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

Xiaojun Nie, Bianli Li, Le Wang, Peixun Liu, Siddanagouda S. Biradar, Tao Li, Jaroslav Doležel, David Edwards, Mingcheng Luo, Song Weining

Research output: Contribution to journalArticlepeer-review

24 Citations (Scopus)


Premise of the study: The aim of this study was to assess the feasibility of developing chromosome-arm-specific 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 identified computationally. In total, 16 315 microsatellites were identified 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 specificity of the newly developed markers. • Conclusions: This is the first study on identification of chromosome-arm-specific microsatellite markers using NGS technology. These new chromosome-arm-specific markers will facilitate saturation of the 7DL genetic map, and their availability will support genetic mapping and positional cloning in wheat.

Original languageEnglish
JournalAmerican Journal of Botany
Issue number9
Publication statusPublished - Sept 2012
Externally publishedYes


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