1887

Abstract

A Gram-reaction-negative, aerobic, non-motile, short-rod-shaped bacterium (THG-T2.31) was isolated from the rhizosphere of Mugunghwa (). Growth occurred at 10–35 °C (optimum 28 °C), at pH 5.0–8.0 (optimum pH 7.0) and with 0–4.0 % NaCl (optimum 1.0 %). Based on 16S rRNA gene sequence analysis, the nearest phylogenetic neighbours of strain THG-T2.31 were identified as DSM 11574 (98.4 %), BC74171 (98.3 %), E-396 (98.3 %), B7 (97.3 %) and MBT-A4 (97.0 %); levels of similarity with the type strains of other species of the genus were lower than 97.0 %. The polar lipids were diphosphatidylglycerol, phosphatidylmethylethanolamine, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine, one unidentified aminolipid and two unidentified phospholipids. The major fatty acids were C, C, C 3-OH, and C 7. The quinone was ubiquinone-10 (Q-10). The DNA G+C content of strain THG-T2.31 was 69.1 mol%. DNA–DNA hybridization values between strain THG-T2.31 and DSM 11574, BC74171, E-396, B7 and MBT-A4 were 38.9 % (34.9 %, reciprocal analysis), 29.1 % (23.5 %), 28.0 % (19.7 %), 18.9 % (9.3) and 13.1 % (6.2 %). On the basis of the phylogenetic analysis, chemotaxonomic data, physiological characteristics and DNA–DNA hybridization data, strain THG-T2.31 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is THG-T2.31 (=KACC 18933=CCTCC AB 2016182).

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2017-07-01
2020-04-09
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References

  1. Davis DH, Doudoroff M, Stanier RY, Mandel M. Proposal to reject the genus Hydrogenomonas: taxonomic implications. Int J Syst Bacteriol 1969;19:375–390 [CrossRef]
    [Google Scholar]
  2. Parte AC. LPSNlist of prokaryotic names with standing in nomenclature. Nucleic Acids Res 2014;42:D613–D616 [CrossRef][PubMed]
    [Google Scholar]
  3. Zhu S, Zhao Q, Zhang G, Jiang Z, Sheng H et al. Paracoccus tibetensis sp. nov., isolated from Qinghai-Tibet Plateau permafrost. Int J Syst Evol Microbiol 2013;63:1902–1905 [CrossRef][PubMed]
    [Google Scholar]
  4. Roh SW, Nam YD, Chang HW, Kim KH, Kim MS et al. Paracoccus aestuarii sp. nov., isolated from tidal flat sediment. Int J Syst Evol Microbiol 2009;59:790–794 [CrossRef][PubMed]
    [Google Scholar]
  5. Kämpfer P, Lai WA, Arun AB, Young CC, Rekha PD et al. Paracoccus rhizosphaerae sp. nov., isolated from the rhizosphere of the plant Crossostephium chinense (L.) Makino (Seremban). Int J Syst Evol Microbiol 2012;62:2750–2756 [CrossRef][PubMed]
    [Google Scholar]
  6. Zheng Q, Wang Y, Chen C, Wang Y, Xia X et al. Paracoccus beibuensis sp. nov., isolated from the South China Sea. Curr Microbiol 2011;62:710–714 [CrossRef][PubMed]
    [Google Scholar]
  7. Nakamura A. Paracoccus laeviglucosivorans sp. nov., an L-glucose-utilizing bacterium isolated from soil. Int J Syst Evol Microbiol 2015;65:3878–3884 [CrossRef]
    [Google Scholar]
  8. Dominguez-Moñino I, Jurado V, Hermosin B, Saiz-Jimenez C. Paracoccus cavernae sp. nov., isolated from a show cave. Int J Syst Evol Microbiol 2016;66:2265–2270 [CrossRef][PubMed]
    [Google Scholar]
  9. Park S, Yoon SY, Jung YT, Won SM, Park DS et al. Paracoccus aestuariivivens sp. nov., isolated from a tidal flat. Int J Syst Evol Microbiol 2016;66:2992–2998 [CrossRef][PubMed]
    [Google Scholar]
  10. Zhang G, Xian W, Yang J, Liu W, Jiang H et al. Paracoccus gahaiensis sp. nov. isolated from sediment of Gahai Lake, Qinghai-Tibetan Plateau, China. Arch Microbiol 2016;198:227–232 [CrossRef][PubMed]
    [Google Scholar]
  11. Harker M, Hirschberg J, Oren A. Paracoccus marcusii sp. nov., an orange gram-negative coccus. Int J Syst Bacteriol 1998;48:543–548 [CrossRef][PubMed]
    [Google Scholar]
  12. Tsubokura A, Yoneda H, Mizuta H. Paracoccus carotinifaciens sp. nov., a new aerobic gram-negative astaxanthin-producing bacterium. Int J Syst Bacteriol 1999;49:277–282 [CrossRef][PubMed]
    [Google Scholar]
  13. Pukall R, Laroche M, Kroppenstedt RM, Schumann P, Stackebrandt E et al. Paracoccus seriniphilus sp. nov., an L-serine-dehydratase-producing coccus isolated from the marine bryozoan Bugula plumosa. Int J Syst Evol Microbiol 2003;53:443–447 [CrossRef][PubMed]
    [Google Scholar]
  14. Lee JH, Kim YS, Choi TJ, Lee WJ, Kim YT. Paracoccus haeundaensis sp. nov., a Gram-negative, halophilic, astaxanthin-producing bacterium. Int J Syst Evol Microbiol 2004;54:1699–1702 [CrossRef][PubMed]
    [Google Scholar]
  15. Ludwig W, Mittenhuber G, Friedrich CG. Transfer of Thiosphaera pantotropha to Paracoccus denitrificans. Int J Syst Bacteriol 1993;43:363–367 [CrossRef][PubMed]
    [Google Scholar]
  16. 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]
  17. Kim OS, Cho YJ, Lee K, Yoon SH, Kim M et al. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 2012;62:716–721 [CrossRef][PubMed]
    [Google Scholar]
  18. Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA et al. Clustal W and Clustal X version 2.0. Bioinformatics 2007;23:2947–2948 [CrossRef][PubMed]
    [Google Scholar]
  19. Hall TA. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 1999;41:95–98
    [Google Scholar]
  20. Kimura M. The Neutral Theory of Molecular Evolution UK: Cambridge University Press; 1984
    [Google Scholar]
  21. 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]
  22. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981;17:368–376 [CrossRef][PubMed]
    [Google Scholar]
  23. Kluge AG, Farris JS. Quantitative phyletics and the evolution of anurans. Syst Biol 1969;18:1–32 [CrossRef]
    [Google Scholar]
  24. 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]
  25. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985;39:783–791 [CrossRef]
    [Google Scholar]
  26. Buck JD, Nonstaining BJD. Nonstaining (KOH) method for determination of gram reactions of marine bacteria. Appl Environ Microbiol 1982;44:992–993[PubMed]
    [Google Scholar]
  27. Yin KZ, Chen F, Lm L. Isolation of the C1-utilization ability bacteria and construction of their genomic library. Biotechnol Bull 2006;5:23–28
    [Google Scholar]
  28. De Vries GE, Harms N, Maurer K, Papendrecht A, Stouthamer AH. Physiological regulation of Paracoccus denitrificans methanol dehydrogenase synthesis and activity. J Bacteriol 1988;170:3731–3737 [CrossRef][PubMed]
    [Google Scholar]
  29. 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]
  30. Kovacs N. Identification of Pseudomonas pyocyanea by the oxidase reaction. Nature 1956;178:703 [CrossRef][PubMed]
    [Google Scholar]
  31. Yan ZF, Lin P, Chu X, Kook M, Li CT et al. Aeromicrobium halotolerans sp. nov., isolated from desert soil sample. Arch Microbiol 2016;198:423–427 [CrossRef][PubMed]
    [Google Scholar]
  32. Yan ZF, Trinh H, Moya G, Lin P, Li CT et al. Lysobacter rhizophilus sp. nov., isolated from rhizosphere soil of mugunghwa, the national flower of South Korea. Int J Syst Evol Microbiol 2016;66:4754–4759 [CrossRef][PubMed]
    [Google Scholar]
  33. 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]
  34. Ezaki T, Hashimoto Y, Yabuuchi E. Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 1989;39:224–229 [CrossRef]
    [Google Scholar]
  35. Stabili L, Gravili C, Tredici SM, Piraino S, Talà A et al. Epibiotic Vibrio luminous bacteria isolated from some hydrozoa and bryozoa species. Microb Ecol 2008;56:625–636 [CrossRef][PubMed]
    [Google Scholar]
  36. Krichevsky M, Moore L, Moore W, Murray R, Stackebrandt E et al. International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 1987;37:463464
    [Google Scholar]
  37. 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]
  38. Collins MD, Jones D. Lipids in the classification and identification of Coryneform bacteria containing peptidoglycans based on 2, 4-diaminobutyric acid. J Appl Bacteriol 1980;48:459–470 [CrossRef]
    [Google Scholar]
  39. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc; 1990
    [Google Scholar]
  40. Collins MD, Pirouz T, Goodfellow M, Minnikin DE. Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 1977;100:221–230 [CrossRef][PubMed]
    [Google Scholar]
  41. Hu HY, Lim BR, Goto N, Fujie K. Analytical precision and repeatability of respiratory quinones for quantitative study of microbial community structure in environmental samples. J Microbiol Methods 2001;47:17–24[PubMed][CrossRef]
    [Google Scholar]
  42. Kroppenstedt RM. Separation of bacterial menaquinones by HPLC using reverse phase (RP18) and a silver loaded Ion exchanger as stationary phases. J Liq Chromatogr 1982;5:2359–2367 [CrossRef]
    [Google Scholar]
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