1887

Abstract

The aim of this study was to reclarify the taxonomic status of strain Bi. by performing comparative analyses with the other four type strains within the group. The digital DNA–DNA hybridization (dDDH) and average nucleotide identity (ANI) values between strains Bi. ( = DSMZ 26896 = MCCC 1A07089), 41KF2b ( = DSMZ 21631 = MCCC 1A06452), FO-36b ( = DSMZ 19292 = MCCC 1A6451), ATCC 7061 ( = DSMZ 27 = MCCC 1A06453) and HYC-10 ( = MCCC 1A00008) were, respectively, 82.90  % and 98.10  %, which are greater than the thresholds for bacterial species delineation, suggesting that they should belong to the same species, while the dDDH and ANI values between strain DSMZ 26896 and the other three type strains within the group were below the respective thresholds of 70  % and 95  %. Meanwhile, DSMZ 26896 and 41KF2b shared 98.7  % gene sequence similarity based on resequencing, whereas strain DSMZ 26896 shared low similarities ( < 95  %) with the other three type strains. In addition, in comparison with those from the other three type strains, phenotypic data of DSMZ 26896 and 41KF2b, including API 20NE, API ZYM, Biolog GN2 and API 50CHB tests, showed slight differences. The data from these combined genotypic and phenotypic analyses suggest that Branquinho 2014 should be regarded as a later heterotypic synonym of Shivaji 2006 .

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.000336
2015-08-01
2019-10-17
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/65/8/2769.html?itemId=/content/journal/ijsem/10.1099/ijs.0.000336&mimeType=html&fmt=ahah

References

  1. Auch A.F., von Jan M., Klenk H.P., Göker M.. ( 2010;). Digital DNA-DNA hybridization for microbial species delineation by means of genome-to-genome sequence comparison. Stand Genomic Sci 2: 117–134 [CrossRef][PubMed].
    [Google Scholar]
  2. Branquinho R., Sousa C., Osório H., Meirinhos-Soares L., Lopes J., Carriço J.A., Busse H.J., Abdulmawjood A., Klein G., other authors. ( 2014a;). Bacillus invictae sp. nov., isolated from a health product. Int J Syst Evol Microbiol 64: 3867–3876 [CrossRef][PubMed].
    [Google Scholar]
  3. Branquinho R., Meirinhos-Soares L., Carriço J.A., Pintado M., Peixe L.V.. ( 2014b;). Phylogenetic and clonality analysis of Bacillus pumilus isolates uncovered a highly heterogeneous population of different closely related species and clones. FEMS Microbiol Ecol 90: 689–698 [CrossRef][PubMed].
    [Google Scholar]
  4. Branquinho R., Sousa C., Lopes J., Pintado M.E., Peixe L.V., Osório H.. ( 2014c;). Differentiation of Bacillus pumilus Bacillus safensis using MALDI-TOF-MS. PLoS One 9: e110127 [CrossRef][PubMed].
    [Google Scholar]
  5. Gevers D., Cohan F.M., Lawrence J.G., Spratt B.G., Coenye T., Feil E.J., Stackebrandt E., Van de Peer Y., Vandamme P., other authors. ( 2005;). Opinion: Re-evaluating prokaryotic species. Nat Rev Microbiol 3: 733–739 [CrossRef][PubMed].
    [Google Scholar]
  6. Goris J., Konstantinidis K.T., Klappenbach J.A., Coenye T., Vandamme P., Tiedje J.M.. ( 2007;). DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. Int J Syst Evol Microbiol 57: 81–91 [CrossRef][PubMed].
    [Google Scholar]
  7. Kämpfer P.. ( 2014;). Continuing importance of the “phenotype” in the genomic era. Methods Microbiol 41: 307–320 [CrossRef].
    [Google Scholar]
  8. Lai Q., Liu Y., Shao Z.. ( 2014;). Bacillus xiamenensis sp. nov., isolated from intestinal tract contents of a flathead mullet (Mugil cephalus). Antonie van Leeuwenhoek 105: 99–107 [CrossRef][PubMed].
    [Google Scholar]
  9. Lapage S.P., Sneath P.H.A., Lessel E.F., Skerman V.B.D., Seeliger H.P.R., Clark W.A.. ( 1992;). International Code of Nomenclature of Bacteria (1990 Revision). Bacteriological Code Washington, DC: American Society for Microbiology;.
    [Google Scholar]
  10. Liu Y., Lai Q., Dong C., Sun F., Wang L., Li G., Shao Z.. ( 2013;). Phylogenetic diversity of the Bacillus pumilus group and the marine ecotype revealed by multilocus sequence analysis. PLoS One 8: e80097 [CrossRef][PubMed].
    [Google Scholar]
  11. Luo R., Liu B., Xie Y., Li Z., Huang W., Yuan J., He G., Chen Y., Pan Q., other authors. ( 2012;). SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler. Gigascience 1: 18 [CrossRef][PubMed].
    [Google Scholar]
  12. Meier-Kolthoff J.P., Auch A.F., Klenk H.P., Göker M.. ( 2013;). Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 14: 60 [CrossRef][PubMed].
    [Google Scholar]
  13. Richter M., Rosselló-Móra R.. ( 2009;). Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci U S A 106: 19126–19131 [CrossRef][PubMed].
    [Google Scholar]
  14. Satomi M., La Duc M.T., Venkateswaran K.. ( 2006;). Bacillus safensis sp. nov., isolated from spacecraft and assembly-facility surfaces. Int J Syst Evol Microbiol 56: 1735–1740 [CrossRef][PubMed].
    [Google Scholar]
  15. Shivaji S., Chaturvedi P., Suresh K., Reddy G.S., Dutt C.B., Wainwright M., Narlikar J.V., Bhargava P.M.. ( 2006;). Bacillus aerius sp. nov., Bacillus aerophilus sp. nov., Bacillus stratosphericus sp. nov. and Bacillus altitudinis sp. nov., isolated from cryogenic tubes used for collecting air samples from high altitudes. Int J Syst Evol Microbiol 56: 1465–1473 [CrossRef][PubMed].
    [Google Scholar]
  16. Wang L.T., Lee F.L., Tai C.J., Kasai H.. ( 2007;). Comparison of gyrB gene sequences, 16S rRNA gene sequences and DNA-DNA hybridization in the Bacillus subtilis group. Int J Syst Evol Microbiol 57: 1846–1850 [CrossRef][PubMed].
    [Google Scholar]
  17. Wayne L., Brenner D., Colwell R., Grimont P., Kandler O., Krichevsky M., Moore L., Moore W., Murray R., other authors. ( 1987;). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37: 463–464 [CrossRef].
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.000336
Loading
/content/journal/ijsem/10.1099/ijs.0.000336
Loading

Data & Media loading...

Most Cited This Month

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