Strain identifier

BacDive ID: 16078

Type strain: Yes

Species: Streptomyces violaceoruber

Strain history: KCC S-0531 <-- IFO 13101 <-- SAJ <-- ISP 5438 <-- N. A. Krassilnikov 4.

NCBI tax ID(s): 67378 (species)

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General

@ref: 9545

BacDive-ID: 16078

DSM-Number: 40438

keywords: 16S sequence, Bacteria, mesophilic

description: Streptomyces violaceoruber DSM 40438 is a mesophilic bacterium that builds an aerial mycelium.

NCBI tax id

  • NCBI tax id: 67378
  • Matching level: species

strain history

@refhistory
9545<- E.B. Shirling, ISP <- N.A. Krassilnikov, INMI
67770KCC S-0531 <-- IFO 13101 <-- SAJ <-- ISP 5438 <-- N. A. Krassilnikov 4.

doi: 10.13145/bacdive16078.20230509.8.1

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 violaceoruber
  • full scientific name: Streptomyces violaceoruber (Waksman and Curtis 1916) Pridham 1970 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Actinopycnidium caeruleum
    20215Actinomyces tricolor
    20215Actinomyces anthocyanicus
    20215Actinomyces violaceolatus
    20215Streptomyces humiferus
    20215Streptomyces anthocyanicus
    20215Streptomyces tricolor
    20215Streptomyces violaceolatus
    20215Streptomyces roseodiastaticus
    20215Actinomyces violaceusruber
    20215Actinomyces coelescens
    20215Actinomyces roseodiastaticus
    20215Streptomyces coelescens

@ref: 9545

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces violaceolatus

full scientific name: Streptomyces violaceolatus (Krassilnikov et al. 1965) Pridham 1970

type strain: yes

Morphology

colony morphology

@refcolony colorincubation periodmedium used
19454Black red10-14 daysISP 2
19454Purple red10-14 daysISP 3
19454Black red10-14 daysISP 4
19454Black red10-14 daysISP 5
19454Beige10-14 daysISP 6
19454Black red10-14 daysISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19454yesAerial MyceliumOlive greyISP 2
19454yesAerial MyceliumOlive greyISP 3
19454yesAerial MyceliumOlive greyISP 4
19454yesAerial MyceliumOlive greyISP 5
19454noISP 6
19454yesAerial MyceliumOlive greyISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9545GYM 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
19454ISP 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
19454ISP 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:
19454ISP 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
19454ISP 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
19454ISP 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
19454ISP 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
9545ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf

culture temp

@refgrowthtypetemperaturerange
9545positivegrowth28mesophilic
19454positiveoptimum28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

halophily

  • @ref: 19454
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 7.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
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
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase+3.4.11.3
68382trypsin+3.4.21.4
68382alpha-chymotrypsin+3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase+3.2.1.22
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase+3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-mannosidase+3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
19454+++-++++++++++++++-

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19454---------++

Isolation, sampling and environmental information

taxonmaps

  • @ref: 69479
  • File name: preview.99_357.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_91;97_97;98_106;99_357&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: AJ781365
  • Sequence Identity:
  • Total samples: 5402
  • soil counts: 2201
  • aquatic counts: 991
  • animal counts: 1970
  • plant counts: 240

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
95451Risk group (German classification)
194541Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces violaceolatus 16S ribosomal RNA, partial sequenceAF5034971510ena67378
20218Streptomyces violaceolatus strain DSM 40438 16S ribosomal RNA gene, partial sequenceGU383135780ena67378
20218Streptomyces violaceolatus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4531D44216121ena67378
20218Streptomyces violaceolatus strain KCTC 9772 16S ribosomal RNA gene, partial sequenceAY9998221418ena67378
20218Streptomyces violaceolatus gene for 16S rRNA, partial sequence, strain: NBRC 13101AB1843131476ena67378
67770Streptomyces violaceolatus 16S rRNA gene, type strain LMG 20293AJ7813651479ena67378

External links

@ref: 9545

culture collection no.: DSM 40438, ATCC 19847, ATCC 25513, CBS 655.69, IFO 13101, INMI 4, ISP 5438, NBRC 13101, RIA 1293, JCM 4531, CGMCC 4.1756, KCTC 9772, NRRL B-12371, VKM Ac-582

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9545Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40438)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40438
19454Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40438.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
68382Automatically annotated from API zym
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