Strain identifier
BacDive ID: 16481
Type strain: 
Species: Streptomyces samsunensis
Strain Designation: M1463
Strain history: <- N. Sahin, Ondokuz Mayis Univ., Samsun, Turkey; M1463
NCBI tax ID(s): 459658 (species)
version 8.1 (current version)
General
@ref: 16791
BacDive-ID: 16481
DSM-Number: 42010
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Streptomyces samsunensis M1463 is a mesophilic bacterium that builds an aerial mycelium and was isolated from rhizosphere of Robinia pseudoacacia.
NCBI tax id
- NCBI tax id: 459658
- Matching level: species
strain history
- @ref: 16791
- history: <- N. Sahin, Ondokuz Mayis Univ., Samsun, Turkey; M1463
doi: 10.13145/bacdive16481.20230509.8.1
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 samsunensis
- full scientific name: Streptomyces samsunensis Sazak et al. 2011
@ref: 16791
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces samsunensis
full scientific name: Streptomyces samsunensis Sazak et al. 2011
strain designation: M1463
type strain: yes
Morphology
colony morphology
| @ref | incubation period | medium used | colony color |
|---|---|---|---|
| 21420 | 10-14 days | ISP 2 | |
| 21420 | 10-14 days | ISP 3 | |
| 21420 | 10-14 days | ISP 4 | |
| 21420 | 10-14 days | ISP 5 | |
| 21420 | 10-14 days | ISP 6 | Light ivory (1015) |
| 21420 | 10-14 days | ISP 7 | |
| 21420 | 10-14 days | Suter with tyrosine | |
| 21420 | 10-14 days | Suter without tyrosine |
multicellular morphology
| @ref | forms multicellular complex | complex name | complex color | medium name |
|---|---|---|---|---|
| 21420 | yes | Aerial Mycelium | Slate grey (7015)/ Stone grey (7030) | ISP 2 |
| 21420 | yes | Aerial Mycelium | Platinum grey (7036)/ Dusty grey (7037) | ISP 3 |
| 21420 | yes | Aerial Mycelium | Black grey (7021) /Telegrey 1(7045) | ISP 4 |
| 21420 | yes | Aerial Mycelium | Grey white (9002)/ Signal white (9003) | ISP 5 |
| 21420 | no | ISP 6 | ||
| 21420 | yes | Aerial Mycelium | Signal grey (7004)/ Telegrey 4 (7047) | ISP 7 |
| 21420 | yes | Aerial Mycelium | Signal white (9003) | Suter with tyrosine |
| 21420 | yes | Aerial Mycelium | Signal white (9003) | Suter without tyrosine |
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 16791 | 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 |
| 21420 | 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 | |
| 21420 | 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: | |
| 21420 | 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 | |
| 21420 | 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 | |
| 21420 | 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 | |
| 21420 | 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 | |
| 21420 | Suter with tyrosine | yes | Name: Synthetically suter medium (5337) with and without tyrosine - see Kutzner,H.J., R. M. Kroppensted and F. Korn-Wendisch. (1986) Composition: Glycerol 15.0 g/l Tyrosine 1.0 (optional, see preparation comment) L-arginine 5.0 g/l L-glutamic acid 5.0 g/l L-methionine 0.3 g/l L-isoleucine 0.3 g/l K2HPO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l Agar 20.0 g/l Trace element solution (5341) 1.0 ml Composition of Trace element solution (5341): CuSO4 x 5 H2O 10.0 g/l CaCl2 x 2 H2O 10.0 g/l FeSO4 x 7 H2O 10.0 g/l ZnSO4 x 7 H2O 10.0 g/l MnSO4 x 7 H2O 40.0 g/l Preparation: Control medium is prepared without tyrosine Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigment Organisms: All Actinomycetes | |
| 21420 | Suter without tyrosine | yes | Name: Synthetically suter medium (5337) with and without tyrosine - see Kutzner,H.J., R. M. Kroppensted and F. Korn-Wendisch. (1986) Composition: Glycerol 15.0 g/l Tyrosine 1.0 (optional, see preparation comment) L-arginine 5.0 g/l L-glutamic acid 5.0 g/l L-methionine 0.3 g/l L-isoleucine 0.3 g/l K2HPO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l Agar 20.0 g/l Trace element solution (5341) 1.0 ml Composition of Trace element solution (5341): CuSO4 x 5 H2O 10.0 g/l CaCl2 x 2 H2O 10.0 g/l FeSO4 x 7 H2O 10.0 g/l ZnSO4 x 7 H2O 10.0 g/l MnSO4 x 7 H2O 40.0 g/l Preparation: Control medium is prepared without tyrosine Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigment Organisms: All Actinomycetes |
culture temp
- @ref: 16791
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
halophily
- @ref: 21420
- salt: NaCl
- growth: positive
- tested relation: maximum
- concentration: 2.5 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 21420 | 17234 | glucose | + | |
| 21420 | 22599 | arabinose | + | |
| 21420 | 17992 | sucrose | + | |
| 21420 | 18222 | xylose | + | |
| 21420 | 17268 | myo-inositol | - | |
| 21420 | 37684 | mannose | + | |
| 21420 | 28757 | fructose | + | |
| 21420 | 26546 | rhamnose | + | |
| 21420 | 16634 | raffinose | + | |
| 21420 | 62968 | cellulose | - | |
| 68379 | 17632 | nitrate | - | reduction |
| 68379 | 4853 | esculin | + | hydrolysis |
| 68379 | 16199 | urea | + | hydrolysis |
| 68379 | 5291 | gelatin | + | hydrolysis |
| 68379 | 17634 | D-glucose | - | fermentation |
| 68379 | 16988 | D-ribose | - | fermentation |
| 68379 | 65327 | D-xylose | - | fermentation |
| 68379 | 16899 | D-mannitol | - | fermentation |
| 68379 | 17306 | maltose | - | fermentation |
| 68379 | 17716 | lactose | - | fermentation |
| 68379 | 17992 | sucrose | + | fermentation |
| 68379 | 28087 | glycogen | - | fermentation |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 68379 | gelatinase | + | |
| 68379 | urease | + | 3.5.1.5 |
| 68379 | beta-glucosidase | + | 3.2.1.21 |
| 68379 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
| 68379 | alpha-glucosidase | + | 3.2.1.20 |
| 68379 | beta-galactosidase | + | 3.2.1.23 |
| 68379 | beta-glucuronidase | - | 3.2.1.31 |
| 68379 | alkaline phosphatase | + | 3.1.3.1 |
| 68379 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
| 68379 | pyrazinamidase | - | 3.5.1.B15 |
| 68382 | alkaline phosphatase | + | 3.1.3.1 |
| 68382 | esterase (C 4) | + | |
| 68382 | lipase (C 14) | - | |
| 68382 | leucine arylamidase | + | 3.4.11.1 |
| 68382 | valine arylamidase | + | |
| 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 | alpha-galactosidase | + | 3.2.1.22 |
| 68382 | beta-galactosidase | + | 3.2.1.23 |
| 68382 | beta-glucuronidase | - | 3.2.1.31 |
| 68382 | alpha-glucosidase | + | 3.2.1.20 |
| 68382 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
| 68382 | alpha-fucosidase | - | 3.2.1.51 |
API coryne
| @ref | NIT | PYZ | PYRA | PAL | beta GUR | beta GAL | alpha GLU | beta NAG | ESC | URE | GEL | GLU | RIB | XYL | MAN | MAL | LAC | SAC | GLYG |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 21420 | - | - | - | + | - | + | + | + | + | + | + | - | - | - | - | - | - | + | - |
API zym
| @ref | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 21420 | + | + | +/- | - | + | + | +/- | + | + | + | + | + | + | - | + | +/- | + | +/- | - |
Isolation, sampling and environmental information
isolation
- @ref: 16791
- sample type: rhizosphere of Robinia pseudoacacia
- host species: Robinia pseudoacacia
- geographic location: Samsun, Ondokuz Mayis Univ. campus
- country: Turkey
- origin.country: TUR
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Tree |
| #Host Body-Site | #Plant | #Rhizosphere |
taxonmaps
- @ref: 69479
- File name: preview.99_4620.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_103;97_2792;98_3469;99_4620&stattab=map
- Last taxonomy: Streptomyces
- 16S sequence: EU077190
- Sequence Identity:
- Total samples: 461
- soil counts: 292
- aquatic counts: 46
- animal counts: 25
- plant counts: 98
Safety information
risk assessment
| @ref | biosafety level | biosafety level comment |
|---|---|---|
| 16791 | 1 | Risk group (German classification) |
| 21420 | L1 | German classification |
Sequence information
16S sequences
- @ref: 16791
- description: Streptomyces samsunensis strain M1463 16S ribosomal RNA gene, partial sequence
- accession: EU077190
- length: 1478
- database: ena
- NCBI tax ID: 459658
Genome sequences
- @ref: 66792
- description: Streptomyces samsunensis DSM 42010
- accession: GCA_024519315
- assembly level: contig
- database: ncbi
- NCBI tax ID: 459658
GC content
- @ref: 16791
- GC-content: 71.8
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 97.926 | no |
| gram-positive | yes | 88.668 | no |
| anaerobic | no | 99.238 | no |
| aerobic | yes | 90.972 | no |
| halophile | no | 89.849 | no |
| spore-forming | yes | 94.22 | no |
| motile | no | 93.287 | no |
| glucose-ferment | no | 90.478 | yes |
| thermophile | no | 98.689 | yes |
| glucose-util | yes | 90.461 | yes |
External links
@ref: 16791
culture collection no.: DSM 42010, NRRL B-24803
straininfo link
- @ref: 85516
- straininfo: 397642
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 20656824 | Streptomyces samsunensis sp. nov., a member of the Streptomyces violaceusniger clade isolated from the rhizosphere of Robinia pseudoacacia. | Sazak A, Sahin N, Guven K, Isik K, Goodfellow M | Int J Syst Evol Microbiol | 10.1099/ijs.0.021329-0 | 2010 | Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Robinia/growth & development, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/*isolation & purification | Genetics |
| Phylogeny | 26809052 | Antimicrobial compounds from endophytic Streptomyces sp. BCC72023 isolated from rice (Oryza sativa L.). | Supong K, Thawai C, Choowong W, Kittiwongwattana C, Thanaboripat D, Laosinwattana C, Koohakan P, Parinthawong N, Pittayakhajonwut P | Res Microbiol | 10.1016/j.resmic.2016.01.004 | 2016 | Anti-Infective Agents/*analysis, Antineoplastic Agents/analysis, Bacterial Typing Techniques, Biological Products/*analysis, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Endophytes/*chemistry, Oryza/*microbiology, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spectrum Analysis, Streptomyces/*chemistry/classification/genetics/isolation & purification | Transcriptome |
| Pathogenicity | 27554496 | Investigation on antimicrobial agents of the terrestrial Streptomyces sp. BCC71188. | Supong K, Sripreechasak P, Tanasupawat S, Danwisetkanjana K, Rachtawee P, Pittayakhajonwut P | Appl Microbiol Biotechnol | 10.1007/s00253-016-7804-1 | 2016 | Animals, Anti-Infective Agents/chemistry/isolation & purification/*metabolism, Bacillus cereus/drug effects, Biological Products/chemistry/isolation & purification/*metabolism, Cell Line, Cell Survival/drug effects, Cell Wall/chemistry, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Humans, Inhibitory Concentration 50, Microbial Sensitivity Tests, Microscopy, Mycobacterium tuberculosis/drug effects, Plasmodium falciparum/drug effects, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/classification/genetics/isolation & purification/*metabolism | Phylogeny |
| Phylogeny | 28260703 | Streptomyces cameroonensis sp. nov., a Geldanamycin Producer That Promotes Theobroma cacao Growth. | Boudjeko T, Tchinda RA, Zitouni M, Nana JA, Lerat S, Beaulieu C | Microbes Environ | 10.1264/jsme2.ME16095 | 2017 | Anti-Infective Agents/*metabolism, Antibiosis, Bacterial Typing Techniques, Benzoquinones/*metabolism, Cacao/*growth & development/*microbiology, Cameroon, Chromolaena/microbiology, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Lactams, Macrocyclic/*metabolism, Microscopy, Electron, Scanning, Nucleic Acid Hybridization, Phylogeny, Phytophthora/growth & development, Plant Growth Regulators/metabolism, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil Microbiology, Streptomyces/*classification/genetics/*isolation & purification/metabolism | Metabolism |
| Phylogeny | 28829023 | Streptomyces solisilvae sp. nov., isolated from tropical forest soil. | Zhou S, Yang X, Huang D, Huang X | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002166 | 2017 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, *Forests, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Tropical Climate | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 16791 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 42010) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-42010 | |
| 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 | |
| 21420 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM42010.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) | |
| 68379 | Automatically annotated from API Coryne | |||
| 68382 | Automatically annotated from API zym | |||
| 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 | |
| 85516 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID397642.1 | StrainInfo: A central database for resolving microbial strain identifiers |