Strain identifier
BacDive ID: 15491
Type strain: 
Species: Streptomyces pseudovenezuelae
Variant: Isotype of BacDive ID 15817
Strain history: IFO 12904 <-- SAJ <-- ISP 5212 <-- RIA 742 <-- IMRU 3774.
NCBI tax ID(s): 67350 (species)
version 8.1 (current version)
General
@ref: 9384
BacDive-ID: 15491
DSM-Number: 40212
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, psychrophilic, Gram-positive, antibiotic compound production
description: Streptomyces pseudovenezuelae DSM 40212 is a spore-forming, psychrophilic, Gram-positive bacterium that builds an aerial mycelium and produces antibiotic compounds.
NCBI tax id
- NCBI tax id: 67350
- Matching level: species
strain history
| @ref | history |
|---|---|
| 9384 | <- E.B. Shirling, ISP <- N.A. Krassilnikov, RIA |
| 67770 | IFO 12904 <-- SAJ <-- ISP 5212 <-- RIA 742 <-- IMRU 3774. |
doi: 10.13145/bacdive15491.20230509.8.1
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 pseudovenezuelae
- full scientific name: Streptomyces pseudovenezuelae (Kuchaeva et al. 1961) Pridham 1970 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Actinomyces pseudovenezuelae
@ref: 9384
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces pseudovenezuelae
full scientific name: Streptomyces pseudovenezuelae (Kuchaeva et al. 1961) Pridham 1970 emend. Nouioui et al. 2018
variant: Isotype of BacDive ID 15817
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
colony morphology
| @ref | colony color | incubation period | medium used |
|---|---|---|---|
| 21382 | Safran yellow | 10-14 days | ISP 2 |
| 21382 | Maize yellow | 10-14 days | ISP 3 |
| 21382 | Golden yellow | 10-14 days | ISP 4 |
| 21382 | Perle copper | 10-14 days | ISP 5 |
| 21382 | Black brown | 10-14 days | ISP 7 |
multicellular morphology
| @ref | forms multicellular complex | complex name | complex color | medium name |
|---|---|---|---|---|
| 21382 | yes | Aerial Mycelium | Cream | ISP 2 |
| 21382 | yes | Aerial Mycelium | Signal white | ISP 3 |
| 21382 | no | ISP 4 | ||
| 21382 | no | ISP 5 | ||
| 21382 | no | ISP 7 |
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 9384 | 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 |
| 21382 | 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 | |
| 21382 | 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: | |
| 21382 | 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 | |
| 21382 | 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 | |
| 21382 | 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 |
|---|---|---|---|---|
| 9384 | positive | growth | 20 | psychrophilic |
| 67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 100 |
| 69480 | yes | 100 |
compound production
| @ref | compound |
|---|---|
| 9384 | chloramphenicol |
| 20216 | Chloramphenicol |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity |
|---|---|---|---|
| 21382 | 17234 | glucose | + |
| 21382 | 22599 | arabinose | + |
| 21382 | 17992 | sucrose | + |
| 21382 | 18222 | xylose | + |
| 21382 | 17268 | myo-inositol | + |
| 21382 | 37684 | mannose | + |
| 21382 | 28757 | fructose | + |
| 21382 | 26546 | rhamnose | + |
| 21382 | 16634 | raffinose | + |
| 21382 | 62968 | cellulose | - |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 68382 | alkaline phosphatase | + | 3.1.3.1 |
| 68382 | esterase (C 4) | - | |
| 68382 | esterase lipase (C 8) | - | |
| 68382 | lipase (C 14) | + | |
| 68382 | leucine arylamidase | + | 3.4.11.1 |
| 68382 | cystine arylamidase | - | 3.4.11.3 |
| 68382 | trypsin | - | 3.4.21.4 |
| 68382 | alpha-chymotrypsin | - | 3.4.21.1 |
| 68382 | acid phosphatase | + | 3.1.3.2 |
| 68382 | naphthol-AS-BI-phosphohydrolase | - | |
| 68382 | beta-galactosidase | + | 3.2.1.23 |
| 68382 | beta-glucuronidase | - | 3.2.1.31 |
| 68382 | alpha-glucosidase | + | 3.2.1.20 |
| 68382 | beta-glucosidase | + | 3.2.1.21 |
| 68382 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
| 68382 | alpha-mannosidase | + | 3.2.1.24 |
API zym
| @ref | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 21382 | + | - | - | + | + | - | - | - | + | - | + | - | + | + | + | + |
Safety information
risk assessment
- @ref: 9384
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Streptomyces pseudovenezuelae partial 16S rRNA gene, strain ISP 5212 | AJ399481 | 1450 | ena | 67350 |
| 20218 | Streptomyces pseudovenezuelae gene for 16S ribosomal RNA, partial sequence, strain: JCM 4405 | D44120 | 120 | ena | 67350 |
| 20218 | Streptomyces pseudovenezuelae gene for 16S rRNA, partial sequence, strain: NBRC 12904 | AB184233 | 1474 | ena | 67350 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Streptomyces pseudovenezuelae strain DSM 40212 | 67350.3 | wgs | patric | 67350 |
| 66792 | Streptomyces pseudovenezuelae DSM 40212 | 2775507094 | draft | img | 67350 |
| 67770 | Streptomyces pseudovenezuelae DSM 40212 | GCA_001513955 | scaffold | ncbi | 67350 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 67770 | 73.6 | thermal denaturation, midpoint method (Tm) |
| 67770 | 71 | genome sequence analysis |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| gram-positive | yes | 88.77 | no |
| anaerobic | no | 99.029 | no |
| halophile | no | 95.843 | no |
| spore-forming | yes | 94.686 | no |
| glucose-util | yes | 90.381 | yes |
| thermophile | no | 99.327 | no |
| flagellated | no | 97.617 | no |
| motile | no | 94.668 | no |
| aerobic | yes | 91.534 | no |
| glucose-ferment | no | 88.547 | no |
External links
@ref: 9384
culture collection no.: DSM 40212, ATCC 23951, CBS 934.68, IFO 12904, IMRU 3774, ISP 5212, KCC S-0405, NBRC 12904, RIA 1158, RIA 742, JCM 11516, BCRC 11487, CGMCC 4.1754, IMET 43512, JCM 4405, NRRL B-3623, VKM Ac-1199
straininfo link
- @ref: 84578
- straininfo: 44698
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 19502310 | Streptomyces plumbiresistens sp. nov., a lead-resistant actinomycete isolated from lead-polluted soil in north-west China. | Guo JK, Lin YB, Zhao ML, Sun R, Wang TT, Tang M, Wei GH | Int J Syst Evol Microbiol | 10.1099/ijs.0.004713-0 | 2009 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, *Drug Resistance, Bacterial, Genotype, Lead/*pharmacology, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Soil Pollutants/*pharmacology, Streptomyces/*classification/drug effects/genetics/isolation & purification | Genetics |
| Phylogeny | 25424909 | Streptomyces seymenliensis sp. nov., isolated from soil. | Tatar D, Sahin N | Antonie Van Leeuwenhoek | 10.1007/s10482-014-0339-5 | 2014 | Bacterial Typing Techniques, Base Composition, Carbohydrates/analysis, Cell Wall/chemistry, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Glycolipids/analysis, Lakes, Microscopy, Electron, Scanning, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/*isolation & purification, Turkey, Vitamin K 2/analysis | Genetics |
| Phylogeny | 27298302 | Streptomyces rhizosphaerihabitans sp. nov. and Streptomyces adustus sp. nov., isolated from bamboo forest soil. | Lee HJ, Whang KS | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001236 | 2016 | Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Forests, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sasa/*microbiology, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 9384 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40212) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-40212 | |||
| 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 | |||
| 20216 | Curators of the HKI | http://www.leibniz-hki.de/de/ | Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI) | |||
| 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 | |
| 21382 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM40212.pdf | Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig | |||
| 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) | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 68382 | Automatically annotated from API zym | |||||
| 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 | |||
| 84578 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID44698.1 | StrainInfo: A central database for resolving microbial strain identifiers |