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INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 73, Issue 12

sp. nov., isolated from a coastal dune, reclassification of as comb. nov., and emended description of the genus No Access

Abstract

A Gram-stain-negative, aerobic, non-flagellated and coccoid or ovoid bacterial strain, BSSL-BM11, was isolated from sand of coastal dunes along the Yellow Sea of the Korean peninsula. Strain BSSL-BM11 grew optimally at 30 °C, at pH 7.0–8.0 and in the presence of 2.0–3.0 % (w/v) NaCl. Phylogenetic trees based on 16S rRNA gene sequences, the up-to-date bacterial core gene set and average amino acid identity (AAI) showed that strain BSSL-BM11 forms a cluster with the type strains of and . Strain BSSL-BM11 showed 16S rRNA gene sequence similarities of 98.3 and 98.0 % to the type strains of and , respectively, and less than 96.4 % to the type strains of the other recognized species. The average nucleotide identity (ANI) and digital DNA–DNA hybridization (dDDH) values between strain BSSL-BM11 and the type strains of and were 77.0–84.8 % and 20.0–28.1 %, respectively. The 16S rRNA gene similarity, AAI, ANI and dDDH values between Z8 and KCTC 42249 were 98.0, 77.4, 76.7 and 20.1 %, respectively. The DNA G+C content of strain BSSL-BM11 from genomic sequence data was 61.3 mol%. Strain BSSL-BM11 contained Q-10 as the predominant ubiquinone and C 7, C and cyclo C 8 as the major fatty acids. The major polar lipids of strain BSSL-BM11 were phosphatidylcholine, phosphatidylglycerol and phosphatidylethanolamine. Based on the polyphasic data, it is proposed that be reclassified as a member of the genus . Phenotypic and phylogenetic analyses revealed that strain BSSL-BM11 is separated from and . On the basis of the data presented here, strain BSSL-BM11 (=KACC 21634=NBRC 114503) is considered to represent a novel species of the genus , for which the name sp. nov. is proposed.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): coastal dune , novel species , polyohasic taxonomy , reclassification and Tianweitania aestuarii
Funding
This study was supported by the:
  • Rural Development Administration (Award PJ015247)
    • Principle Award Recipient: Jung-HoonYoon
  • National Institute of Biological Resources (Award project on survey of indigenous species of Korea)
    • Principle Award Recipient: Jung-HoonYoon
© 2023 The Authors
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2023-12-19
2024-05-08
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References

  1. Han L, Mo Y, Feng Q, Zhang R, Zhao X et al. Tianweitania sediminis gen. nov., sp. nov., a member of the family Phyllobacteriaceae, isolated from subsurface sediment core. Int J Syst Evol Microbiol 2016; 66:719–724 [View Article] [PubMed]
     [Google Scholar]
  2. Li Y, Guo L-M, Chang J-P, Xie S-J, Piao C-G et al. Corticibacteriumpopuli gen. nov., sp. nov., a member of the family Phyllobacteriaceae, isolated from bark of Populus×euramericana. Int J Syst Evol Microbiol 2016; 66:2617–2622 [View Article] [PubMed]
     [Google Scholar]
  3. Yoon J-H, Lee ST, Kim S-B, Kim WY, Goodfellow M et al. Restriction fragment length polymorphism analysis of PCR-amplified 16S ribosomal DNA for rapid identification of Saccharomonospora strains. Int J Syst Bacteriol 1997; 47:111–114 [View Article]
     [Google Scholar]
  4. Yoon J-H, Kim H, Kim I-G, Kang KH, Park Y-H. Erythrobacter flavus sp. nov., a slight halophile from the East Sea in Korea. Int J Syst Evol Microbiol 2003; 53:1169–1174 [View Article] [PubMed]
     [Google Scholar]
  5. Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 2012; 19:455–477 [View Article] [PubMed]
     [Google Scholar]
  6. Lee I, Chalita M, Ha S-M, Na S-I, Yoon S-H et al. ContEst16S: an algorithm that identifies contaminated prokaryotic genomes using 16S RNA gene sequences. Int J Syst Evol Microbiol 2017; 67:2053–2057 [View Article] [PubMed]
     [Google Scholar]
  7. Na S-I, Kim YO, Yoon S-H, Ha S-M, Baek I et al. UBCG: Up-to-date bacterial core gene set and pipeline for phylogenomic tree reconstruction. J Microbiol 2018; 56:280–285 [View Article] [PubMed]
     [Google Scholar]
  8. Kim D, Park S, Chun J. Introducing EzAAI: a pipeline for high throughput calculations of prokaryotic average amino acid identity. J Microbiol 2021; 59:476–480 [View Article] [PubMed]
     [Google Scholar]
  9. Yoon S-H, Ha S-M, Lim J, Kwon S, Chun J. A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie van Leeuwenhoek 2017; 110:1281–1286 [View Article] [PubMed]
     [Google Scholar]
  10. 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]
  11. Chun J, Oren A, Ventosa A, Christensen H, Arahal DR et al. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol 2018; 68:461–466 [View Article] [PubMed]
     [Google Scholar]
  12. Komagata K, Suzuki K. Lipids and cell-wall analysis in bacterial systematics. Methods Microbiol 1987; 19:161–207
     [Google Scholar]
  13. Park S, Jung YT, Choi SJ, Yoon JH. Erythrobacter aquimixticola sp. nov., isolated from the junction between the ocean and a freshwater spring. Int J Syst Evol Microbiol 2017; 67:2964–2969 [View Article] [PubMed]
     [Google Scholar]
  14. Sasser M. Identification of bacteria by gas chromatography of cellular fatty acids. In MIDI Technical Note vol 101 Newark, DE: MIDI Inc; 1990
     [Google Scholar]
  15. Minnikin DE, O’Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 1984; 2:233–241 [View Article]
     [Google Scholar]
  16. Embley TM, Wait R. Structural lipids of eubacteria. In Goodfellow M, O’Donnell AG. eds Modern Microbial MethodsChemical Methods in Prokaryotic Systematics Chichester: John Wiley & Sons; 1994 pp 121–161
     [Google Scholar]
  17. Park S, Won S-M, Kim H, Park D-S, Yoon J-H. Aestuariivita boseongensis gen. nov., sp. nov., isolated from a tidal flat sediment. Int J Syst Evol Microbiol 2014; 64:2969–2974 [View Article] [PubMed]
     [Google Scholar]
  18. Lányí B. Classical and rapid identification methods for medically important bacteria. Methods Mocrobiol 1987; 19:1–67
     [Google Scholar]
  19. Barrow GI, Feltham RKA. Cowan and Steel’s Manual for the Identification of Medical Bacteria. In Cowan and Steel’s Manual for the Identification of Medical Bacteria, 3rd. edn Cambridge: Cambridge University Press; 1993 [View Article]
     [Google Scholar]
  20. Kämpfer P, Steiof M, Dott W. Microbiological characterization of a fuel-oil contaminated site including numerical identification of heterotrophic water and soil bacteria. Microb Ecol 1991; 21:227–251 [View Article] [PubMed]
     [Google Scholar]
  21. Lapage SP, Sneath PHA, Lessel EF, Skerman VBD, Seeliger HPR et al. International Code of Nomenclature of Bacteria (1990 Revision) Washington, DC: American Society for Microbiology; 1992
     [Google Scholar]
  22. 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]
  23. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 2009; 106:19126–19131 [View Article] [PubMed]
     [Google Scholar]
  24. Konstantinidis KT, Tiedje JM. Genomic insights that advance the species definition for prokaryotes. Proc Natl Acad Sci USA 2005; 102:2567–2572 [View Article] [PubMed]
     [Google Scholar]
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Tianweitania aestuarii sp. nov., isolated from a coastal dune, reclassification of Corticibacterium populi as Tianweitania populi comb. nov., and emended description of the genus Tianweitania
Int J Syst Evol Microbiol 73, 006193 (2023); https://doi.org/10.1099/ijsem.0.006193
/content/journal/ijsem/10.1099/ijsem.0.006193
/content/journal/ijsem/10.1099/ijsem.0.006193
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