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AphanoDB: a genomic resource for Aphanomyces pathogens.

Mohammed-Amine Madoui¹, Elodie Gaulin, Catherine Mathé

¹UMR 5546 CNRS Université Paul Sabatier Toulouse III Pôle de Biotechnologie Végétale 24, Chemin de Borde-Rouge BP 42617, Auzeville 31326 Castanet-Tolosan, France. madoui@scsv.ups-tlse.fr

|December 22, 2007

Summary

Aphanomyces pathogens cause significant damage, but their pathogenicity mechanisms are poorly understood. This study introduces AphanoDB, a public database for Aphanomyces genomic data, starting with expressed sequence tags from A. euteiches.

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Area of Science:

* Mycology and Plant Pathology
* Bioinformatics and Genomics

Background:

* The Oomycete genus *Aphanomyces* includes significant plant and animal pathogens.
* Limited knowledge exists regarding the molecular basis of *Aphanomyces* pathogenicity.

Purpose of the Study:

* To develop AphanoDB, a public database for *Aphanomyces* genomic data.
* To provide a resource for studying *Aphanomyces* pathogenicity mechanisms.

Main Methods:

* Creation of two cDNA libraries from *A. euteiches* mycelium grown under different conditions.
* Generation and assembly of 18,684 expressed sequence tags (ESTs) into 7,977 unigenes.
* Annotation of unigenes against public databases, including protein similarity, domain, and Gene Ontology (GO) classification.

Main Results:

* AphanoDB integrates genomic data for *Aphanomyces*, focusing initially on *A. euteiches*.
* The database contains 7,977 unigenes with comprehensive annotation data.
* Comparative analysis of EST frequencies between growth conditions was incorporated.

Conclusions:

* AphanoDB offers a user-friendly web interface for accessing *Aphanomyces* genomic information.
* Interactive sequence report pages provide detailed annotation, accessible via text, BLAST, GO, and expression profile searches.
* AphanoDB serves as a valuable resource for researchers investigating *Aphanomyces* species.