Strain identifier
BacDive ID: 15398
Type strain: 
Species: Streptomyces noboritoensis
Strain Designation: KITA V-1179
Strain history: KCC S-0398 <-- IFO 12890 <-- SAJ <-- ISP 5192 <-- Y. Yagisawa <-- T. Hata KITA V-1179.
NCBI tax ID(s): 67326 (species)
version 8.1 (current version)
General
@ref: 9254
BacDive-ID: 15398
DSM-Number: 40192
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, antibiotic compound production
description: Streptomyces noboritoensis KITA V-1179 is a spore-forming, mesophilic bacterium that produces antibiotic compounds and was isolated from soil.
NCBI tax id
- NCBI tax id: 67326
- Matching level: species
strain history
| @ref | history |
|---|---|
| 9254 | <- E.B. Shirling, ISP <- Y. Yagisawa <- T. Hata, KITA, V-1179 |
| 67770 | KCC S-0398 <-- IFO 12890 <-- SAJ <-- ISP 5192 <-- Y. Yagisawa <-- T. Hata KITA V-1179. |
doi: 10.13145/bacdive15398.20230509.8.1
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 noboritoensis
- full scientific name: Streptomyces noboritoensis Isono et al. 1957 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Streptomyces melanogenes
@ref: 9254
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces noboritoensis
full scientific name: Streptomyces noboritoensis Isono et al. 1957 emend. Idris et al. 2017
strain designation: KITA V-1179
type strain: no
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | no | 92.066 | |
| 69480 | 100 | positive |
Culture and growth conditions
culture medium
- @ref: 9254
- name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
- growth: yes
- link: https://mediadive.dsmz.de/medium/65
- composition: 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
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 9254 | positive | growth | 28 | mesophilic |
| 67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 98 |
| 69480 | yes | 100 |
compound production
| @ref | compound |
|---|---|
| 9254 | melanomycin |
| 67770 | Melanomycin |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 9254 | soil | Tokyo, Komaba | Japan | JPN | Asia |
| 67770 | Soil | Komaba, Tokyo | Japan | JPN | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Safety information
risk assessment
- @ref: 9254
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Streptomyces melanogenes gene for 16S ribosomal RNA, partial sequence, strain: JCM 4398 | D44113 | 120 | ena | 67326 |
| 20218 | Streptomyces melanogenes gene for 16S rRNA, partial sequence, strain: NBRC 12890 | AB184222 | 1475 | ena | 67326 |
| 20218 | Streptomyces melanogenes strain NRRL B-2072T 16S ribosomal RNA gene, partial sequence | DQ442527 | 1528 | ena | 67326 |
| 9254 | Streptomyces melanogenes strain NBRC 12890 16S ribosomal RNA, partial sequence | NR_041089 | 1475 | nuccore | 67326 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Streptomyces melanogenes JCM 4398 | GCA_014649795 | scaffold | ncbi | 67326 |
| 66792 | Streptomyces melanogenes strain JCM 4398 | 67326.3 | wgs | patric | 67326 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 98 | no |
| flagellated | no | 97.34 | no |
| gram-positive | yes | 88.398 | no |
| anaerobic | no | 99.255 | no |
| aerobic | yes | 89.124 | no |
| halophile | no | 94.036 | no |
| spore-forming | yes | 94.543 | no |
| glucose-util | yes | 90.162 | no |
| thermophile | no | 98.944 | yes |
| motile | no | 90.929 | no |
| glucose-ferment | no | 87.545 | no |
External links
@ref: 9254
culture collection no.: DSM 40192, ATCC 23937, CBS 921.68, IFO 12890, ISP 5192, JCM 4398, NBRC 12890, NRRL B-2072, RIA 1146, BCRC 12053, CGMCC 4.1979, NCIMB 9835
straininfo link
- @ref: 84487
- straininfo: 389364
literature
- topic: Phylogeny
- Pubmed-ID: 20693357
- title: Streptomyces sanyensis sp. nov., isolated from mangrove sediment.
- authors: Sui JL, Xu XX, Qu Z, Wang HL, Lin HP, Xie QY, Ruan JS, Hong K
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.023515-0
- year: 2010
- mesh: Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 9254 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40192) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-40192 | |||
| 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 | |
| 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) | |||
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 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 | |||
| 84487 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID389364.1 | StrainInfo: A central database for resolving microbial strain identifiers |