P981
Crop Ontology, a Resource for Enabling Access to Breeders' Data

Date: Monday, January 13, 2014
Room: Grand Exhibit Hall
Elizabeth Arnaud , Bioversity International, Montpellier Cedex 5, France
Luca Matteis , Bioversity International, Rome, Italy
Marie-Angelique Laporte , Bioversity International, Montpellier Cedex 5, France
Herlin R. Espinosa Gutierrez , International Center for Tropical Agriculture (CIAT), Cali, Colombia
Glenn Hyman , International Center for Tropical Agriculture (CIAT), Cali, Colombia
Rosemary Shrestha , Genetic Resources Prog.,CIMMYT, Mexico, Mexico
Arllet Portugal , Integrated Breeding Platform, Texcoco, Mexico
Pierre-Yves Chibon , UR Plant Breeding, Wageningen Univ., Wageningen, Netherlands
Medha Devare , CGIAR Consortium Office, Montpellier, France
Akinnola N. Akintunde , International Black Sea University (IBSU), Tbilisi, Georgia
Jeffrey W. White , USDA-ARS, Maricopa, AZ
Mark D. Wilkinson , CBGP, Univ. Politécnica de Madrid, Pozuelo de Alarcón (Madrid), Spain
Caterina Caracciolo , Food and Agriculture Organization (FAO), Roma, Italy
Fabrizio Celli , Food and Agriculture Organization (FAO), Roma, Italy
Graham McLaren , Integrated Breeding Platform, Texcoco, Mexico
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 (FAO;http://www.fao.org/agrovoc) to test the integration of crop data into the mashup site of Agris (http://agris.fao.org/). 
Title:  The Crop Ontology, a resource for enabling access to breeders'data 
Submitter's E-mail Address: e.arnaud@cgiar.org
Session Selection: Generation Challenge Program Workshop

First author: Elizabeth Arnaud
Presenting Author
Elizabeth Arnaud
Bioversity International
Email: e.arnaud@cgiar.org
Handouts
  • Poster_CROP _ONTOLOGY_P981__PAG2014.pdf (2.3 MB)
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