Can Darwinism Be 'Generalized' and of What Use Would This Be?
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Transformations of Lamarckism Vienna Series in Theoretical Biology Gerd B
Transformations of Lamarckism Vienna Series in Theoretical Biology Gerd B. M ü ller, G ü nter P. Wagner, and Werner Callebaut, editors The Evolution of Cognition , edited by Cecilia Heyes and Ludwig Huber, 2000 Origination of Organismal Form: Beyond the Gene in Development and Evolutionary Biology , edited by Gerd B. M ü ller and Stuart A. Newman, 2003 Environment, Development, and Evolution: Toward a Synthesis , edited by Brian K. Hall, Roy D. Pearson, and Gerd B. M ü ller, 2004 Evolution of Communication Systems: A Comparative Approach , edited by D. Kimbrough Oller and Ulrike Griebel, 2004 Modularity: Understanding the Development and Evolution of Natural Complex Systems , edited by Werner Callebaut and Diego Rasskin-Gutman, 2005 Compositional Evolution: The Impact of Sex, Symbiosis, and Modularity on the Gradualist Framework of Evolution , by Richard A. Watson, 2006 Biological Emergences: Evolution by Natural Experiment , by Robert G. B. Reid, 2007 Modeling Biology: Structure, Behaviors, Evolution , edited by Manfred D. Laubichler and Gerd B. M ü ller, 2007 Evolution of Communicative Flexibility: Complexity, Creativity, and Adaptability in Human and Animal Communication , edited by Kimbrough D. Oller and Ulrike Griebel, 2008 Functions in Biological and Artifi cial Worlds: Comparative Philosophical Perspectives , edited by Ulrich Krohs and Peter Kroes, 2009 Cognitive Biology: Evolutionary and Developmental Perspectives on Mind, Brain, and Behavior , edited by Luca Tommasi, Mary A. Peterson, and Lynn Nadel, 2009 Innovation in Cultural Systems: Contributions from Evolutionary Anthropology , edited by Michael J. O ’ Brien and Stephen J. Shennan, 2010 The Major Transitions in Evolution Revisited , edited by Brett Calcott and Kim Sterelny, 2011 Transformations of Lamarckism: From Subtle Fluids to Molecular Biology , edited by Snait B. -
Interpreting the History of Evolutionary Biology Through a Kuhnian Prism: Sense Or Nonsense?
Interpreting the History of Evolutionary Biology through a Kuhnian Prism: Sense or Nonsense? Koen B. Tanghe Department of Philosophy and Moral Sciences, Universiteit Gent, Belgium Lieven Pauwels Department of Criminology, Criminal Law and Social Law, Universiteit Gent, Belgium Alexis De Tiège Department of Philosophy and Moral Sciences, Universiteit Gent, Belgium Johan Braeckman Department of Philosophy and Moral Sciences, Universiteit Gent, Belgium Traditionally, Thomas S. Kuhn’s The Structure of Scientific Revolutions (1962) is largely identified with his analysis of the structure of scientific revo- lutions. Here, we contribute to a minority tradition in the Kuhn literature by interpreting the history of evolutionary biology through the prism of the entire historical developmental model of sciences that he elaborates in The Structure. This research not only reveals a certain match between this model and the history of evolutionary biology but, more importantly, also sheds new light on several episodes in that history, and particularly on the publication of Charles Darwin’s On the Origin of Species (1859), the construction of the modern evolutionary synthesis, the chronic discontent with it, and the latest expression of that discon- tent, called the extended evolutionary synthesis. Lastly, we also explain why this kind of analysis hasn’t been done before. We would like to thank two anonymous reviewers for their constructive review, as well as the editor Alex Levine. Perspectives on Science 2021, vol. 29, no. 1 © 2021 by The Massachusetts Institute of Technology https://doi.org/10.1162/posc_a_00359 1 Downloaded from http://www.mitpressjournals.org/doi/pdf/10.1162/posc_a_00359 by guest on 30 September 2021 2 Evolutionary Biology through a Kuhnian Prism 1. -
Mendelism, Plant Breeding and Experimental Cultures: Agriculture and the Development of Genetics in France Christophe Bonneuil
Mendelism, plant breeding and experimental cultures: Agriculture and the development of genetics in France Christophe Bonneuil To cite this version: Christophe Bonneuil. Mendelism, plant breeding and experimental cultures: Agriculture and the development of genetics in France. Journal of the History of Biology, Springer Verlag, 2006, vol. 39 (n° 2 (juill. 2006)), pp.281-308. hal-00175990 HAL Id: hal-00175990 https://hal.archives-ouvertes.fr/hal-00175990 Submitted on 3 Oct 2007 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. Mendelism, plant breeding and experimental cultures: Agriculture and the development of genetics in France Christophe Bonneuil Centre Koyré d’Histoire des Sciences et des Techniques, CNRS, Paris and INRA-TSV 57 rue Cuvier. MNHN. 75005 Paris. France Journal of the History of Biology, vol. 39, no. 2 (juill. 2006), 281-308. This is an early version; please refer to the original publication for quotations, photos, and original pagination Abstract The article reevaluates the reception of Mendelism in France, and more generally considers the complex relationship between Mendelism and plant breeding in the first half on the twentieth century. It shows on the one side that agricultural research and higher education institutions have played a key role in the development and institutionalization of genetics in France, whereas university biologists remained reluctant to accept this approach on heredity. -
The Role of Mutation Bias in Adaptive Molecular Evolution: Insights from 2 Convergent Changes in Protein Function 3
bioRxiv preprint doi: https://doi.org/10.1101/580175; this version posted March 17, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-ND 4.0 International license. 1 1 The role of mutation bias in adaptive molecular evolution: insights from 2 convergent changes in protein function 3 4 5 Jay F. Storz1*, Chandrasekhar Natarajan1, Anthony V. Signore1, Christopher C. Witt2,3, David M. 6 McCandlish4, Arlin Stoltzfus5* 7 8 1School of Biological Sciences, University of Nebraska, Lincoln, NE 68588 9 2Department of Biology, University of New Mexico, Albuquerque, NM 87131 10 3Museum of Southwestern Biology, University of New Mexico, Albuquerque, NM 87131 11 4Cold Spring Harbor Laboratory, Cold Spring Harbor, NY, 11724 12 5Office of Data and Informatics, Material Measurement Laboratory, NIST, and Institute for Bioscience 13 and Biotechnology Research, Rockville, MD 20850 14 15 *Corresponding authors: Jay F. Storz ([email protected]), Arlin Stoltzfus ([email protected]) 16 17 18 Abstract 19 An underexplored question in evolutionary genetics concerns the extent to which mutational bias in the 20 production of genetic variation influences outcomes and pathways of adaptive molecular evolution. In the 21 genomes of at least some vertebrate taxa, an important form of mutation bias involves changes at CpG 22 dinucleotides: If the DNA nucleotide cytosine (C) is immediately 5’ to guanine (G) on the same coding 23 strand, then – depending on methylation status – point mutations at both sites occur at an elevated rate 24 relative to mutations at non-CpG sites. -
Explanatory Unification and the Early Synthesis 597
Brit. J. Phil. Sci. 56 (2005), 595–609 Explanatory Unification and the Early Synthesis Anya Plutynski ABSTRACT The object of this paper is to reply to Morrison’s ([2000]) claim that while ‘structural unity’ was achieved at the level of the mathematical models of population genetics in the early synthesis, there was explanatory disunity. I argue to the contrary, that the early synthesis effected by the founders of theoretical population genetics was unifying and explanatory both. Defending this requires a reconsideration of Morrison’s notion of explanation. In Morrison’s view, all and only answers to ‘why’ questions which include the ‘cause or mechanism’ for some phenomenon count as explanatory. In my view, mathematical demonstrations that answer ‘how possibly’ and ‘why necessarily’ ques- tions may also count as explanatory. The authors of the synthesis explained how evolution was possible on a Mendelian system of inheritance, answered skepticism about the sufficiency of selection, and thus explained why and how a Darwinian research program was warranted. While today we take many of these claims as obvious, they required argument, and part of the explanatory work of the formal sciences is providing such arguments. Surely, Fisher and Wright had competing views as to the optimal means of generating adaptation. Nevertheless, they had common opponents and a common unifying and explanatory goal that their mathematical demonstrations served. 1 Introduction: Morrison’s challenge 2 Fisher v. Wright revisited 3 The early synthesis 4 Conclusion: unification and explanation reconciled 1 Introduction: Morrison’s challenge Morrison ([2000]) has recently argued that unification and explanation are often at odds in science. -
Examples of Orthogenetic Series in Plants and Animals : Studies In
THE OHIO JOURNAL OF SCIENCE VOL. XXXVII SEPTEMBER, 1937 No. 5 EXAMPLES OF ORTHOGENETIC SERIES IN PLANTS AND ANIMALS STUDIES IN DETERMINATE EVOLUTION X* JOHN H. SCHAFFNER Orthogenetic series are so prominent in both the plant and animal kingdoms that their consideration becomes of major significance in any careful study of the evolution of organisms. A few types of plant series are here presented together with several animal series in order to illustrate the nature and significance of orthogenesis. In studying living organisms one cannot tell directly, from the orthogenetic series itself, what is the real relationship of the members of a series to one another nor in what sequence they evolved; but this is after all of secondary importance. The fundamental problem is the fact that the evolutionary process brings out such a series and that these series usually have no relation either to utilitarian advan- tage or to any ecological conditions either physical or biological. The evolution of each series is commonly independent of other movements in the same group of organisms and may even proceed in a different direction or in a sequence exactly the opposite. In the past the most definite orthogenetic series were recognized in the fossil records and in these, of course, the direction of any given movement or sequence was definitely indicated by the succession of the rock strata in which the fossils were found. In attempting to explain orthogenetic series in the past it was usually assumed that the series was the result of natural selection or was produced by ecological sequences, either in time or space by a direct effect of the environment. -
Tempo and Mode in the Macroevolutionary Reconstruction of Darwinism STEPHEN JAY GOULD Museum of Comparative Zoology, Harvard University, Cambridge, MA 02138
Proc. Nadl. Acad. Sci. USA Vol. 91, pp. 6764-6771, July 1994 Colloquium Paper This paper was presented at a coloquium ented "Tempo and Mode in Evolution" organized by Walter M. Fitch and Francisco J. Ayala, held January 27-29, 1994, by the National Academy of Sciences, in Irvine, CA. Tempo and mode in the macroevolutionary reconstruction of Darwinism STEPHEN JAY GOULD Museum of Comparative Zoology, Harvard University, Cambridge, MA 02138 ABSTRACT Among the several central nings of Dar- But conceptual complexity is not reducible to a formula or winism, his version ofLyellian uniformitranism-the extrap- epigram (as we taxonomists of life's diversity should know olationist commitment to viewing causes ofsmall-scale, observ- better than most). Too much ink has been wasted in vain able change in modern populations as the complete source, by attempts to define the essence ofDarwin's ideas, or Darwin- smooth extension through geological time, of all magnitudes ism itself. Mayr (1) has correctly emphasized that many and sequences in evolution-has most contributed to the causal different, if related, Darwinisms exist, both in the thought of hegemony of microevolutlon and the assumption that paleon- the eponym himself, and in the subsequent history of evo- tology can document the contingent history of life but cannot lutionary biology-ranging from natural selection, to genea- act as a domain of novel evolutionary theory. G. G. Simpson logical connection of all living beings, to gradualism of tried to combat this view of paleontology as theoretically inert change. in his classic work, Tempo and Mode in Evolution (1944), with It would therefore be fatuous to claim that any one legit- a brilliant argument that the two subjects of his tide fall into a imate "essence" can be more basic or important than an- unue paleontological domain and that modes (processes and other. -
Chapter 2: Why Would We Call for a New Evolutionary Synthesis? the Variation Issue and the Explanatory Alternatives
Chapter 2: Why would we call for a new evolutionary synthesis? The variation issue and the explanatory alternatives. Philippe Huneman It is pervasively claimed that the framework of evolutionary theory, the Modern Synthesis (MS), which has been built between the 1930s and the 1950s through the synthesis of Mendelian genetics and Darwinian theory, has to be deeply revised, changed, “extended” (Pigliucci and Muller 2011, Odling-Smee Laland and Feldman 2003, Danchin et al 2011) or “expanded” (Gould 2002). Empirical and conceptual reasons are supposedly converging to support such a move. Supporters of a new Synthesis (e.g. Gilbert, Opitz and Raff 1996, Pigliucci and Muller 2011, Odling-Smee Laland and Feldman 2003, Danchin et al 2011, Jablonka and Lamb 2005, Oyama, Griffiths and Gray 2001 etc.) may disagree on many things but they generally think that the Modern Synthesis, as a scientific theory through which explanations for biological phylogeny, adaptation and diversity should be sought, gave too much importance to natural selection or that its focus on genes, exemplified by the textbook definition of evolution as a change in genotypic frequencies, was exaggerate. In this paper I pose the question what kind of empirical findings would be likely to force a dramatic theoretical change, meaning that the core claims of MS regarding natural selection and genetics. I will focus on one strain of critiques, that targeted the explanatory weight of natural selection as selection for the fittest traits (provided that variant traits arise by mutation and recombination). I will distinguish several critiques, according to their content and to the strength of the challenge: whereas some challenges necessitate a complete rethinking of the core concepts of evolutionary theory, others are solved by adding or amending the main concepts or modeling assumptions. -
Statement About Pnas Paper “The New Mutation Theory of Phenotypic Evolution”
July 30, 2007 (revised) Brief Historical Perspectives of the Paper “THE NEW MUTATION THEORY OF PHENOTYPIC EVOLUTION” Proceedings of the National Academy of Sciences, USA, 104:12235-12242, Published July 17, 2007 online. Masatoshi Nei The following is the author’s account of the history of development of the mutation theory of phenotypic evolution and related matters. Darwinism (1) Charles Darwin proposed that evolution occurs by natural selection in the presence of fluctuating variation. (2) At his time, the mechanism of generation of new variation was not known, and he assumed that new variation is generated by climatic changes, inheritance of acquired characters, spontaneous variations, etc. However, he believed that new variation occurs in random direction and evolutionary change is caused by natural selection. (3) He assumed that enormous phenotypic diversity among different phyla and classes is the result of accumulation of gradual evolution by natural selection. Saltationism Several biologists such as Thomas Huxley, William Bateson, and Hugo de Vries argued that the extent of variation between species is much greater than that within 1 species and therefore saltational or macromutational change is necessary to form new species rather than gradual evolution as proposed by Darwin. In this view a new species can be produced by a single macromutation, and therefore natural selection is unimportant. This view was strengthened when de Vries discovered several new forms of evening primroses which were very different from the parental species (Oenothera lamarckiana) and appeared to be new species. This discovery suggested that new species can arise by a single step of macromutation. However, it was later shown that O. -
The So-Called 'Eclipse of Darwinism'
Descended from Darwin Insights into the History of Evolutionary Studies, 1900–1970 Joe Cain and Michael Ruse, Editors American Philosophical Society Philadelphia • 2009 TRANSACTIONS of the AMERICAN PHILOSOPHICAL SOCIETY Held at Philadelphia For Promoting Useful Knowledge Volume 99, Part 1 Copyright © 2009 by the American Philosophical Society for its Transactions series, Volume 99. All rights reserved. ISBN: 978-1-60618-991-7 US ISSN: 0065-9746 Library of Congress Cataloging-in-Publication Data is available from the Library of Congress. Cain and Ruse. 2009. Descended from Darwin (Philadelphia: American Philosophical Society) Chapter 1 The So-Called Eclipse of Darwinism Mark A. Largent Introduction In discussing the emergence and development of evolutionary biology, historians of biology typically divide the nineteenth and twentieth centuries into four eras. The first, the pre-Darwinian period, came prior to publication of the Origin of Species in 1859, and it includes evolutionary theorizing by figures like Lamarck and Chambers. The second period focused on the reception and reaction to Darwin’s work by the public, religious authorities, and natural scientists. This period lasted from 1859 to about 1880 and is best characterized by works that systematically examine the recep- tion of Darwin’s ideas across different countries (Glick, 1974). Beginning about 1880 and lasting through most of the 1930s is a period widely described as the “eclipse of Darwinism” or the “eclipse of Darwin.”1 Biologists and historians of biology alike have described this period as one during which many theories competed for status. During these years, Darwinian evolutionary theory was supposedly obscured, and ultimately discarded, as speculative and old-fashioned natural history. -
Dispositional Properties in Evo-Devo in L
This is a pre-print version of Dispositional Properties in Evo-Devo in L. Nuño de la Rosa and G. Müller (eds.) Evolutionary Developmental Biology: A Reference Guide. The final publication is available at Springer via http://doi.org/10.1007/978-3-319-33038-9_64-1 Dispositional Properties in Evo-Devo Christopher J. Austin and Laura Nuño de la Rosa Abstract 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 (e.g., variability, modularity, robustness, plasticity, and evolvability) and addressing the epistemological question of how dispositional properties challenge existing explanatory models in evolutionary biology. -
The Structure of Evolutionary Theory: Beyond Neo-Darwinism, Neo
1 2 3 The structure of evolutionary theory: Beyond Neo-Darwinism, 4 Neo-Lamarckism and biased historical narratives about the 5 Modern Synthesis 6 7 8 9 10 Erik I. Svensson 11 12 Evolutionary Ecology Unit, Department of Biology, Lund University, SE-223 62 Lund, 13 SWEDEN 14 15 Correspondence: [email protected] 16 17 18 19 1 20 Abstract 21 The last decades have seen frequent calls for a more extended evolutionary synthesis (EES) that 22 will supposedly overcome the limitations in the current evolutionary framework with its 23 intellectual roots in the Modern Synthesis (MS). Some radical critics even want to entirely 24 abandon the current evolutionary framework, claiming that the MS (often erroneously labelled 25 “Neo-Darwinism”) is outdated, and will soon be replaced by an entirely new framework, such 26 as the Third Way of Evolution (TWE). Such criticisms are not new, but have repeatedly re- 27 surfaced every decade since the formation of the MS, and were particularly articulated by 28 developmental biologist Conrad Waddington and paleontologist Stephen Jay Gould. 29 Waddington, Gould and later critics argued that the MS was too narrowly focused on genes and 30 natural selection, and that it ignored developmental processes, epigenetics, paleontology and 31 macroevolutionary phenomena. More recent critics partly recycle these old arguments and 32 argue that non-genetic inheritance, niche construction, phenotypic plasticity and developmental 33 bias necessitate major revision of evolutionary theory. Here I discuss these supposed 34 challenges, taking a historical perspective and tracing these arguments back to Waddington and 35 Gould. I dissect the old arguments by Waddington, Gould and more recent critics that the MS 36 was excessively gene centric and became increasingly “hardened” over time and narrowly 37 focused on natural selection.