1887

Abstract

A Gram-stain-negative, rod-shaped, non-motile, strictly aerobic, chemoheterotrophic, light-yellow-pigmented bacterium, designated strain 02OK1/10-76, was isolated from a mangrove estuary in Japan by use of an in situ cultivation technique. Preliminary analysis based on the 16S rRNA gene sequence revealed that the novel isolate was affiliated with the family Flavobacteriaceae of the phylum Bacteroidetes and that it showed highest sequence similarity (96.9 %) to Frondibacter aureus A5Q-67. The DNA G+C content of strain 02OK1/10-76 was 35 mol%; MK-6 was the only menaquinone; and iso-C15 : 0, iso-C17 : 0 3-OH and iso-C16 : 0 3-OH were the major (>10 %) cellular fatty acids. The polar lipid profile consisted of phosphatidylethanolamine, three unidentified aminolipids, an unidentified aminophospholipid and an unidentified lipid. From the distinct phylogenetic position and combination of genotypic and phenotypic characteristics, the strain represents a novel species of the genus Frondibacter , for which the name Frondibacter mangrovi sp. nov. is proposed. The type strain is 02OK1/10-76 (= KCTC 52666 = NBRC 112695). An emended description of F. aureus is also provided.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.002404
2017-10-12
2019-10-21
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/67/12/5013.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.002404&mimeType=html&fmt=ahah

References

  1. Jooste PJ. The taxonomy and significance of Flavobacterium–Cytophaga strains from dairy sources PhD thesis, University of the Orange Free State, South Africa; 1985
    [Google Scholar]
  2. Bernardet JF, Nakagawa Y, Holmes B. Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. Int J Syst Evol Microbiol 2002; 52: 1049– 1070 [CrossRef] [PubMed]
    [Google Scholar]
  3. Garrity GM, Holt JG. The road map to the manual. In Boone DR, Castenholz RW, Garrity GM. (editors) Bergey’s Manual of Systematic Bacteriology, 2nd ed.vol. 1 New York: Springer; 2001; pp. 119– 166 [Crossref]
    [Google Scholar]
  4. Ludwig W, Klenk HP. Overview: a phylogenetic backbone and taxonomic framework for procaryotic systematics. In Boone DR, Castenholz RW, Garrity GM. (editors) Bergey’s Manual of Systematic Bacteriology, 2nd ed.vol. 1 New York: Springer; 2001; pp. 49– 66 [Crossref]
    [Google Scholar]
  5. Kirchman DL. The ecology of Cytophaga-Flavobacteria in aquatic environments. FEMS Microbiol Ecol 2002; 39: 91– 100 [CrossRef] [PubMed]
    [Google Scholar]
  6. O'Sullivan LA, Rinna J, Humphreys G, Weightman AJ, Fry JC. Culturable phylogenetic diversity of the phylum 'Bacteroidetes' from river epilithon and coastal water and description of novel members of the family Flavobacteriaceae: Epilithonimonas tenax gen. nov., sp. nov. and Persicivirga xylanidelens gen. nov., sp. nov. Int J Syst Evol Microbiol 2006; 56: 169– 180 [CrossRef] [PubMed]
    [Google Scholar]
  7. Zeng YX, Zhang F, He JF, Lee SH, Qiao ZY et al. Bacterioplankton community structure in the Arctic waters as revealed by pyrosequencing of 16S rRNA genes. Antonie van Leeuwenhoek 2013; 103: 1309– 1319 [CrossRef] [PubMed]
    [Google Scholar]
  8. Cottrell MT, Kirchman DL. Community composition of marine bacterioplankton determined by 16S rRNA gene clone libraries and fluorescence in situ hybridization. Appl Environ Microbiol 2000; 66: 5116– 5122 [CrossRef] [PubMed]
    [Google Scholar]
  9. Brettar I, Christen R, Höfle MG. Aquiflexum balticum gen. nov., sp. nov., a novel marine bacterium of the Cytophaga-Flavobacterium-Bacteroides group isolated from surface water of the central Baltic Sea. Int J Syst Evol Microbiol 2004; 54: 2335– 2341 [CrossRef] [PubMed]
    [Google Scholar]
  10. Yasumoto-Hirose M, Nishijima M, Ngirchechol MK, Kanoh K, Shizuri Y et al. Isolation of marine bacteria by in situ culture on media-supplemented polyurethane foam. Mar Biotechnol 2006; 8: 227– 237 [CrossRef] [PubMed]
    [Google Scholar]
  11. Yoon J, Yasumoto-Hirose M, Matsuo Y, Nozawa M, Matsuda S et al. Pelagicoccus mobilis gen. nov., sp. nov., Pelagicoccus albus sp. nov. and Pelagicoccus litoralis sp. nov., three novel members of subdivision 4 within the phylum 'Verrucomicrobia', isolated from seawater by in situ cultivation. Int J Syst Evol Microbiol 2007; 57: 1377– 1385 [CrossRef] [PubMed]
    [Google Scholar]
  12. Yoon J, Kasai H. Phylogenetic and taxonomic analysis of Neptunitalea chrysea gen. nov., sp. nov., a member of the phylum Bacteroidetes isolated from seawater by using an in situ cultivation technique. Antonie van Leeuwenhoek 2015; 108: 537– 544 [CrossRef] [PubMed]
    [Google Scholar]
  13. Yoon J, Adachi K, Kasai H. Isolation and classification of a novel marine Bacteroidetes as Frondibacter aureus gen. nov., sp. nov. Antonie van Leeuwenhoek 2015; 107: 321– 328 [CrossRef] [PubMed]
    [Google Scholar]
  14. Mesbah M, Premachandran U, Whitman WB. Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 1989; 39: 159– 167 [CrossRef]
    [Google Scholar]
  15. Weisburg WG, Barns SM, Pelletier DA, Lane DJ. 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 1991; 173: 697– 703 [CrossRef] [PubMed]
    [Google Scholar]
  16. 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]
  17. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997; 25: 4876– 4882 [CrossRef] [PubMed]
    [Google Scholar]
  18. Kimura M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 1980; 16: 111– 120 [CrossRef] [PubMed]
    [Google Scholar]
  19. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4: 406– 425 [PubMed]
    [Google Scholar]
  20. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971; 20: 406– 416 [CrossRef]
    [Google Scholar]
  21. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39: 783– 791 [CrossRef] [PubMed]
    [Google Scholar]
  22. Tamura K, Peterson D, Peterson N, Stecher G, Nei M et al. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 2011; 28: 2731– 2739 [CrossRef] [PubMed]
    [Google Scholar]
  23. Yoon J, Lee KC, Lee JS. Cribrihabitans pelagius sp. nov., a marine alphaproteobacterium isolated from seawater. Int J Syst Evol Microbiol 2016; 66: 3195– 3200 [CrossRef] [PubMed]
    [Google Scholar]
  24. Hertel C, Schmidt G, Fischer M, Oellers K, Hammes WP. Oxygen-dependent regulation of the expression of the catalase gene katA of Lactobacillus sakei LTH677. Appl Environ Microbiol 1998; 64: 1359– 1365 [PubMed]
    [Google Scholar]
  25. Høvik Hansen G, Sørheim R. Improved method for phenotypical characterization of marine bacteria. J Microbiol Methods 1991; 13: 231– 241 [CrossRef]
    [Google Scholar]
  26. Power DA, Johnson JA. Difco™ and BBL™ Manual: Manual of Microbiological Culture Media, 2nd ed. Sparks: Becton Dickinson and Company; 2009; pp. 359– 360
    [Google Scholar]
  27. Lewin RA, Lounsbery DM. Isolation, cultivation and characterization of flexibacteria. J Gen Microbiol 1969; 58: 145– 170 [CrossRef] [PubMed]
    [Google Scholar]
  28. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc; 1990
    [Google Scholar]
  29. 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]
  30. Komagata K, Suzuki K. Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 1987; 19: 161– 207 [Crossref]
    [Google Scholar]
  31. Worliczek HL, Kämpfer P, Rosengarten R, Tindall BJ, Busse HJ. Polar lipid and fatty acid profiles–re-vitalizing old approaches as a modern tool for the classification of mycoplasmas?. Syst Appl Microbiol 2007; 30: 355– 370 [CrossRef] [PubMed]
    [Google Scholar]
  32. Collins MD, Jones D. A note on the separation of natural mixtures of bacterial ubiquinones using reverse-phase partition thin-layer chromatography and high performance liquid chromatography. J Appl Bacteriol 1981; 51: 129– 134 [CrossRef] [PubMed]
    [Google Scholar]
  33. Surendra V, Bhawana P, Suresh K, Srinivas TN, Kumar PA. Imtechella halotolerans gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from estuarine water. Int J Syst Evol Microbiol 2012; 62: 2624– 2630 [CrossRef] [PubMed]
    [Google Scholar]
  34. Quan ZX, Xiao YP, Roh SW, Nam YD, Chang HW et al. Joostella marina gen. nov., sp. nov., a novel member of the family Flavobacteriaceae isolated from the East Sea. Int J Syst Evol Microbiol 2008; 58: 1388– 1392 [CrossRef] [PubMed]
    [Google Scholar]
  35. Hameed A, Shahina M, Lin SY, Lai WA, Liu YC et al. Robertkochia marina gen. nov., sp. nov., of the family Flavobacteriaceae, isolated from surface seawater, and emended descriptions of the genera Joostella and Galbibacter. Int J Syst Evol Microbiol 2014; 64: 533– 539 [CrossRef] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.002404
Loading
/content/journal/ijsem/10.1099/ijsem.0.002404
Loading

Data & Media loading...

Supplements

Supplementary File 1

PDF

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