1887

Abstract

A novel hyperthermophilic, acidophilic and facultatively anaerobic archaeon, strain KN-1, was isolated from Unzen hot spring in Japan and characterized. The cells of KN-1 were irregular cocci with a diameter of 1.0–3.0 µm that grew at 55–87.5 °C (optimum: 75 °C) and pH 1.0–5.5 (optimum: 3.0). Chemolithoautotrophic growth of KN-1 occurred in the presence of S or H under oxic conditions. Under anoxic conditions, KN-1 grew with S, ferric citrate and FeCl as electron acceptors. A phylogenetic analysis of 16S rRNA gene sequences showed that the species most closely related to KN-1 was JCM 9 021, with 98.9 % sequence identity, indicating that strain KN-1 belongs to the genus . This genus has been considered to consist of obligate anaerobes since its description in 1991. However, KN-1 grew under oxic, microoxic and anoxic conditions. Moreover, KN-1utilized various complex substrates and some sugars as carbon or energy sources, which is also different from JCM 9 021. The average nucleotide identity and amino acid identity values between KN-1 and JCM 9 021 were 79.4 and 76.1 %, respectively, indicating that KN-1 represents a novel species. Its main polar lipids were calditoglycerocaldarchaeol and caldarchaeol, and its DNA G+C content was 40.1 mol%. We also found that JCM 9021 grew under microoxic conditions in the presence of H as an electron donor, indicating that this genus does not comprise obligate anaerobes. Based on this polyphasic taxonomic analysis, we propose the novel species, sp. nov., whose type strain is KN-1 (=JCM 34 622=KCTC 4 293).

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2022-08-11
2024-04-19
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References

  1. Segerer AH, Trincone A, Gahrtz M, Stetter KO. Stygiolobus azoricus gen. nov., sp. nov. represents a novel genus of anaerobic, extremely Thermoacidophilic archaebacteria of the order Sulfolobales. Int J Syst Bacteriol 1991; 41:495–501 [View Article]
    [Google Scholar]
  2. Stetter KO. Order III. Sulfolobales ord. nov. Family Sulfolobaceae fam. nov. In Staley JT, Bryant MP, Holt J. eds Bergey’s Manual of Systematic Bacteriology vol 3 Baltimore, MD: Williams & Wilkins Co; 1989 pp 2250–2251
    [Google Scholar]
  3. Nishiyama E, Higashi K, Mori H, Suda K, Nakamura H et al. The relationship between microbial community structures and environmental parameters revealed by metagenomic analysis of hot spring water in the Kirishima area, Japan. Front Bioeng Biotechnol 2018; 6:202 [View Article] [PubMed]
    [Google Scholar]
  4. Satoh T, Watanabe K, Yamamoto H, Yamamoto S, Kurosawa N. Archaeal community structures in the solfataric acidic hot springs with different temperatures and elemental compositions. Archaea 2013; 2013:723871 [View Article] [PubMed]
    [Google Scholar]
  5. Kato S, Itoh T, Yamagishi A. Archaeal diversity in a terrestrial acidic spring field revealed by a novel PCR primer targeting archaeal 16S rRNA genes. FEMS Microbiol Lett 2011; 319:34–43 [View Article] [PubMed]
    [Google Scholar]
  6. Kurosawa N, Itoh YH, Iwai T, Sugai A, Uda I et al. Sulfurisphaera ohwakuensis gen. nov., sp. nov., a novel extremely thermophilic acidophile of the order Sulfolobales. Int J Syst Bacteriol 1998; 48 Pt 2:451–456 [View Article]
    [Google Scholar]
  7. Nakamura K, Kurosawa N, Sakai HD. Complete genome sequence of a novel Thermoacidophilic and Facultatively anaerobic crenarchaeon, Stygiolobus sp. strain KN-1. Microbiol Resour Announc 2021; 10:e0058121 [View Article] [PubMed]
    [Google Scholar]
  8. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. Basic local alignment search tool. J Mol Biol 1990; 215:403–410 [View Article] [PubMed]
    [Google Scholar]
  9. Edgar RC. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 2004; 32:1792–1797 [View Article] [PubMed]
    [Google Scholar]
  10. 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 [View Article] [PubMed]
    [Google Scholar]
  11. Tsuboi K, Sakai HD, Nur N, Stedman KM, Kurosawa N et al. Sulfurisphaera javensis sp. nov., a hyperthermophilic and acidophilic archaeon isolated from Indonesian hot spring, and reclassification of Sulfolobus tokodaii Suzuki et al. 2002 as Sulfurisphaera tokodaii comb. nov. Int J Syst Evol Microbiol 2018; 68:1907–1913 [View Article] [PubMed]
    [Google Scholar]
  12. Parker CT, Tindall BJ, Garrity GM. International Code of Nomenclature of Prokaryotes. Int J Syst Evol Microbiol 2019; 69:S1–S111 [View Article] [PubMed]
    [Google Scholar]
  13. Parks DH, Chuvochina M, Waite DW, Rinke C, Skarshewski A et al. A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life. Nat Biotechnol 2018; 36:996–1004 [View Article] [PubMed]
    [Google Scholar]
  14. Chaumeil P-A, Mussig AJ, Hugenholtz P, Parks DH. GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database. Bioinformatics 2019; 36:1925–1927 [View Article] [PubMed]
    [Google Scholar]
  15. Kolmert A, Wikström P, Hallberg KB. A fast and simple turbidimetric method for the determination of sulfate in sulfate-reducing bacterial cultures. J Microbiol Methods 2000; 41:179–184 [View Article] [PubMed]
    [Google Scholar]
  16. Lovley DR. Organic matter mineralization with the reduction of ferric iron: a review. Geomicrobiol J 1987; 5:375–399 [View Article]
    [Google Scholar]
  17. Nishihara M, Morii H, Koga Y. Structure determination of a quartet of novel tetraether lipids from Methanobacterium thermoautotrophicum. J Biochem 1987; 101:1007–1015 [View Article] [PubMed]
    [Google Scholar]
  18. Sugai A, Sakuma R, Fukuda I, Kurosawa N, Itoh YH et al. The structure of the core polyol of the ether lipids from Sulfolobus acidocaldarius. Lipids 1995; 30:339–344 [View Article] [PubMed]
    [Google Scholar]
  19. 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]
  20. 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]
  21. Konstantinidis KT, Rosselló-Móra R, Amann R. Uncultivated microbes in need of their own taxonomy. ISME J 2017; 11:2399–2406 [View Article] [PubMed]
    [Google Scholar]
  22. Tindall BJ, Rosselló-Móra R, Busse H-J, Ludwig W, Kämpfer P. Notes on the characterization of prokaryote strains for taxonomic purposes. Int J Syst Evol Microbiol 2010; 60:249–266 [View Article] [PubMed]
    [Google Scholar]
  23. Yarza P, Richter M, Peplies J, Euzeby J, Amann R et al. The All-Species Living Tree project: a 16S rRNA-based phylogenetic tree of all sequenced type strains. Syst Appl Microbiol 2008; 31:241–250 [View Article] [PubMed]
    [Google Scholar]
  24. Liu LJ, You X-Y, Guo X, Liu S-J, Jiang C-Y. Metallosphaera cuprina sp. nov., an acidothermophilic, metal-mobilizing archaeon. Int J Syst Evol Microbiol 2011; 61:2395–2400 [View Article] [PubMed]
    [Google Scholar]
  25. Takayanagi S, Kawasaki H, Sugimori K, Yamada T, Sugai A et al. Sulfolobus hakonensis sp. nov., a novel species of acidothermophilic archaeon. Int J Syst Bacteriol 1996; 46:377–382 [View Article] [PubMed]
    [Google Scholar]
  26. Sakai HD, Kurosawa N. Sulfodiicoccus acidiphilus gen. nov., sp. nov., a sulfur-inhibited thermoacidophilic archaeon belonging to the order Sulfolobales isolated from a terrestrial acidic hot spring. Int J Syst Evol Microbiol 2017; 67:1880–1886 [View Article] [PubMed]
    [Google Scholar]
  27. Itoh T, Miura T, Sakai HD, Kato S, Ohkuma M et al. Sulfuracidifex tepidarius gen. nov., sp. nov. and transfer of Sulfolobus metallicus huber and stetter 1992 to the genus sulfuracidifex as Sulfuracidifex metallicus comb. nov. Int J Syst Evol Microbiol 2020; 70:1837–1842 [View Article]
    [Google Scholar]
  28. Peng T-J, Liu L-J, Liu C, Yang Z-F, Liu S-J et al. Metallosphaera tengchongensis sp. nov., an acidothermophilic archaeon isolated from a hot spring. Int J Syst Evol Microbiol 2015; 65:537–542 [View Article] [PubMed]
    [Google Scholar]
  29. Brock TD, Brock KM, Belly RT, Weiss RL. Sulfolobus: a new genus of sulfur-oxidizing bacteria living at low pH and high temperature. Arch Mikrobiol 1972; 84:54–68 [View Article] [PubMed]
    [Google Scholar]
  30. Sakai HD, Kurosawa N. Saccharolobus caldissimus gen. nov., sp. nov., a facultatively anaerobic iron-reducing hyperthermophilic archaeon isolated from an acidic terrestrial hot spring, and reclassification of Sulfolobus solfataricus as Saccharolobus solfataricus comb. nov. and Sulfolobus shibatae as Saccharolobus shibatae comb. nov. Int J Syst Evol Microbiol 2018; 68:1271–1278 [View Article] [PubMed]
    [Google Scholar]
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