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Kwon TS, Lee DS, Choi WI, Kim ES, Park YS. Selection of climate variables in ant species distribution models: case study in South Korea. Int J Biometeorol 2024; 68:263-277. [PMID: 38047942 DOI: 10.1007/s00484-023-02588-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/02/2023] [Revised: 01/02/2023] [Accepted: 11/16/2023] [Indexed: 12/05/2023]
Abstract
The selection of explanatory variables is important in modeling prediction of changes in species distribution in response to climate change. In this study, we evaluated the importance of variable selection in species distribution models. We compared two different types of models for predicting the distribution of ant species: temperature-only and both temperature and precipitation. Ants were collected at 343 forest sites across South Korea from 2006 through 2009. We used a generalized additive model (GAM) to predict the future distribution of 16 species that showed significant responses to changes in climatic factors (temperature and/or precipitation). Four types of GAMs were constructed: temperature, temperature with interaction of precipitation, temperature and precipitation without interaction, and temperature and precipitation with interaction. Most species displayed similar results between the temperatureonly and the temperature and precipitation models. The results for predicted changes in species richness were different from the temperature-only model. This indicates higher uncertainty in the prediction of species richness, which is obtained by combining the prediction results of distribution change for each species, than in the prediction of distribution change. The turnover rate of the ant assemblages was predicted to increase with decreases in temperature and increases in elevation, which was consistent with other studies. Finally, our results showed that the prediction of the distribution or diversity of organisms responding to climate change is uncertain because of the high variability of the model outputs induced by the variables used in the models.
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Affiliation(s)
- Tae-Sung Kwon
- Alpha Insect Diversity Lab, Nowon, Seoul, 01746, Republic of Korea
| | - Dae-Seong Lee
- Department of Biology, College of Sciences, Kyung Hee University, Dongdaemun, Seoul, 02447, Republic of Korea
| | - Won Il Choi
- Division of Forest Ecology, National Institute of Forest Science, Dongdaemun, Seoul, 02445, Republic of Korea
| | - Eun-Sook Kim
- Division of Forest Ecology, National Institute of Forest Science, Dongdaemun, Seoul, 02445, Republic of Korea
| | - Young-Seuk Park
- Department of Biology, College of Sciences, Kyung Hee University, Dongdaemun, Seoul, 02447, Republic of Korea.
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Eastwood N, Zhou J, Derelle R, Abdallah MAE, Stubbings WA, Jia Y, Crawford SE, Davidson TA, Colbourne JK, Creer S, Bik H, Hollert H, Orsini L. 100 years of anthropogenic impact causes changes in freshwater functional biodiversity. eLife 2023; 12:RP86576. [PMID: 37933221 PMCID: PMC10629823 DOI: 10.7554/elife.86576] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2023] Open
Abstract
Despite efforts from scientists and regulators, biodiversity is declining at an alarming rate. Unless we find transformative solutions to preserve biodiversity, future generations may not be able to enjoy nature's services. We have developed a conceptual framework that establishes the links between biodiversity dynamics and abiotic change through time and space using artificial intelligence. Here, we apply this framework to a freshwater ecosystem with a known history of human impact and study 100 years of community-level biodiversity, climate change and chemical pollution trends. We apply explainable network models with multimodal learning to community-level functional biodiversity measured with multilocus metabarcoding, to establish correlations with biocides and climate change records. We observed that the freshwater community assemblage and functionality changed over time without returning to its original state, even if the lake partially recovered in recent times. Insecticides and fungicides, combined with extreme temperature events and precipitation, explained up to 90% of the functional biodiversity changes. The community-level biodiversity approach used here reliably explained freshwater ecosystem shifts. These shifts were not observed when using traditional quality indices (e.g. Trophic Diatom Index). Our study advocates the use of high-throughput systemic approaches on long-term trends over species-focused ecological surveys to identify the environmental factors that cause loss of biodiversity and disrupt ecosystem functions.
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Affiliation(s)
- Niamh Eastwood
- Environmental Genomics Group, School of Biosciences, University of BirminghamBirminghamUnited Kingdom
| | - Jiarui Zhou
- Environmental Genomics Group, School of Biosciences, University of BirminghamBirminghamUnited Kingdom
| | - Romain Derelle
- Environmental Genomics Group, School of Biosciences, University of BirminghamBirminghamUnited Kingdom
| | | | - William A Stubbings
- Environmental Genomics Group, School of Biosciences, University of BirminghamBirminghamUnited Kingdom
- School of Geography, Earth & Environmental Sciences, University of BirminghamBirminghamUnited Kingdom
| | - Yunlu Jia
- Department Evolutionary Ecology & Environmental Toxicology, Faculty of Biological Sciences, Goethe University FrankfurtFrankfurtGermany
| | - Sarah E Crawford
- Department Evolutionary Ecology & Environmental Toxicology, Faculty of Biological Sciences, Goethe University FrankfurtFrankfurtGermany
| | - Thomas A Davidson
- Lake Group, Department of Ecoscience, Aarhus UniversityAarhusDenmark
| | - John K Colbourne
- Environmental Genomics Group, School of Biosciences, University of BirminghamBirminghamUnited Kingdom
| | - Simon Creer
- School of Natural Sciences, Environment Centre Wales, Deiniol Road, Bangor UniversityBangorUnited Kingdom
| | - Holly Bik
- Department Marine Sciences and Institute of Bioinformatics, University of GeorgiaAthensUnited States
| | - Henner Hollert
- Department Evolutionary Ecology & Environmental Toxicology, Faculty of Biological Sciences, Goethe University FrankfurtFrankfurtGermany
- LOEWE Centre for Translational Biodiversity Genomics (LOEWE‐TBG)FrankfurtGermany
- Department Media-related Toxicology, Institute for Molecular Biology and Applied Ecology (IME)FrankfurtGermany
| | - Luisa Orsini
- Environmental Genomics Group, School of Biosciences, University of BirminghamBirminghamUnited Kingdom
- The Alan Turing Institute, British LibraryLondonUnited Kingdom
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Reilly K, Ellis LJA, Davoudi HH, Supian S, Maia MT, Silva GH, Guo Z, Martinez DST, Lynch I. Daphnia as a model organism to probe biological responses to nanomaterials-from individual to population effects via adverse outcome pathways. Front Toxicol 2023; 5:1178482. [PMID: 37124970 PMCID: PMC10140508 DOI: 10.3389/ftox.2023.1178482] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2023] [Accepted: 04/06/2023] [Indexed: 05/02/2023] Open
Abstract
The importance of the cladoceran Daphnia as a model organism for ecotoxicity testing has been well-established since the 1980s. Daphnia have been increasingly used in standardised testing of chemicals as they are well characterised and show sensitivity to pollutants, making them an essential indicator species for environmental stress. The mapping of the genomes of D. pulex in 2012 and D. magna in 2017 further consolidated their utility for ecotoxicity testing, including demonstrating the responsiveness of the Daphnia genome to environmental stressors. The short lifecycle and parthenogenetic reproduction make Daphnia useful for assessment of developmental toxicity and adaption to stress. The emergence of nanomaterials (NMs) and their safety assessment has introduced some challenges to the use of standard toxicity tests which were developed for soluble chemicals. NMs have enormous reactive surface areas resulting in dynamic interactions with dissolved organic carbon, proteins and other biomolecules in their surroundings leading to a myriad of physical, chemical, biological, and macromolecular transformations of the NMs and thus changes in their bioavailability to, and impacts on, daphnids. However, NM safety assessments are also driving innovations in our approaches to toxicity testing, for both chemicals and other emerging contaminants such as microplastics (MPs). These advances include establishing more realistic environmental exposures via medium composition tuning including pre-conditioning by the organisms to provide relevant biomolecules as background, development of microfluidics approaches to mimic environmental flow conditions typical in streams, utilisation of field daphnids cultured in the lab to assess adaption and impacts of pre-exposure to pollution gradients, and of course development of mechanistic insights to connect the first encounter with NMs or MPs to an adverse outcome, via the key events in an adverse outcome pathway. Insights into these developments are presented below to inspire further advances and utilisation of these important organisms as part of an overall environmental risk assessment of NMs and MPs impacts, including in mixture exposure scenarios.
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Affiliation(s)
- Katie Reilly
- School of Geography, Earth and Environmental Sciences, University of Birmingham, Birmingham, United Kingdom
| | - Laura-Jayne A. Ellis
- School of Geography, Earth and Environmental Sciences, University of Birmingham, Birmingham, United Kingdom
| | - Hossein Hayat Davoudi
- School of Geography, Earth and Environmental Sciences, University of Birmingham, Birmingham, United Kingdom
| | - Suffeiya Supian
- School of Geography, Earth and Environmental Sciences, University of Birmingham, Birmingham, United Kingdom
| | - Marcella T. Maia
- Brazilian Nanotechnology National Laboratory (LNNano), Brazilian Center for Research in Energy and Materials (CNPEM), Campinas, Brazil
| | - Gabriela H. Silva
- Brazilian Nanotechnology National Laboratory (LNNano), Brazilian Center for Research in Energy and Materials (CNPEM), Campinas, Brazil
| | - Zhiling Guo
- School of Geography, Earth and Environmental Sciences, University of Birmingham, Birmingham, United Kingdom
- *Correspondence: Zhiling Guo, ; Iseult Lynch,
| | - Diego Stéfani T. Martinez
- Brazilian Nanotechnology National Laboratory (LNNano), Brazilian Center for Research in Energy and Materials (CNPEM), Campinas, Brazil
| | - Iseult Lynch
- School of Geography, Earth and Environmental Sciences, University of Birmingham, Birmingham, United Kingdom
- *Correspondence: Zhiling Guo, ; Iseult Lynch,
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Kotni P, van Hintum T, Maggioni L, Oppermann M, Weise S. EURISCO update 2023: the European Search Catalogue for Plant Genetic Resources, a pillar for documentation of genebank material. Nucleic Acids Res 2022; 51:D1465-D1469. [PMID: 36189883 PMCID: PMC9825528 DOI: 10.1093/nar/gkac852] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2022] [Revised: 09/13/2022] [Accepted: 09/23/2022] [Indexed: 01/30/2023] Open
Abstract
The European Search Catalogue for Plant Genetic Resources (EURISCO) is a central entry point for information on crop plant germplasm accessions from institutions in Europe and beyond. In total, it provides data on more than two million accessions, making an important contribution to unlocking the vast genetic diversity that lies deposited in >400 germplasm collections in 43 countries. EURISCO serves as the reference system for the Plant Genetic Resources Strategy for Europe and represents a significant approach for documenting and making available the world's agrobiological diversity. EURISCO is well established as a resource in this field and forms the basis for a wide range of research projects. In this paper, we present current developments of EURISCO, which is accessible at http://eurisco.ecpgr.org.
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Affiliation(s)
- Pragna Kotni
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Corrensstr. 3, 06466 Seeland, Germany
| | - Theo van Hintum
- Centre for Genetic Resources, The Netherlands (CGN), Wageningen University & Research, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands
| | - Lorenzo Maggioni
- European Cooperative Programme for Plant Genetic Resources (ECPGR), c/o Alliance of Bioversity International and CIAT, Via di San Domenico 1, 00153 Rome, Italy
| | - Markus Oppermann
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Corrensstr. 3, 06466 Seeland, Germany
| | - Stephan Weise
- To whom correspondence should be addressed. Tel: +49 39482 5 744; Fax: +49 39482 5 155;
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