1887

International Journal of Systematic and Evolutionary Microbiology

Volume 66, Issue 5

sp. nov., an endophyte isolated from the root of Free

Abstract

A Gram-stain-negative, non-motile, yellow, endophytic bacterium, designated G16-7, was isolated from the root of in Inner Mongolia, northern China. Phylogenetic analysis, based on the 16S rRNA gene, revealed that strain G16-7 belonged to the genus , with highest sequence similarities to FCS-5, XIN-1, F44-8, BX12 and YF-2, ranging from 92.7 % to 94.9 %. The predominant fatty acids of strain G16-7 were iso-C, summed feature 3 (consisting of Cω7 and/or Cω6), iso-C 3-OH and summed feature 9 (consisting of iso-Cω9 and/or C 10-methyl), while MK-6 was the major respiratory quinone. The major polar lipids were phosphatidylethanolamine, an unknown phospholipid, an unknown aminophospholipid, four unknown aminolipids and three unknown lipids. The genomic DNA G+C content of the strain was 34.2 mol%. Based on the phenotypic and genotypic characteristics, strain G16-7 is considered to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is G16-7 ( = CGMCC 1.15461 = KCTC 42947).

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2016-05-01
2021-10-25
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References

  1. Ali Z., Cousin S., Frühling A., Brambilla E., Schumann P., Yang Y., Stackebrandt E. 2009; Flavobacterium rivuli sp. nov., Flavobacterium subsaxonicum sp. nov., Flavobacterium swingsii sp. nov. and Flavobacterium reichenbachii sp. nov., isolated from a hard water rivulet. Int J Syst Evol Microbiol 59:2610–2617 [View Article][PubMed]
     [Google Scholar]
  2. Ao L., Zeng X. C., Nie Y., Mu Y., Zhou L., Luo X. 2014; Flavobacterium arsenatis sp. nov., a novel arsenic-resistant bacterium from high-arsenic sediment. Int J Syst Evol Microbiol 64:3369–3374 [View Article][PubMed]
     [Google Scholar]
  3. Aslam Z., Im W. T., Kim M. K., Lee S. T. 2005; Flavobacterium granuli sp. nov., isolated from granules used in a wastewater treatment plant. Int J Syst Evol Microbiol 55:747–751 [View Article][PubMed]
     [Google Scholar]
  4. Bergey D. H., Harrison F. C., Breed R. S., Hammer B. W., Huntoon F.M.e. 1923 Bergey's Manual of Determinative Bacteriology Baltimore: Williams & Wilkins;
     [Google Scholar]
  5. Bernardet J. F., Bowman J. P. 2006; The genus Flavobacterium . In The Prokaryotes pp 481–531Edited by Dworkin M., Flakow S., Rosenberg E., Schleifer K. H., Stackebrandt E. New York: Springer; [View Article]
     [Google Scholar]
  6. Bernardet J.-F., Bowman J. P. 2011; Genus I. Flavobacterium Bergey et al. 1923. In Bergey's Manual of Systematic Bacteriology, 2nd edn. vol. 4 pp 112–154Edited by Whitman W. Baltimore: Williams & Wilkins;
     [Google Scholar]
  7. Bernardet J.-F., Segers P., Vancanneyt M., Berthe F., Kersters K., Vandamme P. 1996; Cutting a Gordian knot: emended classification and description of the genus Flavobacterium, emended description of the family Flavobacteriaceae, and proposal of Flavobacterium hydatis nom. nov. (basonym, Cytophaga aquatilis Strohl and Tait 1978). Int J Syst Bacteriol 46:128–148 [View Article]
     [Google Scholar]
  8. Bhumika V., Srinivas T. N., Kumar P. A. 2013; Flavobacterium nitratireducens sp. nov., an amylolytic bacterium of the family Flavobacteriaceae isolated from coastal surface seawater. Int J Syst Evol Microbiol 63:2490–2496 [View Article][PubMed]
     [Google Scholar]
  9. Chen W. M., Huang W. C., Young C. C., Sheu S. Y. 2013; Flavobacterium tilapiae sp. nov., isolated from a freshwater pond, and emended descriptions of Flavobacterium defluvii and Flavobacterium johnsoniae . Int J Syst Evol Microbiol 63:827–834 [View Article][PubMed]
     [Google Scholar]
  10. Chen W. M., Chen J. C., Sheu S. Y. 2014; Flavobacterium oryzae sp. nov., isolated from a flooded rice field, and emended descriptions of Flavobacterium flevense, Flavobacterium yonginense and Flavobacterium myungsuense . Int J Syst Evol Microbiol 64:3701–3708 [View Article][PubMed]
     [Google Scholar]
  11. Dong X. Z., Cai M. Y. 2001 Determinative Manual for Routine Bacteriology Beijing: Scientific Press;
     [Google Scholar]
  12. Dong K., Chen F., Du Y., Wang G. 2013a; Flavobacterium enshiense sp. nov., isolated from soil, and emended descriptions of the genus Flavobacterium, Flavobacterium cauense, Flavobacterium saliperosum and Flavobacterium suncheonense . Int J Syst Evol Microbiol 63:886–892 [View Article][PubMed]
     [Google Scholar]
  13. Dong K., Xu B., Zhu F., Wang G. 2013b; Flavobacterium hauense sp. nov., isolated from soil and emended descriptions of Flavobacterium subsaxonicum, Flavobacterium beibuense and Flavobacterium rivuli . Int J Syst Evol Microbiol 63:3237–3242 [View Article][PubMed]
     [Google Scholar]
  14. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
     [Google Scholar]
  15. Fraser S. L., Jorgensen J. H. 1997; Reappraisal of the antimicrobial susceptibilities of Chryseobacterium and Flavobacterium species and methods for reliable susceptibility testing. Antimicrob Agents Chemother 41:2738–2741[PubMed]
     [Google Scholar]
  16. Fu Y., Tang X., Lai Q., Zhang C., Zhong H., Li W., Liu Y., Chen L., Sun F., Shao Z. 2011; Flavobacterium beibuense sp. nov., isolated from marine sediment. Int J Syst Evol Microbiol 61:205–209 [View Article][PubMed]
     [Google Scholar]
  17. Kacagan M., Inan K., Belduz A. O., Canakci S. 2013; Flavobacterium anatoliense sp. nov., isolated from fresh water, and emended description of Flavobacterium ceti . Int J Syst Evol Microbiol 63:2075–2081 [View Article][PubMed]
     [Google Scholar]
  18. Kämpfer P., Busse H. J., McInroy J. A., Xu J., Glaeser S. P. 2015; Flavobacterium nitrogenifigens sp. nov., isolated from switchgrass (Panicum virgatum). Int J Syst Evol Microbiol 65:2803–2809 [View Article][PubMed]
     [Google Scholar]
  19. Kang J. Y., Chun J., Jahng K. Y. 2013; Flavobacterium aciduliphilum sp. nov., isolated from freshwater, and emended description of the genus Flavobacterium . Int J Syst Evol Microbiol 63:1633–1638 [View Article][PubMed]
     [Google Scholar]
  20. Kates M. 1986 Techniques of Lipidology: Isolation, Analysis and Identification of Lipids, 2nd edn. Amsterdam: Elsevier;
     [Google Scholar]
  21. Kaur I., Kaur C., Khan F., Mayilraj S. 2012; Flavobacterium rakeshii sp. nov., isolated from marine sediment, and emended description of Flavobacterium beibuense Fu et al. 2011. Int J Syst Evol Microbiol 62:2897–2902 [View Article][PubMed]
     [Google Scholar]
  22. Kim B. Y., Weon H. Y., Cousin S., Yoo S. H., Kwon S. W., Go S. J., Stackebrandt E. 2006; Flavobacterium daejeonense sp. nov. and Flavobacterium suncheonense sp. nov., isolated from greenhouse soils in Korea. Int J Syst Evol Microbiol 56:1645–1649 [View Article][PubMed]
     [Google Scholar]
  23. Kim J. J., Jin H. M., Lee H. J., Jeon C. O., Kanaya E., Koga Y., Takano K., Kanaya S. 2011; Flavobacterium banpakuense sp. nov., isolated from leaf-and-branch compost. Int J Syst Evol Microbiol 61:1595–1600 [View Article][PubMed]
     [Google Scholar]
  24. Kim J. J., Kanaya E., Weon H. Y., Koga Y., Takano K., Dunfield P. F., Kwon S. W., Kanaya S. 2012a; Flavobacterium compostarboris sp. nov., isolated from leaf-and-branch compost, and emended descriptions of Flavobacterium hercynium, Flavobacterium resistens and Flavobacterium johnsoniae . Int J Syst Evol Microbiol 62:2018–2024 [View Article][PubMed]
     [Google Scholar]
  25. 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. 2012b; Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62:716–721 [View Article][PubMed]
     [Google Scholar]
  26. Kim H., Kang H., Joung Y., Joh K. 2014; Flavobacterium gyeonganense sp. nov., isolated from freshwater, and emended descriptions of Flavobacterium chungangense, Flavobacterium aquidurense, Flavobacterium tructae and Flavobacterium granuli . Int J Syst Evol Microbiol 64:4173–4178 [View Article][PubMed]
     [Google Scholar]
  27. Komagata K., Suzuki K. 1987; Lipid and cell wall analysis in bacterial systematics. Methods Microbiol 19:161–207 [View Article]
     [Google Scholar]
  28. Kuo I., Saw J., Kapan D. D., Christensen S., Kaneshiro K. Y., Donachie S. P. 2013; Flavobacterium akiainvivens sp. nov., from decaying wood of Wikstroemia oahuensis, Hawai'i, and emended description of the genus Flavobacterium . Int J Syst Evol Microbiol 63:3280–3286 [View Article][PubMed]
     [Google Scholar]
  29. Lee S., Lee J., Ahn T. Y. 2013; Flavobacterium aquaticum sp. nov., a member of the Bacteroidetes isolated from a freshwater reservoir. J Microbiol 51:283–288 [View Article][PubMed]
     [Google Scholar]
  30. Liu H., Liu R., Yang S. Y., Gao W. K., Zhang C. X., Zhang K. Y., Lai R. 2008; Flavobacterium anhuiense sp. nov., isolated from field soil. Int J Syst Evol Microbiol 58:756–760 [View Article][PubMed]
     [Google Scholar]
  31. Liu Y., Jin J. H., Zhou Y. G., Liu H. C., Liu Z. P. 2010; Flavobacterium caeni sp. nov., isolated from a sequencing batch reactor for the treatment of malachite green effluents. Int J Syst Evol Microbiol 60:417–421 [View Article][PubMed]
     [Google Scholar]
  32. Madhaiyan M., Poonguzhali S., Lee J. S., Lee K. C., Sundaram S. 2010; Flavobacterium glycines sp. nov., a facultative methylotroph isolated from the rhizosphere of soybean. Int J Syst Evol Microbiol 60:2187–2192 [View Article][PubMed]
     [Google Scholar]
  33. Mandel M., Marmur J. 1968; Use of ultraviolet absorbance temperature profile for determining the guanine plus cytosine content of DNA. Methods Enzymol 12:195–206 [View Article]
     [Google Scholar]
  34. Miyashita M., Fujimura S., Nakagawa Y., Nishizawa M., Tomizuka N., Nakagawa T., Nakagawa J. 2010; Flavobacterium algicola sp. nov., isolated from marine algae. Int J Syst Evol Microbiol 60:344–348 [View Article][PubMed]
     [Google Scholar]
  35. Nedashkovskaya O. I., Balabanova L. A., Zhukova N. V., Kim S. J., Bakunina I. Y., Rhee S. K. 2014; Flavobacterium ahnfeltiae sp. nov., a new marine polysaccharide-degrading bacterium isolated from a Pacific red alga. Arch Microbiol 196:745–752 [View Article][PubMed]
     [Google Scholar]
  36. Qu J. H., Yuan H. L., Li H. F., Deng C. P. 2009; Flavobacterium cauense sp. nov., isolated from sediment of a eutrophic lake. Int J Syst Evol Microbiol 59:2666–2669 [View Article][PubMed]
     [Google Scholar]
  37. Rzhetsky A., Nei M. 1992; A simple method for estimating and testing minimum-evolution trees. Mol Biol Evol 9:945–967
     [Google Scholar]
  38. Rzhetsky A., Nei M. 1993; Theoretical foundation of the minimum-evolution method of phylogenetic inference. Mol Biol Evol 1:1073–1095[PubMed]
     [Google Scholar]
  39. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425[PubMed]
     [Google Scholar]
  40. Sasser M. 1990 Identification of bacteria by gas chromatography of cellular fatty acids MIDI Technical Note 101 Newark, DE: MIDI Inc;
     [Google Scholar]
  41. Smibert R. M., Krieg N. R. 1994; Phenotypic characterization. In Methods for General and Molecular Bacteriology pp 607–654Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. Washington, DC: American Society for Microbiology;
     [Google Scholar]
  42. Sneath P.H.A., Sokal R. R. 1973; Numerical Taxonomy. In The Principles and Practice of Numerical Classification San Francisco: W.H. Freeman & Company;
     [Google Scholar]
  43. Son H. M., Kook M., Park S. Y., Mavlonov G. T., Yi T. H. 2013; Flavobacterium kyungheensis sp. nov., isolated from soil of a ginseng field. Antonie van Leeuwenhoek 104:1029–1037 [View Article][PubMed]
     [Google Scholar]
  44. Stackebrandt E., Goebel B. M. 1994; Taxonomic note: a place for DNA-DNA reasscocitation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44:846–849 [View Article]
     [Google Scholar]
  45. 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 [View Article][PubMed]
     [Google Scholar]
  46. 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 25:4876–4882 [View Article][PubMed]
     [Google Scholar]
  47. Wang Y. N., Chi C. Q., Cai M., Lou Z. Y., Tang Y. Q., Zhi X. Y., Li W. J., Wu X. L., Du X. 2010; Amycolicicoccus subflavus gen. nov., sp. nov., an actinomycete isolated from a saline soil contaminated by crude oil. Int J Syst Evol Microbiol 60:638–643 [View Article][PubMed]
     [Google Scholar]
  48. Xiao Y. P., Hui W., Lee J. S., Lee K. C., Quan Z. X. 2011; Flavobacterium dongtanense sp. nov., isolated from the rhizosphere of a wetland reed. Int J Syst Evol Microbiol 61:343–346 [View Article][PubMed]
     [Google Scholar]
  49. Yang F., Liu H. M., Zhang R., Chen D. B., Wang X., Yan X., Hong Q., Li S. P. 2015; Flavobacterium shanxiense sp. nov., isolated from soil. Curr Microbiol 70:835–839 [View Article][PubMed]
     [Google Scholar]
  50. Yi H., Oh H. M., Lee J. H., Kim S. J., Chun J. 2005; Flavobacterium antarcticum sp. nov., a novel psychrotolerant bacterium isolated from the Antarctic. Int J Syst Evol Microbiol 55:637–641 [View Article][PubMed]
     [Google Scholar]
  51. Yoon H. S., Aslam Z., Song G. C., Kim S. W., Jeon C. O., Chon T. S., Chung Y. R. 2009; Flavobacterium sasangense sp. nov., isolated from a wastewater stream polluted with heavy metals. Int J Syst Evol Microbiol 59:1162–1166 [View Article][PubMed]
     [Google Scholar]
  52. Zhang D. C., Wang H. X., Liu H. C., Dong X. Z., Zhou P. J. 2006; Flavobacterium glaciei sp. nov., a novel psychrophilic bacterium isolated from the China No.1 glacier. Int J Syst Evol Microbiol 56:2921–2925 [View Article][PubMed]
     [Google Scholar]
  53. Zhang H., Cheng M. G., Sun B., Guo S. H., Song M., Li Q., Huang X. 2015a; Flavobacterium suzhouense sp. nov., isolated from farmland river sludge. Int J Syst Evol Microbiol 65:370–374 [View Article][PubMed]
     [Google Scholar]
  54. Zhang M. Y., Xu H., Zhang T. Y., Xie J., Cheng J., Nimaichand S., Li S. H., Li W. J., Zhang Y. X. 2015b; Flavobacterium notoginsengisoli sp. nov., isolated from the rhizosphere of Panax notoginseng . Antonie van Leeuwenhoek 108:545–552 [View Article][PubMed]
     [Google Scholar]
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Flavobacterium suaedae sp. nov., an endophyte isolated from the root of Suaeda corniculata
Int J Syst Evol Microbiol 66, 1943 (2016); https://doi.org/10.1099/ijsem.0.000967
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