Epistemology of Evolution

Reichenbach’s early solution to the scientific problem of how abstract mathematical representations can successfully express real phenomena is rooted in his view of coordination. In this paper, I claim that a Reichenbach-inspired, ‘layered’ view of coordination provides us with an effective tool to systematically analyse some epistemic and conceptual intricacies resulting from a widespread theorising strategy in evolutionary biology, recently discussed by Okasha (2018) as ‘endogenization’. First, I argue that endogenization is a form of extension of natural selection theory that (...) comprises three stages: quasi-axiomatisation, functional extension, and semantic extension. Then, I argue that the functional extension of one core principle of natural selection theory, namely, the principle of heritability, requires the semantic extension of the concept of inheritance. This is because the semantic extension of ‘inheritance’ is necessary to establish a novel form of coordination between the principle of heritability and the extended domain of phenomena that it is supposed to represent. Finally, I suggest that – despite the current lack of consensus on the right semantic extension of ‘inheritance’ – we can fruitfully understand the reconceptualization of ‘inheritance’ provided by niche construction theorists as the result of a novel form of coordination. (shrink)

A recent debate over the causal foundations of evolutionary theory pits those who believe that natural selection causally explains long-term, adaptive population change against those who do not. In this paper, I argue that this debate – far from being an invention of several articles in 2002 – dates from our very first engagements with evolution as a quantified, statistical science. Further, when we analyze that history, we see that a pivotal figure in the early use of statistical methodology in (...) evolutionary theory, W.F.R. Weldon, changes his mind about precisely the central claim at issue. I close by drawing some morals which I think the case can offer for the contemporary debate going forward. (shrink)

Synthesising arguments motivate changes to the conceptual tools, theoretical structure, and evaluatory framework employed in a given scientific domain. Recently, a broad coalition of researchers has put forward a synthesising argument in favour of an Extended Evolutionary Synthesis (‘EES’). Often this synthesising argument is evaluated using a virtue-based approach, which construes the EES as a wholesale alternative to prevailing practice. Here I argue this virtue-based approach is not fit for purpose. Taking the central concept of niche construction as a case (...) study, I show that an agenda-based approach better captures the pragmatic and epistemological goals of the EES synthesising argument and diagnoses areas of empirical disagreement with prevailing practice. (shrink)

In this work I propose a theory of evolution as a process of unfolding. This theory is based on four logically concatenated principles. The principle of evolutionary order establishes that the more complex cannot be generated from the simpler. The principle of origin establishes that there must be a maximum complexity that originates the others by logical deduction. Finally, the principle of unfolding and the principle of actualization guarantee the development of the evolutionary process from the simplest to the most (...) complex. These logical principles determine the existence of a virtual ideological matrix that contains the sequence of the preformed and folded morphogenetic fields. In this manner, the evolutionary process consists of the sequential unfolding and actualization of these fields, which is motorized by a process of teleologization carried out by the opening consciousness of the forms included in the fields of the ideological matrix. This theory leads to a radical change of perspective regarding the materialist worldview, and places life at the center of the evolutionary process as an activity carried out by a consciousness that seeks to fulfill a purpose by actualizing its own potentialities. (shrink)

Has science already answered the fundamental questions about the concepts of Life, Cosmos and Evolution? Has science not relegated these fundamental questions by following up on more immediate, “useful” and practical endeavors that ultimately ensure that the wheel of capitalism keeps spinning in its frantic search for material and economic progress? There is something terribly wrong with the current theory of evolution, understood as the Darwinian theory with its successive versions and extensions. The concept of natural selection, the cornerstone of (...) Darwinism, is logically inconsistent. This has been demonstrated in some of my latest academic publications. The entire conceptual framework of Darwinism is inadequate. Organisms do not compete with each other for the survival of the fittest. The fundamental relationship in Nature is not competition or confrontation, but interconnectivity, complementarity, and relational meaningfulness. A new theory of evolution is necessary to explain how it is possible that organisms as simple as bacteria, protozoa and diatoms could have generated organisms as complex as primates, and among them, the human being, a being capable of feeling and thinking, of suffering and enjoying, a being capable of having ideals and purposes. A theory that explains how it is possible that this being so complex, rich, and to some extent still unknown, has emerged from a single cell, an egg-cell, lacking all the capacities, riches and depths of human existence. Such a theory already exists. (shrink)

Il s’agit d’un excellent examen des interactions génétiques / environnement sur le comportement et, en dépit d’être un peu daté, est une lecture facile et utile. Ils commencent par des études jumelles qui montrent l’impact écrasant de la génétique sur le comportement. Ils notent les études de plus en plus connues de Judith Harris qui étendent et résument les faits que l’environnement familial partagé n’a presque aucun effet sur le comportement et que les enfants adoptés grandissent pour être aussi différents (...) de leurs demi-frères et soeurs que les personnes choisies au hasard. Un point fondamental qu’ils (et presque tous ceux qui discutent de la génétique comportementale) ne parviennent pas à noter est que les centaines (des milliers selon votre point de vue) des universels comportementaux humains, y compris toutes les bases de nos personnalités, sont 100% déterminés par nos gènes, sans aucune variation dans les normales. Tout le monde voit un arbre comme un arbre et non une pierre, cherche et mange de la nourriture, se met en colère et jaloux, etc. Donc, ce dont ils parlent surtout ici, c’est de la quantité d’environnement (culture) qui peut influer sur la mesure dans laquelle les divers traits sont montrés, plutôt que leur apparence. Enfin, ils discutent de l’eugénisme de la manière politiquement correcte habituelle, à défaut de noter que nous et tous les organismes sommes les produits de l’eugénisme de la nature et que les tentatives de vaincre la sélection naturelle avec la médecine, l’agriculture, et la civilisation dans son ensemble, sont désastreuses pour toute société qui persiste à le faire. Jusqu’à 50% de toutes les conceptions, soit environ 100 millions par an, se terminent par un avortement spontané précoce, presque tous sans que la mère soit au courant. Cet abattage naturel de gènes défectueux stimule l’évolution, nous maintient relativement génétiquement sains et rend la société possible. Dysgenics est suffisant pour détruire la civilisation, mais la surpopulation sera do ild’abord. Ceux qui souhaitent un cadre complet à jour pour le comportement humain de la vue moderne de deuxemssyst peuvent consulter mon livre 'The Logical Structure of Philosophy, Psychology, Mind and Language in Ludwig Wittgenstein et John Searle' 2nd ed (2019). Ceux qui s’intéressent à plus de mes écrits peuvent voir «Talking Monkeys --Philosophie, Psychologie, Science, Religion et Politique sur une planète condamnée --Articles et revues 2006-2017' 3rd ed (2019) et autres. (shrink)

Esta es una excelente revisión de las interacciones gen/ambiente en el comportamiento y, a pesar de ser un poco anticuado, es una lectura fácil y valiosa. Empiezan con estudios gemelos que muestran el impacto abrumador de la genética en el comportamiento. Señalan los estudios cada vez más conocidos de Judith Harris, que amplían y resumen los hechos de que el ambiente doméstico compartido casi no tiene efecto sobre el comportamiento y que los niños adoptados crecen para ser tan diferentes de (...) sus hermanastros y hermanas como las personas elegidas al azar. Un punto básico que ellos (y casi todos los que discuten sobre la genética conductual) no se dan cuenta es que los cientos (miles dependiendo de su punto de vista) de los universales de comportamiento humano, incluyendo todos los fundamentos de nuestras personalidades, son 100% determinado por nuestros genes, con no hay variación en las normales. Todo el mundo ve un árbol como un árbol y no una piedra, busca y come comida, se enfada y celosa, etc. Por lo tanto, lo que están hablando sobre todo aquí es cuánto ambiente (cultura) puede afectar al grado en que se muestran varios rasgos, en lugar de su apariencia. Por último, discuten la eugenesia en la costumbre políticamente correcta, al no notar que nosotros y todos los organismos somos los productos de la eugenesia de la naturaleza y que los intentos de derrotar la selección natural con la medicina, la agricultura y la civilización en su conjunto, son desastroso para cualquier sociedad que persiste en hacer esto. Tanto como el 50% de todas las concepciones, o unos 100 millones/año, terminan en abortos espontáneos tempranos, casi todos sin que la madre sea consciente. Este sacrificio natural de genes defectuosos impulsa la evolución, nos mantiene relativamente genéticamente sólidas y hace posible la sociedad. La disgenesia es suficiente para destruir la civilización pero sobrepoblación se do primero. Aquellos que deseen un marco completo y actualizado para el comportamiento humano desde la vista moderna de dos sistemas pueden consultar mi libros Talking Monkeys 3ª ed (2019), The Logical Structure of Philosophy, Psychology, Mind and Language in Ludwig Wittgenstein and John Searle 2a ed (2019), Suicidio por Democracia 4ª ed (2019), La estructura Lógica del Comportamiento Humano (2019), La Estructura Lógica de la Conciencia (2019, Comprender las Conexiones entre la Ciencia, la Filosofía, Psicología, Religión, Política , Economía, Historia y Literatura (2019), Delirios Utópicos Suicidas en el Siglo XXI 5ª ed (2019) y otras. (shrink)

The modern concept of ideology was established by the liberal politician and philosopher Destutt de Tracy, with the objective of creating an all-embracing and general science of ideas, which followed the sensualist and empiricist trend initiated by Locke that culminated in the positivism of Comte. Natural selection and immunity are two key concepts in the history of biology that were strongly based on the Malthusian concept of struggle for existence. This concept wrongly assumed that population grew faster than the means (...) of existence. This “natural” law contained implicitly the idea that the poor and least gifted would not survive. This idea led to the progressive development of the concept of natural selection, whose definitive version was given by Darwin. Mechnikov took the concepts of struggle for existence and natural selection and conceived infectious diseases as a struggle between a host and its invader, the so-called phagocytosis theory. This theory created the necessity to possess mechanisms to discriminate between the own and the foreign, and led to the conception of the immune self. These concepts were not developed from ideas coming from perceptions or sensations, but from ideas coming from their values: individual interest, inevitable inequality, property, utility and profit. Values are ideals that constitute an ideological matrix which exerts a numinous activity and influence the development of our future actions. In consequence, science and its practice cannot avoid and ignore the values that drive them and impulse them towards certain directions. (shrink)

The topic of the relationship between the organism and its environment runs through the theories of Uexküll, Goldstein and Canguilhem with equal importance. In this work a counterpoint will be established between their theories, in the attempt to assess at which points the melodies are concordant and at which points they are discordant. As fundamental basis to his theory, Uexküll relies on the concept of conformity to a plan, which allows him to account for the congruity and perfect adjustment between (...) organisms and their Umwelten. For Goldstein and Canguilhem, the relationship between an organism and its environment resembles instead a debate or coming to terms, in which the organism, as to ensure the continuity of the state of health, must constantly create norms to maintain a productive relationship with its environment. The pinpointing of these conceptual frameworks allows to lay emphasis on that each theory relies on specific assumptions regarding teleology and sense in organisms, as well as on specific definitions of the concept of life in general. Ultimately, the view that organisms and their environments have an original and common source, a principle, or plan, which must possess all the creative characteristics of life, will be seen as prevailing. (shrink)

In identifying intrinsic molecular chance and extrinsic adaptive pressures as the only causally relevant factors in the process of evolution, the theoretical perspective of the Modern Synthesis had a major impact on the perceived tenability of an ontology of dispositional properties. However, since the late 1970s, an increasing number of evolutionary biologists have challenged the descriptive and explanatory adequacy of this “chance alone, extrinsic only” understanding of evolutionary change. Because morphological studies of homology, convergence, and teratology have revealed a space (...) of possible forms and phylogenetic trajectories that is considerably more restricted than expected, evo-devo has focused on the causal contribution of intrinsic developmental processes to the course of evolution. Evo-devo’s investigation into the developmental structure of the modality of morphology – including both the possibility and impossibility of organismal form – has led to the utilisation of a number of dispositional concepts that emphasise the tendency of the evolutionary process to change along certain routes. In this sense, and in contrast to the perspective of the Modern Synthesis, evo-devo can be described as a “science of dispositions.” This chapter discusses the recent philosophical literature on dispositional properties in evo-devo, exploring debates about both the metaphysical and epistemological aspects of the central dispositional concepts utilised in contemporary evo-devo and addressing the epistemological question of how dispositional properties challenge existing explanatory models in evolutionary biology. (shrink)

The theory of evolution of complex, including the humans system and algorithm for its constructing are a synthesis of evolutionary epistemology, philosophical anthropology and concrete scientific empirical basis in modern science,. In other words, natural philosophy is regaining the status bar element theoretical science in the era of technology-driven evolution. The co-evolutionary concept of 3-modal stable evolutionary strategy of Homo sapiens is developed. The concept based on the principle of evolutionary complementarity of anthropogenesis: value of evolutionary risk and evolutionary path (...) of human evolution are defined by descriptive (evolutionary efficiency) and creative-teleological (evolutionary correctly) parameters simultaneously, that cannot be instrumental reduced to others ones. Resulting volume of both parameters define the vectors of biological, social, cultural and techno-rationalistic human evolution by two gear mechanism ˗ genetic and cultural co-evolution and techno-humanitarian balance. The resultant each of them can estimated by the ratio of socio-psychological predispositions of humanization/dehumanization in mentality. Explanatory model and methodology of evaluation of creatively teleological evolutionary risk component of NBIC technological complex is proposed. Integral part of the model is evolutionary semantics (time-varying semantic code, the compliance of the biological, socio-cultural and techno-rationalist adaptive modules of human stable evolutionary strategy). (shrink)

The Extended Evolutionary Synthesis (EES) debate is gaining ground in contemporary evolutionary biology. In parallel, a number of philosophical standpoints have emerged in an attempt to clarify what exactly is represented by the EES. For Massimo Pigliucci, we are in the wake of the newest instantiation of a persisting Kuhnian paradigm; in contrast, Telmo Pievani has contended that the transition to an EES could be best represented as a progressive reformation of a prior Lakatosian scientific research program, with the extension (...) of its Neo-Darwinian core and the addition of a brand-new protective belt of assumptions and auxiliary hypotheses. Here, we argue that those philosophical vantage points are not the only ways to interpret what current proposals to ‘extend’ the Modern Synthesis-derived ‘standard evolutionary theory’ (SET) entail in terms of theoretical change in evolutionary biology. We specifically propose the image of the emergent EES as a vast network of models and interweaved representations that, instantiated in diverse practices, are connected and related in multiple ways. Under that assumption, the EES could be articulated around a paraconsistent network of evolutionary theories (including some elements of the SET), as well as models, practices and representation systems of contemporary evolutionary biology, with edges and nodes that change their position and centrality as a consequence of the co-construction and stabilization of facts and historical discussions revolving around the epistemic goals of this area of the life sciences. We then critically examine the purported structure of the EES—published by Laland and collaborators in 2015—in light of our own network-based proposal. Finally, we consider which epistemic units of Evo-Devo are present or still missing from the EES, in preparation for further analyses of the topic of explanatory integration in this conceptual framework. (shrink)

ABSTRACT ‘Modus Darwin’ is the name given by Elliott Sober to a form of argument that he attributes to Darwin in the Origin of Species, and to subsequent evolutionary biologists who have reasoned in the same way. In short, the argument form goes: similarity, ergo common ancestry. In this article, I review and critique Sober’s analysis of Darwin’s reasoning. I argue that modus Darwin has serious limitations that make the argument form unsuitable for supporting Darwin’s conclusions, and that Darwin did (...) not reason in this way. (shrink)

Evolutionary biology is striking for its ability to explain a large and diverse range of empirical phenomena on the basis of a few general theoretical principles. This article offers a philosophical perspective on the way that evolutionary biology has come to achieve such impressive generality, by focusing on “the strategy of endogenization”. This strategy involves devising evolutionary explanations for biological features that were originally part of the background conditions, or scaffolding, against which such explanations take place. Where successful, the strategy (...) moves biology a step closer to the ideal of explaining as much as possible from evolutionary first principles. The strategy of endogenization is illustrated through a series of biological examples, historical and recent, and its philosophical implications are explored. (shrink)

Reductionism concerns a set of ontological and epistemological claims, and methodological strictures based on them, about the relationship between two different scientific domains. The critical assumption is that one of these domains is privileged over the other in the sense that the concepts, rules, laws, and other elements of the privileged domain can be used to specify, constitute, or account for those of the other “reduced” domain. This specification often consists of explanation, such that the “reducing” domain is epistemically privileged (...) over the reduced one. Explanations of this type are “reductionist” (or, are “reductions”) and reductionism is then the thesis that such explanations will always be forthcoming or at least are possible in principle. Reductionism is most plausible if the entities of the reduced domain can be interpreted as arising from (e.g., as aggregates of) entities of the reduced domain. This ontological claim is controversial but motivates many reductionist theses and associated scientific research programs. Thus, epistemological and ontological claims about reductionism have the methodological implication that they should govern and guide scientific research. When such research proves to be fruitless over a period of time, the associated reductionist claims themselves become suspect. Although issues connected with reductionism arise in the physical and social sciences, most attention to reductionism in philosophy of science over the last few decades has focused on the biological sciences, especially after the advent of molecular biology made it plausible to believe that biological phenomena can be uniformly explained (in detail) from their physical basis. However, the program of finding such explanations has a long philosophical history often couched in terms of seeking “mechanical,” “mechanistic,” or “materialistic” explanations. The contrast here is with traditional vitalism and various forms of teleology and holism. (shrink)

Among philosophical analyses of Darwin’s Origin, a standard view says the theory presented there had no concrete observational consequences against which it might be checked. I challenge this idea with a new analysis of Darwin’s principal geographical distribution observations and how they connect to his common ancestry hypothesis.

We argue that the economy of nature constitutes an invocation of structure in the biological sciences, one largely missed by philosophers of biology despite the turn in recent years toward structural explanations throughout the philosophy of science. We trace a portion of the history of this concept, beginning with the theologically and economically grounded work of Linnaeus, moving through Darwin’s adaptation of the economy of nature and its reconstitution in genetic terms during the first decades of the Modern Synthesis. What (...) this historical case study reveals, we argue, is a window into the shifting landscape of the explanatory and ontic uses of structural concepts. In Linnaeus, the economy of nature has both ontic and explanatory import; in Darwin the ontic and explanatory aspects start to come apart ; and finally, in the Modern Synthesis, the economy of nature is replaced by the conceptual toolkit of population genetics, the structural elements of which are nearly entirely explanatory. Having traced a historical trajectory of structural concepts that moves from an ontic formulation to an increasingly explanatory one, we conclude by outlining some insights for structural realism. (shrink)

The chapter explains why evolutionary genetics – a mathematical body of theory developed since the 1910s – eventually got to deal with culture: the frequency dynamics of genes like “the lactase gene” in populations cannot be correctly modeled without including social transmission. While the body of theory requires specific justifications, for example meticulous legitimations of describing culture in terms of traits, the body of theory is an immensely valuable scientific instrument, not only for its modeling power but also for the (...) amount of work that has been necessary to build, maintain, and expand it. A brief history of evolutionary genetics is told to demonstrate such patrimony, and to emphasize the importance and accumulation of statistical knowledge therein. The probabilistic nature of genotypes, phenogenotypes and population phenomena is also touched upon. Although evolutionary genetics is actually composed by distinct and partially independent traditions, the most important mathematical object of evolutionary genetics is the Mendelian space, and evolutionary genetics is mostly the daring study of trajectories of alleles in a population that explores that space. The ‘body’ is scientific wealth that can be invested in studying every situation that happens to turn out suitable to be modeled as a Mendelian population, or as a modified Mendelian population, or as a population of continuously varying individuals with an underlying Mendelian basis. Mathematical tinkering and justification are two halves of the mutual adjustment between the body of theory and the new domain of culture. Some works in current literature overstate justification, misrepresenting the relationship between body of theory and domain, and hindering interdisciplinary dialogue. (shrink)

I defend a radical interpretation of biological populations—what I call population pluralism—which holds that there are many ways that a particular grouping of individuals can be related such that the grouping satisfies the conditions necessary for those individuals to evolve together. More constraining accounts of biological populations face empirical counter-examples and conceptual difficulties. One of the most intuitive and frequently employed conditions, causal connectivity—itself beset with numerous difficulties—is best construed by considering the relevant causal relations as ‘thick’ causal concepts. I (...) argue that the fine-grained causal relations that could constitute membership in a biological population are huge in number and many are manifested by degree, and thus we can construe population membership as being defined by massively multidimensional constructs, the differences between which are largely arbitrary. I end by showing that positions in two recent debates in theoretical biology depend on a view of biological populations at odds with the pluralism defended here. (shrink)

Ever since Darwin people have worried about the sceptical implications of evolution. If our minds are products of evolution like those of other animals, why suppose that the beliefs they produce are true, rather than merely useful? In this chapter we apply this argument to beliefs in three different domains: morality, religion, and science. We identify replies to evolutionary scepticism that work in some domains but not in others. The simplest reply to evolutionary scepticism is that the truth of beliefs (...) in a certain domain is, in fact, connected to evolutionary success, so that evolution can be expected to design systems that produce true beliefs in that domain. We call a connection between truth and evolutionary success a ‘Milvian bridge’, after the tradition which ascribes the triumph of Christianity at the battle of the Milvian bridge to the truth of Christianity. We argue that a Milvian bridge can be constructed for commonsense beliefs, and extended to scientific beliefs, but not to moral and religious beliefs. An alternative reply to evolutionary scepticism, which has been used defend moral beliefs, is to argue that their truth does not depend on their tracking some external state of affairs. We ask if this reply could be used to defend religious beliefs. (shrink)

Some adaptationist explanations are regarded as maximally solid and others fanciful just-so stories. Just-so stories are explanations based on very little evidence. Lack of evidence leads to circular-sounding reasoning: “this trait was shaped by selection in unseen ancestral populations and this selection must have occurred because the trait is present.” Well-supported adaptationist explanations include evidence that is not only abundant but selected from comparative, populational, and optimality perspectives, the three adaptationist subdisciplines. Each subdiscipline obtains its broad relevance in evolutionary biology (...) via assumptions that can only be tested with the methods of the other subdisciplines. However, even in the best-supported explanations, assumptions regarding variation, heritability, and fitness in unseen ancestral populations are always present. These assumptions are accepted given how well they would explain the data if they were true. This means that some degree of “circularity” is present in all evolutionary explanations. Evolutionary explanation corresponds not to a deductive structure, as biologists usually assert, but instead to ones such as abduction or induction. With these structures in mind, we show the way to a healthier view of “circularity” in evolutionary biology, and why integration across the comparative, populational, and optimality approaches is necessary. (shrink)

Starting with Aristotle and moving on to Darwin, Marco Solinas outlines the basic steps from the birth, establishment and later rebirth of the traditional view of living beings, and its overturning by evolutionary revolution. The classic framework devised by Aristotle was still dominant in the 17th Century world of Galileo, Harvey and Ray, and remained hegemonic until the time of Lamarck and Cuvier in the 19th Century. Darwin's breakthrough thus takes on the dimensions of an abandonment of the traditional finalistic (...) theory. It was a transition exemplified in the morphological analysis of useless parts, such as the sightless eyes of moles, already discussed by Aristotle, which Darwin used as a crowbar to unhinge the systematic recourse to final causes. With many excerpts, a chronological sequence and an analytical approach, this book follows the course of the two conceptions that have shaped the destiny of life sciences in western culture. (shrink)

What lessons can legal scholars learn from the life and work of W. D. "Bill" Hamilton, a lifelong student of nature? From my small corner of the legal Academia, three aspects of Bill Hamilton’s work in evolutionary biology stand out in particular: (i) Hamilton’s simple and beautiful model of social behavior in terms of costs and benefits; (ii) his fruitful collaboration with the political theorist Robert Axelrod and their unexpected yet elegant solution of the Prisoner’s Dilemma, an important game or (...) puzzle that had defied solution until Hamilton and Axelrod came along; and (iii) Hamilton’s conception of science generally -- and in particular his view of the process of scientific justification -- as a form of trial advocacy. In this review of Ullica Segerstråle’s recently-published biography of Bill Hamilton, the author briefly recounts and reviews each one of these important contributions. (shrink)

I defend a radical interpretation of biological populations—what I call population pluralism—which holds that there are many ways that a particular grouping of individuals can be related such that the grouping satisfies the conditions necessary for those individuals to evolve together. More constraining accounts of biological populations face empirical counter-examples and conceptual difficulties. One of the most intuitive and frequently employed conditions, causal connectivity—itself beset with numerous difficulties—is best construed by considering the relevant causal relations as ‘thick’ causal concepts. I (...) argue that the fine-grained causal relations that could constitute membership in a biological population are huge in number and many are manifested by degree, and thus we can construe population membership as being defined by massively multidimensional constructs, the differences between which are largely arbitrary. I end by showing that positions in two recent debates in theoretical biology depend on a view of biological populations at odds with the pluralism defended here. 1 Introduction2 Biological Population, Broad and Narrow3 Difficulties with Narrow Biological Population Conditions3.1 Against the genealogical condition3.2 Against the conspecificity condition3.3 Against the proximity condition3.4 Against the typology condition4 Causal Connectivity5 Massively Multidimensional Population Constructs6 Population Uniqueness and Natural Selection6.1 Statisticalism and its discontents6.2 Price at what price?7 Conclusion. (shrink)

The scientific study of living organisms is permeated by machine and design metaphors. Genes are thought of as the ‘‘blueprint’’ of an organism, organisms are ‘‘reverse engineered’’ to discover their functionality, and living cells are compared to biochemical factories, complete with assembly lines, transport systems, messenger circuits, etc. Although the notion of design is indispensable to think about adaptations, and engineering analogies have considerable heuristic value (e.g., optimality assumptions), we argue they are limited in several important respects. In particular, the (...) analogy with human-made machines falters when we move down to the level of molecular biology and genetics. Living organisms are far more messy and less transparent than human-made machines. Notoriously, evolution is an opportunistic tinkerer, blindly stumbling on ‘‘designs’’ that no sensible engineer would come up with. Despite impressive technological innovation, the prospect of artificially designing new life forms from scratch has proven more difficult than the superficial analogy with ‘‘programming’’ the right ‘‘software’’ would suggest. The idea of applying straightforward engineering approaches to living systems and their genomes— isolating functional components, designing new parts from scratch, recombining and assembling them into novel life forms—pushes the analogy with human artifacts beyond its limits. In the absence of a one-to-one correspondence between genotype and phenotype, there is no straightforward way to implement novel biological functions and design new life forms. Both the developmental complexity of gene expression and the multifarious interactions of genes and environments are serious obstacles for ‘‘engineering’’ a particular phenotype. The problem of reverse-engineering a desired phenotype to its genetic ‘‘instructions’’ is probably intractable for any but the most simple phenotypes. Recent developments in the field of bio-engineering and synthetic biology reflect these limitations. Instead of genetically engineering a desired trait from scratch, as the machine/engineering metaphor promises, researchers are making greater strides by co-opting natural selection to ‘‘search’’ for a suitable genotype, or by borrowing and recombining genetic material from extant life forms. (shrink)

Like Laland et al., I think Mayr’s distinction is problematic, but I identify a further problem with it. I argue that Mayr’s distinction is a false dichotomy, and obscures an important question about evolutionary change. I show how this question, once revealed, sheds light on some debates in evo-devo that Laland et al.’s analysis cannot, and suggest that it provides a different view about how future integration between biological disciplines might proceed.

Laland and colleagues have sought to challenge the proximate–ultimate distinction claiming that it imposes a unidirectional model of causation, is limited in its capacity to account for complex biological phenomena, and hinders progress in biology. In this article the core of their argument is critically analyzed. It is claimed that contrary to their claims Laland et al. rely upon the proximate–ultimate distinction to make their points and that their alternative conception of reciprocal causation refers to phenomena that were already accounted (...) for by standard theory. (shrink)

Richard Dawkins has popularized an argument that he thinks sound for showing that there is almost certainly no God. It rests on the assumptions (1) that complex and statistically improbable things are more difficult to explain than those that are not and (2) that an explanatory mechanism must show how this complexity can be built up from simpler means. But what justifies claims about the designer’s own complexity? One comes to a different understanding of order and of simplicity when one (...) considers the psychological counterpart of information. In assessing his treatment of biological organisms as either self-programmed machines or algorithms, I show how self-generated organized complexity does not fit well with our knowledge of abduction and of information theory as applied to genetics. I also review some philosophical proposals for explaining how the complexity of the world could be externally controlled if one wanted to uphold a traditional understanding of divine simplicity. (shrink)

My understanding is that proximate explanations concern adaptive mechanism and that ultimate explanations concern adaptive rationale. Viewed in this light, the two kinds of explanation are quite distinct, but they interact in a complementary way to give a full understanding of biological adaptations. In contrast, Laland et al. (2013)—following a literal reading of Mayr (Science 134:1501–1506, 1961)—have characterized ultimate explanations as concerning any and all mechanisms that have operated over the course of an organism’s evolutionary history. This has unfortunate consequences, (...) such as allowing random drift to form the basis for ultimate explanations, and allowing proximate and ultimate explanations to bleed into each other until their distinction is meaningless. Here, I suggest Laland et al’s explanatory framework of “reciprocal causation” is not conducive to successful biological science, and that they have misunderstood key elements of the theory of Darwinian adaptation. (shrink)

Evolutionary theory is a paradigmatic example of a well-supported scientific theory. In this chapter we consider a number of objections to evolutionary theory, and show how responding to these objections reveals aspects of the way in which scientific theories are supported by evidence. Teaching these objections can therefore serve two pedagogical aims: students can learn the right way to respond to some popular arguments against evolutionary theory, and they can learn some basic features of the structure of scientific theories and (...) evidence. (shrink)

“Indeed, we now know that the proportion of genetic sequences on earth that belongs to visible organisms is negligible. Furthermore, only 15% of the genetic sequences found in the samples from the environment and from feces analyzed in metagenomic studies belong to the three domains of microbes currently recognized in the tree-of-life framework – bacteria, archaea, and eukaryotes. Viruses contain another 15-30% of these genetic sequences.” This means that the majority of unidentified genetic sequences pose an unresolved problem. Where do (...) they come from? New genes suddenly appear, called ORFans (“orphan genes”) without any precursors. They may be produced by gene duplication, or fusion, or some other unknown process. Yet, Darwin’s tree of life concept would make it impossible to consider such processes. The transfer of genetic sequences from parasites to hosts could involve hundreds of genes for bacteria or viruses. But, as Raoult writes, “the current classification of the domains of life is based on the ribosome – the production apparatus of proteins – which does not exist in these viruses.” Adherence to the dogmatism of Darwin thus prevents these new discoveries, that overturn his century-and-a-half old teachings, from ever reaching the new generation of scientists. Raoult concludes, "Genetic research, in particular, must be free to find new models to explain, and enhance, twenty-first-century scientific discovery. Today, Darwin’s theory of evolution is more a hindrance than a help, because it has become a quasi-theological creed that is preventing the benefits of improved research from being fully realized.". (shrink)

Are physics and chemistry sufficient to provide a basis for a theory of everything? The worldview of materialist naturalism that forms the foundation of NeoDarwinian evolution, Big Bang cosmogony, and molecular biology in general has been subjected to challenge for its monumental failure to explain life, consciousness and other mind-related aspects of reality. Two recent books, Why Evolution is True by Jerry Coyne [1], and Thomas Nagel’s Mind and Cosmos: Why the Materialist NeoDarwinian Conception of Nature Is Almost Certainly False (...) [2], both authors being atheists, reflect the deep rift we find, not only in the religious conflict between creation and evolution, but in the fundamental awareness we all have that we are more than just molecular matter. This common sense understanding can only escape the notice of a particularly shallow ideological dogmatism that insists it has all the answers based solely on its unprecedented technological success. Science has come to represent two different things: (a) a body of knowledge, and (b) a method for acquiring knowledge. The problem arises when it is forgotten that there is no independent body of knowledge for science apart from its method – it keeps changing according to the results of the latest findings of the scientific method. The method is not to be abandoned because of those who would like to replace it with a fixed body of knowledge, which then becomes ideology. If biogenesis is hypothesized as the law of Nature, and we observe that life comes from pre-existing life in all our experience, while the hypothesis of abiogenesis, that life comes from matter, is never backed by any observation, then according to the scientific method—which one is to be accepted as true scientific knowledge? Obviously, the one backed by empirical observation. It is necessary to get free of ideological “knowledge,” and return to science as a method for gathering evidence that may lead to conclusions beyond the material naturalist view of Nature, and conforms to what we experience and rationally understand about the world in which we live. (shrink)

The study of organisms within the range of their existence from fertilization to birth is referred to as embryology. The process of progressive change during that period is called development. That development does not stop at birth but continues on throughout the entire life-span of the organism as the process of growth and decay — catabolism, anabolism, and metabolism. The study of this entire range of life has recently become known as developmental biology. The belief that the development from an (...) initial stage of a fertilized egg or zygote to a fully formed adult represents, in compressed time, the whole process of evolution that occurred over millions of years, has recently been named evo-devo, or evolutionary development. The more science advances, the more it studies Nature in its intimate details, the more it comes to realize the existence of a pervasive reason, an inherent natural intelligence that is working in even the most insignificant portions of the universe. Francis Bacon (1561–1626) said, “A little philosophy (science) inclineth man's mind to atheism, but depth in philosophy (science) bringeth men's minds about to religion.” This point is especially true today. It is not from ignorance that men come to have faith in God, but from a maturity of reason and experience. Vedanta philosophy teaches that there is a conscious intelligence that underlies all experienced existence. Being self-evident, this should hardly have to be argued. Yet modern science has failed to integrate this truth into its materialist/naturalistic paradigm. Correcting this deficiency will be the challenge of 21st century science, and the highest reward for humanity. (shrink)

Origin of life studies have presented one of the most serious challenges to the mechanistic conception that life can be explained scientifically as a mere product of chemistry and physics. Hypotheses about the origin of life can be divided into two categories: (1) biogenesis – life comes from life, and (2) abiogenesis – life comes from non-living matter. The theory of the spontaneous generation of life from inanimate matter had been held even by the ancient Greeks and by numerous scientists (...) well into the 19th century. The theory of abiogenesis poses many problems for understanding the origin of life on Earth, and the appearance of life early in Earth’s history. Numerous chemical, mathematical and informational problems arise which make random mechanical processes of cellular formation and function unlikely. Fossil evidence contradicts a gradualist evolutionary mechanism of development of life, especially the well-known Cambrian explosion, in which highly developed metazoan species suddenly appear in the geological column without intermediate predecessors. But the physical conundrums that mechanistic theories of chemistry and physics face are only one side of the problem. Along with a rising chorus of philosophers, Thomas Nagel, an atheist philosopher, has protested that essential questions about the origin of life, and features such as mind, intelligence and morality are completely left unexplained by mechanistic evolutionary theories. In Mind and Cosmos: Why the Materialist Neo-Darwinian Conception of Nature Is Almost Certainly False, Nagel plainly lays out his argument that the modern materialist approach to life has conspicuously failed to explain something so integral to nature as mind or consciousness, thereby threatening to unravel the entire naturalistic world picture of biology, evolutionary theory and cosmology. [13] As an alternative he argues that at least natural teleological principles must be admitted to play a role in our view of science. He writes: “Each of our lives is a part of the lengthy process of the universe gradually waking up and becoming aware of itself.” The Vedantic view of the Absolute as sentient conceives of Bhagavan as the conscious and consequently personal source of the universe. This view holds that life is fundamental, and not merely coextensive with matter. It is thus consistent with the law of biogenesis which is scientifically established in agreement with empirical evidence. Life is the basis of Nature, not matter, and Nature is a system in which the different species are nodes or niches, each possessed of variety and adaptability. Evolution is of consciousness, not of the bodies of organisms. The sedimentary fossils are the result of catastrophic deposits, and are thus not indicative of gradual evolution which is concluded only on the questionable assumption of uniformitarianism. (shrink)

All the central assumptions of the Modern Synthesis (Neo-Darwinism) have been disproven. [1, 2] An article with the title, "Rocking the foundations of molecular genetics,” appearing in the prestigious Proceedings of the National Academy of Sciences at the end of 2012 [3] would have not been possible a decade ago. Groundbreaking experimental evidence of epigenetic maternal inheritance over several generations was published in the same journal, throwing the whole foundation of 21st century molecular genetics into question. Neo-Darwinism attributed genetic change (...) to random events, in which physiology was assumed to play little role. "The germ line was thought to be isolated from any influence by the rest of the organism and its response to the environment. [3] The fundamental concepts that constitute the foundations of contemporary systems biology include holism, emergentism, and robustness, compared to the concepts of reductionism, mechanism, and homeostasis, that form the foundations of molecular biology. [18] Holism is to be contrasted with reductionism which considers a system as merely composed of a sum of parts. Emergentism, the appearance of hierarchical levels of organization, is contrasted with mechanism of independent linear events. Robustness refers to the preservation of the functionality of a system to a certain degree despite external or internal changes, while homeostasis refers to maintaining the stability of the state of a system. The Vedantic view also proposes viewing life from the Organic Whole perspective, in which consciousness forms the supporting basis. The conscious agent is an important part of that view, but the absolute conception of a unifying center is not to be omitted if a proper conception is to be achieved. (shrink)

We received several critical comments regarding the "The Science of Spiritual Biology." We reply to those criticisms in order to further clarify some of the important points that were made. It is only to be expected that a strong emotional response may be evoked by the revolution in scientific thinking that the modern paradigm of cognitive biology presents. We have to be prepared to accept that, and maintain the integrity of the scientific approach.

Maxwell's deduction of the probability distribution over the velocity of gas molecules—one of the most important passages in physics (Truesdell)—presents a riddle: a physical discovery of the first importance was made in a single inferential leap without any apparent recourse to empirical evidence. -/- Tychomancy proposes that Maxwell's derivation was not made a priori; rather, he inferred his distribution from non-probabilistic facts about the dynamics of intermolecular collisions. Further, the inference is of the same sort as everyday reasoning about the (...) physical probabilities attached to such canonical chance setups as tossed coins or rolled dice. The structure of this reasoning is investigated and some simple rules for inferring physical probabilities from symmetries and other causally relevant properties of physical systems are proposed. -/- Not only physics but evolutionary biology and population ecology, the science of measurement error, and climate modeling have benefited enormously from the same kind of reasoning, the book goes on to argue. Inferences from dynamics to probability are so obvious to us, however, that their methodological importance has been largely overlooked. (shrink)

"Living systems are cognitive systems, and living as a process is a process of cognition." -H.R. Maturana, The Biology of Cognition (1970/1980) Just as the cell has gradually come to be understood as a highly regulated and unctionally integrated whole, so too is the biosphere now recognized as a finely balanced ecological whole in which local disturbances can create world-wide climatic catastrophe. The oversimplified ideas of biology that characterized the field in its immature beginning led to the theories of a (...) progressive cumulative development or evolution to explain the present state of Nature. However, today, a more mature understanding of biology has brought with it the realization that Nature can not be the product of a gradual development, based only on the reductionist principles of chemistry and physics. In an ideal situation, where there are no strong interactions with the environment, isolated and purified chemicals may react in a mechanically simple manner, but in a living organism there are no isolated molecules. Everything within the cell interacts with everything else. The constituents of a cell are produced by the cell as much as they produce the cell itself. As the German philosopher Immanuel Kant understood, the unique judgment that allows us to identify a living organism as distinct from non-living matter, is that a living organism is both the cause and effect of itself. Thus, the life of a cell, as much as the life of the biosphere, can only be properly understood as an integrated organic whole. (shrink)

We received several critical comments regarding the "The Science of Spiritual Biology." We reply to those criticisms in order to further clarify some of the important points that were made. It is only to be expected that a strong emotional response may be evoked by the revolution in scientific thinking that the modern paradigm of cognitive biology presents. We have to be prepared to accept that, and maintain the integrity of the scientific approach.

Most cognitive scientists nowadays tend to think that at least some of the mind’s capacities are the product of biological evolution, yet important conceptual problems remain for all scientists in order to be able to speak coherently of mental or cognitive systems as having evolved naturally. Two of these important problems concern the articulation of adequate, interesting, and empirically useful concepts of homology and variation as applied to cognitive systems. However, systems in cognitive science are usually understood as functional systems (...) of some sort. Thus, to be able to talk about functional systems being homologous requires having a solid, adequate, and empirically articulated concept of functional homology—and the same is true about functional variation. Here I construct an original concept of functional homology that, in my view, adequately systematizes a number of actual uses of the word “functional homology” in a variety of biological disciplines and in ethology. I also propose a number of criteria for the empirical application of the concept that are analogous to the criteria that are currently used in comparative biology, ethology, and molecular developmental genetics. Then I construct a concept of functional variation on the basis of this concept of homology. (shrink)

Descartes laid the philosophical groundwork for the modern scientific period by separating subjective cognition from objective bodies, thereby also dividing epistemology from ontology reducing knowing to indifferent “observation.” This is the perspective of consciousness and its object, of which material science only imperfectly studies the object. In reality these two are not separated but dialectically related and sublated in the higher comprehending original unity of self-consciousness. Physical scientists fail to study these higher categories of reality and are therefore left with (...) an incomplete understanding of a mere superficial nature that is inadequate to comprehend the core truth. But scientific, rational inquiry will not stop until a comprehensive idea is reached that is coherent with the full range of our knowledge of life. That spectrum of knowledge is not circumscribed merely by chemistry, physics and mathematics. Thus Vedanta-sutra advises, that you will have to continue your search, athatho brahma jijnasa, until you reach brahma, the underlying spiritual source, janmady asy yatah, the fountainhead where all inquiry will reach its purpose. Then beyond knowledge Bhagavatam will guide us to the ultimate search – raso vai sah, the search for our highest fulfillment, sweetness and love. (shrink)

Millstein (2009) argues against conceptual pluralism with respect to the definition of “population,” and proposes her own definition of the term. I challenge both Millstein's negative arguments against conceptual pluralism and her positive proposal for a singular definition of population. The concept of population, I argue, does not refer to a natural kind; populations are constructs of biologists variably defined by contexts of inquiry.

Evolutionary psychologists, among others, have used a method called “reverse engineering” to uncover ( a ) whether a trait was selected for, and ( b ) if so, why that trait was selected for. In this paper I argue that reverse engineering cannot deliver on either ( a ) or ( b ), and tends to pervert, rather than enhance, our knowledge of natural history. In particular, I expose as false a fundamental assumption of reverse engineering—namely, that all traits selected (...) for a particular function will share some nontrivial properties. *Received March 2006; revised June 2008. †To contact the author, please write to: Department of Philosophy, 229 Major Williams Hall (0126), Virginia Tech, Blacksburg, VA 24061; e‐mail: [email protected] (shrink)

I teach Philosophy of Science at a four-year state university located in the southeastern United States with a strong college of education. This means that the Philosophy of Science class I teach attracts large numbers of students who will later become science teachers in Georgia junior high and high schools—the same schools that recently began including evolution "warning" stickers in science textbooks. I am also a faculty member in a department combining Religious Studies and Philosophy. This means Philosophy of Science (...) is often expected to provide dialogue, debate, and bridge-building on the issues of creationism and evolution. I am expected to provide a welcoming atmosphere to all the religious perspectives that the students bring to class, but at the same time I feel responsible for giving them a serious respect for evolution. This tension between religious tolerance and secular science education has had important consequences in American schools, most notably with the issue of Intelligent Design Theory (ID) in the classroom. (shrink)