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Cheng C, Messerschmidt L, Bravo I, Waldbauer M, Bhavikatti R, Schenk C, Grujic V, Model T, Kubinec R, Barceló J. A General Primer for Data Harmonization. Sci Data 2024; 11:152. [PMID: 38297013 PMCID: PMC10831085 DOI: 10.1038/s41597-024-02956-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2023] [Accepted: 01/11/2024] [Indexed: 02/02/2024] Open
Affiliation(s)
- Cindy Cheng
- Hochschule für Politik, Technical University of Munich, Richard-Wagner Str. 1, Munich, 80333, Bavaria, Germany.
| | - Luca Messerschmidt
- Hochschule für Politik, Technical University of Munich, Richard-Wagner Str. 1, Munich, 80333, Bavaria, Germany
| | - Isaac Bravo
- Hochschule für Politik, Technical University of Munich, Richard-Wagner Str. 1, Munich, 80333, Bavaria, Germany
| | - Marco Waldbauer
- Hochschule für Politik, Technical University of Munich, Richard-Wagner Str. 1, Munich, 80333, Bavaria, Germany
| | | | - Caress Schenk
- School of Humanities and Social Sciences, Nazarbayev University, Kabanbay Batry Ave., 53, Astana, 010000, Kazakhstan
| | - Vanja Grujic
- Faculty of Law, University of Brasilia, Campus Universitário Darcy Ribeiro Asa Norte, Brasília, 10587, Brazil
| | - Tim Model
- Delve, 2225 3rd St, San Francisco, 94107, California, USA
| | - Robert Kubinec
- Division of Social Science, New York University Abu Dhabi, Social Science Building (A5), Abu Dhabi, 129188, United Arab Emirates
| | - Joan Barceló
- Division of Social Science, New York University Abu Dhabi, Social Science Building (A5), Abu Dhabi, 129188, United Arab Emirates
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Bernard C, Santos GS, Deere JA, Rodriguez-Caro R, Capdevila P, Kusch E, Gascoigne SJL, Jackson J, Salguero-Gómez R. MOSAIC - A Unified Trait Database to Complement Structured Population Models. Sci Data 2023; 10:335. [PMID: 37264011 PMCID: PMC10235418 DOI: 10.1038/s41597-023-02070-w] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2022] [Accepted: 03/14/2023] [Indexed: 06/03/2023] Open
Abstract
Despite exponential growth in ecological data availability, broader interoperability amongst datasets is needed to unlock the potential of open access. Our understanding of the interface of demography and functional traits is well-positioned to benefit from such interoperability. Here, we introduce MOSAIC, an open-access trait database that unlocks the demographic potential stored in the COMADRE, COMPADRE, and PADRINO open-access databases. MOSAIC data were digitised and curated through a combination of existing datasets and new trait records sourced from primary literature. In its first release, MOSAIC (v. 1.0.0) includes 14 trait fields for 300 animal and plant species: biomass, height, growth determination, regeneration, sexual dimorphism, mating system, hermaphrodism, sequential hermaphrodism, dispersal capacity, type of dispersal, mode of dispersal, dispersal classes, volancy, and aquatic habitat dependency. MOSAIC includes species-level phylogenies for 1,359 species and population-specific climate data. We identify how database integration can improve our understanding of traits well-quantified in existing repositories and those that are poorly quantified (e.g., growth determination, modularity). MOSAIC highlights emerging challenges associated with standardising databases and demographic measures.
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Affiliation(s)
- Connor Bernard
- Department of Biology, University of Oxford, 11a Mansfield Rd, OX13SZ, Oxford, United Kingdom.
| | - Gabriel Silva Santos
- Department of Biology, University of Oxford, 11a Mansfield Rd, OX13SZ, Oxford, United Kingdom
- Department of Ecology, Rio de Janeiro State University, 20550-900, Rio de Janeiro, Brazil
- National Institute of the Atlantic Forest (INMA), 29650-000, Santa Teresa, Espírito Santo, Brazil
| | - Jacques A Deere
- Department of Biology, University of Oxford, 11a Mansfield Rd, OX13SZ, Oxford, United Kingdom
- Department of Evolutionary and Population Biology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, 1012 WX, Amsterdam, Netherlands
| | - Roberto Rodriguez-Caro
- Department of Biology, University of Oxford, 11a Mansfield Rd, OX13SZ, Oxford, United Kingdom
- Departamento de Biología Aplicada, Universidad Miguel Hernández. Av. Universidad, s/n, 03202, Elche (Alicante), Spain
| | - Pol Capdevila
- Department of Biology, University of Oxford, 11a Mansfield Rd, OX13SZ, Oxford, United Kingdom
- School of Biological Sciences, University of Bristol, 24 Tyndall Ave, Bristol, BS8 1TQ, United Kingdom
| | - Erik Kusch
- Center for Biodiversity Dynamics in a Changing World (BIOCHANGE), Arhus University, Aarhus, Denmark
- Section for Ecoinformatics & Biodiversity, Department of Biology, Arhus University, Aarhus, Denmark
| | - Samuel J L Gascoigne
- Department of Biology, University of Oxford, 11a Mansfield Rd, OX13SZ, Oxford, United Kingdom
| | - John Jackson
- Department of Biology, University of Oxford, 11a Mansfield Rd, OX13SZ, Oxford, United Kingdom
| | - Roberto Salguero-Gómez
- Department of Biology, University of Oxford, 11a Mansfield Rd, OX13SZ, Oxford, United Kingdom
- Centre for Biodiversity and Conservation Science, University of Queensland, St. Lucia, QLD, Australia
- Evolutionary Demography Laboratory, Max Plank Institute for Demographic Research, Rostock, Germany
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Cant J, Capdevila P, Beger M, Salguero-Gómez R. Recent exposure to environmental stochasticity does not determine the demographic resilience of natural populations. Ecol Lett 2023. [PMID: 37158011 DOI: 10.1111/ele.14234] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2022] [Revised: 03/06/2023] [Accepted: 04/11/2023] [Indexed: 05/10/2023]
Abstract
Escalating climatic and anthropogenic pressures expose ecosystems worldwide to increasingly stochastic environments. Yet, our ability to forecast the responses of natural populations to this increased environmental stochasticity is impeded by a limited understanding of how exposure to stochastic environments shapes demographic resilience. Here, we test the association between local environmental stochasticity and the resilience attributes (e.g. resistance, recovery) of 2242 natural populations across 369 animal and plant species. Contrary to the assumption that past exposure to frequent environmental shifts confers a greater ability to cope with current and future global change, we illustrate how recent environmental stochasticity regimes from the past 50 years do not predict the inherent resistance or recovery potential of natural populations. Instead, demographic resilience is strongly predicted by the phylogenetic relatedness among species, with survival and developmental investments shaping their responses to environmental stochasticity. Accordingly, our findings suggest that demographic resilience is a consequence of evolutionary processes and/or deep-time environmental regimes, rather than recent-past experiences.
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Affiliation(s)
- James Cant
- Centre for Biological Diversity, University of St Andrews, St Andrews, UK
- School of Biology, Faculty of Biological Sciences, University of Leeds, Leeds, UK
| | - Pol Capdevila
- School of Biological Sciences, University of Bristol, Bristol, UK
- Department of Zoology, University of Oxford, Oxford, UK
| | - Maria Beger
- School of Biology, Faculty of Biological Sciences, University of Leeds, Leeds, UK
- Centre for Biodiversity and Conservation Science, School of Biological Sciences, University of Queensland, Brisbane, Queensland, Australia
| | - Roberto Salguero-Gómez
- Department of Zoology, University of Oxford, Oxford, UK
- Centre for Biodiversity and Conservation Science, School of Biological Sciences, University of Queensland, Brisbane, Queensland, Australia
- Max Planck Institute for Demographic Research, Rostock, Germany
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Biodiversity of Coleoptera (Insecta) in the Middle and Lower Volga Regions (Russia). DIVERSITY 2022. [DOI: 10.3390/d14121128] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
(1) Background: The conservation of entomofauna in individual macroregions requires efforts to study the distribution and abundance of insects. For this purpose, databases are created that enumerate this information. Such databases, with the processing of significant factual material, make it possible to objectively assess the status of a species and, if necessary, take measures for its protection. The aim of the paper is to describe the modern Coleoptera fauna in nine regions of Russia on the basis of a recently published dataset. (2) Methods: We conducted our own studies in 1994, 1996, 1998–2003 and 2005–2022. The dataset also includes data from museum specimens from other years. We used a variety of methods, such as sifting through litter, searching under the bark of trees and stumps, trapping by light, soil traps, beer traps, window traps, etc. For each observation, the coordinates of the find, the number of individuals observed and the date were recorded. (3) Results: The dataset contains data on 1469 species and subspecies of Coleoptera from 85 families found in the Volga Region. In total, there are 31,433 samples and 9072 occurrences in the dataset. (4) Conclusions: The largest families in terms of species diversity are Curculionidae (202 species), Carabidae (145 species) and Chrysomelidae (142 species). There are 54 species of Coleoptera with a northern range boundary in the macroregion, two species with a southern range boundary and one species with an eastern range boundary. Twenty-one invasive Coleoptera species have been recorded in the macroregion.
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Salguero‐Gómez R, Jackson J, Gascoigne SJL. Four key challenges in the open-data revolution. J Anim Ecol 2021; 90:2000-2004. [PMID: 34525215 PMCID: PMC8518073 DOI: 10.1111/1365-2656.13567] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2021] [Accepted: 07/06/2021] [Indexed: 12/01/2022]
Abstract
In Focus: Culina, A., Adriaensen, F., Bailey, L. D., et al. (2021) Connecting the data landscape of long-term ecological studies: The SPI-Birds data hub. Journal of Animal Ecology, https://doi.org/10.1111/1365-2656.13388. Long-term, individual-based datasets have been at the core of many key discoveries in ecology, and calls for the collection, curation and release of these kinds of ecological data are contributing to a flourishing open-data revolution in ecology. Birds, in particular, have been the focus of international research for decades, resulting in a number of uniquely long-term studies, but accessing these datasets has been historically challenging. Culina et al. (2021) introduce an online repository of individual-level, long-term bird records with ancillary data (e.g. genetics), which will enable key ecological questions to be answered on a global scale. As well as these opportunities, however, we argue that the ongoing open-data revolution comes with four key challenges relating to the (1) harmonisation of, (2) biases in, (3) expertise in and (4) communication of, open ecological data. Here, we discuss these challenges and how key efforts such as those by Culina et al. are using FAIR (Findable, Accessible, Interoperable and Reproducible) principles to overcome them. The open-data revolution will undoubtedly reshape our understanding of ecology, but with it the ecological community has a responsibility to ensure this revolution is ethical and effective.
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Affiliation(s)
- Roberto Salguero‐Gómez
- Department of ZoologyUniversity of OxfordOxfordUK
- Max Planck Institute for Demographic ResearchRostockGermany
| | - John Jackson
- Department of ZoologyUniversity of OxfordOxfordUK
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