John Dupre

Charles Darwin transformed our understanding of the universe and our place in it with his development of the theory of evolution. 150 years later, we are still puzzling over the implications. John Dupr presents a lucid, witty introduction to evolution and what it means for our view of humanity, the natural world, and religion. He explains the right and the wrong ways to understand evolution: in the latter category fall most of the claims of evolutionary psychology, of which Dupr gives a withering critique. He shows why the theory of evolution is one of the most important scientific ideas of all time, but makes clear that it can't explain everything - contrary to widespread popular belief, it has very little to tell us about the details of human nature and human behaviour, such as language, culture, and sexuality. Anyone who is interested in understanding what the theory of evolution can and can't do will find Darwin's Legacy a compelling and enjoyable introduction

This collection of essays explores the metaphysical thesis that the living world is not made up of substantial particles or things, as has often been assumed, but is rather constituted by processes. The biological domain is organised as an interdependent hierarchy of processes, which are stabilised and actively maintained at different timescales. Even entities that intuitively appear to be paradigms of things, such as organisms, are actually better understood as processes. Unlike previous attempts to articulate processual views of biology, which have tended to use Alfred North Whitehead’s panpsychist metaphysics as a foundation, this book takes a naturalistic approach to metaphysics. It submits that the main motivations for replacing an ontology of substances with one of processes are to be found in the empirical findings of science. Biology provides compelling reasons for thinking that the living realm is fundamentally dynamic, and that the existence of things is always conditional on the existence of processes. The phenomenon of life cries out for theories that prioritise processes over things, and it suggests that the central explanandum of biology is not change but rather stability, or more precisely, stability attained through constant change. This edited volume brings together philosophers of science and metaphysicians interested in exploring the consequences of a processual philosophy of biology. The contributors draw on an extremely wide range of biological case studies, and employ a process perspective to cast new light on a number of traditional philosophical problems, such as identity, persistence, and individuality.

This chapter argues that scientific and philosophical progress in our understanding of the living world requires that we abandon a metaphysics of things in favour of one centred on processes. We identify three main empirical motivations for adopting a process ontology in biology: metabolic turnover, life cycles, and ecological interdependence. We show how taking a processual stance in the philosophy of biology enables us to ground existing critiques of essentialism, reductionism, and mechanicism, all of which have traditionally been associated with substance ontology. We illustrate the consequences of embracing an ontology of processes in biology by considering some of its implications for physiology, genetics, evolution, and medicine. And we attempt to locate the subsequent chapters of the book in relation to the position we defend.

Methodological individualism is a thesis generally associated with the social sciences, the thesis that ultimately all social explanations should be given in terms of properties only of individuals, never of social groups, societies, etc. It is a methodological thesis grounded on a metaphysical view: it is impossible for a social group to have any property not entailed by properties of its constituent individuals. This latter thesis, finally, is a straightforward consequence of a standard reductionist assumption, that the behavior of wholes can be fully accounted for in terms of the behavior of their parts.

Philip Kitcher's book begins with a familiar historical overview. In the 1940s and 50s a confident, optimistic vision of science was widely shared by philosophers and historians of science. The goal of science was to discover the truth about nature, and over the centuries science had advanced steadily towards that goal; science discerned the real kinds of things of which the world was composed and the causal relations between them; the methods of science were rational and its deliverances objective; and so on. Only where science failed in some of these respects was there any need to provide external, that is social, political, or individual, explanations of scientific belief. In the late 50s, and especially subsequent to Kuhn's classic, The Structure of Scientific Revolutions, all this started to change. Historians increasingly insisted that the development of science must be treated just like any other cultural process, which meant embedding the narrative of the growth of scientific knowledge fully in the social and political context in which it occurred. This suggested that the view of science as deriving from a uniquely rational process could no longer be sustained. And, notoriously, Kuhn argued that science could not be seen as cumulative across the most dramatic changes in scientific theory. Though philosophers have never given up entirely on the old optimistic picture ("Legend" as Kitcher refers to it), its influence has steadily waned. For various reasons philosophers have become increasingly concerned over whether one could believe scientific claims to be literally true. And influenced by Duhem's thesis, revived by Quine, that scientific theory must always be underdetermined by empirical evidence, they became more sympathetic to the possibility that scientific belief must be explained, at least in substantial part, by much more than the rational objective processes envisioned by Legend. These philosophical doubts existed in uneasy tension with more extreme tendencies toward thoroughgoing relativism or skepticism, and with the movement in the sociology of science to see the whole concern with truth and falsity as an irrelevant diversion.

Systems biology is the rapidly growing and heavily funded successor science to genomics. Its mission is to integrate extensive bodies of molecular data into a detailed mathematical understanding of all life processes, with an ultimate view to their prediction and control. Despite its high profile and widespread practice, there has so far been almost no bioethical attention paid to systems biology and its potential social consequences. We outline some of systems biology's most important socioethical issues by contrasting the concept of systems as dynamic processes against the common static interpretation of genomes. New issues arise around systems biology's capacities for in silico testing, changing cultural understandings of life, synthetic biology, and commercialization. We advocate an interdisciplinary and interactive approach that integrates social and philosophical analysis and engages closely with the science. Overall, we argue that systems biology socioethics could stimulate new ways of thinking about socioethical studies of life sciences

Although molecular biology has meant different things at different times, the term is often associated with a tendency to view cellular causation as conforming to simple linear schemas in which macro-scale effects are specified by micro-scale structures. The early achievements of molecular biologists were important for the formation of such an outlook, one to which the discovery of recombinant DNA techniques, and a number of other findings, gave new life even after the complexity of genotype–phenotype
relations had become apparent. Against this background we outline how a range of scientific developments and conceptual considerations can be regarded as enabling and perhaps necessitating contemporary systems approaches. We suggest that philosophical ideas have a valuable part to play in making sense of complex scientific and disciplinary issues.

The ‘Tree of Life’ is intended to represent the pattern of evolutionary processes that result in bifurcating species lineages. Often justified in reference to Darwin’s discussions of trees, the Tree of Life has run up against numerous challenges especially in regard to prokaryote evolution. This special issue examines scientific, historical and philosophical aspects of debates about the Tree of Life, with the aim of turning these criticisms towards a reconstruction of prokaryote phylogeny and even some aspects of the standard evolutionary understanding of eukaryotes. These discussions have arisen out of a multidisciplinary collaboration of people with an interest in the Tree of Life, and we suggest that this sort of focused engagement enables a practical understanding of the relationships between biology, philosophy and history.

Understanding how scientific activities use naming stories to achieve disciplinary status is important not only for insight into the past, but for evaluating current claims that new disciplines are emerging. In order to gain a historical understanding of how new disciplines develop in relation to these baptismal narratives, we compare two recently formed disciplines, systems biology and genomics, with two earlier related life sciences, genetics and molecular biology. These four disciplines span the twentieth century, a period in which the processes of disciplinary demarcation fundamentally changed from those characteristic of the nineteenth century. We outline how the establishment of each discipline relies upon an interplay of factors that include paradigmatic achievements, technological innovation, and social formations. Our focus, however, is the baptism stories that give the new discipline a founding narrative and articulate core problems, general approaches and constitutive methods. The highly plastic process of achieving disciplinary identity is further marked by the openness of disciplinary definition, tension between technological possibilities and the ways in which scientific issues are conceived and approached, synthesis of reductive and integrative strategies, and complex social interactions. The importance – albeit highly variable – of naming stories in these four cases indicates the scope for future studies that focus on failed disciplines or competing names. Further attention to disciplinary histories could, we suggest, give us richer insight into scientific development.

Systems biology is the rapidly growing and heavily funded successor science to genomics. Its mission is to integrate extensive bodies of molecular data into a detailed mathematical understanding of all life processes, with an ultimate view to their prediction and control. Despite its high profile and widespread practice, there has so far been almost no bioethical attention paid to systems biology and its potential social consequences. We outline some of systems biology's most important socioethical issues by contrasting the concept of systems as dynamic processes against the common static interpretation of genomes. New issues arise around systems biology's capacities for in silico testing, changing cultural understandings of life, synthetic biology, and commercialization. We advocate an interdisciplinary and interactive approach that integrates social and philosophical analysis and engages closely with the science. Overall, we argue that systems biology socioethics could stimulate new ways of thinking about socioethical studies of life sciences.

Philosophers of biology, along with everyone else, generally perceive life to fall into two broad categories, the microbes and macrobes, and then pay most of their attention to the latter. ‘Macrobe’ is the word we propose for larger life forms, and we use it as part of an argument for microbial equality. We suggest that taking more notice of microbes – the dominant life form on the planet, both now and throughout evolutionary history – will transform some of the philosophy of biology’s standard ideas on ontology, evolution, taxonomy and biodiversity. We set out a number of recent developments in microbiology – including biofilm formation, chemotaxis, quorum sensing and gene transfer – that highlight microbial capacities for cooperation and communication and break down conventional thinking that microbes are solely or primarily single-celled organisms. These insights also bring new perspectives to the levels of selection debate, as well as to discussions of the evolution and nature of multicellularity, and to neo-Darwinian understandings of evolutionary mechanisms. We show how these revisions lead to further complications for microbial classification and the philosophies of systematics and biodiversity. Incorporating microbial insights into the philosophy of biology will challenge many of its assumptions, but also give greater scope and depth to its investigations.

In the context of scientists' reflections on genomics, we examine some fundamental issues in the emerging postgenomic discipline of systems biology. Systems biology is best understood as consisting of two streams. One, which we shall call ‘pragmatic systems biology’, emphasises large‐scale molecular interactions; the other, which we shall refer to as ‘systems‐theoretic biology’, emphasises system principles. Both are committed to mathematical modelling, and both lack a clear account of what biological systems are. We discuss the underlying issues in identifying systems and how causality operates at different levels of organisation. We suggest that resolving such basic problems is a key task for successful systems biology, and that philosophers could contribute to its realisation. We conclude with an argument for more sociologically informed collaboration between scientists and philosophers. BioEssays 27:1270–1276, 2005. © 2005 Wiley Periodicals, Inc.

This paper attacks the perennial philosophical and scientific quest for a simple and unified vision of the world. Without denying the attraction of this vision, I argue that such a goal often seriously distorts our understanding of complex phenomena. The argument is illustrated with reference to simplistic attempts to provide extremely general views of biology, and especially of human nature, through the theory of evolution. Although that theory is a fundamental ingredient of our scientific world view, it provides only one of a number of perspectives that are required for an understanding of biology in general, and human behaviour in paticular. The argument is connected to the replacement of views of science in terms of universal laws with views that emphasise ranges of models more locally suited to specific phenomena

Daniel Dennett’s review of my book, Human Nature and the Limits of Science, was apparently conceived as part of a multiple review, anticipating an author’s response, so I am grateful for the opportunity to satisfy this expectation. Indeed, Dennett uses this excuse to justify devoting his own contribution to responding to those parts of the book directed explicitly at his own work, leaving other imagined reviewers to take care of other issues. Since he has things to say about most of the topics in the book he evidently interpreted this remit widely, in fact taking the book as “presented as an antidote of sorts to [his] own world view”. Let me begin, therefore, by reassuring Dennett that, while I certainly had some critical things to say about some of his views, the book most certainly was not intended as an ad hominem attack. The nine pages on which his work is cited fairly accurately reflects the extent to which his views figured in my thinking. Curiously, his ire seems most strongly aroused by my assault on his views on free will in which, apparently, I agree with nearly everything he says and, worse still, fail to cite him at all.