What is life? Is it just the biologically familiar--birds, trees, snails, people--or is it an infinitely complex set of patterns that a computer could simulate? What role does intelligence play in separating the organic from the inorganic, the living from the inert? Does life evolve along a predestined path, or does it suddenly emerge from what appeared lifeless and programmatic? In this easily accessible and wide-ranging survey, Claus Emmeche outlines many of the challenges and controversies involved in the (...) dynamic and curious science of artificial life. Emmeche describes the work being done by an international network of biologists, computer scientists, and physicists who are using computers to study life as it could be, or as it might evolve under conditions different from those on earth. Many artificial-life researchers believe that they can create new life in the computer by simulating the processes observed in traditional, biological life-forms. The flight of a flock of birds, for example, can be reproduced faithfully and in all its complexity by a relatively simple computer program that is designed to generate electronic "boids." Are these "boids" then alive? The central problem, Emmeche notes, lies in defining the salient differences between biological life and computer simulations of its processes. And yet, if we can breathe life into a computer, what might this mean for our other assumptions about what it means to be alive? The Garden in the Machine touches on every aspect of this complex and rapidly developing discipline, including its connections to artificial intelligence, chaos theory, computational theory, and studies of emergence. Drawing on the most current work in the field, this book is a major overview of artificial life. Professionals and nonscientists alike will find it an invaluable guide to concepts and technologies that may forever change our definition of life. (shrink)

The final version of the paper is published pp. 117-166 in: Myrdene Anderson and Floyd Merrell (eds.): On Semiotic Modeling . Mouton de Gruyter, Berlin and New York, 1991.

The idea of a higher level phenomenon having a downward causal influence on a lower level process or entity has taken a variety of forms. In order to discuss the relation between emergence and downward causation, the specific variety of the thesis of downward causation (DC) must be identified. Based on some ontological theses about inter-level relations, types of causation and the possibility of reduction, three versions of DC are distinguished. Of these, the `Strong' form of DC is held to (...) be in conflict with contemporary science; the `Medium' version of DC may for instance describe thoughts constraining neurophysiological states, while the `Weak' form of DC is physically acceptable but may not in practice be a feasible description of the mind/brain or the cell/molecule relation. All forms have their specific problems, but the Medium and the Weak version seems to be most promising. (shrink)

It is argued that the notion of Umwelt is relevant for contemporary discussions within theoretical biology, biosemiotics, the study of Artificial Life, Autonomous Systems Research and philosophy of biology. Focus is put on the question of whether an artificial creature can have a phenomenal world in the sense of the Umwelt notion of Jakob von Uexküll, one of the founding figures of biosemiotics. Rather than vitalism, Uexküll's position can be interpreted as a version of qualitative organicism. A historical sketch of (...) Autonomous Systems Research (ASR) is presented to show its theoretical roots and fruitful opposition to traditional AI style robotics. It is argued that these artificial systems are only partly 'situated' because they do not in the full sense of the word experience an Umwelt. A deeper understanding of truly situated autonomous systems as being a kind of complex selforganizing semiotic agents with emergent qualitative properties must be gained, not only from the broad field of theoretical biology, but also from the perspective of biosemiotics in the Uexküll tradition. The paper is thus an investigation of a new notion of autonomy that includes a qualitative aspect of the organism. This indicates that the Umwelt concept is not reducible to purely functional notions. (shrink)

This book presents programmatic texts on biosemiotics, written collectively by world leading scholars in the field (Deacon, Emmeche, Favareau, Hoffmeyer, Kull, Markoš, Pattee, Stjernfelt). In addition, the book includes chapters which focus closely on semiotic case studies (Bruni, Kotov, Maran, Neuman, Turovski). According to the central thesis of biosemiotics, sign processes characterise all living systems and the very nature of life, and their diverse phenomena can be best explained via the dynamics and typology of sign relations. The authors are (...) therefore presenting a deeper view on biological evolution, intentionality of organisms, the role of communication in the living world and the nature of sign systems - all topics which are described in this volume. This has important consequences on the methodology and epistemology of biology and study of life phenomena in general, which the authors aim to help the reader better understand. (shrink)

The book deals with the notion of Downward Causation from a wide array of perspectives, including physics, biology, psychology, social science, communication studies, text theory, and philosophy. The book includes proponents as well as opponents discussing the validity of the notion.

Theses on the semiotic study of life as presented here provide a collectively formulated set of statements on what biology needs to be focused on in order to describe life as a process based on semiosis, or sign action. An aim of the biosemiotic approach is to explain how life evolves through all varieties of forms of communication and signification (including cellular adaptive behavior, animal communication, and human intellect) and to provide tools for grounding sign theories. We introduce the concept (...) of semiotic threshold zone and analyze the concepts of semiosis, function, umwelt, and the like as the basic concepts for theoretical biology. (shrink)

Terms loaded with informational connotations are often employed to refer to genes and their dynamics. Indeed, genes are usually perceived by biologists as basically ‘the carriers of hereditary information.’ Nevertheless, a number of researchers consider such talk as inadequate and ‘just metaphorical,’ thus expressing a skepticism about the use of the term ‘information’ and its derivatives in biology as a natural science. First, because the meaning of that term in biology is not as precise as it is, for instance, in (...) the mathematical theory of communication. Second, because it seems to refer to a purported semantic property of genes without theoretically clarifying if any genuinely intrinsic semantics is involved. Biosemiotics, a field that attempts to analyze biological systems as semiotic systems, makes it possible to advance in the understanding of the concept of information in biology. From the perspective of Peircean biosemiotics, we develop here an account of genes as signs, including a detailed analysis of two fundamental processes in the genetic information system (transcription and protein synthesis) that have not been made so far in this field of research. Furthermore, we propose here an account of information based on Peircean semiotics and apply it to our analysis of transcription and protein synthesis. (shrink)

The aim of this paper is to investigate the relationship between information and abductive reasoning in the context of problem-solving, focusing on non-human animals. Two questions guide our investigation: What is the relation between information and abductive reasoning in the context of human and non-human animals? Do non-human animals perform discovery based on inferential processes such as abductive reasoning? In order to answer these questions, we discuss the semiotic concept of information in relation to the concept of abductive reasoning and, (...) more specifically, to the notion of manipulative abduction proposed by Magnani. Finally, we investigate a case study of corvids’ intelligence, namely, their capacity of causal cognition. (shrink)

In this note some epistemological problems in general theories about living systems are considered; in particular, the question of hidden connections between different areas of experience, such as folk biology and scientific biology, and hidden connections between central concepts of theoretical biology, such as function, semiosis, closure and life.

The individual and social formation of a human self, from its emergence in early childhood through adolescence to adult life, has been described within philosophy, psychology and sociology as a product of developmental and social processes mediating a linguistic and social world. Semiotic scaffolding is a multi-level phenomenon. Focusing upon levels of semiosis specific to humans, the formation of the personal self and the role of friendship and similar interpersonal relations in this process is explored through Aristotle’s classical idea of (...) the friend as ‘another self’, and sociologist Margaret Archer’s empirical and theoretical work on the interplay between individual subjectivity, social structure and interpersonal relations in a dynamics of human agency. It is shown that although processes of reflexivity and friendship can indeed be seen as instances of semiotic scaffolding of the emerging self, such processes are heterogeneous and contingent upon different modes of reflexivity. (shrink)

The evolutionary emergence of biological processes in organisms with inner, qualitative aspects has not been explained in any sufficient way by neurobiology, nor by the traditional neo-Darwinian paradigm — natural selection would appear to work just as well on insentient zombies (with the right behavioral input-output relations) as on real sentient animals. In consciousness studies one talks about the ‘hard problem’ of qualia. In this paper I sketch a set of principles about sign action, causality and emergent evolution. On the (...) basis of these principles, I characterize a concept of cause that would allow for a naturalistic explanation of the origin of consciousness. The suggested account of causation also turns the ‘hard problem’ of qualia into the easier problem of relating experimental biology to experiential biology. (shrink)

In philosophy of science, the literature on abduction and the literature on styles of thinking have existed almost totally in parallel. Here, for the first time, we bring them together and explore their mutual relevance. What is the consequence of the existence of several styles of scientific thinking for abduction? Can abduction, as a general creative mode of inference, have distinct characteristic forms within each style? To investigate this, firstly, we present the concept of abduction; secondly we analyze what is (...) understood by styles of thinking; thirdly, we give some comments on abduction and styles of thinking by analyzing examples of scientific discovery or innovation within each style. We develop a case-based comparative investigation of creative aspects of abductive reasoning with examples drawn from different styles of scientific thinking and doing as understood by the Crombie/hacking tradition. We argue that abduction, as a general mode of reasoning, can have a variety of specific expressions enabled and constrained by the styles of scientific thinking. Finally, we draw some conclusions on the relationship between abduction and styles of thinking suggesting that scientific discovery is a dynamical goal-directed activity within the scientific community that benefits from distinct styles of thinking and doing research. (shrink)

1Center for the Philosophy of Nature and Science Studies, Blegdamsvej 17, DK-2100 Copenhagen, Denmark. Published pp. 117-124 in: Mark Bedeau, Phil Husbands, Tim Hutton, Sanjev Kumar and Hideaki Suzuki : Workshop and Tutorial Proceedings. Ninth International Conference on the Simulation and Synthesis of Living Systems.

A short review of complexity research from the perspective of history and philosophy of biology is presented. Complexity and its emergence has scientific and metaphysical meanings. From its beginning, biology was a science of complex systems, but with the advent of electronic computing and the possibility of simulating mathematical models of complicated systems, new intuitions of complexity emerged, together with attempts to devise quantitative measures of complexity. But can we quantify the complex?

It is argued, that theory sf signs, especially in the tradition of the great philosopher Charles Sanders Peirce (1839–1914) can inspire the study of central problems in the philosophy of biology. Three such problems are considered: (1) The nature of biology as a science, where a semiotically informed pluralistic approach to the theory of science is introduced. (2) The peculiarity of the general object of biology, where a realistic interpretation of sign- and information-concepts is required to see sign-processes as immanent (...) in nature. (3) The possibility of an artificial construction of life, hereby discussed as a conceptual problem in the present form of the artificial life project and its implied definition of life. (shrink)

Biosemiotics is a growing fi eld that investigates semiotic processes in the living realm in an attempt to combine the fi ndings of the biological sciences and semiotics. Semiotic processes are more or less what biologists have typically referred to as “ signals, ” “ codes, ”and “ information processing ”in biosystems, but these processes are here understood under the more general notion of semiosis, that is, the production, action, and interpretation of signs. Thus, biosemiotics can be seen as biology (...) interpreted as a study of living sign systems — which also means that semiosis or sign process can be seen as the very nature of life itself. In other words, biosemiotics is a field of research investigating semiotic processes (meaning, signification, communication, and habit formation in living systems) and the physicochemical preconditions for sign action and interpretation. -/- (...). (shrink)

This paper examines the biosemiotic approach to the study of life processes by fashioning a series of questions that any worthwhile semiotic study of life should ask. These questions can be understood simultaneously as: (1) questions that distinguish a semiotic biology from a non-semiotic (i.e., reductionist–physicalist) one; (2) questions that any student in biosemiotics should ask when doing a case study; and (3) still currently unanswered questions of biosemiotics. In addition, some examples of previously undertaken biosemiotic case studies are examined (...) so as to suggest a broad picture of how such a biosemiotic approach to biology might be done. (shrink)

Emergence is a universal phenomenon that can be defined mathematically in a very general way. This is useful for the study of scientifically legitimate explanations of complex systems, here defined as hyperstructures. A requirement is that the observation mechanisms are considered within the general framework. Two notions of emergence are defined, and specific examples of these are discussed.

Published in: Edwina Taborsky, ed. (1999): Semiosis. Evolution. Energy: Towards a Reconceptualization of the Sign. Shaker Verlag, Aachen. (pp. 89-108). The book is based on the meeting "Semiosis. Evolution. Energy, Third International Conference on Semiotics", Victoria Collage, University of Toronto, Canada, October 17-19, 1997 (programme and list of papers, see the SEE web page:http://www.library.utoronto.ca/see).

A central aspect of the relation between biosemiotics and biology is investigated by asking: Is a biological concept of function intrinsically related to a biosemiotic concept of sign action, and vice versa? A biological notion of function (as some process or part that serves some purpose in the context of maintenance and reproduction of the whole organism) is discussed in the light of the attempt to provide an understanding of life processes as being of a semiotic nature, i.e., constituted by (...) sign actions. Does signification and communication in biology (e.g., intracellular communication) always presuppose an organism with distinct semiotic or quasi-semiotic functions? And, symmetrically, is it the case that functional relations are simply not conceivable without living sign action? The present note is just an introduction to a project aiming at elucidating the relations between biofunction and biosemiosis. (shrink)

Bibliographical Note Abstract Explaining things - introductory remarks General attitudes and the standard view Requirements for a definition Life as the natural selection of replicators Life as an autopoietic system Life as a semiotic phenomenon Downward causation Implicitly well-defined general objects Emergence as explanatory strategy: the observer reappears Concluding remarks Acknowledgements Notes References Bibliographical note: Earlier versions of this paper were presented at the Princeton History of Science Workshop on "Growing Explanations", Princeton University, February 15, 1997; and at the meeting (...) in the International Society for the History, Philosophy and Social Studies of Biology (ISHPSSB) in Seattle, USA, July 16-21, 1997. Different parts were published in a modified form as 1) Emmeche (1997): "Autopoietic systems, replicators, and the search for a meaningful biologic definition of life", Ultimate Reality and Meaning 20 (4): 244-264 [the original title was: "Is the definition of life important?"], and 2) Emmeche (1998): "Defining life as a semiotic phenomenon", Cybernetics & Human Knowing 5 (1): 3-17. The present web version below contains the complete argument of both articles. A further thoroughly rewritten version, accessible also for non-specialists, was made in collaboration with Charbel Niño El-Hani, and translated by him into Portuguese as a contribution to a book (this version can be found at www.nbi.dk/~emmeche/coPubl/99.DefVida.CE.EH.html). (shrink)

Is life a property of the material structure of a living system or an abstract form of organization that can be realized in other media; artificial as well as natural? One version of the Artificial Life research programme presumes, that one can separate the logical form of an organism from its material basis of construction, and that its capacity to live and reproduce is a property of the form, not the matter (Langton 1989). This seems to oppose the notion of (...) a cell within contemporary molecular biology, according to which "form" and "matter" do not represent separate realms. The information in a living cell is intimately bound to the properties of the material substrate. This condition may represent a restriction on the validity of formal theories of life. (shrink)

In this note some epistemological problems in general theories about living systems are considered; in particular, the question of hidden connections between different areas of experience, such as folk biology and scientific biology, and hidden connections between central concepts of theoretical biology, such as function, semiosis, closure and life.

A central aspect of the relation between biosemiotics and biology is investigated by asking: Is a biological concept of function intrinsically related to a biosemiotic concept of sign action, and vice versa? A biological notion of function (as some process or part that serves some purpose in the context of maintenance and reproduction of the whole organism) is discussed in the light of the attempt to provide an understanding of life processes as being of a semiotic nature, i.e., constituted by (...) sign actions. Does signification and communication in biology (e.g., intracellular communication) always presuppose an organism with distinct semiotic or quasi-semiotic functions? And, symmetrically, is it the case that functional relations are simply not conceivable without living sign action? The present note is just an introduction to a project aiming at elucidating the relations between biofunction and biosemiosis. (shrink)

Emergence is a universal phenomenon that can be defined mathematically in a very general way. This is useful for the study of scientifically legitimate explanations of complex systems, here defined as hyperstructures. A requirement is that the observation mechanisms are considered within the general framework. Two notions of emergence are defined, and specific examples of these are discussed.

It is argued in this paper that robots are just quasi-autonomous beings, which must be understood, within an emergent systems view, as intrinsically linked to and presupposing human beings as societal creatures within a technologically mediated world. Biosemiotics is introduced as a perspective on living systems that is based upon contemporary biology but reinterpreted through a qualitative organicist tradition in biology. This allows for emphasizing the differences between an organism as a general semiotic system with vegetative and self-reproductive capacities, an (...) animal body also with sentience and phenomenal states, and higher forms of anthroposemiotic systems such as humans, machines and robots. On all three levels, representations are crucial processes. The “representationalism” invoked by critiques of cognitive science and robotics tends to focus only on simplistic notions of representation, and must be distinguished from a Peircean or biosemiotic notion of representation. Implications for theorizing about the physical, biological, animate, phenomenal and social body and their forms of autonomy are discussed. (shrink)

The present paper discusses a topic often neglected by contemporary philosophy of biology: The relation between metaphorical notions of living organisms as information processing systems, the attempts to model such systems by computational means (e.g., Artificial Life research), and the idea that life itself is a computational phenomenon. This question has ramifications in theoretical biology and thedefinition of Iife, in theoretical computer science and the concept of computation, and in semiotics (the study of signs in the most general sense, including (...) information, signification, and meaning), and the concept of the interpreter. It is argued, that the theory of autopoietic systems known from theoretical biology should be integrated with a biosemiotic reflection on the natural history of signs. (shrink)

When posing the question "is artificial life possible?", our immediate answer is that on the one hand : of course it is - people make it, and indeed very interesting and even breathtaking structures have already been constructed, such as `aminats', self-reproducing patterns and the other things, we have seen already. In this sense we are forced to take artificial life as a fact (at least as a fact about a new branch of research), nearly in the same way that (...) the philosopher Kant took the theoretical physics of his days, Newtonian physics, as a matter of fact, and then asked: What are the conditions of possibility for this kind of theoretical science? On the other hand: The situation differs from Kant's. Artificial Life does not confront us with an analogy of theoretical mechanics within the field of biology. We face a curious situation: It is not obvious to the majority of biologists that Artificial Life is possible at all, at least in the purely computational sense of `software life'. Probably, most biologists would never call these artificial constructs `living'. Why not? Because the intuitive notions of life and living systems within biology implies, among other things, that living beings are a result of a long, ongoing evolutionary process that have created autonomous organisms, single-celled and multi-celled, that are highly organized, open (non-equilibrium), material thermodynamic systems based on metabolism and some kind of genetic information supported by macromolecules, that only metaphorically resemble a computer program. It is not that.. (shrink)

It is argued in this paper that robots are just quasi-autonomous beings, which must be understood, within an emergent systems view, as intrinsically linked to and presupposing human beings as societal creatures within a technologically mediated world. Biosemiotics is introduced as a perspective on living systems that is based upon contemporary biology but reinterpreted through a qualitative organicist tradition in biology. This allows for emphasizing the differences between an organism as a general semiotic system with vegetative and self-reproductive capacities, an (...) animal body also with sentience and phenomenal states, and higher forms of anthroposemiotic systems such as humans, machines and robots. On all three levels, representations are crucial processes. The “representationalism“ invoked by critiques of cognitive science and robotics tends to focus only on simplistic notions of representation, and must be distinguished from a Peircean or biosemiotic notion of representation. Implications for theorizing about the physical, biological, animate, phenomenal and social body and their forms of autonomy are discussed. (shrink)

The increasing problem of bioinvasion (the mixing up of natural species characterising the planet's local ecosystems due to globalisation) is investigated as an example of an ecosemiotic problematic. One concern is the scarcity of scientific knowledge about long term ecological and evolutionary consequences of invading species. It is argued that a natural science conception of the ecology of bioinvasion should be supplemented with an ecosemiotic understanding of the significance of these problems in relation to human culture, the question of cultural (...) diversity, and what it means to be indigenous or foreign. Bioinvasion, extinction of native species, and overall decrease in biodiversity, may go along with decreased cultural diversity; as when the loss of local agricultural traditions lead to genetic erosion. There are possible ecosemiotic parallels between language extinction and species extinction, both being related to globalisation. It is argued that the case of bioinvasion reveals the existence of two kinds of ecosemiotic contingency, (1) evolutionary openended and partly random generation of new species and extinction of old ones; (2) the historicity of culture in general and "culture's nature" specifically in the demarcation of a set of landscapes characteristic to a particular nation and piece of human history. (shrink)

The increasing problem of bioinvasion (the mixing up of natural species characterising the planet's local ecosystems due to globalisation) is investigated as an example of an ecosemiotic problematic. One concern is the scarcity of scientific knowledge about long term ecological and evolutionary consequences of invading species. It is argued that a natural science conception of the ecology of bioinvasion should be supplemented with an ecosemiotic understanding of the significance of these problems in relation to human culture, the question of cultural (...) diversity, and what it means to be indigenous or foreign. Bioinvasion, extinction of native species, and overall decrease in biodiversity, may go along with decreased cultural diversity; as when the loss of local agricultural traditions lead to genetic erosion. There are possible ecosemiotic parallels between language extinction and species extinction, both being related to globalisation. It is argued that the case of bioinvasion reveals the existence of two kinds of ecosemiotic contingency, (1) evolutionary openended and partly random generation of new species and extinction of old ones; (2) the historicity of culture in general and "culture's nature" specifically in the demarcation of a set of landscapes characteristic to a particular nation and piece of human history. (shrink)

Books reviewed:Mark BevirThe Logic of the History of Ideas.

This obituary about Jesper Hoffmeyer, thinker, scholar, science communicator, biochemist, biosemiotician, and saxophonist, gives a sketch of his intellectual biography, and provides a bibliography of the books he authored or edited.

This obituary about Jesper Hoffmeyer, thinker, scholar, science communicator, biochemist, biosemiotician, and saxophonist, gives a sketch of his intellectual biography, and provides a bibliography of the books he authored or edited.