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

作　　者：LI XiWen GAO HuanHuan WANG YiTao SONG JingYuan HENRY Robert WU HeZhen HU ZhiGang YAO Hui LUO HongMei LUO Kun PAN HongLin CHEN ShiLin 

机构地区：[1]Institute of Medicinal Plant Development,Chinese Academy of Medical Sciences [2]Institute of Chinese Medical Science,University of Macao [3]Faculty of Pharmacy,Hubei University of Chinese Medicine [4]Queensland Alliance for Agriculture and Food Innovation,University of Queensland [5]Institute of Chinese Materia Medica,China Academy of Chinese Medical Sciences

出　　处：《Science China(Life Sciences)》2013年第2期189-198,共10页中国科学（生命科学英文版）

基　　金：supported by the National Natural Science Foundation of China (30970307, 81130069);the Innovation Research Team of the University of Ministry of Education of China (IRT1150)

摘　　要：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 ofM. 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 ycfl gene. Phylogenetic analyses based on 66 shared genes from 30 species using maximum parsimony （MP） and max- imum 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.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.

关 键 词：INTRON inverted repeats SSR phyiogenetics 

分 类 号：S567.19[农业科学—中草药栽培]