IBP Cassava Trait Ontology

Abbreviation: CO_334

General Information

Crop-specific trait ontologies enhance the interoperability and effectiveness of data exchange between the data sources which adopt it, by providing standard concepts that are use to describe phenotypes stored in those sources. As one of them, the Cassava Ontology is actively used and shared in different databases such as the BMS (Breeding Management system) of the IBP or the CassavaBase. Cassava, a major staple crop, is the main source of calories for 500 million people across the globe. A perennial woody shrub native to Latin America, cassava is primarily grown as an annual crop in the humid tropics. A cash crop as well as a subsistence crop, cassava's large edible starchy roots are a source of low-cost carbohydrates for millions. Cassava end products range from fresh roots cooked, boiled, baked or fried at the household level, to highly processed starch as a food additive.

Homepage http://www.cropontology.org/ontology/CO_334/Cassava

Countries that developed this resource Worldwide

Created in 2015

Taxonomic range

Manihot esculenta

Knowledge Domains

Subjects

User-defined Tags

Data standards

Plant Phenotypes and Traits

How to cite this record FAIRsharing.org: CO_334; IBP Cassava Trait Ontology; DOI: https://doi.org/10.25504/FAIRsharing.v06c4q; Last edited: Jan. 8, 2019, 1:39 p.m.; Last accessed: Sep 20 2019 12:50 a.m.

Record added: Jan. 18, 2018, 3:41 p.m.
Record updated: Sept. 18, 2018, noon by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.v06c4q' by 'The FAIRsharing Team' at 12:00, 18 Sep 2018 (approved):

	'domains' has been modified:
		Before:
			Agriculture
			Botany
			Data standards
			Food
			Food and Human Nutrition
			Phenotype
			Plant Phenotypes and Traits
		After:
			Agriculture
			Botany
			Data standards
			Food
			Nutritional science
			Phenotype
			Plant Phenotypes and Traits
		Added:
			Nutritional science
		Removed:
			Food and Human Nutrition

	'miriam_id' has been modified:
		Before: 
		After: None

Edits to 'https://fairsharing.org/FAIRsharing.v06c4q' by 'The FAIRsharing Team' at 15:36, 04 Sep 2018 (approved):

	'domains' has been modified:
		Before:
			Agriculture
			Botany
			Food
			Food and Human Nutrition
			Phenotype
			Plant Phenotypes and Traits
		After:
			Agriculture
			Botany
			Data standards
			Food
			Food and Human Nutrition
			Phenotype
			Plant Phenotypes and Traits
		Added:
			Data standards
		Removed:

	'supportLinks' has been modified:
		Before:
			forum|http://www.cropontology.org/feedback
			online documentation|http://agroportal.lirmm.fr/ontologies/CO_334
			online documentation|https://github.com/Planteome/ibp-cassava-traits
		After:
			forum|http://www.cropontology.org/feedback
			help|http://www.cropontology.org/help
			online documentation|http://agroportal.lirmm.fr/ontologies/CO_334
			online documentation|https://github.com/Planteome/ibp-cassava-traits
		Added:
			help|http://www.cropontology.org/help
		Removed:

	'dataProcesses' has been modified:
		Before:
			Browse Ontology
			Suggest New Terms
			Download OBO File
			Download RDF
		After:
			Browse Ontology
			Suggest New Terms
			Download OBO File
			Download RDF
			Browse
			Login
			Add new terms
			Annotation tool
		Added:
			Browse
			Login
			Add new terms
			Annotation tool
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.v06c4q' by 'The FAIRsharing Team' at 09:07, 14 Mar 2018 (approved):

	'related_standards' has been modified:
		Before:
			bsg-s000560|Web Ontology Language
			bsg-s002695|Crop Ontology
		After:
			bsg-s002695|Crop Ontology
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		Removed:
			bsg-s000560|Web Ontology Language

Edits to 'https://fairsharing.org/FAIRsharing.v06c4q' by 'The FAIRsharing Team' at 09:03, 14 Mar 2018 (approved):

	'in_curation' has been modified:
		Before: True
		After: False

Edits to 'https://fairsharing.org/FAIRsharing.v06c4q' by 'The FAIRsharing Team' at 19:35, 25 Jan 2018 (approved):

	'homepage' has been modified:
		Before: http://www.cropontology.org/ontology/CO_334
		After: http://www.cropontology.org/ontology/CO_334/Cassava

Edits to 'https://fairsharing.org/FAIRsharing.v06c4q' by 'The FAIRsharing Team' at 14:28, 22 Jan 2018 (approved):

	'homepage' has been modified:
		Before: http://www.cropontology.org/rdf/
		After: http://www.cropontology.org/ontology/CO_334

Support

General

forum	Crop Ontology Forum
help	Video Tutorials
online documentation	Agroportal link
online documentation	GitHub Repository

Additional Information

Contact

Crop Ontology Helpdesk

Tools

No tools defined

Schemas

No XSD schemas defined

Access / Retrieve Data

Conditions of Use

Applies to: Data use

Creative Commons Attribution 4.0 International (CC BY 4.0)

Data Curation

Suggest New Terms	http://submit.rtbbase.org/
Add new terms	http://www.cropontology.org/add-ontology
Annotation tool	http://www.cropontology.org/annotation-tool

Data Access

Browse Ontology	https://cassavabase.org/tools/onto/
Download OBO File	http://www.cropontology.org/obo/CO_334
Download RDF	http://www.cropontology.org/ontology/CO_334/Cassava/nt
Browse	http://www.cropontology.org/ontology/CO_334/Cassava
Login	http://www.cropontology.org/ontology/CO_334/Cassava

REST Web Services

Crop Ontology API

http://www.cropontology.org/api

Publications

No publications available

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

Crop Ontology

Models and Formats

No syntax standards defined

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Implementing Databases (3)

Planteome
A resource providing data on bioentities and their associated ontology terms for Plant Biology. The database provides access to ontology-based annotations of genes, phenotypes and germplasms from about 90 plant species. A number of internal and external ontologies are used to annotate the biological data available from this resource.

AgroPortal
The AgroPortal project reuses the biomedical domain’s semantic tools and insights to serve agronomy, but also food, plant, agriculture and biodiversity sciences. We offer a portal that features ontology hosting, search, versioning, visualization, comment, and recommendation; enables semantic annotation; stores and exploits ontology alignments; and enables interoperation with the semantic web. The AgroPortal specifically satisfies requirements of the agronomy community in terms of ontology formats (e.g., SKOS vocabularies and trait dictionaries) and supported features (offering detailed metadata and advanced annotation capabilities). The AgroPortal content is automatically retrieved by FAIRsharing.org (https://fairsharing.org/) and the Agrisemantics Map of Data Standards (http://vest.agrisemantics.org/).

Cassavabase
Cassavabase is a database containing breeding data for Cassava (Manihot esculenta). Cassava is a major staple crop and the main source of calories for 500 million people across the globe. No other continent depends on cassava to feed as many people as does Africa. Cassava is indispensable to food security in Africa. It is a widely preferred and consumed staple, as well as a hardy crop that can be stored in the ground as a fall-back source of food that can save lives in times of famine. Despite the importance of cassava for food security on the African continent, it has received relatively little research and development attention compared to other staples such as wheat, rice and maize. The key to unlocking the full potential of cassava lies largely in bringing cassava breeding into the 21st century.

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

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Maintains

Cassavabase (Consortium)
International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria (Research institute)
CGIAR Research Program on Roots, Tubers and Bananas (Consortium)

IBP Cassava Trait Ontology

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