1887

Abstract

Eight independent isolates of a Gram-reaction-negative, non-motile rod, were recovered from clinical specimens of New York State patients between the years 2005 and 2013. Four of these isolates were characterized in a taxonomic study using a polyphasic approach that involved phenotypic, phylogenetic and genotypic methodologies. Based on 16S rRNA gene sequence similarity and phylogenetic analysis, the closest relative type strain of the isolates is HAMBI 3106 (97.7  % 16S rRNA gene sequence similarity). Among the four isolates, the 16S rRNA gene sequence similarity is 100  %. genomic comparisons, including average nucleotide identity (ANI) and the genome-to-genome distance calculator (GGDC), were used as an alternative to DNA–DNA hybridization in this study to support designation of the four isolates as a novel species of the genus . Mass spectrometry profiles were also obtained for the novel isolates using matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS). The predominant cellular fatty acids of the novel isolates were Cω7 and C. Biochemical analysis and morphological characteristics further contribute to designation of the four isolates as a novel species of the genus , for which the name sp. nov. is proposed. The type strain is 05503( = DSM 29303 = LMG 28451).

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2015-06-01
2024-04-20
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References

  1. Anisimova M., Gascuel O. ( 2006;). Approximate likelihood-ratio test for branches: a fast, accurate, and powerful alternative. Syst Biol 55 539552 [View Article] 16785212.
    [Google Scholar]
  2. Daneshvar M.I., Hollis D.G., Weyant R.S., Steigerwalt A.G., Whitney A.M., Douglas M.P., Macgregor J.P., Jordan J.G., Mayer L.W., other authors. ( 2003;). Paracoccus yeeii sp. nov. (formerly CDC group EO-2), a novel bacterial species associated with human infection. J Clin Microbiol 41 12891294 [View Article] 12624070.
    [Google Scholar]
  3. Deng Z.-S., Zhao L.-F., Xu L., Kong Z.-Y., Zhao P., Qin W., Chang J.-L., Wei G.-H. ( 2011;). Paracoccus sphaerophysae sp. nov., a siderophore-producing, endophytic bacterium isolated from root nodules of Sphaerophysa salsula . Int J Syst Evol Microbiol 61 665669 [View Article] 20400662.
    [Google Scholar]
  4. Goris J., Konstantinidis K.T., Klappenbach J.A., Coenye T., Vandamme P., Tiedje J.M. ( 2007;). DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. Int J Syst Evol Microbiol 57 8191 [View Article] 17220447.
    [Google Scholar]
  5. Guindon S., Gascuel O. ( 2003;). A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52 696704 [View Article] 14530136.
    [Google Scholar]
  6. Katayama Y., Hiraishi A., Kuraishi H. ( 1995;). Paracoccus thiocyanatus sp. nov., a new species of thiocyanate-utilizing facultative chemolithotroph, and transfer of Thiobacillus versutus to the genus Paracoccus as Paracoccus versutus comb. nov. with emendation of the genus. Microbiology 141 14691477 [View Article] 7545513.
    [Google Scholar]
  7. Kelly D.P., Rainey F.A., Wood A.P. ( 2006;). The Genus Paracoccus . . In The Prokaryotes: a Handbook on the Biology of Bacteria.. Edited by Dworkin M., Falkow S., Rosenberg E., Schleifer K.-H., Stackebrandt E. , 3rd edn.., New York: Springer;.
    [Google Scholar]
  8. Kim O.-S., Cho Y.-J., Lee K., Yoon S.-H., Kim M., Na H., Park S.-C., Jeon Y.S., Lee J.-H., other authors. ( 2012;). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62 716721 [View Article] 22140171.
    [Google Scholar]
  9. Liu Z.-P., Wang B.-J., Liu X.-Y., Dai X., Liu Y.-H., Liu S.-J. ( 2008;). Paracoccus halophilus sp. nov., isolated from marine sediment of the South China Sea, China, and emended description of genus Paracoccus Davis 1969. Int J Syst Evol Microbiol 58 257261 [View Article] 18175718.
    [Google Scholar]
  10. Meier-Kolthoff J.P., Auch A.F., Klenk H.-P., Göker M. ( 2013;). Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 14 60 [View Article] 23432962.
    [Google Scholar]
  11. Overbeek R., Olson R., Pusch G.D., Olsen G.J., Davis J.J., Disz T., Edwards R.A., Gerdes S., Parrello B., other authors. ( 2014;). The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST). Nucleic Acids Res 42 (D1), D206D214 [View Article] 24293654.
    [Google Scholar]
  12. Richter M., Rosselló-Móra R. ( 2009;). Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci U S A 106 1912619131 [View Article] 19855009.
    [Google Scholar]
  13. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. ( 2011;). mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28 27312739 [View Article] 21546353.
    [Google Scholar]
  14. Tindall B.J., Rosselló-Móra R., Busse H.-J., Ludwig W., Kämpfer P. ( 2010;). Notes on the characterization of prokaryote strains for taxonomic purposes. Int J Syst Evol Microbiol 60 249266 [View Article] 19700448.
    [Google Scholar]
  15. Wayne L.G., Brenner D.J., Colwell R.R., Grimont P.A.D., Kandler O., Krichevsky M.I., Moore L.H., Moore W.E.C., Murray R.G.E., other authors. ( 1987;). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37 463464 [View Article].
    [Google Scholar]
  16. Wolfgang W.J., Carpenter A.N., Cole J.A., Gronow S., Habura A., Jose S., Nazarian E.J., Kohlerschmidt D.J., Limberger R., other authors. ( 2011;). Neisseria wadsworthii sp. nov. and Neisseria shayeganii sp. nov., isolated from clinical specimens. Int J Syst Evol Microbiol 61 9198 [View Article] 20173010.
    [Google Scholar]
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