Strain identifier
BacDive ID: 5409
Type strain: 
Species: Acetobacterium bakii
Strain Designation: Z-4391, Z-S11
Strain history: <- A. N. Nozhevnikova, Institute of Microbiology, Russ. Academy of Sciences, Moscow, Russia; Z-S11
NCBI tax ID(s): 52689 (species)
version 8.1 (current version)
General
@ref: 3216
BacDive-ID: 5409
DSM-Number: 8239
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, psychrophilic
description: Acetobacterium bakii Z-4391 is an anaerobe, psychrophilic bacterium that was isolated from anaerobic sediment, paper mill waste water polluted pond.
NCBI tax id
- NCBI tax id: 52689
- Matching level: species
strain history
- @ref: 3216
- history: <- A. N. Nozhevnikova, Institute of Microbiology, Russ. Academy of Sciences, Moscow, Russia; Z-S11
doi: 10.13145/bacdive5409.20230509.8.1
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 bakii
- full scientific name: Acetobacterium bakii Kotsyurbenko et al. 1997
@ref: 3216
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Eubacteriaceae
genus: Acetobacterium
species: Acetobacterium bakii
full scientific name: Acetobacterium bakii Kotsyurbenko et al. 1997
strain designation: Z-4391, Z-S11
type strain: yes
Culture and growth conditions
culture medium
- @ref: 3216
- name: ACETOBACTERIUM TUNDRAE MEDIUM (DSMZ Medium 900)
- growth: yes
- link: https://mediadive.dsmz.de/medium/900
- composition: Name: ACETOBACTERIUM TUNDRAE MEDIUM (DSMZ Medium 900) Composition: D-Fructose 4.99002 g/l Na2CO3 1.49701 g/l Yeast extract 0.998004 g/l MgCl2 x 6 H2O 0.518962 g/l KCl 0.329341 g/l NH4Cl 0.329341 g/l KH2PO4 0.329341 g/l CaCl2 x 2 H2O 0.299401 g/l Na2S x 9 H2O 0.299401 g/l L-Cysteine HCl x H2O 0.299401 g/l HCl 0.00249501 g/l FeCl2 x 4 H2O 0.00149701 g/l Sodium resazurin 0.000499002 g/l Pyridoxine hydrochloride 0.000299401 g/l Nicotinic acid 0.000199601 g/l Thiamine-HCl x 2 H2O 0.000199601 g/l CoCl2 x 6 H2O 0.000189621 g/l Calcium pantothenate 9.98004e-05 g/l MnCl2 x 4 H2O 9.98004e-05 g/l Vitamin B12 9.98004e-05 g/l p-Aminobenzoic acid 7.98403e-05 g/l ZnCl2 6.98603e-05 g/l Na2MoO4 x 2 H2O 3.59281e-05 g/l NiCl2 x 6 H2O 2.39521e-05 g/l D-(+)-biotin 1.99601e-05 g/l H3BO3 5.98802e-06 g/l CuCl2 x 2 H2O 1.99601e-06 g/l Distilled water
culture temp
- @ref: 3216
- growth: positive
- type: growth
- temperature: 20
- range: psychrophilic
Physiology and metabolism
oxygen tolerance
- @ref: 3216
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
- @ref: 3216
- sample type: anaerobic sediment, paper mill waste water polluted pond
- geographic location: Middle Ural, near Syktyvkar
- country: Russia
- origin.country: RUS
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Waste | #Industrial wastewater |
| #Environmental | #Aquatic | #Pond (small) |
| #Environmental | #Aquatic | #Sediment |
| #Condition | #Anoxic (anaerobic) |
taxonmaps
- @ref: 69479
- File name: preview.99_7249.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_30;96_1134;97_4158;98_5319;99_7249&stattab=map
- Last taxonomy: Acetobacterium bakii subclade
- 16S sequence: X96960
- Sequence Identity:
- Total samples: 2286
- soil counts: 837
- aquatic counts: 1219
- animal counts: 209
- plant counts: 21
Safety information
risk assessment
- @ref: 3216
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 3216
- description: A.bakii 16S rRNA gene
- accession: X96960
- length: 1459
- database: ena
- NCBI tax ID: 52689
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Acetobacterium bakii DSM 8239 | GCA_008086625 | contig | ncbi | 52689 |
| 66792 | Acetobacterium bakii DSM 8239 | GCA_001263355 | scaffold | ncbi | 52689 |
| 66792 | Acetobacterium bakii strain DSM 8239 | 52689.11 | wgs | patric | 52689 |
| 66792 | Acetobacterium bakii strain DSM 8239 | 52689.10 | wgs | patric | 52689 |
| 66792 | Acetobacterium bakii DSM 8239 | 2654587740 | draft | img | 52689 |
GC content
- @ref: 3216
- GC-content: 41.2
- method: sequence analysis
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | yes | 74.819 | no |
| flagellated | no | 51.303 | no |
| gram-positive | yes | 71.907 | no |
| anaerobic | yes | 98.965 | yes |
| aerobic | no | 97.518 | yes |
| halophile | no | 95.649 | no |
| spore-forming | yes | 56.345 | no |
| thermophile | no | 99.306 | no |
| glucose-util | yes | 73.364 | no |
| glucose-ferment | no | 52.29 | no |
External links
@ref: 3216
culture collection no.: DSM 8239
straininfo link
- @ref: 74899
- straininfo: 43182
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Genetics | 26404601 | Draft Genome Sequence of Acetobacterium bakii DSM 8239, a Potential Psychrophilic Chemical Producer through Syngas Fermentation. | Hwang S, Song Y, Cho BK | Genome Announc | 10.1128/genomeA.01070-15 | 2015 | ||
| Genetics | 31573151 | Insights into the genome structure of four acetogenic bacteria with specific reference to the Wood-Ljungdahl pathway. | Esposito A, Tamburini S, Triboli L, Ambrosino L, Chiusano ML, Jousson O | Microbiologyopen | 10.1002/mbo3.938 | 2019 | 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 | Metabolism |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 3216 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 8239) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-8239 | |||
| 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) | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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 | |||
| 74899 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID43182.1 | StrainInfo: A central database for resolving microbial strain identifiers |