1887

Abstract

A Gram-stain-negative, rod-shaped and aerobic bacterium, designated HYN0004, was isolated from lake water. The strain grew at 15–35 °C and pH 7.0–9.0 on R2A. The isoprenoid quinone was Q10 and major polar lipids were phosphatidylglycerol and one unidentified glycolipid. The genome was 2.83 Mb with a DNA G+C content of 69.9 mol%. 16S rRNA gene sequence analyses revealed that HYN0004 represented a member of the genus Phenylobacterium and shared sequence similarities with Phenylobacterium conjunctum (97.8 %), Phenylobacterium koreense (97.5 %), Phenylobacterium aquaticum (97.2 %), and Phenylobacterium heamatophilum (97.0 %). In addition to the low sequence similarities, the phylogenetic tree shapes indicated that HYN0004represents an independent species of this genus. The genomic and phenotypic properties, including small genome size, inability to carry out numerous enzymatic reactions and high ratio of C18 : 1ω6c and/or C18 : 1ω7c in fatty acids, verified the differentiation between HYN0004 and related species. Thus, we propose a novel species of the genus Phenylobacterium , named as Phenylobacterium parvum sp. nov. The type strain is HYN0004 (=KACC 19185=NBRC 112736).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.003284
2019-02-04
2020-01-17
Loading full text...

Full text loading...

References

  1. Lingens F, Blecher R, Blecher H, Blobel F, Eberspacher J et al. Phenylobacterium immobile gen. nov., sp. nov., a Gram-negative bacterium that degrades the herbicide chloridazon. Int J Syst Bacteriol 1985;35:26–39 [CrossRef]
    [Google Scholar]
  2. Eberspächer J. Bergey's Manual of Systematics of Archaea and Bacteria John Wiley & Sons, Inc; 2005
    [Google Scholar]
  3. Abraham WR, Macedo AJ, Lünsdorf H, Fischer R, Pawelczyk S et al. Phylogeny by a polyphasic approach of the order Caulobacterales, proposal of Caulobacter mirabilis sp. nov., Phenylobacterium haematophilum sp. nov. and Phenylobacterium conjunctum sp. nov., and emendation of the genus Phenylobacterium. Int J Syst Evol Microbiol 2008;58:1939–1949 [CrossRef][PubMed]
    [Google Scholar]
  4. 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 [CrossRef][PubMed]
    [Google Scholar]
  5. Jeon YS, Lee K, Park SC, Kim BS, Cho YJ et al. EzEditor: a versatile sequence alignment editor for both rRNA- and protein-coding genes. Int J Syst Evol Microbiol 2014;64:689–691 [CrossRef][PubMed]
    [Google Scholar]
  6. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0. Mol Biol Evol 2013;30:2725–2729 [CrossRef][PubMed]
    [Google Scholar]
  7. Ronquist F, Teslenko M, van der Mark P, Ayres DL, Darling A et al. MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Syst Biol 2012;61:539–542 [CrossRef][PubMed]
    [Google Scholar]
  8. Kim E, Shin SK, Choi S, Yi H. Polaribacter vadi sp. nov., isolated from a marine gastropod. Int J Syst Evol Microbiol 2017;67:144–147 [CrossRef][PubMed]
    [Google Scholar]
  9. Shin SK, Kim E, Choi S, Yi H. Cochleicola gelatinilyticus gen. nov., sp. nov., Isolated from a marine gastropod, Reichia luteostoma. J Microbiol Biotechnol 2016;26:1439–1445 [CrossRef][PubMed]
    [Google Scholar]
  10. Shin SK, Ha Y, Cho YJ, Kwon S, Yong D et al. Flavobacterium gilvum sp. nov., isolated from stream water. Int J Syst Evol Microbiol 2016;67:153–157 [CrossRef][PubMed]
    [Google Scholar]
  11. Gerhardt P. Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994
    [Google Scholar]
  12. 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;64:1825 [CrossRef][PubMed]
    [Google Scholar]
  13. Aslam Z, Im WT, Ten LN, Lee ST. Phenylobacterium koreense sp. nov., isolated from South Korea. Int J Syst Evol Microbiol 2005;55:2001–2005 [CrossRef][PubMed]
    [Google Scholar]
  14. Jo JH, Choi GM, Lee SY, Im WT. Phenylobacterium aquaticum sp. nov., isolated from the reservoir of a water purifier. Int J Syst Evol Microbiol 2016;66:3519–3523 [CrossRef][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.003284
Loading
/content/journal/ijsem/10.1099/ijsem.0.003284
Loading

Data & Media loading...

Supplements

Supplementary File 1

PDF

Most cited articles

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