1887

Abstract

Three Gram-stain-positive, rod-to-coccoid-shaped, catalase-positive and non-motile bacterial strains isolated from the choanae of a Northern bald ibis, designated strains 200CH, W8 and 812CH, respectively, were subjected to comprehensive taxonomic characterization. The three strains were oxidase-negative. The 16S rRNA gene sequence of 200CH showed highest similarities to 410 (96.7 %) followed by DSM 44202, NCTC 7910 and CIP 102968 (each 96.3 %). Strains W8 and 812CH both showed highest 16S rRNA gene sequence similarities to 136/3 (98.0 and 99.9 %, respectively). Comparison of the partial housekeeping gene sequence of showed higher sequence similarities of 812CH to (95.8 %) than W8 (90.9 %) which was also confirmed by corresponding amino acid sequences. In both, gene and corresponding protein sequence strain 200CH showed low sequence similarities to 410(81.6 and 87.4 %, respectively). Strains 812CH and W8 had 76.7 % ANI similarity to each other and 88.2 and 76.4 % to 136/3, respectively. DNA–DNA hybridization values for 812CH and W8 were 22.1 % among the two strains and 35.3 and 21.7 % to 136/3, respectively. These data not only demonstrate that strain W8 is a representative of a novel species, but despite the high 16S rRNA gene sequence similarity to , strain 812CH is also a representative of another novel species. All three strains possessed corynemycolic acids and contained -diaminopimelic acid as the diagnostic diamino acid of the peptidoglycan. The two strains, 200CH and W8, are distinguished from each other and established species phylogenetically and phenotypically. In conclusion, three novel species of the genus are proposed, namely 812CH (=LMG 30627=CCM 8832) 200CH (=LMG 30628=CCM 8831) and W8 (=LMG 30629=CCM 8833), respectively.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.003580
2019-09-01
2024-03-29
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/69/9/2928.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.003580&mimeType=html&fmt=ahah

References

  1. Lehmann KB, Neumann R. Atlas und Grundriss der Bakteriologie und Lehrbuch der speciellen bakteriologischen Diagnostik. 1 ed, 1st ed. München: Lehmann, J. F; 1896
    [Google Scholar]
  2. 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]
  3. Schleifer KH, Kandler O. Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 1972; 36:407–477[PubMed]
    [Google Scholar]
  4. Collins MD, Goodfellow M, Minnikin DE. Fatty acid composition of some mycolic acid-containing coryneform bacteria. J Gen Microbiol 1982; 128:2503–2509 [View Article][PubMed]
    [Google Scholar]
  5. Frischmann A, Knoll A, Hilbert F, Zasada AA, Kämpfer P et al. Corynebacterium epidermidicanis sp. nov., isolated from skin of a dog. Int J Syst Evol Microbiol 2012; 62:2194–2200 [View Article][PubMed]
    [Google Scholar]
  6. Baumgardt S, Loncaric I, Kämpfer P, Busse H-J. Corynebacterium tapiri sp. nov. and Corynebacterium nasicanis sp. nov., isolated from a tapir and a dog, respectively. Int J Syst Evol Microbiol 2015; 65:3885–3893 [View Article][PubMed]
    [Google Scholar]
  7. Kämpfer P, Jerzak L, Wilharm G, Golke J, Busse H-J et al. Description of Corynebacterium trachiae sp. nov., isolated from a white stork (Ciconia ciconia). Int J Syst Evol Microbiol 2015; 65:784–788 [View Article][PubMed]
    [Google Scholar]
  8. Kämpfer P, Lodders N, Warfolomeow I, Falsen E, Busse H-J. Corynebacterium lubricantis sp. nov., isolated from a coolant lubricant. Int J Syst Evol Microbiol 2009; 59:1112–1115 [View Article][PubMed]
    [Google Scholar]
  9. Kämpfer P, Jerzak L, Bochenski M, Kasprzak M, Wilharm G et al. Corynebacterium pelargi sp. nov., isolated from the trachea of white stork nestlings. Int J Syst Evol Microbiol 2015; 65:1415–1420 [View Article][PubMed]
    [Google Scholar]
  10. Moaledj K. Comparison of Gram-staining and alternate methods, KOH test and aminopeptidase activity in aquatic bacteria: their application to numerical taxonomy. J Microbiol Methods 1986; 5:303–310 [View Article]
    [Google Scholar]
  11. Lane DJ. 16S/23S rRNA sequencing. Nucleic Acid Techniques in Bacterial Systematics 1991 pp. 115–175
    [Google Scholar]
  12. 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]
  13. 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]
  14. Felsenstein J. PHYLIP (Phylogeny Inference Package) Version 3.695 Seattle, WA: Department of Genome Sciences, University of Washington; 2013
    [Google Scholar]
  15. Koren S, Wlenz BP, Berlin K, Miller JR, Bergman NH et al. Canu: scalable and accurate k-mer weighting and repeat separation. Genome Research 2017; 27:722–736
    [Google Scholar]
  16. Walker BJ, Abeel T, Shea T, Priest M, Abouelliel A et al. Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement. PLoS One 2014; 9:e112963 [View Article][PubMed]
    [Google Scholar]
  17. Gordon D, Green P. Consed: a graphical editor for next-generation sequencing. Bioinformatics 2013; 29:2936–2937 [View Article][PubMed]
    [Google Scholar]
  18. Richter M, Rosselló-Móra R, Oliver Glöckner F, Peplies J. JSpeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison. Bioinformatics 2016; 32:929–931 [View Article][PubMed]
    [Google Scholar]
  19. Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [View Article][PubMed]
    [Google Scholar]
  20. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 2009; 106:19126–19131 [View Article][PubMed]
    [Google Scholar]
  21. Tindall BJ. A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 1990; 13:128–130 [View Article]
    [Google Scholar]
  22. Tindall BJ. Lipid composition of Halobacterium lacusprofundi . FEMS Microbiol Lett 1990; 66:199–202 [View Article]
    [Google Scholar]
  23. Altenburger P, Kämpfer P, Makristathis A, Lubitz W, Busse H-J. Classification of bacteria isolated from a medieval wall painting. J Biotechnol 1996; 47:39–52 [View Article]
    [Google Scholar]
  24. Stolz A, Busse H-J, Kämpfer P. Pseudomonas knackmussii sp. nov. Int J Syst Evol Microbiol 2007; 57:572–576 [View Article][PubMed]
    [Google Scholar]
  25. Schumann P. Peptidoglycan structure. Methods Microbiol 2011; 38:101–129
    [Google Scholar]
  26. Kämpfer P, Kroppenstedt RM. Numerical analysis of fatty acid patterns of coryneform bacteria and related taxa. Can J Microbiol 1996; 42:989–1005 [View Article]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.003580
Loading
/content/journal/ijsem/10.1099/ijsem.0.003580
Loading

Data & Media loading...

Supplements

Supplementary File 1

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