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Abstract

A Gram-stain-negative, rod-shaped, facultatively anaerobic bacterium, designated as strain HYN0051, was isolated from lake water. 16S rRNA gene sequence analyses indicated that the isolate shares the highest sequence similarity with the genus Pragia (97.1 %) of the family Enterobacteriaceae . Strain HYN0051 did not form a rigid clade with the genus Pragia in any of the phylogenetic trees, demonstrating the novel generic status of the isolate. The genome of strain HYN0051 (CP029185) is a single circular chromosome of 3.84 Mb. The major fatty acids detected were C14 : 0, C16 : 0, summed feature 2 (C12 : 0 aldehyde and/or unknown 10.928), summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c) and summed feature 8 (C18 : 1 ω6c and/or C18 : 1 ω7c). The isoprenoid quinones were Q-8, MK-8 and DMK-8. The major polar lipids were phosphatidylglycerol, phosphatidylethanolamine and one unidentified phospholipid. The genome size, G+C content and fatty acid profile were very similar to that of the genus Pragia , but the composition of isoprenoid quinones and polar lipids, and numerous phenotypic properties also supported the distinctiveness of the new isolate from the genus Pragia . Thus, based on phylogenetic and phenotypic data, a novel species of a new genus, Limnobaculum parvum gen. nov., sp. nov., is proposed. The type strain of Limnobaculum parvum is HYN0051 (=KACC 19186=NBRC 112742).

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/content/journal/ijsem/10.1099/ijsem.0.003401
2019-04-17
2019-08-25
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References

  1. Aldova E, Hausner O, Brenner DJ, Kocmoud Z, Schindler J et al. Pragia fontium gen. nov., sp. nov. of the Family Enterobacteriaceae, Isolated from Water. Int J Syst Bacteriol 1988;38:183–189 [CrossRef]
    [Google Scholar]
  2. 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]
  3. 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]
  4. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016;33:1870–1874 [CrossRef][PubMed]
    [Google Scholar]
  5. 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]
  6. 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]
  7. Gerhardt P. Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994
    [Google Scholar]
  8. Collins M. 11 Analysis of Isoprenoid Quinones Methods in Microbiology:Elsevier; 1985; pp.329–366
    [Google Scholar]
  9. Bergey DH, Krieg NR, Staley JT. Volume 2: the proteobacteria, part B: the gammaproteobacteria. In Garrity G, Brenner DJ, Krieg NR, Staley JR. (editors) Bergey's Manual of Systematic Bacteriology Springer US; 2005; pp.1106
    [Google Scholar]
  10. Minnikin DE, O'Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 1984;2:233–241 [CrossRef]
    [Google Scholar]
  11. Snopková K, Sedlář K, Bosák J, Chaloupková E, Provazník I et al. Complete genome sequence of Pragia fontium 24613, an environmental bacterium from the family Enterobacteriaceae. Genome Announc 2015;3:e0074000715 [CrossRef][PubMed]
    [Google Scholar]
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