Development of intron polymorphism markers in major latex-like protein gene for locality-level and cultivar identification of Salvia miltiorrhiza

BACKGROUND: Salvia miltiorrhiza (Danshen) is one of the most widely used medicinal herbs in traditional Chinese medicine. Locality-level and cultivar identification is of great importance not only for protecting highest therapeutic effectiveness of Daodi Danshen, but also for the genetic conservation and utilization of existing S. miltiorrhiza populations. RESULTS: Intron polymorphisms including SNPs (single nucleotide polymorphisms) and indels were exploited in major latex-like protein (MLP) gene. Based on these markers, genetic relationships among S. miltiorrhiza cultivar and populations in different locations were evaluated by constructing a dendrogram. Moreover, S. miltiorrhiza specimens from Laiwu region were geographically distinguishable by the developed SNP marker. A 204 bp-indel marker was exploited for the first space breeding cultivar Luyuan Danshen-1 (LD-1), and an effective real-time PCR assay was successfully developed for fast screening of LD-1 among local landraces. CONCLUSIONS: MLP intron is a valuable DNA barcode for intra-specific study of S. miltiorrhiza populations, and the developed markers can serve as a useful tool for molecular identification of LD-1 cultivar and geographically distinct populations of S. miltiorrhiza. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s40064-016-3611-5) contains supplementary material, which is available to authorized users.