MGIS: Managing banana (Musa spp.) genetic resources information and high-throughput genotyping data
Issue Date
6-2017
Abstract
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.
Source or Periodical Title
Database
ISSN
1758-0463
Volume
2017
Page
1-12
Document Type
Article
Physical Description
maps, illustrations, tables,
Language
English
Recommended Citation
Ruas, M. Guignon, V. Sempéré, G., Sardos, J., Hueber, Y., Duvergey, H., Andrieu, A., Chase, R., Jenny, C., Hazekamp, T., Irish, B., Jelali, K., Adeka, J., Ayala, T., Chao, C.P., Daniells, J., Dowiya, B., Effa, B., Gueco, L., Rouard, M. (2017). MGIS: managing banana (Musa spp.) genetic resources information and high-throughput genotyping data. Database, 2017, 1-12. doi:10.1093/database/bax046.
Identifier
doi: 10.1093/database/bax046
Digital Copy
yes