Strain identifier
BacDive ID: 16101
Type strain:
Species: Streptomyces violarus
Strain history: KCC S-0534 <-- IFO 13104 <-- SAJ <-- ISP 5205 <-- INMI 1212.
NCBI tax ID(s): 67380 (species)
General
@ref: 9378
BacDive-ID: 16101
DSM-Number: 40205
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, Gram-positive, antibiotic compound production
description: Streptomyces violarus DSM 40205 is a spore-forming, mesophilic, Gram-positive bacterium that produces antibiotic compounds and was isolated from soil.
NCBI tax id
- NCBI tax id: 67380
- Matching level: species
strain history
@ref | history |
---|---|
9378 | <- E.B. Shirling, ISP <- N.A. Krassilnikov, INMI |
67770 | KCC S-0534 <-- IFO 13104 <-- SAJ <-- ISP 5205 <-- INMI 1212. |
doi: 10.13145/bacdive16101.20230509.8.1
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 violarus
- full scientific name: Streptomyces violarus (Artamonova and Krassilnikov 1960) Pridham 1970 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Actinomyces violarus
@ref: 9378
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces violarus
full scientific name: Streptomyces violarus (Artamonova and Krassilnikov 1960) Pridham 1970
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 9378
- 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 |
---|---|---|---|---|
9378 | 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 |
---|---|
9378 | antibiotic 12-12 |
9378 | antibiotic 452-7 |
9378 | rhodomycine |
9378 | violarin B |
Isolation, sampling and environmental information
isolation
@ref | sample type |
---|---|
9378 | soil |
67770 | Soil |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Safety information
risk assessment
- @ref: 9378
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Streptomyces violarus partial 16S rRNA gene, strain ISP 5205 | AJ399477 | 1447 | ena | 67380 |
20218 | Streptomyces violarus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4534 | D44219 | 120 | ena | 67380 |
20218 | Streptomyces violarus gene for 16S rRNA, partial sequence, strain: NBRC 13104 | AB184316 | 1474 | ena | 67380 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Streptomyces violarus CECT 3237 | GCA_014191845 | scaffold | ncbi | 67380 |
66792 | Streptomyces violarus JCM 4534 | GCA_014650255 | scaffold | ncbi | 67380 |
66792 | Streptomyces violarus strain CECT 3237 | 67380.3 | wgs | patric | 67380 |
66792 | Streptomyces violarus strain JCM 4534 | 67380.4 | wgs | patric | 67380 |
66792 | Streptomyces violarus CECT 3237 | 2824309123 | draft | img | 67380 |
GC content
- @ref: 67770
- GC-content: 74.7
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 100 | no |
flagellated | no | 97.477 | no |
gram-positive | yes | 88.49 | no |
anaerobic | no | 99.108 | no |
aerobic | yes | 92.882 | no |
halophile | no | 93.155 | no |
spore-forming | yes | 94.664 | no |
glucose-util | yes | 90.142 | no |
thermophile | no | 98.471 | yes |
motile | no | 92.729 | no |
glucose-ferment | no | 89.787 | no |
External links
@ref: 9378
culture collection no.: DSM 40205, ATCC 15891, ATCC 25516, CBS 658.69, IFO 13104, ISP 5205, JCM 4534, KCC S-0534, KCTC 9788, NBRC 13104, NRRL B-5432, RIA 1296, RIA 157, VKM Ac-528, NIHJ 493, BCRC 13791, CCT 5007, CECT 3237, CGMCC 4.1772, INMI 1212
straininfo link
- @ref: 85167
- straininfo: 83034
literature
- topic: Pathogenicity
- Pubmed-ID: 29457331
- title: A strain of Streptomyces sp. isolated from rhizospheric soil of Crataegus oxycantha producing nalidixic acid, a synthetic antibiotic.
- authors: Arora N, Kumar S, Satti NK, Ali A, Gupta P, Katoch M
- journal: J Appl Microbiol
- DOI: 10.1111/jam.13736
- year: 2018
- mesh: Anti-Bacterial Agents/*biosynthesis/chemistry/pharmacology, Cell Line, Transformed, Cell Survival/drug effects, Crataegus/*growth & development, Escherichia coli/drug effects, Humans, Nalidixic Acid/chemistry/*metabolism/pharmacology, Phylogeny, Plant Extracts, Pseudomonas aeruginosa/drug effects, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Streptomyces/classification/genetics/*isolation & purification/*metabolism
- topic2: Phylogeny
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
9378 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40205) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-40205 | |||
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 | |||
85167 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID83034.1 | StrainInfo: A central database for resolving microbial strain identifiers |