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Abstract

Six Gram negative, motile bacteria were isolated from rainbow trout (). The 16S rRNA sequence similarity values grouped them in the (strains P49, P50, 154a and P154b), (strain P115) and (strain P155) phylogenetic subgroups in the genus . The DNA G+C content ranged from 58.5 to 60 mol%. The strains were characterized phenotypically using API 20NE and Biolog GENIII tests, and chemotaxonomically by their whole-cell MALDI-TOF MS protein profiles and fatty acid contents. Multi-locus sequence analysis with four housekeeping gene sequences (, , and 16S rRNA) together with genome comparisons by average nucleotide identity and genome-to-genome distance calculations were performed. Results showed that the similarity values of these strains to known species type strains were lower than the thresholds established for species in the genus . Based on these data, we concluded that strains P49, P50, P115, P154a, P154b and P155 belonged to four novel species. The names proposed are: sp. nov. for strains P49 and P50 with P50 (=CECT 30175=CCUG 74871) as the type strain; sp. nov. for strain P115 (CECT 30173=CCUG 74873) sp. nov. for strains P154a and P154b with P154a (=CECT 30177=CCUG 74874) as the type strain; and sp. nov. for strain P155 (=CECT 30178=CCUG 74875).

Funding
This study was supported by the:
  • Scientific and Technological Research Council of Turkey (Award TUBITAK No 118O420)
    • Principle Award Recipient: NotApplicable
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2021-02-25
2024-03-28
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References

  1. Öztürk. Bacterial and viral fish diseases in Turkey. Turkish J Fish Aquat Sci 2014; 14:275–297
    [Google Scholar]
  2. Duman M, Saticioglu IB, Janda JM, Altun S. The determination of the infectious status and prevalence of motile Aeromonas species isolated from disease cases in rainbow trout (Oncorhynchus mykiss) and aquarium fish. J Fish Dis 2018; 41:1843–1857 [View Article][PubMed]
    [Google Scholar]
  3. Saticioglu IB, Duman M, Wiklund T, Altun S. Serological and genetic characterization of Flavobacterium psychrophilum isolated from farmed salmonids in Turkey. J Fish Dis 2018; 41:1899–1908 [View Article][PubMed]
    [Google Scholar]
  4. Duman M, Mulet M, Saticioglu IB, Altun S, Gomila M et al. Pseudomonas sivasensis sp. nov. isolated from farm fisheries in Turkey. Syst Appl Microbiol 2020; 43:126103 [View Article][PubMed]
    [Google Scholar]
  5. OIE Fish Diseases Commission Diagnostic manual for aquatic animal diseases; 2000
  6. Lalucat J, Mulet M, Gomila M, García-Valdés E. Genomics in bacterial taxonomy: impact on the genus Pseudomonas . Genes 2020; 11:139 [View Article][PubMed]
    [Google Scholar]
  7. Mulet M, Lalucat J, García-Valdés E. DNA sequence-based analysis of the Pseudomonas species. Environ Microbio l 2010; 12:1513–1530
    [Google Scholar]
  8. Jukes T, Cantor C. Evolution of protein molecules. In Munro HN. editor Mammalian Protein Metabolism New York: Academic Press; 1969 pp 21–132
    [Google Scholar]
  9. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article][PubMed]
    [Google Scholar]
  10. Nei M, Kumar S. Molecular Evolution and Phylogenetics New York: Oxford University Press; 2000
    [Google Scholar]
  11. Kosina M, Černohlávková J, Barták M, Snopková K et al. Description of Pseudomonas gregormendelii sp. nov., a novel psychrotrophic bacterium from James Ross Island, Antarctica. Curr Microbiol 2016; 73:84–90 [View Article]
    [Google Scholar]
  12. Alanjary M, Steinke K, Ziemert N. AutoMLST: an automated web server for generating multi-locus species trees highlighting natural product potential. Nucleic Acids Res 2019; 47:W276–W282 [View Article][PubMed]
    [Google Scholar]
  13. Tatusova T, DiCuccio M, Badretdin A, Chetvernin V, Nawrocki EP et al. NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res 2016; 44:6614–6624 [View Article][PubMed]
    [Google Scholar]
  14. Palleroni NJ. Pseudomonas. In Brenner DJ, Krieg NR, Staley JT. (editors) Bergey’s Manual of Systematic Bacteriology 2, 2nd ed. New York: Springer; 2005 pp 323–379
    [Google Scholar]
  15. Gomila M, Peña A, Mulet M, Lalucat J, García-Valdés E. Phylogenomics and systematics in Pseudomonas . Front Microbiol 2015; 6:214 [View Article][PubMed]
    [Google Scholar]
  16. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci U S A 2009; 106:19126–19131 [View Article]
    [Google Scholar]
  17. 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 [View Article][PubMed]
    [Google Scholar]
  18. Barrow G, Feltham R. Cowan and Steel’s Manual for the Identification of Medical Bacteria, 3rd ed. Cambridge: Cambridge University Press; 1993
    [Google Scholar]
  19. Lalucat J. Analysis of refractile (R) bodies. In Mayer F. editor Methods in Microbiology –Electron Microscopy in Microbiology 20 London: Academic Press; 1988 pp 79–90
    [Google Scholar]
  20. Lamichhane JR, Varvaro L. A new medium for the detection of fluorescent pigment production by pseudomonads. Plant Pathol 2013; 62:624–632 [View Article]
    [Google Scholar]
  21. Sánchez D, Mulet M, Rodríguez AC, David Z, Lalucat J et al. Pseudomonas aestusnigri sp. nov., isolated from crude oil-contaminated intertidal sand samples after the prestige oil spill. Syst Appl Microbiol 2014; 37:89–94 [View Article][PubMed]
    [Google Scholar]
  22. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.; 1990
    [Google Scholar]
  23. MIDI Sherlock Microbial Identification System Operating Manual, version 6 1 Newark, DE: MIDI Inc; 2008
    [Google Scholar]
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