Strain identifier
BacDive ID: 16056
Type strain: 
Species: Streptomyces torulosus
Strain history: KCC S-0872 <-- NRRL B-3889 <-- A. J. Lyons and T. G. Pridham S-124 (F-57).
NCBI tax ID(s): 68276 (species)
version 8.1 (current version)
General
@ref: 9751
BacDive-ID: 16056
DSM-Number: 40894
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic
description: Streptomyces torulosus DSM 40894 is a spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from soil.
NCBI tax id
- NCBI tax id: 68276
- Matching level: species
strain history
| @ref | history |
|---|---|
| 9751 | <- NRRL |
| 67770 | KCC S-0872 <-- NRRL B-3889 <-- A. J. Lyons and T. G. Pridham S-124 (F-57). |
doi: 10.13145/bacdive16056.20230509.8.1
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 torulosus
- full scientific name: Streptomyces torulosus Lyons and Pridham 1971 (Approved Lists 1980)
@ref: 9751
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces torulosus
full scientific name: Streptomyces torulosus Lyons and Pridham 1971
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | no | 92.826 | |
| 69480 | 100 | positive |
colony morphology
| @ref | colony color | incubation period | medium used |
|---|---|---|---|
| 18680 | Yellow | 10-14 days | ISP 2 |
| 18680 | Yellow | 10-14 days | ISP 3 |
| 18680 | Yellow | 10-14 days | ISP 4 |
| 18680 | Yellow | 10-14 days | ISP 5 |
| 18680 | Brown | 10-14 days | ISP 6 |
| 18680 | Brown | 10-14 days | ISP 7 |
multicellular morphology
| @ref | forms multicellular complex | complex name | complex color | medium name |
|---|---|---|---|---|
| 18680 | yes | Aerial Mycelium | White | ISP 2 |
| 18680 | yes | Aerial Mycelium | Grey | ISP 3 |
| 18680 | yes | Aerial Mycelium | Grey | ISP 4 |
| 18680 | yes | Aerial Mycelium | Grey | ISP 5 |
| 18680 | no | ISP 6 | ||
| 18680 | yes | Aerial Mycelium | Grey | ISP 7 |
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 9751 | 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 |
| 18680 | 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 | |
| 18680 | 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: | |
| 18680 | 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 | |
| 18680 | 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 | |
| 18680 | 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 | |
| 18680 | 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 | |
| 9751 | ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 9751 | positive | growth | 28 | mesophilic |
| 18680 | positive | optimum | 28 | mesophilic |
| 67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
| @ref | spore description | spore formation | confidence |
|---|---|---|---|
| 18680 | Formation of spore chains (spirales)(Sp), spore surface knobby | yes | |
| 69481 | yes | 100 | |
| 69480 | yes | 100 |
halophily
- @ref: 18680
- salt: NaCl
- growth: positive
- tested relation: maximum
- concentration: 2.5 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 18680 | 17234 | glucose | + | |
| 18680 | 22599 | arabinose | + | |
| 18680 | 17992 | sucrose | - | |
| 18680 | 18222 | xylose | + | |
| 18680 | 17268 | myo-inositol | + | |
| 18680 | 29864 | mannitol | + | |
| 18680 | 28757 | fructose | + | |
| 18680 | 26546 | rhamnose | - | |
| 18680 | 16634 | raffinose | + | |
| 18680 | 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 | yes |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 18680 | - | - | - | - | - | + | - | + | - | + | - |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 9751 | soil | ||||
| 67770 | Soil | IA | USA | USA | North America |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_2647.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_135;98_1456;99_2647&stattab=map
- Last taxonomy: Streptomyces
- 16S sequence: AJ781367
- Sequence Identity:
- Total samples: 412
- soil counts: 303
- aquatic counts: 18
- animal counts: 44
- plant counts: 47
Safety information
risk assessment
| @ref | biosafety level | biosafety level comment |
|---|---|---|
| 9751 | 1 | Risk group (German classification) |
| 18680 | 1 | German classification |
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Streptomyces torulosus strain CGMCC 4.1787 16S ribosomal RNA gene, partial sequence | JN566028 | 1381 | ena | 68276 |
| 20218 | Streptomyces torulosus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4872 | D44416 | 121 | ena | 68276 |
| 20218 | Streptomyces torulosus 16S rRNA gene, type strain LMG 20305 | AJ781367 | 1479 | ena | 68276 |
| 20218 | Streptomyces torulosus gene for 16S rRNA, partial sequence, strain: NBRC 15460 | AB184686 | 1468 | ena | 68276 |
Genome sequences
- @ref: 67770
- description: Streptomyces torulosus NRRL B-3889
- accession: GCA_001419765
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 68276
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| flagellated | no | 97.109 | no |
| gram-positive | yes | 86.705 | no |
| anaerobic | no | 99.205 | no |
| aerobic | yes | 93.329 | no |
| halophile | no | 93.718 | no |
| spore-forming | yes | 94.354 | no |
| thermophile | no | 98.44 | yes |
| glucose-util | yes | 89.421 | no |
| motile | no | 93.957 | no |
| glucose-ferment | no | 89.21 | no |
External links
@ref: 9751
culture collection no.: DSM 40894, ATCC 29340, CBS 801.71, DSM 41249, IMRU 3950, JCM 4872, NRRL B-3889, CGMCC 4.1787, IFM 1283, IFO 15460, LMG 20305, MTCC 1826, NBRC 15460
straininfo link
- @ref: 85129
- straininfo: 44822
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 25294726 | Streptomyces vulcanius sp. nov., a novel actinomycete isolated from volcanic sediment. | Jia F, Liu C, Zhao J, Zhang Y, Li L, Zhou S, Shen Y, Wang X, Xiang W | Antonie Van Leeuwenhoek | 10.1007/s10482-014-0299-9 | 2014 | Bacterial Typing Techniques, Carbohydrates/analysis, Cell Wall/chemistry, China, Chromatography, High Pressure Liquid, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Gas Chromatography-Mass Spectrometry, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/chemistry/*classification/genetics/*isolation & purification, Vitamin K 2/analysis | Genetics |
| Phylogeny | 29111972 | Streptomyces capitiformicae sp. nov., a novel actinomycete producing angucyclinone antibiotics isolated from the head of Camponotus japonicus Mayr. | Jiang S, Piao C, Yu Y, Cao P, Li C, Yang F, Li M, Xiang W, Liu C | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002468 | 2017 | Animals, Anthraquinones/*metabolism, Anti-Bacterial Agents/biosynthesis, Ants/*microbiology, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/isolation & purification | Transcriptome |
| Phylogeny | 33649903 | Streptomyces himalayensis sp. nov. including Streptomyces himalayensis subsp. himalayensis subsp. nov. and Streptomyces himalayensis subsp. aureolus subsp. nov. isolated from Western Himalaya. | Maiti PK, Mandal S | Arch Microbiol | 10.1007/s00203-021-02232-7 | 2021 | Bacterial Typing Techniques, Base Composition, DNA Gyrase/genetics, DNA, Bacterial/genetics, DNA-Directed RNA Polymerases/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Genome, Bacterial/genetics, Geologic Sediments/*microbiology, India, Multilocus Sequence Typing, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil Microbiology, Streptomyces/*classification/*genetics/isolation & purification | Genetics |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 9751 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40894) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-40894 | |||
| 18680 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM40894.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 | |
| 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 | |||
| 85129 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID44822.1 | StrainInfo: A central database for resolving microbial strain identifiers |