Development of a visual search application to explore plant stress-responsive genes based on large-scale data

March 25, 2025

The app, with its visual user interface, contributes to the advancement of plant science

Through a collaborative study between Kyoto Prefectural University and the RIKEN CSRS, a web application called AtSRGA (Arabidopsis thaliana Stress Responsive Gene Atlas) has been developed, allowing users to visually search for stress-responsive genes in the model plant Arabidopsis thaliana (Arabidopsis).

AtSRGA was created by collecting and integrating over 2,000 gene expression samples from public transcriptome databases, covering 11 types of stress conditions in Arabidopsis, such as drought, cold, heat, salinity, oxidative stress, and wounding. The application facilitates not only the identification of known stress-responsive genes but also the discovery and evaluation of previously uncharacterized genes potentially involved in stress responses.

Because AtSRGA enables users to visually explore stress-responsive genes without requiring specialized bioinformatics knowledge, it is expected to serve as an accessible and powerful information platform that contributes to the advancement of plant science and the development of sustainable agriculture.

 

Original article

Plant Physiology doi: 10.1093/plphys/kiaf105

Y. Fukuda, K. Kawaguchi, A. Fukushima,

"AtSRGA: A shiny application for retrieving and visualizing stress-responsive genes in Arabidopsis thaliana".

Contact

Atsushi Fukushima
Visiting Scientist
Metabolome Informatics Research Team