FONDUE - FAIR-ification of Plant Genotyping Data and its linking to Phenotyping using ELIXIR Platforms

Recent progress in sequencing technologies has produced several large scale genotyping data sets for crops. The insights afforded by this data have been published in high profile scientific articles, but the underlying raw genotype data and the associated sample and population metadata have not been routinely submitted to appropriate archives.

The aim of this implementation study, led by the ELIXIR Plant Community and in coordination with the ELIXIR Interoperability Platform and Data Platform, is to provide this wealth of data according to FAIR principles. It will ensure an interoperable link with the phenotypic data that is stored in distributed institutional repositories which is crucial for excelerated crop breeding.

We propose to create a sustainable toolbox to submit data to the ELIXIR Deposition Database “European Variation Archive” (EVA) and enrich the data with interoperable metadata regarding plant data standards like “Multi-Crop Passport Descriptor” (MCPD) and “Minimum Information About a Plant Phenotyping Experiment” (MIAPPE).


1 June 2019 to 30 November 2021

Nodes involved: 


People involved: 

Cyril Pommier
Pierre Larmande
Uwe Scholz
Heidrun Gundlach
Sebastian Beier
Frederik Coppens
Bert Droesbeke
Richard Finkers
Martijn van Kaauwen
Matthijs Brouwer
Melanie Courtot
Bruno Contreras-Moreira
Sarah Dyer
Timothee Cezard
Thomas Keane
Sam Holt
Célia Miguel
Daniel Faria
Alessandro Cestaro
Jeremy Destin
Klaus F.X. Mayer
Anne Fiebig
Isuru Liyanage
Baron Koylass