1887

Abstract

This study describes the biochemical and phylogenetic characteristics of a Gram-negative strain, SNU WT1, isolated from rainbow trout kidney. The 16S rRNA gene sequencing indicated that strain SNU WT1 was highly similar to CCOS 864 and closely related to other -related strains. Multilocus sequence analysis of concatenated partial and sequences revealed that strain SNU WT1 was distinct from -related strains and formed a separate clade. The average nucleotide identity and Genome-to-Genome Distance Calculator values were 90.19 and 41.7 %with its closest relative CCOS 864; however, it was phenotypically distinct from CCOS 864 with respect to arginine dihydrolase, glucose fermentation, aesculin hydrolysis and -acetyl-glucosamine assimilation. The major polar lipid of the strain was phosphatidylethanolamine and the major quinone was Q-9. The genome of strain SNU WT1 had 5 685 196 bp with a G+C content of 61.83 mol%. We describe a novel species of genus , for which the name has been proposed, with SNU WT1 (=KCTC 72265=JCM 33436) as the type strain.

Keyword(s): MLSA , Pseudomonas and rainbow trout
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/content/journal/ijsem/10.1099/ijsem.0.003696
2019-12-01
2019-12-11
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References

  1. Kersters K, Ludwig W, Vancanneyt M, de Vos P, Gillis M et al. Recent changes in the classification of the Pseudomonads: an overview. Syst Appl Microbiol 1996;19:465–477 [CrossRef]
    [Google Scholar]
  2. Scales BS, Dickson RP, Lipuma JJ, Huffnagle GB. Microbiology, genomics, and clinical significance of the Pseudomonas fluorescens species complex, an unappreciated colonizer of humans. Clin Microbiol Rev 2014;27:927–948 [CrossRef][PubMed]
    [Google Scholar]
  3. Silby MW, Winstanley C, Godfrey SAC, Levy SB, Jackson RW. Pseudomonas genomes: diverse and adaptable. FEMS Microbiol Rev 2011;35:652–680 [CrossRef][PubMed]
    [Google Scholar]
  4. Gellatly SL, Hancock RE. Pseudomonas aeruginosa: new insights into pathogenesis and host defenses. Pathog Dis 2013;67:159–173 [CrossRef][PubMed]
    [Google Scholar]
  5. Dumas JL, van Delden C, Perron K, Köhler T. Analysis of antibiotic resistance gene expression in Pseudomonas aeruginosa by quantitative real-time-PCR. FEMS Microbiol Lett 2006;254:217–225 [CrossRef][PubMed]
    [Google Scholar]
  6. Kittinger C, Lipp M, Baumert R, Folli B, Koraimann G et al. Antibiotic resistance patterns of Pseudomonas spp. isolated from the river danube. Front Microbiol 2016;7:586 [CrossRef][PubMed]
    [Google Scholar]
  7. Nishimori E, Kita-Tsukamoto K, Wakabayashi H. Pseudomonas plecoglossicida sp. nov., the causative agent of bacterial haemorrhagic ascites of ayu, Plecoglossus altivelis. Int J Syst Evol Microbiol 2000;50:83–89 [CrossRef][PubMed]
    [Google Scholar]
  8. Frank JA, Reich CI, Sharma S, Weisbaum JS, Wilson BA et al. Critical evaluation of two primers commonly used for amplification of bacterial 16S rRNA genes. Appl Environ Microbiol 2008;74:2461–2470 [CrossRef][PubMed]
    [Google Scholar]
  9. Moore ERB, Mau M, Arnscheidt A, Böttger EC, Hutson RA et al. The determination and comparison of the 16s rRNA gene sequences of species of the genus Pseudomonas (sensu stricto and estimation of the natural intrageneric relationships. Syst Appl Microbiol 1996;19:478–492 [CrossRef]
    [Google Scholar]
  10. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG et al. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997;25:4876–4882 [CrossRef][PubMed]
    [Google Scholar]
  11. Kearse M, Moir R, Wilson A, Stones-Havas S, Cheung M et al. Geneious basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics 2012;28:1647–1649 [CrossRef][PubMed]
    [Google Scholar]
  12. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016;33:1870–1874 [CrossRef][PubMed]
    [Google Scholar]
  13. Gao J, Xie G, Peng F, Xie Z. Pseudomonas donghuensis sp. nov., exhibiting high-yields of siderophore. Antonie van Leeuwenhoek 2015;107:83–94 [CrossRef][PubMed]
    [Google Scholar]
  14. Tvrzová L, Schumann P, Spröer C, Sedlácek I, Pácová Z et al. Pseudomonas moraviensis sp. nov. and Pseudomonas vranovensis sp. nov., soil bacteria isolated on nitroaromatic compounds, and emended description of Pseudomonas asplenii. Int J Syst Evol Microbiol 2006;56:2657–2663 [CrossRef][PubMed]
    [Google Scholar]
  15. Rutz D, Frasson D, Sievers M, Blom J, Rezzonico F et al. High-quality draft genome sequence of Pseudomonas wadenswilerensis CCOS 864(T). Microbiol Resour Announc 2018;16:
    [Google Scholar]
  16. Yamamoto S, Kasai H, Arnold DL, Jackson RW, Vivian A et al. Phylogeny of the genus Pseudomonas: intrageneric structure reconstructed from the nucleotide sequences of gyrB and rpoD genes. Microbiology 2000;146:2385–2394 [CrossRef][PubMed]
    [Google Scholar]
  17. Frasson D, Opoku M, Picozzi T, Torossi T, Balada S et al. Pseudomonas wadenswilerensis sp. nov. and Pseudomonas reidholzensis sp. nov., two novel species within the Pseudomonas putida group isolated from forest soil. Int J Syst Evol Microbiol 2017;67:2853–2861 [CrossRef][PubMed]
    [Google Scholar]
  18. Poblete-Castro I, Becker J, Dohnt K, dos Santos VM, Wittmann C. Industrial biotechnology of Pseudomonas putida and related species. Appl Microbiol Biotechnol 2012;93:2279–2290 [CrossRef]
    [Google Scholar]
  19. Mulet M, Sánchez D, Lalucat J, Lee K, García-Valdés E et al. Pseudomonas alkylphenolica sp. nov., a bacterial species able to form special aerial structures when grown on p-cresol. Int J Syst Evol Microbiol 2015;65:4013–4018 [CrossRef][PubMed]
    [Google Scholar]
  20. Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013;14:60 [CrossRef][PubMed]
    [Google Scholar]
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