Strain identifier
BacDive ID: 16623
Type strain: 
Species: Sphaerisporangium cinnabarinum
Strain Designation: Chas Pfizer Inc. SS 1405
Strain history: KCC A-0291 <-- ATCC 31213 <-- Chas. Pfizer & Co.; FD 25488.
NCBI tax ID(s): 47482 (species)
version 9.1 (current version)
General
@ref: 11479
BacDive-ID: 16623
DSM-Number: 44094
keywords: genome sequence, 16S sequence, Bacteria, antibiotic compound production
description: Sphaerisporangium cinnabarinum Chas Pfizer Inc. SS 1405 is a bacterium that produces antibiotic compounds and was isolated from soil.
NCBI tax id
- NCBI tax id: 47482
- Matching level: species
strain history
| @ref | history |
|---|---|
| 11479 | <- JCM <- KCC <- ATCC <- Chas. Pfizer & Co., FD 25488 (Streptosporangium cinnabarinum) |
| 67770 | KCC A-0291 <-- ATCC 31213 <-- Chas. Pfizer & Co.; FD 25488. |
doi: 10.13145/bacdive16623.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Streptosporangiales
- family: Streptosporangiaceae
- genus: Sphaerisporangium
- species: Sphaerisporangium cinnabarinum
- full scientific name: Sphaerisporangium cinnabarinum corrig. Ara and Kudo 2007
synonyms
- @ref: 20215
- synonym: Sphaerosporangium cinnabarinum
@ref: 11479
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptosporangiaceae
genus: Sphaerisporangium
species: Sphaerisporangium cinnabarinum
full scientific name: Sphaerisporangium cinnabarinum Ara and Kudo 2007
strain designation: Chas Pfizer Inc. SS 1405
type strain: yes
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 11479 | STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) | yes | https://mediadive.dsmz.de/medium/252 | Name: STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) Composition: Agar 14.985 g/l Starch 9.99001 g/l (NH4)2SO4 1.998 g/l CaCO3 1.998 g/l K2HPO4 0.999001 g/l MgSO4 x 7 H2O 0.999001 g/l NaCl 0.999001 g/l FeSO4 x 7 H2O 0.000999001 g/l MnCl2 x 4 H2O 0.000999001 g/l ZnSO4 x 7 H2O 0.000999001 g/l Distilled water |
| 11479 | N-Z-AMINE-MEDIUM (DSMZ Medium 554) | yes | https://mediadive.dsmz.de/medium/554 | Name: N-Z-AMINE-MEDIUM (DSMZ Medium 554) Composition: Starch 20.0 g/l Agar 20.0 g/l Glucose 10.0 g/l N-Z amine 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water |
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 11479 | positive | growth | 28 |
| 67770 | positive | growth | 28 |
Physiology and metabolism
compound production
| @ref | compound |
|---|---|
| 11479 | antibiotics 43334 and 43596 |
| 11479 | antibiotic 43.596 |
| 67770 | Antibiotics 43,334 and 43,596 |
observation
- @ref: 67770
- observation: quinones: MK-9(H4), MK-9(H6), MK-9(H2)
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent |
|---|---|---|---|---|
| 11479 | soil | Philippines | PHL | Asia |
| 67770 | Soil | Philippines | PHL | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Safety information
risk assessment
- @ref: 11479
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 11479
- description: S.cinnabarium DNA for 16S ribosomal RNA gene
- accession: X89939
- length: 1448
- database: nuccore
- NCBI tax ID: 47482
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Sphaerisporangium cinnabarinum strain ATCC 31213 | 47482.4 | wgs | patric | 47482 |
| 66792 | Sphaerisporangium cinnabarinum FD25488, DSM 44094 | 2516653028 | draft | img | 47482 |
| 67770 | Sphaerisporangium cinnabarinum ATCC 31213 | GCA_003052455 | scaffold | ncbi | 47482 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 11479 | 70 | |
| 67770 | 70 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 89.975 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 90.37 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 54.298 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 75.686 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 97 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 69 | no |
External links
@ref: 11479
culture collection no.: DSM 44094, ATCC 31213, JCM 3291, KCC A-0291, BCC 36480, BCRC 13396, CGMCC 4.5522, IMSNU 22115, TBRC 572, VKM Ac-1995
straininfo link
- @ref: 85644
- straininfo: 39943
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 24363300 | Sphaerisporangium rufum sp. nov., an endophytic actinomycete from roots of Oryza sativa L. | Mingma R, Duangmal K, Trakulnaleamsai S, Thamchaipenet A, Matsumoto A, Takahashi Y | Int J Syst Evol Microbiol | 10.1099/ijs.0.057885-0 | 2013 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Oryza/*microbiology, Phospholipids/chemistry, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
| Phylogeny | 25294725 | Sphaerisporangium dianthi sp. nov., an endophytic actinomycete isolated from a root of Dianthus chinensis L. | Xing J, Liu C, Zhang Y, He H, Zhou Y, Li L, Zhao J, Liu S, Wang X, Xiang W | Antonie Van Leeuwenhoek | 10.1007/s10482-014-0298-x | 2014 | Actinobacteria/*classification/genetics/*isolation & purification, Bacterial Typing Techniques, Carbohydrates/analysis, Cell Wall/chemistry, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Dianthus/*microbiology, Endophytes/*classification/genetics/*isolation & purification, Fatty Acids/analysis, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phylogeny, Plant Roots/microbiology, Plants, Medicinal/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analysis | Enzymology |
| Phylogeny | 25963939 | Sphaerisporangium corydalis sp. nov., isolated from the root of Corydalis yanhusuo L. | Wang X, Liu C, Cheng J, Zhang Y, Ma Z, Li L, Wang X, Xiang W | Antonie Van Leeuwenhoek | 10.1007/s10482-015-0471-x | 2015 | Actinobacteria/*classification/genetics/*isolation & purification/physiology, Aerobiosis, Cell Wall/chemistry, China, Cluster Analysis, Corydalis/*microbiology, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phospholipids/analysis, Phylogeny, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analysis | Genetics |
| Genetics | 29798930 | High-Quality Draft Genome Sequence of Sphaerisporangium cinnabarinum ATCC 31213. | Christensen LFB, Otzen D, Dueholm MS | Genome Announc | 10.1128/genomeA.00456-18 | 2018 | ||
| Phylogeny | 30010529 | Sphaerisporangium rhizosphaerae sp. nov., an actinomycete isolated from the rhizosphere soil of a rubber tree (Hevea brasiliensis Muell. Arg). | Mu S, Zhao Q, Zhao J, Cao T, Zhao X, Guo X, Li Y, Xiang W, Wang X | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002912 | 2018 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Hevea/*microbiology, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 11479 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44094) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-44094 | |
| 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) | |
| 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) | |
| 85644 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID39943.1 | StrainInfo: A central database for resolving microbial strain identifiers |