Arnaud, E.

Crop ontology : a resource for enabling access to breeders' data - San Diego (USA) : FAO ; CGIAR ; CIMMYT ; CIAT, 2014. - 58 slides

Open Access Presented in Plant and Animal Genome (PAG) XXII; The Largest Ag-Genomics Meeting in the World; San Diego, CA (USA); 11-15 Jan 2014

The Crop Ontology (CO) (www.cropontology.org) is a service of the Integrated Breeding Platform (IBP), Generation Challenge Programme (GCP). CO currently includes reference lists of breeders?traits with measurement methods and scales for 14 crops ? with work ongoing to add barley, lentil and sweet potato ? as well as environmental and experimental design concepts. The objective is to provide a controlled vocabulary enabling harmonized annotations of evaluation data and metadata. The crop communities of practice, coordinated by the Crop Lead Centers, validate the concepts compiled in the CO trait dictionary template. CO trait concepts are cross-referenced to Plant Ontology (PO) and Trait Ontology (TO). The environmental and trial management concepts will be improved by a group of experts in agronomy and crop modelling. The Integrated Breeding Fieldbook and the Chado schema of the GCP crop databases both use the CO concepts for the capture and annotation of breeders?data. The Programmatic Application Interface (API) of CO enables direct download of the concepts by third-party web sites like: the international cassava database (http://www.cassavabase.org/), the Global Agricultural Trial Repository (Agtrials) (http://agtrials.org/), Eu-Solanaceae database at Wageningen University (https://www.eu-sol.wur.nl/), and the Phenomics Ontology Driven Database (PODD:http://150.229.2.236/podd/about) of the Australian Plant Phenomics Facility (APPF). CO is available in RDF format (Resource Description Framework) using the SKOS vocabulary (Simple Knowledge Organization System) for the purpose of publishing it in the Linked Open Data (LOD) Cloud. CO will be aligned with the AGROVOC thesaurus


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