OrthoDB: the hierarchical catalog of eukaryotic orthologs in 2011.

Détails

Ressource 1Télécharger: gkq930.pdf (3890.56 [Ko])
Etat: Serval
Version: Final published version
ID Serval
serval:BIB_8A7FE1FBE3CE
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Titre
OrthoDB: the hierarchical catalog of eukaryotic orthologs in 2011.
Périodique
Nucleic Acids Research
Auteur(s)
Waterhouse R.M., Zdobnov E.M., Tegenfeldt F., Li J., Kriventseva E.V.
ISSN
1362-4962 (Electronic)
ISSN-L
0305-1048
Statut éditorial
Publié
Date de publication
2011
Peer-reviewed
Oui
Volume
39
Numéro
Database issue
Pages
D283-8
Langue
anglais
Résumé
The concept of homology drives speculation on a gene's function in any given species when its biological roles in other species are characterized. With reference to a specific species radiation homologous relations define orthologs, i.e. descendants from a single gene of the ancestor. The large-scale delineation of gene genealogies is a challenging task, and the numerous approaches to the problem reflect the importance of the concept of orthology as a cornerstone for comparative studies. Here, we present the updated OrthoDB catalog of eukaryotic orthologs delineated at each radiation of the species phylogeny in an explicitly hierarchical manner of over 100 species of vertebrates, arthropods and fungi (including the metazoa level). New database features include functional annotations, and quantification of evolutionary divergence and relations among orthologous groups. The interface features extended phyletic profile querying and enhanced text-based searches. The ever-increasing sampling of sequenced eukaryotic genomes brings a clearer account of the majority of gene genealogies that will facilitate informed hypotheses of gene function in newly sequenced genomes. Furthermore, uniform analysis across lineages as different as vertebrates, arthropods and fungi with divergence levels varying from several to hundreds of millions of years will provide essential data for uncovering and quantifying long-term trends of gene evolution. OrthoDB is freely accessible from http://cegg.unige.ch/orthodb.

Mots-clé
Animals, Arthropods/genetics, Databases, Genetic, Drosophila melanogaster/genetics, Evolution, Molecular, Fungi/genetics, Genes, Genomics, Mice, Molecular Sequence Annotation, Phylogeny, Protein Structure, Tertiary, Proteins/genetics, Saccharomyces cerevisiae/genetics, Sequence Homology, Amino Acid, Vertebrates/genetics
Pubmed
Web of science
Création de la notice
20/09/2017 11:10
Dernière modification de la notice
03/03/2018 19:09
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