MGIS: Managing banana (Musa spp.) genetic resources information and high-throughput genotyping data

Ruas Max, Guignon Valentin, Sempere Guilhem, Sardos Julie, Hueber Yann, Duvergey H., Andrieu A., Chase Rachel, Jenny Christophe, Hazekamp T., Irish B., Jelali K., Adeka J., Ayala-Silva T., Chao C.P., Daniells J., Dowiya B., Effa Effa B., Gueco L., Herradura L., Ibobondji L., Kempenaers E., Kilangi J., Muhangi S., Ngo Xuan P., Paofa Janet, Pavis Claude, Thiemele D., Tossou Christophe, Sandoval Jorge A., Sutanto A., Vangu Paka G., Yi G., Van Den Houwe Ines, Roux Nicolas, Rouard Mathieu. 2017. MGIS: Managing banana (Musa spp.) genetic resources information and high-throughput genotyping data. Database, 2017:bax046, 12 p.

https://doi.org/10.1093/database/bax046

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Url - jeu de données - Entrepôt autre : https://www.crop-diversity.org/mgis/

Quartile : Outlier, Sujet : MATHEMATICAL & COMPUTATIONAL BIOLOGY

Résumé : Unraveling the genetic diversity held in genebanks on a large scale is underway, due to advances in Next-generation sequence (NGS) based technologies that produce high-density genetic markers for a large number of samples at low cost. Genebank users should be in a position to identify and select germplasm from the global genepool based on a combination of passport, genotypic and phenotypic data. To facilitate this, a new generation of information systems is being designed to efficiently handle data and link it with other external resources such as genome or breeding databases. The Musa Germplasm Information System (MGIS), the database for global ex situ-held banana genetic resources, has been developed to address those needs in a user-friendly way. In developing MGIS, we selected a generic database schema (Chado), the robust content management system Drupal for the user interface, and Tripal, a set of Drupal modules which links the Chado schema to Drupal. MGIS allows germplasm collection examination, accession browsing, advanced search functions, and germplasm orders. Additionally, we developed unique graphical interfaces to compare accessions and to explore them based on their taxonomic information. Accession-based data has been enriched with publications, genotyping studies and associated genotyping datasets reporting on germplasm use. Finally, an interoperability layer has been implemented to facilitate the link with complementary databases like the Banana Genome Hub and the MusaBase breeding database.

Mots-clés Agrovoc : Musa, banque de données, ressource génétique végétale, système d'information, germoplasme, banque de gènes, génotype, génie génétique, génome

Mots-clés libres : Genebank, Germplasm, Banana, Chado, Drupal

Classification Agris : F30 - Génétique et amélioration des plantes
C30 - Documentation et information

Champ stratégique Cirad : Axe 1 (2014-2018) - Agriculture écologiquement intensive

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