Programmatic Access to FAIRified Digital Plant Genetic Resources

J Integr Bioinform. 2020 Jan 8;16(4):20190060. doi: 10.1515/jib-2019-0060.


Genetic variance within the genotype of population and its mapping to phenotype variance in a systematic and high throughput manner is of interest for biodiversity and breeding research. Beside the established and efficient high throughput genotype technologies, phenotype capabilities got increased focus in the last decade. This results in an increasing amount of phenotype data from well scaling, automated sensor platform. Thus, data stewardship is a central component to make experimental data from multiple domains interoperable and re-usable. To ensure a standard and comprehensive sharing of scientific and experimental data among domain experts, FAIR data principles are utilized for machine read-ability and scale-ability. In this context, BrAPI consortium, provides a comprehensive and commonly agreed FAIRed guidelines to offer a BrAPI layered scientific data in a RESTful manner. This paper presents the concepts, best practices and implementations to meet these challenges. As one of the worlds leading plant research institutes it is of vital interest for the IPK-Gatersleben to transform legacy data infrastructures into a bio-digital resource center for plant genetics resources (PGR). This paper also demonstrates the benefits of integrated database back-ends, established data stewardship processes, and FAIR data exposition in a machine-readable, highly scalable programmatic interfaces.

Keywords: FAIR data; genotyping; lab information management; phenotyping; plant digital resources.

MeSH terms

  • Computational Biology
  • Databases, Genetic*
  • Information Management
  • Internet
  • Phenotype
  • Plant Breeding
  • Plants / genetics*
  • Programming Languages*
  • Seeds / genetics
  • User-Computer Interface