Planteome 1.0 Release, September 2016

The Planteome project (www.planteome.org), an international collaborative effort, is pleased to announce their first full release of the database and ontology browser. This is a centralized portal where common reference ontologies (structured, controlled vocabularies) for plants are used to annotate gene expression, traits, phenotypes, genomes, and genetic diversity, across a wide range of plant taxa. Reference ontologies for plants, developed by the Planteome, include the Plant Ontology (PO), Plant Trait Ontology (TO), and the Plant Environment Ontology (EO), and the Planteome portal also provides reference ontologies developed by collaborating groups: the Gene Ontology (GO), the Phenotypic Qualities Ontology (PATO), the Chemical Entities of Biological Interest (ChEBI), and the NCBI taxonomy. In addition, Release 1.0 includes for the first time, four species-specific trait ontologies for wheat, rice, lentil and cassava, developed by the Crop Ontology (http://www.cropontology.org/), a project of the CGIAR. These species-specific ontologies have been mapped to the relevant reference Trait Ontology terms for data integration.  

In the current Release 1.0, the Planteome database includes 67,272 ontology terms with links to approximately 1.9 million (M) bioentities (data objects) including proteins, genes, RNA transcripts and gene models, germplasm, and QTLs. Bioentities were often annotated to more than one ontology term, resulting in approximately 17.2M annotations. Annotated data was sourced from 24 unique database resources and covers 86 different plant taxa. Functional GO annotations are available for 62 species, which, for many of these species, the Planteome is a unique annotation resource.

You can view or download a brochure about Planteome Project here: http://planteome.org/documents

The Planteome browser can also be accessed by visiting our mirror site at CyVerse: http://draco.cyverse.org/amigo

The Planteome Project (http://planteome.org/) is funded by the National Science Foundation (NSF Award #1340112), and is accessible for use from the Planteome project website.