Yu Q.Y. auteur aut IRD Guyot Romain auteur aut IRD Kochko Alexandre de auteur aut IRD Byers A. auteur aut IRD Navajas-Perez R. auteur aut IRD Langston B.J. auteur aut IRD Dubreuil Tranchant Christine auteur aut IRD Paterson A.H. auteur aut IRD Poncet Valérie auteur aut IRD Nagai C. auteur aut IRD Ming R. auteur aut IRD text journalArticle eng text/pdf born digital access Arabica coffee (Coffea arabica L.) is a self-compatible perennial allotetraploid species (2n = 4x = 44), whereas Robusta coffee (C. canephora L.) is a self-incompatible perennial diploid species (2n = 2x = 22). C. arabica ((CCEEa)-C-a-E-a-E-a) is derived from a spontaneous hybridization between two closely related diploid coffee species, C. canephora (CC) and C. eugenioides (EE). To investigate the patterns and degree of DNA sequence divergence between the Arabica and Robusta coffee genomes, we identified orthologous bacterial artificial chromosomes (BACs) from C. arabica and C. canephora, and compared their sequences to trace their evolutionary history. Although a high level of sequence similarity was found between BACs from C. arabica and C. canephora, numerous chromosomal rearrangements were detected, including inversions, deletions and insertions. DNA sequence identity between C. arabica and C. canephora orthologous BACs ranged from 93.4% (between E-a and C-a) to 94.6% (between C-a and C). Analysis of eight orthologous gene pairs resulted in estimated ages of divergence between 0.046 and 0.665 million years, indicating a recent origin of the allotetraploid species C. arabica. Analysis of transposable elements revealed differential insertion events that contributed to the size increase in the C-a sub-genome compared to its diploid relative. In particular, we showed that insertion of a Ty1-copia LTR retrotransposon occurred specifically in C. arabica, probably shortly after allopolyploid formation. The two sub-genomes of C. arabica, C-a and E-a, showed sufficient sequence differences, and a whole-genome shotgun approach could be suitable for sequencing the allotetraploid genome of C. arabica. specialized Coffea evolution comparative genomics allotetraploid genetic divergence transposable elements 076 67 2 305-317 2011 0960-7412 https://www.documentation.ird.fr/hor/fdi:010053685 10.1111/j.1365-313X.2011.04590.x 0960-7412 [F B010053685] https://www.documentation.ird.fr/hor/fdi:010053685 https://www.documentation.ird.fr/intranet/publi/2011/08/010053685.pdf Accès réservé (Intranet de l'IRD) IRD - Base Horizon / Pleins textes 2011-09-01 2017-08-23 fdi:010053685 fre