In this paper I propose to examine, and in part revive, a time-honoured perspective to inquiry in general and scientific explanation in particular. The perspective is to view inquiry as a search for answers to questions. If there is anything that deserves to be called a working scientist's view of his or her daily work, it surely is that he or she phrases questions and attempts to find satisfactory answers to them.

The paper sketches an account of explanatory practice in which explanations are viewed as answers to explanation-requiring questions. To avoid difficulties in previous proposals, the paper uses the structuralist account of theory structure, arguing that theories are complex and evolving entities formed around a conceptual core and a set of intended applications. The argument is that this view does better justice to theories which involve a number of different kinds of theory-elements to give narrative explanations. Theories are, among other things, (...) devices which can be used to turn explanation-requiring questions into a form which allows assessment of potential answers. Evolutionary theory, both in Darwin's and the modern synthetic forms, are used as examples. The view advanced is that modern evolutionary theory need not have a unique core to which other theories serve as subcontractors. (shrink)

The Greenough stereomicroscope, or “Stemi” as it is colloquially known among microscopists, is a stereoscopic binocular instrument yielding three-dimensional depth perception when working with larger microscopic specimens. It has become ubiquitous in laboratory practice since its introduction by the unknown scientist Horatio Saltonstall Greenough in 1892. However, because it enabled new experimental practices rather than new knowledge, it has largely eluded historical and epistemological investigation, even though its design, production, and reception in the scientific community was inextricably connected to the (...) new epistemological ideals of the life sciences caught between natural history and modern science. The development of the microscope will be contextualized within the scientific and technological landscape, showing how Greenough navigated his way through this terrain, and what led him to sow the seeds for the stereoscopic microscope. The historical controversy over the optical mechanism, through which the instrument would generate the desired depth perception, and how this quality was embedded into laboratory practice, will be examined. Subsequently, it will become evident that the specific image of nature produced by the stereoscopic microscope corresponded to the new ideals of the life sciences and their representation. (shrink)

This article develops and defends a new functional approach to scientific progress. I begin with a review of the problems of the traditional functional approach. Then I propose a new functional account of scientific progress, in which scientific progress is defined in terms of usefulness of problem defining and problem solving. I illustrate and defend my account by applying it to the history of genetics. Finally, I highlight the advantages of my new functional approach over the epistemic and semantic approaches (...) and dismiss some potential objections to my approach. (shrink)

In the received view of the history of the Modern Evolutionary Synthesis, paleontology was given a prominent role in evolutionary biology thanks to the significant influence of paleontologist George Gaylord Simpson on both the institutional and conceptual development of the Synthesis. Simpson's 1944 Tempo and Mode in Evolution is considered a classic of Synthesis-era biology, and Simpson often remarked on the influence of other major Synthesis figures – such as Ernst Mayr and Theodosius Dobzhansky – on his developing thought. Why, (...) then, did paleontologists of the 1970s and 1980s – Stephen Jay Gould, Niles Eldredge, David M. Raup, Steven Stanley, and others – so frequently complain that paleontology remained marginalized within evolutionary biology? This essay considers three linked questions: first, were paleontologists genuinely welcomed into the Synthetic project during its initial stages? Second, was the initial promise of the role for paleontology realized during the decades between 1950 and 1980, when the Synthesis supposedly "hardened" to an "orthodoxy"? And third, did the period of organized dissent and opposition to this orthodoxy by paleontologists during the 1970s and 1980s bring about a long-delayed completion to the Modern Synthesis, or rather does it highlight the wider failure of any such unified Darwinian evolutionary consensus? (shrink)

The fossil record is paleontology’s great resource, telling us virtually everything we know about the past history of life. This record, which has been accumulating since the beginning of paleontology as a professional discipline in the early nineteenth century, is a collection of objects. The fossil record exists literally, in the specimen drawers where fossils are kept, and figuratively, in the illustrations and records of fossils compiled in paleontological atlases and compendia. However, as has become increasingly clear since the later (...) twentieth century, the fossil record is also a record of data. Paleontologists now routinely abstract information from the physical fossil record to construct databases that serve as the basis for quantitative analysis of patterns in the history of life. What is the significance of this distinction? While it is often assumed that the orientation towards treating the fossil record as a record of data is an innovation of the computer age, it turns out that nineteenth century paleontology was substantially “data driven.” This paper traces the evolution of data practices and analyses in paleontology, primarily through examination of the compendia in which the fossil record has been recorded over the past 200 years. I argue that the transition towards conceptualizing the fossil record as a record of data began long before the emergence of the technologies associated with modern databases (such as digital computers and modern statistical methods). I will also argue that this history reveals how new forms of visual representation were associated with the transition from seeing the fossil record as a record of objects to one of data or information, which allowed paleontologists to make new visual arguments about their data. While these practices and techniques have become increasingly sophisticated in recent decades, I will show that their basic methodology was in place over a century ago, and that, in a sense, paleontology has always been a “data driven” science. (shrink)

Current Perspectives in Philosophy of Biology.

Teleological explanations in evolutionary biology, from Cuvier to the present (and into the future), depend on the metaphor of design for heuristic power and predictive fertility.

Current debates about “Darwinizing culture” have typically focused on the validity of memetics. In this article we argue that meme-like inheritance is not a necessary requirement for descent with modification. We suggest that an alternative and more productive way of Darwinizing culture can be found in the application of phylogenetic methods. We review recent work on cultural phylogenetics and outline six fundamental questions that can be answered using the power and precision of quantitative phylogenetic methods. However, cultural evolution, like biological (...) evolution, is often far from treelike. We discuss the problems reticulate evolution can cause for phylogenetic analyses and suggest ways in which these problems can be overcome. Our solutions involve a combination of new methods for the study of cultural evolution , and the triangulation of different lines of historical evidence. Throughout we emphasize that most debates about cultural phylogenies can only be settled by empirical research rather than armchair speculation. (shrink)

In this paper, I describe an approach to the teaching of philosophy of science that draws normally reluctant students into controversial issues in the philosophy of science. I have found that the topic of creationism is a good vehicle for introducing students to the more difficult issues in philosophy of science. I explore the use of creationism as a case-study in the philosophy of science and detail my own experience in the creationism debate.

WE ARE FACED WITH GROWING POWERS OF MANIPULATION OF OUR HUMAN GENETIC MAKEUP. WHILE NOT DENYING THAT THESE POWERS CAN BE USED FOR GREAT GOOD, IT BEHOOVES US TO THINK NOW OF POSSIBLE UPPER LIMITS TO THE CHANGE THAT WE MIGHT WANT TO EFFECT. I ARGUE THAT THOUGHTS OF CHANGING THE HUMAN SPECIES INTO A RACE OF SUPERMEN AND SUPERWOMEN ARE BASED ON WEAK PREMISES. GENETIC FINE-TUNING MAY INDEED BE IN ORDER; WHOLESALE GENETIC CHANGE IS NOT.

Does modern evolutionary theory (specifically Darwinism) pose a problem for the Christian's thinking about morality? It certainly poses threats for those who would argue that certain practices are wrong because they are “unnatural.” Liberal Christians can probably get around these questions. But at a deeper level, despite superficial similarities between its conclusions and the Love Commandment, Darwinism points to an essential relativism about morality, thereby striking at the very core of all Christian thought on moral behavior. Thus, those who are (...) worried about the clash between science and religion have good reasons for their worries. (shrink)

Does Darwinism generally, and human sociobiology in particular, lead to an unwarranted (and possibly socially offensive) determinism? I argue that one must separate out different senses of determinism, and that once one has done this, a Darwinian approach to human nature can be seen to shed important light on our intuitions about free will, constraint, and control.

The question of the levels at which natural selection can be said to operate is much discussed by biologists today and is a key factor in the recent controversy about sociobiology. It is shown that this problem is one to which Charles Darwin addressed himself at some length. It is argued that apart from some slight equivocation over man, Darwin opted firmly for hypotheses supposing selection always to work at the level of the individual rather than the group. However, natural (...) selection's co-discoverer, Alfred Russel Wallace, endorsed group selection hypotheses. (shrink)

This review of recent work in the philosophy of science motivated by a commitment to 'naturalism' begins by identifying three key axioms and one theorem shared by philosophers thus self-styled. Owing much to Quine and Ernest Nagel, these philosophers of science share a common agenda with naturalists elsewhere in philosophy. But they have disagreed among themselves about how the axioms and the theorems they share settle long-standing disputes in the philosophy of science. After expounding these disagreements in the work of (...) Boyd, Giere, Laudan, and Kitcher, I argue that naturalism needs to look for more than mere consistency in its foundations. (shrink)

Species are generally considered to be the basic units of evolution, and hence to constitute spatio-temporally bounded entities. In addition, it has been argued that species also instantiate a natural kind. Evolution is fundamentally about change. The question then is how species can remain the same through evolutionary change. Proponents of the species qua individuals thesis individuate species through their unique evolutionary origin. Individuals, or spatio-temporally located particulars in general, can be bodies, objects, events, or processes, or a combination of (...) these. It is here argued that species are best understood as open or closed, causally integrated processual systems that also instantiate an historically conditioned homeostatic property cluster natural kind. (shrink)

The concept that renders morphology a tool for phylogeny reconstruction is homology. The concept of homology is rooted in pre-evolutionary idealistic morphology. The claim that the goal of idealistic morphology was the seriability of form may sound paradoxical given that this discipline proceeded within a framework of strictly delimited types. But the types only demarcate where seriability starts and where it comes to an end. Carl Gegenbaur’s was recognized as a milestone in idealistic morphology. A comparison with the second edition (...) of 1870 illustrates Gegenbaur’s turn to evolutionary morphology. The methodology remained the same–seriability of form–but the series was no longer merely descriptive or conceptual but now a historical, evolutionary one. Gegenbaur emphasized that seriability of form was possible not only between species of the same type, but also between parts of organisms of the same type. Pursuing this project, he found that different parts of organisms evolve at different rates, resulting in an incongruence between the series of parts relative to the series of species under comparison. This incongrence was called chevauchement des spécialisations by Louis Dollo, Spezialisationskreuzungen by Othenio Abel, and heterobathmy of characters by Armen Takhtajan. Willi Hennig, the founder of modern methods in phylogenetic systematics, discovered that the heterobathmy of characters was a precondition for the establishment of the phylogenetic relationships based on shared derived characters. The result was a replacement of the search for ancestors by a search for relative degrees of phylogenetic relationships. (shrink)

This paper takes a hierarchical approach to the question whether species are individuals or natural kinds. The thesis defended here is that species are spatiotemporally located complex wholes (individuals), that are composed of (i.e., include) causally interdependent parts, which collectively also instantiate a homeostatic property cluster (HPC) natural kind. Species may form open or closed genetic systems that are dynamic in nature, that have fuzzy boundaries due to the processual nature of speciation, that may have leaky boundaries as is manifest (...) in lateral gene transfer and introgression, that may be of multiple origins through hybridization, and that may split and merge and split again over time. The identity conditions of species qua individuals will have to be anchored in their history, rather than in their unique evolutionary origin. Species qua historically conditioned HPC natural kinds requires the kind to be mereologically structured, subject to the part-whole relation rather than the membership relation. This implies that there can be more than one kind of natural kinds. (shrink)

During the early twentieth century, the Swiss Zoologist Adolf Naef (1883–1949) established himself as a leader in German comparative anatomy and higher level systematics. He is generally labeled an ‘idealistic morphologist’, although he himself called his research program ‘systematic morphology’. The idealistic morphology that flourished in German biology during the first half of the twentieth century was a rather heterogeneous movement, within which Adolf Naef worked out a special theoretical system of his own. Following a biographical sketch, we present an (...) English translation of a previously unpublished typescript from Naef’s estate, which Naef intended as the introduction to a textbook on Comparative Anatomy for which he was unable to find a publisher before his sudden death in 1949. The typescript contains Naef’s mature thoughts with unprecedented conciseness, focus, and clarity. The density of Naef’s text warrants a historical and contextual explication of its content. (shrink)

Evolutionary psychology purports to explain human capacities as adaptations to an ancestral environment. A complete explanation of human language or human reasoning as adaptations depends on assessing an historical claim, that these capacities evolved under the pressure of natural selection and are prevalent because they provided systematic advantages to our ancestors. An outline of the character of the information needed in order to offer complete adaptation explanations is drawn from Robert Brandon (1990), and explanations offered for the evolution of language (...) and reasoning within evolutionary psychology are evaluated. Pinker and Bloom's (1992) defense of human language as an adaptation for verbal communication, Robert Nozick's (1993) account of the evolutionary origin of rationality, and Cosmides and Tooby's (1992) explanation of human reasoning as an adaptation for social exchange, are discussed in light of what is known, and what is not known, about the history of human evolution. In each case, though a plausible case is made that these capacities are adaptations, there is not enough known to offer even a semblance of an explanation of the origin of these capacities. These explanations of the origin of human thought and language are simply speculations lacking the kind of detailed historical information required for an evolutionary explanation of an adaptation. (shrink)

Nietzsche attributes 'will power' to all living things, but this seems in sharp conflict with other positions important to him-and implausible besides. The doctrine smacks of both metaphysics and anthropomorphizing, which he elsewhere derides. Will to power seems to be an intentional end-directedness, involving cognitive or representational powers he is rightly loath to attribute to all organisms, and tends to downplay even in persons. This paper argues that we find a stronger reading of will to power-both more plausible and more (...) consistent with Nietzsche's other views-by developing his affinities with Darwinism. By seeing will to power as an 'internal revision' to Darwinism, opposing the latter's stress (as Nietzsche thinks) on 'survival', but assenting to its uses of natural selection, we can ground or naturalize that notion, congenially to Nietzsche and to us. (shrink)

The eminent historian and philosopher of biology, Michael Ruse, has written several books that explore the relationship of evolutionary theory to its larger scientific and cultural setting. Among the questions he has investigated are: Is evolution progressive? What is its epistemological status? Most recently, in "Darwin and Design: Does Evolution have a Purpose?," Ruse has provided a history of the concept of teleology in biological thinking, especially in evolutionary theorizing. In his book, he moves quickly from Plato and Aristotle to (...) Kant and such British thinkers as Paley and Whewell. His main focus, though, is on Darwin's theory and its subsequent fate. Ruse rests his history on some shaky historical and philosophic assumptions, particularly the unexamined notion that evolutionary theory is an abstract entity that is unproblematically realized in different historical periods. He also assumes that Darwin conceived nature as if it were a Manchester spinning loom -- a clanking, dispassionate machine. A more subtle analysis, which Ruse eschews, might discover that Darwin's conception of nature owed a strong debt to German Romanticism and that he contrived to infuse nature with moral and aesthetic values, not to suck them from nature. Ruse proves he is a thinker to contend with, and this essay is quite contentious. (shrink)

discipline a general science of our "intellectual faculties, their principal phenomena, and the more remarkable circumstances of their activities" (1801, p. 4). Convinced of the sensationalist epistemology of Locke and Condillac, Destutt de Tracy believed one could resolve all ideas into the sensations that produced them and thereby test their soundness. The sensationalist assumptions of his project led him to propose that "ideology is a part of zoology" (1801, p. 1), and he consequently paid close attention to the way physiological..

Biologists in many different fields of research give how-possibly explanations of the phenomena they study. Although such explanations lack empirical support, and might be regarded by some as unscientific, they play an important heuristic role in biology by helping biologists develop theories and concepts and suggesting new areas of research. How-possibly explanations serve as a useful framework for conducting research in the absence of adequate empiri cal data, and they can even become how-actually explanations if they gain enough empirical support.

The explanatory role of natural selection is one of the long-term debates in evolutionary biology. Nevertheless, the consensus has been slippery because conceptual confusions and the absence of a unified, formal causal model that integrates different explanatory scopes of natural selection. In this study we attempt to examine two questions: (i) What can the theory of natural selection explain? and (ii) Is there a causal or explanatory model that integrates all natural selection explananda? For the first question, we argue that (...) five explananda have been assigned to the theory of natural selection and that four of them may be actually considered explananda of natural selection. For the second question, we claim that a probabilistic conception of causality and the statistical relevance concept of explanation are both good models for understanding the explanatory role of natural selection. We review the biological and philosophical disputes about the explanatory role of natural selection and formalize some explananda in probabilistic terms using classical results from population genetics. Most of these explananda have been discussed in philosophical terms but some of them have been mixed up and confused. We analyze and set the limits of these problems. (shrink)

The theory of Punctuated Equilibria challenges the neo‐Darwinian tenet that evolution is a uniform process. Recently, an article by Hunt1 has found that directional change during the evolution of a lineage is relatively small (occurring only in 5% of 250 analyzed traits). Of those traits that were shown to follow a trend, size was more likely to show gradual changes, whereas shape changes were more random. Here, we provide a short view of the nature of evolutionary trends, showing that directional (...) change within lineages and among clades provides valuable evolutionary information about the processes involved in their generation. BioEssays 30:521–525, 2008. © 2008 Wiley Periodicals, Inc. (shrink)

In this paper, I argue (contra some recent philosophical work) that an objective distinction between natural selection and drift can be drawn. I draw this distinction by conceiving of drift, in the most fundamental sense, as an individual-level phenomenon. This goes against some other attempts to distinguish selection from drift, which have argued either that drift is a population-level process or that it is a population-level product. Instead of identifying drift with population-level features, the account introduced here can explain these (...) population-level features based on a property that I label driftability. Additionally, this account shows that biology’s “first law”—the Principle of Drift (Brandon, J Phil 102(7):319–335 2006)—is not a foundational law, but is a consequence of driftability. (shrink)

Timothy Hsiao attempts to defend industrial animal farming by arguing that it is not inherently cruel. We raise three main objections to his defense. First, his argument rests on a misunderstanding of the nature of cruelty. Second, his conclusion, though technically true, is so weak as to be of virtually no moral significance or interest. Third, his contention that animals lack moral standing, and thus that mistreating them is wrong only insofar as it makes one more disposed to mistreat other (...) humans, is untenable on both philosophical and biological grounds. (shrink)

What seems clear from the experiences of researchers in CogNovo is that the concept of cognitive innovation offered a new vocabulary, and thus a clear space, within which creativity could be explored free from the baggage of prior conflicting definitions. The concept was, from its inception, intrinsically ironic in the sense that Rich⁠ard Rorty developed the term. Although initially we did not fully appreciate the potential this offered, approaching creativity under the rubric of cognitive innova⁠tion led to novel ideas that (...) would not have emerged if we had taken a more con⁠ven⁠tional discipline-led approach. One example was expressing creativity as a mathematical function and as a media form in a parallel text. The absurdity of describing a process of such complexity in this form did not pass us by. However, this self-conscious irony, not a common rhetorical strategy in the sciences, clarified our understanding of cognitive innovation as a recursive function that allowed us to express a continuity between the basic life processes of exploration, innovation and the construction of the self, and the social and cultural ramifications of these processes; creativity. It led us to conclude that cognitive innovation furnishes a view of the self as a dynamic entity, for whom reality and novelty are contingent on one’s current state, both of which can change and be changed, and offers a means for enhancing the rigor of the current debate on what counts as creative. It also reveals the value of irony in not disavowing the inevitability of multiple perspectives and prospectives on reality, and consequently offers a way to avoid unnecessary reductivism. In this paper, we will argue, as we take the insights of CogNovo forward, that irony offers a hitherto unappreciated strategy for collaborative research. (shrink)