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Volume 67, Issue 9

sp. nov., isolated from the small intestine of a marten, Free

Abstract

A novel coccus-shaped, Gram-stain-positive, non-motile and facultative aerobic bacterium, designated strain D7T301, was isolated from the small intestine of a marten, , which was killed on the road in Pocheon-si, Gyeonggi-do, Republic of Korea. Grown on a tryptic soy yeast agar plate, colonies had a creamy colour and irregular form. The new isolate formed a monophyletic clade with CD276 on a phylogenetic consensus tree based on the 16S rRNA gene sequence. The isolate grew optimally at 37 °C and pH 7 in the presence of 0.5 % (w/v) NaCl. The isolate was catalase- and oxidase-negative. The cell-wall peptidoglycan was type A4α -Lys--Asp. The major cellular fatty acids were C, C, and C 9. The predominant respiratory quinone was menaquinone MK-7 (85.1 %). The DNA G+C content based on genome sequencing was 33.8 mol%. The average nucleotide identity value obtained from comparative genomic analysis between strain D7T301 and CIP 109914 was 72.6 %. On the basis of the phenotypic, phylogenetic, biochemical, chemotaxonomic, and genotypic analyses, is proposed as a novel species of the genus . The type strain is D7T301 (=KCTC 21069=JCM 31178).

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): Firmicutes , gut microbiota , Martes flavigula and Vagococcus
© 2017 IUMS
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2017-09-01
2024-12-09
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References

  1. Charbonneau MR, Blanton LV, Digiulio DB, Relman DA, Lebrilla CB et al. A microbial perspective of human developmental biology. Nature 2016; 535:48–55 [View Article][PubMed]
     [Google Scholar]
  2. Sonnenburg JL, Bäckhed F. Diet-microbiota interactions as moderators of human metabolism. Nature 2016; 535:56–64 [View Article][PubMed]
     [Google Scholar]
  3. Thaiss CA, Zmora N, Levy M, Elinav E. The microbiome and innate immunity. Nature 2016; 535:65–74 [View Article][PubMed]
     [Google Scholar]
  4. Honda K, Littman DR. The microbiota in adaptive immune homeostasis and disease. Nature 2016; 535:75–84 [View Article][PubMed]
     [Google Scholar]
  5. Bäumler AJ, Sperandio V. Interactions between the microbiota and pathogenic bacteria in the gut. Nature 2016; 535:85–93 [View Article][PubMed]
     [Google Scholar]
  6. Gilbert JA, Quinn RA, Debelius J, Xu ZZ, Morton J et al. Microbiome-wide association studies link dynamic microbial consortia to disease. Nature 2016; 535:94–103 [View Article][PubMed]
     [Google Scholar]
  7. Parr J, Duckworth J. Notes on diet, habituation and sociality of Yellow-throated Marten Martes flavigula. Small Carniv Conserv 2007; 36:27–29
     [Google Scholar]
  8. Lane DJ. 16S/23S rRNA sequencing. In Nucleic Acid Techniques in Bacterial Systematics New York, NY: John Wiley and Sons; 1991
     [Google Scholar]
  9. Kim OS, Cho YJ, Lee K, Yoon SH, Kim M et al. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 2012; 62:716–721 [View Article][PubMed]
     [Google Scholar]
  10. 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 [View Article][PubMed]
     [Google Scholar]
  11. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425[PubMed]
     [Google Scholar]
  12. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article][PubMed]
     [Google Scholar]
  13. Kluge AG, Farris JS. Quantitative phyletics and the evolution of anurans. Syst Zool 1969; 18:1–32 [View Article]
     [Google Scholar]
  14. Tamura K, Peterson D, Peterson N, Stecher G, Nei M et al. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 2011; 28:2731–2739 [View Article][PubMed]
     [Google Scholar]
  15. Hyun DW, Kim JY, Kim MS, Shin NR, Kim HS et al. Actibacter haliotis sp. nov., isolated from the gut of an abalone, Haliotis discus hannai, and emended description of the genus Actibacter. Int J Syst Evol Microbiol 2015; 65:49–55 [View Article][PubMed]
     [Google Scholar]
  16. Tittsler RP, Sandholzer LA. The use of semi-solid agar for the detection of bacterial motility. J Bacteriol 1936; 31:575–580[PubMed]
     [Google Scholar]
  17. Schleifer KH, Kandler O. Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 1972; 36:407[PubMed]
     [Google Scholar]
  18. Schleifer KH. 5 Analysis of the chemical composition and primary structure of Murein. Method Microbiol 1985; 18:123–156 [CrossRef]
     [Google Scholar]
  19. Cummins CS, Harris H. The chemical composition of the cell wall in some gram-positive bacteria and its possible value as a taxonomic character. J Gen Microbiol 1956; 14:583–600 [View Article][PubMed]
     [Google Scholar]
  20. Schön R, Groth I. Practical thin layer chromatography techniques for diaminopimelic acid and whole cell sugar analyses in the classification of environmental actinomycetes. J Basic Microbiol 2006; 46:243–249 [View Article][PubMed]
     [Google Scholar]
  21. MIDI Sherlock Microbial Identification System Operating Manual, Version 3.0 Newark, DE: MIDI, Inc; 1999
     [Google Scholar]
  22. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids Newark, DE: MIDI Inc; 1990
     [Google Scholar]
  23. Collins MD, Jones D. Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implication. Microbiol Rev 1981; 45:316–354[PubMed]
     [Google Scholar]
  24. Collins MD, Jones D. A note on the separation of natural mixtures of bacterial ubiquinones using reverse-phase partition thin-layer chromatography and high performance liquid chromatography. J Appl Bacteriol 1981; 51:129–134 [View Article][PubMed]
     [Google Scholar]
  25. Rochelle PA, Fry JC, Parkes RJ, Weightman AJ. DNA extraction for 16S rRNA gene analysis to determine genetic diversity in deep sediment communities. FEMS Microbiol Lett 1992; 100:59–65 [View Article][PubMed]
     [Google Scholar]
  26. Gonzalez JM, Saiz-Jimenez C. A fluorimetric method for the estimation of G+C mol% content in microorganisms by thermal denaturation temperature. Environ Microbiol 2002; 4:770–773 [View Article][PubMed]
     [Google Scholar]
  27. 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 [View Article][PubMed]
     [Google Scholar]
  28. 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]
  29. Kim M, Oh HS, Park SC, 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]
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Vagococcus martis sp. nov., isolated from the small intestine of a marten, Martes flavigula
Int J Syst Evol Microbiol 67, 3398 (2017); https://doi.org/10.1099/ijsem.0.002131
/content/journal/ijsem/10.1099/ijsem.0.002131
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