Construction d’un référentiel taxonomique commun pour des études sur l’histoire de la zoologie, l’archéozoologie et la biologie
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The document discusses the Taxonomic Reference (TaxRef) system, which provides a comprehensive classification framework for fauna, flora, and fungi in France, facilitating access to over 3200 excavation records and numerous species references. It emphasizes the transition to a linked-data format to enhance interoperability and usability across various applications and datasets. Future work includes expanding TaxRef's scope to encompass cultural, chronological, and geographical data, as well as addressing conservation issues for vulnerable species.
Construction d’un référentiel taxonomique commun pour des études sur l’histoire de la zoologie, l’archéozoologie et la biologie
- 1. 1Franck MICHEL, I3S F. Michel1, C. Callou2, C. Faron-Zucker1, O. Gargominy3, C. Martin2, J. Montagnat1, S. Tercerie, M. Tounsi1, F. Vest3 1 Université Côte d’Azur, CNRS, I3S, France, 2 BBEES, Sorbonne Univ., MNHN, CNRS, 3 Service du Patrimoine Naturel, MNHN, CNRS Référentiel taxonomique pour l’étude de l’histoire de la zoologie/biologie/archéozoologie SemWeb.Pro Paris, 21/11/2016
- 2. 2Franck MICHEL, I3S Introduction The Hunting Dogs Mosaic, detail of a winged sea-griffin chasing a dolphin. Corinium Museum, Cirencester Credit: Carole Raddato - https://www.flickr.com/photos/carolemage/16295160644/
- 3. 3Franck MICHEL, I3S Introduction The Hunting Dogs Mosaic, detail of a winged sea-griffin chasing a dolphin
- 4. 4Franck MICHEL, I3S Introduction The Hunting Dogs Mosaic, detail of a winged sea-griffin chasing a dolphin Modern zoological reference Cetacea, Delphinidae, Dehlphinus…
- 5. 5Franck MICHEL, I3S Introduction The Hunting Dogs Mosaic, detail of a winged sea-griffin chasing a dolphin Archaeological excavation mentioning remains of dolphin Modern zoological reference Cetacea, Delphinidae, Dehlphinus…
- 6. 6Franck MICHEL, I3S Introduction The Hunting Dogs Mosaic, detail of a winged sea-griffin chasing a dolphin Archaeological excavation mentioning remains of dolphin First Natural History Encycloedia, 1485. Modern zoological reference Cetacea, Delphinidae, Dehlphinus…
- 7. 7Franck MICHEL, I3S Introduction The Hunting Dogs Mosaic, detail of a winged sea-griffin chasing a dolphin Archaeological excavation mentioning remains of dolphin First Natural History Encycloedia, 1485. Modern zoological reference Cetacea, Delphinidae, Dehlphinus… Need for common references: taxonomic, geographical, cultural, chronological,
- 8. 8Franck MICHEL, I3S First Natural History Encycloedia, 1485. Introduction Archaeological excavation mentioning remains of dolphin Modern zoological reference Cetacea, Delphinidae, Dehlphinus… TAXREF The Hunting Dogs Mosaic, detail of a winged sea-griffin chasing a dolphin
- 9. 9Franck MICHEL, I3S TAXREF INPN web portal Used by collectivities, biologists, architects, teachers, citizens… Archaeozoological and Archaeobotanical Inventories of France 3200+ references to excavations reports, studies, academic papers 4700 archaeological sites 2700 animal species, 1100 plant species French TAXonomical REFerence for fauna, flora, fungus 509,000+ names including living/extinct/exotic species Mainland France and overseas
- 14. 14Franck MICHEL, I3S Enable use by Linked-Data Based Applications http://inpn.mnhn.fr/taxref/label/60878 <a href= “...”>
- 15. 15Franck MICHEL, I3S Enable use by Linked-Data Based Applications http://inpn.mnhn.fr/taxref/label/60878 skos:closeMatch, skos:relatedMatch, owl:sameAs, rdfs:seeAlso, ... <a href= “...”>
- 16. 16Franck MICHEL, I3S From TAXREF to the Web of Data Transition from... ...to a thesaurus exploitable using SW technologies SKOS: Simple Knowledge Organization System W3C RDF-based standard to represent controlled vocabularies: glossary, taxonomy, thesaurus...
- 17. 17Franck MICHEL, I3S TAXREF SKOS Modelling Taxon skos:Concept Reference name skosxl:Label Synonym skosxl:Label skosxl:prefLabel Habitat skos:Concept taxprop:habitat Biogeo. status skos:Concept Taxonomical Rank skos:Concept "Linnaeus, 1758” nt:has_rank “Delphinus delphis” skos:broader txn:authority “Van Bree, 1971” “Delphinus tropicalis” http://inpn.mnhn.fr/taxref/label/60881 txn:authority skosxl:literalForm "Short-beaked common dolphin"@en taxprop: vernacularName skosxl:literalForm http://inpn.mnhn.fr/taxref/label/60878 taxprop:bioGeoStatusIn skosxl:altLabel http://inpn.mnhn.fr/taxref/9.0/taxon/60878
- 18. 18Franck MICHEL, I3S Taxon => SKOS Concept Names => SKOS Labels Vernacular names Taxonomical Rank Habitat Biogeographical status From TAXREF to the Web of Data SKOS Model TAXREF-SKOS
- 19. 19Franck MICHEL, I3S Taxon => SKOS Concept Names => SKOS Labels Vernacular names Taxonomical Rank Habitat Biogeographical status From TAXREF to the Web of Data SKOS Model TAXREF-SKOS Taxonomical ranks, habitats, geographical locations… Geonames TaxonConcept Ontology: habitat/authority, tax. ranks NCBI Organismal Classification: has_rank, tax. ranks GeoSpecies Knowledge Base: tax. ranks ENVO Environment Ontology: habitats Darwin Core Terms: occurenceStatus, locationID …
- 20. 20Franck MICHEL, I3S From TAXREF to the Web of Data SKOS Model TAXREF-SKOS Automatic discovery of links with well-adopted open data sets AGROVOC Vertebrate Tax. Ontology NCBI Organismal Classification Taxon => SKOS Concept Names => SKOS Labels Vernacular names Taxonomical Rank Habitat Biogeographical status ER issues: spelling, disagreements, RDFS vs. SKOS
- 21. 21Franck MICHEL, I3S Towards sustainable, dereferencable URIs http://inpn.mnhn.fr/taxref/label/60878 skos:closeMatch, skos:relatedMatch, owl:sameAs, rdfs:seeAlso, ... SPARQL Corese-KGRAM Triple Store SPARQL 1.1 Endpoint SPARQL Templates Linked Data Platform
- 22. 22Franck MICHEL, I3S Perspectives and on-going works Extend TAXREF • Cultural, chronological and philological information • Geographical scope: Mediterranean areas • Red list: vulnerable/endangered species • … TAXREF-SKOS is just an enabler to... • Expose (existing) TAXREF-based datasets as Linked Data • Develop/extend TAXREF-based applications to enable searching through the Linked Open Data
- 23. 23Franck MICHEL, I3S Thank you