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

Ruas, Max and Guignon, V. and Sempere, G. and Sardos, J. and Hueber, Y. and Duvergey, H. and Andrieu, A. and Chase, R. and Jenny, C. and Hazekamp, T. and Irish, B. and Jelali, K. and Adeka, J. and Ayala-Silva, T. and Chao, C. P. and Daniells, J. and Dowiya, B. and Effa effa, B. and Gueco, L. and Herradura, L. and Ibobondji, L. and Kempenaers, E. and Kilangi, J. and Muhangi, S. and Ngo Xuan, P. and Paofa, J. and Pavis, C. and Thiemele, D. and Tossou, C. and Sandoval, J. and Sutanto, A. and Vangu Paka, G. and Yi, G. and Van den houwe, I. and Roux, N. and Rouard, M. (2017) MGIS: managing banana (Musa spp.) genetic resources information and high-throughput genotyping data. Database, 2017 (1). bax046-bax046.

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Article Link(s): https://doi.org/10.1093/database/bax046

Publisher URL: https://academic.oup.com/database/article/2017/1/bax046/3866796/MGIS-managing-banana-Musa-spp-genetic-resources

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.Database URL:https://www.crop-diversity.org/mgis/

Item Type:Article
Business groups:Horticulture and Forestry Science
Subjects:Science > Statistics > Statistical data analysis
Science > Botany > Genetics
Technology > Technology (General)
Deposited On:10 Jul 2017 05:26
Last Modified:10 Jul 2017 05:26

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