1887

Abstract

A novel Gram-stain-negative bacterial strain, designated T16R-256, was isolated from the rhizosphere soil of tomato plants grown in a greenhouse in Yecheon-gun, Gyeongsangbuk-do, Republic of Korea and characterized using polyphasic taxonomy. Cells were aerobic, non-flagellated and rod-shaped. Colonies were light yellow, convex and round. The strain grew in the temperature range of 15–37 °C (optimally at 28–30 °C) and pH range of 7.0–9.0 (optimally at 7.0–8.0) and in 4 % NaCl (w/v). A comparison of 16S rRNA gene sequences showed that strain T16R-256 is a member of the genus Parapedobacter , exhibiting high sequence similarity with Parapedobacter pyrenivorans P-4 (94.2 %), Parapedobacter indicus RK1 (93.7 %), Parapedobacter koreensis Jip14 (93.7 %), Parapedobacter luteus 4M29 (93.6 %) and Parapedobacter soli DCY14 (93.4 %). The major polar lipids were phosphatidylethanolamine, sphingolipid, one aminophospholipid, two aminolipids and three unknown lipids. The major fatty acids (>10 % of the total fatty acids) were iso-C15 : 0, iso-C17 : 0 3-OH and iso-C15 : 0 2-OH/C16 : 1ω7c. Strain T16R-256 contained MK-7 as the predominant respiratory quinone and homospermidine as the major polyamine. The genomic DNA G+C content of the type strain was 55.5 mol%. On the basis of phenotypic, chemotaxonomic and phylogenetic data, strain T16R-256 should be designated as representative of a novel species of the genus Parapedobacter , for which the name Parapedobacter lycopersici sp. nov. is proposed. The type strain is T16R-256 (=KACC 18788=JCM 31602).

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2017-09-12
2019-10-22
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References

  1. Kim MK, Na JR, Cho DH, Soung NK, Yang DC. Parapedobacter koreensis gen. nov., sp. nov. Int J Syst Evol Microbiol 2007; 57: 1336– 1341 [CrossRef] [PubMed]
    [Google Scholar]
  2. Zhao JK, Li XM, Zhang MJ, Jin JH, Jiang CY et al. Parapedobacter pyrenivorans sp. nov., isolated from a pyrene-degrading microbial enrichment, and emended description of the genus Parapedobacter. Int J Syst Evol Microbiol 2013; 63: 3994– 3999 [CrossRef] [PubMed]
    [Google Scholar]
  3. Kim SJ, Weon HY, Kim YS, Yoo SH, Kim BY et al. Parapedobacter luteus sp. nov. and Parapedobacter composti sp. nov., isolated from cotton waste compost. Int J Syst Evol Microbiol 2010; 60: 1849– 1853 [CrossRef] [PubMed]
    [Google Scholar]
  4. Kumar R, Dwivedi V, Nayyar N, Verma H, Singh AK et al. Parapedobacter indicus sp. nov., isolated from hexachlorocyclohexane-contaminated soil. Int J Syst Evol Microbiol 2015; 65: 129– 134 [CrossRef] [PubMed]
    [Google Scholar]
  5. Kim MK, Kim YA, Kim YJ, Soung NK, Yi TH et al. Parapedobacter soli sp. nov., isolated from soil of a ginseng field. Int J Syst Evol Microbiol 2008; 58: 337– 340 [CrossRef] [PubMed]
    [Google Scholar]
  6. Lee SA, Park J, Chu B, Kim JM, Joa JH et al. Comparative analysis of bacterial diversity in the rhizosphere of tomato by culture-dependent and -independent approaches. J Microbiol 2016; 54: 823– 831 [CrossRef] [PubMed]
    [Google Scholar]
  7. Weisburg WG, Barns SM, Pelletier DA, Lane DJ. 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 1991; 173: 697– 703 [CrossRef] [PubMed]
    [Google Scholar]
  8. Yoon SH, Ha SM, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 2017; 67: 1613– 1617 [CrossRef] [PubMed]
    [Google Scholar]
  9. Pruesse E, Peplies J, Glöckner FO. SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. Bioinformatics 2012; 28: 1823– 1829 [CrossRef] [PubMed]
    [Google Scholar]
  10. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013; 30: 2725– 2729 [CrossRef] [PubMed]
    [Google Scholar]
  11. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4: 406– 425 [PubMed]
    [Google Scholar]
  12. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17: 368– 376 [CrossRef] [PubMed]
    [Google Scholar]
  13. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971; 20: 406– 416 [CrossRef]
    [Google Scholar]
  14. Reichenbach H. The order Cytophagales. In Balows A, Trüper HG, Dworkin M, Harder W, Schleifer KH et al. (editors) The Prokaryotes, 2nd ed.vol. 4 New York: Springer; 1992; pp. 3631– 3675 [Crossref]
    [Google Scholar]
  15. Minnikin DE, O'Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 1984; 2: 233– 241 [CrossRef]
    [Google Scholar]
  16. Busse J, Auling G. Polyamine pattern as a chemotaxonomic marker within the Proteobacteria. Syst Appl Microbiol 1988; 11: 1– 8 [CrossRef]
    [Google Scholar]
  17. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids Newark, DE: MIDI Inc; 1990; MIDI Technical note 101
    [Google Scholar]
  18. Gonzalez JM, Saiz-Jimenez C. A fluorimetric method for the estimation of G+C mol% content in microorganisms by thermal denaturation temperature. Environ Microbiol 2002; 4: 770– 773 [CrossRef] [PubMed]
    [Google Scholar]
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