Sediminibacterium ginsengisoli sp. nov., isolated from soil of a ginseng field, and emended descriptions of the genus Sediminibacterium and of Sediminibacterium salmoneum

Int J Syst Evol Microbiol. 2013 Mar;63(Pt 3):905-912. doi: 10.1099/ijs.0.038554-0. Epub 2012 May 25.

Abstract

A Gram-negative bacterium, designated DCY13(T), was isolated from soil of a ginseng field in South Korea. Comparative analysis of 16S rRNA gene sequences showed that strain DCY13(T) shared the highest sequence similarity (95.0 %) with Sediminibacterium salmoneum NBRC 103935(T) and 87.6-91.4 % sequence similarity with other members of the family Chitinophagaceae. Cells were non-spore-forming rods, catalase- and oxidase-positive, motile by gliding and facultatively anaerobic. The only respiratory quinone was menaquinone 7 (MK-7) and the major fatty acids were iso-C17 : 0 3-OH, iso-C15 : 0 and iso-C15 : 1 G. The G+C content of the genomic DNA was 47.5±1.0 mol%. In addition to phosphatidylethanolamine, the major polar lipids were two unidentified aminophospholipids, one unidentified aminolipid and three unidentified polar lipids. The major cell-wall sugars were ribose, xylose and galactose. It is proposed that strain DCY13(T) represents a novel species in the genus Sediminibacterium, for which the name Sediminibacterium ginsengisoli sp. nov. is proposed. The type strain is DCY13(T) ( = KCTC 12833(T) = JCM 15794(T) = DSM 22335(T)). Emended descriptions of the genus Sediminibacterium and of Sediminibacterium salmoneum are also proposed.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Bacterial Typing Techniques
  • Bacteroidetes / classification*
  • Bacteroidetes / genetics
  • Bacteroidetes / isolation & purification
  • Base Composition
  • DNA, Bacterial / genetics
  • Fatty Acids / analysis
  • Molecular Sequence Data
  • Panax / microbiology*
  • Phosphatidylethanolamines / analysis
  • Phylogeny*
  • RNA, Ribosomal, 16S / genetics
  • Republic of Korea
  • Sequence Analysis, DNA
  • Soil Microbiology*
  • Vitamin K 2 / analogs & derivatives
  • Vitamin K 2 / analysis

Substances

  • DNA, Bacterial
  • Fatty Acids
  • Phosphatidylethanolamines
  • RNA, Ribosomal, 16S
  • Vitamin K 2
  • phosphatidylethanolamine
  • menaquinone 7

Associated data

  • GENBANK/EF067860