ELIXIR-EXCELERATE D7.3: Implementation of BRAPI (Plant Breeding API) at all participating nodes

Célia Miguel, Cyril Pommier, Richard Finkers, Frederik Coppens, Dan Bolser, Manuel Ruiz, Anne-Françoise Adam-Blondon, Kristina Gruden, Živa Ramšak, Evangelia Papoutsoglou, Daniel Faria, Bruno Costa (+1 others)
2019 Zenodo  
High-throughput "omics" technologies are widely used and increasingly important to support plant biology research and breeding of diverse plant species for production of food, feed, fibre and other biomaterials, and bio-energy. Significant advances in plant science can be obtained from the integration of available genomic and genotyping data with diverse types of phenotyping data, including field or greenhouse experimental data, molecular, -omics and image data. Although most -omics data, and
more » ... pecially phenomic data, are being generated in increasing scale, either from public or private research institutes, the dispersion of datasets and metadata among multiple repositories and their often poor description and annotation, make their use and exploitation still challenging or even unapproachable. To help unlock the full potential of a multi-omics approach to plant science, the overarching goal of this work package is to make plant data reusable and interoperable in accordance with the FAIR principles (i.e. Findable, Accessible, Interoperable and Re-usable). Hence, several standards have been built these past years for the annotation of data sets, and the ELIXIR plant community is co-authoring most of them. Their use has been demonstrated by exemplary application to data from diverse species published in public repositories (Deliverable 7.1). They are also the foundation of the ELIXIR Plant Data Search Service, FAIDARE, that gives access to distributed and standardized datasets. This service uses the Breeding API (BrAPI1), an API for accessing data relevant for plant breeding developed by the international plant community (Deliverable 7.2). It is based on a federation of plant phenotyping/genotyping data repositories, accessible through a single data discovery webportal2, that connects not only ELIXIR data repositories, but also any other Breeding API compatible database. This work represents a major step towards plant FAIR data and a significant tool for the international plant community focused on plant breeding, [...]
doi:10.5281/zenodo.3354265 fatcat:4zajlvihszaq3kulzxle7dekaq