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Arthrobacter dokdonellae sp. nov., isolated from a plant of the genus Campanula

  • Microbial Systematics and Evolutionary Microbiology
  • Published:
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Abstract

A Gram-stain-positive, oxidase- and catalase-positive motile, aerobic, and rod-shaped bacterial strain, designated as DCT-5T, was isolated from a native plant belonging to the genus Campanula at Dokdo island, Republic of Korea. Growth of the strain DCT-5T was observed at 15–37°C (optimum 30°C) on R2A broth, pH 6.0–8.0 (optimum 7.0), and 0–5% (w/v) NaCl concentration (optimum 0%). The 16S rRNA gene sequence analysis revealed that strain DCT-5T was most closely related to Arthrobacter silviterrae KIS14-16T, Arthrobacter livingstonensis LI2T, Arthrobacter stackebrandtii CCM 2783T, Arthrobacter cryoconiti Cr6-08T, Arthrobacter ramosus CCM 1646T, and Arthrobacter psychrochitiniphilus GP3T with pairwise sequence similarities of 98.76%, 97.47%, 97.25%, 97.11%, 97.11%, and 97.00%, respectively. The DNA G+C content of strain DCT-5T was 64.7 mol%, and its DNA-DNA relatedness values with A. silviterrae KIS14-16T, A. livingstonensis LI2T, A. stackebrandtii CCM 2783T, A. psychrochitiniphilus GP3T, A. ramosus CCM 1646T, and A. cryoconiti Cr6-08T were 32.57 ± 2.02%, 28.75 ± 0.88%, 31.93 ± 1.15%, 34.73 ± 1.86%, 29.12 ± 1.56%, and 27.23 ± 0.88%, respectively. The major quinone was MK-9(H2) and major fatty acids were anteiso-C15:0, anteiso-C17:0, iso-C15:0, and iso-C16:0. The polar lipids were diphosphatidylglycerol (DPG), phosphatidylglycerol (PG), phosphatidylinositol (PI), unidentified glycolipid (GL), two unidentified aminophospholipids (APLs), and three unidentified lipids (Ls). The peptidoglycan type was A3α. On the basis of phenotypic, phylogenetic, genotypic, and chemotaxonomic characteristics, strain DCT-5T represents a novel species of the genus Arthrobacter, for which the name Arthrobacter dokdonellae sp. nov. is proposed. The type strain is DCT-5T (= KCTC 49189T = LMG 31284T).

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References

  • Chen, Y.G., Tang, S.K., Zhang, Y.Q., Li, Z.Y., Yi, L.B., Wang, Y.X., Li, W.J., and Cui, X.L. 2009. Arthrobacter halodurans sp. nov., a new halotolerant bacterium isolated from sea water. Antonie van Leeuwenhoek 96, 63–70.

    Article  CAS  PubMed  Google Scholar 

  • Conn, H. and Dimmick, I. 1947. Soil bacteria similar in morphology to Mycobacterium and Corynebacterium. J. Bacteriol. 54, 291.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Dastager, S.G., Liu, Q., Tang, S.K., Krishnamurthi, S., Lee, J.C., and Li, W.J. 2014. Arthrobacter enclensis sp. nov., isolated from sediment sample. Arch. Microbiol. 196, 775–782.

    Article  CAS  PubMed  Google Scholar 

  • Ding, L., Hirose, T., and Yokota, A. 2009. Four novel Arthrobacter species isolated from filtration substrate. Int. J. Syst. Evol. Microbiol. 59, 856–862.

    Article  CAS  PubMed  Google Scholar 

  • Ensign, J.C. and Rittenberg, S.C. 1963. A crystalline pigment produced from 2-hydroxypyridine by Arthrobacter crystallopoietes n. sp. Archiv. für Mikrobiologie 47, 137–153.

    Article  CAS  PubMed  Google Scholar 

  • Ezaki, T., Hashimoto, Y., and Yabuuchi, E. 1989. 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. Evol. Microbiol. 39, 224–229.

    Google Scholar 

  • Felsenstein, J. 1981. Evolutionary trees from DNA sequences: a maximum likelihood approach. J. Mol. Evol. 17, 368–376.

    Article  CAS  PubMed  Google Scholar 

  • Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.

    Article  PubMed  Google Scholar 

  • Fischer, M. and Thatte, B. 2010. Revisiting an equivalence between maximum parsimony and maximum likelihood methods in phylogenetics. Bull. Math. Biol. 72, 208–220.

    Article  PubMed  Google Scholar 

  • Ganzert, L., Bajerski, F., Mangelsdorf, K., Lipski, A., and Wagner, D. 2011. Arthrobacter livingstonensis sp. nov. and Arthrobacter cryotolerans sp. nov., salt-tolerant and psychrotolerant species from Antarctic soil. Int. J. Syst. Evol. Microbiol. 61, 979–984.

    Article  CAS  PubMed  Google Scholar 

  • Hall, T.A. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp. Ser. 41, 95–98.

    CAS  Google Scholar 

  • Hoang, V.A., Kim, Y.J., Nguyen, N.L., and Yang, D.C. 2014. Arthrobacter gyeryongensis sp. nov., isolated from soil of a Gynostemma pentaphyllum field. Int. J. Syst. Evol. Microbiol. 64, 420–425.

    Article  CAS  PubMed  Google Scholar 

  • Hu, H.Y., Fujie, K., and Urano, K. 1999. Development of a novel solid phase extraction method for the analysis of bacterial quinones in activated sludge with a higher reliability. J. Biosci. Bioeng. 87, 378–382.

    Article  CAS  PubMed  Google Scholar 

  • Kageyama, A., Morisaki, K., Omura, S., and Takahashi, Y. 2008. Arthrobacter oryzae sp. nov. and Arthrobacter humicola sp. nov. Int. J. Syst. Evol. Microbiol. 58, 53–56.

    Article  CAS  PubMed  Google Scholar 

  • Kimura, M. 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16, 111–120.

    Article  CAS  PubMed  Google Scholar 

  • Koh, H.W., Hong, H., Min, U.G., Kang, M.S., Kim, S.G., Na, J.G., Rhee, S.K., and Park, S.J. 2015a. Rhodanobacter aciditrophus sp. nov., an acidophilic bacterium isolated from mine wastewater. Int. J. Syst. Evol. Microbiol. 65, 4574–4579.

    Article  CAS  PubMed  Google Scholar 

  • Koh, H.W., Song, H.S., Song, U., Yim, K.J., Roh, S.W., and Park, S.J. 2015b. Halolamina sediminis sp. nov., an extremely halophilic archaeon isolated from solar salt. Int. J. Syst. Evol. Microbiol. 65, 2479–2484.

    Article  CAS  PubMed  Google Scholar 

  • Komagata, K. and Suzuki, K.I. 1988. Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol. 19, 161–207.

    Article  Google Scholar 

  • Kumar, S., Stecher, G., and Tamura, K. 2016. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol. Biol. Evol. 33, 1870–1874.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Lee, J.Y., Hyun, D.W., Kim, P.S., Kim, H.S., Shin, N.R., Yun, J.H., Jung, M.J., Kim, M.S., Whon, T.W., and Bae, J.W. 2016. Arthrobacter echini sp. nov., isolated from the gut of a purple sea urchin, Heliocidaris crassispina. Int. J. Syst. Evol. Microbiol. 66, 1887–1893.

    Article  CAS  PubMed  Google Scholar 

  • Lee, S.A., Kim, J.M., Cho, H., Kim, S.J., Ahn, J.H., Hamada, M., Kwon, S.W., and Weon, H.Y. 2017. Arthrobacter silviterrae sp. nov., isolated from forest soil. Int. J. Syst. Evol. Microbiol. 67, 4546–4551.

    Article  CAS  PubMed  Google Scholar 

  • Lee, J.S., Lee, K.C., Pyun, Y.R., and Bae, K.S. 2003. Arthrobacter koreensis sp. nov., a novel alkalitolerant bacterium from soil. Int. J. Syst. Evol. Microbiol. 53, 1277–1280.

    Article  CAS  PubMed  Google Scholar 

  • Liu, Q., Xin, Y.H., Chen, X.L., Liu, H.C., Zhou, Y.G., and Chen, W.X. 2018. Arthrobacter ruber sp. nov., isolated from glacier ice. Int. J. Syst. Evol. Microbiol. 68, 1616–1621.

    Article  CAS  PubMed  Google Scholar 

  • Margesin, R., Schumann, P., Zhang, D.C., Redzic, M., Zhou, Y.G., Liu, H.C., and Schinner, F. 2012. Arthrobacter cryoconiti sp. nov., a psychrophilic bacterium isolated from alpine glacier cryoconite. Int. J. Syst. Evol. Microbiol. 62, 397–402.

    Article  CAS  PubMed  Google Scholar 

  • Park, Y., Kook, M., Ngo, H.T., Kim, K.Y., Park, S.Y., Mavlonov, G.T., and Yi, T.H. 2014. Arthrobacter bambusae sp. nov., isolated from soil of a bamboo grove. Int. J. Syst. Evol. Microbiol. 64, 3069–3074.

    Article  CAS  PubMed  Google Scholar 

  • Reddy, G.S., Aggarwal, R.K., Matsumoto, G.I., and Shivaji, S. 2000. Arthrobacter flavus sp. nov., a psychrophilic bacterium isolated from a pond in McMurdo Dry Valley, Antarctica. Int. J. Syst. Evol. Microbiol. 50Pt 4, 1553–1561.

    Article  CAS  PubMed  Google Scholar 

  • Reddy, G.S., Prakash, J.S., Matsumoto, G.I., Stackebrandt, E., and Shivaji, S. 2002. Arthrobacter roseus sp. nov., a psychrophilic bacterium isolated from an antarctic cyanobacterial mat sample. Int. J. Syst. Evol. Microbiol. 52, 1017–1021.

    CAS  PubMed  Google Scholar 

  • Sacks, L.E. 1954. Observations on the morphogenesis of Arthrobacter citreus, spec nov. J. Bacteriol. 67, 342–345.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Saitou, N. and Nei, M. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4, 406–425.

    CAS  PubMed  Google Scholar 

  • Sasser, M. 1990. Identification of bacteria by gas chromatography of cellular fatty acids. MIDI, Technical note #101.

  • Schleifer, K.H. and Kandler, O. 1972. Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol. Rev. 36, 407.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Siddiqi, M.Z., Kim, Y.J., Hoang, V.A., Siddiqi, M.H., Huq, M.A., and Yang, D.C. 2014. Arthrobacter ginsengisoli sp. nov., isolated from soil of a ginseng field. Arch. Microbiol. 196, 863–870.

    Article  CAS  PubMed  Google Scholar 

  • Thompson, J.D., Gibson, T.J., Plewniak, F., Jeanmougin, F., and Higgins, D.G. 1997. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 25, 4876–4882.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Tvrzova, L., Schumann, P., Sproer, C., Sedlacek, I., Verbarg, S., Kroppenstedt, R.M., and Pacova, Z. 2005. Polyphasic taxonomic study of strain CCM 2783 resulting in the description of Arthrobacter stackebrandtii sp. nov. Int. J. Syst. Evol. Microbiol. 55, 805–808.

    Article  CAS  PubMed  Google Scholar 

  • Wang, F., Gai, Y., Chen, M., and Xiao, X. 2009. Arthrobacter psychrochitiniphilus sp. nov., a psychrotrophic bacterium isolated from Antarctica. Int. J. Syst. Evol. Microbiol. 59, 2759–2762.

    Article  CAS  PubMed  Google Scholar 

  • Weisburg, W.G., Barns, S.M., Pelletier, D.A., and Lane, D.J. 1991. 16S ribosomal DNA amplification for phylogenetic study. J. Bacteriol. 173, 697–703.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Yoon, S.H., Ha, S.M., Kwon, S., Lim, J., Kim, Y., Seo, H., and Chun, J. 2017. Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. Int. J. Syst. Evol. Microbiol. 67, 1613–1617.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

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Acknowledgements

This work was supported by grants from the National Institute of Biological Resources, funded by the Ministry of Environment (no. NIBR201701107 and NIBR201835102) and the National Research Foundation of Korea (2018R1-C1B6006762).

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Authors and Affiliations

  1. R&D Division, VITABIO, Inc., Daejeon, 34025, Republic of Korea

    Hyeon-Woo Koh & Hongik Kim

  2. Biological Resources Utilization Department, National Institute of Biological Resources, Incheon, 22689, Republic of Korea

    Myung-Suk Kang

  3. Microorganism Resources Division, National Institute of Biological Resources, Incheon, 22689, Republic of Korea

    Ki-Eun Lee & Eun-Young Lee

  4. Department of Biology, Jeju National University, Jeju, 63243, Republic of Korea

    Soo-Je Park

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  1. Hyeon-Woo Koh
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Koh, HW., Kang, MS., Lee, KE. et al. Arthrobacter dokdonellae sp. nov., isolated from a plant of the genus Campanula. J Microbiol. 57, 732–737 (2019). https://doi.org/10.1007/s12275-019-8540-x

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  • DOI: https://doi.org/10.1007/s12275-019-8540-x

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