CandidaDB: a multi-genome database for Candida species and related Saccharomycotina

CandidaDB: a multi-genome database for Candida species and related Saccharomycotina.

Tristan T. Rossignol (1) , Pierre Lechat (2) , Christina Cuomo (3) , Qiandong Zeng (3) , Ivan Moszer (4) , Christophe d'Enfert (5)

1 MICALIS - MICrobiologie de l'ALImentation au Service de la Santé
2 Génopole
3 BROAD INSTITUTE - Broad Institute of MIT and Harvard
4 ICM - Institut du Cerveau = Paris Brain Institute
5 MICA - Département Microbiologie et Chaîne Alimentaire

CandidaDB (http://genodb.pasteur.fr/CandidaDB) was established in 2002 to provide the first genomic database for the human fungal pathogen Candida albicans. The availability of an increasing number of fully or partially completed genome sequences of related fungal species has opened the path for comparative genomics and prompted us to migrate CandidaDB into a multi-genome database. The new version of CandidaDB houses the latest versions of the genomes of C. albicans strains SC5314 and WO-1 along with six genome sequences from species closely related to C. albicans that all belong to the CTG clade of Saccharomycotina-Candida tropicalis, Candida (Clavispora) lusitaniae, Candida (Pichia) guillermondii, Lodderomyces elongisporus, Debaryomyces hansenii, Pichia stipitis-and the reference Saccharomyces cerevisiae genome. CandidaDB includes sequences coding for 54 170 proteins with annotations collected from other databases, enriched with illustrations of structural features and functional domains and data of comparative analyses. In order to take advantage of the integration of multiple genomes in a unique database, new tools using pre-calculated or user-defined comparisons have been implemented that allow rapid access to comparative analysis at the genomic scale.

Keywords: GENOME DATABASE; CANDIDA DB; SACCHAROMYCOTINA; COMPARATIVE GENOMIC; ANNOTATION; MULTI-GENOME DATABASE

Keywords: FUNCTIONNAL ASSIGNEMENT

Domains: Microbiology and Parasitology; Databases [cs.DB]

Tristan T. Rossignol, Pierre Lechat, Christina Cuomo, Qiandong Zeng, Ivan Moszer, et al.. CandidaDB: a multi-genome database for Candida species and related Saccharomycotina. Nucleic Acids Research, 2007, 36 (Database), pp.D557-D561. ⟨10.1093/nar/gkm1010⟩. ⟨pasteur-02635093⟩