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Evolution and tinkering

In Francisco José Ayala & John C. Avise (eds.), Essential readings in evolutionary biology. Baltimore: The Johns Hopkins University Press (2014)

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  1. Evolutionary tinkering vs. rational engineering in the times of synthetic biology.Víctor de Lorenzo - 2018 - Life Sciences, Society and Policy 14 (1):1-16.
    Synthetic biology is not only a contemporary reformulation of the recombinant DNA technologies of the last 30 years, combined with descriptive language imported from electrical and industrial engineering. It is also a new way to interpret living systems and a statement of intent for the use and reprogramming of biological objects for human benefit. In this context, the notion of designer biology is often presented as opposed to natural selection following the powerful rationale formulated by François Jacob on evolution-as-tinkering. The (...)
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  • Engineering and evolvability.Brett Calcott - 2014 - Biology and Philosophy 29 (3):293-313.
    Comparing engineering to evolution typically involves adaptationist thinking, where well-designed artifacts are likened to well-adapted organisms, and the process of evolution is likened to the process of design. A quite different comparison is made when biologists focus on evolvability instead of adaptationism. Here, the idea is that complex integrated systems, whether evolved or engineered, share universal principles that affect the way they change over time. This shift from adaptationism to evolvability is a significant move for, as I argue, we can (...)
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  • Engineering and Biology: Counsel for a Continued Relationship.Brett Calcott, Arnon Levy, Mark L. Siegal, Orkun S. Soyer & Andreas Wagner - 2015 - Biological Theory 10 (1):50-59.
    Biologists frequently draw on ideas and terminology from engineering. Evolutionary systems biology—with its circuits, switches, and signal processing—is no exception. In parallel with the frequent links drawn between biology and engineering, there is ongoing criticism against this cross-fertilization, using the argument that over-simplistic metaphors from engineering are likely to mislead us as engineering is fundamentally different from biology. In this article, we clarify and reconfigure the link between biology and engineering, presenting it in a more favorable light. We do so (...)
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  • The generality of Constructive Neutral Evolution.T. D. P. Brunet & W. Ford Doolittle - 2018 - Biology and Philosophy 33 (1-2):2.
    Constructive Neutral Evolution is an evolutionary mechanism that can explain much molecular inter-dependence and organismal complexity without assuming positive selection favoring such dependency or complexity, either directly or as a byproduct of adaptation. It differs from but complements other non-selective explanations for complexity, such as genetic drift and the Zero Force Evolutionary Law, by being ratchet-like in character. With CNE, purifying selection maintains dependencies or complexities that were neutrally evolved. Preliminary treatments use it to explain specific genetic and molecular structures (...)
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  • Ecologies of creativity: smartphones as a case in point.Emanuele Bardone & Ilya Shmorgun - 2013 - Mind and Society 12 (1):125-135.
    The smartphone can be considered a great example of how technology provides us with information at our fingertips anytime, anywhere. However, we have been operating mostly in the dark without a clear understanding of what our mobile devices have to offer and how people arrive at creative re-use as part of a problem-solving activity. This paper is an attempt to reach a better understanding of the conditions in which creative re-use of smartphones may take place. Our main goal is to (...)
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  • Uniting micro- with macroevolution into an Extended Synthesis: Reintegrating life’s natural history into evolution studies.Nathalie Gontier - 2015 - In Emanuele Serrelli & Nathalie Gontier (eds.), Macroevolution: Explanation, Interpretation and Evidence. Springer. pp. 227-278.
  • The Proper Role of Population Genetics in Modern Evolutionary Theory.Massimo Pigliucci - 2008 - Biological Theory 3 (4):316-324.
    Evolutionary biology is a field currently animated by much discussion concerning its conceptual foundations. On the one hand, we have supporters of a classical view of evolutionary theory, whose backbone is provided by population genetics and the so-called Modern Synthesis (MS). On the other hand, a number of researchers are calling for an Extended Synthe- sis (ES) that takes seriously both the limitations of the MS (such as its inability to incorporate developmental biology) and recent empirical and theoretical research on (...)
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  • Waddington’s Unfinished Critique of Neo-Darwinian Genetics: Then and Now.Adam S. Wilkins - 2008 - Biological Theory 3 (3):224-232.
    C.H. Waddington is today remembered chiefly as a Drosophila developmental geneticist who developed the concepts of “canalization” and “the epigenetic landscape.” In his lifetime, however, he was widely perceived primarily as a critic of Neo-Darwinian evolutionary theory. His criticisms of Neo-Darwinian evolutionary theory were focused on what he saw as unrealistic, “atomistic” models of both gene selection and trait evolution. In particular, he felt that the Neo-Darwinians badly neglected the phenomenon of extensive gene interactions and that the “randomness” of mutational (...)
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  • Strong Emergence in Biological Systems: Is It Open to Mathematical Reasoning?Lars H. Wegner, Min Yu, Biao Wu, Jiayou Liu & Zhifeng Hao - 2021 - Acta Biotheoretica 69 (4):841-856.
    Complex, multigenic biological traits are shaped by the emergent interaction of proteins being the main functional units at the molecular scale. Based on a phenomenological approach, algorithms for quantifying two different aspects of emergence were introduced (Wegner and Hao in Progr Biophys Mol Biol 161:54–61, 2021) describing: (i) pairwise reciprocal interactions of proteins mutually modifying their contribution to a complex trait (denoted as weak emergence), and (ii) formation of a new, complex trait by a set of n ‘constitutive’ proteins at (...)
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  • From functional mess to bounded functionality.Oscar Vilarroya - 2001 - Minds and Machines 11 (2):239-256.
    Some evolutionary psychologists contend that the best way to discover the functions of our present psychological systems is by appealing to the notion of functional mesh, that is, the assumed tight fit between a trait's design and the adaptive problem it is supposed to solve. In this paper, I argue that there exist theoretical considerations and empirical evidence that undermine this assumption of optimal design. Instead, I suggest that cognitive systems are constrained by what I call bounded functionality. This proposal (...)
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  • Metaphors in arts and science.Walter Veit & Ney Milan - 2021 - European Journal for Philosophy of Science 11 (2):1-24.
    Metaphors abound in both the arts and in science. Due to the traditional division between these enterprises as one concerned with aesthetic values and the other with epistemic values there has unfortunately been very little work on the relation between metaphors in the arts and sciences. In this paper, we aim to remedy this omission by defending a continuity thesis regarding the function of metaphor across both domains, that is, metaphors fulfill any of the same functions in science as they (...)
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  • Nanoethics in a Nanolab: Ethics via Participation. [REVIEW]Julio R. Tuma - 2013 - Science and Engineering Ethics 19 (3):983-1005.
    A participant–observer who is both informed and interested in ethical issues, and is embedded within a nanotechnology research and development facility may be able to influence the ethical awareness of researchers in nanotechnology, and tease out the societal implications of the work being conducted. Two inter-disciplinary methods were employed: (1) regular involvement in the technical and scientific research at the facility by the participant–observer, and (2) repeated interactions and discussions between the participant–observer and the scientists. As a result of this (...)
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  • Evolutionary psychology -- towards a more integrative model.Frederick Toates - 2005 - Biology and Philosophy 20 (2-3):305-328.
    Aspects of the history of behavioural science are reviewed, pointing to its fragmented and faction-ridden nature. The emergence of evolutionary psychology (EP) is viewed in this context. With the help of a dual-layered model of behavioural control, the case is made for a more integrative perspective towards EP. The model's application to both behaviour and complex human information processing is described. Similarities in their control are noted. It is suggested that one layer of control (‘on-line’) corresponds to the encapsulated modules (...)
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  • Syntax as an Emergent Characteristic of the Evolution of Semantic Complexity.P. Thomas Schoenemann - 1999 - Minds and Machines 9 (3):309-346.
    It is commonly argued that the rules of language, as distinct from its semantic features, are the characteristics which most clearly distinguish language from the communication systems of other species. A number of linguists (e.g., Chomsky 1972, 1980; Pinker 1994) have suggested that the universal features of grammar (UG) are unique human adaptations showing no evolutionary continuities with any other species. However, recent summaries of the substantive features of UG are quite remarkable in the very general nature of the features (...)
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  • Biological constraints as norms in evolution.Mathilde Tahar - 2022 - History and Philosophy of the Life Sciences 44 (1):1-21.
    Biology seems to present local and transitory regularities rather than immutable laws. To account for these historically constituted regularities and to distinguish them from mathematical invariants, Montévil and Mossio (Journal of Theoretical Biology 372:179–191, 2015) have proposed to speak of constraints. In this article we analyse the causal power of these constraints in the evolution of biodiversity, i.e., their positivity, but also the modality of their action on the directions taken by evolution. We argue that to fully account for the (...)
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  • The Two Facets of Pleasure.Laura Sizer - 2013 - Philosophical Topics 41 (1):215-236.
    Several tensions run through philosophical debates on the nature of pleasure: is it a feeling or an attitude? Is it excited engagement during activities, or satisfaction and contentment at their completion? Pleasure also plays fundamental explanatory roles in psychology, neuroscience, and animal behavior. I draw on this work to argue that pleasure picks out two distinct, but interacting neurobiological systems with long evolutionary histories. Understanding pleasure as having these two facets gives us a better account of pleasure and explains the (...)
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  • The Diversity of Engineering in Synthetic Biology.Massimiliano Simons - 2020 - NanoEthics 14 (1):71-91.
    A recurrent theme in the characterization of synthetic biology is the role of engineering. This theme is widespread in the accounts of scholars studying this field and the biologists working in it, in those of the biologists themselves, as well as in policy documents. The aim of this article is to open this black-box of engineering that is supposed to influence and change contemporary life sciences. Too often, both synthetic biologists and their critics assume a very narrow understanding of what (...)
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  • Modeling intentional agency: a neo-Gricean framework.Matti Sarkia - 2021 - Synthese 199 (3-4):7003-7030.
    This paper analyzes three contrasting strategies for modeling intentional agency in contemporary analytic philosophy of mind and action, and draws parallels between them and similar strategies of scientific model-construction. Gricean modeling involves identifying primitive building blocks of intentional agency, and building up from such building blocks to prototypically agential behaviors. Analogical modeling is based on picking out an exemplary type of intentional agency, which is used as a model for other agential types. Theoretical modeling involves reasoning about intentional agency in (...)
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  • Converging Concepts of Evolutionary Epistemology and Cognitive Biology Within a Framework of the Extended Evolutionary Synthesis.Isabella Sarto-Jackson - 2019 - Journal for General Philosophy of Science / Zeitschrift für Allgemeine Wissenschaftstheorie 52 (2):297-312.
    Evolutionary epistemology has experienced a continuous rise over the last decades. Important new theoretical considerations and novel empirical findings have been integrated into the existing framework. In this paper, I would like to suggest three lines of research that I believe will significantly contribute to further advance EE: ontogenetic considerations, key ideas from cognitive biology, and the framework of the Extended Evolutionary Synthesis. EE, in particular the program of the evolution of epistemological mechanisms, seeks to provide a phylogenetic account of (...)
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  • Connecting the Dots: Anatomical Network Analysis in Morphological EvoDevo.Diego Rasskin-Gutman & Borja Esteve-Altava - 2014 - Biological Theory 9 (2):178-193.
    Morphological EvoDevo is a field of biological inquiry in which explicit relations between evolutionary patterns and growth or morphogenetic processes are made. Historically, morphological EvoDevo results from the coming together of several traditions, notably Naturphilosophie, embryology, the study of heterochrony, and developmental constraints. A special feature binding different approaches to morphological EvoDevo is the use of formalisms and mathematical models. Here we will introduce anatomical network analysis, a new approach centered on connectivity patterns formed by anatomical parts, with its own (...)
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  • A Philosophical Perspective on Evolutionary Systems Biology.Maureen A. O’Malley, Orkun S. Soyer & Mark L. Siegal - 2015 - Biological Theory 10 (1):6-17.
    Evolutionary systems biology is an emerging hybrid approach that integrates methods, models, and data from evolutionary and systems biology. Drawing on themes that arose at a cross-disciplinary meeting on ESB in 2013, we discuss in detail some of the explanatory friction that arises in the interaction between evolutionary and systems biology. These tensions appear because of different modeling approaches, diverse explanatory aims and strategies, and divergent views about the scope of the evolutionary synthesis. We locate these discussions in the context (...)
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  • Synthetic Biology: A Bridge Between Functional and Evolutionary Biology.Michel Morange - 2009 - Biological Theory 4 (4):368-377.
    The interests of synthetic biologists may appear to differ greatly from those of evolutionary biologists. The engineering of organisms must be distinguished from the tinkering action of evolution; the ambition of synthetic biologists is to overcome the limits of natural evolution. But the relations between synthetic biology and evolutionary biology are more complex than this abrupt opposition: Synthetic biology may play an important role in the increasing interactions between functional and evolutionary biology. In practice, synthetic biologists have learnt to submit (...)
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  • Disambiguated Indexical Pointing as a Tipping Point for the Explosive Emergence of Language Among Human Ancestors.Donald M. Morrison - 2020 - Biological Theory 15 (4):196-211.
    Drawing on convergent work in a broad range of disciplines, this article uses the tipping point paradigm to frame a new account of how early human ancestors may have first broken free from, as Bickerton calls it, the “prison of animal communication.” Under building pressure for an enhanced signaling system capable of supporting joint attentional-intentional activities, a cultural tradition of disambiguated indexical pointing, combined with increasingly sophisticated mindreading circuitry and prosocial tendencies, may have sparked the first in the series of (...)
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  • Comparison between the work of synthetic biologists and the action of evolution: engineering versus tinkering.Michel Morange - 2013 - Biological Theory 8 (4):318-323.
    The comparison between natural evolution and the action of a tinkerer has become highly popular since its reintroduction by François Jacob at the end of the 1970s. It has been used as a weapon against the existence of an “intelligent design” as well as a way for synthetic biologists to promote their ambitious projects. I will describe the complex history of this metaphor, and examine its pertinence. Whereas Darwin considered it as a way to describe how evolution proceeded, Jacob linked (...)
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  • Gouldian arguments and the sources of contingency.Alison K. McConwell & Adrian Currie - 2017 - Biology and Philosophy 32 (2):243-261.
    ‘Gouldian arguments’ appeal to the contingency of a scientific domain to establish that domain’s autonomy from some body of theory. For instance, pointing to evolutionary contingency, Stephen Jay Gould suggested that natural selection alone is insufficient to explain life on the macroevolutionary scale. In analysing contingency, philosophers have provided source-independent accounts, understanding how events and processes structure history without attending to the nature of those events and processes. But Gouldian Arguments require source-dependent notions of contingency. An account of contingency is (...)
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  • Postmodern chimeras.Roberto Marchesini - 2016 - Angelaki 21 (1):95-109.
    The figure of the chimera animates both mythology and the biotechnological imagination. The mythological construction of animals from the sections or attributes of different species parallels the surgical and genetic manipulations of animals in modern transformations. Chimerization also represents a hybridization that relationally links different species. Both the mythological imagination and biotechnical practice bear heavily on the definition and identity of the human animal. In mythology the chimera links the animal, the human, and the divine. In biotechnology like xenotransplantation and (...)
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  • No Pain, No Gain (in Darwinian Fitness): A Representational Account of Affective Experience.Benjamin Kozuch - 2020 - Erkenntnis 85 (3):693-714.
    Reductive representationalist theories of consciousness are yet to produce a satisfying account of pain’s affective component, the part that makes it painful. The paramount problem here is that that there seems to be no suitable candidate for what affective experience represents. This article suggests that affective experience represents the Darwinian fitness effects of events. I argue that, because of affective experience’s close association with motivation, natural selection will work to bring affect into covariance with the average fitness effects of types (...)
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  • Social and Scientific Method or What Do We Make of the Distinction Between the Natural and the Social Sciences?Karin D. Knorr-Cetina - 1981 - Philosophy of the Social Sciences 11 (3):335-359.
  • DYI-Bio - economic, epistemological and ethical implications and ambivalences.Jozef Keulartz & Henk van den Belt - 2016 - Life Sciences, Society and Policy 12 (1):1-19.
    Since 2008, we witness the emergence of the Do-It-Yourself Biology movement, a global movement spreading the use of biotechnology beyond traditional academic and industrial institutions and into the lay public. Practitioners include a broad mix of amateurs, enthusiasts, students, and trained scientists. At this moment, the movement counts nearly 50 local groups, mostly in America and Europe, but also increasingly in Asia. Do-It-Yourself Bio represents a direct translation of hacking culture and practicesfrom the realm of computers and software into the (...)
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  • Exploring biological possibility through synthetic biology.Tero Ijäs & Rami Koskinen - 2021 - European Journal for Philosophy of Science 11 (2):1-17.
    This paper analyzes the notion of possibility in biology and demonstrates how synthetic biology can provide understanding on the modal dimension of biological systems. Among modal concepts, biological possibility has received surprisingly little explicit treatment in the philosophy of science. The aim of this paper is to argue for the importance of the notion of biological possibility by showing how it provides both a philosophically and biologically fruitful category as well as introducing a new practically grounded way for its assessment. (...)
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  • Philosophy and tinkering.James Griesemer - 2011 - Biology and Philosophy 26 (2):269-279.
    I characterize Wimsatt’s approach to philosophy of science as philosophy for science and then briefly consider a theme emerging from his work that informs just one of the many current developments in philosophy of biology that he inspired: scaffolding as a problem of mechanistic explanation for functionalists.
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  • Collectivity in Context: Modularity, Cell Sociology, and the Neural Crest.Gillian Gass & Brian K. Hall - 2007 - Biological Theory 2 (4):349-359.
    Modularity has become a central and remarkably useful concept in evolutionary developmental biology, offering an explanation of how independent, interacting units make possible developmental events and evolutionary changes. These modules exist at several different levels of organization, from genes to signal transduction pathways to cell populations. Cell populations, which are multicellular modules, provide an opportunity both to clarify our notion of modularity and to reexamine such central concepts as cell-to-cell communication. Rosine Chandebois’s work on “cell sociology” is reframed in the (...)
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  • The evolution of language: A comparative review. [REVIEW]W. Tecumseh Fitch - 2005 - Biology and Philosophy 20 (2-3):193-203.
    For many years the evolution of language has been seen as a disreputable topic, mired in fanciful “just so stories” about language origins. However, in the last decade a new synthesis of modern linguistics, cognitive neuroscience and neo-Darwinian evolutionary theory has begun to make important contributions to our understanding of the biology and evolution of language. I review some of this recent progress, focusing on the value of the comparative method, which uses data from animal species to draw inferences about (...)
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