Strain identifier
BacDive ID: 5407
Type strain: 
Species: Acetobacterium paludosum
Strain Designation: Z-4092, Z-B12
Strain history: <- A. N. Nozhevnikova; Z-B12
NCBI tax ID(s): 52693 (species)
version 8.1 (current version)
General
@ref: 3214
BacDive-ID: 5407
DSM-Number: 8237
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, psychrophilic, Gram-positive
description: Acetobacterium paludosum Z-4092 is an anaerobe, psychrophilic, Gram-positive bacterium that was isolated from bog sediment.
NCBI tax id
- NCBI tax id: 52693
- Matching level: species
strain history
- @ref: 3214
- history: <- A. N. Nozhevnikova; Z-B12
doi: 10.13145/bacdive5407.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Eubacteriaceae
- genus: Acetobacterium
- species: Acetobacterium paludosum
- full scientific name: Acetobacterium paludosum Kotsyurbenko et al. 1997
@ref: 3214
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Eubacteriaceae
genus: Acetobacterium
species: Acetobacterium paludosum
full scientific name: Acetobacterium paludosum Kotsyurbenko et al. 1997
strain designation: Z-4092, Z-B12
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 99.719
Culture and growth conditions
culture medium
- @ref: 3214
- name: ACETOBACTERIUM FIMETARIUM MEDIUM (DSMZ Medium 614)
- growth: yes
- link: https://mediadive.dsmz.de/medium/614
- composition: Name: ACETOBACTERIUM FIMETARIUM MEDIUM (DSMZ Medium 614) Composition: D-Fructose 9.8912 g/l NaHCO3 0.98912 g/l Na2S x 9 H2O 0.692384 g/l MgCl2 x 6 H2O 0.514342 g/l Yeast extract 0.49456 g/l NH4Cl 0.326409 g/l KH2PO4 0.326409 g/l KCl 0.326409 g/l MgSO4 x 7 H2O 0.0296736 g/l Nitrilotriacetic acid 0.0148368 g/l NaCl 0.0098912 g/l MnSO4 x H2O 0.0049456 g/l ZnSO4 x 7 H2O 0.00178042 g/l CoSO4 x 7 H2O 0.00178042 g/l CaCl2 x 2 H2O 0.00098912 g/l FeSO4 x 7 H2O 0.00098912 g/l Sodium resazurin 0.00049456 g/l NiCl2 x 6 H2O 0.000296736 g/l AlK(SO4)2 x 12 H2O 0.000197824 g/l CuSO4 x 5 H2O 9.8912e-05 g/l H3BO3 9.8912e-05 g/l Na2MoO4 x 2 H2O 9.8912e-05 g/l Pyridoxine hydrochloride 9.8912e-05 g/l (DL)-alpha-Lipoic acid 4.9456e-05 g/l p-Aminobenzoic acid 4.9456e-05 g/l Calcium D-(+)-pantothenate 4.9456e-05 g/l Thiamine HCl 4.9456e-05 g/l Riboflavin 4.9456e-05 g/l Nicotinic acid 4.9456e-05 g/l Folic acid 1.97824e-05 g/l Biotin 1.97824e-05 g/l Na2WO4 x 2 H2O 3.95648e-06 g/l Na2SeO3 x 5 H2O 2.96736e-06 g/l Vitamin B12 9.8912e-07 g/l Distilled water
culture temp
- @ref: 3214
- growth: positive
- type: growth
- temperature: 20
- range: psychrophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 3214 | anaerobe | |
| 69480 | anaerobe | 100 |
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.648
Isolation, sampling and environmental information
isolation
- @ref: 3214
- sample type: bog sediment
- geographic location: near Moscow
- country: Russia
- origin.country: RUS
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Wetland (Swamp) |
| #Environmental | #Terrestrial | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_45343.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_30;96_1134;97_1330;98_32876;99_45343&stattab=map
- Last taxonomy: Acetobacterium paludosum
- 16S sequence: X96958
- Sequence Identity:
- Total samples: 63
- soil counts: 7
- aquatic counts: 49
- animal counts: 7
Safety information
risk assessment
- @ref: 3214
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 3214
- description: A.paludosum 16S rRNA gene
- accession: X96958
- length: 1459
- database: ena
- NCBI tax ID: 52693
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Acetobacterium paludosum DSM 8237 | GCA_008086595 | contig | ncbi | 52693 |
| 66792 | Acetobacterium paludosum strain DSM 8237 | 52693.4 | wgs | patric | 52693 |
GC content
- @ref: 3214
- GC-content: 41.7
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 65 | no |
| gram-positive | yes | 68.027 | no |
| anaerobic | yes | 99.229 | yes |
| halophile | no | 95.284 | no |
| spore-forming | yes | 53.834 | no |
| glucose-util | yes | 71.94 | no |
| thermophile | no | 98.27 | no |
| motile | yes | 74.775 | no |
| aerobic | no | 98.752 | yes |
| flagellated | no | 59.49 | no |
| glucose-ferment | yes | 52.939 | no |
External links
@ref: 3214
culture collection no.: DSM 8237
straininfo link
- @ref: 74897
- straininfo: 45320
literature
- topic: Genetics
- Pubmed-ID: 31573151
- title: Insights into the genome structure of four acetogenic bacteria with specific reference to the Wood-Ljungdahl pathway.
- authors: Esposito A, Tamburini S, Triboli L, Ambrosino L, Chiusano ML, Jousson O
- journal: Microbiologyopen
- DOI: 10.1002/mbo3.938
- year: 2019
- mesh: Acetates/*metabolism, Acetobacterium/*genetics/*metabolism, Carbon Dioxide/*metabolism, Cluster Analysis, *Genome, Bacterial, Genome-Wide Association Study, *Genomics/methods, *Metabolic Networks and Pathways, Multigene Family, Protein Interaction Mapping
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 3214 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 8237) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-8237 | |
| 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) | |
| 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) | |
| 74897 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID45320.1 | StrainInfo: A central database for resolving microbial strain identifiers |