Dereeper Alexis auteur aut IRD Guyot Romain auteur aut IRD Dubreuil Tranchant Christine auteur aut IRD Anthony François auteur aut IRD Argout X. auteur aut IRD de Bellis F. auteur aut IRD Combes Marie-Christine auteur aut IRD Gavory F. auteur aut IRD Kochko Alexandre de auteur aut IRD Kudrna D. auteur aut IRD Leroy T. auteur aut IRD Poulain J. auteur aut IRD Rondeau M. auteur aut IRD Song X. auteur aut IRD Wing R. auteur aut IRD Lashermes Philippe auteur aut IRD text journalArticle eng text/pdf born digital access Coffee is one of the world's most important agricultural commodities. Coffee belongs to the Rubiaceae family in the euasterid I clade of dicotyledonous plants, to which the Solanaceae family also belongs. Two bacterial artificial chromosome (BAC) libraries of a homozygous doubled haploid plant of Coffea canephora were constructed using two enzymes, HindIII and BstYI. A total of 134,827 high quality BAC-end sequences (BESs) were generated from the 73,728 clones of the two libraries, and 131,412 BESs were conserved for further analysis after elimination of chloroplast and mitochondrial sequences. This corresponded to almost 13 % of the estimated size of the C. canephora genome. 6.7 % of BESs contained simple sequence repeats, the most abundant (47.8 %) being mononucleotide motifs. These sequences allow the development of numerous useful marker sites. Potential transposable elements (TEs) represented 11.9 % of the full length BESs. A difference was observed between the BstYI and HindIII libraries (14.9 vs. 8.8 %). Analysis of BESs against known coding sequences of TEs indicated that 11.9 % of the genome corresponded to known repeat sequences, like for other flowering plants. The number of genes in the coffee genome was estimated at 41,973 which is probably overestimated. Comparative genome mapping revealed that microsynteny was higher between coffee and grapevine than between coffee and tomato or Arabidopsis. BESs constitute valuable resources for the first genome wide survey of coffee and provide new insights into the composition and evolution of the coffee genome. specialized Comparative genomics Coffea Genome BAC library Transposable elements Microsatellites 076 020 83 3 177-189 2013 0167-4412 https://www.documentation.ird.fr/hor/fdi:010061149 10.1007/s11103-013-0077-5 0167-4412 [F B010061149] https://www.documentation.ird.fr/hor/fdi:010061149 https://www.documentation.ird.fr/intranet/publi/2013/10/010061149.pdf Accès réservé (Intranet de l'IRD) IRD - Base Horizon / Pleins textes 2013-11-04 2024-08-05 fdi:010061149 fre