In previous studies, we developed a wheat-Psathyrostachys huashanica Keng disomic addition line 3-8-10-2, which exhibited high stripe rust resistance and could be used as a donor source for introducing novel
disease resistance gene(s) into wheat in future breeding programs. It was identified using cytology, genomic in situ hybridization (GISH), EST-SSR, EST-STS and morphological analyses. However, these techniques are not suitable for breeding programs that require the rapid screening of large numbers of genotypes because they are highly technical and time-consuming. In this study, three Ns genome-specific
SCAR markers were developed via random amplified polymorphic
DNA (RAPD) markers. These
SCAR markers were further validated using a complete set of wheat-P. huashanica disomic addition lines, which segregated the
5Ns disomic addition line individuals. Our results indicated that the
SCAR markers associated with the
5Ns chromosome of P. huashanica and they provide a low cost, high efficiency, alternative tool for screening
5Ns chromosomes in a wheat background. These newly developed
SCAR markers that species-specificity of the markers was proved by analysis of a wide range of cereal species, and specific for
5Ns chromosome, which should be useful in marker-assisted selection for wheat breeders who want to screen genotypes that may contain
5Ns chromatin.