The complete chloroplast genome of the daimyo oak, Quercus dentata Thunb.

  • Hua-Lei Hu
  • Jing-Yu Zhang
  • Yu-Ping Li
  • Lu Xie
  • Dong-Bin Chen
  • Qun Li
  • Yan-Qun Liu
  • Shu-Rong Hui
  • Li Qin
Technical Note


Here, we report the complete chloroplast (cp) genome of the daimyo oak, Quercus dentata Thunb. The genome is 161,250 bp in size with a GC content of 36.83% and contains 134 genes (86 protein-coding genes, 40 tRNA genes, eight rRNA genes). The large single-copy region and small single-copy region in the cp genome contain 90,560 bp and 19,036 bp, respectively, while the inverted repeat region is 25,827 bp in length. The phylogenetic analyses based on the whole cp genome sequence provided a solid evidence that Q. dentata has a close relationship with Q. aliena. The presence of two subgenus, Quercus and Cyclobalanopsis, in Quercus was uncovered in the phylogenetic analyses. The cp genome presented here will provide useful information for the phylogenetic and evolutionary studies of Quercus species.


Quercus dentata Chloroplast genome Phylogenetic position 



This work was supported by Grant from the National Natural Science Foundation of China (No. 31672493) and the China Agriculture Research System (No. CARS-18).

Compliance with ethical standards

Conflict of interest

The authors declare no competing financial interest. The authors alone are responsible for the content and writing of the paper.


  1. Alexander LW, Woeste KE (2014) Pyrosequencing of the northern red oak (Quercus rubra L.) chloroplast genome reveals high quality polymorphisms for population management. Tree Genet Genome 10:803–812CrossRefGoogle Scholar
  2. Du FK, Lang T, Lu S, Wang Y, Li J, Yin K (2015) An improved method for chloroplast genome sequencing in non-model forest tree species. Tree Genet Genome 11:114CrossRefGoogle Scholar
  3. Ishida TA, Hattori K, Sato H, Kimura MT (2003) Differentiation and hybridization between Quercus crispula and Q. dentata (Fagaceae): insights from morphological traits, amplified fragment length polymorphism markers, and leafminer composition. Am J Bot 90(5):769–776CrossRefPubMedGoogle Scholar
  4. Kumar S, Stecher G, Tamura K (2016) MEGA7: molecular evolutionary genetics analysis version 7.0. Mol Biol Evol 33(7):1887CrossRefGoogle Scholar
  5. Lohse M, Drechsel O, Kahlau S, Bock R (2013) OrganellarGenome-DRAW: a suite of tools for generating physical maps of plastid and mitochondrial genomes and visualizing expression data sets. Nucl Acids Res 41:575–581CrossRefGoogle Scholar
  6. Manos PS, Doyle JJ, Nixon KC (1999) Phylogeny, biogeography, and processes of molecular differentiation in Quercus subgenus Quercus (Fagaceae). Mol Phylogenet Evol 12:333–349CrossRefPubMedGoogle Scholar
  7. Plader W, Yukawa Y, Sugiura M, Malepszy S (2007) The complete structure of the cucumber (Cucumis sativus L.) chloroplast genome: its composition and comparative analysis. Cell Mol Biol Lett 12(4):584–594CrossRefPubMedGoogle Scholar
  8. Wang LL, Jiang MX, Xu SX, Sun QS, Zeng GY, Zhou YJ (2010) Two acylated flavonoid glycosides from the leaves of Quercus dentata. Nat Prod Commun 5(10):1597–1599PubMedGoogle Scholar
  9. World Conservation Monitoring Centre (1998) Quercus dentata. The IUCN Red List of Threatened Species 1998: e.T31294A9617239Google Scholar
  10. Wyman SK, Jansen RK, Boore JL (2004) Automatic annotation of organellar genomes with DOGMA. Bioinformatics 20:3252–3255CrossRefPubMedGoogle Scholar
  11. Yang Y, Zhou T, Duan D, Yang J, Feng L, Zhao G (2016) Comparative analysis of the complete chloroplast genomes of five Quercus species. Front Plant Sci 7:959PubMedPubMedCentralGoogle Scholar
  12. Yang Y, Zhou T, Zhu J, Zhao J, Zhao G (2017) Characterization of the complete plastid genome of Quercus tarokoensis. Conserv Genet Resour. Google Scholar

Copyright information

© Springer Science+Business Media B.V., part of Springer Nature 2018

Authors and Affiliations

  1. 1.Department of Sericulture, College of Bioscience and BiotechnologyShenyang Agricultural UniversityShenyangChina
  2. 2.College of ScienceShenyang Agricultural UniversityShenyangChina

Personalised recommendations