1887

International Journal of Systematic and Evolutionary Microbiology

Volume 66, Issue 9

Hymenobacter coalescens sp. nov., isolated from wetland freshwater Free

Abstract

A non-motile and rod-shaped bacterium, designated strain WW84, was isolated from freshwater collected from the Woopo wetland (Republic of Korea). Cells were Gram-stain-negative, aerobic, catalase-positive and oxidase-negative. The major fatty acids were C16 : 0, C18 : 0, iso-C15 : 0 and iso-C17 : 1I and/or anteiso-C17 : 1B. The strain contained MK-7 as the major isoprenoid quinone, phosphatidylethanolamine as the major polar lipid and sym-homospermidine as the major polyamine. The DNA G+C content was 59 mol%. A phylogenetic tree based on 16S rRNA gene sequences showed that strain WW84 forms an evolutionary lineage within the radiation including the members of the genus Hymenobacter with Hymenobacter o cellatus Myx 2105 (96.96 % sequence similarity) as its nearest neighbor. A number of phenotypic characteristics distinguished strain WW84 from the related members of the genus Hymenobacter . On the basis of the evidence presented in this study, a novel species, Hymenobacter coalescens sp. nov. is proposed with strain WW84 (=KCTC 32530=JCM 19493) as the type strain.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): freshwater , Hymenobacter coalescens and Woopo wetland
© 2016 IUMS
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2016-09-01
2019-12-05
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References

  1. Baik K. S., Seong C. N., Moon E. Y., Park Y. D., Yi H., Chun J..( 2006;). Hymenobacter rigui sp. nov., isolated from wetland freshwater. . Int J Syst Evol Microbiol 56: 2189––2192. [CrossRef] [PubMed]
    [Google Scholar]
  2. Bernardet J. F., Nakagawa Y., Holmes B.. Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes( 2002;). Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. . Int J Syst Evol Microbiol 52: 1049––1070. [CrossRef] [PubMed]
    [Google Scholar]
  3. Buczolits S., Denner E. B., Vybiral D., Wieser M., Kämpfer P., Busse H. J..( 2002;). Classification of three airborne bacteria and proposal of Hymenobacter aerophilus sp. nov. . Int J Syst Evol Microbiol 52: 445––456. [CrossRef] [PubMed]
    [Google Scholar]
  4. Buczolits S., Denner E. B., Kämpfer P., Busse H. J..( 2006;). Proposal of Hymenobacter norwichensis sp. nov., classification of ‘Taxeobacter ocellatus', ‘Taxeobacter gelupurpurascens' and ‘Taxeobacter chitinovorans' as Hymenobacter ocellatus sp. nov., Hymenobacter gelipurpurascens sp. nov. and Hymenobacter chitionvorans sp. nov., respectively, and emended description of the genus Hymenobacter Hirsch et al. 1999. . Int J Syst Evol Microbiol 56: 2071––2078.[CrossRef]
    [Google Scholar]
  5. Chang X., Zheng J., Jiang F., Liu P., Kan W., Qu Z., Fang C., Peng F..( 2014;). Hymenobacter arcticus sp. nov., isolated from glacial till. . Int J Syst Evol Microbiol 64: 2113––2118. [CrossRef] [PubMed]
    [Google Scholar]
  6. Chun J., Goodfellow M..( 1995;). A phylogenetic analysis of the genus Nocardia with 16S rRNA gene sequences. . Int J Syst Bacteriol 45: 240––245. [CrossRef] [PubMed]
    [Google Scholar]
  7. Chung A. P., Lopes A., Nobre M. F., Morais P. V..( 2010;). Hymenobacter perfusus sp. nov., Hymenobacter flocculans sp. nov. andHymenobacter metalli sp. nov. three new species isolated from an uranium mine waste water treatment system. . Syst Appl Microbiol 33: 436––443. [CrossRef] [PubMed]
    [Google Scholar]
  8. CLSI( 2009;). Performance Standards for Antimicrobial Susceptibility Testing. 19th Informational Supplement. CLSI Document M100-S19 (ISBN 1-56238-690-5). Wayne, PA:: Clinical and Laboratory Standards Institute;.
     [Google Scholar]
  9. Collins M. D..( 1994;). Isoprenoid quinones. . In Chemical Methods in Prokaryotic Systematics , pp. 265––309. Edited by Goodfellow M., O’Donnell A. G.. Chichester:: Johb Wiley & Sons Ltd;.
     [Google Scholar]
  10. Collins M. D., Hutson R. A., Grant I. R., Patterson M. F..( 2000;). Phylogenetic characterization of a novel radiation-resistant bacterium from irradiated pork: description of Hymenobacter actinosclerus sp. nov. . Int J Syst Evol Microbiol 50: 731––734. [CrossRef] [PubMed]
    [Google Scholar]
  11. Dai J., Wang Y., Zhang L., Tang Y., Luo X., An H., Fang C..( 2009;). Hymenobacter tibetensis sp. nov., a UV-resistant bacterium isolated from Qinghai-Tibet plateau. . Syst Appl Microbiol 32: 543––548. [CrossRef] [PubMed]
    [Google Scholar]
  12. Felsenstein J..( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39: 783––791. [CrossRef]
    [Google Scholar]
  13. Felsenstein J..( 1993;). PHYLIP (phylogeny inference package), version 3.5c. Department of Genetics, University of Washington, Seattle, USA. .
  14. Fitch W. M..( 1971;). Toward defining the course of evolution: minimum change for a specific tree topology. . Syst Zool 20: 406––416. [CrossRef]
    [Google Scholar]
  15. Gordon R. E., Mihm J. M..( 1962;). Identification of Nocardia caviae (Erikson) nov. comb. . Ann N Y Acad Sci 98: 628––636. [CrossRef]
    [Google Scholar]
  16. Hall T. A..( 1999;). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. . Nucl Acids Symp Ser 41: 95––98.
     [Google Scholar]
  17. Hirsch P., Ludwig W., Hethke C., Sittig M., Hoffmann B., Gallikowski C. A..( 1999;). Hymenobacter roseosalivarius gen. nov., sp. nov. from continental Antartica soils and sandstone: bacteria of the Cytophaga/Flavobacterium/Bacteroides line of phylogenetic descent. . Syst Appl Microbiol 21: 374––383. [CrossRef] [PubMed]
    [Google Scholar]
  18. Hoang V. A., Kim Y. J., Nguyen N. L., Yang D. C..( 2013;). Hymenobacter ginsengisoli sp. nov., isolated from soil of a ginseng field. . Int J Syst Evol Microbiol 63: 661––666. [CrossRef] [PubMed]
    [Google Scholar]
  19. Jukes T. H., Cantor C. R..( 1969;). Evolution of protein molecules. . In Mammalian Protein Metabolism, pp. 21––132. Edited by Munro H. N.. York New:: Press Academic;.[CrossRef]
    [Google Scholar]
  20. Kang J. Y., Chun J., Choi A., Moon S. H., Cho J. C., Jahng K. Y..( 2013;). Hymenobacter koreensis sp. nov. andHymenobacter saemangeumensis sp. nov., isolated from estuarine water. . Int J Syst Evol Microbiol 63: 4568––4573. [CrossRef] [PubMed]
    [Google Scholar]
  21. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H. et al.( 2012;). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. . Int J Syst Evol Microbiol 62: 716––721. [CrossRef] [PubMed]
    [Google Scholar]
  22. Klassen J. L., Foght J. M..( 2008;). Differences in carotenoid composition among hymenobacter and related strains support a tree-like model of carotenoid evolution. . Appl Environ Microbiol 74: 2016––2022. [CrossRef] [PubMed]
    [Google Scholar]
  23. Klassen J. L., Foght J. M..( 2011;). Characterization of Hymenobacter isolates from Victoria Upper Glacier, Antarctica reveals five new species and substantial non-vertical evolution within this genus. . Extremophiles 15: 45––57. [CrossRef] [PubMed]
    [Google Scholar]
  24. Komagata K., Suzuki K..( 1987;). Lipids and cell-wall analysis in bacterial systematics. . Methods Microbiol 19: 161––207.[CrossRef]
    [Google Scholar]
  25. Kovacs N..( 1956;). Identification of Pseudomonas pyocyanea by the oxidase reaction. . Nature 178:–703. [CrossRef] [PubMed]
    [Google Scholar]
  26. Marmur J., Doty P..( 1962;). Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. . J Mol Biol 5: 109––118.[PubMed] [CrossRef]
    [Google Scholar]
  27. Minnikin D. E., O'Donnell A. G., Goodfellow M., Alderson G., Athalye M., Schaal A., Parlett J. H..( 1984;). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. . J Microbiol Methods 2: 233––241. [CrossRef]
    [Google Scholar]
  28. Saitou N., Nei M..( 1987;). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4: 406––425.[PubMed]
    [Google Scholar]
  29. Schenkel E., Berlaimont V., Dubois J., Helson-Cambier M., Hanocq M..( 1995;). Improved high-performance liquid chromatographic method for the determination of polyamines as their benzoylated derivatives: application to P388 cancer cells. . J Chromatogr B Biomed Appl 668: 189––197. [CrossRef] [PubMed]
    [Google Scholar]
  30. Smibert R. M., Krieg N. R..( 1994;). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607––654. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R.. Washington, DC:: American Society for Microbiology;.
     [Google Scholar]
  31. Stanier R. Y..( 1940;). Studies on the Cytophagas. . J Bacteriol 40: 619––636.[PubMed]
    [Google Scholar]
  32. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S..( 2013;). mega6: molecular evolutionary genetics analysis version 6.0. . Mol Biol Evol 30: 2725––2729. [CrossRef] [PubMed]
    [Google Scholar]
  33. Thompson J. D., Higgins D. G., Gibson T. J..( 1994;). clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. . Nucleic Acids Res 22: 4673––4680. [CrossRef] [PubMed]
    [Google Scholar]
  34. Zhang L., Dai J., Tang Y., Luo X., Wang Y., An H., Fang C., Zhang C..( 2009;). Hymenobacter deserti sp. nov., isolated from the desert of Xinjiang, China. . Int J Syst Evol Microbiol 59: 77––82. [CrossRef] [PubMed]
    [Google Scholar]
  35. Zhang Q., Liu C., Tang Y., Zhou G., Shen P., Fang C., Yokota A..( 2007;). Hymenobacter xinjiangensis sp. nov., a radiation-resistant bacterium isolated from the desert of Xinjiang, China. . Int J Syst Evol Microbiol 57: 1752––1756. [CrossRef] [PubMed]
    [Google Scholar]
  36. Zhang G., Niu F., Busse H. J., Ma X., Liu W., Dong M., Feng H., An L., Cheng G..( 2008;). Hymenobacter psychrotolerans sp. nov., isolated from the Qinghai–Tibet Plateau permafrost region. . Int J Syst Evol Microbiol 58: 1215––1220. [CrossRef] [PubMed]
    [Google Scholar]
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Hymenobacter coalescens sp. nov., isolated from wetland freshwater
Int J Syst Evol Microbiol 66, 3546 (2016); https://doi.org/10.1099/ijsem.0.001226
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