Whole Genome Assembly and Annotation for C. canephora

The Coffea canephora reference genome sequence results from collaboration between Genoscope, CIRAD and IRD (UMRs AGAP, DIADE and RPB) funded by ANR. The sequenced genotype (2n=22, 1C=710 Mb) is a doubled-haploid plant (accession DH200-94) produced by IRD from the clone IF200 based on the haploid plants occurring spontaneously in association with polyembryony.

This version (v.1) of the assembly is 580 Mb spread over 13,345 scaffolds. 25,574 protein-coding loci have been predicted, each with a primary transcript.

Program, Pipeline, Workflow or Method Name
Program Version
Denoeud F, Carretero-Paulet L, Dereeper A, Droc G, Guyot R, Pietrella M, Zheng C, Alberti A, Anthony F, Aprea G, Aury JM, Bento P, Bernard M, Bocs S, Campa C, Cenci A, Combes MC, Crouzillat D, Da Silva C, Daddiego L, De Bellis F, Dussert S, Garsmeur O, Gayraud T, Guignon V, Jahn K, Jamilloux V, Joët T, Labadie K, Lan T, Leclercq J, Lepelley M, Leroy T, Li LT, Librado P, Lopez L, Muñoz A, Noel B, Pallavicini A, Perrotta G, Poncet V, Pot D, Priyono , Rigoreau M, Rouard M, Rozas J, Tranchant-Dubreuil C, VanBuren R, Zhang Q, Andrade AC, Argout X, Bertrand B, de Kochko A, Graziosi G, Henry RJ, Jayarama , Ming R, Nagai C, Rounsley S, Sankoff D, Giuliano G, Albert VA, Wincker P, Lashermes P. The coffee genome provides insight into the convergent evolution of caffeine biosynthesis.. Science (New York, N.Y.). 2014 Sep 05; 345(6201):1181-4.