The soil food web ontology: aligning trophic groups, processes, resources, and dietary traits to support food-web research

Le Guillarme Nicolas, Hedde Mickaël, Potapov Anton M., Martínez-Muñoz Carlos A., Berg Matty P., Briones Maria J. I., Calderon-Sanou Irene, Degrune Florine, Hohberg Karin, Martinez-Almoyna Camille, Pey Benjamin, Russell David J., Thuiller Wilfried. 2023. The soil food web ontology: aligning trophic groups, processes, resources, and dietary traits to support food-web research. Ecological Informatics, 78:102360, 12 p.

Résumé : Although soil ecology has benefited from recent advances in describing the functional and trophic traits of soil organisms, data reuse for large-scale soil food-web reconstructions still faces challenges. These obstacles include: (1) most data on the trophic interactions and feeding behaviour of soil organisms being scattered across disparate repositories, without well-established standard for describing and structuring trophic datasets; (2) the existence of various competing terms, rather than consensus, to delineate feeding-related concepts such as diets, trophic groups, feeding processes, resource types, leading to ambiguities that hinder meaningful data integration from different studies; (3) considerable divergence in the trophic classification of numerous soil organisms, or even the lack of such classifications, leading to discrepancies in the resolution of reconstructed food webs and compli- cating the reuse and comparison of food-web models within synthetic studies. To address these issues, we introduce the Soil Food Web Ontology, a novel formal conceptual framework designed to foster agreement on the trophic ecology of soil organisms. This ontology represents a collaborative and ongoing endeavour aimed at establishing consensus and formal definitions for the array of concepts relevant to soil trophic ecology. Its pri- mary objective is to enhance the accessibility, interpretation, combination, reuse, and automated processing of trophic data. By harmonising the terminology and fundamental principles of soil trophic ecology, we anticipate that the Soil Food Web Ontology will improve knowledge management within the field. It will help soil ecologists to better harness existing information regarding the feeding behaviours of soil organisms, facilitate more robust trophic classifications, streamline the reconstruction of soil food webs, and ultimately render food-web research more inclusive, reusable and reproducible.

Mots-clés Agrovoc : ontologie, comportement alimentaire, séquestration du carbone, aliment biologique, écologie, traitement des données, régime alimentaire, traitement des aliments

Mots-clés libres : Ecoinformatics, Soil food web, Trophic dataset, Data standardisation, Data integration

Agences de financement hors UE : Agence Nationale de la Recherche, Grenoble Alpes Métropole, Conseil départemental de l'Isère, Office Français de la Biodiversité

Projets sur financement : (FRA) Biogéographie globale des réseaux écologiques des forêts du monde, (FRA) MIAI@Grenoble Alpes, (FRA) Innovative strategies for observing and modelling natural systems

Auteurs et affiliations

• Le Guillarme Nicolas, Université Grenoble Alpes (FRA) - auteur correspondant
• Hedde Mickaël, INRAE (FRA)
• Potapov Anton M., University of Göttingen (DEU)
• Martínez-Muñoz Carlos A., Senckenberg Society for Nature Research (DEU)
• Berg Matty P., University of Groningen (NLD)
• Briones Maria J. I., University of Vigo (ESP)
• Calderon-Sanou Irene, Université Grenoble Alpes (FRA)
• Degrune Florine, CIRAD-PERSYST-UMR Eco&Sols (FRA) ORCID: 0000-0002-3409-5859
• Hohberg Karin, Senckenberg Museum for Natural History Görlitz (DEU)
• Martinez-Almoyna Camille, Université Grenoble Alpes (FRA)
• Pey Benjamin, CNRS (FRA)
• Russell David J., Senckenberg Museum for Natural History Görlitz (DEU)
• Thuiller Wilfried, Université Grenoble Alpes (FRA)

Source : Cirad-Agritrop (https://agritrop.cirad.fr/610902/)

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