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Abstract

A Gram-stain-negative, non-spore-forming, non-motile, short-rod-shaped bacterial strain, designated KADR8-3, isolated from Andong sikhye in Andong-si, Gyeongsangbuk-do, Republic of Korea, was characterized using a polyphasic approach. On the basis of morphological, genetic and chemotaxonomic characteristics, it was determined to belong to the genus Ottowia . The phylogenetic similarity based on the 16S rRNA gene sequences indicated the strain formed a clade with Ottowia beijingensis GCS-AN-3, Ottowia thiooxydans DSM 14619, Ottowia pentelensis RB3-7 and ‘ Ottowia shaoguanensis ’ J5-66, showing the highest similarity to O. beijingensis GCS-AN-3 (96.3 %). The major fatty acids were C16 : 0, summed feature 3 (C16 : 1 ω6c and/or C16 : 1 ω7c) and summed feature 8 (C18 : 1 ω6c and/or C18 : 1 ω7c). The predominant respiratory quinone was Q-8. The polar lipids present were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylmonomethylethanolamine, two unidentified aminolipids and two unidentified lipids. The genomic DNA G+C content was 66.80 mol%. These results supported that strain KADR8-3 was clearly distinguishable from its closely related species and represents a novel species of the genus Ottowia , for which the name Ottowia oryzae is proposed. The type strain is KADR8-3 (=KACC 19325=NBRC 113109).

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2018-08-13
2019-10-20
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References

  1. Spring S, Jäckel U, Wagner M, Kämpfer P. Ottowia thiooxydans gen. nov., sp. nov., a novel facultatively anaerobic, N2O-producing bacterium isolated from activated sludge, and transfer of Aquaspirillum gracile to Hylemonella gracilis gen. nov., comb. nov. Int J Syst Evol Microbiol 2004;54:99–106 [CrossRef][PubMed]
    [Google Scholar]
  2. Cao J, Lai Q, Liu Y, Li G, Shao Z. Ottowia beijingensis sp. nov., isolated from coking wastewater activated sludge, and emended description of the genus Ottowia. Int J Syst Evol Microbiol 2014;64:963–967 [CrossRef][PubMed]
    [Google Scholar]
  3. Felföldi T, Kéki Z, Sipos R, Márialigeti K, Tindall BJ et al. Ottowia pentelensis sp. nov., a floc-forming betaproteobacterium isolated from an activated sludge system treating coke plant effluent. Int J Syst Evol Microbiol 2011;61:2146–2150 [CrossRef][PubMed]
    [Google Scholar]
  4. Geng S, Pan XC, Mei R, Wang YN, Sun JQ et al. Ottowia shaoguanensis sp. nov., isolated from coking wastewater. Curr Microbiol 2014;68:324–329 [CrossRef][PubMed]
    [Google Scholar]
  5. Kim H, Kim H, Bang J, Kim Y, Beuchat LR et al. Reduction of Bacillus cereus spores in sikhye, a traditional Korean rice beverage, by modified tyndallization processes with and without carbon dioxide injection. Lett Appl Microbiol 2012;55:218–223 [CrossRef][PubMed]
    [Google Scholar]
  6. Chin CS, Alexander DH, Marks P, Klammer AA, Drake J et al. Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data. Nat Methods 2013;10:563–569 [CrossRef][PubMed]
    [Google Scholar]
  7. Lagesen K, Hallin PF, Rødland E, Stærfeldt HH, Rognes T et al. RNAmmer: consistent annotation of rRNA genes in genomic sequences. Nucleic Acids Res 2007;35:3100–3108
    [Google Scholar]
  8. Seemann T. Prokka: rapid prokaryotic genome annotation. Bioinformatics 2014;30:2068–2069 [CrossRef][PubMed]
    [Google Scholar]
  9. 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]
  10. Pruesse E, Peplies J, Glöckner FO. SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. Bioinformatics 2012;28:1823–1829 [CrossRef][PubMed]
    [Google Scholar]
  11. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987;4:406–425 [CrossRef][PubMed]
    [Google Scholar]
  12. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971;20:406–416 [CrossRef]
    [Google Scholar]
  13. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981;17:368–376 [CrossRef][PubMed]
    [Google Scholar]
  14. 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]
  15. 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]
  16. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985;39:783–791 [CrossRef][PubMed]
    [Google Scholar]
  17. Stackebrandt E, Goebel BM. Taxonomic Note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Evol Microbiol 1994;44:846–849 [CrossRef]
    [Google Scholar]
  18. Skerman VBD. A guide to the identification of the genera of bacteria. In Skerman VBD. (editor) Abstracts of Microbiological Methods New York: Wiley; 1967; p.147
    [Google Scholar]
  19. Schaeffer AB, Fulton MD. A simplified method of staining endospores. Science 1933;77:194 [CrossRef][PubMed]
    [Google Scholar]
  20. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: Microbial ID Inc; 1990
    [Google Scholar]
  21. 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]
  22. Collins MD, Goodfellow M, Minnikin DE. Fatty acid, isoprenoid quinone and polar lipid composition in the classification of Curtobacterium and related taxa. J Gen Microbiol 1980;118:29–37 [CrossRef][PubMed]
    [Google Scholar]
  23. Anderson AJ, Dawes EA. Occurrence, metabolism, metabolic role, and industrial uses of bacterial polyhydroxyalkanoates. Microbiol Rev 1990;54:450–472[PubMed]
    [Google Scholar]
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