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eggNOG 6.0: enabling comparative genomics across 12 535 organisms
Ana Hernández-Plaza1, Damian Szklarczyk2,3, Jorge Botas1
1Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA-CSIC), Campus de Montegancedo-UPM, 28223 Pozuelo de Alarcón, Madrid, Spain.
Nucleic Acids Research
|November 18, 2022
Summary
The updated eggNOG 6.0 database offers extensive orthologous groups and functional annotations for over 12,000 species. This resource aids evolutionary and functional genomics research.
Area of Science:
- Bioinformatics
- Evolutionary Genomics
- Functional Genomics
Background:
- The eggNOG database provides orthology data and functional information across all domains of life.
- Previous versions have served as a key resource for comparative genomics.
Purpose of the Study:
- To present a major update of the eggNOG database and website (version 6.0).
- To expand the number of covered organisms and enhance functional annotations.
- To introduce new functionalities for data mining and analysis.
Main Methods:
- Computation of over 17 million orthologous groups (OGs) across 1601 taxonomic levels.
- Annotation of OGs using data from KEGG, Gene Ontology, UniProtKB, and other functional databases.
- Generation of phylogenetic trees for all OGs.
Main Results:
- eggNOG 6.0 covers 12,535 reference species, including 10,756 bacterial, 457 archaeal, and 1322 eukaryotic organisms.
- Comprehensive functional annotations are integrated from multiple sources.
- New website functionalities allow for easier mining of orthology and functional data, including phylogenetic profile generation.
Conclusions:
- eggNOG 6.0 represents a significant expansion and improvement of the database.
- The updated resource enhances the investigation of evolutionary history and functional distribution of genes.
- New tools facilitate deeper exploration of orthology and functional data for researchers.
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