404
Views
0
CrossRef citations to date
0
Altmetric
Plastome Announcement

The complete chloroplast genomes of Allium sacculiferum, A. thunbergii, and A. taquetii (Amaryllidaceae) from Korea

, , , , &
Pages 1102-1108 | Received 16 Jan 2023, Accepted 03 Oct 2023, Published online: 18 Oct 2023

References

  • Amiryousefi A, Hyvönen J, Poczai P. 2018. IRscope: an online program to visualize the junction sites of chloroplast genomes. Bioinformatics. 34(17):3030–3031. doi: 10.1093/bioinformatics/bty220.
  • Choi HJ, Oh BU. 2011. A partial revision of Allium (Amaryllidaceae) in Korea and north-eastern China. Bot J Linn Soc. 167(2):153–211. doi: 10.1111/j.1095-8339.2011.01166.x.
  • Deniz İG, Genç İ, Sarı D. 2015. Morphological and molecular data reveal a new species of Allium (Amaryllidaceae) from SW Anatolia, Turkey. Phytotaxa. 212(4):283–292. doi: 10.11646/phytotaxa.212.4.4.
  • Doyle JJ, Doyle JL. 1987. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochem Bull. 19(1):11–15.
  • Greiner S, Lehwark P, Bock R. 2019. OrganellarGenomeDRAW (OGDRAW) version 1.3.1: expanded toolkit for the graphical visualization of organellar genomes. Nucleic Acids Res. 47(W1):W59–W64. doi: 10.1093/nar/gkz238.
  • Guh J, Kim C, Oh C, Kuk Y, Kwon O, Park K, Lee S. 2015. The natural benefits of Korean Flora as for food relief and health care. Seoul, South Korea: Resource Plant Research Group; p. 428–431.
  • Huo Y, Gao L, Liu B, Yang Y, Kong S, Sun Y, Yang Y, Wu X. 2019. Complete chloroplast genome sequences of four Allium species: comparative and phylogenetic analyses. Sci Rep. 9(1):12250. doi: 10.1038/s41598-019-48708-x.
  • Jin J-J, Yu W-B, Yang J-B, Song Y, DePamphilis CW, Yi T-S, Li D-Z. 2020. GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes. Genome Biol. 21(1):241. doi: 10.1186/s13059-020-02154-5.
  • Jung J, Kim JI, Jeong Y-S, Yi G. 2018. AGORA: organellar genome annotation from the amino acid and nucleotide references. Bioinformatics. 34(15):2661–2663. doi: 10.1093/bioinformatics/bty196.
  • Kim S, Park JY, Yang T. 2015. Comparative analysis of the complete chloroplast genome sequences of a normal male-fertile cytoplasm and two different cytoplasms conferring cytoplasmic male sterility in onion (Allium cepa L.). J Hortic Sci Biotechnol. 90(4):459–468. doi: 10.1080/14620316.2015.11513210.
  • Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, et al. 2007. Clustal W and Clustal X version 2.0. Bioinformatics. 23(21):2947–2948. doi: 10.1093/bioinformatics/btm404.
  • Lee Y, Lee W. 1997. Illustrated rare and endangered species in Korea. Pocheon, South Korea: Korea National Arboretum; p. 41.
  • Lee TB. 2006. Coloured flora of Korea. Vol. 2. Seoul,South Korea: Hyangmunsa; p. 703–706.
  • Li Q-Q, Zhou S-D, He X-J, Yu Y, Zhang Y-C, Wei X-Q. 2010. Phylogeny and biogeography of Allium (Amaryllidaceae: Allieae) based on nuclear ribosomal internal transcribed spacer and chloroplast rps16 sequences, focusing on the inclusion of species endemic to China. Ann Bot. 106(5):709–733. doi: 10.1093/aob/mcq177.
  • Liu S, Ni Y, Li J, Zhang X, Yang H, Chen H, Liu C. 2023. CPGView: a package for visualizing detailed chloroplast genome structures. Mol Ecol Resour. 23(3):694–704. doi: 10.1111/1755-0998.13729.
  • Namgung J, Do HDK, Kim C, Choi HJ, Kim JH. 2021. Complete chloroplast genomes shed light on phylogenetic relationships, divergence time, and biogeography of Allioideae (Amaryllidaceae). Sci Rep. 11(1):3262. doi: 10.1038/s41598-021-82692-5.
  • Ren F, Wang L, Zhuo W, Chen D, Huang H, Zhang L. 2022. Complete chloroplast genome of the rare medicinal vegetable Allium hookeri. Mitochondrial DNA B Resour. 7(1):6–7. doi: 10.1080/23802359.2021.2003262.
  • Tamura K, Stecher G, Kumar S. 2021. MEGA11: molecular evolutionary genetics analysis version 11. Mol Biol Evol. 38(7):3022–3027. doi: 10.1093/molbev/msab120.
  • Xie FM, Jiang QP, Yu Y, Zhou SD, He XJ. 2019. The complete chloroplast genome of Allium macrostemon. Mitochondrial DNA Part B. 4(1):1938–1939. doi: 10.1080/23802359.2019.1616626.
  • Xie FM, Xie DF, Xie C, Yu Y, Zhou SD, He XJ. 2020. Adaptation evolution and phylogenetic analyses of species in Chinese Allium section Pallasia and related species based on complete chloroplast genome sequences. Biomed Res Int. 2020:8542797. doi: 10.1155/2020/8542797.
  • Yusupov Z, Deng T, Liu C, Lin N, Tojibaev K, Sun H. 2019. The complete chloroplast genome of Allium fistulosum. Mitochondrial DNA Part B. 4(1):489–490. doi: 10.1080/23802359.2018.1545532.