Molecular markers from the chloroplast genome of rose provide a complementary tool for variety discrimination and profiling.

Scientific Reports
Changhong LiPing Huang

Abstract

The rose is one of the most important ornamental woody plants because of its extensive use and high economic value. Herein, we sequenced a complete chloroplast genome of the miniature rose variety Rosa 'Margo Koster' and performed comparative analyses with sequences previously published for other species in the Rosaceae family. The chloroplast genome of Rosa 'Margo Koster', with a size of 157,395 bp, has a circular quadripartite structure typical of angiosperm chloroplast genomes and contains a total of 81 protein-coding genes, 30 tRNA genes and 4 rRNA genes. Conjunction regions in the chloroplast genome of Rosa 'Margo Koster' were verified and manually corrected by Sanger sequencing. Comparative genome analysis showed that the IR contraction and expansion events resulted in rps19 and ycf1 pseudogenes. The phylogenetic analysis within the Rosa genus showed that Rosa 'Margo Koster' is closer to Rosa odorata than to other Rosa species. Additionally, we identified and screened highly divergent sequences and cpSSRs and compared their power to discriminate rose varieties by Sanger sequencing and capillary electrophoresis. The results showed that 15 cpSSRs are polymorphic, but their discriminating power is only moderate among a set o...Continue Reading

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Datasets Mentioned

BETA
KX768420.1

Methods Mentioned

BETA
electrophoresis
PCR
genotyping

Software Mentioned

IRSCOPE
DnaSP
mathord
BLAST2
Organellar GenomeDRAW
Primer
cpSSR
DOGMA
Tandem Repeats Finder
REPuter

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