Strain identifier
BacDive ID: 16177
Type strain:
Species: Streptomyces violaceoruber
Strain Designation: 69
Strain history: KCC S-1058 <-- MS 1456 <-- ATCC 19821 <-- N. A. Krassilnikov 69.
NCBI tax ID(s): 68174 (species)
General
@ref: 10286
BacDive-ID: 16177
DSM-Number: 41422
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, Gram-positive
description: Streptomyces violaceoruber 69 is a spore-forming, mesophilic, Gram-positive bacterium that builds an aerial mycelium and was isolated from soil.
NCBI tax id
- NCBI tax id: 68174
- Matching level: species
strain history
@ref | history |
---|---|
10286 | <- NRRL <- ATCC <- N. A. Krasilnikov, 69 |
67770 | KCC S-1058 <-- MS 1456 <-- ATCC 19821 <-- N. A. Krassilnikov 69. |
doi: 10.13145/bacdive16177.20230509.8.1
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
@ref synonym 20215 Actinopycnidium caeruleum 20215 Actinomyces tricolor 20215 Actinomyces anthocyanicus 20215 Actinomyces violaceolatus 20215 Streptomyces humiferus 20215 Streptomyces anthocyanicus 20215 Streptomyces tricolor 20215 Streptomyces violaceolatus 20215 Streptomyces roseodiastaticus 20215 Actinomyces violaceusruber 20215 Actinomyces coelescens 20215 Actinomyces roseodiastaticus 20215 Streptomyces coelescens
@ref: 10286
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces anthocyanicus
full scientific name: Streptomyces anthocyanicus (Krassilnikov et al. 1965) Pridham 1970
strain designation: 69
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
colony morphology
@ref | colony color | incubation period | medium used |
---|---|---|---|
18684 | Yellow | 10-14 days | ISP 2 |
18684 | Yellow | 10-14 days | ISP 3 |
18684 | Beige | 10-14 days | ISP 4 |
18684 | Yellow | 10-14 days | ISP 5 |
18684 | Beige | 10-14 days | ISP 6 |
18684 | Beige | 10-14 days | ISP 7 |
multicellular morphology
@ref | forms multicellular complex | complex name | medium name |
---|---|---|---|
18684 | yes | Aerial Mycelium | ISP 2 |
18684 | yes | Aerial Mycelium | ISP 3 |
18684 | yes | Aerial Mycelium | ISP 4 |
18684 | yes | Aerial Mycelium | ISP 5 |
18684 | no | ISP 6 | |
18684 | yes | Aerial Mycelium | ISP 7 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
10286 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://mediadive.dsmz.de/medium/65 | 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 |
18684 | ISP 2 | yes | Name: 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 | |
18684 | ISP 3 | yes | Name: 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: | |
18684 | ISP 4 | yes | Name: 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 | |
18684 | ISP 5 | yes | Name: 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 | |
18684 | ISP 6 | yes | Name: 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 | |
18684 | ISP 7 | yes | Name: 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
@ref | growth | type | temperature | range |
---|---|---|---|---|
10286 | positive | growth | 28 | mesophilic |
18684 | positive | optimum | 28 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | yes | 100 |
69480 | yes | 100 |
halophily
- @ref: 18684
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0 %
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
18684 | 17234 | glucose | + | |
18684 | 22599 | arabinose | + | |
18684 | 17992 | sucrose | - | |
18684 | 18222 | xylose | - | |
18684 | 17268 | myo-inositol | + | |
18684 | 29864 | mannitol | + | |
18684 | 28757 | fructose | + | |
18684 | 26546 | rhamnose | + | |
18684 | 16634 | raffinose | - | |
18684 | 62968 | cellulose | - | |
68368 | 5291 | gelatin | + | hydrolysis |
68368 | 27897 | tryptophan | - | energy source |
68368 | 16199 | urea | + | hydrolysis |
68368 | 16947 | citrate | + | assimilation |
68368 | 18257 | ornithine | - | degradation |
68368 | 25094 | lysine | + | degradation |
68368 | 29016 | arginine | + | hydrolysis |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68368 | 15688 | acetoin | yes |
68368 | 35581 | indole | no |
68368 | 16136 | hydrogen sulfide | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | indole test |
---|---|---|---|---|
68368 | 15688 | acetoin | + | |
68368 | 35581 | indole | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68368 | gelatinase | + | |
68368 | tryptophan deaminase | - | 4.1.99.1 |
68368 | urease | + | 3.5.1.5 |
68368 | ornithine decarboxylase | - | 4.1.1.17 |
68368 | lysine decarboxylase | + | 4.1.1.18 |
68368 | arginine dihydrolase | + | 3.5.3.6 |
68368 | beta-galactosidase | + | 3.2.1.23 |
API 20E
@ref | ONPG | ADH Arg | LDC Lys | ODC | CIT | H2S | URE | TDA Trp | IND | VP | GEL |
---|---|---|---|---|---|---|---|---|---|---|---|
18684 | + | + | + | - | + | - | + | - | - | + | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country |
---|---|---|---|
10286 | soil | ||
67770 | Soil | Russia | RUS |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
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: AB184631
- Sequence Identity:
- Total samples: 5402
- soil counts: 2201
- aquatic counts: 991
- animal counts: 1970
- plant counts: 240
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
10286 | 1 | Risk group (German classification) |
18684 | 1 | German classification |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Streptomyces anthocyanicus gene for 16S ribosomal RNA, partial sequence, strain: JCM 5058 | D44427 | 121 | ena | 68174 |
20218 | Streptomyces anthocyanicus strain KCTC 9755 16S ribosomal RNA gene, partial sequence | AY999833 | 1421 | ena | 68174 |
20218 | Streptomyces anthocyanicus gene for 16S rRNA, partial sequence, strain: NBRC 14892 | AB184631 | 1478 | ena | 68174 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Streptomyces anthocyanicus strain JCM 5058 | 68174.3 | wgs | patric | 68174 |
67770 | Streptomyces anthocyanicus JCM 5058 | GCA_014651155 | scaffold | ncbi | 68174 |
GC content
- @ref: 67770
- GC-content: 72.3
- method: genome sequence analysis
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 100 | no |
gram-positive | yes | 88.874 | no |
anaerobic | no | 99.255 | no |
halophile | no | 92.122 | yes |
spore-forming | yes | 93.997 | no |
glucose-util | yes | 89.554 | no |
thermophile | no | 98.962 | no |
flagellated | no | 97.871 | no |
motile | no | 93.933 | no |
aerobic | yes | 94.119 | no |
glucose-ferment | no | 89.901 | no |
External links
@ref: 10286
culture collection no.: DSM 41422, ATCC 19821, INMI 69, NRRL B-12341, JCM 5058, CGMCC 4.1683, IFO 14892, KCTC 9755, NBRC 14892, NRRL B-24292
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
10286 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 41422) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-41422 | |||
18684 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM41422.pdf | Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68368 | Automatically annotated from API 20E | |||||
69479 | João 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 | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 |