Strain identifier
BacDive ID: 2847
Type strain: 
Species: Clostridium nitrophenolicum
Strain history: R. K. Jain 1D.
NCBI tax ID(s): 382954 (species)
version 8.1 (current version)
General
@ref: 15443
BacDive-ID: 2847
DSM-Number: 21057
keywords: 16S sequence, Bacteria, anaerobe, spore-forming, Gram-positive, motile, rod-shaped
description: Clostridium nitrophenolicum DSM 21057 is an anaerobe, spore-forming, Gram-positive bacterium that was isolated from subsurface soil sample.
NCBI tax id
- NCBI tax id: 382954
- Matching level: species
strain history
| @ref | history |
|---|---|
| 15443 | <- JCM <- R. K. Jain; 1D |
| 67770 | R. K. Jain 1D. |
doi: 10.13145/bacdive2847.20230509.8.1
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 nitrophenolicum
- full scientific name: Clostridium nitrophenolicum Suresh et al. 2007
@ref: 15443
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium nitrophenolicum
full scientific name: Clostridium nitrophenolicum Suresh et al. 2007
type strain: yes
Morphology
cell morphology
- @ref: 31891
- gram stain: positive
- cell length: 3.5-5 µm
- cell width: 0.6-0.9 µm
- cell shape: rod-shaped
- motility: yes
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 31891 | positive | growth | 20-45 | |
| 31891 | positive | optimum | 30 | mesophilic |
| 67770 | positive | growth | 30 | mesophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 31891 | positive | growth | 6.5-8 |
| 31891 | positive | optimum | 7.2 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 15443 | anaerobe |
| 31891 | anaerobe |
spore formation
- @ref: 31891
- spore formation: yes
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 31891 | NaCl | positive | growth | 0-1 % |
| 31891 | NaCl | positive | optimum | 0.5 % |
observation
- @ref: 67770
- observation: quinones: MK-7
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 31891 | 28757 | fructose | + | carbon source |
| 31891 | 33984 | fucose | + | carbon source |
| 31891 | 28260 | galactose | + | carbon source |
| 31891 | 24175 | galacturonate | + | carbon source |
| 31891 | 17234 | glucose | + | carbon source |
| 31891 | 17306 | maltose | + | carbon source |
| 31891 | 37684 | mannose | + | carbon source |
| 31891 | 26546 | rhamnose | + | carbon source |
| 31891 | 17992 | sucrose | + | carbon source |
| 31891 | 27082 | trehalose | + | carbon source |
metabolite production
- @ref: 31891
- Chebi-ID: 35581
- metabolite: indole
- production: yes
metabolite tests
- @ref: 31891
- Chebi-ID: 35581
- metabolite: indole
- indole test: +
enzymes
- @ref: 31891
- value: gelatinase
- activity: +
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
|---|---|---|---|---|---|---|---|
| 15443 | subsurface soil sample | Hyderabad | India | IND | Asia | 17.3833 | 78.5 |
| 67770 | Subsurface soil sample |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Safety information
risk assessment
- @ref: 15443
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15443
- description: Clostridium nitrophenolicum partial 16S rRNA gene, type strain 1DT
- accession: AM261414
- length: 1461
- database: ena
- NCBI tax ID: 382954
GC content
| @ref | GC-content | method |
|---|---|---|
| 31891 | 35.5 | |
| 67770 | 35.5 | high performance liquid chromatography (HPLC) |
External links
@ref: 15443
culture collection no.: DSM 21057, JCM 14030, MTCC 7832
straininfo link
- @ref: 72371
- straininfo: 309438
literature
- topic: Phylogeny
- Pubmed-ID: 17684276
- title: Clostridium nitrophenolicum sp. nov., a novel anaerobic p-nitrophenol-degrading bacterium, isolated from a subsurface soil sample.
- authors: Suresh K, Prakash D, Rastogi N, Jain RK
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.64604-0
- year: 2007
- mesh: Base Composition, Clostridium/chemistry/classification/*isolation & purification/*physiology, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nitrophenols/*metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 15443 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21057) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21057 | |||
| 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 | |||
| 31891 | 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 | 28150 | 28776041 | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 72371 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID309438.1 | StrainInfo: A central database for resolving microbial strain identifiers |