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Diaminobutyricimonas aerilata gen. nov., sp. nov., a novel member of the family Microbacteriaceae isolated from an air sample in Korea

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Abstract

A novel isolate, designated 6408J-67T, was isolated from an air sample collected from Jeju Island, Republic of Korea. Its phenotypic, genotypic, and chemotaxonomic properties were compared with those of members of the family Microbacteriaceae. The Gram-positive, aerobic, motile rod formed light yellow, smooth, circular and convex colonies. Optimal growth occurred at 30°C and pH 7.0. 16S rRNA gene sequence data showed that the isolate was a novel member of the family Microbacteriaceae, with the highest sequence similarity (97.4%) to Labedella gwakjiensis KSW2-17T and less (<97%) sequence similarity with other taxa. The major cellular fatty acids (>10% of the total) were anteiso-C15:0, iso-C14:0, and iso-C16:0. The strain also contained MK-13, MK-12, and MK-14 as the major menaquinones, as well as diphosphatidylglycerol, phosphatidylglycerol, and two unknown glycolipids. Its peptidoglycan structure was B1β with 2,4-diaminobutyric acid as a diamino acid. Mycolic acids were absent. The DNA G+C content was 68.3 mol%. Based on these phenotypic and genotypic findings, strain 6408J-67T represents a novel species of a new genus within the family Microbacteriaceae, for which the name Diaminobutyricimonas aerilata gen. nov., sp. nov. is proposed. The type strain is 6408J-67T (=KACC 15518T =NBRC 108726T).

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References

  • Bendinger, B., Kroppenstedt, R.M., Klatte, S., and Altendorf, K. 1992. Chemotaxonomic differentiation of oryneform bacteria isolated from biofilters. Int. J. Syst. Bacteriol.42, 474–486.

    Article  PubMed  CAS  Google Scholar 

  • Bora, N., Vancanneyt, M., Gelsomino, R., Snauwaert, C., Swings, J., Jones, A.L., Ward, A.C., Chamba, J.F., Kroppenstedt, R.M., Schumann, P., andet al. 2008. Mycetocola reblochoni sp. nov., isolated from the surface microbial flora of Reblochon cheese. Int. J. Syst. Evol. Microbiol.58, 2687–2693.

    Article  PubMed  CAS  Google Scholar 

  • Breznak, J.A. and Costilow, R.N. 1994. Physicochemical factors in growth. Methods for General and Molecular Bacteriology, pp. 137–154. In Gerhardt, P., Murray, R.G.E., Wood, W.A., and Krieg, N.R. (eds.). American Society for Microbiology, Washington, D.C., USA.

    Google Scholar 

  • Chun, J., Lee, J.H., Jung, Y., Kim, M., Kim, S., Kim, B.K., and Lim, Y.W. 2007. EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. Int. J. Syst. Evol. Microbiol.57, 2259–2261.

    Article  PubMed  CAS  Google Scholar 

  • Collins, M.D. and Bradbury, J.F. 1992. The genera Agromyces, Aureobacterium, Clavibacter, Curtobacterium, and Microbacterium. In The Prokaryotes, 2nd ed, pp. 1355–1368. In Balows, A., Trüper, H.G., Dworkin, M., Harder, W., and Schleifer, K.H. (eds.), Springer, New York, N.Y., USA.

    Google Scholar 

  • Cook, D.M., Decrescenzo Henriksen, E., Rogers, T.E., and Peterson, J.D. 2008. Klugiella xanthotipulae gen. nov., sp. nov., a novel member of the family Microbacteriaceae. Int. J. Syst. Evol. Microbiol.58, 2779–2782.

    Article  PubMed  CAS  Google Scholar 

  • Dastager, S.G., Lee, J.C., Ju, Y.J., Park, D.J., and Kim, C.J. 2008a. Cryobacterium mesophilum sp. nov., a novel mesophilic bacterium. Int. J. Syst. Evol. Microbiol.58, 1241–1244.

    Article  PubMed  CAS  Google Scholar 

  • Dastager, S.G., Lee, J.C., Ju, Y.J., Park, D.J., and Kim, C.J. 2008b. Frigoribacterium mesophilum sp. nov., a mesophilic actinobacterium isolated from Bigeum Island, Korea. Int. J. Syst. Evol. Microbiol.58, 1869–1872.

    Article  PubMed  CAS  Google Scholar 

  • Dorofeeva, L.V., Evtushenko, L.I., Krausova, V.I., Karpov, A.V., Subbotin, S.A., and Tiedje, J.M. 2002. Rathayibacter caricis sp. nov. and Rathayibacter festucae sp. nov., isolated from the phyllosphere of Carex sp. and the leaf gall induced by the nematode Anguina graminis on Festuca rubra L., respectively. Int. J. Syst. Evol. Microbiol.52, 1917–1923.

    Article  PubMed  CAS  Google Scholar 

  • Evtushenko, L.I., Dorofeeva, L.V., Subbotin, S.A., Cole, J.R., and Tiedje, J.M. 2000. Leifsonia poae gen. nov., sp. nov., isolated from nematode galls on Poa annua, and reclassification of ‘Corynebacterium aquaticum’ Leifson 1962 as Leifsonia aquatica (ex Leifson 1962) gen. nov., nom. rev., comb. nov. and Clavibacter xyli Davis et al. 1984 with two subspecies as Leifsonia xyli (Davis et al. 1984) gen. nov., comb. nov. Int. J. Syst. Evol. Microbiol. 50, 371–380.

  • Greene, A.C., Euzéby, J.P., Tindall, B.J., and Petal, B.K.C. 2009. Proposal of Frondihabitans gen. nov. to replace the illegitimate genus name Frondicola Zhang et al. 2007. Int. J. Syst. Evol. Microbiol.59, 447–448.

    Article  PubMed  Google Scholar 

  • Groth, I., Schumann, P., Weiss, N., Martin, K., and Rainey, F.A. 1996. Agrococcus jenensis gen. nov., sp. nov., a new genus of actinomycetes with diaminobutyric acid in the cell wall. Int. J. Syst. Bacteriol.46, 234–239.

    Article  PubMed  CAS  Google Scholar 

  • Hamada, M., Iino, T., Iwami, T., Harayama, S., Tamura, T., and Suzuki, K.-I. 2010. Mobilicoccus pelagius gen. nov., sp. nov. and Piscicoccus intestinalis gen. nov., sp. nov., two new members of the family Dermatophilaceae, and reclassification of Dermatophilus chelonae (Masters et al. 1995) as Austwickia chelonae gen. nov., comb. nov. J. Gen. Appl. Microbiol.56, 427–436.

    Article  PubMed  CAS  Google Scholar 

  • Kämpfer, P., Rainey, F.A., Anderson, M.A., Nurmiaho Lassila, E.-L., Ulrych, U., Busse, H.-J., Weiss, N., Mikkola, R., and Salkinoja-Salonen, M. 2000. Frigoribacterium faeni gen. nov., sp. nov., a novel psychrophilic genus of the family Microbacteriaceae. Int. J. Syst. Evol. Microbiol.50, 355–363.

    Article  PubMed  Google Scholar 

  • Kim, S.J. and Lee, S.S. 2011. Amnibacterium kyonggiense gen. nov., sp. nov., a new member of the family Microbacteriaceae. Int. J. Syst. Evol. Microbiol.61, 155–159.

    Article  PubMed  CAS  Google Scholar 

  • Kim, S.J., Tamura, T., Hamada, M., Ahn, J.H., Weon, H.Y., Park, I.C., Suzuki, K.I., and Kwon, S.W. 2012. Compostimonas suwonensis gen. nov., sp. nov., isolated from spent mushroom compost. Int. J. Syst. Evol. Microbiol. (in press). http://dx.doi.org/10.1099/ijs.0.036343-0.

  • Lee, S.D. 2007. Labedella gwakjiensis gen. nov., sp. nov., a novel actinomycete of the family Microbacteriaceae. Int. J. Syst. Evol. Microbiol.57, 2498–2502.

    Article  PubMed  CAS  Google Scholar 

  • Lee, S.D. 2010. Frondihabitans peucedani sp. nov., an actinobacterium isolated from rhizosphere soil, and emended description of the genus Frondihabitans Greene et al. 2009. Int. J. Syst. Evol. Microbiol.60, 1740–1744.

    Article  PubMed  CAS  Google Scholar 

  • Li, H.R., Yu, Y., Luo, W., and Zeng, Y.X. 2010. Marisediminicola antarctica gen. nov., sp. nov., an actinobacterium isolated from the Antarctic. Int. J. Syst. Evol. Microbiol.60, 2535–2539.

    Article  PubMed  CAS  Google Scholar 

  • Ludwig, W., Strunk, O., Westram, R., Richter, L., Meier, H., Yadhukumar, Buchner, A., Lai, T., Steppi, S., Jobb, G., andet al. 2004. ARB: a software environment for sequence data. Nucleic Acids Res.32, 1363–1371.

    Article  PubMed  CAS  Google Scholar 

  • Männistö, M.K., Schumann, P., Rainey, F.A., Kämpfer, P., Tsitko, I., Tiirola, M.A., and Salkinoja-Salonen, M.S. 2000. Subtercola boreus gen. nov., sp. nov. and Subtercola frigoramans sp. nov., two new psychrophilic actinobacteria isolated from boreal groundwater. Int. J. Syst. Evol. Microbiol.50, 1731–1739.

    PubMed  Google Scholar 

  • Mesbah, M., Premachandran, U., and Whitman, W.B. 1989. Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int. J. Syst. Bacteriol.39, 159–167.

    Article  CAS  Google Scholar 

  • Minnikin, D.E., Hutchinson, I.G., Caldicott, A.B., and Goodfellow, M. 1980. Thin-layer chromatography of methanolysates of mycolic acid-containing bacteria. J. Chromatogr. A188, 221–233.

    Article  CAS  Google Scholar 

  • Minnikin, D.E., O’Donnell, A.G., Goodfellow, M., Alderson, G., Athalye, M., Schaal, A., and Parlett, J.H. 1984. An integrated procedure for the extraction of bacterial isoprenoid quinines and polar lipids. J. Microbiol. Methods2, 233–241.

    Article  CAS  Google Scholar 

  • Nozawa, Y., Sakai, N., Arai, K., Kawasaki, Y., and Harada, K. 2007. Reliable and sensitive analysis of amino acids in the peptidoglycan of actinomycetes using the advanced Marfey’s method. J. Microbiol. Methods70, 306–311.

    Article  PubMed  CAS  Google Scholar 

  • Park, Y.H., Suzuki, K., Yim, D.G., Lee, K.C., Kim, E., Yoon, J., Kim, S., Kho, Y.H., Goodfellow, M., and Komagata, K. 1993. Suprageneric classification of peptidoglycan group B actinomycetes by nucleotide sequencing of 5S ribosomal RNA. Antonie van Leeuwenhoek64, 307–313.

    Article  PubMed  CAS  Google Scholar 

  • Pruesse, E., Quast, C., Knittel, K., Fuchs, B.M., Ludwig, W., Peplies, J., and Glöckner, F.O. 2007. SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res.35, 7188–7196.

    Article  PubMed  CAS  Google Scholar 

  • Reddy, G.S.N., Pradhan, S., Manorama, R., and Shivaji, S. 2010. Cryobacterium roopkundense sp. nov., a psychrophilic bacterium isolated from glacial soil. Int. J. Syst. Evol. Microbiol.60, 866–870.

    Article  PubMed  CAS  Google Scholar 

  • Sasaki, J., Chijimatsu, M., and Suzuki, K.I. 1998. Taxonomic significance of 2,4-diaminobutyric acid isomers in the cell wall peptidoglycan of actinomycetes and reclassification of Clavibacter toxicus as Rathayibacter toxicus comb. nov. Int. J. Syst. Bacteriol.48, 403–410.

    Article  PubMed  CAS  Google Scholar 

  • Sasser, M. 1990. Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. MIDI Inc., Newark, DE, USA.

    Google Scholar 

  • Schleifer, K.H. and Kandler, O. 1972. Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol. Rev.36, 407–477.

    PubMed  CAS  Google Scholar 

  • Schumann, P., Zhang, D.C., Redzic, M., and Margesin, R. 2012. Alpinimonas psychrophila gen. nov., sp. nov., a novel actinobacterium of the family Microbacteriaceae isolated from alpine glacier cryoconite. Int. J. Syst. Evol. Microbiol. (in press). http://dx.doi.org/10.1099/ijs.0.036160-0.

  • Seldin, L. and Dubnau, D. 1985. Deoxyribonucleic acid homology among Bacillus polymyxa, Bacillus macerans, Bacillus azotofixans, and other nitrogen-fixing Bacillus strains. Int. J. Syst. Bacteriol.35, 151–154.

    Article  CAS  Google Scholar 

  • Smibert, R.M. and Krieg, N.R. 1994. Phenotypic characterization. In Methods for General and Molecular Bacteriology, pp. 607–654. In Gerhardt, P., Murray, R.G.E., Wood, W.A., and Krieg, N.R. (eds.). American Society for Microbiology, Washington, D.C., USA.

    Google Scholar 

  • Stackebrandt, E., Rainey, F.A., and Ward-Rainey, N.L. 1997. Proposal for a new hierarchic classification system, Actinobacteria classis nov. Int. J. Syst. Bacteriol.47, 479–491.

    Article  Google Scholar 

  • Suzuki, K., Sasaki, J., Uramoto, M., Nakase, T., and Komagata, K. 1997. Cryobacterium psychrophilum gen. nov., sp. nov., nom. rev., comb. nov., an obligately psychrophilic actinomycete to accommodate “Curtobacterium psychrophilum” Inoue and Komagata 1976. Int. J. Syst. Bacteriol.47, 474–478.

    Article  PubMed  CAS  Google Scholar 

  • Tamura, K., Dudley, J., Nei, M., and Kumar, S. 2007. MEGA4: molecular evolutionary genetics analysis (mega) software version 4.0. Mol. Biol. Evol.24, 1596–1599.

    Article  PubMed  CAS  Google Scholar 

  • Tsukamoto, T., Takeuchi, M., Shida, O., Murata, H., and Shirata, A. 2001. Proposal of Mycetocola gen. nov. in the family Microbacteriaceae and three new species, Mycetocola saprophilus sp. nov., Mycetocola tolaasinivorans sp. nov. and Mycetocola lacteus sp. nov., isolated from cultivated mushroom, Pleurotus ostreatus. Int. J. Syst. Evol. Microbiol.51, 937–944.

    Article  PubMed  CAS  Google Scholar 

  • Wayne, L.G., Brenner, D.J., Colwell, R.R., Grimont, P.A.D., Kandler, P., Krichevsky, M.I., Moore, L.H., Moore, W.E.C., Murray, R.G.E., andet al. 1987. International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int. J. Syst. Bacteriol.37, 463–464.

    Article  Google Scholar 

  • Weon, H.Y., Kim, B.Y., Yoo, S.H., Lee, S.Y., Kwon, S.W., Go, S.J., and Stackebrandt, E. 2006. Niastella koreensis gen. nov., sp. nov. and Niastella yeongjuensis sp. nov., novel members of the phylum Bacteroidetes, isolated from soil cultivated with Korean ginseng. Int. J. Syst. Evol. Microbiol.56, 1777–1782.

    Article  PubMed  CAS  Google Scholar 

  • Zgurskaya, H.I., Evtushenko, L.I., Akimov, V.N., and Kalakoutskii, L.V. 1993. Rathayibacter gen. nov., including the species Rathayibacter rathayi comb. nov., Rathayibacter tritici comb. nov., Rathayibacter iranicus comb. nov., and six strains from annual grasses. Int. J. Syst. Bacteriol.43, 143–149.

    Article  Google Scholar 

  • Zhang, D.C., Wang, H.X., Cui, H.L., Yang, Y., Liu, H.C., Dong, X.Z., and Zhou, P.J. 2007a. Cryobacterium psychrotolerans sp. nov., a novel psychrotolerant bacterium isolated from the China No. 1 glacier. Int. J. Syst. Evol. Microbiol.57, 866–869.

    Article  PubMed  CAS  Google Scholar 

  • Zhang, L., Xu, Z., and Patel, B.K.C. 2007b. Frondicola australicus gen. nov., sp. nov., isolated from decaying leaf litter of a pine forest. Int. J. Syst. Evol. Microbiol.57, 1177–1182.

    Article  PubMed  CAS  Google Scholar 

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Authors and Affiliations

  1. Korean Agricultural Culture Collection (KACC), National Academy of Agricultural Science, Rural Development Administration, Suwon, 441-707, Republic of Korea

    Yun-Hee Jang, Soo-Jin Kim, Jae-Hyung Ahn, Hang-Yeon Weon & Soon-Wo Kwon

  2. NITE Biological Resource Center (NBRC), National Institute of Technology and Evaluation, 2-5-8 Kazusakamatari, Kisarazu, Chiba, 292-0818, Japan

    Moriyuki Hamada, Tomohiko Tamura & Ken-ichiro Suzuki

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  1. Yun-Hee Jang
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  2. Soo-Jin Kim
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  3. Moriyuki Hamada
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Jang, YH., Kim, SJ., Hamada, M. et al. Diaminobutyricimonas aerilata gen. nov., sp. nov., a novel member of the family Microbacteriaceae isolated from an air sample in Korea. J Microbiol. 50, 1047–1052 (2012). https://doi.org/10.1007/s12275-012-2118-1

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