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Abstract

A novel bacterium, designated 19SA41, was isolated from the air of the Icelandic volcanic island Surtsey. Cells of strain 19SA41 are Gram-stain-negative, strictly aerobic, non-motile rods and form pale yellow-pigmented colonies. The strain grows at 4–30 °C (optimum, 22 °C), at pH 6–10 (optimum, pH 7.5) and with 0–4% NaCl (optimum, 0.5%). Phylogenetic analyses based on 16S rRNA gene sequences showed that 19SA41 belonged to the genus and is most similar to DSM 19743, with a sequence similarity of 96.52%. The new strain contained iso-C (22%) and summed feature 3 (Cω6c/Cω7c) (20%) as the predominant fatty acids. The major respiratory quinone was menaquinone-6 (100%). The polar lipid profile consisted of phosphatidylethanolamine and several uncharacterized amino lipids, glycolipids and lipids. The genome of the new strain was 4.01 Mbp, and its G+C content was 33.2 mol%. Based on characterization and comparative results, using a polyphasic taxonomic approach, we propose that the new isolate represents a novel species of the genus with the name sp. nov. The type strain is ISCaR-07695 (=DSM 116640 =UBOOC-M-3567).

Funding
This study was supported by the:
  • Rannís (Award 174425-051)
    • Principal Award Recipient: DaussinAurélien
  • This is an open-access article distributed under the terms of the Creative Commons Attribution License.
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2025-01-23
2026-01-17

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References

  1. Bergeh D, Harrison F, Breed R, Hammer B, Hunntoon F. Manual of Determinative Bacteriology Baltimore: Williams and Wilkins; 1923
    [Google Scholar]
  2. Parte AC, Sardà Carbasse J, Meier-Kolthoff JP, Reimer LC, Göker M. List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. Int J Syst Evol Microbiol 2020; 70:5607–5612 [View Article] [PubMed]
    [Google Scholar]
  3. Bernardet J-F, Segers P, Vancanneyt M, Berthe F, Kersters K et al. Cutting a gordian knot: emended classification and description of the genus Flavobacterium, emended description of the family Flavobacteriaceae, and proposal of Flavobacterium hydatis nom. nov. (Basonym, Cytophaga aquatilis strohl and Tait 1978). Int J Syst Bacteriol 1996; 46:128–148 [View Article]
    [Google Scholar]
  4. Dong K, Chen F, Du Y, Wang G. Flavobacterium enshiense sp. nov., isolated from soil, and emended descriptions of the genus Flavobacterium and Flavobacterium cauense, Flavobacterium saliperosum and Flavobacterium suncheonense. Int J Syst Evol Microbiol 2013; 63:886–892 [View Article] [PubMed]
    [Google Scholar]
  5. Kang JY, Chun J, Jahng KYFASpNov. Flavobacterium aciduliphilum sp. nov., isolated from freshwater, and emended description of the genus Flavobacterium. Int J Syst Evol Microbiol 2013; 63:1633–1638 [View Article]
    [Google Scholar]
  6. Kuo I, Saw J, Kapan DD, Christensen S, Kaneshiro KY et al. Flavobacterium akiainvivens sp. nov., from decaying wood of Wikstroemia oahuensis, Hawai’i, and emended description of the genus Flavobacterium. Int J Syst Evol Microbiol 2013; 63:3280–3286 [View Article] [PubMed]
    [Google Scholar]
  7. Bernardet J, Bowman J. The Genus Flavobacterium. The Prokaryotes: A Handbook on the Biology of Bacteria, 3rd. edn 2006 pp 481–531
    [Google Scholar]
  8. Declercq AM, Haesebrouck F, Van den Broeck W, Bossier P, Decostere A. Columnaris disease in fish: a review with emphasis on bacterium-host interactions. Vet Res 2013; 44:27 [View Article] [PubMed]
    [Google Scholar]
  9. Ratner H. Flavobacterium meningosepticum. Infect Control 1984; 5:237–239 [PubMed]
    [Google Scholar]
  10. Daussin A, Vannier P, Ménager M, Daboussy L, Šantl-Temkiv T et al. Comparison of atmospheric and lithospheric culturable bacterial communities from two dissimilar active volcanic sites, Surtsey Island and Fimmvörðuháls Mountain in Iceland. Microorganisms 2023; 11:665 [View Article] [PubMed]
    [Google Scholar]
  11. N.d; UNESCO-world heritage convention surtsey.
  12. Reasoner DJ, Geldreich EE. A new medium for the enumeration and subculture of bacteria from potable water. Appl Environ Microbiol 1985; 49:1–7 [View Article] [PubMed]
    [Google Scholar]
  13. Andrew S. FastQC: a quality control tool for high throughput sequence data; 2010 http://www.bioinformatics.babraham.ac.uk/projects/fastqc
  14. Bolger AM, Lohse M, Usadel B. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 2014; 30:2114–2120 [View Article] [PubMed]
    [Google Scholar]
  15. Nurk S, Bankevich A, Antipov D, Gurevich A, Korobeynikov A et al. Assembling genomes and mini-metagenomes from highly chimeric reads; 2013 pp 158–170
  16. Gurevich A, Saveliev V, Vyahhi N, Tesler GQ. QUAST: quality assessment tool for genome assemblies. Bioinformatics 2013; 29:1072–1075 [View Article] [PubMed]
    [Google Scholar]
  17. Lagesen K, Hallin P, Rødland EA, Staerfeldt H-H, Rognes T et al. RNAmmer: consistent and rapid annotation of ribosomal RNA genes. Nucleic Acids Res 2007; 35:3100–3108 [View Article] [PubMed]
    [Google Scholar]
  18. Ha SM, Kim CK, Roh J, Byun JH, Yang SJ et al. Application of the whole genome-based bacterial identification system, truebac ID, using clinical isolates that were not identified with three matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) systems. Ann Lab Med 2019; 39:530–536 [View Article] [PubMed]
    [Google Scholar]
  19. Yoon SH, Ha SM, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: a taxonomically united database of 16S RRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 2017; 67:1613–1617 [View Article] [PubMed]
    [Google Scholar]
  20. Meier-Kolthoff JP, Carbasse JS, Peinado-Olarte RL, Göker M. TYGS and LPSN: a database tandem for fast and reliable genome-based classification and nomenclature of prokaryotes. Nucleic Acids Res 2022; 50:D801–D807 [View Article] [PubMed]
    [Google Scholar]
  21. Seemann T. Prokka: rapid prokaryotic genome annotation. Bioinformatics 2014; 30:2068–2069 [View Article] [PubMed]
    [Google Scholar]
  22. Overbeek R, Olson R, Pusch GD, Olsen GJ, Davis JJ et al. The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST). Nucleic Acids Res 2014; 42:D206–14 [View Article] [PubMed]
    [Google Scholar]
  23. Edgar RC. MUSCLE: a multiple sequence alignment method with reduced time and space complexity. BMC Bioinf 2004; 5:113 [View Article] [PubMed]
    [Google Scholar]
  24. Kumar S, Stecher G, Li M, Knyaz C, Tamura K. MEGA X: molecular evolutionary genetics analysis across computing platforms. Mol Biol Evol 2018; 35:1547–1549 [PubMed]
    [Google Scholar]
  25. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425 [View Article] [PubMed]
    [Google Scholar]
  26. Kannan L, Wheeler WC. Maximum Parsimony on Phylogenetic networks. Algorithms Mol Biol 2012; 7:9 [View Article] [PubMed]
    [Google Scholar]
  27. Haynes W. Maximum likelihood estimation. In Encyclopedia of Systems Biology Springer New York: New York, NY: 2013 pp 1190–1191
    [Google Scholar]
  28. Vancanneyt M, Segers P, Torck U, Hoste B, Bernardet JF et al. Reclassification of Flavobacterium odoratum (Stutzer 1929) strains to a new genus, Myroides, as Myroides odoratus comb. nov. and Myroides odoratimimus sp. nov. Int J Syst Bacteriol 1996; 46:926–932 [View Article]
    [Google Scholar]
  29. McCammon SA, Bowman JP. Taxonomy of antarctic Flavobacterium species: description of Flavobacterium gillisiae sp. nov., Flavobacterium tegetincola sp. nov., and Flavobacterium xanthum sp. nov., nom. rev. and reclassification of [Flavobacterium] Salegens as Salegentibacter salegens gen. nov., comb. nov. Int J Syst Evol Microbiol 2000; 50 Pt 3:1055–1063 [View Article] [PubMed]
    [Google Scholar]
  30. Goris J, Konstantinidis KT, Klappenbach JA, Coenye T, Vandamme P et al. DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. Int J Syst Evol Microbiol 2007; 57:81–91 [View Article] [PubMed]
    [Google Scholar]
  31. 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] [PubMed]
    [Google Scholar]
  32. Kim M, Oh H-S, Park S-C, Chun J. Towards a taxonomic coherence between average nucleotide identity and 16S RRNA gene sequence similarity for species demarcation of prokaryotes. Int J Syst Evol Microbiol 2014; 64:346–351 [View Article] [PubMed]
    [Google Scholar]
  33. Itoh Y, Nakada Y. Arginine and polyamine metabolism. In Pseudomonas; Springer US Boston, MA: 2004 pp 243–272
    [Google Scholar]
  34. Satiaputra J, Shearwin KE, Booker GW, Polyak SW. Mechanisms of biotin-regulated gene expression in microbes. Synth Syst Biotechnol 2016; 1:17–24 [View Article] [PubMed]
    [Google Scholar]
  35. Khasheii B, Mahmoodi P, Mohammadzadeh A. Siderophores: importance in bacterial pathogenesis and applications in medicine and industry. Microbiol Res 2021; 250:126790 [View Article] [PubMed]
    [Google Scholar]
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