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Mitogenome Announcement

Comparison of eight complete plastid genomes from three moss families Amblystegiaceae, Calliergonaceae and Pylaisiaceae

ORCID Icon, , , &
Pages 3091-3093 | Received 07 Jun 2020, Accepted 27 Jun 2020, Published online: 30 Jul 2020

References

  • Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M, Kulikov AS, Lesin VM, Nikolenko SI, Pham S, Prjibelski AD, Pyshkin AV, et al. 2012. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol. 19(5):455–477.
  • Brotherus VF. 1925. Musci. In: Engler A, editor. Die Natürlichen Pflanzenfamilien, Vol. 11.Leipzig: Verlag von Wilhelm Engelmann; p. 1–542.
  • Camacho C, Coulouris G, Avagyan V, Ma N, Papadopoulos J, Bealer K, Madden TL. 2009. BLAST+: architecture and applications. BMC Bioinformatics. 10:421.
  • Forrest LL, Wickett NJ, Cox CJ, Goffinet B. 2011. Deep sequencing of Ptilidium (Ptilidiaceae) suggests evolutionary stasis in liverwort plastid genome structure. Plecevo. 144(1):29–43.
  • Frey W, Stech M. 2009. Bryophyta (Musci, Mosses). In: Frey W, editor. Syllabus of plant families A. Engler’s syllabus der pflanzenfamilien. Part 3. Bryophytes and seedless vascular plants. 13th ed. Stuttgart, Germany: Gebr. Borntraeger Verlagsbuchhandlung; p. 220–221.
  • Goffinet B, Buck WR, Shaw AJ. 2008. Morphology, anatomy, and classification of the bryophyta. In: Goffinet B and Shaw AJ, editors. Bryophyte biology. 2nd ed. Cambridge University Press, Cambridge; p. 53–138.
  • Goffinet B, Buck WR. 2004. Systematics of the Bryophyta (mosses): from molecules to a revised classification. In Goffinet B, Hollowell V, and Magill R, editor. Molecular systematics of bryophytes. Missouri Botanical Garden Press; p. 205–239.
  • Hedenäs L, Oliván G, Eldenäs P. 2005. Phylogeny of the Calliergonaceae (Bryophyta) based on molecular and morphological data. Plant Syst Evol. 252(1–2):49–61.
  • Hedenäs L, Vanderpoorten A. 2007. The Amblystegiaceae and Calliergonaceae. In: Newton AE and Tangney RS, editor. Pleurocarpous mosses: systematics and evolution. London: Taylor & Francis; p. 163–176.
  • Jin JJ, Yu WB, Yang JB, Song Y, Yi TS, Li DZ. 2018. GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes. bioRxiv 256479..
  • Kindberg NC. 1885. Table analytique des mousses pleurocarpes européennes. Revue Bryologique. 12:24–31.
  • Langmead B, Salzberg SL. 2012. Fast gapped-read alignment with Bowtie 2. Nat Methods. 9(4):357–359.
  • Liu Y, Johnson MG, Cox CJ, Medina R, Devos N, Vanderpoorten A, Hedenäs L, Bell NE, Shevock JR, Aguero B, et al. 2019. Resolution of the ordinal phylogeny of mosses using targeted exons from organellar and nuclear genomes. Nat Commun. 10(1):1485.
  • Nakamura T, Yamada DK, Tomii K, Katoh K. 2018. Parallelization of MAFFT for large-scale multiple sequence alignments. Bioinformatics. 34(14):2490–2492.
  • Park M, Park H, Lee H, Lee BH, Lee J. 2018. The complete plastome sequence of an antarctic bryophyte Sanionia uncinata (Hedw.) loeske. IJMS. 19(3):709.
  • Paulo EC, Micheline CS, Diego KH, Juan G, María TG, Diana RP, Michael S. 2018. Pylaisiaceae Schimp. (Bryophyta) revisited. J Bryol. 40(3):1–14.
  • Qu XJ, Moore MJ, Li DZ, Yi TS. 2019. PGA: a software package for rapid, accurate, and flexible batch annotation of plastomes. Plant Methods. 15:50.
  • Roth G. 1899. Uebersicht über die familie der Hypnaceen. Hedwigia, Beiblatt. 1:3–8.
  • Stamatakis A. 2014. RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics. 30(9):1312–1313.
  • Vanderpoorten A, Goffinet B, HedenäS L, Cox CJ, Shaw AJ. 2003. A taxonomic reassessment of the Vittiaceae (Hypnales, Bryopsida): evidence from phylogenetic analyses of combined chloroplast and nuclear sequence data. Plant Syst Evol. 241(1–2):1–12.
  • Vanderpoorten A, Hedenäs L, Cox C, Shaw AJ. 2002a. Circumscription, classification, and taxonomy of Amblystegiaceae (Bryopsida) inferred from nuclear and chloroplast DNA sequence data and morphology. Taxon. 51(1):115–122.
  • Vanderpoorten A, Hedenäs L, Cox C, Shaw AJ. 2002b. Phylogeny and morphological evolution of the Amblystegiaceae (Bryopsida). Mol Phylogenet Evol. 23(1):1–21.
  • Vitt DH. 1984. Classification of the Bryopsida. In: Schuster RM, editor. New manual of bryology, Vol. 2. Miyazaki: Hattori Botanical Laboratory; p. 696–759.