Karola Stotz

(1963 - 2019)

We outline three very different concepts of the gene—instrumental, nominal, and postgenomic. The instrumental gene has a critical role in the construction and interpretation of experiments in which the relationship between genotype and phenotype is explored via hybridization between organisms or directly between nucleic acid molecules. It also plays an important theoretical role in the foundations of disciplines such as quantitative genetics and population genetics. The nominal gene is a critical practical tool, allowing stable communication between bioscientists in a wide range of fields grounded in well-defined sequences of nucleotides, but this concept does not embody major theoretical insights into genome structure or function. The post-genomic gene embodies the continuing project of understanding how genome structure supports genome function, but with a deflationary picture of the gene as a structural unit. This final concept of the gene poses a significant challenge to conventional assumptions about the relationship between genome structure and function, and between genotype and phenotype.

Recent years have seen the development of an approach both to general philosophy and philosophy of science often referred to as ‘experimental philosophy’ or just ‘X-Phi’. Philosophers often make or presuppose empirical claims about how people would react to hypothetical cases, but their evidence for claims about what ‘we’ would say is usually very limited indeed. Philosophers of science have largely relied on their more or less intimate knowledge of their field of study to draw hypothetical conclusions about the state of scientific concepts and the nature of conceptual change in science. What they are lacking is some more objective quantitative data supporting their hypotheses. A growing number of philosophers , along with a few psychologists and anthropologists, have tried to remedy this situation by designing experiments aimed at systematically exploring people’s reactions to philosophically important thought experiments or scientists’ use of their scientific concepts. Many of the results have been surprising and some of the conclusions drawn from them have been more than a bit provocative. This symposium attempts to provide a window into this new field of philosophical inquiry and to show how experimental philosophy provides crucial tools for the philosopher and encourages two-way interactions between scientists and philosophers.Keywords: Experimental philosophy; Naturalism; Continuity thesis; Philosophy of science; Quantitative data

The 'developmental systems' perspective in biology is intended to replace the idea of a genetic program. This new perspective is strongly convergent with recent work in psychology on situated/embodied cognition and on the role of external 'scaffolding' in cognitive development. Cognitive processes, including those which can be explained in evolutionary terms, are not 'inherited' or produced in accordance with an inherited program. Instead, they are constructed in each generation through the interaction of a range of developmental resources. The attractors which emerge during development and explain robust and/or widespread outcomes are themselves constructed during the process. At no stage is there an explanatory stopping point where some resources control or program the rest of the developmental cascade. 'Human nature' is a description of how things generally turn out, not an explanation of why they turn out that way. Finally, we suggest that what is distinctive about human development is its degree of reliance on external scaffolding.

Philosophers and historians of biology have argued that genes are conceptualized differently in different fields of biology and that these differences influence both the conduct of research and the interpretation of research by audiences outside the field in which the research was conducted. In this paper we report the results of a questionnaire study of how genes are conceptualized by biological scientists at the University of Sydney, Australia. The results provide tentative support for some hypotheses about conceptual differences between different fields of biological research.

Experimental philosophy of science gathers empirical data on how key scientific concepts are understood by particular scientific communities. In this paper we briefly describe two recent studies in experimental philosophy of biology, one investigating the concept of the gene, the other the concept of innateness. The use of experimental methods reveals facts about these concepts that would not be accessible using the traditional method of intuitions about possible cases. It also contributes to the study of conceptual change in science, which we understand as the result of a form of conceptual ecology, in which concepts become adapted to specific epistemic niches.

The paper argues against the central dogma and its interpretation by C. Kenneth Waters and Alex Rosenberg. I argue that certain phenomena in the regulation of gene expression provide a break with the central dogma, according to which sequence specificity for a gene product must be template derived. My thesis of 'molecular epigenesis' with its three classes of phenomena, sequence 'activation', 'selection', and 'creation', is exemplified by processes such as transcriptional activation, alternative cis- and trans-splicing, and RNA editing. It argues that other molecular resources share the causal role of genes; the sequence specificity for the linear sequence of any gene product is distributed between the coding sequence, cis-acting sequences, trans-acting factors, environmental signals, and the contingent history of the cell (thesis of distributed causal specificity). I conclude that the central dogma has unnecessarily restricted genetic research to the sequencing of protein-coding genes, unilinear pathway analyses, and the focus on exclusive specificity

In the last decade it has become en vogue for cognitive comparative psychologists to study animal behavior in an ‘integrated’ fashion to account for both the ‘innate’ and the ‘acquired’. We will argue that these studies, instead of really integrating the concepts of ‘nature’ and ‘nurture’, rather cement this old dichotomy. They combine empty nativist interpretation of behavior systems with blatantly environmentalist explanations of learning. We identify the main culprit as the failure to take development seriously. While in some areas of biology interest in the relationship between behavior and development has surged through topics such as extragenetic inheritance, niche construction, and phenotypic plasticity, this has gone almost completely unnoticed in the study of animal behavior in comparative psychology, and is frequently ignored in ethology too. The main aims of this paper are to clarify the relationship between the concepts of learning, experience, and development, and to investigate whether and how all three concepts can be usefully deployed in the study of animal behavior. This will require the full integration of the psychological study of behavior into biology, and of the idea of learning into a wider concept of experience. We lay out how, in a systems view of development, learning may just appear as one among many processes in which experience influences behavior. This new synthesis should help to overcome the age-old dualism between innate and acquired. It thereby opens up the possibility of developing scientifically more fruitful distinctions.