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Updated: Apr 22, 2026

Annotation of Plant Gene Function via Combined Genomics, Metabolomics and Informatics
Published on: June 17, 2012
PLAZA 3.0: an access point for plant comparative genomics
Sebastian Proost1, Michiel Van Bel2, Dries Vaneechoutte2
1University of Potsdam, Institute of Biochemistry and Biology, Karl-Liebknecht-Straße 24-25, Haus 20, 14476 Potsdam-Golm, Germany Max-Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany.
PLAZA 3.0 enhances plant comparative genomics by integrating 37 plant species and expanding functional annotation. This user-friendly resource aids exploration of plant genome organization and gene functions for diverse research.
Area of Science:
- Plant biology
- Genomics
- Bioinformatics
Background:
- Comparative sequence analysis reveals complex genome organization and gene functions across kingdoms.
- Plant comparative genomics databases are crucial for understanding plant biology.
Purpose of the Study:
- To present PLAZA 3.0, an updated and expanded web-based resource for plant comparative genomics.
- To provide a user-friendly interface for querying and visualizing plant genome data.
Main Methods:
- Integration of 37 plant genomes, a four-fold increase from the previous version.
- Expansion of functional annotation using Gene Ontology, MapMan, UniProtKB/Swiss-Prot, PlnTFDB, and PlantTFDB.
- Improvement of algorithms for transferring functional annotation across species.
Main Results:
- PLAZA 3.0 offers comprehensive data on genome organization, gene families, protein domains, and phylogenetic trees.
- The database now covers a wider phylogenetic range and includes more crop species.
- Enhanced functional annotation facilitates deeper insights into gene functions.
Conclusions:
- PLAZA 3.0 is a versatile and comprehensive resource for exploring plant genome information.
- The updated database supports research on both model and non-model plant organisms.
- Improved data accessibility and visualization tools aid the study of plant biology.
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