Strain identifier

BacDive ID: 16407

Type strain: Yes

Species: Streptomyces koyangensis

Strain Designation: VK-A60

Strain history: DSM 41864 <-- B. K. Hwang VK-A60.

NCBI tax ID(s): 188770 (species)

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

@ref: 10644

BacDive-ID: 16407

DSM-Number: 41864

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

description: Streptomyces koyangensis VK-A60 is an aerobe, spore-forming, mesophilic bacterium that was isolated from radish soil.

NCBI tax id

  • NCBI tax id: 188770
  • Matching level: species

strain history

@refhistory
10644<- NBRC <- B. K. Hwang; VK-A60
67770DSM 41864 <-- B. K. Hwang VK-A60.

doi: 10.13145/bacdive16407.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Kitasatosporales
  • family: Streptomycetaceae
  • genus: Streptomyces
  • species: Streptomyces koyangensis
  • full scientific name: Streptomyces koyangensis Lee et al. 2005

@ref: 10644

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces koyangensis

full scientific name: Streptomyces koyangensis Lee et al. 2005

strain designation: VK-A60

type strain: yes

Morphology

cell morphology

  • @ref: 31268
  • gram stain: positive
  • motility: no

pigmentation

  • @ref: 31268
  • production: yes

multimedia

  • @ref: 10644
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_41864.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
10644GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: 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
10644ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://mediadive.dsmz.de/medium/84Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water
10644STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)yeshttps://mediadive.dsmz.de/medium/252Name: STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) Composition: Agar 14.985 g/l Starch 9.99001 g/l (NH4)2SO4 1.998 g/l CaCO3 1.998 g/l K2HPO4 0.999001 g/l MgSO4 x 7 H2O 0.999001 g/l NaCl 0.999001 g/l FeSO4 x 7 H2O 0.000999001 g/l MnCl2 x 4 H2O 0.000999001 g/l ZnSO4 x 7 H2O 0.000999001 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
10644positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
10644aerobe
31268aerobe

spore formation

  • @ref: 31268
  • spore formation: yes

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3126822599arabinose+carbon source
3126828757fructose+carbon source
3126817234glucose+carbon source
3126829864mannitol+carbon source
3126818222xylose+carbon source
312684853esculin+hydrolysis
3126817632nitrate+reduction

metabolite production

@refChebi-IDmetaboliteproduction
3126816136hydrogen sulfideyes
67770trans-styrylacetic acidyes

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
10644radish soilKoyangRepublic of KoreaKORAsia
67770Soil in a radish fieldKoyangRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Host#Plants#Herbaceous plants (Grass,Crops)

taxonmaps

  • @ref: 69479
  • File name: preview.99_720.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_91;97_287;98_384;99_720&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: AY079156
  • Sequence Identity:
  • Total samples: 129
  • soil counts: 39
  • aquatic counts: 5
  • animal counts: 85

Safety information

risk assessment

  • @ref: 10644
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 10644
  • description: Streptomyces koyangensis strain VK-A60 16S ribosomal RNA gene, partial sequence
  • accession: AY079156
  • length: 1488
  • database: ena
  • NCBI tax ID: 188770

Genome sequences

  • @ref: 67770
  • description: Streptomyces koyangensis VK-A60T
  • accession: GCA_003428925
  • assembly level: complete
  • database: ncbi
  • NCBI tax ID: 188770

GC content

@refGC-contentmethod
1064467.8
6777067.8thermal denaturation, midpoint method (Tm)

External links

@ref: 10644

culture collection no.: DSM 41864, JCM 14915, KCCM 10555, NBRC 100598, NCIMB 14342

straininfo link

  • @ref: 85454
  • straininfo: 135139

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15653884Streptomyces koyangensis sp. nov., a novel actinomycete that produces 4-phenyl-3-butenoic acid.Lee JY, Lee JY, Jung HW, Hwang BKInt J Syst Evol Microbiol10.1099/ijs.0.63168-02005Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids, Monounsaturated/*metabolism, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Random Amplified Polymorphic DNA Technique, Sequence Analysis, DNA, *Soil Microbiology, Spores, Bacterial/ultrastructure, Streptomyces/chemistry/*classification/genetics/isolation & purification/physiologyGenetics
Phylogeny16190619Isolation and antifungal activity of 4-phenyl-3-butenoic acid from Streptomyces koyangensis strain VK-A60.Lee JY, Lee JY, Moon SS, Hwang BKJ Agric Food Chem10.1021/jf050957r2005Culture Media, Conditioned/chemistry, Fatty Acids, Monounsaturated/*isolation & purification/*pharmacology, Fungi/drug effects, Fungicides, Industrial/*pharmacology, Magnetic Resonance Spectroscopy, Mass Spectrometry, Streptomyces/*metabolismCultivation
Phylogeny30168790Streptomyces venetus sp. nov., an actinomycete with a blue aerial mycelium.Sujarit K, Kudo T, Ohkuma M, Pathom-Aree W, Lumyong SInt J Syst Evol Microbiol10.1099/ijsem.0.0029952018Arecaceae/*microbiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Genes, Bacterial, Glycolipids/chemistry, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Thailand, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
10644Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 41864)https://www.dsmz.de/collection/catalogue/details/culture/DSM-41864
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
31268Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2758828776041
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
85454Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID135139.1StrainInfo: A central database for resolving microbial strain identifiers