Philippe Huneman

This paper uses the framework of Formal Darwinism (FD) to evaluate organism-centric critiques of the Modern Synthesis (MS). The first section argues that the FD project reconciles two kinds of selective explanations in biology. Thus it is not correct to say that the MS neglects organisms—instead, it explains organisms’ design, as argued in the second section. In the third section I employ a concept of the organism derived from Kant that has two aspects: the parts presupposing the whole, and the productivity of the parts in relation to the whole. The first aspect corresponds to the “design” that FD explains, whereas the second aspect is something about which the MS is largely silent

This volume addresses the question of time from the perspective of the time of nature. Its aim is to provide some insights about the nature of time on the basis of the different uses of the concept of time in natural sciences. Presenting a dialogue between philosophy and science, it features a collection of papers that investigate the representation, modeling and understanding of time as they appear in physics, biology, geology and paleontology. It asks questions such as: whether or not the notions of time in the various sciences are reducible to the same physical time, what status should be given to timescale differences, or what are the specific epistemic issues raised by past facts in natural sciences. The book first explores the experience of time and its relation to time in nature in a set of chapters that bring together what human experience and physics enable metaphysicians, logicians and scientists to say about time. Next, it studies time in physics, including some puzzling paradoxes about time raised by the theory of relativity and quantum mechanics. The volume then goes on to examine the distinctive problems and conceptions of time in the life sciences. It explores the concept of deep time in paleontology and geology, time in the epistemology of evolutionary biology, and time in developmental biology. Each scientific discipline features a specific approach to time and uses distinctive methodologies for implementing time in its models. This volume seeks to define a common language to conceive of the distinct ways different scientific disciplines view time. In the process, it offers a new approach to the issue of time that will appeal to a wide range of readers: philosophers and historians of science, metaphysicians and natural scientists - be they scholars, advanced students or readers from an educated general audience.

This paper uses formal Darwinism as elaborated by Alan Grafen to articulate an explanatory pluralism that casts light upon two strands of controversies running across evolutionary biology, viz., the place of organisms versus genes, and the role of adaptation. Formal Darwinism shows that natural selection can be viewed either physics-style, as a dynamics of alleles, or in the style of economics as an optimizing process. After presenting such pluralism, I argue first that whereas population genetics does not support optimization, optimality can still be taken as a default hypothesis when modeling evolutionary processes; and second, that organisms have an explanatory role in evolutionary theory, since they are involved in the economic perspective of optimization. Finally, in order to ask whether the Modern Synthesis can indeed provide a theory of organisms, I apply a Kantian-inspired theoretical view of organisms (underlying much developmental modeling), according to which they are both designed entities and subjects of intrinsic circular processes involving the whole organism and its parts. I first show that the design aspect is accountable for in terms of the Modern Synthesis understood in the formal Darwinism framework. I then question whether the latter aspect of organisms can also be ultimately captured in the same framework, and to this purpose devise an empirical test relying on an assessment of the relative weight of genetic elements in developmental and functional gene regulatory networks.

This volume aims to clarify the epistemic potential of applying evolutionary thinking outside biology, and provides a survey of the current state of the art in research on relevant topics in the life sciences, the philosophy of science, and the various areas of evolutionary research outside the life sciences. By bringing together chapters by evolutionary biologists, systematic biologists, philosophers of biology, philosophers of social science, complex systems modelers, psychologists, anthropologists, economists, linguists, historians, and educators, the volume examines evolutionary thinking within and outside the life sciences from a multidisciplinary perspective. While the chapters written by biologists and philosophers of science address theoretical aspects of the guiding questions and aims of the volume, the chapters written by researchers from the other areas approach them from the perspective of applying evolutionary thinking to non-biological phenomena. Taken together, the chapters in this volume do not only show how evolutionary thinking can be fruitfully applied in various areas of investigation, but also highlight numerous open problems, unanswered questions, and issues on which more clarity is needed. As such, the volume can serve as a starting point for future research on the application of evolutionary thinking across disciplines.

ArgumentThis paper considers how certain ideas elaborated by the Montpellier vitalists influenced the rise of French alienism, and how those ideas framed the changing view of passions during the eighteenth century. Various kinds of evidence attest that the passions progressively became the focus of medical attention, rather than a theme specific to moralists and philosophers. Vitalism conceived of organisms as animal economies understandable through the transformations of the various modes of their sensibility. This allowed some physicians to define a kind of anthropological program, which viewed human beings as a whole, with no distinction betweenle physiqueandle moral. The passions in this context became a specific alteration of the animal economy. Such an anthropological program was the framework within which Pinel understood the various classes of madness as disease – those troubles being general disturbances of the animal economy, which presupposed a knowledge of the latter, to be addressed and cured. In this view, and departing from the vitalist writers with regard to the specificity of mental illness as such, Pinel proposed another conception of the relations between passions and madness, and elaborated a general view of their status in etiology and therapeutics; those views were taken up and systematized by Esquirol, who finally defined a new kind of continuity between passion and madness, demonstrated by the idea that some kinds of madness that he called “monomania” had as a principle a “ruling passion” that the alienist, this novel medical specialist, had to unveil and address.

The pervasive use of computer simulations in the sciences brings novel epistemological issues discussed in the philosophy of science literature since about a decade. Evolutionary biology strongly relies on such simulations, and in relation to it there exists a research program (Artificial Life) that mainly studies simulations themselves. This paper addresses the specificity of computer simulations in evolutionary biology, in the context (described in Sect. 1) of a set of questions about their scope as explanations, the nature of validation processes and the relation between simulations and true experiments or mathematical models. After making distinctions, especially between a weak use where simulations test hypotheses about the world, and a strong use where they allow one to explore sets of evolutionary dynamics not necessarily extant in our world, I argue in Sect. 2 that (weak) simulations are likely to represent in virtue of the fact that they instantiate specific features of causal processes that may be isomorphic to features of some causal processes in the world, though the latter are always intertwined with a myriad of different processes and hence unlikely to be directly manipulated and studied. I therefore argue that these simulations are merely able to provide candidate explanations for real patterns. Section 3 ends up by placing strong and weak simulations in Levins’ triangle, that conceives of simulations as devices trying to fulfil one or two among three incompatible epistemic values (precision, realism, genericity).

Our intuitive assumption that only organisms are the real individuals in the natural world is at odds with developments in cell biology, ecology, genetics, evolutionary biology, and other fields. Although organisms have served for centuries as nature’s paradigmatic individuals, science suggests that organisms are only one of the many ways in which the natural world could be organized. When living beings work together—as in ant colonies, beehives, and bacteria-metazoan symbiosis—new collective individuals can emerge. In this book, leading scholars consider the biological and philosophical implications of the emergence of these new collective individuals from associations of living beings. The topics they consider range from metaphysical issues to biological research on natural selection, sociobiology, and symbiosis. The contributors investigate individuality and its relationship to evolution and the specific concept of organism; the tension between group evolution and individual adaptation; and the structure of collective individuals and the extent to which they can be defined by the same concept of individuality. These new perspectives on evolved individuality should trigger important revisions to both philosophical and biological conceptions of the individual. Contributors: Frédéric Bouchard, Ellen Clarke, Jennifer Fewell, Andrew Gardner, Peter Godfrey-Smith, Charles J. Goodnight, Matt Haber, Andrew Hamilton, Philippe Huneman, Samir Okasha, Thomas Pradeu, Scott Turner, Minus van Baalen

This volume handles in various perspectives the concept of function and the nature of functional explanations, topics much discussed since two major and conflicting accounts have been raised by Larry Wright and Robert Cummins’s papers in the 1970s. Here, both Wright’s ”etiological theory of functions’ and Cummins’s ”systemic’ conception of functions are refined and elaborated in the light of current scientific practice, with papers showing how the ”etiological’ theory faces several objections and may in reply be revisited, while its counterpart became ever more sophisticated, as researchers discovered fresh applications for it. Relying on a firm knowledge of the original positions and debates, this volume presents cutting-edge research evincing the complexities that today pertain in function theory in various sciences. Alongside original papers from authors central to the controversy, work by emerging researchers taking novel perspectives will add to the potential avenues to be followed in the future. Not only does the book adopt no a priori assumptions about the scope of functional explanations, it also incorporates material from several very different scientific domains, e.g. neurosciences, ecology, or technology. In general, functions are implemented in mechanisms; and functional explanations in biology have often an essential relation with natural selection. These two basic claims set the stage for this book’s coverage of investigations concerning both ”functional’ explanations, and the ”metaphysics’ of functions. It casts new light on these claims, by testing them through their confrontation with scientific developments in biology, psychology, and recent developments concerning the metaphysics of realization. Rather than debating a single theory of functions, this book presents the richness of philosophical issues raised by functional discourse throughout the various sciences.​ Content Level » Research Keywords » Causal role theory of functions - Determination of content - Ecosystem selection - Etiological theory of function - Evolutionary biology - Functional explanations - Historical concepts in biology - Larry Wright - Neurosciences - New mechanism - Selected effects functions - Systemic theory of functions - William Wimsatt Related subjects » Anthropology & Archaeology - Epistemology & Philosophy of Science - Evolutionary & Developmental Biology - Neuroscience - Philosophy TABLE OF CONTENTS Introduction.- Section I. Biological functions and functional explanations: genes, cells, organisms and ecosystems.- Part 1.A. Functions, organization and development in life sciences.- Chapter 1. William C. Wimsatt. Evolution and the Stability of Functional Architectures.- Chapter 2. Denis M. Walsh. Teleological Emergence: The Autonomy of Evo-Devo.- Chapter 3. Jean Gayon. Does oxygen have a function, or: where should the regress of biological functions stop?.- Part 1.B. Functional pluralism for biologists? Chapter 4. Frédéric Bouchard. How ecosystem evolution strengthens the case for functional pluralism.- Chapter 5. Robert N. Brandon. A general case for functional pluralism.- Chapter 6. Philippe Huneman. Weak realism in the etiological theory of functions.- Section 2. Section II. Psychology, philosophy of mind and technology: Functions in a man’s world.- Part 2.A. 2A. Metaphysics, function and philosophy of mind.- Chapter 7. Carl Craver. Functions and Mechanisms in Contemporary Neuroscience.- Chapter 8. Carl Gillett. Understanding the sciences through the fog of ”functionalism.’.- 2.B. Philosophy of technology, design and functions.- Chapter 9. Fran¸ coise Longy. Artifacts and Organisms: A Case for a New Etiological Theory of Functions.- Chapter 10. Pieter Vermaas and Wybo Houkes. Functions as Epistemic Highlighters: An Engineering Account of Technical, Biological and Other Functions.- Epilogue.- Larry Wright. Revising teleological explanations: reflections three decades on.

Natural selection is often envisaged as the ultimate cause of the apparent rationality exhibited by organisms in their specific habitat. Given the equivalence between selection and rationality as maximizing processes, one would indeed expect organisms to implement rational decision-makers. Yet, many violations of the clauses of rationality have been witnessed in various species such as starlings, hummingbirds, amoebas and honeybees. This paper attempts to interpret such discrepancies between economic rationality and biological rationality. After having distinguished two kinds of rationality we introduce irrationality as a negation of economic rationality by biologically rational decision-makers. Focusing mainly on those instances of irrationalities that can be understood as exhibiting inconsistency in making choices, i.e. as non-conformity of a given behaviour to axioms such as transitivity or independence of irrelevant alternatives, we propose two possible families of Darwinian explanations that may account for these apparent irrationalities. First, we consider cases where natural selection may have been an indirect cause of irrationality. Second, we consider putative cases where violations of rationality axioms may have been directly favored by natural selection. Though the latter cases seem to clearly contradict our intuitive representation of natural selection as a process that maximizes fitness, we argue that they are actually unproblematic; for often, they can be redescribed as cases where no rationality axiom is violated, or as situations where no adaptive solution exists in the first place.

I consider recent uses of the notion of neutrality in evolutionary biology and ecology, questioning their relevance to the kind of explanation recently labeled ‘topological explanation’. Focusing on fitness landscapes and genotype-phenotype maps, I explore the explanatory uses of neutral subspaces, as modeled in two perspectives: hyperdimensional fitness landscapes and RNA sequence-structure maps. I argue that topological properties of such spaces account for features of evolutionary systems: respectively, capacity for adaptive evolution toward global optima and mutational robustness of genotypes. Thus many models appealing to “neutral” manifolds provide topological alternatives to hypothetical mechanisms.

This book addresses several key issues in the biological study of death with the intent of capturing their genealogy, the assumptions and presuppositions they make, and the way that they open specific new research avenues. The book is divided into two sections: the first considers physiology and the second evolutionary biology. Huneman explains that biologists in the late 1950s put forth a research framework that evolutionarily accounts for death in terms of either an effect of the weakness of natural selection or a by-product of natural selection for early reproduction. He illustrates how the biology of death is a central field and that studying it provides insight into the way that the epistemic structure of this knowledge has been constituted, persists until now, and may conflict with some traditional philosophical ideas.

Ecology in principle is tied to evolution, since communities and ecosystems result from evolution and ecological conditions determine fitness values. Yet the two disciplines of evolution and ecology were not unified in the twentieth-century. The architects of the Modern Synthesis, and especially Julian Huxley, constantly pushed for such integration, but the major ideas of the Synthesis—namely, the privileged role of selection and the key role of gene frequencies in evolution—did not directly or immediately translate into ecological science. In this paper I consider five stages through which the Synthesis was integrated into ecology and distinguish between various ways in which a possible integration was gained. I start with Elton’s animal ecology, then consider successively Ford’s ecological genetics in the 1940s, the major textbook Principles of animal ecology edited by Allee et al., and the debates over the role of competition in population regulation in the 1950s, ending with Hutchinson’s niche concept and McArthur and Wilson’s Principles of Island Biogeography viewed as a formal transposition of Modern Synthesis explanatory schemes. I will emphasize the key role of founders of the Synthesis at each stage of this very nonlinear history.

The ideas Darwin published in On the Origin of Species and The Descent of Man in the nineteenth century continue to have a major impact on our current understanding of the world in which we live and the place that humans occupy in it. Darwin’s theories constitute the core of the contemporary life sciences, and elicit enduring fascination as a potentially unifying basis for various branches of biology and the biomedical sciences. They can be used to understand the biological ground of human cognition, common behavioral patterns and disorders, and psychopathology more generally in psychology, psychiatry, and neuroscience. Perhaps the best known expression of this fact is Dobzhansky’s famous dictum that “nothing in biology makes sense except in the light of evolution” (Dobzhansky T. Am Zool 4:443–452, 1964: 449; Am Biol Teach 35:125–129, 1973: 125), and given that all human behavior supervenes on some biological basis, evolutionary thinking has a vast scope even just in this regard.

Evolutionary theorists often talk as if natural selection were choosing the most adapted traits, or if organisms were deciding to do the most adaptive strategy. Moreover, the payoff of those decisions often depend on what others are doing, and since Hamilton (1964), biologists possess conceptual tools such as kin selection and inclusive fitness to make sense of outcomes of evolution in these contexts, even when they seem unadaptive (such as sterility). The link between selection and adaptation through which selection or organisms can be seen as agents, as well as the scope and nature of Hamiltonian conceptions of social evolution, stimulated many formal elaborations (such as, initially, Fisher’s “Fundamental theorem of natural selection”), but also raise major philosophical issues about causation and statistics, and about rationality and adaptation or selection. Two recent philosophy books, Okasha’s Agents and goals in evolution, and Birch’s Philosophy of social evolution, tackle those question. This essay reflects on them in order to think of those two issues. After having reviewed the books, I try to sketch some philosophical lessons onto which they concur.