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Abstract

An obligately anaerobic, Gram-stain-positive, spore-forming, short-rod-shaped bacterium, designated strain YH-C36a, was isolated from a pig farm faeces dump. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the isolate belongs to the genus and is most closely related to KCTC 5831, KCTC 15010 and KCTC 15331, with 96.3, 96.2, and 96.0 % sequence similarity, respectively. The average nucleotide identity values for strain YH-C36a and the closest related strains were lower than 72 %. The G+C content of the isolate was 43.0 mol%. The cell-wall peptidoglycan was A1γ type and contained -diaminopimelic acid. The predominant fatty acids were C, C 9, C DMA, C DMA and C The major end products of glucose fermentation were lactate, formate and acetate. Based on its phenotypic, phylogenetic and chemotaxonomic properties, a novel species, named sp. nov., is proposed for strain YH-C36a (=KCTC 25106=NBRC 114768).

Funding
This study was supported by the:
  • MSIT (Award 2018R1A2B5002239)
    • Principle Award Recipient: YoungHyo Chang
  • Ministry of Science (Award NRF-2013M3A9A5076601)
    • Principle Award Recipient: YoungHyo Chang
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2022-02-14
2022-05-18
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References

  1. Muñoz M, Guerrero-Araya E, Cortés-Tapia C, Plaza-Garrido A, Lawley TD et al. Comprehensive genome analyses of Sellimonas intestinalis, a potential biomarker of homeostasis gut recovery. Microb Genom 2020; 6:12 [View Article] [PubMed]
    [Google Scholar]
  2. Makki K, Deehan EC, Walter J, Bäckhed F. The impact of dietary fiber on gut microbiota in host health and disease. Cell Host Microbe 2018; 23:705–715 [View Article] [PubMed]
    [Google Scholar]
  3. Gilbert JA, Blaser MJ, Caporaso JG, Jansson JK, Lynch SV et al. Current understanding of the human microbiome. Nat Med 2018; 24:392–400 [View Article] [PubMed]
    [Google Scholar]
  4. Donaldson GP, Lee SM, Mazmanian SK. Gut biogeography of the bacterial microbiota. Nat Rev Microbiol 2016; 14:20–32 [View Article] [PubMed]
    [Google Scholar]
  5. Lozupone CA, Stombaugh J, Gonzalez A, Ackermann G, Wendel D et al. Meta-analyses of studies of the human microbiota. Genome Res 2013; 23:1704–1714 [View Article] [PubMed]
    [Google Scholar]
  6. Suchodolski JS. Intestinal microbiota of dogs and cats: a bigger world than we thought. Vet Clin North Am Small Anim Pract 2011; 41:261–272 [View Article] [PubMed]
    [Google Scholar]
  7. Haas KN, Blanchard JL. Reclassification of the Clostridium clostridioforme and Clostridium sphenoides clades as Enterocloster gen. nov. and Lacrimispora gen. nov., including reclassification of 15 taxa. Int J Syst Evol Microbiol 2020; 70:23–34 [View Article]
    [Google Scholar]
  8. Rainey FA, De Vos P, Garrity GM, Jones D, Krieg NR et al. Bergey’s Manual of Systematic Bacteriology New York: Springer; 2009 pp 921–968
    [Google Scholar]
  9. Seo B, Jeon K, Baek I, Lee YM, Baek K et al. Clostridium fessum sp. nov., isolated from human faeces. Int J Syst Evol Microbiol 2021; 71:004579 [View Article] [PubMed]
    [Google Scholar]
  10. Sakamoto M, Iino T, Ohkuma M. Faecalimonas umbilicata gen. nov., sp. nov., isolated from human faeces, and reclassification of Eubacterium contortum, Eubacterium fissicatena and Clostridium oroticum as Faecalicatena contorta gen. nov., comb. nov., Faecalicatena fissicatena comb. nov. and Faecalicatena orotica comb. nov. Int J Syst Evol Microbiol 2017; 67:1219–1227 [View Article] [PubMed]
    [Google Scholar]
  11. Smibert RM, Krieg NR. Phenotypic characterization. In Gerhardt P, Murray RGE, WA W, Krieg NR. eds Methods for General and Molecular Bacteriology vol 622 Washington, DC: American Society for Microbiology; 1994 pp 617–620
    [Google Scholar]
  12. Paek J, Shin Y, Kim JS, Kim H, Kook JK et al. Description of Absiella argi gen. nov., sp. nov., and transfer of Eubacterium dolichum and Eubacterium tortuosum to the genus Absiella as Absiella dolichum comb. nov. and Absiella tortuosum comb. nov. Anaerobe 2017; 48:70–75 [View Article]
    [Google Scholar]
  13. Bai L, Paek J, Shin Y, Park HY, Chang YH. Lentilactobacillus kribbianus sp. nov., isolated from the small intestine of a mini pig. Int J Syst Evol Microbiol 2020; 70:6476–6481 [View Article] [PubMed]
    [Google Scholar]
  14. Sorokin DY. Is there a limit for high-pH life?. Int J Syst Evol Microbiol 2005; 55:1405–1406 [View Article] [PubMed]
    [Google Scholar]
  15. Shin Y, Paek J, Kim H, Kook J-K, Kim J-S et al. Absicoccus porci gen. nov., sp. nov., a member of the family Erysipelotrichaceae isolated from pig faeces. Int J Syst Evol Microbiol 2020; 70:732–737 [View Article]
    [Google Scholar]
  16. Chun J, Goodfellow M. A phylogenetic analysis of the genus Nocardia with 16S rRNA gene sequences. Int J Syst Bacteriol 1995; 45:240–245 [View Article] [PubMed]
    [Google Scholar]
  17. 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]
  18. Felsenstein J. PHYLIP (Phylogeny Inference Package), Version 3.6. Distributed by the Author Department of Genome Sciences Seattle: University of Washington; 2005
    [Google Scholar]
  19. Jeon Y-S, Chung H, Park S, Hur I, Lee J-H et al. jPHYDIT: a JAVA-based integrated environment for molecular phylogeny of ribosomal RNA sequences. Bioinformatics 2005; 21:3171–3173 [View Article] [PubMed]
    [Google Scholar]
  20. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article] [PubMed]
    [Google Scholar]
  21. Kidd KK, Sgaramella-Zonta LA. Phylogenetic analysis: concepts and methods. Am J Hum Genet 1971; 23:235–252 [PubMed]
    [Google Scholar]
  22. Shin Y, Paek J, Kim H, Kook JK, Chang YH. Clostridium vitabionis sp. nov., isolated from the large intestine of a mini-pig. Int J Syst Evol Microbiol 2019; 71:004694 [View Article] [PubMed]
    [Google Scholar]
  23. Holdeman LV, Cato EP, Moore WEC. Anaerobe Laboratory Manual, 4th edn. Blacksburg, VA: Virginia Polytechnic Institute and State University; 1977
    [Google Scholar]
  24. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc; 1990
    [Google Scholar]
  25. Schleifer KH, Kandler O. Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 1972; 36:407–477 [View Article] [PubMed]
    [Google Scholar]
  26. Rocha ER, Smith CJ. Biochemical and genetic analyses of a catalase from the anaerobic bacterium Bacteroides fragilis. J Bacteriol 1995; 177:3111–3119 [View Article] [PubMed]
    [Google Scholar]
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