Strain identifier
BacDive ID: 16131
Type strain: 
Species: Streptomyces xanthophaeus
Strain Designation: Wüst 70
Strain history: KCC S-0426 <-- IFO 12829 <-- SAJ <-- ISP 5134 <-- P. Wilde Wüst 70.
NCBI tax ID(s): 67385 (species)
version 8.1 (current version)
General
@ref: 9336
BacDive-ID: 16131
DSM-Number: 40134
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, antibiotic compound production
description: Streptomyces xanthophaeus Wüst 70 is a spore-forming, mesophilic bacterium that produces antibiotic compounds and was isolated from soil.
NCBI tax id
- NCBI tax id: 67385
- Matching level: species
strain history
| @ref | history |
|---|---|
| 9336 | <- E.B. Shirling, ISP <- P. Wilde, Wüst 70 |
| 67770 | KCC S-0426 <-- IFO 12829 <-- SAJ <-- ISP 5134 <-- P. Wilde Wüst 70. |
doi: 10.13145/bacdive16131.20230509.8.1
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 xanthophaeus
- full scientific name: Streptomyces xanthophaeus Lindenbein 1952 (Approved Lists 1980)
@ref: 9336
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces xanthophaeus
full scientific name: Streptomyces xanthophaeus Lindenbein 1952 emend. Nouioui et al. 2018
strain designation: Wüst 70
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | no | 91.147 | |
| 69480 | 100 | positive |
Culture and growth conditions
culture medium
- @ref: 9336
- 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 |
|---|---|---|---|---|
| 9336 | positive | growth | 28 | mesophilic |
| 67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 100 |
| 69480 | yes | 100 |
compound production
| @ref | compound |
|---|---|
| 9336 | geomycin |
| 20216 | Geomycin |
metabolite production
- @ref: 67770
- metabolite: geomycin
- production: yes
Isolation, sampling and environmental information
isolation
- @ref: 9336
- sample type: soil
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_163.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_144;99_163&stattab=map
- Last taxonomy: Streptomyces
- 16S sequence: AB184177
- Sequence Identity:
- Total samples: 26399
- soil counts: 19336
- aquatic counts: 1680
- animal counts: 1702
- plant counts: 3681
Safety information
risk assessment
- @ref: 9336
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Streptomyces xanthophaeus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4426 | D44138 | 120 | ena | 67385 |
| 20218 | Streptomyces xanthophaeus gene for 16S rRNA, partial sequence, strain: NBRC 12829 | AB184177 | 1460 | ena | 67385 |
| 20218 | Streptomyces xanthophaeus strain NRRL B-5414T 16S ribosomal RNA gene, partial sequence | DQ442560 | 1483 | ena | 67385 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Streptomyces xanthophaeus NBRC 12829 | GCA_016755895 | contig | ncbi | 67385 |
| 66792 | Streptomyces xanthophaeus strain NBRC 12829 | 67385.7 | wgs | patric | 67385 |
| 67770 | Streptomyces xanthophaeus NRRL B-5414 | GCA_000725805 | scaffold | ncbi | 67385 |
GC content
- @ref: 67770
- GC-content: 72.1
- method: genome sequence analysis
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| gram-positive | yes | 87.587 | no |
| anaerobic | no | 99.002 | no |
| halophile | no | 92.555 | no |
| spore-forming | yes | 95.239 | no |
| glucose-util | yes | 89.566 | no |
| thermophile | no | 99.255 | no |
| flagellated | no | 98.126 | no |
| motile | no | 93.884 | no |
| aerobic | yes | 86.389 | no |
| glucose-ferment | no | 88.935 | no |
External links
@ref: 9336
culture collection no.: DSM 40134, ATCC 19819, CBS 572.68, IFO 12829, ISP 5134, JCM 4426, NBRC 12829, RIA 1099, BCRC 13756, CGMCC 4.1931, KCTC 9220, NRRL B-5414, VKM Ac-1205, VKM Ac-1823
straininfo link
- @ref: 85196
- straininfo: 389274
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 9336 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40134) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-40134 | |||
| 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 | |||
| 20216 | Curators of the HKI | http://www.leibniz-hki.de/de/ | Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI) | |||
| 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/ | ||||
| 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 | |||
| 85196 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID389274.1 | StrainInfo: A central database for resolving microbial strain identifiers |