Partial sequencing reveals the transposable element composition of Coffea genomes and provides evidence for distinct evolutionary stories

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Guyot, Romain | Darré, Thibaud | Dupeyron, Mathilde | de Kochko, Alexandre | Hamon, Serge | Couturon, Emmanuel | Crouzillat, Dominique | Rigoreau, Michel | Rakotomalala, Jean-Jacques | Raharimalala, Nathalie | Akaffou, Sélastique Doffou | Hamon, Perla

Edité par CCSD ; Springer Verlag -

International audience. The Coffea genus, 124 described species, has a natural distribution spreading from inter-tropical Africa, to Western Indian Ocean Islands, India, Asia and up to Australasia. Two cultivated species, C. arabica and C. canephora, are intensively studied while, the breeding potential and the genome composition of all the wild species remained poorly uncharacterized. Here, we report the characterization and comparison of the highly repeated transposable elements content of 11 Coffea species representatives of the natural biogeographic distribution. A total of 994 Mb from 454 reads were produced with a genome coverage ranging between 3.2 and 15.7 %. The analyses showed that highly repeated transposable elements, mainly LTR retrotransposons (LTR-RT), represent between 32 and 53 % of Coffea genomes depending on their biogeographic location and genome size. Species from West and Central Africa (Eucoffea) contained the highest LTR-RT content but with no strong variation relative to their genome size.

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