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Harnessing diversity of temperate rices: opportunities offered by sequencing developments

Courtois Brigitte, Ahmadi Nourollah. 2012. Harnessing diversity of temperate rices: opportunities offered by sequencing developments. In : Proceedings of the International Workshop: "Crop Improvement in a Changing Environment: the RISINNOVA Project for sustainable rice production in Italy" Venezia , Italy, 29-30 October 2012. CRA ; CINSA ; University of Parma. s.l. : s.n., Résumé, p. 26. International Workshop: " Crop Improvement in a Changing Environment: the RISINNOVA Project for sustainable rice production in Italy", Venise, Italie, 29 October 2012/30 October 2012.

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Abstract : Breeders from Europe have established a collection of 425 temperate rice accessions by pooling their working collections. These accessions have first been characterised with 25 SSR markers, enabling to differentiate a tropical and a temperate japonica grou p that further splitted into two sub - groups. The three groups corresponded to specific maturity classes and grain types. A core collection of about 200 accessions was then defined and phenotyped for various traits (salinity tolerance, blast resistance, and water use efficicency). SNPs in candidate genes supposed to control these traits were genotyped on the core collection. Targeted association mapping was conducted for salinity tolerance. It showed that some European accessions were carrying specific allel es which, cumulated, could improved salinity tolerance above present levels. DArT markers were then genotyped on the core collection. The pattern of diversity revealed by DArT markers was similar to that shown by SNPs but only 300 markers were polymorphic. To run whole genome association studies (WGAM), a larger number of markers is necessary since linkage disequilibrum in temperate rices is expected to span about 400 kb in average. Genotyping by sequencing that associates DArT and next - generation sequencin g technologies offers the possibility to go further. Preliminary results on a set of japonica rices enabled us to estimate the polymorphism to be expected in the core collection. The marker density seems satisfactory for WGAM although the results have to b e confirmed at a larger scale. Ways to better exploit existing data and links with genomic selection are presented. (Texte Intégral)

Classification Agris : F30 - Plant genetics and breeding

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Source : Cirad - Agritrop (https://agritrop.cirad.fr/569138/)

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