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Mitogenome Announcement

Chloroplast phylogenomics of Calocedrus (Cupressaceae)

ORCID Icon
Pages 1435-1436 | Received 26 Feb 2019, Accepted 13 Mar 2019, Published online: 09 Apr 2019

References

  • Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M, Kulikov AS, Lesin VM, Nikolenko SI, Pham S, Prjibelski AD, et al. 2012. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol. 19:455–477.
  • Farjon A. 2005. A monograph of Cupressaceae and Sciadopitys. Edinburgh (UK): Royal Botanic Gardens.
  • Katoh K, Standley DM. 2013. MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol. 30:772–780.
  • 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. 28:1647–1649.
  • Langmead B, Salzberg SL. 2012. Fast gapped-read alignment with Bowtie 2. Nat Methods. 9:357–359.
  • Liu F, Jin Z, Wang Y, Bi YP, Melton JT. 2017. Plastid genome of Dictyopteris divaricata (Dictyotales, Phaeophyceae): understanding the evolution of plastid genomes in brown algae. Mar Biotechnol. 19:627–637.
  • Lohse M, Drechsel O, Kahlau S, Bock R. 2013. OrganellarGenomeDRAW-a suite of tools for generating physical maps of plastid and mitochondrial genomes and visualizing expression data sets. Nucleic Acids Res. 41:W575–W581.
  • Neale DB, Marshall KA, Harry DE. 1991. Inheritance of chloroplast and mitochondrial DNA in incense-cedar (Calocedrus decurrens). Can J Forest Res. 21:717–720.
  • Qu X-J. 2019. Complete plastome sequence of an endangered species, Calocedrus rupestris (Cupressaceae). Mitochondrial DNA B. 4:762–763.
  • Qu X-J, Jin J-J, Chaw S-M, Li D-Z, Yi T-S. 2017. Multiple measures could alleviate long-branch attraction in phylogenomic reconstruction of Cupressoideae (Cupressaceae). Sci Rep. 7:41005.
  • Qu X-J, Wu C-S, Chaw S-M, Yi T-S. 2017. Insights into the existence of isomeric plastomes in Cupressoideae (Cupressaceae). Genome Biol Evol. 9:1110–1119.
  • Stamatakis A. 2014. RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics. 30:1312–1313.
  • Wang HY, Jiang DF, Huang YH, Wang PM, Li T. 2013. Study on the phylogeny of Nephroma helveticum and allied species. Mycotaxon. 125:263–275. English.
  • Wick RR, Schultz MB, Zobel J, Holt KE. 2015. Bandage: interactive visualization of de novo genome assemblies. Bioinformatics. 31:3350–3352.