title: Complete chloroplast genome of a valuable medicinal plant,Huperzia serrata(Lycopodiaceae), and comparison with its congener.
abstract: OBJECTIVE
  Here we report the complete chloroplast genome of the important medicinal speciesHuperzia serrata(Lycopodiaceae) and compare it to the chloroplast genome of the congeneric speciesH. lucidula.
  
  
  RESULTS
  The whole chloroplast genome ofH. serratawas sequenced using an Illumina platform and assembled with Geneious version R9.0.5. The genome size ofH. serratawas 154,176 bp, with 36.3% GC content. The complete chloroplast genome contained 120 unique genes, including 86 coding genes, four rRNA genes, and 30 tRNA genes. Comparison with the chloroplast genome ofH. lucidularevealed three highly variable regions (rps16-chlB,ycf12-trnR, andycf1) between these two species and 252 mutation events including 27 insertion/deletion polymorphisms and 225 single-nucleotide polymorphisms (SNPs). Ninety-two SNPs were identified in the gene-coding regions. In addition, 18 microsatellite sites were found, which can potentially be used in phylogeographic studies.
  
  
  CONCLUSIONS
  The complete chloroplast genome ofH. serratais reported here, and will be a valuable genome resource for further phylogenetic, evolutionary, and medical studies of medicinal plants in the genusHuperzia.
authors.affiliation: State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, People's Republic of China; College of Biological Sciences and Agriculture, Qiannan Normal University for Nationalities, Guizhou 558000, People's Republic of China.
authors.forename: Zhi-You
authors.initials: ZY
authors.lastname: Guo
authors.affiliation: State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, People's Republic of China; University of Chinese Academy of Sciences, Beijing 100049, People's Republic of China.
authors.forename: Hong-Rui
authors.initials: HR
authors.lastname: Zhang
authors.affiliation: State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, People's Republic of China.
authors.forename: Nawal
authors.initials: N
authors.lastname: Shrestha
authors.affiliation: State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, People's Republic of China.
authors.forename: Xian-Chun
authors.initials: XC
authors.lastname: Zhang
keywords: Huperzia serrata; Lycopodiaceae; lycophytes; mutation; next-generation sequencing