%0 Journal Article
%9 ACL : Articles dans des revues avec comité de lecture répertoriées par l'AERES
%A Merot-L'anthoene, V.
%A Tournebize, R.
%A Darracq, O.
%A Rattina, V.
%A Lepelley, M.
%A Bellanger, L.
%A Dubreuil Tranchant, Christine
%A Coulee, M.
%A Pegard, M.
%A Metairon, S.
%A Fournier, C.
%A Stoffelen, P.
%A Janssens, S. B.
%A Kiwuka, C.
%A Musoli, P.
%A Sumirat, U.
%A Legnate, H.
%A Kambale, J. L.
%A Neto, J. F. D.
%A Revel, C.
%A Kochko, Alexandre de
%A Descombes, P.
%A Crouzillat, D.
%A Poncet, Valérie
%T Development and evaluation of a genome-wide Coffee 8.5K SNP array and its application for high-density genetic mapping and for investigating the origin of Coffea arabica L
%D 2019
%L fdi:010076130
%G ENG
%J Plant Biotechnology Journal
%@ 1467-7644
%K SNP array ; single-nucleotide polymorphism ; Coffea arabica origin ; C. canephora ; C. eugenioides ; genetic map
%M ISI:000471831200021
%N 7
%P 1418-1430
%R 10.1111/pbi.13066
%U https://www.documentation.ird.fr/hor/fdi:010076130
%> https://horizon.documentation.ird.fr/exl-doc/pleins_textes/divers19-07/010076130.pdf
%V 17
%W Horizon (IRD)
%X Coffee species such as Coffea canephora P. (Robusta) and C. arabica L. (Arabica) are important cash crops in tropical regions around the world. C. arabica is an allotetraploid (2n = 4x = 44) originating from a hybridization event of the two diploid species C. canephora and C. eugenioides (2n = 2x = 22). Interestingly, these progenitor species harbour a greater level of genetic variability and are an important source of genes to broaden the narrow Arabica genetic base. Here, we describe the development, evaluation and use of a single-nucleotide polymorphism (SNP) array for coffee trees. A total of 8580 unique and informative SNPs were selected from C. canephora and C. arabica sequencing data, with 40% of the SNP located in annotated genes. In particular, this array contains 227 markers associated to 149 genes and traits of agronomic importance. Among these, 7065 SNPs (82.3%) were scorable and evenly distributed over the genome with a mean distance of 54.4 Kb between markers. With this array, we improved the Robusta high-density genetic map by adding 1307 SNP markers, whereas 945 SNPs were found segregating in the Arabica mapping progeny. A panel of C. canephora accessions was successfully discriminated and over 70% of the SNP markers were transferable across the three species. Furthermore, the canephora-derived subgenome of C. arabica was shown to be more closely related to C. canephora accessions from northern Uganda than to other current populations. These validated SNP markers and high-density genetic maps will be useful to molecular genetics and for innovative approaches in coffee breeding.
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