Strain identifier

BacDive ID: 10621

Type strain: Yes

Species: Gordonia hankookensis

Strain Designation: ON-33

Strain history: <- JH Yoon, KRIBB

NCBI tax ID(s): 589403 (species)

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General

@ref: 17969

BacDive-ID: 10621

DSM-Number: 45645

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive

description: Gordonia hankookensis ON-33 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from wastewater treatment plant.

NCBI tax id

  • NCBI tax id: 589403
  • Matching level: species

strain history

@refhistory
17969<- CCUG; CCUG 57507 <- J. H. Yoon,KRIBB,Taejon, South Korea
67770KCTC 19599 <-- J.-H. Yoon ON-33.
67771<- JH Yoon, KRIBB

doi: 10.13145/bacdive10621.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Gordoniaceae
  • genus: Gordonia
  • species: Gordonia hankookensis
  • full scientific name: Gordonia hankookensis Park et al. 2009

@ref: 17969

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Gordoniaceae

genus: Gordonia

species: Gordonia hankookensis

full scientific name: Gordonia hankookensis Park et al. 2009

strain designation: ON-33

type strain: yes

Morphology

cell morphology

@refgram stainmotility
29362positiveno
67771positive

colony morphology

  • @ref: 61353
  • incubation period: 7 days

Culture and growth conditions

culture medium

  • @ref: 17969
  • name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/65
  • composition: Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
17969positivegrowth28mesophilic
29362positivegrowth10-37
29362positiveoptimum30mesophilic
61353positivegrowth30mesophilic
67770positivegrowth28mesophilic
67771positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
29362positivegrowth4.5-10.0alkaliphile
29362positiveoptimum7.0-7.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29362aerobe
61353aerobe
67771aerobe

observation

  • @ref: 67770
  • observation: quinones: MK-9(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2936215963ribitol+carbon source
2936218403L-arabitol+carbon source
2936224265gluconate+carbon source
2936225017leucine+carbon source
2936226546rhamnose+carbon source
2936233942ribose+carbon source
2936253424tween 20+carbon source
2936253423tween 40+carbon source
2936253425tween 60+carbon source
293624853esculin+hydrolysis
2936217632nitrate+reduction

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
17969wastewater treatment plantTaejonRepublic of KoreaKORAsia
61353Soil around wastewater treatment plantTaejonRepublic of KoreaKORAsia2006-01-01
67770Soil around a wastewater treatment plantTaejonRepublic of KoreaKORAsia
67771From soilDaejeonRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Waste#Wastewater
#Engineered#Waste#Water treatment plant

Safety information

risk assessment

  • @ref: 17969
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17969
  • description: Gordonia hankookensis strain ON-33 16S ribosomal RNA gene, partial sequence
  • accession: FJ572038
  • length: 1476
  • database: ena
  • NCBI tax ID: 589403

Genome sequences

  • @ref: 66792
  • description: Gordonia hankookensis ON-33
  • accession: GCA_014673215
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 589403

GC content

@refGC-contentmethod
1796966.9
6777066.9high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno98.544yes
gram-positiveyes89.539no
anaerobicno99.518no
aerobicyes88.584yes
halophileno83.189no
spore-formingno84.384no
glucose-utilyes89.365no
thermophileno99.314yes
motileno95.617no
glucose-fermentno87.467no

External links

@ref: 17969

culture collection no.: DSM 45645, CCUG 57507, KCTC 19599, JCM 16947

straininfo link

  • @ref: 79893
  • straininfo: 398216

literature

  • topic: Phylogeny
  • Pubmed-ID: 19643878
  • title: Gordonia hankookensis sp. nov., isolated from soil.
  • authors: Park S, Kang SJ, Kim W, Yoon JH
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.011585-0
  • year: 2009
  • mesh: DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Gordonia Bacterium/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17969Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45645)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45645
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
29362Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2577328776041
61353Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 57507)https://www.ccug.se/strain?id=57507
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
79893Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID398216.1StrainInfo: A central database for resolving microbial strain identifiers