All sciences have epistemic assumptions, a language for expressing their theories or models, and symbols that reference observables that can be measured. In most sciences the language in which their models are expressed are not the focus of their attention, although the choice of language is often crucial for the model. On the contrary, biosemiotics, by definition, cannot escape focusing on the symbol–matter relationship. Symbol systems first controlled material construction at the origin of life. At this molecular level it is (...) only in the context of open-ended evolvability that symbol–matter systems and their functions can be objectively defined. Symbols are energy-degenerate structures not determined by laws that act locally as special boundary conditions or constraints on law-based energy-dependent matter in living systems. While this partial description holds for all symbol systems, cultural languages are much too complex to be adequately described only at the molecular level. Genetic language and cultural languages have common basic requirements, but there are many significant differences in their structures and functions. (shrink)

This paper explores the similarities between the conceptual structure of quantum theory and relational biology as developed within the Rashevsky-Rosen-Louie school of theoretical biology. With this aim, generalized quantum theory and the abstract formalism of (M,R)-systems are briefly presented. In particular, the notion of organizational invariance and relational identity are formalized mathematically and a particular example is given. Several quantum-like attributes of Rosen’s complex systems such as complementarity and nonseparability are discussed. Taken together, this work emphasizes the possible role of (...) self-referentiality and impredicativity in quantum theory. (shrink)

Some contemporary theorists such as Mazzocchi, Theise and Kafatos are convinced that the reformed complementarity may redefine how we might exploit the complexity theory in 21st-century life sciences research. However, the motives behind the profound re-invention of “biological complementarity” need to be substantiated with concrete shreds of evidence about this principle’s applicability in real-life science experimentation, which we found missing in the literature. This paper discusses such pieces of evidence by confronting Bohr’s complementarity and ion channel modeling practice. We examine (...) whether and to what extent this principle might assist in developing ion channel models incorporating both deterministic and stochastic solutions. According to the “mutual exclusiveness of experimental setups” version of Bohr’s complementarity, this principle is needed when two mutually exclusive perspectives or approaches are right, necessary in a particular context, and are not contradictory as they arise in mutually exclusive conditions (mutually exclusive experimental or modeling setups). A detailed examination of the modeling practice reveals that both solutions are often used simultaneously in a single ion channel model, suggesting that the opposite conceptual frameworks can coexist in the same modeling setup. We concluded that Bohr’s complementarity might find applications in these complex modeling setups but only through its realistic phenomenological interpretation that allows applying different modes of description regardless of the nature of the underlying ion channel opening process. Also, we propose the combined use of complementarity and Complex thinking in building the multifaceted ion channel models. Overall, this paper’s results support the efforts to establish a more general form of complementarity to meet today’s complexity theory-inspired life sciences modeling demands. (shrink)

This paper analyses Bohr’s complementarity framework and applies it to biosemiotic studies by illustrating its application to three existing models of living systems: mechanistic biology, Barbieri’s version of biosemiotics in terms of his code biology and Markoš’s phenomenological version of hermeneutic biosemiotics. The contribution summarizes both Bohr’s philosophy of science crowned by his idea of complementarity and his conception of the phenomenon of the living. Bohr’s approach to the biological questions evolved – among other things – from the consequences of (...) an epistemological lesson of quantum theory and in light of complementarity of observer as a priori living creature and ex post scientific explanation of the living. In a manifestation of the phenomenon of the living, each model of living system and its description makes accessible – from its own presuppositions, contexts and concepts – some features which are not accessible from the others. Nevertheless, for a general understanding of that phenomenon, incompatible sophisticated approaches are equally necessary. Bohr’s epistemology of complementarity turns out to be a heuristic and methodical framework for testing the extent to which biosemiotics can become one of the special sciences or its potential as a cross-disciplinary branch of study. (shrink)

Biosemiotics—a discipline in the process of becoming established as a new research enterprise—faces a double task. On the one hand it must carry out the theoretical and experimental investigation of an enormous range of semiotic phenomena relating organisms to their internal components and to other organisms (e.g., signal transduction, replication, codes, etc.). On the other hand, it must achieve a philosophical re-conceptualization and generalization of theoretical biology in light of the essential role played by semiotic notions in biological explanation and (...) modeling. This paper attempts to contribute to the second task by tracing some aspects of the historical evolution of explanatory models in biology. In so doing, a parallel can be drawn between the present status of biosemiotics and that of physics during the early decades of the last century. By following the career of the concept instrument (organon) in Aristotelian science, we revisit historical stages of the antithetical (but often complementary) roles of mechanical and teleological forms of explanation. The impact of the introduction of the organic codes in biology is seen to be somewhat analogous to that of the introduction of the quantum of action in physics. Faced with intractable empirical facts, physicists combined experimental results and bold philosophical speculation to create quantum physics—a wider, deeper framework that accommodates the new facts through a wholesale reformulation of the classical ideas. Essential to this development was the articulation of the epistemic functions of instruments, which was absent from classical physics. Similarly, the consideration of the role of instruments in biology may lead to a synthesis of Aristotelian and Kantian intuitions within a wider framework capable of joining now separate perspectives, such as Jablonka’s four-fold view of inheritance information, Barbieri’s theory of artifactual copymakers and codemakers, and recently developed models of causation based on the idea of manipulative interventions. (shrink)

In The Logic of Life, François Jacob reconstructed the history of heredity from the seventeenth century to the present, emphasizing the role of physics in the development of biology. Quantum mechanics provided questions, methods, and techniques to molecular biologists. In the 1960s, physics also provided the organizational model. Jacob worked on the creation of the European Molecular Biology Laboratory, on the model of CERN (European Organization for Nuclear Research). I argue that reflection on the relation between molecular biology and physics (...) played a part in the making of The Logic of Life. Between the mid-1960s and the early 1970s, Jacob focused on relations between the “genealogy” of his molecular biology work and the development of physics at scientific, institutional, and historical levels. He thus brought molecular biology to the attention of a larger public, following the history of the Institut Pasteur, whose public mission had to be reaffirmed to grant its survival. With The Logic of Life, Jacob became an influential intellectual who engaged with scholars in human sciences. He promoted his view of the development of molecular biology as a model for a possible new discipline: bioanthropology. (shrink)

This paper understands reductionism as a relation between explanations, not theories. It argues that knowledge of the micro-level behavior of the components of systems is necessary, but only combined with a full specification of the contingent context sufficient for a full explanation of systems phenomena. The paper takes seriously fundamental principles independent and transcendent of the laws of quantum mechanics that govern most of real-world phenomena. It will conclude in showing how the recent postgenomic revolution, taking seriously the physical principle (...) of organization and collective behavior, can be understood as attempting to complement a reductionist investigative strategy with an antireductionist explanatory strategy. (shrink)