The Crop Ontology: a source of standard traits and variables for breeding and agronomy
The Crop Ontology is a service of the Integrated Breeding Platform (www.integratedbreeding.net) in collaboration with the CGIAR and partners and under the leadership of Bioversity international. The Crop Ontology (www.cropontology.org) provides harmonized and validated breeders’ trait names, measur...
| Main Authors: | , , , , , , , |
|---|---|
| Format: | Conference Paper |
| Language: | Inglés |
| Published: |
2016
|
| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/78612 |
| _version_ | 1855532012450873344 |
|---|---|
| author | Arnaud, Elizabeth Valette, L. Pietragalla, J. Laporte, Marie-Angélique Aubert, C. Devare, Medha McLaren, G. Ribaut, J.M. |
| author_browse | Arnaud, Elizabeth Aubert, C. Devare, Medha Laporte, Marie-Angélique McLaren, G. Pietragalla, J. Ribaut, J.M. Valette, L. |
| author_facet | Arnaud, Elizabeth Valette, L. Pietragalla, J. Laporte, Marie-Angélique Aubert, C. Devare, Medha McLaren, G. Ribaut, J.M. |
| author_sort | Arnaud, Elizabeth |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | The Crop Ontology is a service of the Integrated Breeding Platform (www.integratedbreeding.net) in collaboration with the CGIAR and partners and under the leadership of Bioversity international. The Crop Ontology (www.cropontology.org) provides harmonized and validated breeders’ trait names, measurement methods, scales for currently 18 crops that are used by the Breeding Management System (BMS). The NextGeneration Breeding Databases developed by Boyce Thompson Institute also embed the Crop Ontology traits. The Crop Ontology contributes to the content of the reference ontologies of the Planteome project (http://www.planteome.org/).
A new Trait Dictionary Template was released that now includes the ‘standard variable’. A standard variable is equal to 'one trait+one method+one variable' and a trait can be measured through different variables, according to the method or the scale used. These variables will accurately annotate the measurements stored in the BMS databases and also will support the creation of standard manual or electronic fieldbooks. Ten crop trait dictionaries have already been migrated into this new template and uploaded on the Crop ontology site. Using similar methodology, an Agronomy Ontology is being developed to support combining results of field management practices with crop traits which is important to fully understand the dynamic of varying factors within any cropping system. Curation is currently performed to secure the compliance between the Agronomy ontology and the variables of the International Consortium for Agricultural Systems Applications (ICASA). |
| format | Conference Paper |
| id | CGSpace78612 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2016 |
| publishDateRange | 2016 |
| publishDateSort | 2016 |
| record_format | dspace |
| spelling | CGSpace786122023-01-01T06:44:53Z The Crop Ontology: a source of standard traits and variables for breeding and agronomy Arnaud, Elizabeth Valette, L. Pietragalla, J. Laporte, Marie-Angélique Aubert, C. Devare, Medha McLaren, G. Ribaut, J.M. ontology standards data plant breeding The Crop Ontology is a service of the Integrated Breeding Platform (www.integratedbreeding.net) in collaboration with the CGIAR and partners and under the leadership of Bioversity international. The Crop Ontology (www.cropontology.org) provides harmonized and validated breeders’ trait names, measurement methods, scales for currently 18 crops that are used by the Breeding Management System (BMS). The NextGeneration Breeding Databases developed by Boyce Thompson Institute also embed the Crop Ontology traits. The Crop Ontology contributes to the content of the reference ontologies of the Planteome project (http://www.planteome.org/). A new Trait Dictionary Template was released that now includes the ‘standard variable’. A standard variable is equal to 'one trait+one method+one variable' and a trait can be measured through different variables, according to the method or the scale used. These variables will accurately annotate the measurements stored in the BMS databases and also will support the creation of standard manual or electronic fieldbooks. Ten crop trait dictionaries have already been migrated into this new template and uploaded on the Crop ontology site. Using similar methodology, an Agronomy Ontology is being developed to support combining results of field management practices with crop traits which is important to fully understand the dynamic of varying factors within any cropping system. Curation is currently performed to secure the compliance between the Agronomy ontology and the variables of the International Consortium for Agricultural Systems Applications (ICASA). 2016 2017-01-06T10:38:40Z 2017-01-06T10:38:40Z Conference Paper https://hdl.handle.net/10568/78612 en Open Access Arnaud, E.; Valette, L.; Pietragalla, J.; Laporte, M-A.; Aubert, C.; Devare, M.; McLaren, G.; Ribaut, J-M. (2016) The Crop Ontology: a source of standard traits and variables for breeding and agronomy. [Abstract] presented AT XXIV Plant and Animal Genome Conference. San Diego, CA (USA) 9-13 Jan 2016. |
| spellingShingle | ontology standards data plant breeding Arnaud, Elizabeth Valette, L. Pietragalla, J. Laporte, Marie-Angélique Aubert, C. Devare, Medha McLaren, G. Ribaut, J.M. The Crop Ontology: a source of standard traits and variables for breeding and agronomy |
| title | The Crop Ontology: a source of standard traits and variables for breeding and agronomy |
| title_full | The Crop Ontology: a source of standard traits and variables for breeding and agronomy |
| title_fullStr | The Crop Ontology: a source of standard traits and variables for breeding and agronomy |
| title_full_unstemmed | The Crop Ontology: a source of standard traits and variables for breeding and agronomy |
| title_short | The Crop Ontology: a source of standard traits and variables for breeding and agronomy |
| title_sort | crop ontology a source of standard traits and variables for breeding and agronomy |
| topic | ontology standards data plant breeding |
| url | https://hdl.handle.net/10568/78612 |
| work_keys_str_mv | AT arnaudelizabeth thecropontologyasourceofstandardtraitsandvariablesforbreedingandagronomy AT valettel thecropontologyasourceofstandardtraitsandvariablesforbreedingandagronomy AT pietragallaj thecropontologyasourceofstandardtraitsandvariablesforbreedingandagronomy AT laportemarieangelique thecropontologyasourceofstandardtraitsandvariablesforbreedingandagronomy AT aubertc thecropontologyasourceofstandardtraitsandvariablesforbreedingandagronomy AT devaremedha thecropontologyasourceofstandardtraitsandvariablesforbreedingandagronomy AT mclareng thecropontologyasourceofstandardtraitsandvariablesforbreedingandagronomy AT ribautjm thecropontologyasourceofstandardtraitsandvariablesforbreedingandagronomy AT arnaudelizabeth cropontologyasourceofstandardtraitsandvariablesforbreedingandagronomy AT valettel cropontologyasourceofstandardtraitsandvariablesforbreedingandagronomy AT pietragallaj cropontologyasourceofstandardtraitsandvariablesforbreedingandagronomy AT laportemarieangelique cropontologyasourceofstandardtraitsandvariablesforbreedingandagronomy AT aubertc cropontologyasourceofstandardtraitsandvariablesforbreedingandagronomy AT devaremedha cropontologyasourceofstandardtraitsandvariablesforbreedingandagronomy AT mclareng cropontologyasourceofstandardtraitsandvariablesforbreedingandagronomy AT ribautjm cropontologyasourceofstandardtraitsandvariablesforbreedingandagronomy |