Strain identifier

BacDive ID: 16080

Type strain: Yes

Species: Streptomyces violaceoruber

Strain history: KCC S-0423 <-- IFO 12826 <-- SAJ <-- ISP 5049 <-- IMRU 3030.

NCBI tax ID(s): 1935 (species)

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General

@ref: 9127

BacDive-ID: 16080

DSM-Number: 40049

keywords: 16S sequence, Bacteria, spore-forming, mesophilic, antibiotic compound production

description: Streptomyces violaceoruber DSM 40049 is a spore-forming, mesophilic bacterium that builds an aerial mycelium and produces antibiotic compounds.

NCBI tax id

  • NCBI tax id: 1935
  • Matching level: species

strain history

@refhistory
9127<- E.B. Shirling, ISP <- R.E. Gordon, IMRU
67770KCC S-0423 <-- IFO 12826 <-- SAJ <-- ISP 5049 <-- IMRU 3030.

doi: 10.13145/bacdive16080.20230509.8.1

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: 9127

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces violaceoruber

full scientific name: Streptomyces violaceoruber (Waksman and Curtis 1916) Pridham 1970

type strain: yes

Morphology

colony morphology

@refcolony colorincubation periodmedium used
19395Violet10-14 daysISP 2
19395Violet10-14 daysISP 3
19395Violet10-14 daysISP 4
19395Orange10-14 daysISP 5
19395Violet10-14 daysISP 6
19395Violet10-14 daysISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19395yesAerial MyceliumGreyISP 2
19395yesAerial MyceliumGreyISP 3
19395yesAerial MyceliumGreyISP 4
19395yesAerial MyceliumGreyISP 5
19395noISP 6
19395yesAerial MyceliumGreyISP 7

multimedia

  • @ref: 9127
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40049.jpg
  • caption: Medium 65 37°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9127GYM 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
19395ISP 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
19395ISP 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:
19395ISP 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
19395ISP 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
19395ISP 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
19395ISP 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
9127ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf

culture temp

@refgrowthtypetemperaturerange
9127positivegrowth37mesophilic
19395positiveoptimum28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

  • @ref: 19395
  • spore description: Formation of spore chains: retinaculiapetri, spore surface: smooth
  • spore formation: yes

compound production

@refcompound
9127actinorhodin
9127protoactinorhodin
9127methylenomycin A

halophily

  • @ref: 19395
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 2.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1939562968cellulose-
1939516634raffinose-
1939526546rhamnose+
1939528757fructose+
1939529864mannitol+
1939517268myo-inositol+/-
1939518222xylose+/-
1939517992sucrose-
1939522599arabinose+
1939517234glucose+
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

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19395+++-+-+--++

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
91271Risk group (German classification)
193951Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces violaceoruber strain ICSSB 1016 16S ribosomal RNA, partial sequenceAF5034921510ena1935
20218Streptomyces violaceoruber strain DSM 40049 16S ribosomal RNA gene, partial sequenceGU383147780ena1935
20218Streptomyces violaceoruber gene for 16S ribosomal RNA, partial sequence, strain: JCM 4423D44135121ena1935
20218Streptomyces violaceoruber strain KCTC 9787 16S ribosomal RNA gene, partial sequenceAY9998151422ena1935
20218Streptomyces violaceoruber gene for 16S rRNA, partial sequence, strain: NBRC 12826AB1841741467ena1935
20218Streptomyces violaceoruber strain NRRL B-3319 16S ribosomal RNA gene, partial sequenceAY9997321409ena1935

GC content

@refGC-contentmethod
6777072thermal denaturation, midpoint method (Tm)
6777071.5Buoyant density centrifugation (BD)

External links

@ref: 9127

culture collection no.: DSM 40049, ATCC 14980, ATCC 19816, ATCC 3355, CBS 569.68, ETH 14306, ETH 9447, IFO 12826, IMRU 3030, ISP 5049, JCM 4423, KCC S-0423, NBRC 12826, NRRL B-12594, NRRL B-2935, NRRL B-3025, NRRL B-3319, VKM Ac-726, BCRC 11489, CGMCC 4.1801, KCTC 9787, RIA 1096, VTT E-991420

straininfo link

  • @ref: 85149
  • straininfo: 389370

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny9731302Comparative ribosomal protein (L11 and L30) sequence analyses of several Streptomyces spp. commonly used in genetic studies.Kawamoto S, Ochi KInt J Syst Bacteriol10.1099/00207713-48-2-5971998Amino Acid Sequence, Bacterial Proteins/genetics, Molecular Sequence Data, Phylogeny, Ribosomal Proteins/*genetics, Sequence Analysis, Streptomyces/classification/*geneticsGenetics
Genetics30621999Streptomyces coelicolor.Hoskisson PA, van Wezel GPTrends Microbiol10.1016/j.tim.2018.12.0082019Anti-Bacterial Agents/biosynthesis, Genome, Bacterial, Hyphae/growth & development, Spores, Bacterial/growth & development, Streptomyces coelicolor/classification/*genetics/*metabolismPhylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9127Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40049)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40049
19395Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40049.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
85149Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID389370.1StrainInfo: A central database for resolving microbial strain identifiers