Philosophy of Biology

This essay focuses on Mario Ageno (1915–1992), initially director of the physics laboratory of the Italian National Institute of Health and later professor of biophysics at Sapienza University of Rome. A physicist by training, Ageno became interested in explaining the special characteristics of living organisms origin of life by means of quantum mechanics after reading a book by Schrödinger, who argued that quantum mechanics was consistent with life but that new physical principles must be found. Ageno turned Schrödinger’s view into (...) a long-term research project. He aimed to translate Schrödinger’s ideas into an experimental programme by building a physical model for at least a very simple living organism. The model should explain the transition from the non-living to the living. His research, however, did not lead to the expected results, and in the 1980s and the 1990s he focused on its epistemological aspect, thinking over the tension between the lawlike structure of physics and the historical nature of biology. His reflections led him to focus on the nature of the theory of evolution and its broader scientific meaning. (shrink)

This study develops a biosemiotic framework for a descriptive phenomenology. We incorporate the set utterance-genre-lifeworld in biosemiotic theory by paralleling it with the Peircean-Uexküllean notions of sign, habit, and Umwelt (respectively). This framework for empirical semiotic studies aims to complement the concepts of affordance and scaffold, as applied in studies on learning.The paper also contributes to bridging Bakhtinian-Hallidayian-Habermasian views on utterance, genre, and lifeworld with biosemiotics. We exploit the possibility that biosemiotics offers to bring together hermeneutic and phenomenological analysis. We (...) relate these views to integrated levels in a systemic framework for communication. Signs are seen as inter-dependent construction elements in utterances. Repeated use of utterances in shifting contexts generates shared recognizable kinds of communication, or genres. ‘Life-genre’ is used in a zoo-communication context, to avoid anthropocentrism. Life-genre serves animals’ life-functions. Genres make up a systemic network of communicational resources, along with the related concepts of event, affordance, and scaffold. Utterance, genre, and lifeworld have five aspects, constituting an integrative approach to communication: form, content, act, time, and space. Semiosis and positioning are processes that connect aspects and levels. Levels, aspects, and processes make up the framework as a system.While biosemiotics supports a phenomenological notion of life-genre, in turn, this notion also contributes to the development of the former, bridging a gap between organisms’ sign experience on a micro-level and organisms’ phenomenal lifeworld/Umwelt. Comparisons of lifeworld and Umwelt reveal that, although not identical, these are sufficiently similar to be perceived as an overall macro-level for signs and communication. Starting from a construal of utterance and genre as dynamic, dialogical, and reciprocal, genre is positioned as meso-level, mediating between signs in utterances and the lifeworld/Umwelt level. We propose genres, understood as semiotic scaffoldings built through affordances, as an analytical concept to capture meso-level phenomena. Scaffolding is determined by both ongoing events and (pre-)available genres. Events are manifestations of these scaffolding processes.Identifying animal and educational communication as two particularly relevant fields for future applications, we compare key socio-semiotic concepts to the notions of sign, habit, and Umwelt. The notions affordance and scaffolding are particularly important to think of learning as continuous with adaptation.An overall aim is to broaden as well as finetune semiotic phenomenology as a platform for empirical analyses of communication. We conclude by exemplifying and summarizing how the framework facilitates this. (shrink)

The purpose of this essay is to point out the diversity in post-Proppian plot analysis—and, more specifically, to argue that within it one can discern two fundamentally different conceptions of narrative structure. These are not merely different theoretical grids superimposed upon the same phenomena, but represent, in fact, two objectively different types of narrative structure. These two types will be referred to as dramatic structure and instrumental structure, and they may be succinctly characterized by the antonyms 'play' and 'work' respectively. (...) It will be argued that there is a basis in Propp for both conceptions of narrative structure and that Bremond and Greimas, in their efforts to 'generalize' Propp, have each only isolated one of two tendencies coexisting in his analytic approach. Our point of departure will be Propp's concept of the basic unit of plot structure, which he terms the function. This is a complex term. Two senses are distinguished, biological and mathematical-logical. (shrink)

This article investigates the use of wolves to enchant the rationalization of Thompson Manitoba. The city attempted to refocus towards a more touristic economy based around the large wolf population in the surrounding regions. The paper also examines why this attempt at a tourist economy has not produced its intended results. I accomplish this by first discussing the McDonaldization and enchantment of the city. This discussion is framed through George Ritzer and Jeffery C. Alexander’s work. I then integrate Umwelt analysis (...) by focusing on Timo Maran’s Umwelt mapping to create a comparative approach in which wolf Umwelts within rationalized and enchanted settings can be compared to those in situ. I then make use of qualitative data analysis (QDA) to code a corpus of 50 articles from a local online newspaper that discuss the development of the tourism economy. Accordingly, I apply the theoretical perspectives mentioned to the QDA codes and themes. In the discussion section and conclusion of this paper, I note that wolf Umwelt was largely incompatible with the rationalizing system created within the city and that the use of wolves as enchantment relied on motifs of overly hyperreal intersubjectivity between humans and wolves. Consequently, collective representation regarding the tourist initiative was not constructed by this rationalization and enchantment. (shrink)

Evolutionary psychiatry suggests that mental disorders can be explained in evolutionary terms (a) as failures of psychological mechanisms to produce the adaptive effects for which they were naturally selected, (b) as mismatches between naturally selected psychological mechanisms and contemporary environmental pressures, or (c) as naturally selected psychological mechanisms whose effects continue to be adaptive. In this paper, I present a philosophical critique of evolutionary psychiatry that draws on Subrena Smith’s matching problem for evolutionary psychology. For evolutionary psychiatry hypotheses to be (...) empirically supported, proponents of evolutionary psychiatry must demonstrate (1) that the contemporary psychological mechanisms involved in mental disorders resemble the psychological mechanisms of our evolutionary ancestors, (2) that the contemporary psychological mechanisms are phylogenetically descended from the ancestral psychological mechanisms, and (3) that the ancestral psychological mechanisms were naturally selected because their effects had adaptive benefits. However, for many mental disorders, evolutionary psychiatry lacks the methodological resources to demonstrate these conditions. Therefore, many evolutionary psychiatry hypotheses are empirically untestable and remain indefinitely underdetermined by data. (shrink)

Space and time have been explained not in terms of physical entities but in terms of practice, that is, based on communication, which includes spacetime code in the A-series, B-series, and E-series. Each code has a unique grammar, and it progresses through boundary operation, i.e., setting the limit and transgressing it, but in each distinct way. The purpose of this paper is to introduce the notion of event matching to elucidate the mechanism of meaning-making through boundary operations. Biological spacetime production (...) is an incessant effort after meaning in the adaptive process, where the dia-metric scale in the E-series necessitates anticipatory (retrocausal) actions in the steps of interaction. This paper suggests that the three terms — event matching, meaning making, and spacetime production — are synonymous with each other in biological worlds. Evidence-based examples are provided to support the arguments. (shrink)

Cumulative cultural knowledge [CCK], the knowledge we acquire via social learning and has been refined by previous generations, is of central importance to our species’ flourishing. Considering its importance, we should expect that our best epistemological theories can account for how this happens. Perhaps surprisingly, CCK and how we acquire it via cultural learning has only received little attention from social epistemologists. Here, I focus on how we should epistemically evaluate how agents acquire CCK. After sampling some reasons why extant (...) theories cannot account for CCK, I suggest that things aren’t as bleak as they might look. I explain how agents deserve epistemic credit for how CCK is transmitted in cultural learning by promoting a central need of their social group: The efficient and safe transmission of CCK. A good initial fit exists between this observation and Greco’s knowledge-economy framework. Ultimately, however, Greco’s account doesn’t straightforwardly account for CCK because of its strict focus on testimony. I point out two issues in the framework due to this focus. The resulting view advocates giving epistemic credit to agents when they act to promote their communities’ epistemic needs in the right way and highlights the various ways in which agents come to do this. (shrink)

Based on Kolchinsky and Wolpert’s work on the semantics of autonomous agents, I propose an application of Mathematical Logic and Probability to model cognitive processes. In this work, I will follow Bateson’s insights on the hierarchy of learning in complex organisms and formalize his idea of applying Russell’s Type Theory. Following Weaver’s three levels for the communication problem, I link the Kolchinsky–Wolpert model to Bateson’s insights, and I reach a semantic and conceptual hierarchy in living systems as an explicative model (...) of some adaptive constraints. Due to the generality of Kolchinsky and Wolpert’s hypotheses, I highlight some fundamental gaps between the results in current Artificial Intelligence and the semantic structures in human beings. In light of the consequences of my model, I conclude the paper by proposing a general definition of knowledge in probabilistic terms, overturning de Finetti’s Subjectivist Definition of Probability. (shrink)

The present paper will summarise the methodology, the scientific outcomes, and the potential for generalisation of the model of a project that studied cohabitation between human inhabitants and liminal species (in the present case, corvids) in Tartu, Estonia, from October 2021 to July 2023, with a comparative field study in Paris, France. It will present the context and goals of using a semiotic model to map interspecific cohabitation, expose what kind of data can be used to feed the model in (...) a relevant way and how it was done in the case of this project. This paper will present how the model diagnosed issues in cohabitation, both from material nuisances and cultural aspects, insisting on the concept of “hostile minority” that emerged from the study. It will discuss the importance of problem-solving in interspecific cohabitation, what the model suggested regarding this aspect, how this tool can be generalised to a large variety of cases and why it should be used this way. (shrink)

The aim of this paper is to compare the theory of Gestalt qualities, introduced by the Austrian philosopher Christian von Ehrenfels (1859–1932), with the concept of Umwelt, proposed by Jakob von Uexküll (1864–1944). The primary basis for the comparison will be the phenomenology of Maurice Merleau-Ponty (1908–1961), who extensively discusses the two concepts in his work. In the Uexküll–Ehrenfelsian context, we focus on analysing the similarities and differences of their argumentation and model approaches to understanding the living and non-living natural (...) entities, their mutual communication, development, and ontological grounding. We also consider the role of individual experience with the environment: in that context, the metaphysical frameworks within which the two thinkers operate in their efforts to explain natural phenomena are central to our comparative reflections. (shrink)

This review admires Michael Marder’s inquiry as a parallel for which biosemiotics can find points of conceptual resonance, even as methodological differences remain. By looking at the dump of ungrounded semiosis – the semiotics of dislocating referents from objects, and its effects – we can better do the work of applying biosemiotics not just towards the wonders of living relations, but also to the manifold ways in which industrial civilization is haphazardly yet systematically destroying the possibility for spontaneous yet contextualized (...) semiogenesis. Biosemiotics has much to gain by understanding the ways, gross and subtle, in which Anthropocenic hubris undercuts our own ability to make sense of the world, doubling down on overconfidence at the expense of meaning-making. (shrink)

Michael Marder in Dump Philosophy claims that that there has been so much dumping with modern civilization that we now live in a dump, with those parts of our environment not contaminated by dumping, now rare. The growth of the dump is portrayed as the triumph of nihilism, predicted by Nietzsche as the outcome of life denying Neoplatonist metaphysics. Marder’s proposed solution, characterized as “undumping”, is to accept the dump and to promote reinterpretations and informal communities within the dump. It (...) is argued here that Marder provides great insight into our current situation and its causes; however, his proposed solution is too weak. To respond to the situation described, it is argued, it is necessary to distinguish between healthy and unhealthy dumping, or more broadly, healthy and unhealthy participation in nature. To make this distinction, it is necessary see humans as ecosystems and components of ecosystems, including the global ecosystem, as these have been characterized by anti-reductionist ecologists. Ecosystems can be healthy or unhealthy. Dumping and dumps should be identified as problematic outputs when they damage the health of ecosystems. The products of human activity not destined to be consumed or used for further productive activity, can then be identified and judged according to whether they augment or damage ecosystems’ health. Dumping should be severely restricted. This should be associated with making a commitment to life and its value, and living to augment life, developing the social and economic forms and institutions that facilitate living in this way. (shrink)

The article reconciles contentious issues between code biology and biosemiotics. The framework of semantic biology and molecular meaning woven around organic codes by Marcello Barbieri defied classical informational conceptualizations of meaning in the biological realm while the discourse on meaning and agency and their respective (in)dependency on interpretation continues. Whereas the role of codes in agency is often secondary to other aspects, I present here a more consistent picture– integrating codes and artifacts to smoothly transcend from the world of mechanistic (...) molecular meaning to organismic agency. Interpretation is presented as a call-to-action based on intraindividual states, and sense-making as call-to-change based on interindividual communication. (shrink)

A vital step to successfully orienting Deleuze with biosemiotics (and theories of biological complexity overall) is to discover a coherent scientific throughline in his work that also accounts for the aesthetic/creative dimension of his philosophy. This requires the heterodox move (from a Deleuzean point of view) of giving priority to the organism. I argue that Deleuze’s treatment of the organism does more than signal a superficial relation to biological complexity theory that, as a result of his nuanced take on the (...) matter, undermines the value of the organic body to his system. Instead, we can recognize a working theory of autopoiesis in the early Deleuze that scaffolds as well as substantiates his later ethological and biosemiotic observations and reveals a definite, albeit minimal, notion of subjectivity in his work. Most importantly, reorienting his logic of sense as a logic of sense-making, or the context-dependent signification between system and environment (Thompson, 2007), allows us to begin the work of mining a scientific throughline in Deleuze’s work akin to biological complexity theory that is of value to both Deleuze studies and biosemiotics. (shrink)

In his extensive and revolutionary work, the biologist and philosopher Jakob von Uexküll examined the animal kingdom, laying the first foundations for a wider reflection on non-human animal agency in ecosystems. However, the scientist did not include in his reflection on Umwelt plants and fungi, widely considered passive organisms in the 1900s. In this paper, we will try to find the contact points between the biologist’s theories and contemporary botanical discoveries, taking into account some of the findings on plant agency, (...) communication, and interaction even with fungi, crucial actors in the vegetal organization of the territory. The core of the work will be to demonstrate that plants could fit in an integrated and extended theory of Umwelt abandoning the “zoocentric” perspective that permeated the studies on botanical species. To achieve this aim, it will be necessary to first deconstruct the historical theorization of plants’ passivity, which has ancient roots and was enforced in some philosophical perspectives of the 20th century. Consequentially, with two focuses, the first one on communication and the second one on agency, the paper will highlight the possibilities and horizons that could be opened through a comparison between the theories of von Uexküll and nowadays botanical breakthroughs. (shrink)

Vào ngày 19/4/2024 vừa qua, Tuyên bố New York về Ý thức của Động vật đã được công bố tại một hội nghị "Khoa học Mới nổi về Ý thức của Động vật" được tổ chức tại Đại học New York. Tuyên bố New York là một nỗ lực để thể hiện sự đồng thuận của giới khoa học về sự tồn tại trải nghiệm ý thức ở tất cả các loài có xương sống (bao gồm tất cả các loài (...) bò sát, lưỡng cư và cá) và nhiều loài không xương sống (bao gồm, ít nhất là, các loài mực ống, giáp xác mười chân và côn trùng). Về mặt khoa học, Tuyên bố New York là một bước tiến bộ lớn cho nhân loại, nhưng nó cũng sẽ khiến cho nhiều người có ý thức hơn về các thách thức đạo đức liên quan đến động vật có trải nghiệm ý thức. Bài viết này sẽ bàn về các cách tiếp cận triết học đối với vấn đề đạo đức của việc giết các sinh vật có tri giác để từ đó chỉ ra nan đề đạo đức đang hiện hữu trong xã hội loài người: Để duy trì sự tồn tại của con người, loài được xem là có đạo đức, thì chúng ta lại vi phạm đạo đức của chính chúng ta, là sát sinh các loài có giá trị nội tại, ý thức, hay tri giác khác. Nan đề đạo đức này đã tồn tại trong xã hội loài người từ rất lâu trước đây. Nhiều giải pháp đã được đề xuất và ứng dụng vào thực tế nhầm giải quyết nan đề này, như cách tiếp cận bất bạo lực và ăn chay của Phật giáo, việc áp dụng luật Hồi giáo và các nghi lễ thiêng liêng đối với động vật trong Hồi giáo, các phòng trào đòi quyền cho động vật và thực hiện tuyệt chủng tự nguyện ở các nước phương Tây, hay chế biến thịt sử dụng tế bào động vật. Tuy nhiên, dù cách nào đi nữa thì hiện nay chúng ta vẫn chưa thể hoàn toàn giải quyết được nan đề đạo đức, đó là các sinh vật có tri giác vẫn tiếp tục bị giết vì sự sinh tồn của con người. Chúng tôi cho rằng giải pháp khả thi nhất hiện nay đó là thay đổi văn hóa tiêu dùng thực phẩm ở hiện tại, xây dựng các giá trị văn hóa thặng dư sinh thái, và thúc đẩy các giải pháp hòa bình. (shrink)

In this paper, we will explore the relation between molecular structure and functions displayed by biochemical molecules in complex physiological processes by using tools from the philosophy of science and the philosophy of scientific practice. We will argue that biochemical functions are weakly emergent from molecular structure by using an account of weak. In order to explore this thesis, we will consider the role of vitamin B12 in contributing to the process of erythropoiesis. The structure of the paper is the (...) following: First, we will consider biochemical functions and why they cannot be easily reduced to their chemical realisers. We will suggest weak emergence as an alternative while also accounting for the relevance of the context, in our case, systemic and organisational. The paper will conclude by considering (1) how the usage of tools from the philosophy of science, such as weak emergence, can aid our understanding of the relations between the components of complex phenomena, such as erythropoiesis, and (2) how the philosophy of scientific practice sheds light on the explanatory role of processes that are dynamically stabilised and the different levels of organisation implied. (shrink)

Inner membranes of mitochondria are extensively folded, forming cristae. The observed overall correlation between efficient eukaryotic ATP generation and the area of internal mitochondrial inner membranes both in unicellular organisms and metazoan tissues seems to explain why they evolved. However, the crucial use of molecular oxygen (O2) as final acceptor of the electron transport chain is still not sufficiently appreciated. O2 was an essential prerequisite for cristae development during early eukaryogenesis and could be the factor allowing cristae retention upon loss (...) of mitochondrial ATP generation. Here I analyze illuminating bacterial and unicellular eukaryotic examples. I also discuss formative influences of intracellular O2 consumption on the evolution of the last eukaryotic common ancestor (LECA). These considerations bring about an explanation for the many genes coming from other organisms than the archaeon and bacterium merging at the start of eukaryogenesis. (shrink)

The role of experience in the process of behavioral refinement has been undertheorized by philosophers of neuroscience and neuroscientists. By examining sleep studies in behavioral neurobiology, I show that scientists frequently invoke a variety of lived experiences—what I call experientially derived notions—to refine the behavior under investigation. Of note, these behaviors must remain sufficiently fuzzy throughout experimentation to permit refinement. The aim of this article is to recognize that neuroscientists’ use of lived experience necessarily helps refine behaviors and render those (...) behavioral terms relevant to human life. (shrink)

Evolvability—which, in its broadest sense, means any causal factor that influences an evolutionary system’s ability to evolve (e.g., epistatic interactions, constraints, standing genetic variation)—could be the most significant addition to evolutionary theory since neutral theory in the 1980s, and Hansen and colleagues’ Evolvability: A Unifying Concept in Evolutionary Biology? (2023) is a major step forward for the maturation of the concept of evolvability. According to Hansen and colleagues, since evolvability research exploded onto the scene in the 1990s, the concept has (...) developed divergently within the fields of evolutionary developmental biology, evolutionary quantitative genetics, paleobiology, and computational biology. No comprehensive attempt has so far been made to synthesize the expansive plurality of conceptions of evolvability. For this reason alone, I believe Hansen and colleagues' Evolvability: A Unifying Concept in Evolutionary Biology? (2023) is the steppingstone from which all future conceptual and empirical research on evolvability must build on. However, despite the acknowledged success of Hansen and colleagues (2023), the onerous tasks of maturing the concept of evolvability and successfully integrating it into modern evolutionary theory are now within reach but are still left incomplete. (shrink)

In this paper, I plan to show that the use of a specific population concept—Millstein’s Causal Interactionist Population Concept (CIPC)—has interesting and counter-intuitive ramifications for discussions of the reality of biological race in human beings. These peculiar ramifications apply to human beings writ large and to individuals. While this in and of itself may not be problematic, I plan to show that the ramifications that follow from applying Millstein’s CIPC to human beings complicates specific biological racial realist accounts—naïve or otherwise. (...) I conclude with the notion that even if biological races do exist—by fulfilling all of the criteria needed for Millstein’s population concept (which, given particular worries raised by Gannett (Synthese 177:363–385, 2010), and Winther and Kaplan (Theoria 60:54–80, 2013) may not)—the lower-bound limit for the scope of biological racial realism is at the level of populations, and as such they cannot say anything about whether or not individual organisms themselves have races. (shrink)

The mathematical universe hypothesis is a theory that the physical universe is not merely described by mathematics, but is mathematics, specifically a mathematical structure. Our research provides evidence that the mathematical structure of the universe is biological in nature and all systems, processes, and objects within the universe function in harmony with biological patterns. Living organisms are the result of the universe’s biological pattern and are embedded within their physiology the patterns of this biological universe. Therefore physiological patterns in living (...) organisms can be used as models to structurally map analogies from the biological domain to any target domain to reveal and understand the biological nature of the target domain. Our paper explores various analogies, structurally mapping a red blood cell to a cup; proteins produced from ribosomes to music produced from instruments; a beating heart to the melting and freezing of Antartica; cells, tissue, organs and blood, to people, organizations, industries, and money, and; bio-economic concepts in cellular society to socioeconomic concepts in human society. It also discusses how phenomena in cellular mitosis can help explain phenomena in the universe, such as black holes, dark matter, dark energy, and the structure of the universe. Building upon the concept of perennial wisdom, our research has provided evidence that the ideas of a biological universe were expressed across many past cultures and historical periods. The implications of this theory are vast, encompassing fields such as physics, science, philosophy, religion, law, economics, politics, and engineering, thus serving as a unifying theory for all knowledge. Our theory is supported by meta-analysis of scientific, historic, and religious literature, observations and first principles logic. (shrink)

The autophagy initiation complex is brought about via a highly ordered and stepwise assembly process. Two crucial signaling molecules, mTORC1 and AMPK, orchestrate this assembly by phosphorylating/dephosphorylating autophagy‐related proteins. Activation of Atg1 followed by recruitment of both Atg9 vesicles and the PI3K complex I to the PAS (phagophore assembly site) are particularly crucial steps in its formation. Ypt1, a small Rab GTPase in yeast cells, also plays an essential role in the formation of the autophagy initiation complex through multiple regulatory (...) pathways. In this review, our primary focus is to discuss how signaling molecules initiate the assembly of the autophagy initiation complex, and highlight the significant roles of Ypt1 in this process. We end by addressing issues that need future clarification. (shrink)

The aim of this paper is to elucidate the vital meaning and strategic role that nutrition holds in Claude Bernard’s “biological philosophy”, in the sense Auguste Comte gave to this expression, _i.e._ the theoretical part of biology. I propose that Bernard’s nutritive perspective on life should be thought of as an “interfield” object, following Holmes’ category. Not only does nutrition bridge disciplines like physiology and organic chemistry, as well as levels of inquiry ranging from special physiology to the organism’s total (...) level, including the cell and protoplasm, but it also forms the genetic and structural foundation for Bernard’s two fundamental axioms in general physiology: the necessary complementarity of destruction and creation (1) and the uniformity of this physiological law across all life forms, be it plants or animals (2). Because Bernard’s nutritive theory is a major pivot for the re-ordering of life and its characterization, I argue that it must be located and understood in the scientific and metaphysical context of his time, of which he claims to be the heir and challenger—what I propose to characterize as the “epistemic space” of nutrition, on the background of which Bernard builds his own “logic”. I then set out this _logic of nutrition_, focusing on three interrelated bernardian theses: the establishment of the theory of indirect nutrition as the basis for the notion of “milieu intérieur”; the enduring conception of nutrition as a continuous generation; the emphasis on nutrition as a way of reshaping the form/matter relationship. (shrink)

This article reformulates Stephan Helmreich´s the ¨microbiomisation of race¨ as the historiality of otherness in the foundations of human microbiome science. Through the lens of my ethnographic fieldwork of a transnational community of microbiome scientists that conducted a landmark human microbiome research on indigenous microbes and its affiliated and first personalised microbiome initiative, the American Gut Project, I follow and trace the key actors, experimental systems and onto-epistemic claims in the emergence of human microbiome science a decade ago. In doing (...) so, I show the links between the reinscription of race, comparative research on the microbial genetic variation of human populations and the remining of bioprospected data for personalised medicine. In these unpredictable research movements, the microbiome of non-Western peoples and territories is much more than a side project or a specific approach within the field: it constitutes the nucleus of its experimental system, opening towards subsequent and cumulative research processes and knowledge production in human microbiome science. The article demonstrates that while human microbiome science is articulated upon the microbial ‘makeup’ of non-wester(nised) communities, societies, and locales, its results and therapeutics are only applicable to medical conditions affecting rich nations (i.e., inflammatory, autoimmune, and metabolic diseases). My reformulation of ¨microbiomisation of race¨ as the condition of possibility of human microbiome science reveals that its individual dimension is sustained by microbial DNA data from human populations through bioprospecting practices and gains meaning through personalised medicine initiatives, informal online networks of pseudoscientific and commodified microbial-related evidence. (shrink)

This concise, accessible and engaging collection debunks the myths and corrects the falsehoods surrounding one of the most famous scientific figures in history - Charles Darwin. Leading scholars examine his life and work to set the historical record straight, and to draw conclusions about the very nature of science itself.

Remapping Biology with Goethe, Schelling, and Herder recruits a Romantic philosophy of biology into contemporary debates to both integrate the theoretical implications of ecology, evolution, and development, and to contextualize the successes of the Modern Evolutionary Synthesis's gene's-eye-view of biology. The dominant philosophy of biology in the twentieth century was one developed within and for the Modern Evolutionary Synthesis. As biologists like those developing an Extended Evolutionary Synthesis have pushed the limits of this paradigm, fresh philosophical approaches have become necessary. (...) This book makes the case that an organicism developed by the 19th century figures Goethe, Schelling, and Herder offers surprising resources to navigate the contemporary biological and evolutionary terrain. This "metamorphic organicism" resonates with present trends in biological theory that emphasize process, organismal dynamics, ecology, and agency. It also proposes strategies for reintegrating reductive and mechanistic maps of biology, like those of the Modern Evolutionary Synthesis, into richer theoretical representations of life. Drawing from cutting-edge biology, Romantic history, and perspectival pluralist literatures, this integrated history-and-philosophy-of-biology will be of interest to students and scholars interested in the genesis of current theoretical tensions in evolutionary biology, and to those seeking constructive ways to resolve those tensions, including practicing biologists and educators. (shrink)

This work aims to describe how developments in thinking on evolutionary biology require re-assessment of initial rejection of the relevance and applicability of neo-Darwinian evolution to the Gaia hypothesis.

This essay assesses the rationale for regulating research administrators as carefully as they regulate researchers. The reasons for such regulation are identical: protecting scientific integrity, ensuring responsible use of public funds, addressing the lack of effective recourse for victims, creating negative consequences for misbehaving actors, and addressing high incentives for misconduct. Whereas the reasons compelling us to regulate research administrators are obvious, counterarguments to administrative oversight are based on suggestions that the incidence and prevalence of cases of administrative misconduct are (...) too low to warrant formal regulation. I briefly describe examples of the phenomenon drawn from publicly available records. My analysis suggests that the misconduct of research administrators is both serious and worthy of better oversight. Improved oversight of research administration will help steward tax dollars appropriately and enhance the overall integrity of the scientific record and of the free pursuit of knowledge more generally. (shrink)

In this paper, I aim to explore whether fitness, understood as a causal disposition, can be characterized as an emergent property of organisms, or if it is reducible to the anatomical, physiological, and environmentally relative properties that characterize them. In doing so, I refer to Jessica Wilson’s characterization of ontological emergence and examine if fitness meets her criteria for ontological emergent properties (dependence and autonomy); and, if so, to what degree (weak or strong).

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)

Observational and experimental discoveries of new factual entities such as objects, systems, or processes, are major contributors to some advances in the life sciences. Yet, whereas discovery of theories was extensively deliberated by philosophers of science, very little philosophical attention was paid to the discovery of factual entities. This paper examines historical and philosophical aspects of the experimental discovery by Carl Woese of archaea, prokaryotes that comprise one of the three principal domains of the phylogenetic tree. Borrowing Kuhn’s terminology, this (...) discovery of a major biological entity was made during a ‘normal science’ project of building molecular taxonomy for prokaryotes. Unexpectedly, however, an observed anomaly instigated the discovery of archaea. Substantiation of the existence of the new archaeal entity and consequent reconstruction of the phylogenetic tree prompted replacement of a long-held model of a prokarya and eukarya bipartite tree of life by a new model of a tripartite tree comprising of bacteria, archaea, and eukarya. This paper explores the history and philosophical implications of the progression of Woese’s project from normal science to anomaly-instigated model-changing discovery. It is also shown that the consequential discoveries of RNA splicing and of ribozymes were similarly prompted by unexpected irregularities during normal science activities. It is thus submitted that some discoveries of factual biological entities are triggered by unforeseen observational or experimental anomalies. (shrink)

Has the renewal of interest in the ostensible agency of living beings signaled an advance from a merely heuristic Kantian sense of purposiveness to an unequivocally, empirically grounded research program or are there as yet hidden tensions or contradictions in, for example, the organizational autonomy approach to natural agency? Can normativity be found to be immanent in nature but only beginning with the living cell or must a thoroughgoing naturalism find the seeds of normativity immanent throughout abiotic as well as (...) biotic nature? Beginning with a brief exposition of Kant´s influential treatment and recommendation for how to methodologically combine what he took to be the inevitable epistemological limit to explaining the origins of ostensible biotic purposefulness with the legitimate intentions of scientific research and explanation, this essay will critically engage with three recent essays that attempt to grapple with the preceding questions. Having putatively raised questions about the consistency and adequacy of each of the individual positions, the essay will attempt to move synthetically, drawing upon aspects of all three contributions, in the direction of a “cooperativity theoretic” approach to incipient natural normativity and agency. (shrink)

The visible human body is composed of flesh and bones for the most part, yet an invisible orchestra of sensations and perceptions creates a virtual or phantom body that behaves like a shadow following every movement and gesture of its anatomical complement. This shadow becomes only “visible” to the individual when bodily integrity is affected, anatomically or cognitively. Phantom limbs have been known for a long time. They refer to the felt presence of a missing hand, leg, or other body (...) part as if it was still in place. Reciprocally and of a supposedly cognitive origin, phantom extremities are reported by some patients that feel the virtual presence of a supernumerary limb – signifying anatomical “overcompleteness.” However, other patients feel as one of their limbs does not belong to their body – signifying “foreignness”. Various shades of the so-called body integrity identity disorder exemplify the assumed complex signification processes within the human body. The Peircean theory of signs and the Uexküllian concept of endosemiosis are combined to approach the still poorly understood phantom phenomena in light of representation and embodiment. (shrink)

This article analyses the evolutionist discourses on the senses that emerged in the late 19th century, when theories on the evolution of species were in full sway. Drawing on newspapers, essays and medical literature, this article aims to set face to face the two currents of thought that I have identified regarding sensory evolution: the one that stressed the value of the progressive specialisation of the senses as evidence for human evolution mainly supported by Max Nordau, and the one which (...) regarded the sensory regrouping, exemplified by the phenomenon of synaesthesia, as the true symptom of evolution, strongly supported by Victor Segalen. A close examination of their arguments will provide clues concerning their relative position vis-à-vis the theory that stressed the exceptional nature of humankind among all living beings. Based on newspapers, essays and medical literature, this paper, which straddles several fields (history of science, philosophy, cultural history and aesthetics) aims to set both positions face to face, examining their arguments in detail and establishing their genealogies. This will lead to a better understanding of the scope and range of evolutionist discourses in the fin de siècle culture and on their impact upon artistic practices. (shrink)

The environment is a continuous source of matter and energy, which dynamizes the adaptive processes of biological systems, so that these systems emerge, persist or are extinguished as a consequence of their reactions to the environment. This perspective, forged from classical physics, gives way to multiple ecological theories, with evolution being the most prominent one. In all these cases, information would be both dependent and subsequent to matter and energy. Thus, the emergence and dynamics of genetic material or ecological attributes (...) such as abundance, richness or diversity depend mainly on the interaction of these two fundamental states. However, recent approaches from quantum physics and complexity views put forward the notion that information can be independent and prior to matter and energy, which allows us to see ecological processes from another perspective, i.e., as including complex biological systems as capable of showing emergent properties such as cognition. We proposed here a set of postulates and ideas that suggests how the ability to manipulate (internalize, integrate, store and generate) information can be developed by those systems, which would directly and non-randomly influence ecological attributes and their dynamics; i.e., how this property can possibly help replacing the notion of the environment as the ultimate cause of changes. Besides fully detailing the sources of knowledge and our rationale in this sense, we have also discussed how these thoughts and possibilities can be employed in devising better and more comprehensive approaches for biological conservation strategies. (shrink)

Biological individuality is without a doubt a key concept in philosophy of biology. Questions around the individuality of organisms, species, and biological systems can be traced throughout the philosophy of biology since the discipline’s inception, not to mention the sustained attention they have received in biology and philosophy more broadly. It’s high time the topic got its own Cambridge Element. McConwell’s Biological Individuality falls short of an authoritative overview of the debate on biological individuality. However, it sends a welcome message (...) to new and seasoned scholars to reorient the debate towards practically and politically relevant themes. (shrink)

Personalised nutrition (PN) has emerged over the past twenty years as a promising area of research in the postgenomic era and has been popularized as the new big thing out of molecular biology. Advocates of PN claim that previous approaches to nutrition sought general and universal guidance that applied to all people. In contrast, they contend that PN operates with the principle that “one size does not fit all” when it comes to dietary guidance. While the molecular mechanisms studied within (...) PN are new, the notion of a personal dietary regime guided by medical advice has a much longer history that can be traced back to Galen’s “On Food and Diet” or Ibn Sina’s (westernized as Avicenna) “Canon of Medicine”. Yet this history is either wholly ignored or misleadingly appropriated by PN proponents. This (mis)use of history, we argue helps to sustain the hype of the novelty of the proposed field and potential commodification of molecular advice that undermines longer histories of food management in premodern and non-Western cultures. Moreover, it elides how the longer history of nutritional advice always happened in a heavily moralized, gendered, and racialized context deeply entwined with collective technologies of power, not just individual advice. This article aims at offering a wider appreciation of this longer history to nuance the hype and exceptionalism surrounding contemporary claims. (shrink)

We often hear how scientists have discovered that a certain human trait – or a trait of another type of organism – is innate, genetic, heritable, inherited, naturally selected etc. All these claims have something in common: they all declare a trait to have significant organism internal (for instance genetic) causes that are present in the organism at its birth. I call claims like these “nativist claims”. Nativist claims are important. They shape our overall understanding of what we are, what (...) we can do and what is good for us. They also impact our practical decision making. For instance, we know that certain types of genes increase the risk of certain diseases, and increasingly this has an effect on healthcare practices. Many people believe that in the matter of children’s education we should consider the fact that many cognitive abilities are highly heritable. Associations between genetics and aggressive behavior have been taken to be alleviating circumstances in criminal sentencing. It is therefore important to correctly understand the content and implications of nativist claims. In this doctoral thesis I analyze, by philosophical means, the content of different kinds of nativist claim. What does it mean that some psychological tendency is innate? What does it mean that intelligence is 50% heritable? How (if at all) do genes come to carry information about the traits of an organism – they are nothing like the information carriers familiar to us, such as newspapers, e-mails, secret codes, and audio files. This thesis emphasizes two things. Firstly, I demonstrate, that in different scientific contexts these words ('innate', 'genetically caused' etc.) can mean very different things. Therefore, the implications of a given nativist claim in one scientific context can be remarkably different from another nativist claim’s implications in some other scientific context. Secondly, I explain how the development of innate, heritable and genetically caused traits can be determined in different and often unexpected ways by our environment and experiences. I demonstrate that the content of a concept that is considered innate by cognitive scientists can be determined by what the organism that possesses the concept has experienced. I also show that even a trait which is 100% heritable can at the same time be a socially constructed trait. (shrink)

Biological individuality is without a doubt a key concept in philosophy of biology. Questions around the individuality of organisms, species, and biological systems can be traced throughout the philosophy of biology since the discipline’s inception, not to mention the sustained attention they have received in biology and philosophy more broadly. It’s high time the topic got its own Cambridge Element. McConwell’s Biological Individuality falls short of an authoritative overview of the debate on biological individuality. However, it sends a welcome message (...) to new and seasoned scholars to reorient the debate towards practically and politically relevant themes. (shrink)

In a recent reply to Takacs and Bourrat’s article (Biol Philos 37:12, 2022), Autzen and Okasha (Biol Philos 37:37, 2022) question our characterization of the relationship between the geometric mean and arithmetic mean measures of fitness. We here take issue with the claim that our characterization falls prey to the mistakes they highlight. Briefly revisiting what Takacs and Bourrat (Biol Philos 37:12, 2022) accomplished reveals that the key issue of difference concerns cases of deterministic but nonconstant growth. Restricting focus to (...) such cases shows that there is in fact no reason for disagreement. (shrink)