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Comparative and Functional Genomics
Volume 2012, Article ID 783138, 5 pages
Research Article

Gemi: PCR Primers Prediction from Multiple Alignments

1Facultés de Médecine et de Pharmacie, Aix Marseille Université, URMITE, UM 63, CNRS 7278, INSERM, U1095, 13385 Marseille Cedex 05, France
2Pôle des Maladies Infectieuses et Tropicales Clinique et Biologique, Fédération de Bactériologie-Hygiène-Virologie, IHU Méditerranée Infection, Centre Hospitalier-Universitaire Timone, Assistance Publique-Hôpitaux de Marseille, 13385 Marseille Cedex 05, France

Received 3 August 2012; Accepted 19 October 2012

Academic Editor: Brian Wigdahl

Copyright © 2012 Haitham Sobhy and Philippe Colson. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.


Designing primers and probes for polymerase chain reaction (PCR) is a preliminary and critical step that requires the identification of highly conserved regions in a given set of sequences. This task can be challenging if the targeted sequences display a high level of diversity, as frequently encountered in microbiologic studies. We developed Gemi, an automated, fast, and easy-to-use bioinformatics tool with a user-friendly interface to design primers and probes based on multiple aligned sequences. This tool can be used for the purpose of real-time and conventional PCR and can deal efficiently with large sets of sequences of a large size.