Strain identifier
BacDive ID: 2832
Type strain:
Species: Clostridium schirmacherense
Strain Designation: AP15
Strain history: L. Singh AP15.
NCBI tax ID(s): 351628 (species)
General
@ref: 6946
BacDive-ID: 2832
DSM-Number: 17394
keywords: 16S sequence, Bacteria, anaerobe, spore-forming, psychrophilic, Gram-positive, motile, rod-shaped
description: Clostridium schirmacherense AP15 is an anaerobe, spore-forming, psychrophilic bacterium that was isolated from lake sediment.
NCBI tax id
- NCBI tax id: 351628
- Matching level: species
strain history
@ref | history |
---|---|
6946 | <- L. Singh, Biotechnology Division, Defence Research and Development Establishment, Gwalior, India; AP15 <- S. I. Alam |
67770 | L. Singh AP15. |
doi: 10.13145/bacdive2832.20230509.8.1
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 schirmacherense
- full scientific name: Clostridium schirmacherense Alam et al. 2006
@ref: 6946
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium schirmacherense
full scientific name: Clostridium schirmacherense Alam et al. 2006
strain designation: AP15
type strain: yes
Morphology
cell morphology
- @ref: 31559
- gram stain: positive
- cell length: 02-04 µm
- cell width: 0.5-0.7 µm
- cell shape: rod-shaped
- motility: yes
pigmentation
- @ref: 31559
- production: yes
Culture and growth conditions
culture medium
- @ref: 6946
- name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)
- growth: yes
- link: https://mediadive.dsmz.de/medium/110
- composition: Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
6946 | positive | growth | 20 | psychrophilic |
31559 | positive | growth | 05-35 | |
31559 | positive | optimum | 05-10 | psychrophilic |
67770 | positive | growth | 30 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
31559 | positive | growth | 06-09 | alkaliphile |
31559 | positive | optimum | 8 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
6946 | anaerobe |
31559 | anaerobe |
spore formation
- @ref: 31559
- spore formation: yes
halophily
- @ref: 31559
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-7.5 %
observation
- @ref: 31559
- observation: aggregates in chains
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
31559 | 15963 | ribitol | + | carbon source |
31559 | 17234 | glucose | + | carbon source |
31559 | 16634 | raffinose | + | carbon source |
31559 | 26546 | rhamnose | + | carbon source |
31559 | 33942 | ribose | + | carbon source |
31559 | 4853 | esculin | + | hydrolysis |
metabolite production
- @ref: 31559
- Chebi-ID: 16136
- metabolite: hydrogen sulfide
- production: yes
enzymes
- @ref: 31559
- value: gelatinase
- activity: +
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | continent | country | origin.country |
---|---|---|---|---|---|
6946 | lake sediment | Schirmacher Oasis | Australia and Oceania | ||
67770 | Lake sediment of Schirmacher Oasis | Antarctica | Antarctica | ATA |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Lake (large) |
#Environmental | #Aquatic | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_4630.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_2305;97_2799;98_3476;99_4630&stattab=map
- Last taxonomy: Clostridium
- 16S sequence: AM114453
- Sequence Identity:
- Total samples: 2886
- soil counts: 677
- aquatic counts: 339
- animal counts: 1770
- plant counts: 100
Safety information
risk assessment
- @ref: 6946
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 6946
- description: Clostridium schirmacherense partial 16S rRNA gene, type strain AP15T
- accession: AM114453
- length: 1457
- database: ena
- NCBI tax ID: 351628
GC content
@ref | GC-content | method |
---|---|---|
6946 | 24 | |
67770 | 24 | thermal denaturation, midpoint method (Tm) |
External links
@ref: 6946
culture collection no.: DSM 17394, JCM 13289
straininfo link
- @ref: 72356
- straininfo: 290964
literature
- topic: Phylogeny
- Pubmed-ID: 16585682
- title: Clostridium schirmacherense sp. nov., an obligately anaerobic, proteolytic, psychrophilic bacterium isolated from lake sediment of Schirmacher Oasis, Antarctica.
- authors: Alam SI, Dixit A, Reddy GSN, Dube S, Palit M, Shivaji S, Singh L
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.63808-0
- year: 2006
- mesh: Amino Acids/metabolism, Bacteria, Anaerobic, Clostridium/*classification/genetics/isolation & purification/metabolism, Cold Temperature, DNA, Bacterial/analysis, Fermentation, Geologic Sediments, Molecular Sequence Data, Peptides/*metabolism, RNA, Ribosomal, 16S/genetics, *Water Microbiology
- topic2: Metabolism
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
6946 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17394) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-17394 | |||
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 | |||
31559 | 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 | 27849 | 28776041 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
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 | |||
72356 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID290964.1 | StrainInfo: A central database for resolving microbial strain identifiers |