989
Views
0
CrossRef citations to date
0
Altmetric
Mitogenome Announcement

Complete chloroplast genome of Isoetes orientalis (Isoetaceae), an endangered quillwort from China

, , , ORCID Icon, &
Pages 342-346 | Received 01 Aug 2022, Accepted 17 Feb 2023, Published online: 28 Feb 2023

References

  • Chen JM, Wang JY, Liu X, Zhang YW, Wang QF. 2004. RAPD analysis for genetic diversity of Isoetes sinensis. Biodivers Sci. 12(3):348–353.
  • Givnish TJ, Ames M, McNeal JR, McKain MR, Steele PR, dePamphilis CW, Graham SW, Pires JC, Stevenson DW, Zomlefer WB, et al. 2010. Assembling the tree of the monocotyledons: plastome sequence phylogeny and evolution of Poales. Ann Missouri Bot Gard. 97(4):584–616.
  • Givnish TJ, Spalink D, Ames M, Lyon SP, Hunter SJ, Zuluaga A, Iles WJD, Clements MA, Arroyo MTK, Leebens-Mack J, et al. 2015. Orchid phylogenomics and multiple drivers of their extraordinary diversification. Proc R Soc B. 282(1814):20151553.
  • Jansen RK, Saski C, Lee SB, Hansen AK, Daniell H. 2011. Complete plastid genome sequences of three Rosids (Castanea, Prunus, Theobroma): evidence for at least two independent transfers of rpl22 to the nucleus. Mol Biol Evol. 28(1):835–847.
  • Jin JJ, Yu WB, Yang JB, Song Y, Yi TS, Li DZ. 2018. GetOrganelle: a simple and fast pipeline for de novo assembly of a complete circular chloroplast genome using genome skimming data. bioRxiv. 256479.
  • Kalyaanamoorthy S, Minh BQ, Wong TKF, Haeseler AV, Jermiin LS. 2017. ModelFinder: fast model selection for accurate phylogenetic estimates. Nat Methods. 14(6):587–589.
  • Kang M, Ye Q, Huang H. 2005. Genetic consequence of restricted habitat and population decline in endangered Isoetes sinensis (Isoetaceae). Ann Bot. 96(7):1265–1274.
  • 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.
  • Lam-Tung N, Schmidt HA, Arndt VH, Quang MB. 2015. IQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies. Mol Biol Evol. 32(1):268–274.
  • Liu X, Liu H, Wang QF. 2008. Spore morphology of Isoëtes (Isoëtaceae) from China. Acta Phytotaxon Sin. 446(4):479–489.
  • Liu H, Wang QF, Taylor WC. 2005. Isoetes orientalis (Isoetaceae), a new hexaploid quillwort from China. Novon. 15(1):164–167.
  • Lu JM, Zhang N, Du XY, Wen J, Li DZ. 2015. Chloroplast phylogenomics resolves key relationships in ferns. J Syst Evol. 53(5):448–457.
  • Pang XA, Liu X, Liu H, Wu C, Wang JY, Yang SX, Wang QF. 2003. The geographic distribution and habitat of the Isoetes plants in China. Biodivers Sci. 11(4):288–294.
  • Pereira JBS, Giulietti AM, Pires ES, Laux M, Watanabe MTC, Oliveira RRM, Vasconcelos S, Oliveira G. 2021. Chloroplast genomes of key species shed light on the evolution of the ancient genus Isoetes. J Syst Evol. 59(3):429–441.
  • Ross TG, Barrett CF, Soto Gomez M, Lam VK, Henriquez CL, Les DH, Davis JI, Cuenca A, Petersen G, Seberg O, et al. 2016. Plastid phylogenomics and molecular evolution of Alismatales. Cladistics. 32(2):160–178.
  • Ruhfel BR, Gitzendanner MA, Soltis PS, Soltis DE, Burleigh GJ. 2014. From algae to angiosperms – inferring the phylogeny of green plants (Viridiplantae) from 360 plastid genomes. BMC Evol Biol. 14(1):23.
  • Schafran PW, Zimmer EA, Taylor WC, Musselman LJ. 2018. A whole chloroplast genome phylogeny of diploid species of Isoetes (Isoetaceae, Lycopodiophyta) in the Southeastern United States. Castanea. 83(2):224–235.
  • Wei R, Yan YH, Harris AJ, Kang JS, Shen H, Xiang QP, Zhang XC. 2017. Plastid phylogenomics resolve deep relationships among eupolypod II ferns with rapid radiation and rate heterogeneity. Genome Biol Evol. 9(6):1646–1657.
  • Wei R, Zhang XC. 2020. Phylogeny of Diplazium (Athyriaceae) revisited: resolving the backbone relationships based on plastid genomes and phylogenetic tree space analysis. Mol Phylogenet Evol. 143:106699.
  • Wick RR, Schultz MB, Zobel J, Holt KE. 2015. Bandage: interactive visualization of de novo genome assemblies. Bioinformatics. 31(20):3350–3352.
  • Ye QG, Li JQ. 2003. Distribution status and causation of endangerment of Isoetes sinensis palmer in Zhejiang province. J Wuhan Bot Res. 21(3):216–220.
  • 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.