1887

Abstract

A Gram-staining-negative, facultatively anaerobic, rod-shaped, nitrogen-fixing bacterial strain, designated TULL-A, was isolated from a farmland soil sample in Yixing, China. The optimal conditions for growth were 30 °C, pH 7.0–8.0 and 0 % (w/v) NaCl. Q8 was the dominant respiratory quinone and the major polar lipids were phosphatidylethanolamine, phosphatidylglycerol and aminophospholipid. Phylogenetic analysis of 16S rRNA gene sequences showed that strain TULL-A was most closely related to MSSRF40 (99.6 %), followed by subsp. DSM 14847 (96.8 %) and 1330 (96.8 %). Sequence analysis of the genes , and revealed that those of strain TULL-A also exhibit high sequence similarity with those of the species MSSRF40 (95.5, 94.1 and 93.4 %). The genomic DNA G+C content was 52 mol%. The major fatty acids of strain TULL-A were C, Cω7 and/or Cω6, Cω7Cω6, C, C 3-OH/iso-C I and iso-C I and/or anteiso-C B. Strain TULL-A showed low DNA–DNA relatedness with MSSRF40 (35.10 ± 1.41 %). Based on the multiple genotypic and phenotypic data, strain TULL-A is considered to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is TULL-A ( = ACCC 19709 = KCTC 42181).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.000281
2015-08-01
2024-12-03
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/65/8/2447.html?itemId=/content/journal/ijsem/10.1099/ijs.0.000281&mimeType=html&fmt=ahah

References

  1. Altschul S.F., Gish W., Miller W., Myers E.W., Lipman D.J. ( 1990;). Basic local alignment search tool. J Mol Biol 215 403410 [View Article] [PubMed].
    [Google Scholar]
  2. Ausubel F. M., Brent R., Kingston R. E., Moore D. D., Seidman J. G., Smith J. A., Struhl K. ), ( 1995). Short Protocols in Molecular Biology: a Compendium of Methods from Current Protocols in Molecular Biology , 3rd edn. New York: Wiley;.
    [Google Scholar]
  3. Beveridge T.J., Lawrence J.R., Murray R.G.E. ( 2007;). Sampling and staining for light microscopy. . In Methods for General and Molecular Microbiology , 3rd edn., pp. 1933. Edited by Reddy C. A., Beveridge T. J., Breznak J. A., Marzluf G. A., Schmidt T. M., Snyder R. L. Washington, DC: American Society for Microbiology;.
    [Google Scholar]
  4. Brenner D.J. ( 1984;). Family I. Enterobacteriaceae Rahn 1937. . In Bergey's Manual of Systematic Bacteriology vol. 1, pp. 408420. Edited by Krieg N. R., Holt J. G. Baltimore: Williams & Wilkins;.
    [Google Scholar]
  5. Collins M.D., Pirouz T., Goodfellow M., Minnikin D.E. ( 1977;). Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100 221230 [View Article] [PubMed].
    [Google Scholar]
  6. Dauga C. ( 2002;). Evolution of the gyrB gene and the molecular phylogeny of Enterobacteriaceae: a model molecule for molecular systematic studies. Int J Syst Evol Microbiol 52 531547 [PubMed]. [CrossRef]
    [Google Scholar]
  7. De Ley J., Cattoir H., Reynaerts A. ( 1970;). The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12 133142 [View Article] [PubMed].
    [Google Scholar]
  8. Dong X.-Z., Cai M.-Y. ( 2001). Determinative Manual for Routine Bacteriology Beijing: Scientific Press;.
    [Google Scholar]
  9. Felsenstein J. ( 1981;). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17 368376 [View Article] [PubMed].
    [Google Scholar]
  10. Fitch W.M. ( 1971;). Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20 406416 [View Article].
    [Google Scholar]
  11. Gyaneshwar P., James E.K., Mathan N., Reddy P.M., Reinhold-Hurek B., Ladha J.K. ( 2001;). Endophytic colonization of rice by a diazotrophic strain of Serratia marcescens . J Bacteriol 183 26342645 [View Article] [PubMed].
    [Google Scholar]
  12. Iversen C., Waddington M., On S.L., Forsythe S. ( 2004;). Identification and phylogeny of Enterobacter sakazakii relative to Enterobacter Citrobacter species. J Clin Microbiol 42 53685370 [View Article] [PubMed].
    [Google Scholar]
  13. Janda J.M., Abbott S.L. ( 2006). The Enterobacteria , 2nd edn. Washington, DC: American Society for Microbiology;.
    [Google Scholar]
  14. Kämpfer P., Ruppel S., Remus R. ( 2005;). Enterobacter radicincitans sp. nov., a plant growth promoting species of the family Enterobacteriaceae . Syst Appl Microbiol 28 213221 [View Article] [PubMed].
    [Google Scholar]
  15. Kim O.S., Cho Y.J., Lee K., Yoon S.H., Kim M., Na H., Park S.C., Jeon Y.S., Lee J.H., other authors. ( 2012;). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62 716721 [View Article] [PubMed].
    [Google Scholar]
  16. Kimura M. ( 1980;). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16 111120 [View Article] [PubMed].
    [Google Scholar]
  17. Lane D.J. ( 1991;). 16S/23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 115175. Edited by Stackebrandt E., Goodfellow M. Chichester: Wiley;.
    [Google Scholar]
  18. Li R., MacRae I.C. ( 1992;). Specific identification and enumeration of Acetobacter diazotrophicus in sugarcane. Soil Biol Biochem 24 413419 [View Article].
    [Google Scholar]
  19. Lodewyckx C., Vangronsveld J., Porteous F., Moore E.R.B., Taghavi S., Mezgeay M., van der Lelie D. ( 2002;). Endophytic bacteria and their potential applications. Crit Rev Plant Sci 21 583606 [View Article].
    [Google Scholar]
  20. Marchesi J.R., Sato T., Weightman A.J., Martin T.A., Fry J.C., Hiom S.J., Dymock D., Wade W.G. ( 1998;). Design and evaluation of useful bacterium-specific PCR primers that amplify genes coding for bacterial 16S rRNA. Appl Environ Microbiol 64 795799 [PubMed].
    [Google Scholar]
  21. Mesbah M., Premachandran U., Whitman W.B. ( 1989;). Precise measurement of the G+C content of deoxyribonucleic acid by high performance liquid chromatography. Int J Syst Bacteriol 39 159167 [View Article].
    [Google Scholar]
  22. Mollet C., Drancourt M., Raoult D. ( 1997;). rpoB sequence analysis as a novel basis for bacterial identification. Mol Microbiol 26 10051011 [View Article] [PubMed].
    [Google Scholar]
  23. Nishijima K.A., Wall M.M., Siderhurst M.S. ( 2007;). Demonstrating pathogenicity of Enterobacter cloacae on macadamia and identifying associated volatiles of gray kernel of macadamia in Hawaii. Plant Dis 91 12211228 [View Article].
    [Google Scholar]
  24. Rameshkumar N., Lang E., Nair S. ( 2010;). Mangrovibacter plantisponsor gen. nov., sp. nov., a nitrogen-fixing bacterium isolated from a mangrove-associated wild rice (Porteresia coarctata Tateoka). Int J Syst Evol Microbiol 60 179186 [View Article] [PubMed].
    [Google Scholar]
  25. Reichenbach H. ( 1992;). The order Cytophagales . . In The Prokaryotes , 2nd edn. vol. 4, pp. 36313675. Edited by Balows A., Trüper H. G., Dworkin M., Harder W., Schleifer K. H. New York: Springer; [View Article].
    [Google Scholar]
  26. Saitou N., Nei M. ( 1987;). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4 406425 [PubMed].
    [Google Scholar]
  27. Smibert R.M., Krieg N.R. ( 1994;). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607654. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. Washington, DC: American Society for Microbiology;.
    [Google Scholar]
  28. Stackebrandt E., Goebel B.M. ( 1994;). Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44 846849 [View Article].
    [Google Scholar]
  29. Taghavi S., Garafola C., Monchy S., Newman L., Hoffman A., Weyens N., Barac T., Vangronsveld J., van der Lelie D. ( 2009;). Genome survey and characterization of endophytic bacteria exhibiting a beneficial effect on growth and development of poplar trees. Appl Environ Microbiol 75 748757 [View Article] [PubMed].
    [Google Scholar]
  30. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. ( 2011;). mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28 27312739. [CrossRef]
    [Google Scholar]
  31. Thompson J.D., Gibson T.J., Plewniak F., Jeanmougin F., Higgins D.G. ( 1997;). The clustal_x windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25 48764882 [View Article] [PubMed].
    [Google Scholar]
  32. Zhu B., Lou M.M., Xie G.L., Wang G.F., Zhou Q., Wang F., Fang Y., Su T., Li B., Duan Y.P. ( 2011;). Enterobacter mori sp. nov., associated with bacterial wilt on Morus alba L. Int J Syst Evol Microbiol 61 27692774 [View Article] [PubMed].
    [Google Scholar]
/content/journal/ijsem/10.1099/ijs.0.000281
Loading
/content/journal/ijsem/10.1099/ijs.0.000281
Loading

Data & Media loading...

Supplements

Supplementary Data

PDF
This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error