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Microbacterium zeae sp. nov., an endophytic bacterium isolated from maize stem

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Abstract

A novel Gram-stain positive, aerobic, non-motile, non-spore-forming and rod-shaped strain designated 1204T was isolated from surface-sterilised stem tissue of maize planted in Fangshan District of Beijing, People’s Republic of China. A polyphasic taxonomic study was performed on the new isolate. On the basis of 16S rRNA gene sequence similarity studies, this isolate belongs to the genus Microbacterium. High levels of 16S rRNA gene sequence similarity were found between strain 1204T and Microbacterium enclense NIO-1002T (98.8%) and Microbacterium proteolyticum RZ36T (98.4%) respectively. However, the DNA–DNA hybridization values between strain 1204T and its closely related species M. proteolyticum DSM 27100T and M. enclense DSM 25125T were 53.9 ± 1.6 and 20.9 ± 1.5% respectively. The DNA G+C content of strain 1204T was determined to be 68.0 mol%. The major fatty acids were found to consist of anteiso-C15:0 (37.6%), iso-C16:0 (28.6%) and anteiso-C17:0 (16.6%). The predominant menaquinone was MK-11 and the polar lipid profile consisted of diphosphatidylglycerol, phosphatidylglycerol, an unidentified glycolipid and an unidentified lipid. The results of physiological and biochemical tests and minor differences in the fatty acid profiles allowed a clear phenotypic differentiation of strain 1204T from the closely related species in the genus Microbacterium. Thus, it was concluded that strain 1204T represents a novel species within the genus Microbacterium, for which the name Microbacterium zeae sp. nov. is proposed, with the type strain 1204T (= CGMCC 1.15289 = DSM 100750).

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References

  • Alves A, Correia A, Igual JM, Trujillo ME (2014) Microbacterium endophyticum, sp. nov. and microbacterium halimionae, sp. nov. endophytes isolated from the salt-marsh plant halimione portulacoides, and emended description of the genus Microbacterium. Syst Appl Microbiol 37:474–479

    Article  PubMed  Google Scholar 

  • Alves A, Riesco R, Correia A, Trujillo ME (2015) Microbacterium proteolyticum sp. nov. isolated from roots of Halimione portulacoides. Int J Syst Evol Microbiol 65:1794–1798

    Article  CAS  PubMed  Google Scholar 

  • Bligh EG, Dyer JW (1959) A rapid method of total lipid extraction and purification. Can J Biochem Physiol 37:911–917

    Article  CAS  PubMed  Google Scholar 

  • Breznak JA, Costilow RN (2007) Physicochemical factors in growth. In: Beveridge TJ, Breznak JA, Marzluf GA, Schmidt TM, Snyder LR (eds) Methods for general and molecular bacteriology, 3rd edn. American Society for Microbiology, Washington, DC, pp 309–329

    Google Scholar 

  • Collins MD (1985) Isoprenoid quinone analysis in classification and identification. In: Goodfellow M, Minnikin DE (eds) Chemical methods in bacterial systematics. Academic Press, London, pp 267–287

    Google Scholar 

  • Collins M, Jones D (1980) Lipids in the classification and identification of coryneform bacteria containing peptidoglycans based on 2,4-diaminobutyric acid. J Appl Microbiol 48:459–470

    CAS  Google Scholar 

  • Collins MD, Jones D, Kroppenstedt RM (1983) Reclassification of Brevibacterium imperiale (Steinhaus) and “Corynebacterium laevaniformans” (Dias and Bhat) in a redefined genus Microbacterium (Orla-Jensen), as Microbacterium imperial comb. nov. and Microbacterium laevaniformans nom. rev.; comb. nov. Syst Appl Microbiol 4:65–78

    Article  CAS  PubMed  Google Scholar 

  • Consden R, Gordon AH (1948) The effect of salt on partition chromatograms. Nature 162:180–181

    Article  CAS  PubMed  Google Scholar 

  • De Ley J (1970) Reexamination of the association between melting point, buoyant density, and chemical base composition of deoxyribonucleic acid. J Bacteriol 101:738–754

    PubMed  PubMed Central  Google Scholar 

  • Delory GE, King EJ (1945) A sodium carbonate-bicarbonate buffer for alkaline phosphatases. Biochem J 39(3):245

    Article  CAS  PubMed Central  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 

  • Fidalgo C, Riesco R, Henriques I, Trujillo ME, Alves A (2016) Microbacterium diaminobutyricum sp. nov. a new microbacterium species isolated from halimione portulacoides that contains diaminobutyric acid in its cell wall and emended description of the genus Microbacterium. Int J Syst Evol Microbiol. doi:10.1099/ijsem.0.001379

    PubMed  Google Scholar 

  • Gao M, Wang M, Zhang YC, Zou XL, Xie LQ, Hu HY, Xu J, Gao JL, Sun JG (2013) Microbacterium neimengense sp. nov., isolated from the rhizosphere of maize. Int J Syst Evol Microbiol 63:236–240

    Article  CAS  PubMed  Google Scholar 

  • Gerhardt P, Murray RGE, Wood WA, Krieg NR (eds) (1994) Methods for general and molecular bacteriology. Am Soc Microbiol, Washington

    Google Scholar 

  • Hegazi NA, Hamza AM, Osman A, Ali S, Sedik MZ, Fayez M (1998) Modified combined carbon N-deficient medium for isolation, enumeration and biomass production of diazotrophs. In: Kauser Malik A, Sajjad Mirza M (eds) Nitrogen fixation with nonlegumes. Kluwer Academic Publishers, Dordrecht, pp 247–253

    Chapter  Google Scholar 

  • Jacin H, Mishkin AR (1965) Separation of carbohydrates on borate impregnated silica gel G plates. J Chromatogr 18:170–173

    Article  CAS  PubMed  Google Scholar 

  • Kim O-S, Cho Y-J, Lee K, Yoon S-H, Kim M, Na H, Park S-C, Jeon YS, Lee J-H et al (2012) Introducing EzTaxonETe: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62:716–721

    Article  CAS  PubMed  Google Scholar 

  • Komagata K, Suzuki K (1988) 4 lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 19:161–207

    Article  Google Scholar 

  • Kook M, Son HM, Yi TH (2014) Microbacterium kyungheense sp. nov. and Microbacterium jejuense sp. nov. isolated from salty soil. Int J Syst Bacteriol 64:2267–2273

    Article  CAS  Google Scholar 

  • Krishnamurthi S, Bhattacharya A, Schumann P, Dastager SG, Tang S-K, Li W-J, Chakrabarti T (2012) Microbacterium immunditiarum sp. nov., an actinobacterium isolated from landfill surface soil, and emended description of the genus Microbacterium. Int J Syst Evol Microbiol 62:2187–2193

    Article  CAS  PubMed  Google Scholar 

  • Lane DJ (1991) 16S/23S rRNA sequencing. In: Stackerandt E, Goodfellow M (eds) Nucleic acid techniques in bacterial systematic. Wiley, Chichester, pp 115–175

    Google Scholar 

  • Lee LH, Azman AS, Zainal N, Eng SK, Ab Mutalib NS, Yin WF, Chan KG (2014) Microbacterium mangrovi sp. nov., an amylolytic actinobacterium isolated from mangrove forest soil. Int J Syst Evol Microbiol 64:3513–3519

    Article  CAS  PubMed  Google Scholar 

  • Marmur J (1961) A procedure for the isolation of DNA from microorganism. J Mol Biol 3:208–218

    Article  CAS  Google Scholar 

  • Marmur J, Doty P (1962) Determination of base composition of deoxyribonucleic acid from its denaturation temperature. J Mol Biol 5:109–118

    Article  CAS  PubMed  Google Scholar 

  • Mawlankar RR, Mual P, Sonalkar VV, Thorat MN, Verma A, Srinivasan K, Dastager SG (2015) Microbacterium enclense sp. nov., isolated from sediment sample. Int J Syst Evol Microbiol 65:2064–2070

    Article  CAS  PubMed  Google Scholar 

  • Miller JH (1972) Experiments in molecular genetics. Cold Spring Harbour, Cold Spring Harbour Laboratory Press, New York

    Google Scholar 

  • Minnikin D, O’Donnell A, Goodfellow M, Alderson G, Athalye M, Schaal A, Parlett J (1984) An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241

    Article  CAS  Google Scholar 

  • Nguyen NL, Kim YJ, Hoang VA, Min JW, Hwang KH, Yang DC (2015) Microbacterium panaciterrae sp. nov., isolated from the rhizosphere of ginseng. Int J Syst Evol Microbiol 65:927–933

    Article  CAS  PubMed  Google Scholar 

  • Orla-Jensen S (1919) The lactic acid bacteria. Høst and Son, Copenhagen

    Google Scholar 

  • Rzhetsky A, Nei M (1992) Statistical properties of the ordinary least-squares, generalized least-squares, and minimum evolution methods of phylogenetic inference. J Mol Evol 35:367–375

    Article  CAS  PubMed  Google Scholar 

  • Rzhetsky A, Nei M (1993) Theoretical foundation of the minimum-evolution method of phylogenetic inference. Mol Biol Evol 10:1073–1095

    CAS  PubMed  Google Scholar 

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

    CAS  PubMed  Google Scholar 

  • Takeuchi M, Hatano K (1998) Union of the genera Microbacterium Orla-Jensen and Aureobacterium Collins et al. in a redefined genus Microbacterium. Int J Syst Bacteriol 48:739–747

    Article  CAS  PubMed  Google Scholar 

  • Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (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 

  • Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O, Krichevsky MI, Moore LH, Moore WEC, Murray RGE et 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 

  • Wu C, Lu X, Qin M, Wang Y, Ruan J (1989) The analysis of menaquinone compound in microbial cells by HPLC. Microbiology 16:176–178

    CAS  Google Scholar 

  • Zhang Y, Ren H, Zhang G (2014) Microbacterium hydrothermale sp. nov. an actinobacterium isolated from hydrothermal sediment. Int J Syst Bacteriol 64:3508–3512

    Article  Google Scholar 

Download references

Acknowledgements

This work were supported by the National Natural Science Foundation of China (No. 31570008) and the Beijing Municipal Natural Science Foundation (No. 5162008).

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    Authors and Affiliations

    1. Beijing Agro- Biotechnology Research Center, Beijing Academy of Agriculture and Forestry/Beijing Municipal Key Laboratory of Agricultural Gene Resources and Biotechnology, Beijing, 100097, People’s Republic of China

      Jun-lian Gao & Xu-ming Wang

    2. Key Laboratory of Microbial Resources, Ministry of Agriculture/Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, People’s Republic of China

      Fan-yang Lv & Jian-guang Sun

    3. State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, 100091, People’s Republic of China

      Pengbo Sun

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    1. Jun-lian Gao
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    Correspondence to Jian-guang Sun.

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    Jun-lian Gao and Pengbo Sun have contributed equally to this work.

    The GenBank accession number for the 16S rRNA gene sequences of strain 1204T is KT003983.

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    Gao, Jl., Sun, P., Wang, Xm. et al. Microbacterium zeae sp. nov., an endophytic bacterium isolated from maize stem. Antonie van Leeuwenhoek 110, 697–704 (2017). https://doi.org/10.1007/s10482-017-0837-3

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