Strain identifier
BacDive ID: 2499
Type strain: 
Species: Clostridium polyendosporum
Strain Designation: PS-1
Strain history: DSM 5272 <-- VKM B-1724 <-- V. I. Duda PS-1.
NCBI tax ID(s): 69208 (species)
version 8.1 (current version)
General
@ref: 1978
BacDive-ID: 2499
DSM-Number: 5272
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, Gram-positive
description: Clostridium polyendosporum PS-1 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from meadow-gley soil, rice field.
NCBI tax id
- NCBI tax id: 69208
- Matching level: species
strain history
| @ref | history |
|---|---|
| 1978 | <- VKM <- V.I. Duda, PS-1 |
| 67770 | DSM 5272 <-- VKM B-1724 <-- V. I. Duda PS-1. |
doi: 10.13145/bacdive2499.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Clostridiaceae
- genus: Clostridium
- species: Clostridium polyendosporum
- full scientific name: Clostridium polyendosporum (Duda et al. 1996) Rainey et al. 2016
synonyms
- @ref: 20215
- synonym: Anaerobacter polyendosporus
@ref: 1978
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium polyendosporum
full scientific name: Clostridium polyendosporum (Duda et al. 1996) Rainey et al. 2016
strain designation: PS-1
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 99.999
Culture and growth conditions
culture medium
- @ref: 1978
- name: ANAEROBACTER MEDIUM (DSMZ Medium 482)
- growth: yes
- link: https://mediadive.dsmz.de/medium/482
- composition: Name: ANAEROBACTER MEDIUM (DSMZ Medium 482) Composition: Sucrose 2.0 g/l NaHCO3 1.5 g/l Yeast extract 1.0 g/l KCl 0.33 g/l CaCl2 x 2 H2O 0.33 g/l MgCl2 x 6 H2O 0.33 g/l NH4Cl 0.33 g/l KH2PO4 0.33 g/l L-Cysteine HCl x H2O 0.3 g/l Na2S x 9 H2O 0.3 g/l HCl 0.0025 g/l FeCl2 x 4 H2O 0.0015 g/l Sodium resazurin 0.0005 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 4 H2O 0.0001 g/l ZnCl2 7e-05 g/l Na2MoO4 x 2 H2O 3.6e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l H3BO3 6e-06 g/l CuCl2 x 2 H2O 2e-06 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 1978 | positive | growth | 30 | mesophilic |
| 67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 1978 | anaerobe | |
| 69480 | anaerobe | 99.667 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 100 |
| 69480 | yes | 99.329 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent |
|---|---|---|---|---|
| 1978 | meadow-gley soil, rice field | Burma | MMR | Asia |
| 67770 | Meadow-gley soil under rice | Burma | MMR | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Agriculture | #Meadow |
| #Environmental | #Terrestrial | #Soil |
Safety information
risk assessment
- @ref: 1978
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 1978 | Anaerobacter polyendosporus 16S rRNA gene, partial, strain DSM 5272 | Y18189 | 1456 | ena | 69208 |
| 67770 | Anaerobacter polyendosporus 16S ribosomal RNA, partial | AJ222546 | 1500 | ena | 69208 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Clostridium polyendosporum JCM 30710 | GCA_018332455 | scaffold | ncbi | 69208 |
| 66792 | Clostridium polyendosporum strain JCM 30710 | 69208.3 | wgs | patric | 69208 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 1978 | 29.0 | |
| 67770 | 29 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| flagellated | no | 80.902 | no |
| gram-positive | yes | 81.972 | no |
| anaerobic | yes | 98.345 | yes |
| aerobic | no | 98.353 | yes |
| halophile | no | 93.231 | no |
| spore-forming | yes | 92.528 | no |
| thermophile | no | 92.292 | yes |
| glucose-util | yes | 89.57 | no |
| motile | no | 88.388 | no |
| glucose-ferment | yes | 55.921 | no |
External links
@ref: 1978
culture collection no.: DSM 5272, JCM 30710, VKM B-1724
straininfo link
- @ref: 72036
- straininfo: 47915
literature
| topic | Pubmed-ID | title | authors | journal | year | mesh |
|---|---|---|---|---|---|---|
| Metabolism | 25844469 | [transversion of cell polarity from Bi- to multipolarity is the mechanism determining multiple spore formation in Anaerobacter polyendosporus PS-1T]. | Duda VI, Suzina NE, Polivtseva VN, Gafarov AB, Shorokhova AP, Machulin AV | Mikrobiologiia | 2014 | Cell Division/*physiology, Cell Membrane/*metabolism/ultrastructure, Galactose/metabolism/*pharmacology, Gram-Positive Endospore-Forming Rods/*physiology/ultrastructure, Spores, Bacterial/growth & development |
| 27169242 | [Mechanisms of Forespore Formation during Polysporogenesis of an Anaerobic Bacterium Anaerobacter polyendosporus PST(T)]. | Duda VI, Suzina NE | Mikrobiologiia | 2015 | Anaerobiosis/physiology, Cell Division/physiology, Clostridium/*physiology/ultrastructure, Microscopy, Electron, Sporangia/*physiology/ultrastructure, Spores, Bacterial/*physiology/ultrastructure |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 1978 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5272) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-5272 | |
| 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) | |
| 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 | |
| 72036 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID47915.1 | StrainInfo: A central database for resolving microbial strain identifiers |