Are species real categories or just conventions? Are species natural kinds? Are teleological statements a distinctive feature of biology? Can life sciences escape from teleology? These are common issues in philosophy of biology. This paper aims to show that in order to answer to each of these questions it is inevitable to take a position respecting the others. Therefore, there is a historical relation between the concept of species and teleological issues. In order to analyse such relation, I will take (...) a historical perspective.After making such historical reconstruction focused on the Aristotle, Linnaeus, Buffon and Lamarck thoughts, I will analyse the Darwinian peculiar view respect teleology and his ideas about species. Although Darwin set out the collapse of teleological essentialisms in biology, there are important vestiges of teleology in his theory. (shrink)

Are species real categories or just conventions? Are species natural kinds? Are teleological statements a distinctive feature of biology? Can life sciences escape from teleology? These are common issues in philosophy of biology. This paper aims to show that in order to answer to each of these questions it is inevitable to take a position respecting the others. Therefore, there is a historical relation between the concept of species and teleological issues. In order to analyse such relation, I will take (...) a historical perspective.After making such historical reconstruction focused on the Aristotle, Linnaeus, Buffon and Lamarck thoughts, I will analyse the Darwinian peculiar view respect teleology and his ideas about species. Although Darwin set out the collapse of teleological essentialisms in biology, there are important vestiges of teleology in his theory. (shrink)

Robert Rosen’s relational biology and biosemiotics share the claim that life cannot be explained by the laws that apply to the inanimate world alone. In this paper, an integrated account of Rosen’s relational biology and Peirce’s semiosis is proposed. The ultimate goal is to contribute to the construction of a unified framework for the definition and study of life. The relational concepts of component and mapping, and the semiotic concepts of sign and triadic relation are discussed and compared, and a (...) representation of semiotic relations with mappings is proposed. The role of the final cause in two theories that account for what differentiates living beings, natural selection and relational biology, is analyzed. Then the presence of the final cause in Peirce’s semiosis is discussed and, with it, the similarities and differences between the theories of Rosen and Peirce are deepened. Then, a definition of a semiotic relation in an organism is proposed, and Short’s definition of interpretation is applied. Finally, a method to identify and analyze semiotic actions in an organism is proposed. (shrink)

A biologically unavoidable sequence is an infinite gender sequence which occurs in every gendered, infinite genealogical network satisfying certain tame conditions. We show that every eventually periodic sequence is biologically unavoidable (this generalizes König's Lemma), and we exhibit some biologically avoidable sequences. Finally we give an application of unavoidable sequences to cellular automata.

The goal of this essay is to assess the Selected-Effects Etiological Theory of biological function, according to which a trait has a function F if and only if it has been selected for F. First, I argue that this approach should be understood as describing the paradigm case of functions, rather than as establishing necessary and sufficient conditions for function possession. I contend that, interpreted in this way, the selected-effects approach can explain two central properties of functions and can (...) satisfactorily address some recent counterexamples. This reading, however, shows that there is only a partial overlap between biological functions and selected effects, so the former cannot be reduced to the latter. Finally, I maintain that this result is still compatible with a naturalistic theory of function that appeals to some evolutionary process. (shrink)

The article defends the doctrine that Linnaean taxa, including species, have essences that are, at least partly, underlying intrinsic, mostly genetic, properties. The consensus among philosophers of biology is that such essentialism is deeply wrong, indeed incompatible with Darwinism. I argue that biological generalizations about the morphology, physiology, and behavior of species require structural explanations that must advert to these essential properties. The objection that, according to current “species concepts,” species are relational is rejected. These concepts are primarily concerned (...) with what it is for a kind to be a species and throw little light on the essentialist issue of what it is for an organism to be a member of a particular kind. Finally, the article argues that this essentialism can accommodate features of Darwinism associated with variation and change. (shrink)

The chronologic age classically used in demography is often unable to give useful information about which exact stage in development or aging processes has reached an organism. Hence, we propose here to explain in some applications for what reason the chronologic age fails in explaining totally the observed state of an organism, which leads to propose a new notion, the biological age. This biological age is essentially determined by the number of divisions before the Hayflick’s limit the tissue (...) or mitochondrion in a critical organ (in the sense where its loss causes the death of the whole organism) has already used for its development and adult phases. We give a precise definition of the biological age of an organ based on the Hayflick’s limit of its cells and we introduce a desynchronization index (the cell entropy) for some critical tissues or membranes, which are mainly skin, intestinal endothelium, alveoli epithelium and mitochondrial inner membrane. In these actively metabolising interface tissues or membranes, there is a rapid turnover of cells, of their cytoplasmic constituents such as proteins, and of membrane lipids. The boundaries corresponding to these tissues, cells or membranes have vital functions of interface with the environment (protection, homeothermy, nutrition and respiration) and have a rapid turnover (the total cell renewal time is in mice equal to 3 weeks for the skin, 1.5 day for the intestine, 4 months for the alveolae and 11 days for mitochondrial inner membrane) conditioning their biological age. The biological age of a tissue is made of two major components: (1) first, its embryonic age based on the distance (in number of divisions) between the birth date of its first differentiated cell and the time until it reaches its final boundary at the end of its development and (2) second, its adult age whose complement until its death is just the lapse of time made of the sum of remaining cell cycle durations authorized by its Hayflick’s limit. From this definition, we calculate the global biological lifespan of an organism and revisit notions like demographic survival curves, duration and synchrony of cell cycles, living boundaries from proto-cells to organs, and embryonic and adult phases duration. (shrink)

Natural selection is commonly interpreted as the fundamental mechanism of evolution. Questions about how selection theory can claim to be the all-sufficient explanation of evolution often go unanswered by today's neo-Darwinists, perhaps for fear that any criticism of the evolutionary paradigm will encourage creationists and proponents of intelligent design.In Biological Emergences, Robert Reid argues that natural selection is not the cause of evolution. He writes that the causes of variations, which he refers to as natural experiments, are independent of (...) natural selection; indeed, he suggests, natural selection may get in the way of evolution. Reid proposes an alternative theory to explain how emergent novelties are generated and under what conditions they can overcome the resistance of natural selection. He suggests that what causes innovative variation causes evolution, and that these phenomena are environmental as well as organismal.After an extended critique of selectionism, Reid constructs an emergence theory of evolution, first examining the evidence in three causal arenas of emergent evolution: symbiosis/association, evolutionary physiology/behavior, and developmental evolution. Based on this evidence of causation, he proposes some working hypotheses, examining mechanisms and processes common to all three arenas, and arrives at a theoretical framework that accounts for generative mechanisms and emergent qualities. Without selectionism, Reid argues, evolutionary innovation can more easily be integrated into a general thesis. Finally, Reid proposes a biological synthesis of rapid emergent evolutionary phases and the prolonged, dynamically stable, non-evolutionary phases imposed by natural selection. (shrink)

My thesis is that biology is most plausibly regarded as a universal, as distinct from a provincial, science. First, I develop the general notion of a provincial science, formulate three criteria for applying the concept, and present brief examples illustrating their use. Second, I argue that a consideration of population genetics as a characteristic example of a basic biological theory strengthens the prior presumption that biology is not a provincial science. Finally, I examine two arguments to the effect that (...) biology is a provincial science. The first concerns biology's exclusively terrestrial evidence base, the second the logical character of its laws. I introduce considerations that weaken the persuasiveness of the first argument and then show that the second one rests upon a false premise and so should be rejected. (shrink)

Synthetic biology aims at making life easier to an engineer by applying biotechnology engineering principles such as standardization and modularity. I argue that living organisms are inherently non-machine, non-standardized entities and that the current state-of-the-art in SynBio combines pre- and post-standardization efforts, in a scenario without evidence that full standardization in biology is even possible. I finally propose a new view on SynBio based on purpose rather than on technicalities.

The nature and role of the patient in biomedicine comprise issues central to bioethical inquiry. Given its developmental history grounded firmly in a backlash against 20th-century cases of egregious human subjects abuse, contemporary medical bioethics has come to rely on a fundamental assumption: the unit of care is the autonomous self-directing patient. In this article we examine first the structure of the feminist social critique of autonomy. Then we show that a parallel argument can be made against relational autonomy as (...) well, demonstrating how this second concept of autonomy fails to take sufficiently into account an array of biological determinants, particularly those from microbial biology. Finally, in light of this biological critique, we question whether or to what extent any relevant and meaningful view of autonomy can be recovered in the contemporary landscape of bioethics. (shrink)

Absolute needs (as against instrumental needs) are independent of the ends, goals and purposes of personal agents. Against the view that the only needs are instrumental needs, David Wiggins and Garrett Thomson have defended absolute needs on the grounds that the verb ‘need’ has instrumental and absolute senses. While remaining neutral about it, this article does not adopt that approach. Instead, it suggests that there are absolute biological needs. The absolute nature of these needs is defended by appeal to: (...) their objectivity (as against mind-dependence); the universality of the phenomenon of needing across the plant and animal kingdoms; the impossibility that biological needs depend wholly upon the exercise of the abilities characteristic of personal agency; the contention that the possession of biological needs is prior to the possession of the abilities characteristic of personal agency. Finally, three philosophical usages of ‘normative’ are distinguished. On two of these, to describe a phenomenon or claim as ‘normative’ is to describe it as value-dependent. A description of a phenomenon or claim as ‘normative’ in the third sense does not entail such value-dependency, though it leaves open the possibility that value depends upon the phenomenon or upon the truth of the claim. It is argued that while survival needs (or claims about them) may well be normative in this third sense, they are normative in neither of the first two. Thus, the idea of absolute need is not inherently normative in either of the first two senses. (shrink)

This third paper locates the synthetic neurorobotics research reviewed in the second paper in terms of themes introduced in the first paper. It begins with biological non-reductionism as understood by Searle. It emphasizes the role of synthetic neurorobotics studies in accessing the dynamic structure essential to consciousness with a focus on system criticality and self, develops a distinction between simulated and formal consciousness based on this emphasis, reviews Tani and colleagues' work in light of this distinction, and ends by (...) forecasting the increasing importance of synthetic neurorobotics studies for cognitive science and philosophy of mind going forward, finally in regards to most- and myth-consciousness. (shrink)

This research aims to propose a new theory to account for the functions of biological objects. For this, I will show that the most accepted theories of biological functions fail, and then I will propose a new alternative that overcomes the given counterexamples. The research is divided into the following questions: i) appealing to various counterexamples, noting that there is no robust theory capable of accounting for the phenomenon; finally ii) I will give a minimal provisional / operational (...) theory, which allows us to continue incorporating the functional dimension of the features. (shrink)

I will, first, outline what we currently know about the last 4 million years of human evolutionary history, from bipedal but small‐brained Australopithecus to modern Homo sapiens, our species, through the prolific toolmaker Homo habilis and the continent wanderer Homo erectus. I shall then identify anatomical traits that distinguish us from other animals and point out our two kinds of heredity, the biological and the cultural.Biological inheritance is based on the transmission of genetic information, in humans very much (...) the same as in other sexually reproducing organisms. But cultural inheritance is distinctively human, based on transmission of information by a teaching and learning process that is in principle independent of biological parentage. Cultural inheritance makes possible the cumulative transmission of experience from generation to generation. Cultural heredity is a swifter and more effective (because it can be designed) mode of adaptation to the environment than the biological mode. The advent of cultural heredity ushered in cultural evolution, which transcends biological evolution.I will, finally, explore ethical behavior as a model case of a distinctive human trait, and seek to ascertain the causal connections between human ethics and human biology. My conclusions are that (1) moral reasoning—that is, the proclivity to make ethical judgments by evaluating actions as either good or evil—is rooted in our biological nature; it is a necessary outcome of our exalted intelligence, but (2) the moral codes that guide our decisions as to which actions are good and which ones are evil are products of culture, including social and religious traditions. This second conclusion contradicts those evolutionists and sociobiologists who claim that the morally good is simply that which is promoted by the process of biological evolution. (shrink)

This research aims to propose a new theory to account for the functions of biological objects. For this, I will show that the most accepted theories of biological functions fail, and then I will propose a new alternative that overcomes the given counterexamples. The research is divided into the following questions: i) appealing to various counterexamples, noting that there is no robust theory capable of accounting for the phenomenon; finally ii) I will give a minimal provisional / operational (...) theory, which allows us to continue incorporating the functional dimension of the features. (shrink)

Living systems employ several mechanisms and behaviors to achieve robustness and maintain themselves under changing internal and external conditions. Regulation stands out from them as a specific form of higher-order control, exerted over the basic regime responsible for the production and maintenance of the organism, and provides the system with the capacity to act on its own constitutive dynamics. It consists in the capability to selectively shift between different available regimes of self-production and self-maintenance in response to specific signals and (...) perturbations, due to the action of a dedicated subsystem which is operationally distinct from the regulated ones. The role of regulation, however, is not exhausted by its contribution to maintain a living system’s viability. While enhancing robustness, regulatory mechanisms play a fundamental role in the realization of an autonomous biological organization. Specifically, they are at the basis of the remarkable integration of biological systems, insofar as they coordinate and modulate the activity of distinct functional subsystems. Moreover, by implementing complex and hierarchically organized control architectures, they allow for an increase in structural and organizational complexity while minimizing fragility. Finally, they endow living systems, from their most basic unicellular instances, with the capability to control their own internal dynamics to adaptively respond to specific features of their interaction with the environment, thus providing the basis for the emergence of minimal forms of cognition. (shrink)

A familiar position regarding the evolution of ethics is that biology can explain the origin of morals but that in doing so it removes the possibility of their having objective justification. This position is set fourth in detail in the writings of Michael Ruse but it is also taken by many others, notably, Jeffrie Murphy, Andrew Oldenquist, and Allan Gibbard, I argue the contrary view that biology provides a justification of the existence of morals which is objective in the sense (...) of being independent of people's moral views and their particular desires and preferences. Ironically, my argument builds on the very premises which are supposed to undermine the objectivity of morals. But my argument stops short of claiming that biology can give us a basis for justifying some particular system of morals. Drawing on an analogy with social contract theory, I offer a general reason why this more ambitious project cannot be expected to succeed if the argument is pursued along the same lines. Finally, I give reasons why the possibility of objective justification for a particular morality cannot be ruled out in general on evolutionary grounds. (shrink)

In this chapter we examine the relationship between biological information, the key biological concept of specificity, and recent philosophical work on causation. We begin by showing how talk of information in the molecular biosciences grew out of efforts to understand the sources of biological specificity. We then introduce the idea of ‘causal specificity’ from recent work on causation in philosophy, and our own, information theoretic measure of causal specificity. Biological specificity, we argue, is simple the causal (...) specificity of certain biological processes. This, we suggest, means that causal relationships in biology are ‘informational’ relationships simply when they are highly specific relationships. Biological information can be identified with the storage, transmission and exercise of biological specificity. It has been argued that causal relationships should not be regarded as informational relationship unless they are ‘arbitrary’. We argue that, whilst arbitrariness is an important feature of many causal relationships in living systems, it should not be used in this way to delimit biological information. Finally, we argue that biological specificity, and hence biological information, is not confined to nucleic acids but distributed among a wide range of entities and processes. (shrink)

I discuss the moral significance of artificial life within synthetic biology via a discussion of Douglas, Powell and Savulescu's paper 'Is the creation of artificial life morally significant’. I argue that the definitions of 'artificial life’ and of 'moral significance’ are too narrow. Douglas, Powell and Savulescu's definition of artificial life does not capture all core projects of synthetic biology or the ethical concerns that have been voiced, and their definition of moral significance fails to take into account the possibility (...) that creating artificial life is conditionally acceptable. Finally, I show how several important objections to synthetic biology are plausibly understood as arguing that creating artificial life in a wide sense is only conditionally acceptable. (shrink)

Both biological traits and artifacts have proper functions. But accounts of proper function are typically based on the biological case. So adapting these accounts to the artifact case requires finding cultural analogues of biological concepts. This can go wrong in two ways. The biological concepts may not pick out either biological or cultural proper functions correctly; or they may have no cultural analogues. I argue that things have gone wrong in the first way with regard (...) to selection and in the second way with regard to fitness. Finally, I argue that the only way forward is to examine the phenomena of reproduction and use in material culture. -/- . (shrink)

It has become commonplace to say that with the advent of technologies like synthetic biology the line between artifacts and living organisms, policed by metaphysicians since antiquity, is beginning to blur. But that line began to blur 10,000 years ago when plants and animals were first domesticated; and has been thoroughly blurred at least since agriculture became the dominant human subsistence pattern many millennia ago. Synthetic biology is ultimately only a late and unexceptional offshoot of this prehistoric development. From this (...) perspective, then, synthetic biology is a red herring, distracting us from more thorough philosophical consideration of the most truly revolutionary human practice—agriculture. In the first section of this paper I will make this case with regard to ontology, arguing that synthetic biology crosses no ontological lines that were not crossed already in the Neolithic. In the second section I will construct a parallel case with regard to cognition, arguing that synthetic biology as biological engineering represents no cognitive advance over what was required for domestication and the new agricultural subsistence pattern it grounds. In the final section I will make the case with regard to human existence, arguing that synthetic biology, even if wildly successful, is not in a position to cause significant existential change in what it is to be human over and above the massive existential change caused by the transition to agriculture. I conclude that a longer historical perspective casts new light on some important issues in philosophy of technology and environmental philosophy. (shrink)

ABSTRACTThe crisis of European sciences in Husserl’s late work diagnoses Galilean science as specifically and necessarily losing touch with the intuitive evidence that would legitimate it due to its reliance on a formal-mathematical conceptual apparatus. While the vast majority of Husserl’s late work was focussed on a critique of the formal-mathematical paradigm of the physical science of nature, at several points the possibility of biology as the exemplary science is raised to suggest that the lack of a reliance on formal-mathematical (...) conceptual language would mean that a systemic crisis would not occur in such a case. This investigation considers the grounds for the expectation that biology would not engender a crisis, suggests that a paradigmatic role for ecology would more adequately address this expectation, and finally claims that the question of the relation between a specific exemplary science and transcendental phenomenology is not fully resolved even in this case. (shrink)

First, a brief history is provided of Popper's views on the status of evolutionary biology as a science. The views of some prominent biologists are then canvassed on the matter of falsifiability and its relation to evolutionary biology. Following that, I argue that Popper's programme of falsifiability does indeed exclude evolutionary biology from within the circumference of genuine science, that Popper's programme is fundamentally incoherent, and that the correction of this incoherence results in a greatly expanded and much more realistic (...) concept of what is empirical, resulting in the inclusion of evolutionary biology. Finally, this expanded concept of empirical is applied to two particular problems in evolutionary biology — viz., the species problem and the debate over the theory of punctuated equilibria — and it is argued that both of them are still mainly metaphysical. (shrink)

The book addresses three main issues. The first concerns the essences (natures, identities) of biological taxa, particularly species. Kripke and other metaphysicians hold that these essences are (at least partly) intrinsic, underlying, probably largely genetic properties. This view, based largely on intuitions, is dismissed by the consensus in the philosophy of biology as being incompatible with Darwinism and reflecting ignorance of biology. The book argues that the demands of biological explanation show that the metaphysicians are right. The positive (...) view of the consensus is that the essences are wholly relational: taxa must have certain histories. The book argues that there is indeed an historical component to the essence, but this component presupposes an intrinsic component. The book’s second issue concerns the essences of biological individuals. Metaphysicians have had much to say about this, again on the basis of intuitions. Many hold that an individual is essentially a member of its species. This has recently been unequivocally rejected by philosophers of biology. The book appeals to biological explanation again to argue for essential membership; furthermore, to argue for the Kripkean view that an organism’s essence is partly intrinsic and partly relational (a matter of origin). Finally, the book addresses the lively contemporary issue of whether race is biologically “real”. From the perspective developed earlier, the book argues that there are indeed racial kinds, in some sense, that are “in the realm of the biological”. These kinds also have partly historical and partly intrinsic underlying essences. (shrink)

Biologists and philosophers often use the language of determination in order to describe the nature of developmental phenomena. Accounts in terms of determination have often been reductionist. One common idea is that DNA is supposed to play a special explanatory role in developmental explanations, namely, that DNA is a developmental determinant. In this article we try to make sense of determination claims in developmental biology. Adopting a manipulationist approach, we shall first argue that the notion of developmental determinant is causal. (...) We suggest that two different theses concerning developmental determination can be articulated: determination of occurrence and structural determination. We shall argue that, while the first thesis is problematic, the second, opportunely qualified, is feasible. Finally, we shall argue that an analysis of biological causation in terms of determination cannot account for entangled dynamics. Characterising causal entanglement as a particular kind of interactive causation whereby difference-making causes ascribable to different levels of biological organisation influence a particular ontogenetic outcome, we shall, via two illustrative examples, diagnose some potential limits of a reductionist, molecular and intra-level understanding of biological causation. (shrink)

This paper examines two parallel discussions of scientific modeling which have invoked experimentation in addressing the role of models in scientific inquiry. One side discusses the experimental character of models, whereas the other focuses on their exploratory uses. Although both relate modeling to experimentation, they do so differently. The former has considered the similarities and differences between models and experiments, addressing, in particular, the epistemic value of materiality. By contrast, the focus on exploratory modeling has highlighted the various kinds of (...) exploratory functions of models in the early stages of inquiry. These two perspectives on modeling are discussed through a case study in the field of synthetic biology. The research practice in question explores biological control by making use of an ensemble of different epistemic means: mathematical models and simulations, synthetic genetic circuits and intracellular measuring devices, and finally electronic circuits. We argue that the study of exploratory modeling should trace the ways different epistemic means, in different materialities, are being combined over time. Finally, the epistemic status of such novel investigative objects as synthetic genetic circuits is evaluated, with the conclusion that they can function as both experiments and models. (shrink)

The paper discusses the characteristics of Biological Intelligence (BI) and its differences with artificial intelligence. In particular the plasticity of the nervous system is considered in the different forms with special attention to deterministic and localizationist views of the brain vs holistic approaches. When memory and learning are considered the localizationist views do not offer a possible solution to a number of problems while memory may be better conceptualized in terms of categorization procedures and generalizing strategies. Finally, the problem (...) of individual variability, an important feature in terms of BI, is considered. The legitimacy of analogies between BI and AI is discussed and the necessity for an innovative approach to the field of AI is stressed. (shrink)

Which domains of biology do philosophers of biology primarily study? The fact that philosophy of biology has been dominated by an interest for evolutionary biology is widely admitted, but it has not been strictly demonstrated. Here I analyse the topics of all the papers published in Biology & Philosophy, just as the journal celebrates its thirtieth anniversary. I then compare the distribution of biological topics in Biology & Philosophy with that of the scientific journal Proceedings of the National Academy (...) of Science of the USA, focusing on the recent period 2003–2015. This comparison reveals a significant mismatch between the distributions of these topics. I examine plausible explanations for that mismatch. Finally, I argue that many biological topics underrepresented in philosophy of biology raise important philosophical issues and should therefore play a more central role in future philosophy of biology. (shrink)

Difficulties with the typological concept of species led biologists to reject the "typological" presupposition of an archetype which is manifest in each member of a species. The resulting concept of species, which is here called the phenotypic species concept, is considered as implying that biological species are not real. Modern population thinking has given rise to the concept of a species as a gene-pool. This modern concept is contrasted here with the phenotypic concept in light of some general criteria (...) for evaluating species concepts and is shown to be more satisfactory. Finally, it is held that to ask if a species is real is to ask whether the species grouping arrived at by applying the principles involved in the species concept corresponds with groups of organisms amongst which important biological relationships exist. It is argued that in this sense species, as defined by the gene-pool concept, are certainly real. (shrink)

In this paper I attempt to show that adaptational sentences (i.e. sentences containing the terms "adaptive", "adapted", etc.) in evolutionary biology are best interpreted as equivalent to sentences about Darwinian or genetical selection. Thus, the use of adaptational languages does not introduce final purposes or other nonempirical notions into biology. I also try to demonstrate that adaptational sentences and functional sentences are not equivalent in an evolutionary context so that an analysis of function does not dispense with the need for (...) an analysis of adaptation. Finally, it is argued that, although some adaptational sentences might be construed as teleological explanations, given an empirical content, they do not serve as explanations. Rather, they express the outcome of selection, regarded in one way, and regarded in another, they express data for which a theory of evolution must account. (shrink)

Is life different from the non-living? If so, how? And how, in that case, does biology as the study of living things differ from other sciences? These questions are traced through an exploration of episodes in the history of biology and philosophy. The book begins with Aristotle, then moves on to Descartes, comparing his position with that of Harvey. In the eighteenth century the authors consider Buffon and Kant. In the nineteenth century the authors examine the Cuvier-Geoffroy debate, pre-Darwinian geology (...) and natural theology, Darwin and the transition from Darwin to the revival of Mendelism. Two chapters deal with the evolutionary synthesis and such questions as the species problem, the reducibility or otherwise of biology to physics and chemistry, and the problem of biological explanation in terms of function and teleology. The final chapters reflect on the implications of the philosophy of biology for philosophy of science in general. (shrink)

The theory of biological evolution has often provoked disagreement, which has frequently been divisive and counterproductive. At other times this scientific paradigm has been discussed with an apologetic intent, to explain why the science of biology and the theology of creation cannot be seen to be mutually exclusive. This paper urges Christians to move decisively to a third type of discourse. The new field of comparative genetics has provided conclusive evidence that biological evolution has given rise to the (...) diversity of living forms, including human beings. Consequently, Christians should, with confidence, gladly accept the evolutionary paradigm and look upon evolution as a divinely ordained historical process that develops through random (stochastic, free) process, but that leads to a divinely purposed consummation. As a result, biological history in its freedom but directedness to God’s final purposes should elicit wonder. People who have come to faith in the God revealed redemptively in Jesus should uninhibitedly offer adoration and praise for evolutionary fruitfulness. Worship should characterise the human response to biological history.[1] [1] In appreciation of Professor Tom McLeish FRS, scientist, teacher, theologian. (shrink)

Asking and answering questions is the cornerstone of science yet formal training in understanding this key process is often overlooked. "Asking Questions in Biology" unpacks this crucial process of enquiry, from a biological perspective, at its various stages. It begins with an overview of scientific question-asking in general, before moving on to demonstrate how to derive hypotheses from unstructured observations. It then explains in the main sections of the book, how to use statistical tests as tools to analyse data (...) and answer those questions before, finally, showing the best practice in presenting scientific reports. As such, it is an indispensable companion to all students of biology, but particularly those enrolled in courses concerning experimental design; data analysis; hypothesis testing; research methods; or any practical project work. The late Chris Barnard was Professor of Animal Behaviour at Nottingham University. Francis Gilbert is Associate Professor of Ecology at Nottingham University. Peter McGregor isa Reader in Applied Zoologyat Cornwall College. ". (shrink)

The so-called ‘type method’ widely employed in biological taxonomy is often seen as conforming to the causal-historical theory of reference. In this paper, I argue for an alternative account of reference for biological nomenclature in which taxon names are understood as descriptive names. A descriptive name, as the concept came to be known from the work of Gareth Evans, is a referring expression introduced by a definite description. There are three main differences between the DN and the causal (...) account. First, according to the DN account, rather than fixing a name to a referent, the assignment of a type specimen to serve as the name-bearer for a taxon should be seen as performatively establishing a synonymy between a name and a definite description of the form “the taxon whose type is t”. Each taxon name is therefore associated with a criterion of application, a semantic rule that establishes the connection between the name and the descriptive content. This is the second major difference from the causal account: taxon names do have some descriptive content associated with them. The final locus of dissent concerns the strength of the modality resulting from the usage of taxon names. In order to address this point, I use the DN account to focus on the debate between Matt Haber and Joeri Witteveen concerning misidentification of type specimens, misapplication of names, and the truth conditions of Joseph LaPorte’s de dicto necessary sentence “Necessarily, any species with a type specimen contains its type specimen”. Using a pragmatic variant of the distinction between attributive and referential uses of descriptions, I argue that a metalinguistic version of the de dicto sentence is in fact falsified, as previously argued by Haber. (shrink)

We will consider two Christian responses to the enormous advances in recent years in the connected sciences of genetics, evolutionary biology, and biochemistry, a dualist one by Pope John Paul II and an “emergentist” one by Arthur Peacocke. These two could hardly be more different. It would be impossible within the scope of a brief comment to do justice to these differences. What I hope to do instead is more modest: to draw attention to troublesome ambiguities in some of the (...) key concepts on which discussions of human uniqueness depend, to recall very briefly some of the difficulties philosophers have encountered in their attempts to define the relation of the human powers of mind to the material capacities of body, and finally to ask what the theological significance of all this is. (shrink)

Consciousness has traditionally been the subject matter of philosophy. However, especially in recent years, various branches of science have attempted to develop theories of consciousness. I evaluate the biological theories of Francis Crick, Gerald Edelman, and Antti Revonsuo in order to gauge the current state of biological accounts of consciousness. I begin with an explication of the easy and hard problems of consciousness as defined by David Chalmers. Next, I summarize how each theory defines ‘consciousness’ and then I (...) evaluate each theoretical model. Finally, I evaluate the models in terms of the easy problems and, especially, the hard problem. My aim in this work is to demonstrate that the current biological theories of consciousness are inadequate. This claim is not tantamount to one that claims that the theories are ineffective. On the contrary, these theories tend to be more useful than not. However, these biological models do not address the most essential component of consciousness that is subjective phenomenological experience. (shrink)

I argue (1) that Searle's reductive stance about mental causation is unwarranted on evolutionary, logical, and neuroscientific grounds; and (2) that his theory of weak emergence, called biological naturalism, fails to provide a satisfactory account of objectual unity and subject unity. Finally I propose a stronger variety of emergence called emergent subject dualism (ESD) to fill the gaps in Searle's account, and support ESD on grounds of recent evidence in neuroscience. Hence I show how it is possible, if not (...) also theoretically preferable, to go from Searle's biological naturalism to emergent subject dualism. (shrink)

In the last few years, biologists and computer scientists have claimed that the introduction of data science techniques in molecular biology has changed the characteristics and the aims of typical outputs (i.e. models) of such a discipline. In this paper we will critically examine this claim. First, we identify the received view on models and their aims in molecular biology. Models in molecular biology are mechanistic and explanatory. Next, we identify the scope and aims of data science (machine learning in (...) particular). These lie mainly in the creation of predictive models which performances increase as data set increases. Next, we will identify a tradeoff between predictive and explanatory performances by comparing the features of mechanistic and predictive models. Finally, we show how this a priori analysis of machine learning and mechanistic research applies to actual biological practice. This will be done by analyzing the publications of a consortium—The Cancer Genome Atlas—which stands at the forefront in integrating data science and molecular biology. The result will be that biologists have to deal with the tradeoff between explaining and predicting that we have identified, and hence the explanatory force of the ‘new’ biology is substantially diminished if compared to the ‘old’ biology. However, this aspect also emphasizes the existence of other research goals which make predictive force independent from explanation. (shrink)

In the last few years, biologists and computer scientists have claimed that the introduction of data science techniques in molecular biology has changed the characteristics and the aims of typical outputs (i.e. models) of such a discipline. In this paper we will critically examine this claim. First, we identify the received view on models and their aims in molecular biology. Models in molecular biology are mechanistic and explanatory. Next, we identify the scope and aims of data science (machine learning in (...) particular). These lie mainly in the creation of predictive models which performances increase as data set increases. Next, we will identify a tradeoff between predictive and explanatory performances by comparing the features of mechanistic and predictive models. Finally, we show how this a priori analysis of machine learning and mechanistic research applies to actual biological practice. This will be done by analyzing the publications of a consortium—The Cancer Genome Atlas—which stands at the forefront in integrating data science and molecular biology. The result will be that biologists have to deal with the tradeoff between explaining and predicting that we have identified, and hence the explanatory force of the ‘new’ biology is substantially diminished if compared to the ‘old’ biology. However, this aspect also emphasizes the existence of other research goals which make predictive force independent from explanation. (shrink)

In dicephalus conjoined twinning, it appears that two heads share a body; in cephalopagus, it appears that two bodies share a head. How many human animals are present in these cases? One answer is that there are two in both cases—conjoined twins are precisely that, conjoined twins. Another is that the number of humans corresponds to the number of bodies—so there is one in dicephalus and two in cephalopagus. I show that both of these answers are incorrect. Prominent accounts of (...) biological individuation, which treat the organism as an integrated whole, reveal that in these and other cases of conjoined twinning the ‘twins’ share a single human animal. This has a number of consequences for the debate about what we are. First, if animalism is true, individuals of our kind can be—and are—profoundly psychologically divided. Second, cephalopagus twinning does not divide animalism from its rivals, as has been claimed. Finally, animalists can reply to a vicious species of the ‘too many thinkers’ problem to which they are allegedly uniquely vulnerable. (shrink)

For most of this past century, scholarship on the topics of personal- ity and emotion has emerged from the humanities and social sciences. In the past decade, a remarkable change has occurred in the influence of neuro- science on the conceptualization and study of these phenomena. This article ar- gues that the categories that have emerged from psychiatric nosology and descriptive personality theory may be inadequate, and that new categories and dimensions derived from neuroscience research may produce a more tractable (...) parsing of this complex domain. The article concludes by noting that the dis- covery of these biological differences among individuals does not imply that the origins of these differences lie in heritable influences. Experiential shaping of the brain circuitry underlying emotion is powerful. The neural architecture provides the final common pathway through which culture, social factors, and genetics all operate together. (shrink)

A few philosophers of biology have recently explicitly rejected Essential Membership, the doctrine that if an individual organism belongs to a taxon, particularly a species, it does so essentially. But philosophers of biology have not addressed the broader issue, much discussed by metaphysicians on the basis of modal intuitions, of what is essential to the organism. In this paper, I address that issue from a biological basis, arguing for the Kripkean view that an organism has a partly intrinsic, partly (...) historical, essence. The arguments appeal to the demands of biological explanation and are analogous to arguments that I have given elsewhere that a taxon has a partly intrinsic, partly historical, essence. These conclusions about the essences of individuals and taxa yield an argument for Essential Membership. Finally, I cast doubt on LaPorte’s objection to that doctrine arising from the view that a species cannot survive having a daughter. (shrink)

Back cover: This book develops a philosophical account that reveals the major characteristics that make an explanation in the life sciences reductive and distinguish them from non-reductive explanations. Understanding what reductive explanations are enables one to assess the conditions under which reductive explanations are adequate and thus enhances debates about explanatory reductionism. The account of reductive explanation presented in this book has three major characteristics. First, it emerges from a critical reconstruction of the explanatory practice of the life sciences itself. (...) Second, the account is monistic since it specifies one set of criteria that apply to explanations in the life sciences in general. Finally, the account is ontic in that it traces the reductivity of an explanation back to certain relations that exist between objects in the world (such as part-whole relations and level relations), rather than to the logical relations between sentences. Beginning with a disclosure of the meta-philosophical assumptions that underlie the author’s analysis of reductive explanation, the book leads into the debate about reduction(ism) in the philosophy of biology and continues with a discussion on the two perspectives on explanatory reduction that have been proposed in the philosophy of biology so far. The author scrutinizes how the issue of reduction becomes entangled with explanation and analyzes two concepts, the concept of a biological part and the concept of a level of organization. The results of these five chapters constitute the ground on which the author bases her final chapter, developing her ontic account of reductive explanation. (shrink)

We describe a prey–predator system incorporating constant prey refuge through provision of alternative food to predators. The proposed model deals with a problem of non-selective harvesting of a prey–predator system in which both the prey and the predator species obey logistic law of growth. The long-run sustainability of an exploited system is discussed through provision of alternative food to predators. We have analyzed the variability of the system in presence of constant prey refuge and examined the stabilizing effect on predator–prey (...) system. The steady states of the system are derived and dynamical behavior of the system is extensively analyzed around steady states. The optimal harvesting policy is formulated and solved with the help of Pontryagin’s maximal principle. Our objective is to maximize the monetary social benefit through protecting the predator species from extinction, keeping the ecological balance. Results finally illustrated with the help of numerical examples. (shrink)

We critically analyze Alexander Rosenberg’s argument based on the multiple realizability of biological properties that there are no biological laws. The argument is intuitive and suggestive. Nevertheless, a closer analysis reveals that the argument rests on dubious assumptions about the nature of natural selection, laws of nature, and multiple realizability. We also argue that the argument is limited in scope, since it applies to an outmoded account of laws and the applicability of the argument to other more promising (...) accounts of laws is questionable. Another concern of ours is that the relation between multiple realizability and natural selection is more complex than Rosenberg acknowledges. Finally, we claim that an explanation for why Rosenberg’s argument appears persuasive and appealing is that the argument is based on an inflated concept of multiple realizability that rests on unreliable intuitions concerning what counts as a different realization of the same property. Consequently, we argue that the argument is at best inconclusive and at worst false insofar as its implications for the existence of biological laws are concerned. (shrink)

The contingency of biological regularities—and its implications for the existence of biological laws—has long puzzled biologists and philosophers. The best argument for the contingency of biological regularities is John Beatty’s evolutionary contingency thesis, which will be re-analyzed here. First, I argue that in Beatty’s thesis there are two versions of strong contingency used as arguments against biological laws that have gone unnoticed by his commentators. Second, Beatty’s two different versions of strong contingency are analyzed in terms (...) of two different stabilities of regularities. Third, I argue that Beatty and his commentators have focused on the more ineffective trajectory stability version of the argument, whereas the constancy stability version provides a more substantial and applicable argument against the existence of biological laws. Fourth, I develop a counterexample to Beatty’s thesis. Finally, I discuss the possibility of evolution producing repeatable and general non-lawlike regularities and patterns by utilizing the notion of generative entrenchment and by criticizing the thesis of multiple realizability of biological properties. (shrink)