The Complete Chloroplast Genome Sequence of the Medicinal Plant Salvia miltiorrhiza

Jun Qian, Jingyuan Song, Huanhuan Gao, Yingjie Zhu, Jiang Xu, Xiaohui Pang, Hui Yao, Chao Sun, Xian'en Li, Chuyuan Li, Juyan Liu, Haibin Xu, Shilin Chen

Research output: Contribution to journalArticle

126 Citations (Scopus)

Abstract

Salvia miltiorrhiza is an important medicinal plant with great economic and medicinal value. The complete chloroplast (cp) genome sequence of Salvia miltiorrhiza, the first sequenced member of the Lamiaceae family, is reported here. The genome is 151,328 bp in length and exhibits a typical quadripartite structure of the large (LSC, 82,695 bp) and small (SSC, 17,555 bp) single-copy regions, separated by a pair of inverted repeats (IRs, 25,539 bp). It contains 114 unique genes, including 80 protein-coding genes, 30 tRNAs and four rRNAs. The genome structure, gene order, GC content and codon usage are similar to the typical angiosperm cp genomes. Four forward, three inverted and seven tandem repeats were detected in the Salvia miltiorrhiza cp genome. Simple sequence repeat (SSR) analysis among the 30 asterid cp genomes revealed that most SSRs are AT-rich, which contribute to the overall AT richness of these cp genomes. Additionally, fewer SSRs are distributed in the protein-coding sequences compared to the non-coding regions, indicating an uneven distribution of SSRs within the cp genomes. Entire cp genome comparison of Salvia miltiorrhiza and three other Lamiales cp genomes showed a high degree of sequence similarity and a relatively high divergence of intergenic spacers. Sequence divergence analysis discovered the ten most divergent and ten most conserved genes as well as their length variation, which will be helpful for phylogenetic studies in asterids. Our analysis also supports that both regional and functional constraints affect gene sequence evolution. Further, phylogenetic analysis demonstrated a sister relationship between Salvia miltiorrhiza and Sesamum indicum. The complete cp genome sequence of Salvia miltiorrhiza reported in this paper will facilitate population, phylogenetic and cp genetic engineering studies of this medicinal plant.

Original languageEnglish (US)
Article numbere57607
JournalPLoS One
Volume8
Issue number2
DOIs
StatePublished - Feb 27 2013
Externally publishedYes

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Chloroplast Genome
Salvia miltiorrhiza
Medicinal Plants
medicinal plants
Genes
Sequence Analysis
phylogeny
genes
Lamiales
Genome
Inverted Repeat Sequences
Sesamum
Lamiaceae
chloroplast genome
Angiosperms
Gene Order
Sesamum indicum
Genetic Engineering
genome
tandem repeat sequences

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

The Complete Chloroplast Genome Sequence of the Medicinal Plant Salvia miltiorrhiza. / Qian, Jun; Song, Jingyuan; Gao, Huanhuan; Zhu, Yingjie; Xu, Jiang; Pang, Xiaohui; Yao, Hui; Sun, Chao; Li, Xian'en; Li, Chuyuan; Liu, Juyan; Xu, Haibin; Chen, Shilin.

In: PLoS One, Vol. 8, No. 2, e57607, 27.02.2013.

Research output: Contribution to journalArticle

Qian, J, Song, J, Gao, H, Zhu, Y, Xu, J, Pang, X, Yao, H, Sun, C, Li, X, Li, C, Liu, J, Xu, H & Chen, S 2013, 'The Complete Chloroplast Genome Sequence of the Medicinal Plant Salvia miltiorrhiza', PLoS One, vol. 8, no. 2, e57607. https://doi.org/10.1371/journal.pone.0057607
Qian, Jun ; Song, Jingyuan ; Gao, Huanhuan ; Zhu, Yingjie ; Xu, Jiang ; Pang, Xiaohui ; Yao, Hui ; Sun, Chao ; Li, Xian'en ; Li, Chuyuan ; Liu, Juyan ; Xu, Haibin ; Chen, Shilin. / The Complete Chloroplast Genome Sequence of the Medicinal Plant Salvia miltiorrhiza. In: PLoS One. 2013 ; Vol. 8, No. 2.
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