Strain identifier
BacDive ID: 16484
Type strain:
Species: Streptomyces spongiae
Strain Designation: Sp080513SC-24
Strain history: <- T. Tamura, NBRC; NBRC 106415 <- S. T. Khan; Sp080513SC-24
NCBI tax ID(s): 565072 (species)
General
@ref: 17547
BacDive-ID: 16484
DSM-Number: 42031
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, Gram-positive
description: Streptomyces spongiae Sp080513SC-24 is a spore-forming, mesophilic, Gram-positive bacterium that was isolated from marine sponge, Haliclona sp..
NCBI tax id
- NCBI tax id: 565072
- Matching level: species
strain history
- @ref: 17547
- history: <- T. Tamura, NBRC; NBRC 106415 <- S. T. Khan; Sp080513SC-24
doi: 10.13145/bacdive16484.20230509.8.1
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 spongiae
- full scientific name: Streptomyces spongiae Khan et al. 2011
@ref: 17547
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces spongiae
full scientific name: Streptomyces spongiae Khan et al. 2011
strain designation: Sp080513SC-24
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 17547
- name: YEAST EXTRACT-STARCH AGAR(50% MARINE WATER) (DSMZ Medium 1274)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1274
- composition: Name: YEAST EXTRACT-STARCH AGAR (50% MARINE WATER) (DSMZ Medium 1274) Composition: Agar 15.0 g/l Starch 10.0 g/l Yeast extract 2.0 g/l Sea water Distilled water
culture temp
- @ref: 17547
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | yes | 100 |
69480 | yes | 100 |
Isolation, sampling and environmental information
isolation
- @ref: 17547
- sample type: marine sponge, Haliclona sp.
- host species: Haliclona
- geographic location: Chiba, Tateyama
- country: Japan
- origin.country: JPN
- continent: Asia
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Marine |
#Host | #Invertebrates (Other) | #Porifera (Sponges) |
Safety information
risk assessment
- @ref: 17547
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 17547
- description: Streptomyces spongiae gene for 16S rRNA, partial sequence
- accession: AB498741
- length: 1472
- database: ena
- NCBI tax ID: 565072
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Streptomyces spongiae NBRC 106415 | GCA_009377185 | contig | ncbi | 565072 |
66792 | Streptomyces spongiae strain NBRC 106415 | 565072.3 | wgs | patric | 565072 |
GC content
- @ref: 17547
- GC-content: 72
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 100 | no |
gram-positive | yes | 84.931 | no |
anaerobic | no | 98.888 | no |
halophile | no | 93.382 | no |
spore-forming | yes | 93.559 | no |
glucose-util | yes | 89.979 | no |
thermophile | no | 97.994 | no |
flagellated | no | 98.1 | no |
motile | no | 94.722 | no |
aerobic | yes | 92.953 | no |
glucose-ferment | no | 88.636 | no |
External links
@ref: 17547
culture collection no.: DSM 42031, NBRC 106415
straininfo link
- @ref: 85519
- straininfo: 404610
literature
- topic: Phylogeny
- Pubmed-ID: 32139879
- title: Streptomyces acidicola sp. nov., isolated from a peat swamp forest in Thailand.
- authors: Lipun K, Chantavorakit T, Mingma R, Duangmal K
- journal: J Antibiot (Tokyo)
- DOI: 10.1038/s41429-020-0294-5
- year: 2020
- mesh: Amino Acids, Diamino/genetics, Bacterial Typing Techniques/methods, Base Composition/genetics, DNA, Bacterial/genetics, Diaminopimelic Acid, Fatty Acids/genetics, Forests, Galactose/genetics, Glucose/genetics, Mannose/genetics, Nucleic Acid Hybridization/genetics, Phospholipids/genetics, Phylogeny, RNA, Ribosomal, 16S/genetics, Ribose/genetics, Soil, Soil Microbiology, Streptomyces/genetics/*isolation & purification, Thailand, Wetlands
- topic2: Enzymology
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
17547 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 42031) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-42031 | |
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 | |
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) | |
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 | |
85519 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID404610.1 | StrainInfo: A central database for resolving microbial strain identifiers |