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ARS Home » Plains Area » Manhattan, Kansas » Center for Grain and Animal Health Research » Hard Winter Wheat Genetics Research » Research » Publications at this Location » Publication #342007
Title: High-throughput development of genome-wide locus-specific informative SSR markers in wheat

Author
item LI, LEI - Yangzhou University
item SUN, FAYU - Yangzhou University
item WU, DI - Yangzhou University
item ZHEN, FEI - Yangzhou University
item Bai, Guihua
item LI, TAO - Yangzhou University

Submitted to: Science China Life Science
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 10/31/2016
Publication Date: 12/16/2016
Citation: Li, L., Sun, F., Wu, D., Zhen, F., Bai, G., Li, T. 2016. High-throughput development of genome-wide locus-specific informative SSR markers in wheat. Science China Life Science. 60(6):671-673. doi:10.1007/s11427-016-0252-x.

Interpretive Summary: Simple sequence repeat (SSR) markers are widely used in molecular mapping and marker-assisted breeding of crop plants. However, the number of publicly available SSR markers for these applications is limited. We developed 221,911 locus-specific SSR markers using wheat reference sequences. A selected set of these SSRs was validated for usefulness in a diverse panel of 12 wheat breeding lines. These SSR markers are now publicly available and provide a valuable resource for mapping and marker-assisted breeding in wheat.

Technical Abstract: Although simple sequence repeat (SSR) markers are not new, they are still useful and often used markers in molecular mapping and marker-assisted breeding, particularly in developing countries. However, locus-specific SSR markers could be more useful and informative in wheat breeding and genetic studies. In the present study, 221,911 locus-specific SSR markers were designed. Verification of polymorphisms showed that the proportion of polymorphic markers increases with an increase in SSR size. Evaluation of the polymorphic information content (PIC) of the SSR markers in a panel of 12 wheat accessions showed that PIC also increases with an increase in SSR size. Alternative locus-specific SSR markers for known QTLs and the distributions of SSR markers and single-nucleotide polymorphisms (SNPs) from the Axiom 820K SNP array were also analyzed in this study.