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Plastome Announcement

The complete chloroplast genome and phylogenetic analysis of Stewartia sichuanensis (Theaceae), a Chinese endemic tree with narrow distribution

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Pages 457-460 | Received 21 Dec 2022, Accepted 14 Mar 2023, Published online: 29 Mar 2023

References

  • Chen Y, Chen Y, Shi C, Huang Z, Zhang Y, Li S, Li Y, Ye J, Yu C, Li Z, et al. 2018. SOAPnuke: a MapReduce acceleration-supported software for integrated quality control and preprocessing of high-throughput sequencing data. GigaScience. 7:gix120.
  • Hoang DT, Chernomor O, von Haeseler A, Minh BQ, Vinh LS. 2018. UFBoot2: improving the Ultrafast Bootstrap Approximation. Mol Biol Evol. 35:518–522.
  • Jin J, Yu W, Yang J, Song Y, DePamphilis CW, Yi T, Li D. 2020. GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes. Genome Biol. 21:241.
  • Kalyaanamoorthy S, Minh BQ, Wong T, von Haeseler A, Jermiin L. 2017. ModelFinder: fast model selection for accurate phylogenetic estimates. Nat Methods. 14:587–589.
  • Li J. 1996. A systematic study on the genera Stewartia and Hartia (Theaceae). Acta Phytotaxonomica Sinica. 34:48–67.
  • Lin H, Hao Y, Li J, Fu C, Soltis PS, Soltis DE, Zhao Y. 2019. Phylogenomic conflict resulting from ancient introgression following species diversification in Stewartia s.l. (Theaceae). Mol Phylogenet Evol. 135:1–11.
  • 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.
  • Minh BQ, Schmidt HA, Chernomor O, Schrempf D, Woodhams MD, von Haeseler A, Lanfear R. 2020. IQ-TREE 2: new models and efficient methods for phylogenetic inference in the genomic era. Mol Biol Evol. 37:1530–1534.
  • Ming T, Bartholomew B. 2007. Stewartia. In: Wu ZY, Raven PH, & Hong DY, editors. Flora of China. Beijing: Science Press; St. Louis: Missouri Botanical Garden Press. 7: 424–429.
  • 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: W65–W73.
  • Wen J. 1999. Evolution of eastern Asia and eastern North American disjunct distributions in flowering plants. Annu Rev Ecol Evol Syst. 30:421–455.
  • Zhang Q, Zhao L, Folk RA, Zhao J, Zamora NA, Yang S, Soltis DE, Soltis PS, Gao L, Peng H, et al. 2022. Phylotranscriptomics of Theaceae: generic-level relationships, reticulation and whole-genome duplication. Ann Bot. 129:457–471.