1887

Abstract

is a marine bacterium species of the genus (, ). The species has been shown to be closely related to members of the genus in the so-called Harveyi clade. The clade includes at least 11 closely related species with similar physiological and biochemical properties. Due to these similarities, species of the Harveyi clade are difficult to characterize taxonomically. Previously phenotypic and genotypic properties of the type strain were compared with six species of the Harveyi clade, resulting in the possibility that could be a synonym of a previously described species. In this study, the taxonomic status of was analyzed using genomic approaches. The whole-genome sequence of the type strain of , CECT 7692, was obtained and analyzed. Calculations of average nucleotide identity with the algorithm (ANIb) showed that CECT 7692 has an ANIb of 97.5 % or higher to five strains of , including the type strain, but an ANIb lower than 93.5 % to other members of the Harveyi clade . Phylogenetic analysis based on nucleotide sequences of 133 protein-coding genes showed a close evolutionary relationship of CECT 7692 to . Based on these results, is proposed to be a later heterotypic synonym of .

Keyword(s): Harveyi clade and Vibrionaceae
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.001173
2016-08-01
2021-10-16
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/66/8/3214.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.001173&mimeType=html&fmt=ahah

References

  1. Balcázar J. L., Planas M., Pintado J. 2012; Vibrio inhibens sp. nov., a novel bacterium with inhibitory activity against Vibrio species. J Antibiot (Tokyo) 65:301–305 [View Article][PubMed]
    [Google Scholar]
  2. Goloboff P. A., Farris J. S., Nixon K. C. 2008; TNT, a free program for phylogenetic analysis. Cladistics 24:774–786 [View Article]
    [Google Scholar]
  3. González-Escalona N., Romero J., Espejo R. T. 2005; Polymorphism and gene conversion of the 16S rRNA genes in the multiple rRNA operons of Vibrio parahaemolyticus . FEMS Microbiol Lett 246:213–219 [View Article][PubMed]
    [Google Scholar]
  4. 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 [View Article][PubMed]
    [Google Scholar]
  5. Kajitani R., Toshimoto K., Noguchi H., Toyoda A., Ogura Y., Okuno M., Yabana M., Harada M., Nagayasu E. et al. 2014; Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads. Genome Res 24:1384–1395 [View Article][PubMed]
    [Google Scholar]
  6. Lee I., Kim Y. O., Park S. C., Chun J. 2015; OrthoANI: An improved algorithm and software for calculating average nucleotide identity. Int J Syst Evol Microbiol 66:1100–1103 [CrossRef]
    [Google Scholar]
  7. Maddison W. P., Maddison D. R. 2015; Mesquite: a modular system for evolutionary analysis Version 3.04. http://mesquiteproject.org
  8. 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 [View Article][PubMed]
    [Google Scholar]
  9. Oren A., Garrity G. M. 2015; List of new names and new combinations previously effectively, but not validly, published. Int J Syst Evol Microbiol 65:741–744 [CrossRef]
    [Google Scholar]
  10. 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 [View Article][PubMed]
    [Google Scholar]
  11. Sawabe T., Ogura Y., Matsumura Y., Feng G., Amin A. R., Mino S., Nakagawa S., Sawabe T., Kumar R. et al. 2013; Updating the Vibrio clades defined by multilocus sequence phylogeny: proposal of eight new clades, and the description of Vibrio tritonius sp. nov. Front Microbiol 27:414 [View Article]
    [Google Scholar]
  12. Urbanczyk H., Ogura Y., Hayashi T. 2013; Taxonomic revision of Harveyi clade bacteria (family Vibrionaceae) based on analysis of whole genome sequences. Int J Syst Evol Microbiol 63:2742–2751 [View Article][PubMed]
    [Google Scholar]
  13. Urbanczyk H., Ogura Y., Hayashi T. 2014; Contrasting inter- and intraspecies recombination patterns in the ‘Harveyi clade’ Vibrio collected over large spatial and temporal scales. Genome Biol Evol 19:71–80 [View Article]
    [Google Scholar]
  14. Urbanczyk Y., Ogura Y., Hayashi T., Urbanczyk H. 2015; Description of a novel marine bacterium, Vibrio hyugaensis sp. nov., based on genomic and phenotypic characterization. Syst Appl Microbiol 38:300–304 [View Article][PubMed]
    [Google Scholar]
  15. Vezzi A., Campanaro S., D'Angelo M., Simonato F., Vitulo N., Lauro F. M., Cestaro A., Malacrida G., Simionati B. et al. 2005; Life at depth: Photobacterium profundum genome sequence and expression analysis. Science 307:1459–1461 [View Article][PubMed]
    [Google Scholar]
  16. Yoshizawa S., Tsuruya Y., Fukui Y., Sawabe T., Yokota A., Kogure K., Higgins M., Carson J., Thompson F. L. 2012; Vibrio jasicida sp. nov., a member of the Harveyi clade, isolated from marine animals (packhorse lobster, abalone and Atlantic salmon). Int J Syst Evol Microbiol 62:1864–1870 [View Article][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.001173
Loading
/content/journal/ijsem/10.1099/ijsem.0.001173
Loading

Data & Media loading...

Supplements

Supplementary File 1

PDF

Most cited this month Most Cited RSS feed

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