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

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/

Genome ancestry mosaics reveal multiple and cryptic contributors to cultivated banana

“…The ‘Pisang Madu’ accession is one of several apparently similar accessions that were surveyed in Sarawak State on the island of Borneo (Malaysia) and in Perak State in continental Malaysia in 1960/1961 (Rosales et al , ). Based on available passport data (https://www.crop-diversity.org/mgis/accession/01GLP005109, (Ruas et al , ), (Rosales et al , )), the accession studied here corresponded to one of the Sarawak State accessions. It was described as a ‘microcarpa derivative’ (Rosales et al , ), but the status of this subspecies is still unclear (see below).…”

Genomics-Assisted Breeding in the CGIAR Research Program on Roots, Tubers and Bananas (RTB)

“…An additional advantage conferred by the adoption of high throughput genotyping and phenotyping technologies, is the characterization of genetic resources in genebanks, leading the way to make use of this huge genetic potential much more effectively [15,71]. By applying genomic predictive approaches, the accessions can be rapidly screened for new traits, and genetic diversity analysis can aid in developing diverse gene pools for target traits and selection of diverse parental materials to maximize heterosis in crossing designs.…”

The 5´ → 3´ Exoribonuclease 2 as a Potential Target for Developing Fungicides to Control the Panama Disease

“…Resistance genes have been identified in wild Musa plants, and although their expression in transgenic Cavendish banana plants conferred resistance to FocTR4, implementation is technically limited because there are roughly 5000 accessions of Musa spp. [6]. The molecular docking approach is a tool used for investigating proteinligand interactions that has been helpful for discovering and screening for new drugs and antibiotics [7,8].…”