Marker development for the genetic study of natural variation in Arabidopsis thaliana

Adnane Nemri; Michael M. Neff; Michael Burrell; Jonathan D.G. Jones; David J. Studholme

doi:10.1093/bioinformatics/btm501

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Marker development for the genetic study of natural variation in Arabidopsis thaliana

Article de revue

Avec comité de lecture

Marker development for the genetic study of natural variation in Arabidopsis thaliana

Adnane Nemri, Michael M. Neff, Michael Burrell, Jonathan D.G. Jones et David J. Studholme

Bioinformatics, Vol.23(22), pp.3108-3109

15/11/2007

DOI: https://doi.org/10.1093/bioinformatics/btm501

PMID: 18025007

Résumé

We report AtPRIMER, an application that automates the discovery of new polymorphic markers between ecotypes of Arabidopsis thaliana. On specifying two ecotypes and the genomic region of interest, the script retrieves all corresponding single nucleotide polymorphisms (SNPs) and generates CAPS and/or dCAPS PCR primer sequences. We show that AtPRIMER accurately found specific polymorphic markers for our linkage mapping project. AtPRIMER will therefore be useful for efficient marker development with high density and specificity. Availability: This PERL/CGI program is available for non-commercial users at http://www.AtPRIMER.tsl.ac.uk. The web-based version is available for public use at the same URL. Contact: adnane.nemri@tsl.ac.uk

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Détails

Titre: Marker development for the genetic study of natural variation in Arabidopsis thaliana
Créateurs - sans rôle: Adnane Nemri - Sainsbury Laboratory, Norwich NR4 7UH, UK and Department of Crop and Soil Sciences, Washington State University, Pullman, WA 99164, USA
Michael M. Neff - Sainsbury Laboratory, Norwich NR4 7UH, UK and Department of Crop and Soil Sciences, Washington State University, Pullman, WA 99164, USA
Michael Burrell - Sainsbury Laboratory, Norwich NR4 7UH, UK and Department of Crop and Soil Sciences, Washington State University, Pullman, WA 99164, USA
Jonathan D.G. Jones - Sainsbury Laboratory, Norwich NR4 7UH, UK and Department of Crop and Soil Sciences, Washington State University, Pullman, WA 99164, USA
David J. Studholme - Sainsbury Laboratory, Norwich NR4 7UH, UK and Department of Crop and Soil Sciences, Washington State University, Pullman, WA 99164, USA
Détails de publication: Bioinformatics, Vol.23(22), pp.3108-3109
Éditeur: Oxford University Press
Nombre de pages: 2
Identifiants: 99155781909311
Unité académique: Laboratory of Pathogens and Host Immunity - LPHI
Langue: English
Type de ressource: Journal article