Strain identifier

BacDive ID: 5407

Type strain: Yes

Species: Acetobacterium paludosum

Strain Designation: Z-4092, Z-B12

Strain history: <- A. N. Nozhevnikova, Russian Academy of Sciences, Inst. of Microbiology, Moscow, Russia; Z-B12

NCBI tax ID(s): 52693 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 3214

BacDive-ID: 5407

DSM-Number: 8237

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, psychrophilic

description: Acetobacterium paludosum Z-4092 is an anaerobe, psychrophilic 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, Russian Academy of Sciences, Inst. of Microbiology, Moscow, Russia; Z-B12

doi: 10.13145/bacdive5407.20241212.9.2

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

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

Physiology and metabolism

oxygen tolerance

  • @ref: 3214
  • oxygen tolerance: anaerobe

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

Cat1Cat2Cat3
#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: nuccore
  • NCBI tax ID: 52693

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Acetobacterium paludosum DSM 8237GCA_008086595contigncbi52693
66792Acetobacterium paludosum strain DSM 823752693.4wgspatric52693

GC content

  • @ref: 3214
  • GC-content: 41.7

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno65no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes60.375no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)yes86.902yes
69480spore-formingspore-formingAbility to form endo- or exosporesyes53.03no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no91.992no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno84.825yes
69480flagellatedmotile2+Ability to perform flagellated movementyes65.277no

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

@idauthorscataloguedoi/urltitle
3214Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 8237)https://www.dsmz.de/collection/catalogue/details/culture/DSM-8237
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69479João 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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
74897Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID45320.1StrainInfo: A central database for resolving microbial strain identifiers