John Collier

It is generally agreed that organisms are Complex Adaptive Systems. Since the rise of Cybernetics in the middle of the last century ideas from information theory and control theory have been applied to the adaptations of biological organisms in order to explain how they work. This does not, however, explain functionality, which is widely but not universally attributed to biological systems. There are two approaches to functionality, one based on etiology (what a trait was selected for), and the other based in autonomy. I argue that the etiological approach, as understood in terms of control theory, suffers from a problem of symmetry, by which function can equally well be placed in the environment as in the organism. Focusing on the autonomy view, I note that it can be understood to some degree in terms of control theory in its version called second order cybernetics. I present an approach to second order cybernetics that seems plausible for organisms with limited computational power, due to Hooker, Penfold and Evans. They hold that this approach gives something like concepts, certainly abstractions from specific situations, a trait required for functionality in its system adaptive form (i.e., control of the system by itself). Using this cue, I argue that biosemiotics provides the methodology to incorporate these quasi concepts into an account of functionality.

Anticipation allows a system to adapt to conditions that have not yet come to be, either externally to the system or internally. Autonomous systems actively control the conditions of their own existence so as to increase their overall viability. This paper will first give minimal necessary and sufficient conditions for autonomous anticipation, followed by a taxonomy of autonomous anticipation. In more complex systems, there can be semi-autonomous subsystems that can anticipate and adapt on their own. Such subsystems can be integrated into a system’s overall autonomy, typically with greater efficiency due to modularity and specialization of function. However, it is also possible that semi-autonomous subsystems can act against the viability of the overall system, and have their own functions that conflict with overall system functions

Integrating concepts of maintenance and of origins is essential to explaining biological diversity. The unified theory of evolution attempts to find a common theme linking production rules inherent in biological systems, explaining the origin of biological order as a manifestation of the flow of energy and the flow of information on various spatial and temporal scales, with the recognition that natural selection is an evolutionarily relevant process. Biological systems persist in space and time by transfor ming energy from one state to another in a manner that generates structures which allows the system to continue to persist. Two classes of energetic transformations allow this; heat-generating transformations, resulting in a net loss of energy from the system, and conservative transformations, changing unusable energy into states that can be stored and used subsequently. All conservative transformations in biological systems are coupled with heat-generating transformations; hence, inherent biological production, or genealogical proesses, is positively entropic. There is a self-organizing phenomenology common to genealogical phenomena, which imparts an arrow of time to biological systems. Natural selection, which by itself is time-reversible, contributes to the organization of the self-organized genealogical trajectories. The interplay of genealogical (diversity-promoting) and selective (diversity-limiting) processes produces biological order to which the primary contribution is genealogical history. Dynamic changes occuring on times scales shorter than speciation rates are microevolutionary; those occuring on time scales longer than speciation rates are macroevolutionary. Macroevolutionary processes are neither redicible to, nor autonomous from, microevolutionary processes.

A major goal of science is to discover laws that underlie all regular phenomena. This goal is best satisfied by eternal principles that leave fundamental properties unchanged and unchangeable. Science has been forced to accept that some processes, especially biological processes, are inherently time oriented. It can either forgo the ideal of universal principles, and account for temporality through specific boundary conditions, or else incorporate the sources of change directly into fundamental principles that are the same for all times and places, and for all temporal scales. In the past, unifying principles adequate for biology have caused trouble for physics, and vice versa. Recent work at the intersection of non-equilibrium statistical mechanics and information theory suggests that physics and biology can finally be reconciled

We propose an objective and justifiable ethics that is contingent on the truth of evolutionary theory. We do not argue for the truth of this position, which depends on the empirical question of whether moral functions form a natural class, but for its cogency and possibility. The position we propose combines the advantages of Kantian objectivity with the explanatory and motivational advantages of moral naturalism. It avoids problems with the epistemological inaccessibility of transcendent values, while avoiding the relativism or subjectivism often associated with moral naturalism. Our position emerges out of criticisms of the contemporary sociobiological views of morality found in the writings of Richard Alexander, Michael Ruse, and Robert Richards.

Anticipation allows a system to adapt to conditions that have not yet come to be, either externally to the system or internally. Autonomous systems actively control their own conditions so as to increase their functionality (they self-regulate). Living systems self-regulate in order to increase their own viability. These increasingly stronger conditions, anticipation, autonomy and viability, can give an insight into progressively stronger classes of models of autonomy. I will argue that stronger forms are the relevant ones for Artificial Life. This has consequences for the design of and accurate simulation of living systems. Keywords: autonomy, modelling, function, simulation, anticipation, emergence DUBOIS’ CONJECTURE Autonomy basically means self-regulation. Self-regulation implies internal control of system states to achieve greater functionality, either internally or interactively with the environment. Functionality, as a teleological notion, implies that the system must be directed by likely future states; that is, it must anticipate and (possibly) adapt to likely future states. Functionality does not require autonomy (assuming functional goals are externally set), but merely that current states of the system can select suitable future states on the basis of suitable input. In this..

Richard Alexander's second book on biology and morality is a continuation and amplification of the project he reported on in Darwinism and Human Affairs1. The Biology of Moral Systems is more abstract than the earlier book. It does not broach any new empirical ground, but puts Alexander's views into a broader context of philosophical and sociological discussions of morality. It discusses and criticizes alternative philosophical and biological views of morality, and presents his views on the significance of biology to moral issues in law, democracy and pursuit of the Good. In one interesting section that I will not be able to discuss here, Alexander provides an evolutionary hypothesis to explain each of Kohlberg's stages of moral development (pp. 131ff). The book ends with a discussion of some specific moral problems

Rhythmic entrainment is the formation of regular, predictable patterns in time and/or space through interactions within or between systems that manifest potential symmetries. We contend that this process is a major source of symmetries in specific systems, whether passive physical systems or active adaptive and/or voluntary/intentional systems, except that active systems have more control over accepting or avoiding rhythmic entrainment. The result of rhythmic entrainment is a simplification of the entrained system, in the sense that the information required to describe it is reduced. Entrainment can be communicated, passing information from one system to another. The paradigm is a group of jazz percussionists agreeing on a complex musical progression. The process of rhythmic entrainment is complementary to that of symmetry breaking, which produces information. The two processes account for much, if not all, of the complexity and organization in the universe. Rhythmic entrainment can be more or less spontaneous, with the completely spontaneous form being uncontrollable. A balance between the two forms can produce a more robust system, requiring less energy to maintain, whether in physical, biological or social systems. We outline some applications in physics, chemistry, biology, measurement and communication, ending with the especially interesting case of social and economic order. First though, we must introduce some basic principles

There are a number of different species concepts currently in use. The variety results from differing desiderata and practices of taxonomists, ecologists and evolutionary theorists. Recently, arguments have been presented for pluralism about species. I believe this is unsatisfactory, however, because of the central role of species in biological theory. Taking the line that species are individuals, I ask what might individuate them. In other work I have argued that dynamical systems are individuated by their cohesion. I present here a version of a cohesion concept of species that accounts for the advantages of other species concepts, and is open-ended enough to accommodate additions to or changes in biological theory. On my account biological forces combine like Newtonian forces, to work on a common locus. Just as we might have an electromagnetic system, we might have an ecological species, if the dominant source of cohesion is ecology, but there is no certainty that biological species will divide up into elegant single principle types anymore than there is for physical systems

Examples of successful linguistic communication give rise to two important insights: (1) it should be understood most fundamentally in terms of the pragmatic success of each individual utterance, and (2) linguistic conventions need to be understood as on a par with the non-linguistic regularities that competent language users rely upon to refer. Syntax and semantics are part of what Barwise and Perry call the context of the utterance, contributing to the pragmatics of the utterance. This full and distributed multichannel context determines meaning if anything does. On the standard account of context, context disambiguates the meaning of language, but it is at least as apt in many situations to say that language disambiguates context. In practice, the two work together, sometimes with more emphasis on one than the other. Reference should be understood in pragmatic terms (it is an act) and, since success is often achieved in non-standard, creative ways, any formalisation of pragmatics can only be partial. The need for such an inventive approach to referring traces back to the need for language to be highly efficient, with expressions underdetermining their interpretation. Next, the shared semantic and syntactic regularities, which might seem to be independent of the context of an utterance, should be understood as also being part of that context. Past usage underdetermines how terms can be used since it allows for multiple projections. Successful reference with novel uses that are disambiguated by context can become the ground for new conventions.

Speculation about the evolutionary origins of morality has yet to show how a biologically based capacity for morality might be connected to moral reasoning. Applying an evolutionary approach to three kinds of cases where partiality may or may not be morally reasonable, this paper explores a possible connection between a psychological capacity for morality and processes of wide reflective moral equilibrium. The central hypothesis is that while we might expect a capacity for morality to include aspects of partiality, we might also expect these same aspects of the capacity to produce systemic forms of performance-based error. Understanding these errors helps point the way toward a theory of moral competence that includes aspects of both partiality and impartiality.

Progress has become a suspect concept in evolutionary biology, not the least because the core concepts of neo-Darwinism do not support the idea that evolution is progressive. There have been a number of attempts to account for directionality in evolution through additions to the core hypotheses of neo-Darwinism, but they do not establish progressiveness, and they are somewhat of an ad hoc collection. The standard account of fitness and adaptation can be rephrased in terms of information theory. From this, an information of adaptation can be defined in terms of a fitness function. The information of adaptation is a measure of the mutual information between biota and their environment. If the actual state of adaptation lags behind the state of optimal adaptation, then it is possible for the information of adaptation to increase indefinitely. Since adaptations are functional, this suggests the possibility of progressive evolution in the sense of increasing adaptation. Keywords: evolution, information, adaptation, fitness, entropy, progress..

In Robert West’s talk last week, dynamical systems theory (DST) was applied to a specific problem involving interacting symbolic systems, without much reference to how those systems are embodied or related to other types of systems. Despite this level of abstraction, DST can yield interesting results, though one might be left wondering if it really leads to understanding, or what it all means. In particular, Robert noted problems he has in convincing referees that the sort of explanation he gave can give a useful understanding, and that it doesn’t invoke dubious notions with its references to emergence, holism, and mathematical openness

Supervenience is a relationship which has been used recently to explain the physical determination of biological phenomena despite resistance to reduction. Supervenience, however, is plagued by ambiguities which weaken its explanatory value and obscure some interesting aspects of reduction in biology. Although I suspect that similar considerations affect the use of supervenience in ethics and the philosophy of mind, I don’t intend anything I have to say here to apply outside of the physical and biological cases I consider.The main point of this paper is that there is a property of biological systems which makes it both misleading and inappropriate to reduce central biological phenomena to the properties of underlying components. Despite this, reductive explanation has been a major source of innovation in biological theory. The apparent tension can be resolved if underlying properties are explanatorily relevant to the higher level phenomena even though the latter are not strictly reducible to the former. Supervenience, I will argue, is not robust enough to deny reduction while supporting explanatory relevance.

In this critical notice, I argue that the semantic view championed by Thompson no logical advantage over the syntactic view of theories, especially in the area of interpretation. Each weakness of the syntactic view has a corresponding weakness in the semantic view. In principle the two are not different in power, but it is sometimes better to adopt one rather than the other, for practical reasons. I agree with Thompson that many issues in the philosophy of biology can be illuminated by the semantic view, but that other things, especially deriving specific prediction, are best understood with the syntactic view

Biological systems are typically hierarchically organized, open, nonlinear systems, and inherit all of the characteristics of such systems that are found in the purely physical and chemical domains, to which all biological systems belong. In addition, biological systems exhibit functional properties, and they contain information in a form that is used internally to make required functional distinctions. The existence of these additional biological properties is widely granted, but their exact nature is controversial. I will address first the issue of biological function, and then turn to the issue of information in biosystems

Systematics, along with the other comparative biological sciences and certain astronomical disciplines, is much more concerned with form and organization than other biological and physical sciences, in which dynamics plays the central role. Within the biological sciences, Nelson (1970) characterizes disciplines that study diversity and patterns “comparative” and those that search for process and dynamics “general.” The goal of “general” science is to uncover the mechanisms that unify observed phenomena. Whether the physicist sees herself, like Newton (1953: 3-5), to be discovering fundamental causal explanations, or like Duhem (1962: 19-30), to be uncovering a natural classification, dynamical concepts referring to essentially hidden processes are indispensable. Much of comparative biology, in contrast, is primarily descriptive, with explanations taking a secondary role, at least until the diversity is described and comparisons made. Unlike the general sciences, in which elegance and quantitative analysis have long been major indicators of truth, the comparative sciences stress complexity, happenstance and qualitative analysis. In systematics in particular, theory and explanation are often thought to play a minimal role, if any at all1