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Forest tree GnpIS

Forest tree GnpIS

Description

GnpIS is a multispecies integrative information system dedicated to plants and crop parasites. It integrates and links genetic, genomic, phenomic and environmental data into a single environment, allowing researchers to store, query and explore information from different angles.

In 2012, the Ecology and Biodiversity department (ECODIV) of the  French National Institute for Agriculture, Food and Environment (INRAE) decided to use GnpIS as its referential information system to manage forest tree genetic, genomic and phenomic data. The project "Forest tree GnpIS" was born.

The forest tree resources are accessible through the GnpIS web portal . Its main entry point is a google-like search, a tool using keywords for data discovery. The bird’s eye view obtained allows navigation through the data with dedicated tools facilitating more specific queries and data retrieval from the database. Cards were developed to gather all representative information on major elements (accession, trial, marker and such). This information system is regularly improved with new functionalities answering specific needs raised by scientists and released several times a year.

Data are supplied by local sources (files, databases …) produced and managed by research teams working on forest trees. Workflows are implemented to automate data flow: 1) data insertion in GnpIS from local sources, 2) data extraction from GnpIS and insertion into international information systems. The aim is to make visible and to valorize these data.

The main priority is to integrate the data produced within the common garden network of INRAE (over 1,000 trials with genotypes gathered from ~15 species) in the phenotypes and genetic resources modules.

Duration: 01/10/2012

Coordinator: Célia Michotey

Steering Committee:

  • Christian Pichot (URFM)
  • Bruno Fady (URFM)
  • Anne-Françoise Adam-Blondon (URGI)

Ex members of the Steering Committee:

  • Christel Anger (UE GBFOR)
  • Christophe Plomion (UMR BIOGECO)
  • Delphine Steinbach (URGI)

Results    

The forest tree information system is reachable through a web portal .

The projects and networks providing forest tree data are listed on the data sources page .

An overview of the data available in the Forest tree GnpIS is accessible on the data overview page .

Exchange files were created to submit genetic resources and phenotypic experiments for woody plants. They can be found on the dedicated submission pages:

An ontology for woody plant observations was also created: the Woody Plant Ontology. The last version of this ontology is always accessible from:

Update: 14 Aug 2020
Creation date: 21 Aug 2014