Strain identifier
BacDive ID: 2856
Type strain:
Species: Clostridium hydrogeniformans
Strain Designation: BL-20
Strain history: <- W. M. Moe, Louisiana State Univ.; BL-20 <- H.-S. Bae
NCBI tax ID(s): 1121319 (strain), 349933 (species)
General
@ref: 15920
BacDive-ID: 2856
DSM-Number: 21757
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, Gram-positive, motile, rod-shaped
description: Clostridium hydrogeniformans BL-20 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from contaminated groundwater.
NCBI tax id
NCBI tax id | Matching level |
---|---|
349933 | species |
1121319 | strain |
strain history
- @ref: 15920
- history: <- W. M. Moe, Louisiana State Univ.; BL-20 <- H.-S. Bae
doi: 10.13145/bacdive2856.20230509.8.1
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 hydrogeniformans
- full scientific name: Clostridium hydrogeniformans Bowman et al. 2010
@ref: 15920
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium hydrogeniformans
full scientific name: Clostridium hydrogeniformans Bowman et al. 2010
strain designation: BL-20
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
29438 | positive | 3.75 µm | 0.9 µm | rod-shaped | yes | |
69480 | yes | 93.71 | ||||
69480 | positive | 100 |
pigmentation
- @ref: 29438
- production: yes
Culture and growth conditions
culture medium
- @ref: 15920
- 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 |
---|---|---|---|---|
15920 | positive | growth | 35 | mesophilic |
29438 | positive | growth | 15-40 | |
29438 | positive | optimum | 35 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
29438 | positive | growth | 05-10 | alkaliphile |
29438 | positive | optimum | 7.9 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
15920 | anaerobe | |
29438 | facultative anaerobe | |
69480 | anaerobe | 99.999 |
spore formation
@ref | spore formation | confidence |
---|---|---|
29438 | yes | |
69481 | yes | 100 |
69480 | yes | 99.623 |
halophily
- @ref: 29438
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: <5 %
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
29438 | 17814 | salicin | + | carbon source |
29438 | 4853 | esculin | + | hydrolysis |
metabolite production
- @ref: 29438
- Chebi-ID: 16136
- metabolite: hydrogen sulfide
- production: yes
enzymes
- @ref: 29438
- value: gelatinase
- activity: +
Isolation, sampling and environmental information
isolation
- @ref: 15920
- sample type: contaminated groundwater
- geographic location: 10 miles north of Baton Rouge
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Contamination | |
#Environmental | #Aquatic | #Groundwater |
taxonmaps
- @ref: 69479
- File name: preview.99_21675.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_10969;97_13289;98_16355;99_21675&stattab=map
- Last taxonomy: Clostridium hydrogeniformans subclade
- 16S sequence: DQ196623
- Sequence Identity:
- Total samples: 2615
- soil counts: 1225
- aquatic counts: 916
- animal counts: 374
- plant counts: 100
Safety information
risk assessment
- @ref: 15920
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15920
- description: Clostridium hydrogeniformans strain BL-20 16S ribosomal RNA gene, partial sequence
- accession: DQ196623
- length: 1447
- database: ena
- NCBI tax ID: 1121319
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Clostridium hydrogeniformans DSM 21757 | GCA_000686705 | scaffold | ncbi | 1121319 |
66792 | Clostridium hydrogeniformans DSM 21757 | 1121319.3 | wgs | patric | 1121319 |
66792 | Clostridium hydrogeniformans DSM 21757 | 2563366730 | draft | img | 1121319 |
GC content
@ref | GC-content | method |
---|---|---|
15920 | 30.4 | high performance liquid chromatography (HPLC) |
29438 | 30.4 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 100 | no |
motile | yes | 83.311 | no |
flagellated | no | 50 | no |
gram-positive | yes | 90.186 | yes |
anaerobic | yes | 97.533 | no |
halophile | no | 81.337 | no |
spore-forming | yes | 95.592 | yes |
glucose-util | yes | 91.902 | no |
aerobic | no | 97.165 | yes |
thermophile | no | 99.505 | yes |
glucose-ferment | yes | 65.698 | no |
External links
@ref: 15920
culture collection no.: DSM 21757, NRRL B-51348
straininfo link
- @ref: 72380
- straininfo: 407505
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 |
---|---|---|---|---|---|---|
15920 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21757) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21757 | |||
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) | |||
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 | |||
72380 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID407505.1 | StrainInfo: A central database for resolving microbial strain identifiers |