Development of InDel Markers for Gypsophila paniculata Based on Genome Resequencing

Abstract

Gypsophila paniculata is the only species in the genus Gypsophila that has been used as cut flowers, and the sequencing of its genome has just been completed, opening a new chapter in its molecular genetic breeding. The molecular marker system is the basis for genetic molecular research in the era of genomics, whereas it is still a gap for G. paniculata. In this study, we constructed a genome-wide InDel marker system of G. paniculata after genome resequencing of another wild-type accession with white flowers. Consequently, 407 InDel markers at a distance of ~2 Mb were designed for all 17 chromosomes. Later, the validation of these markers by PCR revealed that 289 markers could distinguish alleles of the two wild-type alleles clearly. The predicted polymorphisms of two wild-type alleles were then transferred to the commercial cultivars, which displayed a rich polymorphism among four commercial cultivars. Our research established the first genome-level genetic map in G. paniculata, providing a comprehensive set of marker systems for its molecular research.