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Grabowski M, Pienaar J, Voje KL, Andersson S, Fuentes-González J, Kopperud BT, Moen DS, Tsuboi M, Uyeda J, Hansen TF. A Cautionary Note on "A Cautionary Note on the Use of Ornstein Uhlenbeck Models in Macroevolutionary Studies". Syst Biol 2023; 72:955-963. [PMID: 37229537 PMCID: PMC10405355 DOI: 10.1093/sysbio/syad012] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2022] [Revised: 01/08/2023] [Accepted: 03/16/2023] [Indexed: 05/27/2023] Open
Abstract
Models based on the Ornstein-Uhlenbeck process have become standard for the comparative study of adaptation. Cooper et al. (2016) have cast doubt on this practice by claiming statistical problems with fitting Ornstein-Uhlenbeck models to comparative data. Specifically, they claim that statistical tests of Brownian motion may have too high Type I error rates and that such error rates are exacerbated by measurement error. In this note, we argue that these results have little relevance to the estimation of adaptation with Ornstein-Uhlenbeck models for three reasons. First, we point out that Cooper et al. (2016) did not consider the detection of distinct optima (e.g. for different environments), and therefore did not evaluate the standard test for adaptation. Second, we show that consideration of parameter estimates, and not just statistical significance, will usually lead to correct inferences about evolutionary dynamics. Third, we show that bias due to measurement error can be corrected for by standard methods. We conclude that Cooper et al. (2016) have not identified any statistical problems specific to Ornstein-Uhlenbeck models, and that their cautions against their use in comparative analyses are unfounded and misleading. [adaptation, Ornstein-Uhlenbeck model, phylogenetic comparative method.].
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Affiliation(s)
- Mark Grabowski
- Research Centre in Evolutionary Anthropology and Palaeoecology, Liverpool John Moores University, Liverpool, UK
- Department of Biosciences, Centre for Ecological and Evolutionary Synthesis (CEES), University of Oslo, Oslo, Norway
| | - Jason Pienaar
- Department of Biological Sciences and the Institutes of Environment, Florida International University Miami, Miami, FL, USA
| | - Kjetil L Voje
- Natural History Museum, University of Oslo, Oslo, Norway
| | - Staffan Andersson
- Department of Biological and Environmental Sciences, University of Gothenburg, Göteborg, Sweden
| | - Jesualdo Fuentes-González
- Department of Biological Sciences and the Institutes of Environment, Florida International University Miami, Miami, FL, USA
| | - Bjørn T Kopperud
- GeoBio-Center LMU, Ludwig-Maximilians-Universität München, Richard-Wagner Straße 10, 80333 Munich, Germany
- Department of Earth and Environmental Sciences, Paleontology & Geobiology, Ludwig-Maximilians-Universität München, Richard-Wagner Straße 10, 80333 Munich, Germany
| | - Daniel S Moen
- Department of Integrative Biology, Oklahoma State University, Stillwater, OK 74078, USA
| | | | - Josef Uyeda
- Department of Biological Sciences, Virginia Tech, Blacksburg, VA, USA
| | - Thomas F Hansen
- Department of Biosciences, Centre for Ecological and Evolutionary Synthesis (CEES), University of Oslo, Oslo, Norway
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Simon MN, Moen DS. Bridging Performance and Adaptive Landscapes to Understand Long-Term Functional Evolution. Physiol Biochem Zool 2023; 96:304-320. [PMID: 37418608 DOI: 10.1086/725416] [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] [Indexed: 07/09/2023]
Abstract
AbstractUnderstanding functional adaptation demands an integrative framework that captures the complex interactions between form, function, ecology, and evolutionary processes. In this review, we discuss how to integrate the following two distinct approaches to better understand functional evolution: (1) the adaptive landscape approach (ALA), aimed at finding adaptive peaks for different ecologies, and (2) the performance landscape approach (PLA), aimed at finding performance peaks for different ecologies. We focus on the Ornstein-Uhlenbeck process as the evolutionary model for the ALA and on biomechanical modeling to estimate performance for the PLA. Whereas both the ALA and the PLA have each given insight into functional adaptation, separately they cannot address how much performance contributes to fitness or whether evolutionary constraints have played a role in form-function evolution. We show that merging these approaches leads to a deeper understanding of these issues. By comparing the locations of performance and adaptive peaks, we can infer how much performance contributes to fitness in species' current environments. By testing for the relevance of history on phenotypic variation, we can infer the influence of past selection and constraints on functional adaptation. We apply this merged framework in a case study of turtle shell evolution and explain how to interpret different possible outcomes. Even though such outcomes can be quite complex, they represent the multifaceted relations among function, fitness, and constraints.
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Grabowski M, Kopperud BT, Tsuboi M, Hansen TF. Both Diet and Sociality Affect Primate Brain-Size Evolution. Syst Biol 2023; 72:404-418. [PMID: 36454664 PMCID: PMC10275546 DOI: 10.1093/sysbio/syac075] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2020] [Revised: 11/17/2022] [Accepted: 11/29/2022] [Indexed: 12/13/2023] Open
Abstract
Increased brain size in humans and other primates is hypothesized to confer cognitive benefits but brings costs associated with growing and maintaining energetically expensive neural tissue. Previous studies have argued that changes in either diet or levels of sociality led to shifts in brain size, but results were equivocal. Here we test these hypotheses using phylogenetic comparative methods designed to jointly account for and estimate the effects of adaptation and phylogeny. Using the largest current sample of primate brain and body sizes with observation error, complemented by newly compiled diet and sociality data, we show that both diet and sociality have influenced the evolution of brain size. Shifting from simple to more complex levels of sociality resulted in relatively larger brains, while shifting to a more folivorous diet led to relatively smaller brains. While our results support the role of sociality, they modify a range of ecological hypotheses centered on the importance of frugivory, and instead indicate that digestive costs associated with increased folivory may have resulted in relatively smaller brains. [adaptation; allometry; bayou; evolutionary trend; energetic constraints; phylogenetic comparative methods; primate brain size; Slouch; social-brain hypothesis.].
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Affiliation(s)
- Mark Grabowski
- Research Centre in Evolutionary Anthropology and Palaeoecology, Liverpool John Moores University, 3 Byrom Street, Liverpool L3 3AF, UK
- Department of Biosciences, University of Oslo, Blindernveien 31, 0371 Oslo, Norway
| | - Bjørn T Kopperud
- GeoBio-Center LMU, Ludwig-Maximilians-Universität München, Richard-Wagner Straße 10, 80333 Munich, Germany
- Department of Earth and Environmental Sciences, Paleontology and Geobiology, Ludwig-Maximilians-Universität München, Richard-Wagner Straße 10, 80333 Munich, Germany
| | - Masahito Tsuboi
- Department of Biosciences, University of Oslo, Blindernveien 31, 0371 Oslo, Norway
- Department of Biology, Lund University, Ekologihuset, Sölvegatan 37, 223 62 Lund, Sweden
| | - Thomas F Hansen
- Department of Biosciences, University of Oslo, Blindernveien 31, 0371 Oslo, Norway
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