1887

Abstract

A novel , strain LMG 28769, was isolated from a household water kefir fermentation process. Cells were Gram-stain-positive, non-motile, non-spore-forming, catalase-negative, oxidase-negative and facultatively anaerobic short rods. Analysis of its 16S rRNA gene sequence revealed and (97.4 and 97.1 % similarity towards the respective type strain sequences) as nearest phylogenetic neighbours. Its assignment to the genus was confirmed by the presence of fructose 6-phosphate phosphoketolase activity. Analysis of the gene sequence revealed very low similarity with nucleotide sequences in the NCBI nucleotide database. The genotypic and phenotypic analyses allowed the differentiation of strain LMG 28769 from all recognized species. Strain LMG 28769 ( = CCUG 67145 = R 54638) therefore represents a novel species, for which the name sp. nov. is proposed.

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2016-03-01
2019-09-15
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References

  1. Altschul S. F. , Madden T. L. , Schäffer A. A. , Zhang J. , Zhang Z. , Miller W. , Lipman D. J. . ( 1997;). Gapped blast and psi-blast: a new generation of protein database search programs. Nucleic Acids Res 25: 3389–3402 [CrossRef] [PubMed].
    [Google Scholar]
  2. Biavati B. , Mattarelli P. . ( 2006;). The family Bifidobacteriaceae . . In The Prokaryotes, pp. 322–382. Edited by Dworkin M. , Falkow S. , Rosenberg E. , Schleifer K. H. , Stackebrandt E. . New York:: Springer Science; [CrossRef].
    [Google Scholar]
  3. Borriello S. P. , Hammes W. P. , Holzapfel W. , Marteau P. , Schrezenmeir J. , Vaara M. , Valtonen V. . ( 2003;). Safety of probiotics that contain lactobacilli or bifidobacteria. Clin Infect Dis 36: 775–780 [CrossRef] [PubMed].
    [Google Scholar]
  4. Coenye T. , Falsen E. , Vancanneyt M. , Hoste B. , Govan J. R. W. , Kersters K. , Vandamme P. . ( 1999;). Classification of Alcaligenes faecalis-like isolates from the environment and human clinical samples as Ralstonia gilardii sp. nov. Int J Syst Bacteriol 49: 405–413 [CrossRef] [PubMed].
    [Google Scholar]
  5. Delcenserie V. , Gavini F. , Beerens H. , Tresse O. , Franssen C. , Daube G. . ( 2007;). Description of a new species. Bifidobacterium crudilactis sp. nov., isolated from raw milk and raw milk cheeses. Syst Appl Microbiol 30: 381–389 [CrossRef] [PubMed].
    [Google Scholar]
  6. Edgar R. C. . ( 2004;). muscle: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32: 1792–1797 [CrossRef] [PubMed].
    [Google Scholar]
  7. Gulitz A. , Stadie J. , Ehrmann M. A. , Ludwig W. , Vogel R. F. . ( 2013;). Comparative phylobiomic analysis of the bacterial community of water kefir by 16S rRNA gene amplicon sequencing and ARDRA analysis. J Appl Microbiol 114: 1082–1091 [CrossRef] [PubMed].
    [Google Scholar]
  8. Hsieh H. H. , Wang S. Y. , Chen T. L. , Huang Y. L. , Chen M. J. . ( 2012;). Effects of cow's and goat's milk as fermentation media on the microbial ecology of sugary kefir grains. Int J Food Microbiol 157: 73–81 [CrossRef] [PubMed].
    [Google Scholar]
  9. Johnson M. , Zaretskaya I. , Raytselis Y. , Merezhuk Y. , McGinnis S. , Madden T. L. . ( 2008;). NCBI blast: a better web interface. Nucleic Acids Res 36: W5–W9 [CrossRef] [PubMed].
    [Google Scholar]
  10. Kim B. J. , Kim H. Y. , Yun Y. J. , Kim B. J. , Kook Y. H. . ( 2010;). Differentiation of Bifidobacterium species using partial RNA polymerase β-subunit (rpoB) gene sequences. Int J Syst Evol Microbiol 60: 2697–2704 [CrossRef] [PubMed].
    [Google Scholar]
  11. Kim O. S. , Cho Y. J. , Lee K. , Yoon S. H. , Kim M. , Na H. , Park S. C. , Jeon Y. S. , Lee J. H. , other authors . ( 2012;). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62: 716–721 [PubMed].[CrossRef]
    [Google Scholar]
  12. Laureys D. , De Vuyst L. . ( 2014;). Microbial species diversity, community dynamics, and metabolite kinetics of water kefir fermentation. Appl Environ Microbiol 80: 2564–2572 [CrossRef] [PubMed].
    [Google Scholar]
  13. Makras L. , Van Acker G. , De Vuyst L. . ( 2005;). Lactobacillus paracasei subsp. paracasei 8700:2 degrades inulin-type fructans exhibiting different degrees of polymerization. Appl Environ Microbiol 71: 6531–6537 [CrossRef] [PubMed].
    [Google Scholar]
  14. Mattarelli P. , Holzapfel W. , Franz C. M. , Endo A. , Felis G. E. , Hammes W. , Pot B. , Dicks L. , Dellaglio F. . ( 2014;). Recommended minimal standards for description of new taxa of the genera Bifidobacterium. Lactobacillus and related genera. Int J Syst Evol Microbiol 64: 1434–1451 [CrossRef] [PubMed].
    [Google Scholar]
  15. Mesbah M. , Whitman W. B. . ( 1989;). Measurement of deoxyguanosine/thymidine ratios in complex mixtures by high-performance liquid chromatography for determination of the mole percentage guanine + cytosine of DNA. J Chromatogr A 479: 297–306 [CrossRef] [PubMed].
    [Google Scholar]
  16. Niemann S. , Pühler A. , Tichy H. V. , Simon R. , Selbitschka W. . ( 1997;). Evaluation of the resolving power of three different DNA fingerprinting methods to discriminate among isolates of a natural Rhizobium meliloti population. J Appl Microbiol 82: 477–484 [CrossRef] [PubMed].
    [Google Scholar]
  17. Orban J. I. , Patterson J. A. . ( 2000;). Modification of the phosphoketolase assay for rapid identification of bifidobacteria. J Microbiol Methods 40: 221–224 [CrossRef] [PubMed].
    [Google Scholar]
  18. Saitou N. , Nei M. . ( 1987;). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4: 406–425 [PubMed].
    [Google Scholar]
  19. Simpson P. J. , Ross R. P. , Fitzgerald G. F. , Stanton C. . ( 2004;). Bifidobacterium psychraerophilum sp. nov. and Aeriscardovia aeriphila gen. nov. sp. nov., isolated from a porcine caecum. Int J Syst Evol Microbiol 54: 401–406 [CrossRef] [PubMed].
    [Google Scholar]
  20. Tamura K. , Nei M. . ( 1993;). Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol Biol Evol 10: 512–526 [PubMed].
    [Google Scholar]
  21. Tamura K. , Stecher G. , Peterson D. , Filipski A. , Kumar S. . ( 2013;). mega6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30: 2725–2729 [CrossRef] [PubMed].
    [Google Scholar]
  22. Tojo R. , Suárez A. , Clemente M. G. , de los Reyes-Gavilán C. G. , Margolles A. , Gueimonde M. , Ruas-Madiedo P. . ( 2014;). Intestinal microbiota in health and disease: role of bifidobacteria in gut homeostasis. World J Gastroenterol 20: 15163–15176 [CrossRef] [PubMed].
    [Google Scholar]
  23. Watanabe K. , Makino H. , Sasamoto M. , Kudo Y. , Fujimoto J. , Demberel S. . ( 2009;). Bifidobacterium mongoliense sp. nov., from airag, a traditional fermented mare's milk product from Mongolia. Int J Syst Evol Microbiol 59: 1535–1540 [CrossRef] [PubMed].
    [Google Scholar]
  24. Zhang Z. , Schwartz S. , Wagner L. , Miller W. . ( 2000;). A greedy algorithm for aligning DNA sequences. J Comput Biol 7: 203–214 [CrossRef] [PubMed].
    [Google Scholar]
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