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Plastome Report

The complete chloroplast genome of the Syzygium buxifolium Hook. Et Arn.1833 and its phylogenetic analysis

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Pages 851-855 | Received 26 Dec 2023, Accepted 18 Jun 2024, Published online: 27 Jun 2024

References

  • Asaf S, Khan AL, Khan A, Al-Harrasi A. 2020. Unraveling the chloroplast genomes of two Prosopis Species to identify its genomic information, comparative analyses and phylogenetic relationship. Int J Mol Sci. 21(9):3280. doi:10.3390/ijms21093280.
  • Bolger AM, Lohse M, Usadel B. 2014. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics. 30(15):2114–2120. doi:10.1093/bioinformatics/btu170.
  • Chase MW, Christenhusz MJM, Fay MF, Byng JW, Judd WS, Soltis DE, Mabberley DJ, Sennikov AN, Soltis PS, Stevens PF, et al. 2016. An update of the angiosperm phylogeny group classification for the orders and families of flowering plants: APG IV. Bot J Linn Soc. 181(1):1–20. doi:10.1111/boj.12385.
  • Chen J-m, Huang X-d, Cai J-x, Fang X-l, Chen L. 2016. Comparative study on antioxidant active of dichloromethane fraction and ethyl acetate fraction from Syzygium Buxifolium leave. J Xichang College·Nat Sci Ed. 30(4):11–12.
  • Chen L-D, Wang H-F, Hou D-J. 2022. The complete plastome of Syzygium odoratum (Lour.) DC. 1928 (Myrtaceae). Mitochondrial DNA B Resour. 7(4):705–706. doi:10.1080/23802359.2022.2067015.
  • Daniell H, Lin CS, Yu M, Chang WJ. 2016. Chloroplast genomes: diversity, evolution, and applications in genetic engineering. Genome Biol. 17(1):134. doi:10.1186/s13059-016-1004-2.
  • Ding H, Sun X, Li C, Zhao H, Jia B. 2018. Advances in studies on chemical constituents and pharmacological effects of Syzygium buxifolium. Chin J Ethnomed Ethnopharm. 04):34–36. (
  • Huang X-d. 2003. The primary study on micromorphology of leaf, chemical component and Artimi al activity of Syzygium buxigolium Hook. Et Arn [D]. 8.
  • Huong LT, Hung NH, Linh NN, Pham TV, Dai DN, Hop NQ, Setzer WN, Son NT, Andlauer W, Brück WM. 2023. Essential oils of five Syzygium species growing wild in Vietnam: chemical compositions and antimicrobial and mosquito larvicidal potentials. Molecules. 28(22):7505. doi:10.3390/molecules28227505.
  • Jin JJ, Yu WB, Yang JB, Song Y, dePamphilis CW, Yi TS, Li DZ. 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.
  • Katoh K, Rozewicki J, Yamada KD. 2019. MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization. Brief Bioinform. 20(4):1160–1166. doi:10.1093/bib/bbx108.
  • Keeling PJ. 2004. Diversity and evolutionary history of plastids and their hosts. Am J Bot. 91(10):1481–1493. doi:10.3732/ajb.91.10.1481.
  • Krumsiek J, Arnold R, Rattei T. 2007. Gepard: a rapid and sensitive tool for creating dotplots on genome scale. Bioinformatics. 23(8):1026–1028. doi:10.1093/bioinformatics/btm039.
  • Lee E, Harris N, Gibson M, Chetty R, Lewis S. 2009. Apollo: a community resource for genome annotation editing. Bioinformatics. 25(14):1836–1837. doi:10.1093/bioinformatics/btp314.
  • Letunic I, Bork P. 2021. Interactive tree of life (iTOL) v5: an online tool for phylogenetic tree display and annotation. Nucleic Acids Res. 49(W1):W293–w296. doi:10.1093/nar/gkab301.
  • Li P, Guo W, Lei K, Ji L. 2021. Characterization of the complete chloroplast genome of Syzygium nervosum. Mitochondrial DNA B Resour. 6(3):1014–1015. doi:10.1080/23802359.2021.1894999.
  • 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.
  • Ngai HL, Kong BL, Lau DT, Shaw PC. 2023. Differentiation of Lingxiaohua and Yangjinhua by chloroplast genome sequencing and DNA barcoding markers. Genome. 66(2):21–33. doi:10.1139/gen-2022-0063.
  • Nguyen LT, Schmidt HA, von Haeseler A, Minh BQ. 2015. IQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies. Mol Biol Evol. 32(1):268–274. doi:10.1093/molbev/msu300.
  • Palmer JD. 1991. Chapter 2 – Plastid chromosomes: structure and evolution. In The molecular biology of plastids, edited by Bogorad L, Vasil IK; p. 5–53. Academic Press.
  • Qin X, Luo J, Gao Z. 2002. Chinese Yao pharmacy. Beijing: Nationalities Publishing House.
  • Schoch CL, Ciufo S, Domrachev M, Hotton CL, Kannan S, Khovanskaya R, Leipe D, Mcveigh R, O’Neill K, Robbertse B, et al. 2020. NCBI Taxonomy: a comprehensive update on curation, resources and tools. Database. 2020 doi:10.1093/database/baaa062.
  • Shi L, Chen H, Jiang M, Wang L, Wu X, Huang L, Liu C. 2019. CPGAVAS2, an integrated plastome sequence annotator and analyzer. Nucleic Acids Res. 47(W1):W65–W73. doi:10.1093/nar/gkz345.
  • Song L, Zhang G, Xu G, Xie Z, Ling Y, Wang X, Xiao P, Ding X, Cao C, Li Y, et al. 1999. Chinese Materia Medican. vol. 5, pp. 653–654. Shanghai: Shanghai Science and Technology Press.
  • Sun Z, Huang Q, Feng C. 2020. Complete chloroplast genome sequence of the rose apple, Syzygium jambos (Myrtaceae). Mitochondrial DNA B Resour. 5(3):3460–3462. doi:10.1080/23802359.2020.1826000.
  • Wei X, Li L, Xu L, Zhang X, Zeng L, Xu J. 2022. Complete chloroplast genome sequence of Syzygium samarangense (Myrtaceae) and phylogenetic analysis. Mitochondrial DNA B Resour. 7(6):977–979. doi:10.1080/23802359.2022.2080022.
  • Wicke S, Schneeweiss GM, dePamphilis CW, Müller KF, Quandt D. 2011. The evolution of the plastid chromosome in land plants: gene content, gene order, gene function. Plant Mol Biol. 76(3-5):273–297. doi:10.1007/s11103-011-9762-4.
  • Zeng F, Deng Y, Liu X, Zhu X, Tan G. 2021. The complete chloroplast genome of Syzygium acuminatissimum. Mitochondrial DNA B Resour. 6(1):127–128. doi:10.1080/23802359.2020.1847615.
  • Zhang D, Gao F, Jakovlić I, Zou H, Zhang J, Li WX, Wang GT. 2020. PhyloSuite: An integrated and scalable desktop platform for streamlined molecular sequence data management and evolutionary phylogenetics studies. Mol Ecol Resour. 20(1):348–355. doi:10.1111/1755-0998.13096.
  • Zhang X, Wang J-H, Wang H, Zhao K-K, Zhu Z, Wang H-F. 2018. Complete plastome sequence of Syzygium forrestii Merr. et Perry (Myrtaceae): an endemic species in China. Mitochondrial DNA Part B. 4(1):126–127. doi:10.1080/23802359.2018.1536474.
  • Zhao G, Dian S, Chen R. 2006. Dictionary of Chinese herbal medicine. p. 1450–1452Shanghai: shanghai Science and Technology Press.
  • Zhou F, Liang P, Zhou Q, Qin Z. 1998. Chemical constituents of the stem and root of Syzygium buxifolium Hook. Et Arn. Zhongguo Zhong Yao Za Zhi. 23(3):164–165, 192. 192.