Francesca Bellazzi

Proteins are often defined as the molecules that enable life thanks to the special functions they display. But what are proteins’ functions? Despite their relevance in various debates, the answer to this question is often left implicit. This paper argues that a correct characterisation of proteins’ functions must consider the native structure of the protein, building on Bellazzi’s definition of biochemical functions: proteins’ functions are dispositions associated to specific chemical and geometrical structural properties relevant for the tertiary and quaternary structure of proteins, and they contribute to specific evolved biological processes. Section 1 introduces the problem of protein’s functions. Section 2 unpacks the “structure problem” and the “function problem”, where the former inquiries into the function bearer of proteins’ function and the second into the relevant account of function. Section 3 presents an answer to the structure problem by arguing that the focus should be on native structure. Section 4 and Sect. 5 focus on the function problem and the account defended. Section 5 also considers two specific case studies, haemoglobin and crystallins, and a critical evaluation of the account. Section 6 concludes.

Proteins are often defined as the molecules that enable life thanks to the special functions they display. But what are proteins’ functions? Despite their relevance in various debates, the answer to this question is often left implicit. This paper argues that a correct characterisation of proteins’ functions must consider the native structure of the protein, building on the definition of biochemical functions I provided previously: proteins’ functions are dispositions associated to specific chemical and geometrical structural properties relevant for the tertiary and quaternary structure of proteins, and they contribute to specific evolved biological processes (Bellazzi, 2025). Section 1 introduces the problem of protein’s functions. Section 2 unpacks the “structure problem” and the “function problem”, where the former inquiries into the function bearer of proteins’ function and the second into the relevant account of function. Section 3 presents an answer to the structure problem by arguing that the focus should be on native structure. Section 4 and Section 5 focus on the function problem and the account defended. Section 5 also considers two specific case studies, haemoglobin and crystallines, and a critical evaluation of the account. Section 6 concludes

In this first part of a two-part response, we respond to Dong and Piccinini’s goal-contribution account (GCA) by arguing that it fails to adequately capture what makes something a function. As we see it, the core problem is that GCA ignores the role of past selection. Without reference to selection history, GCA struggles to distinguish functions from mere effects, especially in cases involving novel traits, dysfunction, or systemic breakdowns. We show that these challenges can be met by acknowledging the inescapability of past selection—even if we want to remain open to pluralist uses of “function” in science. In the end, we propose a new framework—the blueprint account—which integrates intuitions from causal role, organizational, and selection-based theories. While we may want to rethink how we talk about functions, we argue that any viable account will still need to take selection seriously.

Vitamins are important scientific categories in different contexts. This article argues that vitamins are investigative kinds in middle-range ontologies: Categories subject to open-ended investigation and that track features of the world. Section 2 presents the history of vitamin discovery to illustrate how the introduction of the “vitamin” category and subsequent research led to the identification of many different vitamins. Section 3 explores whether vitamins can be considered natural or conventional kinds. Section 4 argues that vitamins are investigative kinds. Section 5 considers the ontology of vitamins as investigative kinds in a middle-range ontology.

In this first part of a two-part response, we defend the selected effects (SE) theory of biological function against recent critiques by Dong and Piccinini. Challenging the claim that SE theory cannot accommodate novel mutations or artifacts, the authors argue that selection is inescapable for understanding function. They show that even novel traits often emerge from lineages with established functions and that artifacts can be integrated into SE accounts via intentional design and derived functions. Ultimately, we conclude that no compelling reason has been given to abandon or rethink the selected effects approach.

Biochemical kinds present an interesting case study in the philosophical literature on natural kinds and functions, as they fall between chemical kinds, defined by their intrinsic microstructural properties, and biological kinds, which involve functional and evolutionary considerations. Here we examine how the distinct chemical and functional properties of biochemical kinds are unified, as well as their identity criteria. We contend that unification principles are crucial for explaining the clustering of properties shared by members of natural kinds and for establishing identity criteria for such kinds. We consider whether there are specific properties that characterize biochemical kinds. This entails investigating the relationship between biochemical functions and structure. We focus on proteins, particularly on vitamin B12, as a representative example of a biochemical kind. We conclude that if there are unification principles for biochemical kinds, these principles exist at the level of biochemistry itself. This supports the naturalness of biochemical kinds as genuine categories and provides identity conditions for such kinds.

Pregnancy is a one of the most complex phenomena of life and is essential to the life cycle of mammals. Pregnancy is also a crucial aspect of humans' life and experience. But what is pregnancy? This question has received little attention in philosophy until recently, when it got picked up by metaphysicians and philosophers of science. However, the philosophical discussion is still in its infancy. This article provides a survey of the recent debate on the metaphysics of pregnancy. It explores the relation between the pregnant organism and the gestated one, motivating the further study of pregnancy from a philosophical perspective (§1, §2). It summarises the three main models of pregnancy present in the literature, the containment view (§3), the parthood view (§4) and the splitting process view (§5) with their advantages and shortcomings. Then, it explores a recent debate on whether pregnancy is a disease (§6). Lastly, it considers how one can decide between these models, for instance by favouring a given view of biological individuality over another (§7). The article concludes that none of the views is fully satisfactory, and thus inviting to continue the research on pregnancy from a metaphysical and philosophical perspective.

This paper will consider how the account of weak emergence presented by Wilson in the book Metaphysical emergence (2021) can be used to explore the relation between biochemical functions and chemical structure in biochemical molecules, as vitamin B12. The structure of the paper is the following. Section 2 will introduce why biochemical functions are interesting from a philosophical perspective and why their relation to molecular structure can be seen as problematic. In doing so, it will consider the definition of biochemical functions as in Bellazzi (2022) for which they can be seen as sets of chemical dispositional properties that contribute to biological processes. Section 3 will explore how, given this definition of biochemical functions, we can interpret the relation between chemical structure and biochemical structure via weak emergence. Section 4 concludes.

The present thesis explores some metaphysical issues concerning biochemical kinds and the relations between chemical and biological properties and phenomena. The main result of this thesis is that there is something sui generis about biochemical kinds. This result is motivated by two theoretical steps. The first is characterising biochemical functions as weakly emergent from the chemical structure [Chapter 3, Chapter 6]. The second is via an account for which biochemical kinds are natural categories [Chapter 4, Chapter 7]. The thesis comprises four parts. Part I [Chapter 1, Chapter 2] aims to offer the methodological and conceptual tools that underpin this research. Chapter 1 presents the debate on the unity of science and the motivation of the research. Chapter 2 presents the account of natural kinds that will be used throughout the thesis. Part II [Chapter 3, Chapter 4] offers a detailed metaphysical analysis of the molecular gene. Chapter 3 argues that molecular genes are weakly emergent from nucleic acids. Chapter 4 argues that the category "molecular gene" can be deemed a natural kind, following the account presented in Chapter 2. Part III [Chapter 5, Chapter 6, Chapter 7] explores some of the themes related to biochemical kinds and generalises some of the results from Part II. Chapter 5 considers biochemical functions and how functional attribution should be interpreted for biochemical molecules. Chapter 6 considers the relation between biochemical functions and structure, spelt in terms of weak emergence and explores unity in biochemistry. Chapter 7 considers the topic of biochemical kinds per se and argues that biochemical kinds are natural categories. Part IV [Chapter 8] elucidates the main outcome and the implications that this research can have for future discussion in the philosophy and metaphysics of biochemistry and the unity of science.

What is a gene? Does it represent a natural kind, or is it just a tool for genomics? A clear answer to these questions has been challenged by postgenomic discoveries. In response, I will argue that the gene can be deemed a natural kind as it satisfies some requirements for genuine kindhood. Specifically, natural kinds are projectible categories in our best scientific theories, and they represent nodes in the causal network of the world (as in Khalidi. Natural Categories and Human Kinds: Classification in the Natural and Social Sciences. Cambridge University Press, Cambridge, 2013; Khalidi. Synthese 195: 1379–1396, 2018; Khalidi. Are Sexes Natural Kinds, In: Dasgupta S, Weslake B (eds) Current Controversies in Philoso-phy of Science. Routledge, New York, 2020; Khalidi. Philos Sci 88:1–21, 2021). In Sect. 2, I will present a brief history of the gene and the controversy over its status. In Sect. 3, I will introduce the account of natural kinds considered in this paper. In Sect. 4, I will first present the relevant definition of genes and how they can be classified. Then, I will argue that the gene can be considered a natural kind as it satisfies the criteria for natural kindhood. Section 5 concludes.

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.

While much ink has been spilt over the political importance of speech, much less has been dedicated to the political importance of silence. This article seeks to fill that gap. We propose the need for a robust, democratic right to silence in public life and argue that there are politically salient epistemic reasons for recognising that right. We begin by defining what silence is and what a robust right to silence entails. We then argue that the right to silence offers two politically salient epistemic benefits. The first is that, if the right to silence is maintained, we can avoid the epistemic harm that may be caused when an individual is compelled to lie in public. The second is that the right to silence can protect marginalised individuals against the epistemic injustices that may arise when others are likely to misconstrue their speech.

Function talk is a constant across different life sciences. From macro-evolution to genetics, functions are mentioned everywhere. For example, a limb’s function is to allow movement and RNA polymerases’ function is to transcribe DNA. Biochemistry is not immune from such a characterization; the biochemical world seems to be a chemical world embedded within biological processes. Specifically, biochemists commonly ascribe functions to biomolecules and classify them accordingly, and this has been noted in the recent philosophical literature on biochemical kinds. But while a lot has been written on biological and psychological functions, little has been said explicitly about biochemical functions. Here, I explore functional attribution to biochemical molecules. I argue that if we accept this attribution, then biochemical functions are constituted by chemical dispositional properties that causally contribute to selected biological processes. In section 2, I discuss the controversy concerning the characterization of biochemical functions. In section 3, I consider whether a biological or a chemical understanding of function can be applied to biochemical functions, illustrating the account with the example of vitamin B12. The result is that none of these theories on their own can provide an adequate characterization. In section 4, I present an account of biochemical functions. In section 5, I assess this account, taking into consideration common requirements for a theory of functions and an objection.

From a moral point of view, what arguments are there for and against seeking COVID-19 vaccination? Can it be morally permissible to require (parts of) a population to receive a vaccine? The present paper adopts a perspective of virtue ethics and argues both that it is morally right for an individual virtuous moral agent to seek COVID-19 vaccination and for a virtuous ruler to impose mandatory vaccinations on her population.We begin by first presenting virtue ethics and the current vaccine controversy. Second, we examine whether a virtuous individual should get vaccinated. Third, we consider whether, from a moral point of view, it is right for a ruler to impose mandatory vaccinations on her citizens. Fourth, we answer some objections to our argument. Finally, we conclude that virtue ethical considerations warrant both the individual choice of getting vaccinated and mandatory vaccinations against COVID-19.

The identity and the existence of genes has been challenged by postgenomic discoveries. Specifically, the consideration of molecular and cellular phenomena in which genes are embedded has proved relevant for their understanding. In response to these challenges, I will argue that the complexity of genetic phenomena supports the weak emergence of genes from the DNA. In Section 2, I will expose what genes are taken to be in the postgenomic world. In Section 3, I will present the relevant account of emergence. I consider weak emergence as in Franklin and Knox, for which a phenomenon is emergent when it displays novelty and robustness. In Section 4, I will argue that genes are weakly emergent since they are novel, improving explanations, and robust in respect to some perturbations. Then, I will conclude in Section 5 that genes’ emergence is a way to allow genes’ flexibility and context dependency, without compromising their existence.

The global spread of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) or coronavirus disease 19 (COVID-19) has led to the imposition of severely restrictive measures by governments in the Western hemisphere. We feel a contrast between these measures and our freedom. This contrast, we argue, is a false perception. It only appears to us because we look at the issue through our contemporary moral philosophy of utilitarianism and an understanding of freedom as absence of constraints. Both these views can be substituted with more sophisticated alternatives, namely an ethics of virtue and a notion of freedom of the will. These offer a fuller picture of morality and enable us to cooperate with the current restrictions by consciously choosing to adhere to them instead of perceiving them as draconian and immoral. We ask whether we should collaborate with the restrictions and argue that considerations of virtue will lead to an affirmative answer. More broadly, virtue ethics permits to deal with the practical concerns about how an individual should behave during this pandemic, given the current lockdown measures or lack thereof. In section 1, we present how utilitarianism and a notion of freedom as negative liberty support the opposition to restrictive measures. In section 2, we outline an alternative based on an ethics of virtue and a more elaborated notion of free will. In the concluding section 3, we argue that considerations of virtue should guide the individual and public response to the emergency.