Development of chromosome-arm-specific microsatellite markers in Triticum aestivum (Poaceae) using NGS technology

Nie, X., Li, B., Wang, L., Liu, P., Biradar, S.S., Li, T., Doležel, J., Edwards, D., Luo, M., Weining, S.

Keywords: chromosome-arm-specific DNA; flow-sorted chromosomes; next-generation sequencing; Poaceae; Triticum aestivum ; wheat.
Abstract: • Premise of the study: The aim of this study was to assess the feasibility of developing chromosome-arm-specifi c microsatellite markers in wheat on a large scale based on chromosome survey sequences obtained with next-generation sequencing (NGS) technology. • Methods and Results: The Illumina Hi Seq2000 sequencing platform was used to sequence DNA of isolated wheat chromosome- arm 7DL. The data were assembled and microsatellite loci were identifi ed computationally. In total, 16 315 microsatellites were identifi ed from 161 061 assembled contigs. Thirty-three markers were randomly selected for validation across 20 diverse wheat cultivars. Two nulli-tetrasomic stocks were also screened to validate the specifi city of the newly developed markers. • Conclusions: This is the fi rst study on identifi cation of chromosome-arm-specifi c microsatellite markers using NGS technology. These new chromosome-arm-specifi c markers will facilitate saturation of the 7DL genetic map, and their availability will support genetic mapping and positional cloning in wheat.
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IEB authors: Jaroslav Doležel