Strain identifier
BacDive ID: 15458
Type strain: 
Species: Streptomyces parvus
Strain history: KCC S-0069 <-- H. Yonehara <-- MTHU <-- NRRL B-1255.
NCBI tax ID(s): 66428 (species)
version 9.1 (current version)
General
@ref: 9476
BacDive-ID: 15458
DSM-Number: 40348
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, Gram-positive, antibiotic compound production
description: Streptomyces parvus DSM 40348 is a spore-forming, Gram-positive bacterium that produces antibiotic compounds and was isolated from garden soil.
NCBI tax id
- NCBI tax id: 66428
- Matching level: species
strain history
| @ref | history |
|---|---|
| 9476 | <- E.B. Shirling, ISP <- S.A. Waksman, IMRU |
| 67770 | KCC S-0069 <-- H. Yonehara <-- MTHU <-- NRRL B-1255. |
doi: 10.13145/bacdive15458.20240916.9.1
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 parvus
- full scientific name: Streptomyces parvus (Krainsky 1914) Waksman and Henrici 1948 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Actinomyces parvus
@ref: 9476
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces parvus
full scientific name: Streptomyces parvus (Krainsky 1914) Waksman and Henrici 1948
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 92.016
multimedia
- @ref: 9476
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_40348.jpg
- caption: Medium 65 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 9476 | 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 |
| 9476 | ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf |
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 9476 | positive | growth | 28 |
| 67770 | positive | growth | 28 |
Physiology and metabolism
oxygen tolerance
- @ref: 69480
- oxygen tolerance: aerobe
- confidence: 90.612
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | yes | 92.169 |
| 69481 | yes | 100 |
compound production
- @ref: 9476
- compound: actinomycin C
Isolation, sampling and environmental information
isolation
- @ref: 9476
- sample type: garden soil
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Soil |
| #Engineered | #Agriculture | #Garden |
taxonmaps
- @ref: 69479
- File name: preview.99_135.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_120;99_135&stattab=map
- Last taxonomy: Streptomyces
- 16S sequence: DQ442537
- Sequence Identity:
- Total samples: 4030
- soil counts: 2441
- aquatic counts: 286
- animal counts: 1009
- plant counts: 294
Safety information
risk assessment
- @ref: 9476
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Streptomyces parvus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4069 | D43998 | 120 | nuccore | 66428 |
| 20218 | Streptomyces parvus gene for 16S rRNA, partial sequence, strain: NBRC 14599 | AB184603 | 1458 | nuccore | 66428 |
| 20218 | Streptomyces parvus gene for 16S rRNA, partial sequence, strain: NBRC 3388 | AB184756 | 1478 | nuccore | 66428 |
| 20218 | Streptomyces parvus strain NRRL B-1455T 16S ribosomal RNA gene, partial sequence | DQ442537 | 1493 | nuccore | 66428 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Streptomyces parvus JCM 4069 | GCA_014648875 | scaffold | ncbi | 66428 |
| 66792 | Streptomyces parvus strain JCM 4069 | 66428.6 | wgs | patric | 66428 |
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 | 92.016 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 97.395 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 90.612 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 92.169 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 96.491 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 88 | no |
External links
@ref: 9476
culture collection no.: DSM 40348, ATCC 12433, CBS 427.61, ETH 12647, IMRU 3686, ISP 5348, NRRL B-1455, JCM 4069, BCRC 15148, CGMCC 4.0610, HAMBI 1018, HUT 6062, IFO 14599, IFO 3388, KCTC 19057, MTCC 322, NBRC 14599, NBRC 3388, NCIMB 9608, NRRL B-1255, RIA 610, VKM Ac-725
straininfo link
- @ref: 84546
- straininfo: 389291
literature
- Pubmed-ID: 34804423
- title: Potential secondary metabolite from Indonesian Actinobacteria (InaCC A758) against Mycobacterium tuberculosis.
- authors: Rakhmawatie MD, Wibawa T, Lisdiyanti P, Pratiwi WR, Damayanti E, Mustofa
- journal: Iran J Basic Med Sci
- DOI: 10.22038/ijbms.2021.56468.12601
- year: 2021
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 9476 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40348) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-40348 | |||
| 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/ | ||||
| 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 | |||
| 84546 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID389291.1 | StrainInfo: A central database for resolving microbial strain identifiers |