Hamon Perla auteur aut IRD Duroy Pierre-Olivier auteur aut IRD Dubreuil Tranchant Christine auteur aut IRD Mafra D'Almeida Costa Paulo auteur aut IRD Duret Caroline auteur aut IRD Razafinarivo Norosoa auteur aut IRD Couturon Emmanuel auteur aut IRD Hamon Serge auteur aut IRD Kochko Alexandre de auteur aut IRD Poncet Valérie auteur aut IRD Guyot Romain auteur aut IRD text journalArticle eng text/pdf born digital access In the study, we developed new markers for phylogenetic relationships and intraspecies differentiation in Coffea. Nana and Divo, two novel Ty1-copia LTR-retrotransposon families, were isolated through C. canephora BAC clone sequencing. Nana- and Divo-based markers were used to test their: (1) ability to resolve recent phylogenetic relationships; (2) efficiency in detecting intra-species differentiation. Sequence-specific amplification polymorphism (SSAP), retrotransposon-microsatellite amplified polymorphism (REMAP) and retrotransposon-based insertion polymorphism (RBIP) approaches were applied to 182 accessions (31 Coffea species and one Psilanthus accession). Nana- and Divo-based markers revealed contrasted transpositional histories. At the BAC clone locus, RBIP results on C. canephora demonstrated that Nana insertion took place prior to C. canephora differentiation, while Divo insertion occurred after differentiation. Combined SSAP and REMAP data showed that Nana could resolve Coffea lineages, while Divo was efficient at a lower taxonomic level. The combined results indicated that the retrotransposon-based markers were useful in highlighting Coffea genetic diversity and the chronological pattern of speciation/differentiation events. Ongoing complete sequencing of the C. canephora genome will soon enable exhaustive identification of LTR-RTN families, as well as more precise in-depth analyses on contributions to genome size variation and Coffea evolution. specialized LTR-retrotransposons Coffea Genetic diversity Evolution 076 020 285 6 447-460 2011 1617-4615 https://www.documentation.ird.fr/hor/fdi:010053575 10.1007/s00438-011-0617-0 1617-4615 [F B010053575] https://www.documentation.ird.fr/hor/fdi:010053575 https://www.documentation.ird.fr/intranet/publi/2011/06/010053575.pdf Accès réservé (Intranet de l'IRD) IRD - Base Horizon / Pleins textes 2011-07-01 2017-08-23 fdi:010053575 fre