Research Article

Plant Ontology (PO): a controlled vocabulary of plant structures and growth stages

  1. Pankaj Jaiswal1,†,‡,*,
  2. Shulamit Avraham2,
  3. Katica Ilic3,†,
  4. Elizabeth A Kellogg4,†,
  5. Susan McCouch1,
  6. Anuradha Pujar1,†,
  7. Leonore Reiser3,
  8. Seung Y Rhee3,
  9. Martin M. Sachs5,6,
  10. Mary Schaeffer6,7,
  11. Lincoln Stein2,
  12. Peter Stevens4,8,†,
  13. Leszek Vincent7,†,
  14. Doreen Ware2,6,
  15. Felipe Zapata4,8,†

Article first published online: 14 FEB 2006

DOI: 10.1002/cfg.496

Issue

Comparative and Functional Genomics

Comparative and Functional Genomics

Volume 6, Issue 7-8, pages 388–397, October - December 2005

Additional Information

How to Cite

Jaiswal, P., Avraham, S., Ilic, K., Kellogg, E. A., McCouch, S., Pujar, A., Reiser, L., Rhee, S. Y., Sachs, M. M., Schaeffer, M., Stein, L., Stevens, P., Vincent, L., Ware, D. and Zapata, F. (2005), Plant Ontology (PO): a controlled vocabulary of plant structures and growth stages. Comp Funct Genom, 6: 388–397. doi: 10.1002/cfg.496

Author Information

  1. 1

    Department of Plant Breeding, 240 Emerson Hall, Cornell University, Ithaca, NY 14853, USA

  2. 2

    Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, USA

  3. 3

    Department of Plant Biology, Carnegie Institution of Washington, 260 Panama Street, Stanford, CA 94305, USA

  4. 4

    Department of Biology, University of Missouri at St. Louis, St. Louis MO 63121, USA

  5. 5

    Maize Genetics Cooperation, Stock Center, Department of Crop Sciences, University of Illinois, Urbana, IL 61801, USA

  6. 6

    Agricultural Research Service, United States Department of Agriculture, Soil and Nutrition Laboratory Research Unit, Cornell University, Ithaca, NY 14853, USA

  7. 7

    Curtis Hall, University of Missouri at Columbia, Columbia, MO 65211, USA

  8. 8

    Missouri Botanical Garden, 4344-Shaw Boulevard, St. Louis, MO 63110, USA

  1. †

    These authors contributed equally on the ontology development

  2. ‡

    Authors are listed in alphabetical order except for the first

*Department of Plant Breeding, 240 Emerson Hall, Cornell University, Ithaca, NY, 14853, USA.

Publication History

  1. Issue published online: 14 FEB 2006
  2. Article first published online: 14 FEB 2006
  3. Manuscript Accepted: 7 NOV 2005
  4. Manuscript Revised: 21 OCT 2005
  5. Manuscript Received: 19 SEP 2005

SEARCH

SEARCH BY CITATION

ARTICLE TOOLS

View Full Article (HTML) Get PDF (374K)

Keywords:

  • plant growth stage;
  • controlled vocabulary;
  • plant ontology;
  • plant development;
  • plant anatomy;
  • plant morphology;
  • gene expression;
  • phenotype

Abstract

The Plant Ontology Consortium (POC) (www.plantontology.org) is a collaborative effort among several plant databases and experts in plant systematics, botany and genomics. A primary goal of the POC is to develop simple yet robust and extensible controlled vocabularies that accurately reflect the biology of plant structures and developmental stages. These provide a network of vocabularies linked by relationships (ontology) to facilitate queries that cut across datasets within a database or between multiple databases. The current version of the ontology integrates diverse vocabularies used to describe Arabidopsis, maize and rice (Oryza sp.) anatomy, morphology and growth stages. Using the ontology browser, over 3500 gene annotations from three species-specific databases, The Arabidopsis Information Resource (TAIR) for Arabidopsis, Gramene for rice and MaizeGDB for maize, can now be queried and retrieved. Copyright © 2006 John Wiley & Sons, Ltd.

View Full Article (HTML) Get PDF (374K)