The complete chloroplast genome of Ziziphus mairei Dode 1908 (Rhamnaceae), an endangered perennial plant in Yunnan, China

References

• Asaf S, Ahmad W, Al-Harrasi A, Khan AL. 2022. Uncovering the first complete plastome genomics, comparative analyses, and phylogenetic dispositions of endemic medicinal plant Ziziphus hajarensis (Rhamnaceae). BMC Genomics. 23(1):83. doi: 10.1186/s12864-022-08320-2.
   PubMed Web of Science ®Google Scholar
• Dierckxsens N, Mardulyn P, Smits G. 2017. NOVOPlasty: denovo assembly of organelle genomes from whole genome data. Nucleic Acids Res. 45(4):e18. doi: 10.1093/nar/gkw955.
   PubMed Web of Science ®Google Scholar
• Du SJ, Fang R. 1989. A rare and endangered plant, Ziziphus mairei, was discovered in Wenshan prefecture. Yunnan Forestry. 6:22.
   Google Scholar
• Guindon S, Dufayard JF, Lefort V, Anisimova M, Hordijk W, Gascuel O. 2010. New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol. 59(3):307–321. doi: 10.1093/sysbio/syq010.
   PubMed Web of Science ®Google Scholar
• Hoang DT, Chernomor O, von Haeseler A, Minh BQ, Vinh LS. 2018. UFBoot2: improving the ultrafast bootstrap approximation. Mol Biol Evol. 35(2):518–522. doi: 10.1093/molbev/msx281.
   PubMed Web of Science ®Google Scholar
• Huang J, Chen R, Li X. 2017. Comparative analysis of the complete chloroplast genome of four known Ziziphus Species. Genes . 8(12):340. doi: 10.3390/genes8120340.
   PubMed Web of Science ®Google Scholar
• Jin D-P, Park J-W, Park J-S, Choi B-H.,. 2020. The complete plastid genome of Rhamnus taquetii, an endemic shrub on the Jeju Island of Korea . Mitochondrial DNA Part B Resour. 5(1):924–926. doi: 10.1080/23802359.2020.1719933.
   PubMed Web of Science ®Google Scholar
• Kalyaanamoorthy S, Minh BQ, Wong TKF, von Haeseler A, Jermiin LS. 2017. ModelFinder: fast model selection for accurate phylogenetic estimates. Nat Methods. 14(6):587–589. doi: 10.1038/nmeth.4285.
   PubMed Web of Science ®Google Scholar
• Katoh K, Standley DM. 2013. MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol. 30(4):772–780. doi: 10.1093/molbev/mst010.
   PubMed Web of Science ®Google Scholar
• Kearse M, Moir R, Wilson A, Stones-Havas S, Cheung M, Sturrock S, Buxton S, Cooper A, Markowitz S, Duran C, et al. 2012. Geneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics. 28(12):1647–1649. doi: 10.1093/bioinformatics/bts199.
   PubMed Web of Science ®Google Scholar
• Kyeong SC, Kyung AK, Ki OY. 2018. The complete chloroplast genome sequence of Berchemia berchemiifolia (Rhamnaceae). Mitochondrial DNA Part B Resour. 3(1):133–134.
   PubMed Web of Science ®Google Scholar
• Li B, Chen H, Chen J. 2020. The complete chloroplast genome of plant Rrhamnus heterophylla (Rhamnaceae) . Mitochondrial DNA Part B. 5(2):1850–1851. doi: 10.1080/23802359.2020.1750987.
   Web of Science ®Google Scholar
• Li J. 2021. The complete chloroplast genome sequence of Ziziphus attopensis (Rhamnaceae) and its phylogenetic analysis. Mitochondrial DNA Part B Resour. 6(10):2828–2829. doi: 10.1080/23802359.2021.1915716.
   PubMed Web of Science ®Google Scholar
• Li MW, Ye Xiao F, Bi HT. 2020. Characterization of the complete chloroplast genome of two Hovenia species (Rhamnaceae). Mitochondrial DNA Part B Resour. 5(2):1731–1732. doi: 10.1080/23802359.2020.1749177.
   Web of Science ®Google Scholar
• Li Y, Wang J, Li P, Cheng S, Wang F.,. 2019. The complete chloroplast genome sequence of Berchemiella wilsonii (Rhamnaceae), an endangered endemic species. Mitochondrial DNA Part B Resour. 4(1):452–454. doi: 10.1080/23802359.2018.1555018.
   Web of Science ®Google Scholar
• Liu D, Tong B-Q, Li W-Q, Wang L, Xian Y, Han B, Dong X, Lu Y-Z, Li W, Xie X-M, et al. 2021. The first complete chloroplast genome of Hovenia dulcis Thunb. (Rhamnaceae). Mitochondrial DNA Part B Resour. 6(3):916–917. doi: 10.1080/23802359.2021.1887772.
   PubMed Web of Science ®Google Scholar
• Lu X, Luo Q, Qin Y, Yan Q, Guo S.,. 2021. The complete chloroplast genome sequence of Ventilago leiocarpa Benth. . Mitochondrial DNA Part B Resour. 6(3):736–737. doi: 10.1080/23802359.2020.1861559.
   PubMed Web of Science ®Google Scholar
• 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.
   PubMed Web of Science ®Google Scholar
• Park JM, Koo J. 2023. The complete chloroplast genome sequence of Berchemia racemosa Siebold & Zucc. (Rhamnaceae), a rare plant species in Korea. . Mitochondrial DNA Part B Resour. 8(1):69–72. doi: 10.1080/23802359.2022.2161329.
   PubMed Web of Science ®Google Scholar
• Porebski S, Bailey LG, Baum BR. 1997. Modification of a CTAB DNA extraction protocol for plants containing high polysaccharide and polyphenol components. Plant Mol Biol Rep. 15(1):8–15. doi: 10.1007/BF02772108.
   Web of Science ®Google Scholar
• Qin H, Yang Y, Dong S, He Q, Jia Y, Zhao L, Yu S, Liu H, Liu B, Yan Y, et al. 2017. Threatened species list of China’s higher plants. Biodivers Sci. 25(7):696–744. doi: 10.17520/biods.2017144.
   Google Scholar
• Song W, Ji C, Chen Z, Cai H, Wu X, Shi C, Wang S. 2022. Comparative analysis of the complete chloroplast genomes of nine Musa species: genomic features, comparative analysis, and phylogenetic implications. Front Plant Sci. 13:832884. doi: 10.3389/fpls.2022.832884.
   PubMed Web of Science ®Google Scholar
• Shi W, Hu S, Song W, Huang Y, Shi C, Wang S. 2023. Uncovering the first complete chloroplast genomics, comparative analysis, and phylogenetic relationships of the medicinal plants Rhamnus cathartica and Frangula alnus (Rhamnaceae). Physiol Mol Biol Plants. 29(6):855–869. doi: 10.1007/s12298-023-01331-7.
   PubMed Web of Science ®Google Scholar
• Wang L, Dong WP, Zhou SL. 2012. Structural mutations and reorganizations in chloroplast genomes of flowering plants. Acta Botanica Boreali-Occidentalia Sinica. 32(06):1282–1288.
   Google Scholar
• Wanichthanarak K, Nookaew I, Pasookhush P, Wongsurawat T, Jenjaroenpun P, Leeratsuwan N, Wattanachaisaereekul S, Visessanguan W, Sirivatanauksorn Y, Nuntasaen N, et al. 2023. Revisiting chloroplast genomic landscape and annotation towards comparative chloroplast genomes of Rhamnaceae . BMC Plant Biol. 23(1):59–59. doi: 10.1186/s12870-023-04074-5.
   PubMed Web of Science ®Google Scholar
• Wang Y, Hao J, Yuan X, Lu B. 2019. The complete chloroplast genome sequence of Ziziphus incurva. Mitochondrial DNA Part B Resour. 4(2):3465–3466. doi: 10.1080/23802359.2019.1674706.
   PubMed Web of Science ®Google Scholar
• Xie X, Liu D, Wariss HM. 2020. The complete chloroplast genome of Berchemia lineata, an important medicinal plant from China. Mitochondrial DNA Part B Resour. 5(3):2904–2905. doi: 10.1080/23802359.2020.1791749.
   PubMed Web of Science ®Google Scholar
• Xie Y, Wang Z, Jiang X, Zhang X. 2020. The complete chloroplast genome of Rhamnus globosa (Rhamnaceae) . Mitochondrial DNA Part B Resour. 5(3):2830–2831. doi: 10.1080/23802359.2020.1791010.
   PubMed Web of Science ®Google Scholar
• Xu G, Xu W. 2021. Complete chloroplast genomes of Chinese wild-growing Vitis species: molecular structures and comparative and adaptive radiation analysis. Protoplasma. 258(3):559–571. doi: 10.1007/s00709-020-01585-y.
   PubMed Web of Science ®Google Scholar
• Yue ZS, Feng SM. 1991. A tree worth a try- Ziziphus mairei. Yunnan Forestry. 6:15.
   Google Scholar
• Zhang L, Mao R, Bi H, Shen J, Wang Y, Li M. 2020. Characterization of the complete chloroplast genome of Hovenia acerba (Rhamnaceae). Mitochondrial DNA Part B Resour. 5(1):934–935. doi: 10.1080/23802359.2020.1714492.
   PubMed Web of Science ®Google Scholar
• Zhu XF, Li Y, Lu ZQ. 2019. The complete chloroplast genome sequence of Berchemia flavescens (Rhamnaceae). Mitochondrial DNA Part B Resour. 4(1):1302–1303. doi: 10.1080/23802359.2019.1591240.
   Google Scholar