plants, phenotyping, genotyping, genebanks, breeding, harmonised data flow, data trusteeness, digital shadows, semantic data retrieval
Topic 1 - Data technologies and data management
The aim is to establish and maintain continuous data flows using digital shadows from data collection to publication in the field of plant genetic resources. This concerns the systemic integration of federal and public research data infrastructures in the field of physiological and anatomical plant phenotyping with genotypic and management data from crop cultivation with regard to common technical standards and interfaces, e.g. RESTFul services and S3, in addition to a network of AI-ready shared FAIR digital objects, e.g. RO-CRATE.
Another focus of interest is the activation of plant genetic resources from gene banks, the implementation of data trustee structures for to foster convergence of interests in data-driven research with necessary authonomy of collaborators among scientific and private-sectory. Aim ist to implement collaborative data analysis in secure data rooms that enable pre-competitive data sharing.
Finally, the focus of interest in exploratory data retrieval is in the context of creating common access points to data and metadata, semantic data queries, user relevance and interactive visualisation. This requires domain-specific modules and platform-agnostic solutions that can then be implemented in individual web portals and mobile applications for information retrieval.
These will be demonstrated in wheat and barley use cases by building on existing comprehensive high-throughput phenotyping data from EU and national projects at the IPK and assoziated partners from several partnering intiatives, like https://agent.ipk-gatersleben.de; https://fairagro.net/en/; https://elixir-europe.org/communities/plant-sciences
The central concern of the research at the Leibniz-Institut für Pflanzengenetik und Kulturpflanzenforschung (IPK) is to study the genetic diversity of wild and cultivated plants with the aim to make the scientific findings, methods and plant material available for more effective and expanded use of plants in the agricultural sector. The Institute draws its strength from the use of the enormous biological diversity preserved, analyzed and used in its world-famous crop seed Bank, the largest ex situ genebank in EU27. In addition to this unique biological material, the researchers are provided with modern techniques of gene and genome research for analysis of important processes of evolution, development and expression of crops. The IPK works on research fields that contribute to a deeper understanding of the molecular genetic and physiological bases of plant characteristic value and plant performance.
In this role, IPK is a node and takes charge of national and international research data management (RDM) activities. Here, IPK contributes a wide range of technical services as well as training and further data stewardship activities. Such technical services are data deposition databases and a wide range of web portals as well as DOI minting services as provided as member of the DataCite consortium. Training courses are offered in the national de.NBI, NFDI programs as well as in the frame of the EU ELIXIR network. Furthermore, IPK contributes to common domain standards and RDM practices, such as MIAPPE, MCPD, or BrAPI. Highlight technical services are IPK's high-throughput phenotyping and genotyping facilities, such as Phenosphere for climate simulation or sequencing lab. Next, IPK is mandated to manage the European Search Catalogue for Plant Genetic Resources (EURISCO) and further contributes GBIS/I, the information system of the IPK ex situ collection for crop and wild relatives, and hosts the e!DAL-PGP, a plant genomics and phenomics research data archive. Further details are available at: https://www.ipk-gatersleben.de/en/