文献类型：期刊文献

英文题名：Molecular markers from the chloroplast genome of rose provide a complementary tool for variety discrimination and profiling

作者：Li, Changhong[1] Zheng, Yongqi[1] Huang, Ping[1]

第一作者：Li, Changhong

通信作者：Zheng, YQ[1];Huang, P[1]

机构：[1]Chinese Acad Forestry, Res Inst Forestry, State Forestry Adm, Key Lab Forest Silviculture & Tree Cultivat,State, Beijing 100091, Peoples R China

年份：2020

卷号：10

期号：1

外文期刊名：SCIENTIFIC REPORTS

收录：;Scopus(收录号：2-s2.0-85088387854);WOS:【SCI-EXPANDED(收录号:WOS:000556401400015)】；

基金：We thank the financial support from National Natural Science Foundation of China (Grant Number 31500538), Fundamental Research Funds for the Central Nonprofit Research Institution of CAF (Grant Number CAFYBB2016QB007), Special Funds from Laboratory of Forest Silviculture and Tree Cultivation [Grand Number. ZDRIF201713] and grant from Scientific & Development Center of National Forestry and Grassland Administration; we thank plant material supports from National Forestry and Grassland Genetic Resources Center and National Rose DUS examination station in Kunming, China. We also thank the editors and reviewers for critically evaluating the manuscript and providing constructive comments for its improvement.

语种：英文

摘要：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 of rose varieties. However, more than 150 single nucleotide variations (SNVs) were discovered in the flanking region of cpSSRs, and the results indicated that these SNVs have a higher divergence and stronger power for profiling rose varieties. These findings suggest that nucleotide mutations in the chloroplast genome may be an effective and powerful tool for rose variety discrimination and DNA profiling. These molecular markers in the chloroplast genome sequence of Rosa spp. will facilitate population and phylogenetic studies and other related studies of this species.