|Description of PathoPlant (PathoPlant will go offline in May 2023)
Pathogen recognition and signal transduction is essential for plants to induce a
variety of defense responses like hypersensitive reaction, oxidative burst or systemic
acquired resistance. The amount of information on signal transduction mechanisms during
plant-pathogen interactions has accumulated tremendously. To facilitate easy access to
published data and to permit comparative studies of different pathogen response pathways,
a database is indispensable to give a broad overview of the components and interactions
so far known.
PathoPlant has been developed as a relational database for annotation of all identified
signal transduction mechanisms during plant-pathogen interactions. PathoPlant's source of
information are publications from which data is not only extracted but also validated by a
scoring system based on the experimental procedure employed. PathoPlant contains main tables
for plants, pathogens, and molecules. These tables are linked with each other and with
additional tables defining the type of interaction or reaction. All relevant components in
signal transduction like elicitors, proteins, peptides or second messengers are organized in
the table for molecules where they are functionally classified. The reactions and interactions
that molecules are involved in are annotated and validated in the table for reactions and
linked to the respective molecules. Additional information about the subcellular compartment,
organ or developmental stage is given in a location table. Furthermore, the involved plants
and pathogens and the resulting diseases are listed and linked to the corresponding reactions.
Gene expression data from Arabidopsis thaliana microarray
experiments have been incorporated into PathoPlant. This enables to
search for specific genes regulated upon pathogen infection or
All tables are linked to references and to external databases for additional information to
provide a comprehensive tool for the research community.
The partial E/R-Diagram gives an overview about the main tables
and their relations.
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