Strain identifier
BacDive ID: 2793
Type strain: 
Species: Clostridium gasigenes
Strain Designation: DB1A
Strain history: <- D. M. Broda, University of Waikato, Hamilton, New Zealand; DB1A <- D. M. Broda {1993}
NCBI tax ID(s): 1121314 (strain), 94869 (species)
version 8.1 (current version)
General
@ref: 4666
BacDive-ID: 2793
DSM-Number: 12272
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, psychrophilic
description: Clostridium gasigenes DB1A is an anaerobe, psychrophilic bacterium that was isolated from vakuum-packed chilled lamb.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1121314 | strain |
| 94869 | species |
strain history
- @ref: 4666
- history: <- D. M. Broda, University of Waikato, Hamilton, New Zealand; DB1A <- D. M. Broda {1993}
doi: 10.13145/bacdive2793.20230509.8.1
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 gasigenes
- full scientific name: Clostridium gasigenes Broda et al. 2000
@ref: 4666
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium gasigenes
full scientific name: Clostridium gasigenes Broda et al. 2000
strain designation: DB1A
type strain: yes
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 4666 | PY + X MEDIUM (DSMZ Medium 104b) | yes | https://mediadive.dsmz.de/medium/104b | Name: PY + X MEDIUM (DSMZ Medium 104b) Composition: Yeast extract 10.0 g/l D-Glucose 5.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Sodium resazurin 0.0005 g/l Distilled water |
| 4666 | CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) | yes | https://mediadive.dsmz.de/medium/110 | Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water |
culture temp
- @ref: 4666
- growth: positive
- type: growth
- temperature: 20
- range: psychrophilic
Physiology and metabolism
oxygen tolerance
- @ref: 4666
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
- @ref: 4666
- sample type: vakuum-packed chilled lamb
- country: New Zealand
- origin.country: NZL
- continent: Australia and Oceania
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Food production | #Bottled, canned, packed food |
| #Engineered | #Food production | #Meat |
taxonmaps
- @ref: 69479
- File name: preview.99_79927.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_7312;97_8773;98_10755;99_79927&stattab=map
- Last taxonomy: Clostridium gasigenes subclade
- 16S sequence: AF092548
- Sequence Identity:
- Total samples: 2661
- soil counts: 729
- aquatic counts: 865
- animal counts: 975
- plant counts: 92
Safety information
risk assessment
- @ref: 4666
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 4666
- description: Clostridium gasigenes 16S ribosomal RNA gene, partial sequence
- accession: AF092548
- length: 1483
- database: ena
- NCBI tax ID: 94869
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Clostridium gasigenes DSM 12272 | GCA_900104115 | scaffold | ncbi | 94869 |
| 66792 | Clostridium gasigenes strain DSM 12272 | 94869.18 | wgs | patric | 94869 |
| 66792 | Clostridium gasigenes DSM 12272 | 2634166322 | draft | img | 1121314 |
External links
@ref: 4666
culture collection no.: DSM 12272
straininfo link
- @ref: 72320
- straininfo: 49264
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 10826793 | Clostridium gasigenes sp. nov., a psychrophile causing spoilage of vacuum-packed meat. | Broda DM, Saul DJ, Lawson PA, Bell RG, Musgrave DR | Int J Syst Evol Microbiol | 10.1099/00207713-50-1-107 | 2000 | Base Composition, Butanols/metabolism, Butyric Acid/metabolism, Clostridium/*classification/isolation & purification/physiology/ultrastructure, *Cold Temperature, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fermentation, *Food Handling, *Food Packaging, Gases, Genes, rRNA/genetics, Meat/*microbiology, Molecular Sequence Data, Phenotype, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vacuum | Metabolism |
| Phylogeny | 32983035 | Comparative Genome Analysis and Phenotypic Characterization of Clostridium gasigenes CGAS001 Isolated From Chilled Vacuum-Packed Lamb Meat. | Wambui J, Cernela N, Corti S, Stephan R | Front Microbiol | 10.3389/fmicb.2020.02048 | 2020 |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 4666 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12272) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-12272 | |||
| 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 | |||
| 72320 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49264.1 | StrainInfo: A central database for resolving microbial strain identifiers |