Strain identifier
BacDive ID: 2846
Type strain:
Species: Clostridium aestuarii
Strain Designation: HY-45-18
Strain history: <- J Chun, SNU, HY-45-18
NCBI tax ID(s): 338193 (species)
General
@ref: 8147
BacDive-ID: 2846
DSM-Number: 19521
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, Gram-negative, motile, rod-shaped
description: Clostridium aestuarii HY-45-18 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from tidal flat sediment.
NCBI tax id
- NCBI tax id: 338193
- Matching level: species
strain history
@ref | history |
---|---|
8147 | <- JCM <- J. Chun; HY-45-18 |
67770 | J. Chun HY-45-18. |
67771 | <- J Chun, SNU, HY-45-18 |
doi: 10.13145/bacdive2846.20230509.8.1
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 aestuarii
- full scientific name: Clostridium aestuarii Kim et al. 2007
@ref: 8147
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium aestuarii
full scientific name: Clostridium aestuarii Kim et al. 2007
strain designation: HY-45-18
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | flagellum arrangement |
---|---|---|---|---|---|---|
31822 | negative | 02-04 µm | 0.7-0.8 µm | rod-shaped | yes | |
67771 | rod-shaped | yes | peritrichous | |||
67771 | negative |
pigmentation
- @ref: 31822
- production: yes
Culture and growth conditions
culture medium
- @ref: 8147
- name: RCM MEDIUM (WITH SEA SALTS) (DSMZ Medium 634b)
- growth: yes
- link: https://mediadive.dsmz.de/medium/634b
- composition: Name: RCM MEDIUM (with Sea Salts) (DSMZ Medium 634b) Composition: dehydrated RCM medium 38.0 g/l Sea salts 30.0 g/l Sodium resazurin 0.0005 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
8147 | positive | growth | 30 | mesophilic |
31822 | positive | growth | 15-30 | |
31822 | positive | optimum | 30 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
67771 | positive | growth | 30 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
31822 | positive | growth | 5.5-8.5 | alkaliphile |
31822 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
8147 | anaerobe |
31822 | anaerobe |
67771 | anaerobe |
spore formation
@ref | spore formation | type of spore |
---|---|---|
31822 | yes | |
67771 | yes | endospore |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
31822 | NaCl | positive | growth | 01-10 % |
31822 | NaCl | positive | optimum | 4 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
31822 | 17234 | glucose | + | carbon source |
31822 | 17306 | maltose | + | carbon source |
31822 | 17992 | sucrose | + | carbon source |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
---|---|---|---|---|---|---|---|
8147 | tidal flat sediment | Ganghwa Island | Republic of Korea | KOR | Asia | 37.5833 | 126.45 |
67770 | Tidal flat on Ganghwa Island | Republic of Korea | KOR | Asia | |||
67771 | From sedimen, tidal flat | Ganghwa Island | Republic of Korea | KOR | Asia | 37.5922 | 126.457 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Tidal flat |
#Environmental | #Terrestrial | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_89664.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_5006;97_47195;98_61886;99_89664&stattab=map
- Last taxonomy: Clostridium aestuarii subclade
- 16S sequence: DQ126679
- Sequence Identity:
- Total samples: 254
- soil counts: 4
- aquatic counts: 233
- animal counts: 13
- plant counts: 4
Safety information
risk assessment
- @ref: 8147
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 8147
- description: Clostridium aestuarii strain HY-45-18 16S ribosomal RNA gene, partial sequence
- accession: DQ126679
- length: 1433
- database: ena
- NCBI tax ID: 338193
Genome sequences
- @ref: 66792
- description: Clostridium aestuarii HY-45-18
- accession: GCA_026735135
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 338193
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 87.26 | yes |
flagellated | yes | 69.037 | yes |
gram-positive | no | 70.132 | yes |
anaerobic | yes | 99.124 | yes |
aerobic | no | 98.727 | yes |
halophile | no | 82.898 | no |
spore-forming | yes | 95.433 | yes |
glucose-ferment | no | 50.849 | no |
thermophile | no | 92.143 | no |
glucose-util | yes | 87.133 | yes |
External links
@ref: 8147
culture collection no.: DSM 19521, IMSNU 40129, JCM 13194, KCTC 5147
straininfo link
- @ref: 72370
- straininfo: 232205
literature
- topic: Phylogeny
- Pubmed-ID: 17551049
- title: Clostridium aestuarii sp. nov., from tidal flat sediment.
- authors: Kim S, Jeong H, Chun J
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.64428-0
- year: 2007
- mesh: Anaerobiosis, Bacterial Typing Techniques, Butyric Acid/metabolism, Clostridium/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fermentation, Genes, rRNA, Geologic Sediments/*microbiology, Glucose/metabolism, Glycerol/metabolism, Korea, Locomotion, Molecular Sequence Data, Phylogeny, Propionates/metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, Spores, Bacterial, Water Microbiology
- topic2: Metabolism
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
8147 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19521) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19521 | |||
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 | |||
31822 | 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 | 28088 | 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) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||||
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 | |||
72370 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID232205.1 | StrainInfo: A central database for resolving microbial strain identifiers |