Analysis of the Complete Chloroplast Genome of a Medicinal Plant, Dianthus superbus var. longicalyncinus, from a Comparative Genomics Perspective

• DOI: 10.1371/journal.pone.0141329
• Publication Date: 2015-10-29T17:59:50Z
• Authors: Gurusamy Raman; SeonJoo Park
• Keywords: Dianthus; Pseudogene

Dianthus superbus var. longicalycinus is an economically important traditional Chinese medicinal plant that also used for ornamental purposes. In this study, D. was compared to its closely related family of Caryophyllaceae chloroplast (cp) genomes such as Lychnis chalcedonica and Spinacia oleracea. had the longest large single copy (LSC) region (82,805 bp), with some variations in inverted repeat A (IRA)/LSC regions. The IRs underwent both expansion constriction during evolution family; however, intense were not identified. pseudogene ribosomal protein subunit S19 (rps19) identified at IRA/LSC junction, but present cp genome other members. translation initiation factor IF-1 (infA) L23 (rpl23) genes absent from genome. When 31 angiosperm lineages, infA gene found have been lost most members rosids, solanales asterids Caryophyllales, whereas rpl23 loss or pseudogization occurred exclusively Caryophyllales. Nevertheless, has two introns proteolytic ATP-dependent protease (clpP) gene, clpP gene. Furthermore, phylogenetic analysis individual protein-coding revealed pseudogenization independently Dianthus. Molecular demonstrated a sister relationship between based on 78 sequences. results presented herein will contribute studies evolution, molecular biology genetic engineering plant, longicalycinus.