–290. https://doi.org/10.1111/j.1558-5646.1993.tb01216.x
Protas M, Conrad M, Gross JB, Tabin C, Borowsky R (2007) Regressive evolution in the Mexican cave tetra, Astyanax mexicanus. Curr Biol 17(5):452–454. https://doi.org/10.1016/j.cub.2007.01.051
Provine WB (1986) Sewall wright and evolutionary biology. The University of Chicago Press, London
Queller DC (2020) The gene's eye view, the Gouldian knot, Fisherian swords and the causes of selection. Philos Trans R Soc Lond B Biol Sci 375(1797):20190354. https://doi.org/10.1098/rstb.2019.0354
Radick G (2017) Animal agency in the age of the Modern Synthesis: W. H. Thorpe’s example. In: Rees A (ed) Animal agents: the non-human in the history of science. BJHS Themes 2. Cambridge University Press, Cambridge, pp 35–56
Reeve HK, Sherman W (1993) Adaptation and the goals of evolutionary research. Q Rev Biol 68(1):1–32
Rendel JM (1967) Canalisation and gene control. Logos Press, London
Rétaux S, Casane D (2013) Evolution of eye development in the darkness of caves: adaptation, drift, or both? EvoDevo 4:26. https://doi.org/10.1186/2041-9139-4-26
Rice WR (2002) Experimental tests of the adaptive significance of sexual recombination. Nat Rev Genet 3(4):241–251. https://doi.org/10.1038/nrg760
Ridley M (1982) Coadaptation and the inadequacy of natural selection. British J Hist Sci 15:45–68
Robertson A (1977) Conrad Hal Waddington. 8 November 1905–26 September 1975. Biogr Mem Fellows R Soc 23:575–622. https://doi.org/10.1098/rsbm.1977.0022
Rockman MV (2012) The QTN program and the alleles that matter for evolution: all that’s gold does not glitter. Evolution 66(1):1–17
Romero A, Green SM, Romero A, Lelonek MM, Stropnicky KC (2003) One eye but no vision: cave fish with induced eyes do not respond to light. J Exp Zool B Mol Dev Evol 300:72–79
Rosenberg A (2000) Darwinism in philosophy, social science and policy. Cambridge University Press, Cambridge
Rosenberg A (2016) Darwinism as philosophy: can the universal acid be contained? In: Smith D (ed) How biology shapes philosophy: new foundations for naturalism. Cambridge University Press, Cambridge, pp 23–50. https://doi.org/10.1017/9781107295490.003
Rosenberg A, Bouchard F (2005) Matthen and Ariew's obituary for fitness: reports of its death have been greatly exaggerated. Biol Philos 20(2–3):343–353. https://doi.org/10.1007/s10539-005-2560-0
Rosenblueth A, Wiener N, Bigelow J (1943) Behavior, purpose and teleology. Philos Sci 10(1):18–24
Ross D (2002) “Dennett and the Darwin wars”. Ch. 10. In: Brook A, Ross D (eds) Daniel dennett. Cambridge University Press, Cambridge, pp 271–293
Ross D (2007) H. sapiens as ecologically special: what does language contribute? Lang Sci 29:710–731. https://doi.org/10.1016/j.langsci.2006.12.008
Rousselle M, Simion P, Tilak M-K, Figuet E, Nabholz B, Galtier N (2020) Is adaptation limited by mutation? A timescale-dependent effect of genetic diversity on the adaptive substitution rate in animals. PLoS Genet 16(4):e1008668. https://doi.org/10.1371/journal.pgen.1008668
Rudwick MJS (1961) The feeding mechanism of the Permian brachipod Prorichthofenia. Palaeontology 3:450–471
Rutherford SL, Lindquist S (1998) Hsp90 as a capacitor for morphological evolution. Nature 396:336–342
Ruxton GD, Humphries S (2008) Can ecological and evolutionary arguments solve the riddle of the missing marine insects? Marine Ecol 29:72–75. https://doi.org/10.1111/j.1439-0485.2007.00217.x
Sanjak JS, Sidorenko J, Robinson MR, Thornton KR, Visscher M (2018) Evidence of directional and stabilizing selection in contemporary humans. Proc Natl Acad Sci USA 115(1):151–156. https://doi.org/10.1073/pnas.1707227114
Santiago E, Albornoz J, Dominguez A, Toro MA, Lopez-Fanjul C (1992) The distribution of spontaneous mutations on quantitative traits and fitness in Drosophila melanogaster. Genetics 132:771–781
Saunders T (1994) Evolution without natural selection: further implications of the daisyworld parable. J Theor Biol 166:365–373
Schaaf K, Smith SR, Duverger A, Wagner F, Wolschendorf F, Westfall AO, Kutsch O, Sun J (2017) Mycobacterium tuberculosis exploits the PPM1A signaling pathway to block host macrophage apoptosis. Sci Rep 7:42101. https://doi.org/10.1038/srep42101
Schilthuizen M, Davison A (2005) The convoluted evolution of snail chirality. Naturwissenschaften 92:504–515. https://doi.org/10.1007/s00114-05-0045-2
Schluter D (2000) The ecology of adaptive radiation. Oxford University Press, Oxford
Schmaulhausen II (1949) Factors of evolution. (Trans. by I. Dordick; ed. by Th. Dobzhansky.) Blakiston, Philadelphia.
Schneemann H, De Sanctis B, Roze D, Bierne N, Welch JJ (2020) The geometry and genetics of hybridization. Evolution 74:2575–2590. https://doi.org/10.1111/evo.14116
Schwander T, Crespi BJ (2009) Twigs on the tree of life? Neutral and selective models for integrating macroevolutionary patterns with microevolutionary processes in the analysis of asexuality. Mol Ecol 18(1):28–42. https://doi.org/10.1111/j.1365-294X.2008.03992.x
Schwartz GT, Rasmussen DT, Smith RJ (1995) Body-size diversity and community structure of fossil hyracoids. J Mammal 76:1088–1099
Seplyarskiy VB, Kharchenko P, Kondrashov AS, Bazykin GA (2012) Heterogeneity of the transition/transversion ratio in Drosophila and hominidae genomes. Mol Biol Evol 29(8):1943–1955. https://doi.org/10.1093/molbev/mss071
Simon V, Elleboode R, Mahé K, Legendre L, Ornelas-Garcia P, Espinasa L, Rétaux S (2017) Comparing growth in surface and cave morphs of the species Astyanax mexicanus: insights from scales. EvoDevo 8:23. https://doi.org/10.1186/s13227-017-0086-6
Simpson GG (1947) The problem of plan and purpose in nature. Sci Mon 64(6):481–495
Simpson GG (1949) The meaning of evolution. Yale University Press, New Haven
Simpson GG (1953) The Baldwin effect. Evolution 7:110–117
Sol D, Bacher S, Reader SM, Lefebvre L (2008) Brain size predicts the success of mammal species introduced into novel environments. Am Nat 172:S63–S71
Sol D, Maspons J, Vall-llosera M, Bartomeus I, García-Peña E, Piñol J, Freckleton R (2012) Unravelling the life history of successful invaders. Science 337:580–583
Spalding DA (1873) Instinct with original observations on young animals. Macmillan’s Magazine 27:282–293
Spitze K (1993) Population structure in Daphnia obtusa: quantitative genetic and allozymic variation. Genetics 135(2):367–374. https://doi.org/10.1093/genetics/135.2.367
Stebbins GL (1985) A new approach to evolution? Review of: Ho, M.-W., Saunders: T. (Eds.) Beyond NeoDarwinism: a new approach to the evolutionary paradigm. Bioscience 35(8):514–516
Sterelny K (2020) Afterword: tough questions; hard problems; incremental progress. Top Cogn Sci 12:766–783. https://doi.org/10.1111/tops.12427
Stoltzfus A (2019) “Understanding bias in the introduction of variation as an evolutionary cause”. Ch. 3. In: Uller T, Laland K (eds) Evolutionary causation: biological and philosophical reflections. The MIT Press, Cambridge, MA, pp 29–62. https://doi.org/10.7551/mitpress/11693.003.0004
Stoltzfus A, Cable K (2014) Mendelian-Mutationism: the forgotten evolutionary synthesis. J Hist Biol 47:501–546
Strevens M (2008) Depth: an account of scientific explanation. Harvard University Press, Cambridge, MA
Stromberg CAE (2005) Decoupled taxonomic radiation and ecological expansion of open-habitat grasses in the Cenozoic of North America. Proc Natl Acad Sci USA 102:11980–11984
Thorpe WH (1945) The evolutionary significance of habitat selection. J Animal Ecol 14:67–70
Thorpe WH (1965) Science, man and morals. Scientific Book Club, London
Tilquin A, Kokko H (2016) What does the geography of parthenogenesis teach us about sex? Phil Trans R Soc B 371:20150538. https://doi.org/10.1098/rstb.2015.0538
Turner JRG (1967) Why does the genotype not congeal? Evolution 21(4):645–656
Turner JRG (1981) Adaptation and evolution in Heliconius: a defense of NeoDarwinism. Annu Rev Ecol Syst 12:99–121
Turner JRG (1985) Fisher’s evolutionary faith theorem. In: Dawkins R, Ridley M (eds) Oxford surveys in evolutionary biology, vol 2. Oxford University Press, Oxford, pp 159–196
Uller T, Moczek AP, Watson RA, Brakefield M, Laland KN (2018) Developmental bias and evolution: a regulatory network perspective. Genetics 209(4):949–966. https://doi.org/10.1534/genetics.118.300995
Valley J, Martin V (2011) Eye development in the box jellyfish Carybdea marsupialis. Dev Biol 356(1):160–161. https://doi.org/10.1016/j.ydbio.2011.05.594
Vecchi D, Baravalle L (2014) A soul of truth in things erroneous: Popper’s “amateurish” evolutionary philosophy in light of contemporary biology. Hist Philos Life Sci 36(4):525–545. https://doi.org/10.1007/s40656-014-0047-5
Veller C, Muralidhar P, Haig D (2020) On the logic of Fisherian sexual selection. Evolution 74(7):1234–1245. https://doi.org/10.1111/evo.13944
Vos M, Didelot X (2009) A comparison of homologous recombination rates in bacteria and archaea. ISME J 3:199–208. https://doi.org/10.1038/ismej.2008.93
Vrijenhoek RC, Parker ED Jr (2009) Geographical parthenogenesis: general purpose genotypes and frozen niche variation. In: Schön I, Martens K, Dijk P (eds) Lost Sex: the evolutionary biology of parthenogenesis. Springer, Dordrecht, pp 99–131
Waddington CH (1942) Canalization of development and the inheritance of acquired characters. Nature 150:563–565
Waddington CH (1953a) Genetic assimilation of an acquired character. Evolution 7:118–126
Waddington CH (1953b) The evolution of adaptations. Endeavour 12:134–139
Waddington CH (1957) The strategy of the genes. Allen and Unwin, London
Waddington CH (1959) Evolutionary systems - Animal and Human. Nature 183:1634–1638
Waddington CH (1960) Evolutionary adaptation. In: Tax S (ed) Evolution after Darwin. Vol I: the evolution of life. University of Chicago Press, Chicago, pp 381–402
Waddington CH (1969/2008) Paradigm for an evolutionary process. Biol Theory 3(3):258–266.
Wade MJ (1996) Adaptation in subdivided populations: kin selection and interdemic selection. In: Rose MR, Lauder G (eds) Adaptation. Sinauer, Sunderland, MA, pp 381–405
Wade MJ, Goodnight CJ (1998) The theories of Fisher and Wright in the context of metapopulations: when nature does many small experiments. Evolution 52:1537–1553
Wagner A (2014) Arrival of the fittest: solving evolution’s greatest puzzle. Oneworld, London
Walsh B, Lynch M (2018) Evolution and selection of quantitative traits. Oxford University Press, Oxford
Walther BA, Ewald W (2004) Pathogen survival in the external environment and the evolution of virulence. Biol Rev Camb Philos Soc 79:849–869
Wangsa-Wirawan ND, Linsenmeier RA (2003) Retinal oxygen: fundamental and clinical aspects. Arch Ophthalmol 121(4):547–557. https://doi.org/10.1001/archopht.121.4.547
Weatherhead J (1986) How unusual are unusual events? Am Nat 128:150–154
Weber KE (1996) Large genetic change at small fitness cost in large populations of Drosophila melanogaster selected for wind tunnel flight: rethinking fitness surfaces. Genetics 144(1):205–213
Weber KE (2004) Population size and long-term selection. Plant Breed Rev 24:249–268
Weber JN, Peterson BK, Hoekstra HE (2013) Discrete genetic modules are responsible for complex burrow evolution in Peromyscus mice. Nature 493(7432):402–405. https://doi.org/10.1038/nature11816
Weinreich DM, Chao L (2005) Rapid evolutionary escape by large populations from local fitness peaks is likely in nature. Evolution 59:1175–1182
Weismann A (1889) The significance of sexual reproduction in the theory of natural selection. In: Poulton EB, Schönland S, Shipley AE (eds) Essays upon heredity and kindred biological problems. Clarendon Press, Oxford, pp 251–332
Weismann A (1894) The effect of external influences on development. The Romanes Lecture, Henry Frowde, London
Weissman DB, Barton NH (2012) Limits to the rate of adaptive substitution in sexual populations. PLoS Genet 8(6):e1002740. https://doi.org/10.1371/journal.pgen.1002740
Welch JJ, Jiggins CD (2014) Standing and flowing: the complex origins of adaptive variation. Mol Ecol 23:3935–3937. https://doi.org/10.1111/mec.12859
Welch JJ, Waxman D (2003) Modularity and the cost of complexity. Evolution 57:1723–1734
West SA, Griffin AS, Gardner A (2007) Social semantics: altruism, cooperation, mutualism, strong reciprocity and group selection. J Evol Biol 20:415–432. https://doi.org/10.1111/j.1420-9101.2006.01258.x
West-Eberhard MJ (2003) Developmental plasticity and evolution. Oxford University Press, New York
Whibley AC, Langlade NB, Andalo C, Hanna AI, Bangham A, Thebaud C, Coen E (2006) Evolutionary paths underlying flower color variation in Antirrhinum. Science 313:963–966. https://doi.org/10.1126/science.1129161
Whitlock MC (1997) Founder effects and peak shifts without genetic drift: adaptive peak shifts occur easily when environments fluctuate slightly. Evolution 51:1044–1048
Wilkens H (2020) The role of selection in the evolution of blindness in cave fish. Biol J Linn Soc 130(3):421–432
Williams GC (1966) Adaptation and natural selection: a critique of some current evolutionary thought. University of California Press, Berkeley
Williams GC (1975) Sex and evolution. Princeton University Press, Princeton
Williams GC (1985) A defense of reductionism in evolutionary biology. In: Dawkins R, Ridley M (eds) Oxford surveys in evolutionary biology: Volume 2. Oxford University Press, Oxford, UK, pp 1–27
Williams GC (1992) Natural selection: domains, levels and challenges. Oxford University Press, Oxford
Wright S (1931) Evolution in Mendelian populations. Genetics 16:97–159
Wright S (1932) The roles of mutation, inbreeding, crossbreeding and selection in evolution. Proc. Sixth International Congress of Genetics 1:356–366
Wright S (1980) Genic and organismic selection. Evolution 34:825–843
Wright TF, Eberhard JR, Hobson EA, Avery ML, Russello MA (2010) Behavioral flexibility and species invasions: the adaptive flexibility hypothesis. Ethol Ecol Evol 22:393–404
Wund MA (2012) Assessing the impacts of phenotypic plasticity on evolution. Integr Comp Biol 52(1):5–15. https://doi.org/10.1093/icb/ics050
Wyles JS, Kunkel JG, Wilson AC (1983) Birds, behavior, and anatomical evolution. Proc Natl Acad Sci USA 80(14):4394–4397. https://doi.org/10.1073/pnas.80.14.4394
Wynne-Edwards VC (1962) Animal dispersal in relation to social behaviour. Oliver and Boyd, Edinburgh
Yamamoto Y, Byerly MS, Jackman WR, Jeffery WR (2009) Pleiotropic functions of embryonic sonic hedgehog expression link jaw and taste bud amplification with eye loss during cavefish evolution. Dev Biol 330:200–211
Yampolsky LY, Stoltzfus A (2001) Bias in the introduction of variation as an orienting factor in evolution. Evol Dev 3(2):73–83
Yang C, Cui Y, Didelot X, Yang R, Falush D (2019) Why panmictic bacteria are rare. BioRxiv 385336. https://doi.org/10.1101/385336
Young RW (1971) The renewal of rod and cone outer segments in the rhesus monkey. J Cell Biol. 49(2):303–318. https://doi.org/10.1083/jcb.49.2.303
Acknowledgments
I am very grateful to Tom and Ben Dickins for giving me the excuse and space to think about this topic. I am very grateful too for helpful comments on earlier drafts, including from Ben Dickins, Mitchell Distin, David Haig, Hilde Schneemann, Raphael Scholl, and Lucy Weinert. Special thanks are due to Tobias Uller, whose detailed comments tidied up some of the sloppiest thinking, and to Jean-Baptiste Grodwohl, who would be co-author were he not so fastidious. Finally, I am grateful in a deeper way to Alain Welch, to whose memory I dedicate this chapter.
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Welch, J.J. (2023). The Creativity of Natural Selection and the Creativity of Organisms: Their Roles in Traditional Evolutionary Theory and Some Proposed Extensions. In: Dickins, T.E., Dickins, B.J. (eds) Evolutionary Biology: Contemporary and Historical Reflections Upon Core Theory. Evolutionary Biology – New Perspectives on Its Development, vol 6. Springer, Cham. https://doi.org/10.1007/978-3-031-22028-9_5
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