Science China Life Sciences

, Volume 56, Issue 2, pp 189–198 | Cite as

Complete chloroplast genome sequence of Magnolia grandiflora and comparative analysis with related species

  • XiWen Li
  • HuanHuan Gao
  • YiTao Wang
  • JingYuan Song
  • Robert Henry
  • HeZhen Wu
  • ZhiGang Hu
  • Hui Yao
  • HongMei Luo
  • Kun Luo
  • HongLin Pan
  • ShiLin ChenEmail author
Open Access
Research Paper


Magnolia grandiflora is an important medicinal, ornamental and horticultural plant species. The chloroplast (cp) genome of M. grandiflora was sequenced using a 454 sequencing platform and the genome structure was compared with other related species. The complete cp genome of M. grandiflora was 159623 bp in length and contained a pair of inverted repeats (IR) of 26563 bp separated by large and small single copy (LSC, SSC) regions of 87757 and 18740 bp, respectively. A total of 129 genes were successfully annotated, 18 of which included introns. The identity, number and GC content of M. grandiflora cp genes were similar to those of other Magnoliaceae species genomes. Analysis revealed 218 simple sequence repeat (SSR) loci, most composed of A or T, contributing to a bias in base composition. The types and abundances of repeat units in Magnoliaceae species were relatively conserved and these loci will be useful for developing M. grandiflora cp genome vectors. In addition, results indicated that the cp genome size in Magnoliaceae species and the position of the IR border were closely related to the length of the ycf1 gene. Phylogenetic analyses based on 66 shared genes from 30 species using maximum parsimony (MP) and maximum likelihood (ML) methods provided strong support for the phylogenetic position of Magnolia. The availability of the complete cp genome sequence of M. grandiflora provides valuable information for breeding of desirable varieties, cp genetic engineering, developing useful molecular markers and phylogenetic analyses in Magnoliaceae.


intron inverted repeats SSR phylogenetics 

Supplementary material

11427_2012_4430_MOESM1_ESM.pdf (365 kb)
Supplementary material, approximately 365 KB.


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Copyright information

© The Author(s) 2013

Open AccessThis article is distributed under the terms of the Creative Commons Attribution 2.0 International License (, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Authors and Affiliations

  • XiWen Li
    • 1
    • 3
  • HuanHuan Gao
    • 1
    • 2
  • YiTao Wang
    • 3
  • JingYuan Song
    • 1
  • Robert Henry
    • 4
  • HeZhen Wu
    • 2
  • ZhiGang Hu
    • 2
  • Hui Yao
    • 1
  • HongMei Luo
    • 1
  • Kun Luo
    • 1
  • HongLin Pan
    • 2
  • ShiLin Chen
    • 1
    • 5
    Email author
  1. 1.Institute of Medicinal Plant DevelopmentChinese Academy of Medical SciencesBeijingChina
  2. 2.Faculty of PharmacyHubei University of Chinese MedicineWuhanChina
  3. 3.Institute of Chinese Medical ScienceUniversity of MacaoMacaoChina
  4. 4.Queensland Alliance for Agriculture and Food InnovationUniversity of QueenslandBrisbaneAustralia
  5. 5.Institute of Chinese Materia MedicaChina Academy of Chinese Medical SciencesBeijingChina

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