This paper defends an inferential conception of scientific representation. It approaches the notion of representation in a deflationary spirit, and minimally characterizes the concept as it appears in science by means of two necessary conditions: its essential directionality and its capacity to allow surrogate reasoning and inference. The conception is defended by showing that it successfully meets the objections that make its competitors, such as isomorphism and similarity, untenable. In addition the inferential conception captures the objectivity of the cognitive representations (...) used by science, it sheds light on their truth and completeness, and it explains the source of the analogy between scientific and artistic modes of representation. (shrink)

I argue against theories that attempt to reduce scientific representation to similarity or isomorphism. These reductive theories aim to radically naturalize the notion of representation, since they treat scientist's purposes and intentions as non-essential to representation. I distinguish between the means and the constituents of representation, and I argue that similarity and isomorphism are common but not universal means of representation. I then present four other arguments to show that similarity and isomorphism are not the constituents of scientific representation. I (...) finish by looking at the prospects for weakened versions of these theories, and I argue that only those that abandon the aim to radically naturalize scientific representation are likely to be successful. (shrink)

1Department of Philosophy, University of Bristol, 9 Woodland Road, Bristol BS8 1TB, UKScience Without Laws Ronald Giere Chicago, IL University of Chicago Press 1999 x + 285 Hardback£17.50.

We call for a new philosophical conception of models in physics. Some standard conceptions take models to be useful approximations to theorems, that are the chief means to test theories. Hence the heuristics of model building is dictated by the requirements and practice of theory-testing. In this paper we argue that a theory-driven view of models can not account for common procedures used by scientists to model phenomena. We illustrate this thesis with a case study: the construction of one of (...) the first comprehensive model of superconductivity by London brothers in 1934. Instead of theory-driven view of models, we suggest a phenomenologically-driven one. (shrink)

Scientific representation is a currently booming topic, both in analytical philosophy and in history and philosophy of science. The analytical inquiry attempts to come to terms with the relation between theory and world; while historians and philosophers of science aim to develop an account of the practice of model building in the sciences. This article provides a review of recent work within both traditions, and ultimately argues for a practice-based account of the means employed by scientists to effectively achieve representation (...) in the modelling sciences. (shrink)

Bourrat and Griffiths :33, 2018) have recently argued that most of the evidence presented by holobiont defenders to support the thesis that holobionts are evolutionary individuals is not to the point and is not even adequate to discriminate multispecies evolutionary individuals from other multispecies assemblages that would not be considered evolutionary individuals by most holobiont defenders. They further argue that an adequate criterion to distinguish the two categories is fitness alignment, presenting the notion of fitness boundedness as a criterion that (...) allows divorcing true multispecies evolutionary individuals from other multispecies assemblages and provides an adequate criterion to single out genuine evolutionary multispecies assemblages. A consequence of their criterion is that holobionts, as conventionally defined by hologenome defenders, are not evolutionary individuals except in very rare cases, and for very specific host-symbiont associations. This paper is a critical response to Bourrat and Griffiths’ arguments and a defence of the arguments presented by holobiont defenders. Drawing upon the case of the hologenomic basis of the evolution of sanguivory in vampire bats, I argue that Bourrat and Griffiths overlook some aspects of the biological nature of the microbiome that justifies the thesis that holobionts are evolutionarily different to other multispecies assemblages. I argue that the hologenome theory of evolution should not define the hologenome as a collection of genomes, but as the sum of the host genome plus some traits of the microbiome which together constitute an evolutionary individual, a conception I refer to as the stability of traits conception of the hologenome. Based on that conception I argue that the evidence presented by holobiont defenders is to the point, and supports the thesis that holobionts are evolutionary individuals. In this sense, the paper offers an account of the holobiont that aims to foster a dialogue between hologenome advocates and hologenome critics. (shrink)

This paper introduces the reconstitutor as a comprehensive unit of heredity within the context of evolutionary research. A reconstitutor is the structure resulting from a set of relationships between different elements or processes that are actively involved in the recreation of a specific phenotypic variant in each generation regardless of the biomolecular basis of the elements or whether they stand in a continuous line of ancestry. Firstly, we justify the necessity of introducing the reconstitutor by showing the limitations of other (...) evolutionary conceptions of the unit of heredity, such as the replicator, the reproducer, and the Darwinian individual. We argue that these conceptions are based on the requirement of lineage formation, which we argue to be unnecessary for the existence of evolutionary heredity. In the second part, we introduce the reconstitutor, which we base on the concept of Stability of Traits, and illustrate how it covers cases of hereditary phenomena not covered by the previous accounts. Secondly, we illustrate how the reconstitutor could serve as a platform to rethink ecological inheritance and other forms of inheritance that have been recently introduced under the song/singer model of evolution. (shrink)

Scientific representation is a booming field nowadays within the philosophy of science, with many papers published regularly on the topic every year, and several yearly conferences and workshops held on related topics. Historically, the topic originates in two different strands in 20th-century philosophy of science. One strand begins in the 1950s, with philosophical interest in the nature of scientific theories. As the received or “syntactic” view gave way to a “semantic” or “structural” conception, representation progressively gained the center stage. Yet, (...) there is another, older, strand that links representation to fin de siècle modeling debates, particularly in the emerging Bildtheorie of Boltzmann and Hertz, and to the ensuing discussion among philosophers thereafter. Both strands feed into present-day philosophical work on scientific representation. There are a number of different orthogonal questions that philosophers ask regarding representation. One set of questions concerns the nature of the representational relation between theories or models, on the one hand, and the real-world systems they purportedly represent. Such questions lie at the more metaphysical and abstract end of the spectrum—and they are often addressed with the abstract tools of the analytical metaphysician. They constitute what we may refer to as the “analytical inquiry” into representation. On the other hand there are questions regarding the use that scientists put some representations to in practice—these are questions that are best addressed by means of some of the favorite tools of the philosopher of science, including descriptive analysis, illustration by means of case studies, induction, exemplification, inference from practice, etc., and are best referred to as the “practical inquiry” into representation. The notion of representation invoked in such inquiries may be “deflationary” or “substantive”—depending on whether it construes representation as a primitive notion, or as susceptible to further reduction or analysis in terms of something else. (shrink)

This paper defends the deflationary character of two recent views regarding scientific representation, namely RIG Hughes’ DDI model and the inferential conception. It is first argued that these views’ deflationism is akin to the homonymous position in discussions regarding the nature of truth. There, we are invited to consider the platitudes that the predicate “true” obeys at the level of practice, disregarding any deeper, or more substantive, account of its nature. More generally, for any concept X, a deflationary approach is (...) then defined in opposition to a substantive approach, where a substantive approach to X is an analysis of X in terms of some property P, or relation R, accounting for and explaining the standard use of X. It then becomes possible to characterize a deflationary view of scientific representation in three distinct senses, namely: a “no-theory” view, a “minimalist” view, and a “use-based” view – in line with three standard deflationary responses in the philosophical literature on truth. It is then argued that both the DDI model and the inferential conception may be suitably understood in any of these three different senses. The application of these deflationary ‘hermeneutics’ moreover yields significant improvements on the DDI model, which bring it closer to the inferential conception. It is finally argued that what these approaches have in common – the key to any deflationary account of scientific representation – is the denial that scientific representation may be ultimately reduced to any substantive explanatory property of sources, or targets, or their relations. (shrink)

In “The Toolbox of Science” (1995) together with Towfic Shomar we advocated a form of instrumentalism about scientific theories. We separately developed this view further in a number of subsequent works. Steven French, James Ladyman, Otavio Bueno and Newton Da Costa (FLBD) have since written at least eight papers and a book criticising our work. Here we defend ourselves. First we explain what we mean in denying that models derive from theory – and why their failure to do so should (...) be lamented. Second we defend our use of the London model of superconductivity as an example. Third we point out both advantages and weaknesses of FLBD’s techniques in comparison to traditional Anglophone versions of the semantic conception. Fourth we show that FLBD’s version of the semantic conception has not been applied to our case study. We conclude by raising doubts about FLBD’s overall project. (shrink)

Contemporary biological research has suggested that some host–microbiome multispecies systems (referred to as “holobionts”) can in certain circumstances evolve as unique biological individual, thus being a unit of selection in evolution. If this is so, then it is arguably the case that some biological adaptations have evolved at the level of the multispecies system, what we call hologenomic adaptations. However, no research has yet been devoted to investigating their nature, or how these adaptations can be distinguished from adaptations at the (...) species-level (genomic adaptations). In this paper, we cover this gap by investigating the nature of hologenomic adaptations. By drawing on the case of the evolution of sanguivory diet in vampire bats, we argue that a trait constitutes a hologenomic adaptation when its evolution can only be explained if the holobiont is considered the biological individual that manifests this adaptation, while the bacterial taxa that bear the trait are only opportunistic beneficiaries of it. We then use the philosophical notions of emergence and inter-identity to explain the nature of this form of individuality and argue why it is special of holobionts. Overall, our paper illustrates how the use of philosophical concepts can illuminate scientific discussions, in the trend of what has recently been called metaphysics of biology. (shrink)

This paper reviews four attempts throughout the history of quantum mechanics to explicitly employ dispositional notions in order to solve the quantum paradoxes, namely: Margenau's latencies, Heisenberg's potentialities, Maxwell's propensitons, and the recent selective propensities interpretation of quantum mechanics. Difficulties and challenges are raised for all of them, and it is concluded that the selective propensities approach nicely encompasses the virtues of its predecessors. Finally, some strategies are discussed for reading similar dispositional notions into two other well-known interpretations of quantum (...) mechanics, namely the GRW interpretation and Bohmian mechanics. (shrink)

Symbiosis plays a fundamental role in contemporary biology, as well as in recent thinking in philosophy of biology. The discovery of the importance and universality of symbiotic associations has brought new light to old debates in the field, including issues about the concept of biological individuality. An important aspect of these debates has been the formulation of the hologenome concept of evolution, the notion that holobionts are units of natural selection in evolution. This review examines the philosophical assumptions that underlie (...) recent proposal of the hologenome concept of evolution, and traces those debates back in time to their historical origins, to the moment when the connection between the topics of symbiosis and biological individuality first caught the attention of biologists. The review is divided in two parts. The first part explores the historical origins of the connection between the notion of symbiosis and the concept of biological individuality, and emphasizes the role of A. de Bary, R. Pound, A. Schneider and C. Merezhkowsky in framing the debate. The second part examines the hologenome concept of evolution and explores four parallelisms between contemporary debates and the debates presented in the first part of the essay, arguing that the different debates raised by the hologenome concept were already present in the literature. I suggest that the novelty of the hologenome concept of evolution lies in the wider appreciation of the importance of symbiosis for maintaining life on Earth as we know it. Finally, I conclude by suggesting the importance of exploring the connections among contemporary biology, philosophy of biology and history of biology in order to gain a better understanding of contemporary biology. (shrink)

Given one conception of biological individuality (evolutionary, physiological, etc.), can a holobiont – that is the host + its symbiotic (mutualistic, commensalist and parasitic) microbiome – be simultaneously a biological individual and an ecological community? Herein, we support this possibility by arguing that the notion of biological individuality is part‐dependent. In our account, the individuality of a biological ensemble should not only be determined by the conception of biological individuality in use, but also by the biological characteristics of the part (...) of the ensemble under investigation. In the specific case of holobionts, evaluations of their individuality should be made either host‐relative or microbe‐relative. We support the claim that biological individuality is part‐dependent by drawing upon recent empirical evidence regarding the physiology of hosts and microbes, and the recent characterization of the ‘demibiont’. Our account shows that contemporary disagreements about the individuality of the holobiont derive from an incorrect understanding of the ontology of biological individuality. We show that collaboration between philosophers and biologists can be very fruitful in attempts to solve some contemporary biological debates. (shrink)

Holobionts are symbiotic assemblages composed by a host plus its microbiome. The status of holobionts as individuals has recently been a subject of continuous controversy, which has given rise to two main positions: on the one hand, holobiont advocates argue that holobionts are biological individuals; on the other, holobiont detractors argue that they are just mere chimeras or ecological communities, but not individuals. Both parties in the dispute develop their arguments from the framework of the philosophy of biology, in terms (...) of what it takes for a “conglomerate” to be considered an interesting individual from a biological point of view. However, the debates about holobiont individuality have important ontological implications that have remained vaguely explored from a metaphysical framework. The purpose of this paper is to cover that gap by presenting a metaphysical approach to holobionts individuality. Drawing upon a conception of natural selection that puts the focus on the transgenerational recurrence of the traits and that supports the thesis that holobionts are units of selection, we argue that holobionts bear emergent traits and exert downward powers over the entities that compose them. In this vein, we argue, a reasonable argument can be made for conceiving holobionts as emergent biological individuals. (shrink)

This paper argues for a broadly dispositionalist approach to the ontology of Bohmian mechanics . It first distinguishes the ‘minimal’ and the ‘causal’ versions of Bohm’s theory, and then briefly reviews some of the claims advanced on behalf of the ‘causal’ version by its proponents. A number of ontological or interpretive accounts of the wave function in BM are then addressed in detail, including configuration space, multi-field, nomological, and dispositional approaches. The main objection to each account is reviewed, namely the (...) ‘problem of perception’, the ‘problem of communication’, the ‘problem of temporal laws’, and the ‘problem of under-determination’. It is then shown that a version of dispositionalism overcomes the under-determination problem while providing neat solutions to the other three problems. A pragmatic argument is thus furnished for the use of dispositions in the interpretation of the theory more generally. The paper ends in a more speculative note by suggesting ways in which a dispositionalist interpretation of the wave function is in addition able to shed light upon some of the claims of the proponents of the causal version of BM. (shrink)

Explaining the behaviour of ecosystems is one of the key challenges for the biological sciences. Since 2000, new-mechanicism has been the main model to account for the nature of scientific explanation in biology. The universality of the new-mechanist view in biology has been however put into question due to the existence of explanations that account for some biological phenomena in terms of their mathematical properties (mathematical explanations). Supporters of mathematical explanation have argued that the explanation of the behaviour of ecosystems (...) is usually provided in terms of their mathematical properties, and not in mechanistic terms. They have intensively studied the explanation of the properties of ecosystems that behave following the rules of a non-random network. However, no attention has been devoted to the study of the nature of the explanation in those that form a random network. In this paper, we cover that gap by analysing the explanation of the stability behaviour of the microbiome recently elaborated by Coyte and colleagues, to determine whether it fits with the model of explanation suggested by the new-mechanist or by the defenders of mathematical explanation. Our analysis of this case study supports three theses: (1) that the explanation is not given solely in terms of mechanisms, as the new-mechanists understand the concept; (2) that the mathematical properties that describe the system play an essential explanatory role, but they do not exhaust the explanation; (3) that a non-previously identified appeal to the type of interactions that the entities in the network can exhibit, as well as their abundance, is also necessary for Coyte and colleagues’ account to be fully explanatory. From the combination of these three theses we argue for the necessity of an integrative pluralist view of the nature of behaviour explanation when this is given by appealing to the existence of a random network. (shrink)

How does microbiota research impact our understanding of biological individuality? We summarize the interdisciplinary summer school on "Microbiota, Symbiosis and Individuality: Conceptual and Philosophical Issues" (July 2019), which was supported by a European Research Council starting grant project "Immunity, DEvelopment, and the Microbiota" (IDEM). The summer school centered around interdisciplinary group work on four facets of microbiota research: holobionts, individuality, causation, and human health. The conceptual discussion of cutting-edge empirical research provided new insights into microbiota and highlights the value of (...) incorporating into meetings experts from other disciplines, such as philosophy and history of science. (shrink)

This paper argues for a representational semantic conception of scientific theories, which respects the bare claim of any semantic view, namely that theories can be characterised as sets of models. RSC must be sharply distinguished from structural versions that assume a further identity of ‘models’ and ‘structures’, which we reject. The practice-turn in the recent philosophical literature suggests instead that modelling must be understood in a deflationary spirit, in terms of the diverse representational practices in the sciences. These insights are (...) applied to some mathematical models, thus showing that the mathematical sciences are not in principle counterexamples to RSC. (shrink)

I argue against an account of scientific representation suggested by the semantic, or structuralist, conception of scientific theories. Proponents of this conception often employ the term “model” to refer to bare “structures”, which naturally leads them to attempt to characterize the relation between models and reality as a purely structural one. I argue instead that scientific models are typically “representations”, in the pragmatist sense of the term: they are inherently intended for specific phenomena. Therefore in general scientific models are not (...) (merely) structures. I then explore some consequences of this pragmatist account of representation, and argue that it sheds light upon the distinction between theories and models. I finish by briefly addressing some critical comments due to Bas Van Fraassen. (shrink)

Holobionts are symbiotic assemblages composed by a macrobe host plus its symbiotic microbiota. In recent years, the ontological status of holobionts has created a great amount of controversy among philosophers and biologists: are holobionts biological individuals or are they rather ecological communities of independent individuals that interact together? Chiu and Eberl have recently developed an eco-immunity account of the holobiont wherein holobionts are neither biological individuals nor ecological communities, but hybrids between a host and its microbiota. According to their account, (...) the microbiota is not a proper part of the holobiont. Yet, it should be regarded as a set of scaffolds that support the individuality of the host. In this paper, we approach Chiu and Eberl’s account from a metaphysical perspective and argue that, contrary to what the authors claim, the eco-immunity account entails that the microorganisms that compose the host’s microbiota are proper parts of the holobiont. Second, we argue that by claiming that holobionts are hybrids, and therefore, not biological individuals, the authors seem to be assuming a controversial position about the ontology of hybrids, which are conventionally characterized as a type of biological individual. In doing so, our paper aligns with the contemporary tendency to incorporate metaphysical resources to shed light on current biological debates and builds on that to provide additional support to the consideration of holobionts as biological individuals from an eco-immunity perspective. (shrink)

: This paper outlines a genuinely pragmatist conception of propensity, and defends it against common objections to the propensity interpretation of probability, prominently Humphreys’ paradox. The paper reviews the paradox and identifies one of its key assumptions, the identity thesis, according to which propensities are probabilities. The identity thesis is also involved in empiricist propensity interpretations deriving from Popper’s influential original proposal, and makes such interpretations untenable. As an alternative, I urge a return to Charles Peirce’s original insights on probabilistic (...) dispositions, and offer a reconstructed version of his pragmatist conception, which rejects the identity thesis. – Correspondence to: [email protected]. (shrink)

This paper expands on, and provides a qualified defence of, Arthur Fine's selective interactions solution to the measurement problem. Fine's approach must be understood against the background of the insolubility proof of the quantum measurement. I first defend the proof as an appropriate formal representation of the quantum measurement problem. The nature of selective interactions, and more generally selections, is then clarified, and three arguments in their favour are offered. First, selections provide the only known solution to the measurement problem (...) that does not relinquish any of the explicit premises of the insolubility proofs. Second, unlike some no-collapse interpretations of quantum mechanics, selections suffer no difficulties with non-ideal measurements. Third, unlike most collapse interpretations, selections can be independently motivated by an appeal to quantum propensities. IntroductionThe problem of quantum measurement2.1 The ignorance interpretation of mixtures2.2 The eigenstate–eigenvalue link2.3 The quantum theory of measurementThe insolubility proof of the quantum measurement3.1 Some notation3.2 The transfer of probability condition (TPC)3.3 The occurrence of outcomes condition (OOC)A defence of the insolubility proof4.1 Stein's critique4.2 Ignorance is not required4.3 The problem of quantum measurement is an idealisationSelections5.1 Representing dispositional properties5.2 Selections solve the measurement problem5.3 Selections and ignoranceNon-ideal selections6.1 No-collapse interpretations and non-ideal measurements6.2 Exact and approximate measurements6.3 Selections for non-ideal interactions6.4 Approximate selections6.5 Implications for ignoranceSelective interactions test quantum propensities7.1 Equivalence classes as physical ‘aspects’: a critique7.2 Quantum dispositions7.3 Selections as a propensity modal interpretation7.4 A comparison with Popper's propensity interpretation. (shrink)

Despite the economic relevance and distinctiveness of family firms, little attention has been devoted to researching their nature and functioning. Traditionally, family firms have been associated both to positive and negative features in their relationships with the stakeholders. This can be linked to different orientations toward corporate social responsibility. Thus, this research aims to identify the approaches that Spanish family firms maintain about social responsibility, based on the model developed by Quazi and O' Brien Journal of Business Ethics 25, 33-51 (...) (2000). An empirical study carried out for 112 Spanish family firms gives support to our initial assumption about these organizations not being a homogeneous group in terms of their orientation towards corporate social responsibility. The differences in perceptions do not seem to be associated to biographical characteristics. These results lead to some relevant academic and practical implications that suggest interesting lines for future research. (shrink)

Philippe Huneman has recently questioned the widespread application of mechanistic models of scientific explanation based on the existence of structural explanations, i.e. explanations that account for the phenomenon to be explained in virtue of the mathematical properties of the system where the phenomenon obtains, rather than in terms of the mechanisms that causally produce the phenomenon. Structural explanations are very diverse, including cases like explanations in terms of bowtie structures, in terms of the topological properties of the system, or in (...) terms of equilibrium. The role of mathematics in bowtie structured systems and in topologically constrained systems has recently been examined in different papers. However, the specific role that mathematical properties play in equilibrium explanations requires further examination, as different authors defend different interpretations, some of them closer to the new-mechanistic approach than to the structural model advocated by Huneman. In this paper, we cover this gap by investigating the explanatory role that mathematics play in Blaser and Kirschner’s nested equilibrium model of the stability of persistent long-term human-microbe associations. We argue that their model is explanatory because: i) it provides a mathematical structure in the form of a set of differential equations that together satisfy an ESS; ii) that the nested nature of the ESSs makes the explanation of host-microbe persistent associations robust to any perturbation; iii) that this is so because the properties of the ESS directly mirror the properties of the biological system in a non-causal way. The combination of these three theses make equilibrium explanations look more similar to structural explanations than to causal-mechanistic explanation. (shrink)

This Element has two main aims. The first one is an historically informed review of the philosophy of probability. It describes recent historiography, lays out the distinction between subjective and objective notions, and concludes by applying the historical lessons to the main interpretations of probability. The second aim focuses entirely on objective probability, and advances a number of novel theses regarding its role in scientific practice. A distinction is drawn between traditional attempts to interpret chance, and a novel methodological study (...) of its application. A radical form of pluralism is then introduced, advocating a tripartite distinction between propensities, probabilities and frequencies. Finally, a distinction is drawn between two different applications of chance in statistical modelling which, it is argued, vindicates the overall methodological approach. The ensuing conception of objective probability in practice is the 'complex nexus of chance'. (shrink)

COVID-19 has substantially affected our lives during 2020. Since its beginning, several epidemiological models have been developed to investigate the specific dynamics of the disease. Early COVID-19 epidemiological models were purely statistical, based on a curve-fitting approach, and did not include causal knowledge about the disease. Yet, these models had predictive capacity; thus they were used to ground important political decisions, in virtue of the understanding of the dynamics of the pandemic that they offered. This raises a philosophical question about (...) how purely statistical models can yield understanding, and if so, what the relationship between prediction and understanding in these models is. Drawing on the model that was developed by the Institute of Health Metrics and Evaluation, we argue that early epidemiological models yielded a modality of understanding that we call descriptive understanding, which contrasts with the so-called explanatory understanding which is assumed to be the main form of scientific understanding. We spell out the exact details of how descriptive understanding works, and efficiently yields understanding of the phenomena. Finally, we vindicate the necessity of studying other modalities of understanding that go beyond the conventionally assumed explanatory understanding. (shrink)

Recent research in philosophy of science has shown that scientists rely on a plurality of strategies to develop successful explanations of different types of phenomena. In the case of biology, most of these strategies go far beyond the traditional and reductionistic models of scientific explanation that have proven so successful in the fundamental sciences. Concretely, in the last two decades, philosophers of science have discovered the existence of at least two different types of scientific explanation at work in the biological (...) sciences, namely: mechanistic and structural explanations. Despite the growing evidence about the radically different nature of these two types of explanation, no inquiry has been conducted to date to determine the ontological reasons that might underlie these differences, nor the way in which these types of explanations can be systematically related with each other. Here, we aim to cover this gap by connecting this plurality of research strategies with the existence of emergent levels of reality. We argue that the existence of these different—and apparently incompatible—explanatory strategies to account for biological phenomena derives from the existence of “ontological jumps” in nature, which generate different regimes of causation that in turn demand the development of different explanatory frameworks. We identify two of these strategies—mechanistic modelling and network modelling—and connect them to the existence of two ontological regimes of causation. Finally, we relate them with each other in a systematic way. In this vein, our paper provides an ontological justification for the plurality of explanatory strategies that we see in the life sciences. (shrink)

This paper aims to offer a new argument in defence bacterial species pluralism. To do so, I shall first present the particular issues derived from the conflict between the non-theoretical understanding of species as units of classification and the theoretical comprehension of them as units of evolution. Secondly, I shall justify the necessity of the concept of species for the bacterial world, and show how medicine and endosymbiotic evolutionary theory make use of different concepts of bacterial species due to their (...) distinctive purposes. Finally, I shall show how my argument provides a new source of defence for bacterial pluralism. (shrink)

This paper is a critical response to Andreas Bartels’ sophisticated defense of a structural account of scientific representation. We show that, contrary to Bartels’ claim, homomorphism fails to account for the phenomenon of misrepresentation. Bartels claims that homomorphism is adequate in two respects. First, it is conceptually adequate, in the sense that it shows how representation differs from misrepresentation and non-representation. Second, if properly weakened, homomorphism is formally adequate to accommodate misrepresentation. We question both claims. First, we show that homomorphism (...) is not the right condition to distinguish representation from misrepresentation and non-representation: a “representational mechanism” actually does all the work, and it is independent of homomorphism – as of any structural condition. Second, we test the claim of formal adequacy against three typical kinds of inaccurate representation in science which, by reference to a discussion of the notorious billiard ball model, we define as abstraction, pretence, and simulation. We first point out that Bartels equivocates between homomorphism and the stronger condition of epimorphism, and that the weakened form of homomorphism that Bartels puts forward is not a morphism at all. After providing a formal setting for abstraction, pretence and simulation, we show that for each morphism there is at least one form of inaccurate representation which is not accommodated. We conclude that Bartels’ theory – while logically laying down the weakest structural requirements – is nonetheless formally inadequate in its own terms. This should shed serious doubts on the plausibility of any structural account of representation more generally. (shrink)

This article provides a state of the art review of the philosophical literature on scientific representation. It first argues that the topic emerges historically mainly out of what may be called the modelling tradition. It then introduces a number of helpful analytical distinctions, and goes on to divide contemporary approaches to scientific representation into two distinct kinds, substantive and deflationary. Analogies with related discussions of artistic representation in aesthetics, and of the nature of truth in metaphysics are pursued. It is (...) finally urged that the most promising approaches - and the ones most likely to feature prominently in future developments - are deflationary. In particular, a defence is provided of a genuinely inferential conception of representation. (shrink)

The organ donation and transplantation (ODT) system heavily relies on the willingness of individuals to donate their organs. While it is widely believed that public trust plays a crucial role in shaping donation rates, the empirical support for this assumption remains limited. In order to bridge this knowledge gap, this article takes a foundational approach by elucidating the concept of trust within the context of ODT. By examining the stakeholders involved, identifying influential factors, and mapping the intricate trust relationships among (...) trustors, trustees, and objects of trust, we aim to provide a comprehensive understanding of trust dynamics in ODT. We employ maps and graphs to illustrate the functioning of these trust relationships, enabling a visual representation of the complex interactions within the ODT system. Through this conceptual groundwork, we pave the way for future empirical research to investigate the link between trust and organ donation rates, informed by a clarified understanding of trust in ODT. This study can also provide valuable insights to inform interventions and policies aimed at enhancing organ donation rates. (shrink)

This paper argues that if propensities are displayed in objective physical chances then the appropriate representation of these chances is as indexed probability functions. Two alternative formal models, or accounts, for the relation between propensity properties and their chancy or probabilistic manifestations, in terms of conditionals and conditional probability are first reviewed. It is argued that both confront important objections, which are overcome by the account in terms of indexed probabilities. A number of further advantages of the indexed probability account (...) are discussed, which suggest that it is promising as a general theory of objective physical chance. The paper ends with a discussion of the indexical character of the objective chances that are grounded in propensities. (shrink)

An understanding of the factors behind the evolution of multicellularity is one of today’s frontiers in evolutionary biology. This is because multicellular organisms are made of one subset of cells with the capacity to transmit genes to the next generation and another subset responsible for maintaining the functionality of the organism, but incapable of transmitting genes to the next generation. The question arises: why do somatic cells sacrifice their lives for the sake of germline cells? How is germ/soma separation maintained? (...) One conventional answer refers to inclusive fitness theory, according to which somatic cells sacrifice themselves altruistically, because in so doing they enhance the transmission of their genes by virtue of their genetic relatedness to germline cells. In the present article we will argue that this explanation ignores the key role of policing mechanisms in maintaining the germ/soma divide. Based on the pervasiveness of the latter, we argue that the role of altruistic mechanisms in the evolution of multicellularity is limited and that our understanding of this evolution must be enriched through the consideration of coercion mechanisms. (shrink)

This article provides a state-of-the-art review of the philosophical literature on scientific representation. It first argues that the topic emerges historically mainly out of what may be called the modelling tradition. It then introduces a number of helpful analytical distinctions and goes on to divide contemporary approaches to scientific representation into two distinct kinds, substantive and deflationary. Analogies with related discussions of artistic representation in aesthetics and the nature of truth in metaphysics are pursued. It is finally urged that the (...) most promising approaches—and the ones most likely to feature prominently in future developments—are deflationary. In particular, a defense is provided of a genuinely inferential conception of representation. (shrink)

A general view in philosophy of science says that the appropriateness of an object to act as a surrogate depends on the user’s decision to utilize it as such. This paper challenges this claim by examining the role of surrogative reasoning in high-throughput sequencing technologies as they are used in contemporary microbiome science. Drawing on this, we argue that, in technology-driven surrogates, knowledge about the type of inference practically permitted and epistemically justified by the surrogate constrains their use and thus (...) puts a limit to the user’s intentions to use any object as a surrogate for what they please. Ignoring this leads to a serious epistemic misalignment, which ultimately prevents surrogative reasoning. Thus, we conclude that knowledge about the type of surrogate reasoning that the technologies being used allow is fundamental to avoid misinterpreting the consequences of the data obtained with them, the hypothesis this data supports, and what these technologies are surrogates of. (shrink)

The hologenome concept of evolution is a hypothesis about the evolution of animals and plants. It asserts that the evolution of animals and plants was partially triggered by their interactions with their symbiotic microbiomes. In that vein, the hologenome concept posits that the holobiont (animal host + symbionts of the microbiome) is a unit of selection. -/- The hologenome concept has been severely criticized on the basis that selection on holobionts would only be possible if there were a tight transgenerational (...) host-genotype-to-symbiont-genotype connection. As our current evidence suggests that this is not the case for most of the symbiont species that compose the microbiome of animals and plants, the opportunity for holobiont selection is very low in relation to the opportunity for selection on each of the species that compose the host microbiome. Therefore, holobiont selection will always be disrupted ‘from below’, by selection on each of the species that compose the microbiome. -/- This thesis constitutes a conceptual effort to defend philosophically the hologenome concept. I argue that the criticism according to which holobiont selection requires tight transgenerational host-genotype-to-symbiont-genotype connection is grounded on a metaphysical view of the world according to which the biological hierarchy needs to be nested, such that each new level of selection includes every entity from below. Applied to hologenomes, it entails that the hologenome is a collection of genomes, and selection of hologenomes is assumed to entail cospeciation of the host with the species that constitute its microbiome. -/- Against that interpretation, I propose the ‘stability of traits’ account, according to which hologenome evolution is the result of the action of natural selection in a non-nested hierarchical world. In that vein, hologenome evolution does not entail cospeciation, and thus it does not require tight transgenerational host-genotype-to-symbiont-genotype connection. By embracing a multilevel selection perspective, I argue that hologenome evolution results from the simultaneous action of natural selection on each of the lineages that compose the microbiome, and on the assemblage composed by the host genome plus the functional traits of its microbiome. Hologenome selection occurs when the evolution of the traits of the microbiome result from their effects on the fitness of the host, and it can take the form of multilevel selection 1, or multilevel selection 2. In both cases, hologenome selection entails the evolution of microbiome traits, as well as evolution of the host genome, rather than cospeciation of lineages. (shrink)

Abstract: It is often assumed without argument that fictionalism in the philosophy of science contradicts scientific realism. This paper is a critical analysis of this assumption. The kind of fictionalism that is at present discussed in philosophy of science is characterised, and distinguished from fictionalism in other areas. A distinction is then drawn between forms of fictional representation, and two competing accounts of fiction in science are discussed. I then outline explicitly what I take to be the argument for the (...) incompatibility of scientific realism with fictionalism. I argue that some of its premises are unwarranted, and are moreover questionable from a fictionalist perspective. The conclusion is that fictionalism is neutral in the realism-antirealism debate, pulling neither in favour nor against scientific realism. (shrink)

We argue that microbiome research should be more reflective on the methods that it relies on to build its datasets due to the danger of facing a methodological problem which we call “epistemic misalignment.” An epistemic misalignment occurs when the method used to answer specific scientific questions does not track justified answers, due to the material constraints imposed by the very method. For example, relying on 16S rRNA to answer questions about the function of the microbiome generates epistemic misalignments, due (...) to the different temporal scales that 16S rRNA provides information about and the temporal scales that are required to know about the functionality of some microorganisms. We show how some of these exist in contemporary microbiome science and urge microbiome scientists to take some measures to avoid them, as they may question the credibility of the field as a whole. (shrink)

Peter Milne and Neal Grossman have argued against Popper's propensity interpretation of quantum mechanics, by appeal to the two-slit experiment and to the distinction between mixtures and superpositions, respectively. In this paper I show that a different propensity interpretation successfully meets their objections. According to this interpretation, the possession of a quantum propensity by a quantum system is independent of the experimental set-ups designed to test it, even though its manifestations are not.

There has been an intense discussion, albeit largely an implicit one, concerning the inference of causal hypotheses from statistical correlations in quantum mechanics ever since John Bell’s first statement of his notorious theorem in 1966. As is well known, its focus has mainly been the so-called Einstein-Podolsky-Rosen (“EPR”) thought experiment, and the ensuing observed correlations in real EPR like experiments. But although implicitly the discussion goes as far back as Bell’s work, it is only in the last two decades that (...) it has become recognizably and explicitly a debate about causal inference in the quantum realm. The bulk of this paper is devoted to a review of three influential arguments in the philosophical literature that aim to show that causal models for the EPR correlations are impossible, due to Bas Van Fraassen, Daniel Hausman and Huw Price. I contend that all these arguments are inconclusive since they contain premises or presuppositions that are false, unwarranted, or at least controversial. Five different common cause models are outlined that seem perfectly viable for the EPR correlations. These models are then employed to illustrate various difficulties with the premises and presuppositions underlying Van Fraassen’s, Hausman’s and Price’s arguments. In all these cases it is argued that the difficulties cut deep against these authors’ own theories of causation and causal inference. My conclusions are that causal models for the EPR correlations remain viable, that philosophical work is still required to assess their relative virtues, and that in any case the mere theoretical conceivability and empirical possibility of these models sheds doubts over Van Fraassen’s, Hausman’s and (important elements in) Price’s theories of causation and causal inference. (shrink)

I analyse critically what I regard as the most accomplished empiricist account of propensities, namely the long run propensity theory developed by Donald Gillies . Empiricist accounts are distinguished by their commitment to the ‘identity thesis’: the identification of propensities and objective probabilities. These theories are intended, in the tradition of Karl Popper’s influential proposal, to provide an interpretation of probability that renders probability statements directly testable by experiment. I argue that the commitment to the identity thesis leaves empiricist theories, (...) including Gillies’ version, vulnerable to a variant of what is known as Humphreys’ paradox. I suggest that the tension may be resolved only by abandoning the identity thesis, and by adopting instead an understanding of propensities as explanatory properties of chancy objects. (shrink)

It is widely accepted in contemporary philosophy of science that the domain of application of a theory is typically larger than its explanatory covering power: theories can be applied to phenomena that they do not explain. I argue for an analogous thesis regarding the notion of empirical adequacy. A theory’s domain of application is typically larger than its domain of empirical adequacy: theories are often applied to phenomena from which they receive no empirical confirmation.

Mauricio Suárez and Agnes Bolinska apply the tools of communication theory to scientific modeling in order to characterize the informational content of a scientific model. They argue that when represented as a communication channel, a model source conveys information about its target, and that such representations are therefore appropriate whenever modeling is employed for informational gain. They then extract two consequences. First, the introduction of idealizations is akin in informational terms to the introduction of noise in a signal; for in (...) an idealization we introduce ‘extraneous’ elements into the model that have no correlate in the target. Second, abstraction in a model is informationally equivalent to equivocation in the signal; for in an abstraction we “neglect” in the model certain features that obtain in the target. They conclude that it becomes possible in principle to quantify idealization and abstraction in informative models, although precise absolute quantification will be difficult to achieve in practice. (shrink)