Strain identifier
BacDive ID: 130722
Type strain: 
Species: Streptomyces smyrnaeus
Strain Designation: SM3501
Strain history: <- N. Sahin, Ondokuz Mayis University,Turkey; SM3501 <- D. Tatar
NCBI tax ID(s): 1387713 (species)
version 9.1 (current version)
General
@ref: 21955
BacDive-ID: 130722
DSM-Number: 42105
keywords: genome sequence, 16S sequence, Bacteria, spore-forming
description: Streptomyces smyrnaeus SM3501 is a spore-forming bacterium that was isolated from saltern pond sediment.
NCBI tax id
- NCBI tax id: 1387713
- Matching level: species
strain history
- @ref: 21955
- history: <- N. Sahin, Ondokuz Mayis University,Turkey; SM3501 <- D. Tatar
doi: 10.13145/bacdive130722.20240916.9.1
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 smyrnaeus
- full scientific name: Streptomyces smyrnaeus Tatar et al. 2014
@ref: 21955
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces smyrnaeus
full scientific name: Streptomyces smyrnaeus Tatar et al. 2014
strain designation: SM3501
type strain: yes
Morphology
multimedia
- @ref: 21955
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_42105.jpg
- caption: Medium 65 37°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 21955 | 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 |
| 21955 | ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) | yes | https://mediadive.dsmz.de/medium/84 | Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water |
culture temp
- @ref: 21955
- growth: positive
- type: growth
- temperature: 37
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | yes | 92.117 |
| 69481 | yes | 100 |
Isolation, sampling and environmental information
isolation
- @ref: 21955
- sample type: saltern pond sediment
- geographic location: Izmir, Camalti Saltern
- country: Turkey
- origin.country: TUR
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Pond (small) |
| #Environmental | #Aquatic | #Sediment |
| #Condition | #Saline |
Safety information
risk assessment
- @ref: 21955
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 21955
- description: Streptomyces smyrnaeus strain SM3501 16S ribosomal RNA gene, partial sequence
- accession: KF006349
- length: 1494
- database: nuccore
- NCBI tax ID: 1387713
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Streptomyces smyrnaeus DSM 42105 | GCA_017676345 | contig | ncbi | 1387713 |
| 66792 | Streptomyces smyrnaeus strain DSM 42105 | 1387713.3 | wgs | patric | 1387713 |
GC content
- @ref: 21955
- GC-content: 69.6
- method: fluorimetric
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 100 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 86.91 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 97.407 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 92.117 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 89.884 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 95.5 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 89 | no |
External links
@ref: 21955
culture collection no.: DSM 42105, KCTC 29214
straininfo link
- @ref: 89228
- straininfo: 400770
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 24944339 | Streptomyces iconiensis sp. nov. and Streptomyces smyrnaeus sp. nov., two halotolerant actinomycetes isolated from a salt lake and saltern. | Tatar D, Guven K, Sproer C, Klenk HP, Sahin N | Int J Syst Evol Microbiol | 10.1099/ijs.0.062216-0 | 2014 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geologic Sediments/microbiology, Lakes, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride, Streptomyces/*classification/genetics/isolation & purification, Turkey, Vitamin K 2/analogs & derivatives/chemistry, *Water Microbiology | Genetics |
| Metabolism | 25586021 | Streptomyces oryzae sp. nov., an endophytic actinomycete isolated from stems of rice plant. | Mingma R, Duangmal K, Thamchaipenet A, Trakulnaleamsai S, Matsumoto A, Takahashi Y | J Antibiot (Tokyo) | 10.1038/ja.2014.166 | 2015 | Cell Wall/metabolism, Crops, Agricultural/*microbiology, DNA, Bacterial/chemistry/metabolism, Diaminopimelic Acid/chemistry/metabolism, Fatty Acids/chemistry/metabolism, Hydroxylation, Mannosides/chemistry/metabolism, Microscopy, Electron, Scanning, Molecular Typing, Oryza/*microbiology, Phospholipids/chemistry/metabolism, Phylogeny, Plant Stems/*microbiology, Spores, Bacterial/physiology/ultrastructure, Stereoisomerism, Streptomyces/classification/growth & development/*isolation & purification/physiology, Terminology as Topic, Thailand, Vitamin K 2/analogs & derivatives/chemistry/metabolism | Phylogeny |
| Phylogeny | 34752211 | Streptomyces spirodelae sp. nov., isolated from duckweed. | Saimee Y, Duangmal K | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005106 | 2021 | *Araceae/microbiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Streptomyces/classification/isolation & purification, Thailand, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |
| 21955 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-42105 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 42105) | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |
| 89228 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID400770.1 |