Strain identifier
BacDive ID: 2753
Type strain:
Species: Clostridium homopropionicum
Strain Designation: LuHBu1
Strain history: <- C. Dörner, LuHBu1
NCBI tax ID(s): 1121318 (strain), 36844 (species)
General
@ref: 2336
BacDive-ID: 2753
DSM-Number: 5847
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, motile
description: Clostridium homopropionicum LuHBu1 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from anoxic sewage sludge.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1121318 | strain |
36844 | species |
strain history
- @ref: 2336
- history: <- C. Dörner, LuHBu1
doi: 10.13145/bacdive2753.20230509.8.1
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 homopropionicum
- full scientific name: Clostridium homopropionicum Dörner and Schink 1991
@ref: 2336
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium homopropionicum
full scientific name: Clostridium homopropionicum Dörner and Schink 1991
strain designation: LuHBu1
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | yes | 98.27 | |
69480 | 100 | positive |
Culture and growth conditions
culture medium
- @ref: 2336
- name: ANAEROBIC FRESHWATER (FWM) MEDIUM (DSMZ Medium 503)
- growth: yes
- link: https://mediadive.dsmz.de/medium/503
- composition: Name: ANAEROBIC FRESHWATER (FWM) MEDIUM (DSMZ Medium 503; with strain-specific modifications) Composition: Na-3-hydroxybutyrate 1.49551 g/l Na2CO3 1.49551 g/l NaCl 0.997008 g/l KCl 0.498505 g/l MgCl2 x 6 H2O 0.398803 g/l Na2S x 9 H2O 0.299103 g/l NH4Cl 0.249252 g/l KH2PO4 0.199402 g/l CaCl2 x 2 H2O 0.149552 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l Sodium resazurin 0.000498505 g/l NaOH 0.000498504 g/l Pyridoxine hydrochloride 0.000299103 g/l Nicotinic acid 0.000199402 g/l Thiamine-HCl x 2 H2O 0.000199402 g/l CoCl2 x 6 H2O 0.000189432 g/l Calcium pantothenate 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l Vitamin B12 9.97009e-05 g/l p-Aminobenzoic acid 7.97607e-05 g/l ZnCl2 6.97906e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l D-(+)-biotin 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Distilled water
culture temp
- @ref: 2336
- growth: positive
- type: growth
- temperature: 35
- range: mesophilic
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
2336 | anaerobe | |
69480 | anaerobe | 99.999 |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | yes | 99 |
69480 | yes | 100 |
Isolation, sampling and environmental information
isolation
- @ref: 2336
- sample type: anoxic sewage sludge
- country: Germany
- origin.country: DEU
- continent: Europe
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Waste | #Sewage sludge |
#Condition | #Anoxic (anaerobic) |
taxonmaps
- @ref: 69479
- File name: preview.99_7942.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_3674;97_4513;98_5796;99_7942&stattab=map
- Last taxonomy: Clostridium homopropionicum
- 16S sequence: X76744
- Sequence Identity:
- Total samples: 8577
- soil counts: 172
- aquatic counts: 329
- animal counts: 8049
- plant counts: 27
Safety information
risk assessment
- @ref: 2336
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 2336
- description: Clostridium homopropionicum 16S rRNA gene type strain DSM 5847T
- accession: X76744
- length: 1461
- database: ena
- NCBI tax ID: 36844
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Clostridium homopropionicum DSM 5847 | GCA_900113195 | scaffold | ncbi | 36844 |
66792 | Clostridium homopropionicum DSM 5847 | GCA_001263795 | contig | ncbi | 1121318 |
66792 | Clostridium homopropionicum DSM 5847 | 1121318.3 | wgs | patric | 1121318 |
66792 | Clostridium homopropionicum strain DSM 5847 | 36844.3 | wgs | patric | 36844 |
66792 | Clostridium homopropionicum DSM 5847 | 2622736521 | draft | img | 1121318 |
66792 | Clostridium homopropionicum DSM 5847 | 2645727554 | draft | img | 1121318 |
GC content
- @ref: 2336
- GC-content: 32.0
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 99 | no |
motile | yes | 79.298 | no |
flagellated | yes | 60.277 | no |
gram-positive | yes | 53.299 | no |
anaerobic | yes | 99.683 | yes |
aerobic | no | 98.608 | no |
halophile | no | 92.627 | no |
spore-forming | yes | 93.255 | no |
glucose-util | yes | 82.065 | no |
thermophile | no | 91.524 | no |
glucose-ferment | no | 57.685 | no |
External links
@ref: 2336
culture collection no.: DSM 5847, ATCC 51426
straininfo link
- @ref: 72283
- straininfo: 42977
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Metabolism | 2244786 | Clostridium homopropionicum sp. nov., a new strict anaerobe growing with 2-, 3-, or 4-hydroxybutyrate. | Dorner C, Schink B | Arch Microbiol | 10.1007/BF00276529 | 1990 | Acetates/metabolism, Acrylates/metabolism, Anaerobiosis, Biodegradation, Environmental, Butyrates/metabolism, Clostridium/enzymology/*growth & development/metabolism, Fermentation, Fresh Water, Fructose/metabolism, Hydroxybutyrates/*metabolism, Lactates/metabolism, Propionates/metabolism, Seawater, *Sewage, *Water Microbiology | Phylogeny |
Genetics | 26430034 | Draft Genome Sequence of the Strict Anaerobe Clostridium homopropionicum LuHBu1 (DSM 5847). | Beck MH, Poehlein A, Bengelsdorf FR, Schiel-Bengelsdorf B, Daniel R, Durre P | Genome Announc | 10.1128/genomeA.01112-15 | 2015 |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
2336 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5847) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-5847 | |||
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 | |||
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 | |||
72283 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID42977.1 | StrainInfo: A central database for resolving microbial strain identifiers |