Characterization of the complete chloroplast genome of Fraxinus chiisanensis (Oleaceae), an endemic to Korea
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Fraxinus chiisanensis (Oleaceae), endemic to South Korea, is a deciduous tree and its natural populations are facing extinction due to habitat deterioration and low germination rates. Here, we characterized the complete chloroplast (cp) genome of F. chiisanensis using next-generation sequencing to provide an effective approach for achieving phylogenetic resolution and a fundamental conservation strategy. The F. chiisanensis cp genome was 155,541 bp in length with a typical quadripartite structure, including the large (86,386 bp) and small (17,767 bp) single-copy regions, separated by a pair of identical inverted repeats (25,694 bp). The genome encoded 132 genes, of which 113 were unique, including 80 protein coding genes, 29 tRNA genes, and 4 rRNA genes. The overall GC content of the cp genome was 37.9%. The Bayesian inference phylogram showed that F. chiisanensis is sister to the rest of the tribe Oleeae within Oleaceae.
KeywordsChloroplast genome Endemic species Fraxinus chiisanensis Oleaceae Oleeae Phylogenetic relationship
This work was supported by grants from Scientific research (KNA1-2-13,14-2) of Korea National Arboretum.
- Chang C-S (2007) Fraxinus L. In: Flora of Korea Editorial Committee (eds) The genera of vascular plants of Korea. Academy Publishing, Seoul, pp 854–855Google Scholar
- Chang C-S, Min W-K, Jeon JI (2002) Species relationships of Fraxinus chiisanensis Nakai and subsect. Miliodes of sect. Fraxinus-as revealed by morphometrics and flavonoids. Korean J Plant Taxon 32:55–76 (Korean, with English abstract)Google Scholar
- Hinsinger DD, Basak J, Gaudeul M, Cruaud C, Bertolino P, Frascaria-Lacoste N, Bousquet J (2013) The phylogeny and biogeographic history of ashes (Fraxinus, Oleaceae) highlight the roles of migration and vicariance in the diversification of temperate trees. PLoS ONE 8:e80431. https://doi.org/10.1371/journal.pone.0080431CrossRefPubMedPubMedCentralGoogle Scholar
- Lee TB (1980) Illustrated flora of Korea. Hyangmun Co., Seoul (in Korean)Google Scholar
- Lee HS, Chang C-S, Kim H, Choi DY (2009) A preliminary population genetic study of an overlooked endemic ash, Fraxinus chiisanensis in Korea using allozyme variation. J Korean For Soc 98:531–538Google Scholar
- Ronquist F, Teslenko M, Van der Mark P, Ayres DL, Darling A, Hohna S, Larget B, Liu L, Suchard MA, Huelsenbeck J (2012) MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Syst Biol 61:539–542. https://doi.org/10.1093/sysbio/sys029CrossRefPubMedPubMedCentralGoogle Scholar
- Song WB, Park HS, Jung HK (1988) Some morphological variation of Fraxinus mandshurica Rupr. Res Rep Inst For Genet 24:28–34 (Korean, with English abstract)Google Scholar
- Wicke S, Schneeweiss GM (2015) Next-generation organellar genomics: potentials and pitfalls of high-throughput technologies for molecular evolutionary studies and plant systematics. In: Hörandl E, Appelhans MS (eds) Next-generation sequencing in plant systematics. Koeltz Scientific Books, Koenigstein, pp 1–42Google Scholar