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Winchell KM, Losos JB, Verrelli BC. Urban evolutionary ecology brings exaptation back into focus. Trends Ecol Evol 2023:S0169-5347(23)00060-5. [PMID: 37024381 DOI: 10.1016/j.tree.2023.03.006] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2022] [Revised: 03/12/2023] [Accepted: 03/14/2023] [Indexed: 04/08/2023]
Abstract
The contribution of pre-existing phenotypic variation to evolution in novel environments has long been appreciated. Nevertheless, evolutionary ecologists have struggled with communicating these aspects of the adaptive process. In 1982, Gould and Vrba proposed terminology to distinguish character states shaped via natural selection for the roles they currently serve ('adaptations') from those shaped under preceding selective regimes ('exaptations'), with the intention of replacing the inaccurate 'preadaptation'. Forty years later, we revisit Gould and Vrba's ideas which, while often controversial, continue to be widely debated and highly cited. We use the recent emergence of urban evolutionary ecology as a timely opportunity to reintroduce the ideas of Gould and Vrba as an integrated framework to understand contemporary evolution in novel environments.
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Affiliation(s)
- Kristin M Winchell
- Department of Biology, New York University, New York, NY 10003, USA; Department of Ecology and Evolutionary Biology, Princeton University, Princeton, NJ 08544, USA; Department of Biology, Washington University, St Louis, MO 63130, USA.
| | - Jonathan B Losos
- Department of Biology, Washington University, St Louis, MO 63130, USA
| | - Brian C Verrelli
- Center for Biological Data Science, Virginia Commonwealth University, Richmond, VA 23284, USA
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2
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Rust J. Phenotype-first hypotheses, spandrels and early metazoan evolution. HISTORY AND PHILOSOPHY OF THE LIFE SCIENCES 2022; 44:48. [PMID: 36257998 DOI: 10.1007/s40656-022-00531-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/06/2021] [Accepted: 08/25/2022] [Indexed: 06/16/2023]
Abstract
Against the neo-Darwinian assumption that genetic factors are the principal source of variation upon which natural selection operates, a phenotype-first hypothesis strikes us as revolutionary because development would seem to constitute an independent source of variability. Richard Watson and his co-authors have argued that developmental memory constitutes one such variety of phenotypic variability. While this version of the phenotype-first hypothesis is especially well-suited for the late metazoan context, where animals have a sufficient history of selection from which to draw, appeals to developmental memory seem less plausible in the evolutionary context of the early metazoans. I provide an interpretation of Stuart Newman's account of deep metazoan phylogenesis that suggests that spandrels are, in addition to developmental memory, an important reservoir of phenotypic variability. I conclude by arguing that Gerd Müller's "side-effect hypothesis" is an illuminating generalization of the proposed non-Watsonian version of the phenotype-first hypothesis.
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Affiliation(s)
- Joshua Rust
- Stetson University, Unit 8250, 104-C Elizabeth Hall, 421 North Woodland Boulevard, DeLand, Florida, 32723, USA.
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3
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Erwin DH. A conceptual framework of evolutionary novelty and innovation. Biol Rev Camb Philos Soc 2020; 96:1-15. [PMID: 32869437 DOI: 10.1111/brv.12643] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2020] [Revised: 07/31/2020] [Accepted: 08/12/2020] [Indexed: 12/20/2022]
Abstract
Since 1990 the recognition of deep homologies among metazoan developmental processes and the spread of more mechanistic approaches to developmental biology have led to a resurgence of interest in evolutionary novelty and innovation. Other evolutionary biologists have proposed central roles for behaviour and phenotypic plasticity in generating the conditions for the construction of novel morphologies, or invoked the accessibility of new regions of vast sequence spaces. These approaches contrast with more traditional emphasis on the exploitation of ecological opportunities as the primary source of novelty. This definitional cornucopia reflects differing stress placed on three attributes of novelties: their radical nature, the generation of new taxa, and ecological and evolutionary impact. Such different emphasis has led to conflating four distinct issues: the origin of novel attributes (genes, developmental processes, phenotypic characters), new functions, higher clades and the ecological impact of new structures and functions. Here I distinguish novelty (the origin of new characters, deep character transformations, or new combinations) from innovation, the ecological and evolutionary success of clades. Evidence from the fossil record of macroevolutionary lags between the origin of a novelty and its ecological success demonstrates that novelty may be decoupled from innovation, and only definitions of novelty based on radicality (rather than generativity or consequentiality) can be assessed without reference to the subsequent history of the clade to which a novelty belongs. These considerations suggest a conceptual framework for novelty and innovation, involving: (i) generation of the potential for novelty; (ii) the formation of novel attributes; (iii) refinement of novelties through adaptation; (iv) exploitation of novelties by a clade, which may coincide with a new round of ecological or environmental potentiation; followed by (v) the establishment of innovations through ecological processes. This framework recognizes that there is little empirical support for either the dominance of ecological opportunity, nor abrupt discontinuities (often caricatured as 'hopeful monsters'). This general framework may be extended to aspects of cultural and social innovation.
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Affiliation(s)
- Douglas H Erwin
- Department of Paleobiology, MRC-121 National Museum of Natural History, PO Box 37012, Washington, DC, 20013-7012, U.S.A.,Santa Fe Institute, 1399 Hyde Park Road, Santa Fe, NM, 87501, U.S.A
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4
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Adams DC, Glynne E, Kaliontzopoulou A. Interspecific allometry for sexual shape dimorphism: Macroevolution of multivariate sexual phenotypes with application to Rensch's rule. Evolution 2020; 74:1908-1922. [PMID: 32578880 DOI: 10.1111/evo.14049] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2020] [Accepted: 06/19/2020] [Indexed: 12/31/2022]
Abstract
Allometric trends in the degree of sexual dimorphism with body size have long fascinated evolutionary biologists. Many male-biased clades display more prominent sexual dimorphism in larger taxa (Rensch's rule), with most examples documenting this pattern for body size dimorphism. Although sexual dimorphism in traits other than body size is equally functionally relevant, characterizing allometric patterns of sexual dimorphism in such traits is hampered by lack of an analytical framework that can accommodate multivariate phenotypes. In this article, we derive a multivariate equivalency for investigating trends in sexual dimorphism-relative to overall body size-across taxa and provide a generalized test to determine whether such allometric patterns correspond with Rensch's rule. For univariate linear traits such as body size, our approach yields equivalent results to those from standard procedures, but our test is also capable of detecting trends in multivariate datasets such as shape. Computer simulations reveal that the method displays appropriate statistical properties, and an empirical example in Mediterranean lizards provides the first demonstration of Rensch's rule in a multivariate phenotype (head shape). Our generalized procedure substantially extends the analytical toolkit for investigating macroevolutionary patterns of sexual dimorphism and seeking a better understanding of the processes that underlie them.
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Affiliation(s)
- Dean C Adams
- Department of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, Iowa, 50011
| | - Elizabeth Glynne
- Department of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, Iowa, 50011
| | - Antigoni Kaliontzopoulou
- CIBIO Research Centre in Biodiversity and Genetic Resources, InBIO, Universidade do Porto, Campus de Vairão, Vila do Conde, Porto, 4099-002, Portugal
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5
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Affiliation(s)
- Douglas H. Erwin
- Department of Paleobiology, MRC-121, National Museum of Natural History, Washington, District of Columbia
- Santa Fe Institute, Santa Fe, New Mexico
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6
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Baedke J, Mc Manus SF. From seconds to eons: Time scales, hierarchies, and processes in evo-devo. STUDIES IN HISTORY AND PHILOSOPHY OF BIOLOGICAL AND BIOMEDICAL SCIENCES 2018; 72:38-48. [PMID: 30391127 DOI: 10.1016/j.shpsc.2018.10.006] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/09/2017] [Revised: 07/13/2018] [Accepted: 10/01/2018] [Indexed: 06/08/2023]
Abstract
This paper addresses the role of time scales in conceptualizing biological hierarchies. So far, the concept of hierarchies in philosophy of science has been dominated by the idea of composition and parthood, respectively. However, this view does not exhaust the diversity of hierarchical descriptions in the biosciences. Therefore, we highlight a type of hierarchy usually overlooked by philosophers of science. It distinguishes processes based on the different time scales (i.e. rates, frequencies, and rhythms) on which they occur. These time scale hierarchies often are connected with assumptions defended in process ontology. Due to their ability to describe interlevel dynamics of various kinds, we call these hierarchies 'dynamic hierarchies.' In order to highlight and discuss their organization, explanatory roles, and epistemic virtues we focus on dynamic hierarchies in developmental biology and evolutionary developmental biology (evo-devo). In these fields, dynamic hierarchies offer crucial complementary information to descriptions of compositional hierarchies.
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Affiliation(s)
- Jan Baedke
- Department of Philosophy I, Ruhr University Bochum, Universitätsstr. 150, 44801, Bochum, Germany.
| | - Siobhan F Mc Manus
- Center for Interdisciplinary Research in the Sciences and Humanities (CEIICH), UNAM, Av. Universidad Nacional 3000, C. P. 04510, Mexico City, Mexico.
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Malmstrøm M, Britz R, Matschiner M, Tørresen OK, Hadiaty RK, Yaakob N, Tan HH, Jakobsen KS, Salzburger W, Rüber L. The Most Developmentally Truncated Fishes Show Extensive Hox Gene Loss and Miniaturized Genomes. Genome Biol Evol 2018; 10:1088-1103. [PMID: 29684203 PMCID: PMC5906920 DOI: 10.1093/gbe/evy058] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 03/13/2018] [Indexed: 12/20/2022] Open
Abstract
The world’s smallest fishes belong to the genus Paedocypris. These miniature fishes are endemic to an extreme habitat: the peat swamp forests in Southeast Asia, characterized by highly acidic blackwater. This threatened habitat is home to a large array of fishes, including a number of miniaturized but also developmentally truncated species. Especially the genus Paedocypris is characterized by profound, organism-wide developmental truncation, resulting in sexually mature individuals of <8 mm in length with a larval phenotype. Here, we report on evolutionary simplification in the genomes of two species of the dwarf minnow genus Paedocypris using whole-genome sequencing. The two species feature unprecedented Hox gene loss and genome reduction in association with their massive developmental truncation. We also show how other genes involved in the development of musculature, nervous system, and skeleton have been lost in Paedocypris, mirroring its highly progenetic phenotype. Further, our analyses suggest two mechanisms responsible for the genome streamlining in Paedocypris in relation to other Cypriniformes: severe intron shortening and reduced repeat content. As the first report on the genomic sequence of a vertebrate species with organism-wide developmental truncation, the results of our work enhance our understanding of genome evolution and how genotypes are translated to phenotypes. In addition, as a naturally simplified system closely related to zebrafish, Paedocypris provides novel insights into vertebrate development.
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Affiliation(s)
- Martin Malmstrøm
- Department of Biosciences, Centre for Ecological and Evolutionary Synthesis (CEES), University of Oslo, Norway.,Zoological Institute, University of Basel, Switzerland
| | - Ralf Britz
- Department of Life Sciences, Natural History Museum, London, United Kingdom
| | - Michael Matschiner
- Department of Biosciences, Centre for Ecological and Evolutionary Synthesis (CEES), University of Oslo, Norway.,Zoological Institute, University of Basel, Switzerland
| | - Ole K Tørresen
- Department of Biosciences, Centre for Ecological and Evolutionary Synthesis (CEES), University of Oslo, Norway
| | - Renny Kurnia Hadiaty
- Ichthyology Laboratory, Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Norsham Yaakob
- Forest Research Institute Malaysia (FRIM), Kepong, Selangor Darul Ehsan, Malaysia
| | - Heok Hui Tan
- Lee Kong Chian Natural History Museum, National University of Singapore, Singapore
| | - Kjetill Sigurd Jakobsen
- Department of Biosciences, Centre for Ecological and Evolutionary Synthesis (CEES), University of Oslo, Norway
| | - Walter Salzburger
- Department of Biosciences, Centre for Ecological and Evolutionary Synthesis (CEES), University of Oslo, Norway.,Zoological Institute, University of Basel, Switzerland
| | - Lukas Rüber
- Naturhistorisches Museum Bern, Switzerland.,Aquatic Ecology and Evolution, Institute of Ecology and Evolution, University of Bern, Switzerland
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8
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A threshold model for polydactyly. PROGRESS IN BIOPHYSICS AND MOLECULAR BIOLOGY 2018; 137:1-11. [DOI: 10.1016/j.pbiomolbio.2018.04.007] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2018] [Revised: 04/18/2018] [Accepted: 04/20/2018] [Indexed: 12/29/2022]
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9
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Peterson T, Müller GB. Developmental finite element analysis of cichlid pharyngeal jaws: Quantifying the generation of a key innovation. PLoS One 2018; 13:e0189985. [PMID: 29320528 PMCID: PMC5761836 DOI: 10.1371/journal.pone.0189985] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2016] [Accepted: 12/06/2017] [Indexed: 01/31/2023] Open
Abstract
Advances in imaging and modeling facilitate the calculation of biomechanical forces in biological specimens. These factors play a significant role during ontogenetic development of cichlid pharyngeal jaws, a key innovation responsible for one of the most prolific species diversifications in recent times. MicroCT imaging of radiopaque-stained vertebrate embryos were used to accurately capture the spatial relationships of the pharyngeal jaw apparatus in two cichlid species (Haplochromis elegans and Amatitlania nigrofasciata) for the purpose of creating a time series of developmental stages using finite element models, which can be used to assess the effects of biomechanical forces present in a system at multiple points of its ontogeny. Changes in muscle vector orientations, bite forces, force on the neurocranium where cartilage originates, and stress on upper pharyngeal jaws are analyzed in a comparative context. In addition, microCT scanning revealed the presence of previously unreported cement glands in A. nigrofasciata. The data obtained provide an underrepresented dimension of information on physical forces present in developmental processes and assist in interpreting the role of developmental dynamics in evolution.
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Affiliation(s)
- Tim Peterson
- Department of Theoretical Biology, University of Vienna, Wien, Austria
- * E-mail:
| | - Gerd B. Müller
- Department of Theoretical Biology, University of Vienna, Wien, Austria
- The KLI Institute, Klosterneuburg, Austria
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10
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Abstract
Since the last major theoretical integration in evolutionary biology—the modern synthesis (MS) of the 1940s—the biosciences have made significant advances. The rise of molecular biology and evolutionary developmental biology, the recognition of ecological development, niche construction and multiple inheritance systems, the ‘-omics’ revolution and the science of systems biology, among other developments, have provided a wealth of new knowledge about the factors responsible for evolutionary change. Some of these results are in agreement with the standard theory and others reveal different properties of the evolutionary process. A renewed and extended theoretical synthesis, advocated by several authors in this issue, aims to unite pertinent concepts that emerge from the novel fields with elements of the standard theory. The resulting theoretical framework differs from the latter in its core logic and predictive capacities. Whereas the MS theory and its various amendments concentrate on genetic and adaptive variation in populations, the extended framework emphasizes the role of constructive processes, ecological interactions and systems dynamics in the evolution of organismal complexity as well as its social and cultural conditions. Single-level and unilinear causation is replaced by multilevel and reciprocal causation. Among other consequences, the extended framework overcomes many of the limitations of traditional gene-centric explanation and entails a revised understanding of the role of natural selection in the evolutionary process. All these features stimulate research into new areas of evolutionary biology.
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Affiliation(s)
- Gerd B Müller
- Department of Theoretical Biology, University of Vienna, Vienna, Austria.,Konrad Lorenz Institute for Evolution and Cognition Research, Klosterneuburg, Austria
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Lesoway MP, Collin R, Abouheif E. Early Activation of MAPK and Apoptosis in Nutritive Embryos of Calyptraeid Gastropods. JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION 2017; 328:449-461. [DOI: 10.1002/jez.b.22745] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/17/2016] [Revised: 03/09/2017] [Accepted: 04/05/2017] [Indexed: 01/04/2023]
Affiliation(s)
- Maryna P. Lesoway
- Department of Biology McGill University Montreal Quebec Canada
- Smithsonian Tropical Research Institute Balboa Ancón Panamá
| | - Rachel Collin
- Smithsonian Tropical Research Institute Balboa Ancón Panamá
| | - Ehab Abouheif
- Department of Biology McGill University Montreal Quebec Canada
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12
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Lange A, Müller GB. Polydactyly in Development, Inheritance, and Evolution. QUARTERLY REVIEW OF BIOLOGY 2017; 92:1-38. [DOI: 10.1086/690841] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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