1887

Abstract

A coccus strain designated S-13 was isolated from commercial baechu-kimchi in Korea. Comparison of the 16S rRNA gene sequence indicated that strain S-13 had the highest similarity to 0905C15 (97.9 %), subsp. L105 (97.6 %), subsp. NCDO 607 (97.5 %), subsp. NBRC 100931 (97.2 %), and subsp. JCM 5805 (97.2 %). The detailed phylogenetic analyses based on the 16S rRNA, and genes indicated that S-13 was separated from the other species and subspecies in the genus . The DNA–DNA relatedness between S-13 and closely related type strains, such as 0905C15, subsp. L105, subsp. NCDO 607, subsp. NBRC 100931, and subsp. JCM 5805 was 25.6, 20.4, 25.1, 20.2 and 21.7 %, respectively. The major fatty acids were C, cyclo-Cω8 and C . The DNA G+C content of S-13 was 39.4 mol%. From the results of the phenotypic characteristics and chemotaxonomic analysis, it was concluded that strain S-13 represents a novel species in the genus for which the name sp. nov. (=KCTC 21096=NBRC 113348) is proposed.

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/content/journal/ijsem/10.1099/ijsem.0.003782
2019-10-25
2019-11-15
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References

  1. Cavanagh D, Fitzgerald GF, McAuliffe O. From field to fermentation: the origins of Lactococcus lactis and its domestication to the dairy environment. Food Microbiol 2015;47: 45– 61 [CrossRef]
    [Google Scholar]
  2. Kwon DY, Jang DJ, Yang HJ, Chung KR. History of Korean gochu, gochujang, and kimchi. J Ethnic Foods 2014;1: 3– 7 [CrossRef]
    [Google Scholar]
  3. Jang DJ, Chung KR, Yang HJ, Kim KS, Kwon DY. Discussion on the origin of kimchi, representative of Korean unique fermented vegetables. J Ethnic Foods 2015;2: 126– 136 [CrossRef]
    [Google Scholar]
  4. Chen YS, Otoguro M, Lin YH, Pan SF, Ji SH et al. Lactococcus formosensis sp. nov., a lactic acid bacterium isolated from yan-tsai-shin (fermented broccoli stems). Int J Syst Evol Microbiol 2014;64: 146– 151 [CrossRef]
    [Google Scholar]
  5. 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 [CrossRef]
    [Google Scholar]
  6. Hall TA. Bioedit: a user-friendly biological sequence alignment editor and analysis program for window 95/98/NT. Nucleic Acids Symp Ser 1999;41: 95– 98
    [Google Scholar]
  7. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997;25: 4876– 4882 [CrossRef]
    [Google Scholar]
  8. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987;4: 406– 425 [CrossRef]
    [Google Scholar]
  9. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981;17: 368– 376 [CrossRef]
    [Google Scholar]
  10. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971;20: 406– 416 [CrossRef]
    [Google Scholar]
  11. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016;33: 1870– 1874 [CrossRef]
    [Google Scholar]
  12. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985;39: 783– 791 [CrossRef]
    [Google Scholar]
  13. Ezaki T, Hashimoto Y, Yabuuchi E. Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 1989;39: 224– 229 [CrossRef]
    [Google Scholar]
  14. Miller LT. Single derivatization method for routine analysis of bacterial whole-cell fatty acid methyl esters, including hydroxy acids. J Clin Microbiol 1982;16: 584– 586
    [Google Scholar]
  15. Wayne LG, Moore WEC, Stackebrandt E, Kandler O, Colwell RR et al. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Evol Microbiol 1987;37: 463– 464 [CrossRef]
    [Google Scholar]
  16. 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 [CrossRef]
    [Google Scholar]
  17. Chen YS, Chang CH, Pan SF, Wang LT, Chang YC et al. Lactococcus taiwanensis sp. nov., a lactic acid bacterium isolated from fresh cummingcordia. Int J Syst Evol Microbiol 2013;63: 2405– 2409 [CrossRef]
    [Google Scholar]
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