About Plant Ontology (PO)The Plant Ontology is a controlled vocabulary (ontology) that describes plant anatomy and morphology and stages of development for all plants. The goal of the PO is to establish a semantic framework for meaningful cross-species queries across gene expression and phenotype data sets from plant genomics and genetics experiments.
Beginning in January 2011 (Version #14), the Plant Ontology was merged into a single ontology file (from two separate files) encompassing the following two aspects:
Plant Anatomical Entity
Botanical terms describing plant structures and other antomical entities and the relationships between them. Examples of plant anatomical entities are plant structures (PO:0009011) such as plant organ (PO:0009008), plant cell (PO:0009002), whole plant (PO:0000003), portion of plant tissue (PO:0009007), and vascular system (PO:0000034), etc.
Plant Structure Development Stage
A controlled vocabulary of terms describing the stages of plant structure development. Example of plant structure development stages are: plant tissue development stage (PO:0025423), leaf development stage (PO:0001050), whole plant development stage (PO:0007033), seed development stage (PO:0001170), and sporophyte development stage (PO:0028002), etc.
How can the PO be used?
Integrating the PO into your annotations and bioinformatics portals will facilitate cross-database queries and the comparative analysis of gene expression and phenotypes.
You can ask questions such as:
What differential set of genes regulates the development of a leaf or leaf-like structure found in angiosperms, bryophytes and gymnosperms? What phenotypes and expressed genes are common to flower development in both dicots and monocots?
To answer these questions (and many others), PO terms are being used by databases such as TAIR, NASC, Gramene, SGN and MaizeGDB to describe expression patterns of genes and the phenotypes of mutants and natural variants.
The latest release: Version #20, is available on our Ontology Browser.
New Release: August 2013
For a detailed summary of the latest changes, please visit: August 2013 Release Page
Image Annotation Software Available
Annotation of Image Segments with Ontologies, v0.3 (beta)
AISO is an interactive image segmentation tool designed to allow curators to segment and annotate image data with ontology terms. Download it from the Jaiswal Lab web site Available on Linux and Mac OS X (64-bit) and Windows (32-bit). The latest Plant Ontology paper is available online from Plant and Cell Physiology.
Plant Ontology Publications:
This paper focuses the plant anatomical entity branch of the PO, describing the organizing principles, resources available to users, and examples of comparative analyses.
A full list of publications can be found on our Publications Page
Plant and Animal Genome 2014  January 11th - 15th, 2014, San Diego, CA
The PO will host an Ontology Workshop entitled "Applications of Ontologies for Plant and Animal Genomics." More details to be announced soon. Link to 2013 Workshop
Participants and Contributors
The Oregon State University, New York Botanical Garden and the Cornell University are Consortium's core funded members. Collaborators and contributors include the Open Biological and Biomedical Ontologies project (OBO Foundry), the Gene Ontology Consortium (GO), the Generation Challenge Programme, SoyBase, the Solanaceae Genomics Network, the Arabidopsis Information Resource TAIR, MaizeGDB, PLEXdb, the International Rice Information System (IRIS), Oryzabase and the Moss Computational Biology Resource (COSMOSS) / (University of Freiburg).
We kindly acknowledge the Gene Ontology Consortium, all the projects using PO in their applications and all the reviewers for their valuable feedback and intellectual inputs. The core activities on ontology development, mapping to common use vocabularies, outreach and training are funded by the National Science Foundation (Award #0822201). It was previously supported by the NSF Award #0321685 to the Gramene database.
Last modified: Thu Aug 15 14:44:21 2013
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Plant Ontology by Plantontology.org is licensed under a Creative Commons Attribution-NoDerivs 3.0 United States License.
Based on a work at www.plantontology.org.