Sphingobium chungangianum sp. nov., isolated from rhizosphere of Pinus koraiensis

Antonie Van Leeuwenhoek. 2019 Sep;112(9):1341-1348. doi: 10.1007/s10482-019-01266-8. Epub 2019 Apr 17.

Abstract

A novel Gram-staining negative, yellow-pigmented, non-motile, aerobic and rod-shaped bacterium, designated MAH-11T, was isolated from rhizosphere of Pinus koraiensis and was characterised by using a polyphasic taxonomic approach. The colonies were smooth, circular and 0.3-1.0 mm in diameter when grown on R2A agar for 3 days. The strain was positive for both catalase and oxidase tests. Optimum growth temperature and pH were 28-30 °C and 7.0, respectively. Cell growth occurs on R2A agar, nutrient agar, Luria-Bertani agar and tryptone soya agar but not on MacConkey agar. The novel strain was found to be able to hydrolyse esculin but not casein, gelatin, starch, L-tyrosine, DNA, L-arginine, urea, Tween 20 and Tween 80. On the basis of 16S rRNA gene sequence analysis, strain MAH-11T belongs to the genus Sphingobium and is closely related to Sphingobium quisquiliarum P25T (98.1%), Sphingobium vermicomposti VC-230T (97.8%), Sphingobium mellinum WI4T (97.5%), Sphingobium barthaii KK22T (97.2%) and Sphingobium fuliginis TKPT (97.2%). In DNA-DNA hybridization tests, the DNA relatedness values between strain MAH-11T and its close phylogenetic neighbors were below 45.0%. The DNA G+C content was 64.5 mol% and the predominant respiratory quinone was identified as ubiquinone-10. The major cellular fatty acids were summed feature 8 (C18:1ω7c and/or C18:1ω6c), summed feature 3 (C16:1ω7c and/or C16:1ω6c) and C16:0. The DNA-DNA hybridization results in combination with chemotaxonomic and physiological data demonstrated that strain MAH-11T represents a novel species within the genus Sphingobium, for which the name Sphingobium chungangianum is proposed. The type strain is MAH-11T (= KACC 19836T = CGMCC 1.13749T).

Keywords: 16S rRNA gene sequence; Gram-staining negative; Sphingobium chungangianum.

MeSH terms

  • Bacterial Typing Techniques
  • Base Composition
  • Cluster Analysis
  • Cytosol / chemistry
  • DNA, Bacterial / chemistry
  • DNA, Bacterial / genetics
  • DNA, Ribosomal / chemistry
  • DNA, Ribosomal / genetics
  • Nucleic Acid Hybridization
  • Phylogeny
  • Pinus / growth & development*
  • Quinones / analysis
  • RNA, Ribosomal, 16S / genetics
  • Rhizosphere
  • Sequence Analysis, DNA
  • Soil Microbiology*
  • Sphingomonadaceae / classification*
  • Sphingomonadaceae / genetics
  • Sphingomonadaceae / isolation & purification*
  • Sphingomonadaceae / physiology

Substances

  • DNA, Bacterial
  • DNA, Ribosomal
  • Quinones
  • RNA, Ribosomal, 16S