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Plastome Report

The complete chloroplast genome sequence of Zygophyllum brachypterum (Zygophyllaceae) reveals its distinctive characteristics and evolutionary implication

ORCID Icon, ORCID Icon, & ORCID Icon
Pages 1351-1355 | Received 06 Jul 2023, Accepted 24 Nov 2023, Published online: 08 Dec 2023

References

  • Ahmad W, Asaf S, Al-Rawahi A, Al-Harrasi A, Khan AL. 2023. Comparative plastome genomics, taxonomic delimitation and evolutionary divergences of Tetraena hamiensis var. qatarensis and Tetraena simplex (Zygophyllaceae). Sci Rep. 13(1):7436. doi: 10.1038/s41598-023-34477-1.
  • Al-Juhani WS, Alharbi SA, Al Aboud NM, Aljohani AY. 2022. Complete chloroplast genome of the desert date (Balanites aegyptiaca (L.) Del. comparative analysis, and phylogenetic relationships among the members of Zygophyllaceae. BMC Genomics. 23(1):626. doi: 10.1186/s12864-022-08850-9.
  • Banerjee A, Schneider AC, Stefanovi S. 2022. Plastid genomes of the hemiparasitic genus Krameria (Zygophyllales) are intact and exhibit little relaxation in selection. Int J Plant Sci. 183(5):393–403. doi: 10.1086/719959.
  • Blazier JC, Guisinger MM, Jansen RK. 2011. Recent loss of plastid-encoded ndh genes within Erodium (Geraniaceae). Plant Mol Biol. 76(3–5):263–272. doi: 10.1007/s11103-011-9753-5.
  • Gonçalves DJP, Simpson BB, Ortiz EM, Shimizu GH, Jansen RK. 2019a. Incongruence between gene trees and species trees and phylogenetic signal variation in plastid genes. Mol Phylogenet Evol. 138:219–232. doi: 10.1016/j.ympev.2019.05.022.
  • Gonçalves DJP, Simpson BB, Shimizu GH, Jansen RK, Ortiz EM. 2019b. Genome assembly and phylogenomic data analyses using plastid data: contrasting species tree estimation methods. Data Brief. 25:104271. doi: 10.1016/j.dib.2019.104271.
  • Goremykin VV, Hirsch-Ernst KI, Wolfl S, Hellwig FH. 2003. Analysis of the Amborella trichopoda chloroplast genome sequence suggests that amborella is not a basal angiosperm. Mol Biol Evol. 20(9):1499–1505. doi: 10.1093/molbev/msg159.
  • 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.
  • Lefèvre I, Vogel-Mikuš K, Jeromel L, Vavpetič P, Planchon S, Arčon I, Van Elteren JT, Lepoint G, Gobert S, Renaut J, et al. 2014. Differential cadmium and zinc distribution in relation to their physiological impact in the leaves of the accumulating Zygophyllum fabago L. Plant Cell Environ. 37(6):1299–1320. doi: 10.1111/pce.12234.
  • Parraga-Aguado I, Gonzalez-Alcaraz MN, Alvarez-Rogel J, Jimenez-Carceles FJ, Conesa HM. 2013. The importance of edaphic niches and pioneer plant species succession for the phytomanagement of mine tailings. Environ Pollut. 176:134–143. doi: 10.1016/j.envpol.2013.01.023.
  • Ranwez V, Douzery EJP, Cambon C, Chantret N, Delsuc F. 2018. MACSE v2: toolkit for the alignment of coding sequences accounting for frameshifts and stop codons. Mol Biol Evol. 35(10):2582–2584. doi: 10.1093/molbev/msy159.
  • 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.
  • Wakasugi T, Tsudzuki J, Ito S, Nakashima K, Tsudzuki T, Sugiura M. 1994. Loss of all ndh genes as determined by sequencing the entire chloroplast genome of the black pine Pinus thunbergii. Proc Natl Acad Sci USA. 91(21):9794–9798. doi: 10.1073/pnas.91.21.9794.
  • Wang J, Jiang X, Zhao CF, Fang ZM, Jiao PP. 2020. Transcriptomic and metabolomic analysis reveals the role of CoA in the salt tolerance of Zygophyllum spp. BMC Plant Biol. 20(1):9. doi: 10.1186/s12870-019-2226-8.
  • Wang N, Wang S, Zhang L, Chang ZY. 2022a. The complete chloroplast genome sequence of Zygophyllum kansuense Y. X. Liou (Zygophyllaceae). Mitochondrial DNA B Resour. 7(10):1864–1866. doi: 10.1080/23802359.2022.2135396.
  • Wang XY, Dorjee T, Chen YR, Gao F, Zhou YJ. 2022b. The complete chloroplast genome sequencing analysis revealed an unusual IRs reduction in three species of subfamily Zygophylloideae. PLoS One. 17(2):e0263253. doi: 10.1371/journal.pone.0263253.
  • Wu FH, Chan MT, Liao DC, Hsu CT, Lee YW, Daniell H, Duvall MR, Lin CS. 2010. Complete chloroplast genome of Oncidium Gower Ramsey and evaluation of molecular markers for identification and breeding in Oncidiinae. BMC Plant Biol. 10(1):68. doi: 10.1186/1471-2229-10-68.
  • Wu SD, Zhang LJ, Lin L, Yu SX, Chen ZD, Wang W. 2018. Insights into the historical assembly of global dryland floras: the diversification of Zygophyllaceae. BMC Evol Biol. 18(1):166. doi: 10.1186/s12862-018-1277-z.
  • Xiang CY, Gao FL, Jakovlić I, Lei HP, Hu Y, Zhang H, Zou H, Wang GT, Zhang D. 2023. Using PhyloSuite for molecular phylogeny and tree‐based analyses. Imeta. 2(1):e87. doi: 10.1002/imt2.87.
  • Xu HM, Fu WR, Xie W, Wang YG, Zhang YF. 2020. The complete chloroplast genomes of two species of Zygophyllum (Zygophyllaceae). Mitochondrial DNA B Resour. 5(3):3476–3477. doi: 10.1080/23802359.2020.1825132.
  • Yan JK, Zhang N, Duan Y. 2019. The complete chloroplast genome sequence of Tribulus terrestris, an important traditional Chinese medicine. Mitochondrial DNA B Resour. 4(2):3108–3109. doi: 10.1080/23802359.2019.1667891.
  • Yang SM, Furukawa I. 2006. Anatomical adaptations of three species of Chinese xerophytes (Zygophyllaceae). J of for Res. 17(3):247–251. doi: 10.1007/s11676-006-0056-7.
  • Zhang D, Gao FL, 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.