Pedobacter ginsengisoli sp. nov., a DNase-producing bacterium isolated from soil of a ginseng field in South Korea

Int J Syst Evol Microbiol. 2006 Nov;56(Pt 11):2565-2570. doi: 10.1099/ijs.0.64414-0.

Abstract

A Gram-negative, strictly aerobic, rod-shaped, non-motile, non-spore-forming bacterial strain, designated Gsoil 104T, was isolated from a soil sample from a ginseng field in Pocheon Province (South Korea) and was characterized taxonomically by using a polyphasic approach. On the basis of 16S rRNA gene sequence similarities, strain Gsoil 104T was shown to belong to the family Sphingobacteriaceae, being related to Pedobacter africanus DSM 12126T (97.0%), Pedobacter caeni LMG 22862T (96.9%), Pedobacter cryoconitis DSM 14825T (96.8%) and Pedobacter heparinus DSM 2366T (96.6%). The phylogenetic distance from any other Pedobacter species with a validly published name was greater than 3.4% (i.e.<96.6% 16S rRNA gene sequence similarity). DNA-DNA hybridization experiments showed that values for DNA-DNA relatedness between strain Gsoil 104T and its phylogenetically closest neighbours were below 37%. The G+C content of the genomic DNA was 43.6 mol%. The predominant respiratory quinone was MK-7. The major fatty acids were C16:1omega7c, iso-C15:0, C16:0, iso-C17:0 3-OH and iso-C15:0 2-OH. These chemotaxonomic data support the affiliation of strain Gsoil 104T to the genus Pedobacter. On the basis of its phenotypic properties and phylogenetic distinctiveness, strain Gsoil 104T represents a novel species in the genus Pedobacter, for which the name Pedobacter ginsengisoli sp. nov. is proposed. The type strain is Gsoil 104T (=KCTC 12576T=LMG 23399T).

MeSH terms

  • Bacteroidetes / classification*
  • Bacteroidetes / cytology
  • Bacteroidetes / isolation & purification*
  • Bacteroidetes / physiology
  • Base Composition
  • DNA, Bacterial / chemistry
  • DNA, Bacterial / genetics
  • DNA, Ribosomal / chemistry
  • DNA, Ribosomal / genetics
  • Deoxyribonucleases / biosynthesis*
  • Fatty Acids / analysis
  • Fatty Acids / chemistry
  • Genes, rRNA
  • Korea
  • Molecular Sequence Data
  • Movement
  • Nucleic Acid Hybridization
  • Panax*
  • Phylogeny
  • Quinones / analysis
  • Quinones / chemistry
  • RNA, Ribosomal, 16S / genetics
  • Sequence Analysis, DNA
  • Sequence Homology, Nucleic Acid
  • Soil Microbiology*

Substances

  • DNA, Bacterial
  • DNA, Ribosomal
  • Fatty Acids
  • Quinones
  • RNA, Ribosomal, 16S
  • Deoxyribonucleases

Associated data

  • GENBANK/AB245371