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Updated: Jun 16, 2026

An Integrated Approach for Microprotein Identification and Sequence Analysis
Published on: July 12, 2022
Collaborative annotation of genes and proteins between UniProtKB/Swiss-Prot and dictyBase
1dictyBase, Northwestern University Biomedical Informatics Center and Center for Genetic Medicine, Chicago, IL 60611, USA, Swiss-Prot group, Swiss Institute of Bioinformatics, CMU, 1 Rue Michel Servet, 1211 Geneva 4, Switzerland, The EMBL Outstation, The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK, QB3 Institute and Department of Bioengineering, University of California, Berkeley, CA, USA, Department of Cellular Physiology and Metabolism, University of Geneva, CMU, 1 Rue Michel Servet, 1211 Geneva 4, Switzerland, Protein Information Resource, Georgetown University Medical Center, 3300 Whitehaven St NW, Suite 1200, Washington DC 20007, USA and Department of Structural Biology and Bioinformatics, University of Geneva, CMU, 1 Rue Michel Servet, 1211 Geneva 4, Switzerland.
A collaboration between UniProtKB/Swiss-Prot and dictyBase accelerated the annotation of over 1000 Dictyostelium discoideum proteins. This partnership enhances protein data sharing and database accuracy.
Area of Science:
- Biochemistry
- Bioinformatics
- Molecular Biology
Background:
- UniProtKB/Swiss-Prot is a high-quality, manually curated protein sequence and functional information database.
- dictyBase serves as the Model Organism Database for Dictyostelium discoideum, a widely studied eukaryotic microorganism.
- Effective data sharing between protein databases and model organism databases is crucial for advancing biological research.
Purpose of the Study:
- To enhance data sharing between UniProtKB/Swiss-Prot and dictyBase.
- To significantly increase the number of Dictyostelium discoideum proteins annotated in UniProtKB/Swiss-Prot.
- To demonstrate the benefits of collaboration between major biological databases.
Main Methods:
- A collaborative 'Dicty annotation marathon' was organized, involving 30 annotators.
- The marathon focused on annotating Dictyostelium discoideum proteins for inclusion in UniProtKB/Swiss-Prot.
- Simultaneously, updates were made to dictyBase, including gene symbols, protein names, and gene models.
Main Results:
- Over 1000 Dictyostelium discoideum proteins were annotated in UniProtKB/Swiss-Prot as a result of the marathon.
- Significant updates were made to dictyBase records, improving data consistency.
- The collaboration successfully accelerated the protein annotation process.
Conclusions:
- Close cooperation between UniProtKB/Swiss-Prot and model organism databases like dictyBase is highly effective.
- Collaborative annotation efforts can substantially speed up the representation of organism-specific proteins in curated databases.
- This model of data sharing improves the quality and accessibility of biological information.
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