Hamon Perla, Duroy Pierre-Olivier, Dubreuil Tranchant Christine, Mafra D'Almeida Costa Paulo, Duret Caroline, Razafinarivo Norosoa, Couturon Emmanuel, Hamon Serge, Kochko Alexandre de, Poncet Valérie, Guyot Romain. (2011). Two novel Ty1-copia retrotransposons isolated from coffee trees can effectively reveal evolutionary relationships in the Coffea genus (Rubiaceae). Molecular Genetics and Genomics, 285 (6), p. 447-460. ISSN 1617-4615.
Titre du document
Two novel Ty1-copia retrotransposons isolated from coffee trees can effectively reveal evolutionary relationships in the Coffea genus (Rubiaceae)
Année de publication
2011
Auteurs
Hamon Perla, Duroy Pierre-Olivier, Dubreuil Tranchant Christine, Mafra D'Almeida Costa Paulo, Duret Caroline, Razafinarivo Norosoa, Couturon Emmanuel, Hamon Serge, Kochko Alexandre de, Poncet Valérie, Guyot Romain
Source
Molecular Genetics and Genomics, 2011,
285 (6), p. 447-460 ISSN 1617-4615
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.
Plan de classement
Sciences fondamentales / Techniques d'analyse et de recherche [020]
;
Sciences du monde végétal [076]
Localisation
Fonds IRD [F B010053575]
Identifiant IRD
fdi:010053575
