Gold Standard and Agronomic Taxon

Agronomic Taxon

Created by Irstea. This ontology is modular. A first module called "Agronomic Taxon core" stores taxon terms of scientific nomenclature. It is based on skos vocabulary, linnean taxonomy ODP, classification ODP and some part of AOS ontology of the FAO. The module was enriched by specialising taxonomic relationship . Taxon ranks are linked to their agrovoc concepts. Some disjoint axioms between ranks were added. The licence is CC BY 4.0.

Gold Standard

Manually built by Catherine Roussey, inspired by https://fr.wikipedia.org/wiki/Taxonomiedublé. Each species proposed into the wheat species table have been validated with European Wheat data base http://genbank.vurv.cz/ewdb/. The taxon name and its ranking was firstly validated with the use of taxref reference table from INPN. NCBI's taxonomy have been used when not found in taxref. Then links to agrovoc's thesaurus, NAL and CABI Have been added. Links to ITIS database have been added, and also the links to DBpedia. Be warned : DBpedia contains two missing species :triticum zhukovsyi and triticum compactum erinaceum which are not in taxref. triticum zhukovsyi is in European Wheat data base. Links to TAXREF-LD have also been added.

The licence is CC BY 4.0.

Access

• The basename for agronomic taxon is http://ontology.irstea.fr/agronomictaxon/core.
• Gold standard's basename is http://ontology.irstea.fr/agronomicTaxon/resource/goldStandard.

The triplestore can be queried, from a web browser to http://ontology.irstea.fr/agronomictaxon/snorql, or directly with a sparql client to http://ontology.irstea.fr/agronomictaxon/sparql.

Documentation

• The documentation web site contains the first version of agronomic taxon and a small state of the art
• Competency Questions lists the competency questions associated to the module

Publications

• C. ROUSSEY, J.-P. CHANET, V. CELLIER, F. AMARGER. Agronomic Taxon. In Proceedings of the 2nd international Workshop on Open Data, WOD 2013, 3 juin 2013, BNF Paris.
• F. AMARGER, J.-P. CHANET, O. HAEMMERLE, N. HERNANDEZ, C. ROUSSEY. Construction d'une ontologie par transformation des systèmes d'organisation des connaissances et évaluation de la confiance . Revue Ingénierie des Systèmes d'Information, ISI, Édition Lavoisier, Numéro spécial "Systèmes d'information pour l'environnement: nouvelles avancées". Direction Thérèse Libourel, André Miralles, François Pinet. Vol 20, N°3, doi: 10.3166 / isi.20.3.37-61, p. 37-61, 2015.
• F. AMARGER "Vers un système intelligent de capitalisation de connaissances pour l'agriculture durable : construction d'ontologies agricoles par transformation de sources existantes", Thèse en informatique de l’Université Paul Sabatier de Toulouse soutenue le 18 décembre 2015.
• F. AMARGER, J.-P. CHANET, O HAEMMERLE, N. HERNANDEZ, C. ROUSSEY. SKOS Sources Transformations for Ontology Engineering: Agronomical taxonomy use case. In Proceedings of the 11th International Conference Metadata and Semantic Research, MTSR 2014, 27-29 novembre 2014, Karlsruhe, Allemagne. Editors: Sissi Closs, Rudi Studer, Emmanouel Garoufallou, Miguel-Angel Sicilia ISBN: 978-3-319-13673-8 (en ligne) 978-3-319-13674-5 (En ligne) Springer, Communications in Computer and Information Science book series (CCIS) Vol 478, 2014, p. 314-328.
• E. THIÉBLIN, F. AMARGER, N. HERNANDEZ, C. ROUSSEY, C. TROJAHN DOS SANTOS. Cross-Querying LOD Datasets Using Complex Alignments: An Application to Agronomic Taxa. In Proceedings of the 11th International Conference Metadata and Semantic Research, MTSR 2017, Tallinn, Estonia, November 28 – December 1, 2017, Communications in Computer and Information Science book series (CCIS), Springer, Vol 755, p. 25-37. DOI