Biologists in the last 50 years have increasingly emphasized the role of historical contingency in explaining the distribution and dynamics of biological systems. However, recent work in philosophy of biology has shown that historical contingency carries various interpretations and that we are still lacking a general understanding of historicity, i.e., a framework from which to interpret why and to what extent history matters in biological processes. Building from examples and analyses of the long-term experimental evolution (LTEE) project, this (...) paper argues that historicity possess three essential conditions: (1) multiple possible pasts, (2) multiple possible outcomes at a given instant, and (3) a relationship of causal dependence between these two sets. These criteria can be further specified in two general forms of historicity: dependence on initial conditions and path dependence. More attention is devoted to developing a rigorous account of the latter, which captures the type of historicity displayed by stochastic processes. This paper also highlights that it is often more productive to adopt an instant-relative approach and think in terms of degree of historicity instead of trying to maintain a rigid and absolute dichotomy between historical and ahistorical (completely convergent) processes. (shrink)

Discussions of reproducibility are casting doubts on the credibility of experimental outcomes in the life sciences. Although experimental evolution is not typically included in these discussions, this field is also subject to low reproducibility, partly because of the inherent contingencies affecting the evolutionary process. A received view in experimental studies more generally is that standardization (i.e., rigorous homogenization of experimental conditions) is a solution to some issues of significance and internal validity. However, this solution hides (...) several difficulties, including a reduction of external validity and reproducibility. After explaining the meaning of these two notions in the context of experimental evolution, we import from the fields of animal research and ecology and suggests that systematic heterogenization of experimental factors could prove a promising alternative. We also incorporate into our analysis some philosophical reflections on the nature and diversity of research objectives in experimental evolution. (shrink)

William Lawrence Tower’s work on the evolution of the Colorado Potato Beetle (_Leptinotarsa decemlineata_), documenting the environmental induction of mutation and speciation, made him a leading figure in experimental genetics during the first decade of the 20th century. His research program served as a model for other experimental evolution studies seeking to demonstrate the environmental modification of inheritance. Tower enjoyed the support of influential figures in the field, despite well-known problems that plagued Tower’s earlier academic career. (...) The validity of his genetic work, and other findings reported by Tower, were later challenged. The Tower affair illustrates how questionable and possibly fraudulent scientific practices can be tolerated to explore certain experimental directions and theoretical frameworks, particularly at the frontier of expanding disciplines. When needed, those explorations can be forestalled or extinguished by exploiting conspicuous vulnerabilities of rogue practitioners. In Tower’s case, both unrefuted allegations of scientific misconduct and personal problems dissolved his institutional support, leading to a swift ouster from academic science. Tower’s downfall discredited soft inheritance and neo-Lamarckian conceptions in the field of experimental genetics, facilitating the discipline’s embrace of a hard inheritance model that featured a hereditary material resistant to environmental modification. (shrink)

Few topics have intrigued biologists as much as the evolution of sex. Understanding why sex persists despite its costs requires not just rigorous theoretical study, but also empirical data on related fundamental issues, including the nature of genetic variance for fitness, patterns of genetic interactions, and the dynamics of adaptation. The increasing feasibility of examining genomes in an experimental context is now shedding new light on these problems. Using this approach, McDonald et al. recently demonstrated that sex uncouples (...) beneficial and deleterious mutations, allowing selection to proceed more effectively with sex than without. Here we discuss the insights provided by this study, along with other recent empirical work, in the context of the major theoretical models for the evolution of sex. (shrink)

Since the 1940s, microbiologists, biochemists and population geneticists have experimented with the genetic mechanisms of microorganisms in order to investigate evolutionary processes. These evolutionary studies of bacteria and other microorganisms gained some recognition from the standard-bearers of the modern synthesis of evolutionary biology, especially Theodosius Dobzhansky and Ledyard Stebbins. A further period of post-synthesis bacterial evolutionary research occurred between the 1950s and 1980s. These experimental analyses focused on the evolution of population and genetic structure, the adaptive gain of (...) new functions, and the evolutionary consequences of competition dynamics. This large body of research aimed to make evolutionary theory testable and predictive, by giving it mechanistic underpinnings. Although evolutionary microbiologists promoted bacterial experiments as methodologically advantageous and a source of general insight into evolution, they also acknowledged the biological differences of bacteria. My historical overview concludes with reflections on what bacterial evolutionary research achieved in this period, and its implications for the still-developing modern synthesis. (shrink)

This study explores the history of nanotechnology from the perspective of protein engineering, which differs from the history of nanotechnology that has arisen from mechanical and materials engineering; it also demonstrates points of convergence between the two. Focusing on directed evolution—an experimental system of molecular biomimetics that mimics nature as an inspiration for material design—this study follows the emergence of an evolutionary experimental system from the 1960s to the present, by detailing the material culture, practices, and techniques (...) involved. Directed evolution, as an aspect of nanobiotechnology, is also distinct from the dominant biotechnologies of the 20th century. The experimental systems of directed evolution produce new ways of thinking about molecular diversity that could affect concepts concerning both biology and life. (shrink)

Experimental modeling in biology involves the use of living organisms (not necessarily so-called "model organisms") in order to model or simulate biological processes. I argue here that experimental modeling is a bona fide form of scientific modeling that plays an epistemic role that is distinct from that of ordinary biological experiments. What distinguishes them from ordinary experiments is that they use what I call "in vivo representations" where one kind of causal process is used to stand in for (...) a physically different kind of process. I discuss the advantages of this approach in the context of evolutionary biology. (shrink)

The theory of evolution has beenused in arguments regarding animalexperimentation. Two such arguments areanalyzed, one against and one in favor. Eachargument stresses the relevance of the theoryof evolution to normative ethics but attemptsexplicitly to avoid the so-called naturalisticfallacy.According to the argument against animalexperimentation, the theory of evolution`undermines' the idea of a special humandignity and supports `moral individualism'. Thelatter view implies that if it is wrong to usehumans in experiments, then it is also wrong touse animals, unless there (...) are relevantdifferences between them that justify adifference in treatment. No such differencescan be found with regard to animals which lead`biographical lives'.The argument in favor of animal experimentationis based on evolutionary psychology. It statesthat humans, as all social animals, arespeciesist by nature and stresses that thisshould be taken seriously in normative ethics.This does not mean that animal interests shouldnot be considered, only that vital humaninterests may outweigh them.In order to assess the arguments, one has totake a stand on certain more basic issues: `is'versus `ought', impartiality versus specialobligations, and feelings/intuitions versusreason. Given the author's own position withregard to these more basic considerations, theevolutionary argument in favor of animalexperimentation is judged to be more convincingthan the one against but not decisive. It isalso maintained that not all animal experimentsare acceptable. Which animal experiments areacceptable and which are not has to be decidedon a case-by-case basis. (shrink)

Si la vie est une évolution, alors elle doit expliquer jusqu'à la connaissance, l'intelligence, la science et la technique de l'homme, l'homo faber ; si il y a en elle de la création, alors ce n'est pas un postulat extérieur, mais dans son histoire et dans notre vie même qu'on doit l'expérimenter. dans L'évolution créatrice, Bergson pousse ainsi la théorie de l'évolution et l'expérience de la " durée " jusqu'au bout, sans admettre ni une création transcendante ni une vie sans (...) émergence ou nouveauté. Les conséquences traversent toute la science, la théorie de la connaissance, et la philosophie, de 1907 à aujourd'hui. La première édition critique des œuvres de Bergson, dans laquelle s'inscrit le présent volume, répond à un double principe : offrir d'abord le texte intégral du livre tel que l'a publié Bergson, dans sa pagination de référence inchangée ; le compléter ensuite par un dossier comportant des notes historiques et philosophiques ainsi que les variantes éventuelles du texte, une table analytique de l'ouvrage, une série originale d'index, une anthologie des " lectures " majeures et une bibliographie commentée. (shrink)

To some, a misguided Lamarckian and a fraud, to others a martyr in the fight against Darwinism, the Viennese zoologist Paul Kammerer (1880-1926) remains one of the most controversial scientists of the early 20th century. Here his work is reconsidered in light of turn-of-the-century problems in evolutionary theory and experimental methodology, as seen from Kammerer's perspective in Vienna. Kammerer emerges not as an opponent of Darwinism, but as one would-be modernizer of the 19th-century theory, which had included a role (...) for the inheritance of acquired characteristics. Kammerer attempted a synthesis of Darwinism with genetics and the chromosome theory, while retaining the modifying effects of the environment as the main source of favorable variation, and he developed his program of experimentation to support it. Kammerer never had a regular university position, but worked at a private experimental laboratory, with sidelines as a teacher and a popular writer and lecturer. On the lecture circuit he held forth on the significance of his science for understanding and furthering cultural evolution and he satisfied his passion for the arts and performance. In his dual career as researcher and popularizer, he did not always follow academic convention. In the contentious and rapidly changing fields of heredity and evolution, some of his stances and practices, as well as his outsider status and part-Jewish background, aroused suspicion and set the stage for the scandal that ended his career and prompted his suicide. (shrink)

A philosophically comprehended account is given of the genesis and evolution of the concept of protein. Characteristic of this development were not shifts in theory in response to new experimental data, but shifts in the range of questions that the available experimental resources were fit to cope with effectively. Apart from explanatory success with regard to its own range of questions, various other selecting factors acted on a conceptual variant, some stemming from a competing set of research (...) questions, others from an altogether different field of inquiry, and still others from the external environment. These results are best explained on, hence support, an evolutionary model of the progress of experimental investigation, whose outlines are briefly discussed. (shrink)

The paper tries to show that an evolutionary perspective helps us to address what is called the adaptation problem, that is, the remarkable coherence, and seemingly successful design, existing between our cognitive tools and the phenomena of the material world. It argues that a fine-grained description of the structure and function of experimental techniques—as a special type amongst evolving scientific practices—is a condition for a better understanding and, ultimately, an explanation of how adaptation among the heterogeneous elements of (...) class='Hi'>experimental knowledge is attained. Some apparently contradictory features of techniques, such as their high context-dependency and their capabilities to reproduce and diversify outside their original contexts, are addressed with the help of the concepts of technical variation and the historical entrenchment of phenomena in techniques. In order to do so, a case-study on the construction of satellite-DNA and the evolution of nucleic acid hybridization, a research project carried out by Roy J. Britten and his colleagues in the 1960s, is presented in detail. This case illustrates the close relationship existing between the evolution of techniques and the stabilization of phenomena in experimental biology. (shrink)

Evolutionary economics often focuses on the comparison between economic competition and the process of natural selection to select the fitter members of a given population. But that neglects the other "half" of an evolutionary process, the mechanism for the generation of new possibilities that is key to dynamic efficiency. My topic is the process of parallel experimentation which I take to be a process of multiple experiments running concurrently with some form of common goal, with some semi-isolation between the experiments, (...) with benchmarking comparisons made between the experiments, and with the "migration" of discoveries between experiments wherever possible to ratchet up the performance of the group. The thesis is that parallel experimentation is a fundamental dynamic efficiency scheme to enhance and accelerate variation, innovation, and learning in contexts of genuine uncertainty or known ignorance. Within evolutionary biology, this type of parallel experimentation scheme was developed in Sewall Wright's shifting balance theory of evolution. It addressed the rather neglected topic of how a population on a low fitness peak might eventually be able to go "downhill" against selective pressures, traverse a valley of low fitness, and then ascend a higher fitness peak. The theme of parallel experimentation is used to recast and pull together dynamic and pluralistic theories in economics, political theory, philosophy of science, and social learning. (shrink)

For decades Darwinian processes were framed in the form of the Lewontin conditions: reproduction, variation and differential reproductive success were taken to be sufficient and necessary. Since Buss and the work of Maynard Smith and Szathmary biologists were eager to explain the major transitions from individuals to groups forming new individuals subject to Darwinian mechanisms themselves. Explanations that seek to explain the emergence of a new level of selection, however, cannot employ properties that would already have to exist on that (...) level for selection to take place. Recently, Hammerschmidt et al. provided a ‘bottom-up’ experiment corroborating much of the theoretical work Paul Rainey has done since 2003 on how cheats can play an important role in the emergence of new Darwinian individuals on a multicellular level. The aims of this paper are twofold. First, I argue for a conceptual shift in perspective from seeing cheats as a ‘problem’ that needs to be solved for multi-cellularity to evolve to the very ‘key’ for the evolution of multicellularity. Secondly, I illustrate the consequences of this shift for both theoretical and experimental work, arguing for a more prominent role of ecology and the multi-level selection framework within the debate then they currently occupy. (shrink)

Culture drives cognitive evolution by supporting the transmission and intergenerational accumulation of skills and knowledge, based on social learning and teaching: Later generations benefit from what their predecessors acquired. Taking a metaperspective on those experimental studies that explore the mechanisms underlying cultural transmission, Caldwell discusses their potential for generating valuable insights, their possible limitations, and their generalizability to other species.

The amount of information conveyed by linguistic conventions depends on their precision, yet the codes that humans and other animals use to communicate are quite ambiguous: they may map several vague meanings to the same symbol. How does semantic precision evolve, and what are the constraints that limit it? We address this question using a multiplayer gaming app, where individuals communicate with one another in a scaled-up referential game. Here, the goal is for a sender to use black and white (...) symbols to communicate colors. We expected that the players’ mappings between symbols and colors would grow more specific over time, through a selection process whereby precise mappings are preferentially copied. We found that players become increasingly more precise in their use of symbols over the course of their interactions. This trend did not, however, result from selective copying of precise mappings. We explore the implications of this result for the study of lexical ambiguity, Zipf's Law of Meaning, and disagreements over semantic conventions. (shrink)

Cognitive Science, Volume 46, Issue 2, February 2022.

This paper focuses on the consolidation of Molecular Evolution, a field originating in the 1960s at the interface of molecular biology, biochemistry, evolutionary biology, biophysics and studies on the origin of life and exobiology. The claim is made that Molecular Evolution became a discipline by integrating different sorts of scientific traditions: experimental, theoretical and comparative. The author critically incorporates Timothy Lenoir’s treatment of disciplines , as well as ideas developed by Stephen Toulmin on the same subject. On (...) their account disciplines are spaces where the social and epistemic dimensions of science are deeply and complexly interwoven. However, a more detailed account of discipline formation and the dynamics of an emerging disciplinary field is lacking in their analysis. The present essay suggests focusing on the role of scientific concepts in the double configuration of disciplines: the social/political and the epistemic order. In the case of Molecular Evolution the concepts of molecular clock and informational molecules played a central role, both in differentiating molecular from classical evolutionists, and in promoting communication between the different sorts of traditions integrated in Molecular Evolution. The paper finishes with a reflection on the historicity of disciplines, and the historicity of our concepts of disciplines. (shrink)

Cultural evolution studies are characterized by the notion that culture evolves accordingly to broadly Darwinian principles. Yet how far the analogy between cultural and genetic evolution should be pushed is open to debate. Here, we examine a recent disagreement that concerns the extent to which cultural transmission should be considered a preservative mechanism allowing selection among different variants, or a transformative process in which individuals recreate variants each time they are transmitted. The latter is associated with the notion (...) of “cultural attraction”. This issue has generated much misunderstanding and confusion. We first clarify the respective positions, noting that there is in fact no substantive incompatibility between cultural attraction and standard cultural evolution approaches, beyond a difference in focus. Whether cultural transmission should be considered a preservative or reconstructive process is ultimately an empirical question, and we examine how both preservative and reconstructive cultural transmission has been studied in recent experimental research in cultural evolution. Finally, we discuss how the relative importance of preservative and reconstructive processes may depend on the granularity of analysis and the domain being studied. (shrink)

The emergence of individuality during the evolutionary transition from single cells to multicellularity poses a range of problems. A key issue is how variation in lower‐level individuals generates a corporate (collective) entity with Darwinian characteristics. Of central importance to this process is the evolution of a means of collective reproduction, however, the evolution of a means of collective reproduction is not a trivial issue, requiring careful consideration of mechanistic details. Calling upon observations from experiments, we draw attention to (...) proto‐life cycles that emerge via unconventional routes and that transition, in single steps, individuality to higher levels. One such life cycle arises from conflicts among levels of selection and invokes cheats as a primitive germ line: it lays the foundation for collective reproduction, the basis of a self‐policing system, the selective environment for the emergence of development, and hints at a plausible origin for a soma/germ line distinction. (shrink)

Are non-human animals conscious? When do babies begin to feel pain? What function is served by consciousness? What evidence could resolve these issues? In The Evolution of Consciousness, psychologist Euan Macphail tackles these questions and more by exploring such topics as: animal cognition; unconscious learning and perception in humans; infantile amnesia; theory of mind in primates; and the nature of pleasure and pain. Experimental results are placed in theoretical context by tracing the development of concepts of consciousness in (...) animals and humans. Written in an accessible style, this book will be of interest to students and professionals in psychology, philosophy, and linguistics, as well as all those interested in the nature of consciousness. (shrink)

Making Sense of Evolution explores contemporary evolutionary biology, focusing on the elements of theories—selection, adaptation, and species—that are complex and open to multiple possible interpretations, many of which are incompatible with one another and with other accepted practices in the discipline. Particular experimental methods, for example, may demand one understanding of “selection,” while the application of the same concept to another area of evolutionary biology could necessitate a very different definition.

The universe, of which our domicile the planet Earth forms but a minuscule part, has an architecture that changes and has been changing in time. In other words, it has a history of evolution. Lack of experimental evidence denies us the knowledge of what the universe was like “at the time of its origin,” as discussed by Hubert Reeves in the preceding chapter. Neither do we know much about its geometry, simply because our observatories are concentrated, for all (...) practical purposes, vanishingly close to a single point in an immensity whose size can only be measured by the billions of years required by light to go from one extremity to another! (shrink)

Jürgen Renn examines the role of knowledge in global transformations going back to the dawn of civilization while providing vital perspectives on the complex challenges confronting us today in the Anthropocene--this new geological epoch shaped by humankind. Renn reframes the history of science and technology within a much broader history of knowledge, analyzing key episodes such as the evolution of writing, the emergence of science in the ancient world, the Scientific Revolution of early modernity, the globalization of knowledge, industrialization, (...) and the profound transformations wrought by modern science. He investigates the evolution of knowledge using an array of disciplines and methods, from cognitive science and experimental psychology to earth science and evolutionary biology. The result is an entirely new framework for understanding structural changes in systems of knowledge--and a bold new approach to the history and philosophy of science. (shrink)

How did social communication evolve in primates? In this volume, primatologists, linguists, anthropologists, cognitive scientists and philosophers of science systematically analyze how their specific disciplines demarcate the research questions and methodologies involved in the study of the evolutionary origins of social communication in primates in general, and in humans in particular. In the first part of the book, historians and philosophers of science address how the epistemological frameworks associated with primate communication and language evolution studies have changed over time, (...) and how these conceptual changes affect our current studies on the subject matter. In the second part, scholars provide cutting-edge insights into the various means through which primates communicate socially in both natural and experimental settings. They examine the behavioral building blocks by which primates communicate, and they analyze what the cognitive requirements are for displaying communicative acts. Chapters highlight cross-fostering and language experiments with primates, primate mother-infant communication, the display of emotions and expressions, manual gestures and vocal signals, joint attention, intentionality and theory of mind. The primary focus of the third part is on how these various types of communicative behavior possibly evolved, and how they can be understood as evolutionary precursors to human language. Leading scholars analyze how both manual and vocal gestures gave way to mimetic and imitational protolanguage, and how the latter possibly transitioned into human language. In the final part, we turn to the hominin lineage, and anthropologists, archeologists and linguists investigate what the necessary neurocognitive, anatomical and behavioral features are in order for human language to evolve, and how language differs from other forms of primate communication. (shrink)

Evolution has shaped all living organisms on Earth, although many details of this process are shrouded in time. However, it is possible to see, with one's own eyes, evolution as it happens by performing experiments in defined laboratory conditions with microbes that have suitably fast generations. The longest‐running microbial evolution experiment was started in 1988, at which time twelve populations were founded by the same strain ofEscherichia coli. Since then, the populations have been serially propagated and have (...) evolved for tens of thousands of generations in the same environment. The populations show numerous parallel phenotypic changes, and such parallelism is a hallmark of adaptive evolution. Many genetic targets of natural selection have been identified, revealing a high level of genetic parallelism as well. Beneficial mutations affect all levels of gene regulation in the cells including individual genes and operons all the way to global regulatory networks. Of particular interest, two highly interconnected networks—governing DNA superhelicity and the stringent response—have been demonstrated to be deeply involved in the phenotypic and genetic adaptation of these experimental populations. BioEssays 29:846–860, 2007. © 2007 Wiley Periodicals, Inc. (shrink)

Empirical research has discovered that experimental subjects in ultimatum bargaining situations generally fail to play the decision-theoretic optimum strategy, and instead play something between that strategy and a fair split. In evolutionary dynamics, fair division and nearly fair division strategies often go to fixation and weakly dominated strategies can do quite well. Computer simulations were done using three different ultimatum bargaining games as determinates of fitness. (1) No tendency toward the elimination of weakly dominated strategies was observed, with or (...) without mutation. (2) Strategies making fair demands had sizable basins of attraction. (3) In a system where five different demands can be made, demands closest to (approximately) 91% had the largest basins of attraction. (4) If the strategies have thresholds for acceptable demands, rather than individuated responses to each demand, the apparent optimum demand may be quite low: 64% for one set of trials. (shrink)

Experimental Semiotics (ES) is the study of novel forms of communication that communicators develop in laboratory tasks whose designs prevent them from using language. Thus, ES relates to pragmatics in a “pure,” radical sense, capturing the process of creating the relation between signs and their interpreters as biological, psychological, and social agents. Since such a creation of meaning-making from scratch is of central importance to language evolution research, ES has become the most prolific experimental approach in this (...) field of research. In our paper, we report the results of a study on the scope of recent ES and evaluate the ways in which it is relevant to the study of language origins. We coded for multiple levels across 13 dimensions related to the properties of the emergent communication systems or properties of the study designs, such as type of goal (coordination versus referential), modality of communication, absence or presence of turn-taking, or the presence of vertical vs. horizontal transmission. We discuss our findings and our classification, focusing on the advantages and limitations of those trends in ES, and in particular their ecological validity in the context of bootstrapping communication and the evolution of language. (shrink)

Ancient Greek philosophers claimed that the adequate understanding of a particular subject can be achieved only when its nature, or essence, is properly defined. This view furnished the core teachings of late medieval natural philosophers, and was often reaffirmed by early modern philosophers such as Bacon and Descartes. Yet during the second half of the seventeenth century, a radical transformation was to take place that led a to the emergence of a recognisably modern cultures of empirical research.Experimental Philosophy and (...) the Birth of Empirical Science focuses on the works of Robert Boyle, John Locke, and Isaac Newton, the most notable exponents of the experimental philosophy in the late seventeenth century, and explores this transformation to a modern viewpoint that seeks to understand phenomena by seeking explanatory correlations between the empirical properties of the universe.Experimental Philosophy and the Birth of Empirical Science offers a novel solution to one of the major problems in the history of early modern science and philosophy, while addressing received views concerning these problems. It provides a new perspective on the Scientific Revolution and the rise of modern science and offers new tools for science studies in general, by showing how the problem of human understanding and the problem of explanation are central to the evolution of science, and how we can combine historical and sociological approaches to study modern science from this perspective. (shrink)

We investigate the evolution of memory usage in environments where information about past experience is required for optimal decision making. For this study, we use digital organisms, which are self-replicating computer programs that are subject to mutations and natural selection. We place the digital organisms in a range of experimental environments: simple ones where environmental cues indicate that a specific action should be taken (e.g., turn left to find food) as well as slightly more complex ones where cues (...) refer to prior experience (e.g., repeat the action indicated by the previous cue). We demonstrate that flexible behaviors evolve in each of these environments, often leading to clever survival strategies. Additionally, memory usage evolves only when it provides a significant advantage and organisms will often employ surprisingly successful strategies that do not use memory. However, the most powerful strategies we found all made effective use of memory. (shrink)

Spiritualism designates a philosophy that lays claim to the separation of mind and body and the ontological and epistemological primacy of the former. In France, it is associated with the names of Victor Cousin and René Descartes, or more precisely with what Cousin made of Descartes as the founding father of a brittle rational psychology, closed off from the positive sciences, and as a critic in respect to the empiricist legacy of the idéologues. Moreover, by considering merely the end result, (...) severed from its polemical genesis, we are prevented from understanding how the category of experience constituted a crucial question for spiritualism itself. Through returning to the origin of these discussions in the 1826 preface to Cousin’s Fragments philosophiques, this essay pursues a threefold path: to show that the public birth of Cousinian spiritualism coincides with the affirmation of applying the experimental method, issuing from Bacon, to the study of facts of consciousness; that Cousin’s later evolution follows a process of radicalization—that is, in this context, of ontologization and of reduction; and that by recovering this genesis, we can distinguish many forms of spiritualisms committed to the experimental method, both in alliance with the early Cousin and against the later Cousin. In this way, we can rediscover the interwoven philosophical links, lost in the process of institutionalization, between metaphysical demands and empiricist concerns, or between “French” philosophy and the legacy of Condillac. (shrink)

The scientific study of consciousness or subjective experiencing is a rapidly expanding research program engaging philosophers of mind, psychologists, cognitive scientists, neurobiologists, evolutionary biologists and biosemioticians. Here we outline an evolutionary approach that we have developed over the last two decades, focusing on the evolutionary transition from non-conscious to minimally conscious, subjectively experiencing organisms. We propose that the evolution of subjective experiencing was driven by the evolution of learning and we identify an open-ended, representational, generative and recursive form (...) of associative learning, which we call Unlimited Associative Learning (UAL), as an evolutionary transition marker of minimal consciousness. This evolutionary marker provides evidence that the evolutionary transition to consciousness has gone to completion and allows reverse-engineering from this learning capacity to the system that enables it – making possible the construction of a toy model of UAL. The model allows us to identify some of the key processes and structures that constitute minimal consciousness, points its taxonomic distribution and the ecological context in which it first emerged, highlights its function and suggests a framework for exploring developmental and evolutionary modifications of consciousness. We point to ways of experimentally testing the relationship between UAL and consciousness in human and in non-human animals and discuss the theoretical and ethical implications of our approach. The framework we offer allows the exploration of the evolutionary changes in agency, value systems, selective processes and goals that were involved in the transition to subjective experiencing from a perspective that resonates with the approaches of bio-semioticians. (shrink)

This interdisciplinary volume brings together expert researchers coming from primatology, anthropology, ethology, philosophy of cognitive sciences, neurophysiology, mathematics and psychology to discuss both the foundations of non-human primate and human social cognition as well as the means there currently exist to study the various facets of social cognition. The first part focusses on various aspects of social cognition across primates, from the relationship between food and social behaviour to the connection with empathy and communication, offering a multitude of innovative approaches (...) that range from field-studies to philosophy. The second part details the various epistemic and methodological means there exist to study social cognition, in particular how to ascertain the proximal and ultimate mechanisms of social cognition through experimental, modelling and field studies. In the final part, the mechanisms of cultural transmission in primate and human societies are investigated, and special attention is given to how the evolution of cognitive capacities underlie primates’ abilities to use and manufacture tools, and how this in turn influences their social ecology. A must-read for both, young scholars as well as established researchers! (shrink)

The paper outlines the evolution of on-going meta-philosophical debates about intuitions, explains different notions of 'intuition' employed in these debates, and argues for the philosophical relevance of intuitions in an aetiological sense taken from cognitive psychology. On this basis, it advocates a new kind of methodological naturalism which it finds implicit, for instance, in the warrant project in experimental philosophy: a meta-philosophical naturalism that promotes the use of scientific methods in meta-philosophical investigations. This 'higher-order' naturalism is consistent with (...) both methodological naturalism and methodological rationalism about first-order philosophy, and can help us adjudicate between the two, in a piecemeal manner. (shrink)

In a recent paper, Merabet and Hudry discuss models explaining the functional evolution of fushi tarazu (ftz) from an ancestral homeotic to a pair‐rule segmentation gene in Drosophila. As most of the experimental work underlying these models comes from our research, we wish to reply to Merabet and Hudry providing an explanation of the experimental approaches and logical framework underlying them. We review experimental data that support our hypotheses and discuss misconceptions in the literature. We emphasize (...) that the change in ftz function required changes in both expression pattern and protein function and review the evidence that these functional changes involved a switch in cofactor‐interaction motifs during arthropod radiations. While agreeing with Merabet and Hudry that protein context likely contributes to Ftz function, we argue that until supporting evidence for alternative mechanisms is obtained, the role of cofactor‐interaction motifs in driving a functional switch remains compelling. (shrink)

This paper introduces pragmatic hypotheses and relates this concept to the spiral of scientific evolution. Previous works determined a characterization of logically consistent statistical hypothesis tests and showed that the modal operators obtained from this test can be represented in the hexagon of oppositions. However, despite the importance of precise hypothesis in science, they cannot be accepted by logically consistent tests. Here, we show that this dilemma can be overcome by the use of pragmatic versions of precise hypotheses. These (...) pragmatic versions allow a level of imprecision in the hypothesis that is small relative to other experimental conditions. The introduction of pragmatic hypotheses allows the evolution of scientific theories based on statistical hypothesis testing to be interpreted using the narratological structure of hexagonal spirals, as defined by Pierre Gallais. (shrink)

There is still a great deal of debate over what counts as a constraint and about how to assess experimentally the relative importance of constraints and selection in evolutionary history. I will argue that the notion of a constraint on variation, and thus the selection-constraint distinction, depends on two specifications: (1) what counts as a variant -- constraints limit or bias the production of what? and (2) range of assessment -- over what range of times or conditions is the variation (...) assessed? Specifications 1 and 2 help us to understand empirical work on the relative importance of constraint and selection in evolution. (shrink)

The intersection of development and evolution has always harbored conceptual issues, but many of these are on display in contemporary evolutionary developmental biology (evo-devo). These issues include: (1) the precise constitution of evo-devo, with its focus on both the evolution of development and the developmental basis of evolution, and how it fits within evolutionary theory; (2) the nature of evo-devo model systems that comprise the material of comparative and experimental research; (3) the puzzle of how to (...) understand the widely used notion of 'conserved mechanisms'; (4) the definition of evolutionary novelties and expectations for how to explain them; and (5) the demand of interdisciplinary collaboration that derives from investigating complex phenomena at key moments in the history of life, such as the fin-limb transition. This Element treats these conceptual issues with close attention to both empirical detail and scientific practice to offer new perspectives on evolution and development. This title is also available as Open Access on Cambridge Core. (shrink)

This book reconceptualizes the ancient philosophy of "dualism" and a "trinity" applied to classical and quantum nonequilibrium phenomena. In addition to classical mechanics and electrodynamics, a remarkable connection of this philosophy with quantum mechanics is established which can be useful for quantum computing and the development of quantum artificial intelligence. Packed with the recent theoretical models, quantum simulations of black holes, and experimental observations of quantum phase transitions, this book brings a holistic approach that can be useful to refine (...) the concept of the 'Creation', evolution of the Universe from the condensed state of matter, and explain the artificial vision. (shrink)

Studies of group selection have been done with both natural and manipulated populations using plants, insects and birds. Group selection occurred in all studies and often the strength of group selection was equal to that of individual selection. Laboratory selection experiments resulted in the opposite response to individual selection than that predicted. Selection with plants for high leaf area resulted in plants with smaller leaf area and selection for high emigration rate in beetles produced lines with lower rates. The selected (...) traits included interactions among individuals. Theoretical studies have shown that genetically based interactions among individuals can interfere with individual selection. Evolution can be partitioned into selection and the response to selection. A response to selection requires genetic variation. Properties of group genetic structure for the natural populations are discussed. The experimental populations had controlled group structure and demonstrate that populations can respond to group selection under some genetic structures. (shrink)

Although random mutation is central to models of evolutionary change, a lack of clarity remains regarding the conceptual possibilities for thinking about the nature and role of mutation in evolution. We distinguish several claims at the intersection of mutation, evolution, and directionality and then characterize a previously unrecognized category: complex conditioned mutation. Empirical evidence in support of this category suggests that the historically famous fluctuation test should be revisited, and new experiments should be undertaken with emerging experimental (...) techniques to facilitate detecting mutation rates within specific loci at an ultra‐high, individual base pair resolution. (shrink)

Sexual eukaryotic organisms are characterized by an alternation between haploid and diploid phases. In vascular plants and animals, somatic growth and development occur primarily in the diploid phase, with the haploid phase reduced to the gametic cells. In many other eukaryotes, however, growth and development occur in both phases, with substantial variability among organisms in the length of each phase of the life cycle. A number of theoretical models and experimental studies have shed light on factors that may influence (...) life cycle evolution, yet we remain far from a complete understanding of the diversity of life cycles observed in nature. In this paper we review the current state of knowledge in this field, and touch upon the many questions that remain unanswered. BioEssays 20:453–462, 1998. © 1998 John Wiley & Sons, Inc. (shrink)

RésuméIl n'y a pas de sujet plus idoine à justifier la philosophie ouverte qui est celle de Dialectica que l'étude de l'évolution du concept de raison dans la pensée occidentale.C'est avec la création de la géométrie déductive que le mot raison prit un sens chez les Grecs du ***Ve siècle av. J.‐C. A l'évidence sensible qui résulte du témoignage de nos sens et ne constate que le comment d'un fait observé, les géomètres grecs substituent l'évidence intelligible qui en explique le (...) pourquoi, en montrant qu'il est la conséquence nécessaire d'un petit nombre de propositions admises comme évidentes. S'élevant du concret à l'abstrait, ils dégagent l'essence intelligible de l'accident sensible et substituent au réel le possible. Les disciplines empiriques des Orientaux font place aux sciences théoriques et explicatives: l'astronomie, la mécanique, l'optique, la théorie musicale. Toutefois, au lieu de voir dans les concepts mathématiques une création de l'esprit, les penseurs‐géomètres de la Grèce les assimilent à une découverte par les yeux de l'ǎme d'essences préexistantes. Ils méprisèrent, en outre, les applications pratiques qui seules peuvent stimuler les sciences expérimentales. De là procèdent les limites, puis l'arrět de la science hellénique.Les conquětes d'Alexandre déversèrent sur l'Occident méditerranéen les religions de salut de l'Orient. A la recherche désintéressée du vrai se substitue la gnose, la révélation de mystères transcendants à la raison. Lorsque le message chrétien devint une philosophie puis une théologie, on en vint à distinguer » la démonstration hellénique « par le raisonnement et la dialectique, et » la démonstration hébraique « par les prophéties et les miracles des articles de la foi. La Scolastique rechercha l'accord de la raison et de la foi, en entendant par raison l'apport de la science et de la philosophie helléniques, assimilées, à partir du XIIIe siècle dans la Latinité, à l'encyclopédie aristotélicienne. La Scolastique échoua dans cette tentative. La doctrine de » la double vérité « fut l'aveu de cette impuissance.Pour se libérer de la mentalité scolastique, il fallut s'affranchir dans l'étude des phénomènes naturels de l'autorité d'Aristote, du joug de la théologie et parvenir à une théorie correcte de la connaissance, en particulier de la valeur des idées abstraites et de la distinction des vérités formelles et des vérités empiriques. Il fallut interpréter comme une création de l'esprit ce que les Grecs assimilaient à une découverte de vérités préexistantes. La désagrégation de l'a priori synthétique, conçu à la façon des Cartésiens et des Kantiens, conduit à se demander ce qui subsiste des exigences a priori de la raison. C'est à quoi s'évertue de répondre la dernière partie de l'article.ZusammenfassungEs gibt keinen geeigneteren Gegenstand zur Rechtfertigung der offenen Philosophie, die von der Dialectica vertreten wird, als das Studium der Entwicklung des Vernunftsbegriffes im abendländischen Denken.Mit der Entstehung der deduktiven Geometrie erhält das Wort Vernunft bei den Griechen des 5. Jahrhunderts vor Christo einen Sinn. An Stelle der gefühlsmässigen Evidenz, die auf der Gewissheit unserer Sinne beruht und lediglich das Wieeiner beobachteten Tatsache feststellt, setzen die griechischen Geometer die logische Evidenz, die das Warum erklärt, indem sie zeigt, dass es eine Folge einer kleinen Zahl von Voraussetzungen ist, die als evident angesehen werden können. Sich vom Konkreten zum Abstrakten erhebend, befreien sie das intelligible Wesen von der Zufälligkeit des Sinnlichen und ersetzen das Reelle durch das Mögliche. Die empirischen Disziplinen der Morgenländer schaffen Platz für die theoretischen und erklärenden Wissenschaften wie Astronomie, Mechanik, Optik, Musiktheorie. Immerhin, anstatt in den mathematischen Konzepten eine Schöpfung des Geistes zu sehen, setzen die geometrischen Denker Griechenlands diese der Entdeckung präexistenter Essenzen durch die Augen der Seele gleich. Sie verachten im übrigen die praktischen Anwendungen, die nur die Experimentalwissen‐schaften anregen können. Daher kommt es, dass die griechische Wissenschaft bei einer gewissen Grenze Halt machen musste.Die Schlachten Alexanders verschlangen im Abendland des Mittelmeeres die Heilsreligionen des Orients. An Stelle des uneigennützigen Suchens nach der Wahrheit tritt die Gnosis, das Erheben des mysteriös‐Transzendenten in den Bereich der Vernunft. Als die christliche Botschaft eine Philosophie, darauf eine Theologie wurde, begann man zu unterscheiden zwischen der » griechischen Beweisführung « mittels Vernunft und Dialektik und der » hebräischen Beweisführung « mittels Prophezeiungen und Wundern des zu Glaubenden. Die Scholastik forschte nach dem Zusammenhang zwischen Vernunft und Glaube, indem sie unter Vernunft den Beitrag der griechischen Wissenschaft und Philosophie verstand, der Aristotelischen Enzyklopädie angeglichen in der Folgezeit des 13. Jahrhunderts im Römischen Reich. Die Scholastik scheiterte in diesem Versuch. Die Lehre der » doppelten Wahrheit « war das Geständnis dieses Unvermögens.Um sich von der scholastischen Mentalität zu befreien, hiess es sich im Studium der Naturereignisse von der Autorität des Aristoteles befreien, vom Joch der Theologie und zu einer korrekten Theorie der Erkenntnis zu gelangen, speziell des Wertes der abstrakten Ideen und der Unterscheidung zwischen formellen und empirischen Wahrheiten. Was die Griechen einer Entdeckung von präexistenten Wahrheiten gleichsetzten, musste als Schöpfung des Geistes interpretiert werden. Die Desagregation des synthetischen Apriori, aufgefasst im Sinne von Descartes und Kant, führte zur Frage, was vorhanden sei von den apriori‐Erfordernissen der Vernunft.Dies zu beantworten, bemüht sich der letzte Teil des Artikels.There is no subject more suitable to the open philosophy of Dialectica than the study of the development of the concept of reason in Western thought.The word » reason « acquired a meaning with the creation of deductive geometry by the Greeks of the Vth cent. B. C. These geometers substituted for the sensible evidence, which only establishes the » what « of an observed fact, the intelligible evidence which explains the » why « of such an observed fact, by showing that it is the necessary result of a small number of statements, accepted as self‐evident. Rising from the concrete to the abstract, the geometers isolated the intelligible essence from the sensible accident, and substituted for the real the possible. The empirical technics of the Orientals made place for the theoretical sciences of the Greeks: astronomy, mechanics, optics and musical theory. Instead, however, of seeing mathematical concepts as creations of the mind, the Greek geometers considered them as preexisting entities, discovered by the eyes of the soul. They furthermore disregarded the practical applications which alone can stimulate experimental sciences. These were the limitations and the causes of the eventual end of hellenic science.The conquests of Alexander brought to the Western Mediterranean the religions of salvation of the East. The gnose, revelation of mysteries transcending reason, took the place of the disinterested search for truth. As the Christian message became a philosophy and then a theology, the distinction came to be made between the » hellenic demonstration of the faith « by logic and dialectics, and the » hebrew demonstration « by the prophecies and the miracles. The scholastics sought to reconcile reason with faith, by defining reason as the legacy of Greek science and philosophy, identified, after the XIIIth century, with the Aristotelian Encyclopedia. They failed in this endeavour. The doctrine of the » double truth « was the admission of this failure.In order to progress beyond the scholastic outlook, it was necessary to reject the precepts of Aristotle in the study of natural phenomena, to become free of the tyranny of theology, to develop a correct theory of knowledge, especially as regards the role of abstract ideas and the distinction between formal and empirical truths. It was necessary to interpret as a creation of the mind what the Greeks considered the discovery of preexisting truths. The breakdown of the synthetic apriori of the Cartesians and the Kantians leads one to wonder what remains of the a priori requisites of reason. The last part of the article suggests an answer to this question. (shrink)

The introduction of computer simulation to paleobiology ushered in a new, experimental style of reasoning. Rather than starting with observed fossil patterns and hypothesizing causal processes that may have produced them, it became possible to start with a process model, and from it to simulate a range of possible patterns. ;The MBL Model is a stochastic model of phylogenetic evolution . Computer simulations conducted with the MBL Model served as thought experiments in stochastic evolution. In the MBL (...) work, similarities between empirical and stochastically simulated clades mounted a visual argument that stochastic processes potentially explained large fluctuations in diversity. Stanley and others countered that the similarities were an artifact of scaling. The scaling problem may have been obscured by visual bias: measures of clade shape are scale-invariant, but diversification itself is highly scale-dependent. ;Null and neutral models are frequently conflated. Null models generate hypothetical data distributions under conditions that exclude some process of interest to test whether patterns in an actual data distribution provide statistical evidence for that process. A neutral model assumes selective equivalence among all units at a specified hierarchical level in the evolving system. Neutral models are often inappropriate as null models. Pattern recognition presupposes a null model, but tacit null models are subject to persistent cognitive biases, necessitating explicit formulation of null models. Nonetheless, failure to reject the null model should not preclude further investigation of a pattern. ;Often, models are not candidates for falsification, but serve to simulate data for testing concepts or methods. Sepkoski and Kendrick , and Robeck, Maley, and Donoghue used the MBL Model to test whether mass extinction periodicity is an artifact of paraphyly in taxonomic data. Such numerical experiments, which make all assumptions explicit, can serve as templates for localizing points of disagreement. Models may fall into lineages, each generation providing lessons for the next, but often sharing operational assumptions. Artifacts of shared operational assumptions are often a threat to the validity of inferences. Results holding across models should not be accepted unless they withstand rigorous robustness analysis. (shrink)