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Journal of Heredity Advance Access originally published online on December 15, 2004
Journal of Heredity 2005 96(1):59-65; doi:10.1093/jhered/esi013
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© 2005 The American Genetic Association

Brief Communication

Base Composition of Coffea AFLP Sequences and Their Conservation Within the Genus

V. Poncet, P. Hamon, M.-B. Sauvage de Saint Marc, T. Bernard, S. Hamon, and M. Noirot

From UMR 1097 Diversité et Génome des Plantes Cultivées, Centre IRD, 911 avenue Agropolis, BP 64501, 34394 Montpellier Cedex 5, France.

Address correspondence to V. Poncet at the address above, or e-mail: poncet{at}mpl.ird.fr.

Amplified fragment length polymorphism (AFLP) is often used for genetic mapping and diversity analysis, but very little information is currently available on their sequence characteristics. Species-specific sequences were analyzed from a single Coffea genome (Coffea pseudozanguebariae) associated with clustered or nonclustered AFLP loci of known genetic position. Compared with the expressed sequence tag (EST) sequence composition, their AT content exhibited a bimodal distribution with AT-poor sequences corresponding mainly to putative coding sequences. AT-rich sequences, apart from the EST distribution, were usually clustered on the genetic map and might correspond to noncoding sequences. Conversion of these AFLP markers into sequence-characterized amplified region (SCAR) anchor markers allowed us to assess sequence conservation within Coffea species with respect to species relatedness.


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