Strain identifier
BacDive ID: 2855
Type strain: 
Species: Clostridium cavendishii
Strain Designation: BL-28
Strain history: <- DSM <- WM Moe, Louisiana State Univ, BL-28
NCBI tax ID(s): 1121302 (strain), 349931 (species)
version 8.1 (current version)
General
@ref: 15921
BacDive-ID: 2855
DSM-Number: 21758
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, Gram-positive, rod-shaped
description: Clostridium cavendishii BL-28 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from contaminated groundwater.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 349931 | species |
| 1121302 | strain |
strain history
| @ref | history |
|---|---|
| 15921 | <- W. M. Moe, Louisiana State Univ.; BL-28 |
| 67771 | <- DSM <- WM Moe, Louisiana State Univ, BL-28 |
doi: 10.13145/bacdive2855.20230509.8.1
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 cavendishii
- full scientific name: Clostridium cavendishii Bowman et al. 2010
@ref: 15921
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium cavendishii
full scientific name: Clostridium cavendishii Bowman et al. 2010
strain designation: BL-28
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | confidence |
|---|---|---|---|---|---|---|
| 29438 | positive | 6.1 µm | 0.7 µm | rod-shaped | ||
| 67771 | rod-shaped | |||||
| 67771 | positive | |||||
| 69480 | yes | 96.127 | ||||
| 69480 | positive | 100 |
pigmentation
- @ref: 29438
- production: yes
Culture and growth conditions
culture medium
- @ref: 15921
- name: PY + X MEDIUM (DSMZ Medium 104b)
- growth: yes
- link: https://mediadive.dsmz.de/medium/104b
- composition: 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
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 15921 | positive | growth | 35 | mesophilic |
| 29438 | positive | growth | 15-46 | |
| 29438 | positive | optimum | 41.5 | thermophilic |
| 67771 | positive | growth | 35 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 29438 | positive | growth | 6-8.5 | alkaliphile |
| 29438 | positive | optimum | 7.45 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 15921 | anaerobe | |
| 29438 | facultative anaerobe | |
| 67771 | anaerobe | |
| 69480 | anaerobe | 99.998 |
spore formation
| @ref | spore formation | type of spore | confidence |
|---|---|---|---|
| 29438 | yes | ||
| 67771 | yes | spore | |
| 69481 | yes | 100 | |
| 69480 | yes | 100 |
halophily
- @ref: 29438
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: <3 %
metabolite utilization
- @ref: 29438
- Chebi-ID: 4853
- metabolite: esculin
- utilization activity: +
- kind of utilization tested: hydrolysis
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 15921 | contaminated groundwater | 10 miles north of Baton Rouge | USA | USA | North America |
| 67771 | From contaminated groundwater | 10 miles north of Baton Rouge | USA | USA | North America |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Contamination | |
| #Environmental | #Aquatic | #Groundwater |
taxonmaps
- @ref: 69479
- File name: preview.99_5240.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_2544;97_3109;98_3906;99_5240&stattab=map
- Last taxonomy: Clostridium cavendishii subclade
- 16S sequence: DQ196621
- Sequence Identity:
- Total samples: 17083
- soil counts: 1089
- aquatic counts: 1743
- animal counts: 14027
- plant counts: 224
Safety information
risk assessment
- @ref: 15921
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15921
- description: Clostridium cavendishii strain BL-28 16S ribosomal RNA gene, partial sequence
- accession: DQ196621
- length: 1454
- database: ena
- NCBI tax ID: 1121302
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Clostridium cavendishii DSM 21758 | GCA_900141845 | scaffold | ncbi | 1121302 |
| 66792 | Clostridium cavendishii DSM 21758 | 1121302.3 | wgs | patric | 1121302 |
| 66792 | Clostridium cavendishii DSM 21758 | 2585428089 | draft | img | 1121302 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 15921 | 28.5 | high performance liquid chromatography (HPLC) |
| 29438 | 28.5 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| motile | yes | 86.99 | no |
| flagellated | yes | 63.805 | no |
| gram-positive | yes | 82.59 | yes |
| anaerobic | yes | 94.533 | no |
| aerobic | no | 97.949 | yes |
| halophile | no | 93.099 | no |
| spore-forming | yes | 96.618 | yes |
| thermophile | no | 96.258 | no |
| glucose-util | yes | 92.019 | no |
| glucose-ferment | yes | 58.223 | no |
External links
@ref: 15921
culture collection no.: DSM 21758, KCTC 15122, NRRL B-51352
straininfo link
- @ref: 72379
- straininfo: 398882
literature
- topic: Phylogeny
- Pubmed-ID: 19651721
- title: Clostridium hydrogeniformans sp. nov. and Clostridium cavendishii sp. nov., hydrogen-producing bacteria from chlorinated solvent-contaminated groundwater.
- authors: Bowman KS, Dupre RE, Rainey FA, Moe WM
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.013169-0
- year: 2009
- mesh: Base Composition, Base Sequence, Chlorine/metabolism, Clostridium/*classification/genetics/physiology, DNA, Bacterial/chemistry, Hydrogen/*metabolism, Louisiana, Molecular Sequence Data, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, Solvents/metabolism, *Water Microbiology, *Water Pollution, Chemical
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
|---|---|---|---|---|---|---|---|
| 15921 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21758) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21758 | ||||
| 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 | ||||
| 29438 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 25844 | 28776041 | ||
| 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 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
| 67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | |||||
| 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) | ||||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | ||||
| 72379 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID398882.1 | StrainInfo: A central database for resolving microbial strain identifiers |