Strain identifier
BacDive ID: 2620
Type strain:
Species: Clostridium oceanicum
Strain history: ATCC 25647 <-- L. DS. Smith VPI 3082.
NCBI tax ID(s): 1543 (species)
version 8.1 (current version)
General
@ref: 610
BacDive-ID: 2620
DSM-Number: 1290
keywords: 16S sequence, Bacteria, anaerobe, mesophilic
description: Clostridium oceanicum DSM 1290 is an anaerobe, mesophilic bacterium that was isolated from marine sediment.
NCBI tax id
- NCBI tax id: 1543
- Matching level: species
strain history
@ref | history |
---|---|
610 | <- ATCC <- L. DS. Smith, Virginia Polytechnical Institute and State University, Blacksburg, V., USA; VPI 3082 |
67770 | ATCC 25647 <-- L. DS. Smith VPI 3082. |
doi: 10.13145/bacdive2620.20230509.8.1
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 oceanicum
- full scientific name: Clostridium oceanicum Smith 1970 (Approved Lists 1980)
@ref: 610
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium oceanicum
full scientific name: Clostridium oceanicum Smith 1970
type strain: yes
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
610 | 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 |
610 | WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339) | yes | https://mediadive.dsmz.de/medium/339 | Name: WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339) Composition: dehydrated Wilkins-Chalgren medium 33.0 g/l L-Cysteine HCl 0.3 g/l Sodium resazurin 0.0005 g/l Distilled water |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
610 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 610
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location |
---|---|---|
610 | marine sediment | Atlantic Ocean |
67770 | Marine sediment |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Marine |
#Environmental | #Aquatic | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_136121.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_52639;97_67856;98_90783;99_136121&stattab=map
- Last taxonomy: Clostridium oceanicum subclade
- 16S sequence: LC007108
- Sequence Identity:
- Total samples: 2762
- soil counts: 156
- aquatic counts: 1897
- animal counts: 648
- plant counts: 61
Safety information
risk assessment
- @ref: 610
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Clostridium oceanicum strain ATCC 25647 16S ribosomal RNA gene, partial sequence | DQ911254 | 318 | ena | 1543 |
20218 | Clostridium oceanicum 16S ribosomal RNA | M59101 | 1460 | ena | 1543 |
610 | Clostridium oceanicum partial 16S rRNA gene, type strain DSM 1290T, clone 1 | FR749923 | 1560 | ena | 1543 |
610 | Clostridium oceanicum partial 16S rRNA gene, type strain DSM 1290T, clone 2 | FR749924 | 1560 | ena | 1543 |
610 | Clostridium oceanicum partial 16S rRNA gene, type strain DSM 1290T, clone 3 | FR749925 | 1620 | ena | 1543 |
610 | Clostridium oceanicum partial 16S rRNA gene, type strain DSM 1290T, clone 4 | FR749926 | 1597 | ena | 1543 |
610 | Clostridium oceanicum partial 16S rRNA gene, type strain DSM 1290T, clone 5 | FR749927 | 1560 | ena | 1543 |
67770 | Clostridium oceanicum gene for 16S ribosomal RNA, partial sequence, strain: JCM 1407 | LC007108 | 1473 | ena | 1543 |
GC content
@ref | GC-content | method |
---|---|---|
610 | 23.0 | |
67770 | 23 | thermal denaturation, midpoint method (Tm) |
External links
@ref: 610
culture collection no.: DSM 1290, ATCC 25647, NCIMB 10625, VPI 3082, JCM 1407, BCRC 14482, LMG 3287
straininfo link
- @ref: 72151
- straininfo: 1957
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
610 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 1290) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-1290 | |||
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 | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
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 | |||
72151 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID1957.1 | StrainInfo: A central database for resolving microbial strain identifiers |