Strain identifier

BacDive ID: 163704

Type strain: Yes

Species: Humibacter ginsengiterrae

Strain history: Y.-J. Kim and D.-C. Yang; Kyung Hee Univ., South Korea; DCY60.

NCBI tax ID(s): 1132398 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 67770

BacDive-ID: 163704

keywords: 16S sequence, Bacteria, mesophilic

description: Humibacter ginsengiterrae JCM 30079 is a mesophilic bacterium that was isolated from Soil of a ginseng field.

NCBI tax id

  • NCBI tax id: 1132398
  • Matching level: species

strain history

  • @ref: 67770
  • history: Y.-J. Kim and D.-C. Yang; Kyung Hee Univ., South Korea; DCY60.

doi: 10.13145/bacdive163704.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Microbacteriaceae
  • genus: Humibacter
  • species: Humibacter ginsengiterrae
  • full scientific name: Humibacter ginsengiterrae Kim et al. 2015

@ref: 67770

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Micrococcales

family: Microbacteriaceae

genus: Humibacter

species: Humibacter ginsengiterrae

full scientific name: Humibacter ginsengiterrae Kim et al. 2015

type strain: yes

Culture and growth conditions

culture temp

  • @ref: 67770
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Physiology and metabolism

observation

  • @ref: 67770
  • observation: quinones: MK-11, MK-12

Isolation, sampling and environmental information

isolation

  • @ref: 67770
  • sample type: Soil of a ginseng field
  • country: Republic of Korea
  • origin.country: KOR
  • continent: Asia

taxonmaps

  • @ref: 69479
  • File name: preview.99_160584.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_2066;97_2857;98_65628;99_160584&stattab=map
  • Last taxonomy: Humibacter
  • 16S sequence: JQ010859
  • Sequence Identity:
  • Total samples: 139
  • soil counts: 71
  • aquatic counts: 7
  • animal counts: 32
  • plant counts: 29

Sequence information

16S sequences

  • @ref: 67770
  • description: Humibacter ginsengiterrae strain DCY60 16S ribosomal RNA gene, partial sequence
  • accession: JQ010859
  • length: 1440
  • database: ena
  • NCBI tax ID: 1132398

GC content

  • @ref: 67770
  • GC-content: 62.8
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 67770

culture collection no.: JCM 30079, KCTC 33520

literature

  • topic: Phylogeny
  • Pubmed-ID: 25977283
  • title: Humibacter ginsengiterrae sp. nov., and Humibacter ginsengisoli sp. nov., isolated from soil of a ginseng field.
  • authors: Kim EK, Hoang VA, Kim YJ, Nguyen NL, Sukweenadhi J, Kang JP, Yang DC
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.000335
  • year: 2015
  • mesh: Actinomycetales/*classification/genetics/isolation & purification, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Panax/*microbiology, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/chemistry
  • topic2: Genetics

Reference

@idauthorstitledoi/url
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.MicrobeAtlas 1.0 betahttps://microbeatlas.org/