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Strain identifier

BacDive ID: 16104

Type strain: Yes

Species: Streptomyces violens

Strain history: KCC A-0072 <-- RIA 565 <-- INMI 1212.

NCBI tax ID(s): 66377 (species)

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

@ref: 9673

BacDive-ID: 16104

DSM-Number: 40597

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

description: Streptomyces violens DSM 40597 is a spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from Soil.

NCBI tax id

  • NCBI tax id: 66377
  • Matching level: species

strain history

doi: 10.13145/bacdive16104.20221219.7.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Streptomycetales
  • family: Streptomycetaceae
  • genus: Streptomyces
  • species: Streptomyces violens
  • full scientific name: Streptomyces violens (Kalakoutskii and Krassilnikov 1960) Goodfellow et al. 1987
  • synonyms

    • @ref: 20215
    • synonym: Chainia violens

@ref: 9673

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces violens

full scientific name: Streptomyces violens (Kalakoutskii and Krassilnikov 1960) Goodfellow et al. 1987

type strain: yes

Morphology

colony morphology

@refcolony colorincubation periodmedium used
19483Brown10-14 daysISP 2
1948310-14 daysISP 3
1948310-14 daysISP 4
1948310-14 daysISP 5
1948310-14 daysISP 6
1948310-14 daysISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19483yesAerial MyceliumBeigeISP 2
19483yesAerial MyceliumWhiteISP 3
19483yesAerial MyceliumWhiteISP 4
19483yesAerial MyceliumWhiteISP 5
19483noISP 6
19483yesAerial MyceliumWhiteISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9673GYM 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
19483ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19483ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19483ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19483ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19483ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19483ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes

culture temp

@refgrowthtypetemperaturerange
9673positivegrowth28mesophilic
19483positiveoptimum28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

  • @ref: 19483
  • spore description: Formation of spore chains (retinaculiapetri), spore surface smooth, fragmentation
  • type of spore: spore
  • spore formation: yes

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1948316634raffinose-
1948326546rhamnose+
1948328757fructose+
1948329864mannitol+
1948317268myo-inositol+
1948318222xylose+
1948317992sucrose+
1948322599arabinose-
1948317234glucose+
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin-
6836835581indole-

enzymes

@refvalueactivityec
68368gelatinase+
68368tryptophan deaminase+4.1.99.1
68368urease+3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase+3.2.1.23

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19483+-----++--+

Isolation, sampling and environmental information

isolation

  • @ref: 67770
  • sample type: Soil
  • country: Armenia
  • origin.country: ARM
  • continent: Asia

taxonmaps

  • @ref: 69479
  • File name: preview.99_134.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_103;97_110;98_119;99_134&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: HQ244455
  • Sequence Identity:
  • Total samples: 438
  • soil counts: 379
  • aquatic counts: 28
  • animal counts: 28
  • plant counts: 3

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
96731Risk group (German classification)
194831Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces violens strain CGMCC 4.1786 16S ribosomal RNA gene, partial sequenceHQ2444551376ena66377
20218Streptomyces violens 16S rRNA gene, type strain DSM 40597TAJ6216051498ena66377
20218Streptomyces violens gene for 16S ribosomal RNA, partial sequence, strain: JCM 3072D43977121ena66377
20218Streptomyces violens gene for 16S rRNA, partial sequence, strain: NBRC 12557AB1841041473ena66377
20218Streptomyces violens gene for 16S rRNA, partial sequence, strain: NBRC 13486AB1844381474ena66377

Genome sequences

  • @ref: 67770
  • description: Streptomyces violens NRRL ISP-5597
  • accession: GCA_000717745
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 66377

GC content

  • @ref: 67770
  • GC-content: 71.5

External links

@ref: 9673

culture collection no.: DSM 40597, ATCC 15898, CBS 451.65, CBS 787.72, IFO 12557, IFO 13486, IMET 43407, ISP 5597, JCM 3072, JCM 4852, NBRC 12557, NBRC 13486, NRRL B-3484, RIA 1447, RIA 565, BCRC 12540, CGMCC 4.1786, HAMBI 1073, INMI 1212, MTCC 6916, NCAIM B.01477, NRRL ISP-5597, PCM 2247, VKM Ac-586, VKM Ac-653

straininfo link

@refpassport
20218http://www.straininfo.net/strains/165890
20218http://www.straininfo.net/strains/122923
20218http://www.straininfo.net/strains/230107
20218http://www.straininfo.net/strains/837833
20218http://www.straininfo.net/strains/122927
20218http://www.straininfo.net/strains/122928
20218http://www.straininfo.net/strains/302226
20218http://www.straininfo.net/strains/122929
20218http://www.straininfo.net/strains/175801
20218http://www.straininfo.net/strains/175805
20218http://www.straininfo.net/strains/333340
20218http://www.straininfo.net/strains/333341
20218http://www.straininfo.net/strains/175806
20218http://www.straininfo.net/strains/122931
20218http://www.straininfo.net/strains/122924

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9673Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40597)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40597
19483Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40597.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68368Automatically annotated from API 20E
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