1887

Abstract

Two carbon dioxide-requiring, gliding, Gram-stain-negative strains, designated p1a2 and 051621, were isolated from subgingival plaque in association with severe periodontitis. The 16S rRNA gene sequence analysis revealed that they represented members of the genus and had less than 96.4 % pairwise similarity with species with validly published names in this genus. The whole-genome sequences of those strains had less than 91.9 % average nucleotide identity and 48.4 % digital DNA–DNA hybridization values with the other type strains of species of the genus , both below the species delineation threshold. The results of pan-genomic analysis indicated that p1a2 and 051621 shared 765 core gene families with the other ten species in this genus, and the numbers of strain-specific gene families were 493 and 455, respectively. The major fatty acids were iso-C and C. A combination of phenotypic, chemotaxonomic, phylogenetic and genotypic data clearly indicate that p1a2 and 051621 should be considered to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is p1a2 (=CGMCC 1.17337=JCM 34126).

Funding
This study was supported by the:
  • National Key R&D Program of China (Award 2017YFC1602002)
    • Principle Award Recipient: WenyuShi
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.004979
2021-08-25
2024-04-24
Loading full text...

Full text loading...

References

  1. Leadbetter ER, Holt SC, Socransky SS. Capnocytophaga - new genus of Gram-negative gliding bacteria. I. general-characteristics, taxonomic considerations and significance. Arch Microbiol 1979; 122:9–16 [View Article]
    [Google Scholar]
  2. Socransky SS, Holt SC, Leadbetter ER, Tanner ACR, Savitt E et al. Capnocytophaga - new genus of Gram-negative gliding bacteria.III. physiological characterization. Arch Microbiol 1979; 122:29–33 [View Article]
    [Google Scholar]
  3. Yamamoto T, Kajiura S, Hirai Y, Watanabe T. Capnocytophaga haemolytica sp. nov and Capnocytophaga granulosa sp. nov, from human dental plaque. Int J Syst Bacteriol 1994; 44:324–329 [View Article]
    [Google Scholar]
  4. Ciantar M, Spratt DA, Newman HN, Wilson M. Capnocytophaga granulosa and Capnocytophaga haemolytica: novel species in subgingival plaque. J Clin Periodontol 2001; 28:701–705 [View Article]
    [Google Scholar]
  5. Frandsen EVG, Poulsen K, Kononen E, Kilian M. Diversity of Capnocytophaga species in children and description of Capnocytophaga leadbetteri sp nov and Capnocytophaga genospecies AHN8471. Int J Syst Evol Micr 2008; 58:324–336 [View Article]
    [Google Scholar]
  6. Brenner DJ, Hollis DG, Fanning GR, Weaver RE. Capnocytophaga canimorsus sp. nov (formerly Cdc group Df-2), a cause of septicemia following dog bite, and C. cynodegmi sp. nov, a cause of localized wound-infection following dog bite. J Clin Microbiol 1989; 27:231–235 [View Article]
    [Google Scholar]
  7. Renzi F, Dol M, Raymackers A, Manfredi P, Cornelis GR. Only a subset of C. canimorsus strains is dangerous for humans. Emerg Microbes Infec 2015; 4: [View Article]
    [Google Scholar]
  8. Suzuki M, Umeda K, Kimura M, Imaoka K, Morikawa S et al. Capnocytophaga felis sp. nov. isolated from the feline oral cavity. Int J Syst Evol Micr 2020; 70:3355–3360 [View Article]
    [Google Scholar]
  9. Felix L, Rosenberg A, Caraballo KA, Taborga DP, Hamula C. Capnocytophaga spp. infection causing chorioamnionitis: an unusual suspect. Anaerobe 2019; 59:115–117 [View Article]
    [Google Scholar]
  10. Kim JA, Hong SK, Kim EC. Capnocytophaga sputigena bacteremia in a patient with chronic lymphocytic leukemia. Ann Lab Med 2014; 34:325–327 [View Article]
    [Google Scholar]
  11. Bonatti H, Rossboth DW, Nachbaur D, Fille M, Aspock C et al. A series of infections due to Capnocytophaga spp in immunosuppressed and immunocompetent patients. Clin Microbiol Infect 2003; 9:380–387 [View Article]
    [Google Scholar]
  12. Handal T, Olsen I, Walker CB, Caugant DA. Detection and characterization of beta-lactamase genes in subgingival bacteria from patients with refractory periodontitis. FEMS Microbiol Lett 2005; 242:319–324 [View Article]
    [Google Scholar]
  13. Mills JM, Lofthouse E, Roberts P, Karas JA. A patient with bacteraemia and possible endocarditis caused by a recently-discovered genomospecies of Capnocytophaga: Capnocytophaga genomospecies AHN8471: a case report. J Med Case Rep 2008; 2:369 [View Article]
    [Google Scholar]
  14. Butler T. Capnocytophaga canimorsus: an emerging cause of sepsis, meningitis, and post-splenectomy infection after dog bites. Eur J Clin Microbiol 2015; 34:1271–1280 [View Article]
    [Google Scholar]
  15. Cai M, Wang L, Cai H, Li Y, Wang YN et al. Salinarimonas ramus sp nov and Tessaracoccus oleiagri sp nov., isolated from a crude oil-contaminated saline soil. Int J Syst Evol Micr 2011; 61:1767–1775 [View Article]
    [Google Scholar]
  16. Yoon S-H, Ha S-M, 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 Micr 2017; 67:1613–1617 [View Article]
    [Google Scholar]
  17. Thompson JD, Higgins DG, Gibson TJ. Clustal-W - improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994; 22:4673–4680 [View Article]
    [Google Scholar]
  18. Saitou N, Nei M. The neighbor-joining method - a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425 [View Article]
    [Google Scholar]
  19. Meier-Kolthoff JP, Auch AF, Klenk HP, Goker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC bioinformatics 2013; 14: [View Article]
    [Google Scholar]
  20. Rzhetsky A, Nei M. A simple method for estimating and testing minimum-evolution trees. Mol Biol Evol 1992; 9:945–967
    [Google Scholar]
  21. Kumar S, Stecher G, Tamura K. mega7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016; 33:1870–1874 [View Article]
    [Google Scholar]
  22. Felsenstein J. Confidence-limits on phylogenies - an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article]
    [Google Scholar]
  23. 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]
    [Google Scholar]
  24. Seemann T. Prokka: rapid prokaryotic genome annotation. Bioinformatics 2014; 30:2068–2069 [View Article]
    [Google Scholar]
  25. Lee I, Ouk Kim Y, Park S-C, Chun J. OrthoANI: an improved algorithm and software for calculating average nucleotide identity. Int J Syst Evol Microbiol 2016; 66:1100–1103 [View Article]
    [Google Scholar]
  26. Eloe-Fadrosh EA, Paez-Espino D, Jarett J, Dunfield PF, Hedlund BP et al. Global metagenomic survey reveals a new bacterial candidate phylum in geothermal springs. Nat Commun 2016; 7:10476 [View Article]
    [Google Scholar]
  27. Richter M, Rossello-Mora R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 2009; 106:19126–19131 [View Article]
    [Google Scholar]
  28. Jo E, Park SN, Lim YK, Paek J, Shin Y et al. Capnocytophaga endodontalis sp nov., isolated from a human refractory periapical abscess. Curr Microbiol 2018; 75:420–425 [View Article]
    [Google Scholar]
  29. Poirier TP, Tonelli SJ, Holt SC. Ultrastructure of gliding bacteria - scanning electron-microscopy of Capnocytophaga sputigena, Capnocytophaga gingivalis, and Capnocytophaga ochracea. Infect Immun 1979; 26:1146–1158 [View Article]
    [Google Scholar]
  30. Tindall BJ, Sikorski J, Smibert RA, Krieg NR. Phenotypic characterization and the principles of comparative systematics. In Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 2007 [View Article]
    [Google Scholar]
  31. Sasser M. Identification of Bacteria by Gas Chromatography of Cellularfatty Acids 1990 pp 1–6
    [Google Scholar]
  32. Zhang X-J, Liu H-C, Zhou Y-G, Wu X-L, Nie Y et al. Pseudomonas saliphila sp. nov., a bacterium isolated from oil-well production water in Qinghai oilfield of China. Curr Microbiol 2020; 77:1924–1931 [View Article]
    [Google Scholar]
  33. Clark CM, Costa MS, Sanchez LM, Murphy BT. Coupling MALDI-TOF mass spectrometry protein and specialized metabolite analyses to rapidly discriminate bacterial function. Proc Natl Acad Sci USA 2018; 115:4981–4986 [View Article]
    [Google Scholar]
  34. Jolivet-Gougeon A, Helsens N, Renard E, Tamanai-Shacoori Z, Bonnaure-Mallet M. Evaluation of matrix-assisted laser desorption ionization-time of flight mass spectrometry for identification of human oral Capnocytophaga species. Anaerobe 2017; 48:89–93 [View Article]
    [Google Scholar]
  35. London J, Celesk RA, Kagermeier A, Johnson JL. Emended description of Capnocytophaga gingivalis. Int J Syst Bacteriol 1985; 35:369–370 [View Article]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.004979
Loading
/content/journal/ijsem/10.1099/ijsem.0.004979
Loading

Data & Media loading...

Supplements

Supplementary material 1

EXCEL

Supplementary material 2

EXCEL

Supplementary material 3

PDF
This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error