1887

Abstract

A genome-based phylogeny of the publicly available genomes of the genus reveals that YIM 90130 is closely related to DSM 44494. Overall genome relatedness indices between the genomes of the two species were above the threshold values necessary for defining a new species (dDDH, 82.9 %; ANIb, 97.8 %; ANIm, 98.3 %; AAI, 97.7 %). Both species showed a similar G+C content of 73.6 mol% in their genomes. Considering the high similarity between the genomes of the two species, we propose that Li . 2006 should be reclassified as a later heterotypic synonym of Al-Tai and Ruan 1994.

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/content/journal/ijsem/10.1099/ijsem.0.003721
2019-09-19
2019-10-16
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References

  1. Li H-W, Zhi X-Y, Yao J-C, Zhou Y, Tang S-K et al. Comparative genomic analysis of the genus Nocardiopsis provides new insights into its genetic mechanisms of environmental adaptability. PLoS One 2013;8:e61528 [CrossRef]
    [Google Scholar]
  2. Stamatakis A. RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 2014;30:1312–1313 [CrossRef]
    [Google Scholar]
  3. Li W-J KRM, Wang D, Tang S-K, Lee J-C et al. Five novel species of the genus Nocardiopsis isolated from hypersaline soils and emended description of Nocardiopsis salina Li, et al. Int J Syst Evol Microbiol 2004;2006:1089–1096
    [Google Scholar]
  4. Meier-Kolthoff JP, Auch AF, Klenk H-P, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013;14:60 [CrossRef]
    [Google Scholar]
  5. Altschul S et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997;25:3389–3402 [CrossRef]
    [Google Scholar]
  6. Kurtz S, Phillippy A, Delcher AL, Smoot M, Shumway M et al. Versatile and open software for comparing large genomes. Genome Biol 2004;5:R12 [CrossRef]
    [Google Scholar]
  7. Richter M, Rosselló-Móra R, Oliver Glöckner F, Peplies J. JSpeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison. Bioinformatics 2016;32:929–931 [CrossRef]
    [Google Scholar]
  8. Hua ZS, Qu YN, Zhu Q, Zhou EM, Qi YL et al. Genomic inference of the metabolism and evolution of the archaeal phylum Aigarchaeota. Nat Commun 2018;9:2832 [CrossRef][PubMed]
    [Google Scholar]
  9. Al-Tai AM, Ruan J-S. Nocardiopsis halophila sp. nov., a new Halophilic Actinomycete isolated from soil. Int J Syst Bacteriol 1994;44:474–478 [CrossRef]
    [Google Scholar]
  10. Nouioui I, Carro L, García-López M, Meier-Kolthoff JP, Woyke T et al. Genome-based taxonomic classification of the phylum Actinobacteria. Front Microbiol 2007;2018:9
    [Google Scholar]
  11. Parker CT, Tindall BJ, Garrity GM. International code of nomenclature of prokaryotes. Int J Syst Evol Microbiol 2019;69:S1–S111
    [Google Scholar]
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