Formulaire pour demande d' homologation cati

Axe 2 : Génomique comparative et caractérisation de la biodiversité

ANATool : The Arabidopsis Natural Accession Tool

https://www.versailles.inra.fr/ijpb/crb/anatool

Matthieu Simon¹, Adeline Simon², Fréderic Martins³, Lucy Botran¹, Sébastien Tisné¹, Fabienne Granier¹, Olivier Loudet¹ and Christine Camilleri¹

¹Institut Jean-Pierre Bourgin, UMR1318 INRA-AgroParisTech, F-78000 Versailles, France

²BIOGER, UR1290 INRA-AgroParisTech, 78850 Thiverval-Grignon, France

³Plateforme Génomique, Génopole Toulouse/Midi-Pyrénées, 31326 Castanet-Tolosan, France

Contact for biology: [e-mail]

Contact for bioinformatics: [e-mail]

Publication : Simon M, Simon A, Martins F, Botran L, Tisné S, Granier F, Loudet O, Camilleri C (2012). DNA fingerprinting and new tools for fine-scale discrimination of Arabidopsis thaliana accessions. Plant J. 2012 Mar;69(6):1094-101.
Summary: The Arabidopsis Natural Accession Tool web interface was developed for the Arabidopsis community to provide access to all fingerprinting data obtained on natural accessions managed at the Arabidopsis thaliana Resource Centre for Genomics at INRA Versailles, France.

The genotyping assay was performed at the Genomics facility at INRA Toulouse, France using a GoldenGate assay which interrogates all 384 SNPs simultaneously and VeraCode technology was used for reading. The final data matrix of 341 informative markers for 591 accessions is available through the ANATool interface

The smallest number of markers that uniquely defines each haplotype was defined. This pattern is called a fingerprint and is composed of a combination of different SNPs for each haplotype.

From the ANATool interface, four types of queries can be submitted to (1) find the fingerprint of a given accession; (2) find genotypes from a selection of accessions and markers; (3) find accessions from a selection of markers and genotypes; and (4) find the minimal marker set required to distinguish among a set of given accessions. Optimized SNP sets are also available to quickly fingerprint natural accessions of Arabidopsis. Thus, ANATool is a simple, readily accessible and fast (only DNA fragments need to be sequenced) tool for confirming the identity of accessions at any laboratory working on Arabidopsis.

The development of ANATool was funded by INRA and by the French national biomedical, biological and agricultural research infrastructures network GIS-IBiSA.