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24, chemin de Borde Rouge –Auzeville – CS52627
31326 Castanet Tolosan CEDEX - France

Dernière mise à jour : Mai 2018

Menu Logo Principal AgroParisTech Université Paris-Saclay


GABI : Génétique Animale et Biologie IntégrativeUnité Mixte de Recherche INRA - AgroParisTech

Development of the WIDDE database dedicated to the exploration of genetic diversity structure: a first application in the bovine species.

© Inra
The generic WIDDE database, accessible via internet (web-interfaced next generation Database for genetic Diversity Exploration) is dedicated to the storage and management of high-throughput genotyping data and the exploration of the structure of intra-specific genetic diversity. The WIDDE functionalities are illustrated on SNP data now available for the bovine species.

Context and stakes

New high-throughput sequencing and genotyping technologies have created a revolution in daily genotyping, facilitating the characterization of genetic diversity of many species. An increasing quantity of genomic information is thus generated for many local breeds, in particular for farm species.  Nevertheless, storage, management and the exploration of the data has revealed even more complex than anticipated.


We have develped the WIDDE database aimed at exploring the structure of intraspecific genetic diversity. This database is associated with user-friendly tools that allow selecting, filtering, and exporting data (under different traditional genetic formats) and to perform principal component analysis (PCA) and to assign new individuals to the populations stored in the database via the calculation of genetic distances, a PCA and a supervised classification.

We illustrate the features of this database through its first version dedicated to the bovine species, containing over 750,000 SNP, 129 different bovine populations including 89 public populations representative of world bovine genetic diversity and seven other Bovidae species.


This first version of WIDDE represents the first database dedicated to the storage of SNP and the exploration of bovine biodiversity. WIDDE is, however, a generic tool that may be used on many species and types of markers. The next version should include other species and will offer new formats for the exportation of data and new analysis tools.


Sempéré G, Moazami-Goudarzi K, Eggen A, Laloë D, Gautier M, Flori L. WIDDE: a Web-Interfaced next generation database for genetic diversity exploration, with a first application in cattle. BMC Genomics. 2015 Nov 14;16(1):940.