Strain identifier
BacDive ID: 2803
Type strain: 
Species: Ruminiclostridium hungatei
Strain Designation: AD
Strain history: <- ATCC <- E. Monserrate and S. B. Leschine, University of Massachusetts, Department of Microbiology, USA; AD <- E. Monserrate {1991}
NCBI tax ID(s): 48256 (species)
version 8.1 (current version)
General
@ref: 5347
BacDive-ID: 2803
DSM-Number: 14427
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, Gram-positive
description: Ruminiclostridium hungatei AD is an anaerobe, spore-forming, mesophilic bacterium that was isolated from soil under a pile of rotting wood chips.
NCBI tax id
- NCBI tax id: 48256
- Matching level: species
strain history
- @ref: 5347
- history: <- ATCC <- E. Monserrate and S. B. Leschine, University of Massachusetts, Department of Microbiology, USA; AD <- E. Monserrate {1991}
doi: 10.13145/bacdive2803.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Oscillospiraceae
- genus: Ruminiclostridium
- species: Ruminiclostridium hungatei
- full scientific name: Ruminiclostridium hungatei (Monserrate et al. 2001) Zhang et al. 2018
synonyms
- @ref: 20215
- synonym: Clostridium hungatei
@ref: 5347
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Oscillospiraceae
genus: Ruminiclostridium
species: Ruminiclostridium hungatei
full scientific name: Ruminiclostridium hungatei (Monserrate et al. 2001) Zhang et al. 2018
strain designation: AD
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 5347
- name: CLOSTRIDIUM (GS) MEDIUM (DSMZ Medium 255)
- growth: yes
- link: https://mediadive.dsmz.de/medium/255
- composition: Name: CLOSTRIDIUM (GS) MEDIUM (DSMZ Medium 255) Composition: Morpholinopropane sulfonic acid 9.98004 g/l Yeast extract 5.98802 g/l Cellobiose 4.99002 g/l Urea 1.99601 g/l L-Cysteine HCl x H2O 0.998004 g/l K2HPO4 x 3 H2O 0.998004 g/l KH2PO4 0.499002 g/l MgCl2 x 6 H2O 0.499002 g/l CaCl2 x 2 H2O 0.0499002 g/l FeSO4 x 7 H2O 0.0012475 g/l Sodium resazurin 0.000499002 g/l Distilled water
culture temp
- @ref: 5347
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 5347 | anaerobe | |
| 69480 | anaerobe | 99.998 |
spore formation
- @ref: 69480
- spore formation: yes
- confidence: 100
Isolation, sampling and environmental information
isolation
- @ref: 5347
- sample type: soil under a pile of rotting wood chips
- geographic location: Massachusetts, Amherst
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Soil |
| #Host | #Plants | #Decomposing plant |
| #Host Body Product | #Plant | #Timber |
taxonmaps
- @ref: 69479
- File name: preview.99_2745.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_196;96_1460;97_1742;98_2129;99_2745&stattab=map
- Last taxonomy: Ruminiclostridium hungatei subclade
- 16S sequence: FR749970
- Sequence Identity:
- Total samples: 2407
- soil counts: 912
- aquatic counts: 442
- animal counts: 926
- plant counts: 127
Safety information
risk assessment
- @ref: 5347
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Clostridium hungatei strain AD 16S ribosomal RNA gene, partial sequence | AF020429 | 1460 | ena | 48256 |
| 5347 | Clostridium hungatei partial 16S rRNA gene, type strain DSM 14427T, clone 1 | FR749966 | 1653 | ena | 48256 |
| 5347 | Clostridium hungatei partial 16S rRNA gene, type strain DSM 14427T, clone 2 | FR749967 | 1650 | ena | 48256 |
| 5347 | Clostridium hungatei partial 16S rRNA gene, type strain DSM 14427T, clone 3 | FR749968 | 1623 | ena | 48256 |
| 5347 | Clostridium hungatei partial 16S rRNA gene, type strain DSM 14427T, clone 4 | FR749969 | 1654 | ena | 48256 |
| 5347 | Clostridium hungatei partial 16S rRNA gene, type strain DSM 14427T, clone 5 | FR749970 | 1654 | ena | 48256 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Ruminiclostridium hungatei DSM 14427 | GCA_002051585 | contig | ncbi | 48256 |
| 66792 | [Clostridium] hungatei strain DSM 14427 | 48256.3 | wgs | patric | 48256 |
| 66792 | Ruminiclostridium hungatei DSM 14427 | 2711768659 | draft | img | 48256 |
GC content
- @ref: 5347
- GC-content: 40
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 74 | no |
| gram-positive | no | 59.233 | no |
| anaerobic | yes | 98.628 | no |
| halophile | no | 97.392 | no |
| spore-forming | yes | 96.189 | no |
| glucose-util | yes | 86.52 | no |
| aerobic | no | 97.447 | yes |
| thermophile | no | 83.641 | yes |
| flagellated | yes | 51.925 | no |
| motile | yes | 79.634 | no |
| glucose-ferment | no | 52.023 | no |
External links
@ref: 5347
culture collection no.: DSM 14427, ATCC 700212
straininfo link
- @ref: 72329
- straininfo: 43828
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 11211249 | Clostridium hungatei sp. nov., a mesophilic, N2-fixing cellulolytic bacterium isolated from soil. | Monserrate E, Leschine SB, Canale-Parola E | Int J Syst Evol Microbiol | 10.1099/00207713-51-1-123 | 2001 | Anaerobiosis, Base Composition, Cellulase/metabolism, Cellulose/*metabolism, Clostridium/*classification/*isolation & purification/physiology/ultrastructure, Culture Media, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Molecular Sequence Data, *Nitrogen Fixation, Phylogeny, RNA, Ribosomal, 16S, Sequence Analysis, DNA, *Soil Microbiology | Metabolism |
| Genetics | 28522716 | First Insights into the Genome Sequence of the Cellulolytic Bacterium Clostridium hungatei DSM 14427. | Poehlein A, Funkner K, Schuler MA, Daniel R | Genome Announc | 10.1128/genomeA.00363-17 | 2017 |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 5347 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14427) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-14427 | |||
| 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 | |
| 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) | |||
| 72329 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID43828.1 | StrainInfo: A central database for resolving microbial strain identifiers |