Optimisation of GBS protocols for efficient genotyping of forage species
2021
Julier, Bernadette | Blugeon, Sébastien | Delaunay, Sabrina | Mappa, Gaëtan | Ruttink, Tom | Pégard, Marie | Barre, Philippe
GBS is an efficient genotyping tool for heterozygous and polyploid species, yet the fraction of missing data, inherent to the method, may be detrimental to genetic analyses. We tested several restriction enzymes to choose the ones that were likely to provide the maximum number of loci with little missing data considering a certain sequencing effort. For lucerne and cocksfoot, the enzymes that met the target of about 10 000 loci were the combination of PstI-MseI for lucerne and PstI for cocksfoot. 1 066 lucerne accessions were genotyped with PstI-MseI, and more than 200 000 SNP with less than 5% missing data were obtained. Based on these results, we recommend performing such a test to optimize GBS genotyping efforts in forage species.
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