Strain identifier
BacDive ID: 2829
Type strain:
Species: Anaerocolumna jejuensis
Strain Designation: HY-35-12
Strain history: <- J Chun
NCBI tax ID(s): 1121322 (strain), 259063 (species)
General
@ref: 6190
BacDive-ID: 2829
DSM-Number: 15929
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, Gram-positive, motile, rod-shaped
description: Anaerocolumna jejuensis HY-35-12 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from soil.
NCBI tax id
NCBI tax id | Matching level |
---|---|
259063 | species |
1121322 | strain |
strain history
@ref | history |
---|---|
6190 | <- J. Chun, Seoul Natl. Univ., Republic of Korea; HY-35-12 <- J. Chun {2003} |
67771 | <- J Chun |
doi: 10.13145/bacdive2829.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Lachnospiraceae
- genus: Anaerocolumna
- species: Anaerocolumna jejuensis
- full scientific name: Anaerocolumna jejuensis (Jeong et al. 2004) Ueki et al. 2016
synonyms
- @ref: 20215
- synonym: Clostridium jejuense
@ref: 6190
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Lachnospiraceae
genus: Anaerocolumna
species: Anaerocolumna jejuensis
full scientific name: Anaerocolumna jejuensis (Jeong et al. 2004) Ueki et al. 2016
strain designation: HY-35-12
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | flagellum arrangement | confidence |
---|---|---|---|---|---|---|---|
31249 | positive | 3.15 µm | 0.5 µm | rod-shaped | yes | ||
67771 | rod-shaped | yes | peritrichous | ||||
67771 | curved-shaped | ||||||
67771 | positive | ||||||
69480 | yes | 92.655 | |||||
69480 | positive | 100 |
pigmentation
- @ref: 31249
- production: no
Culture and growth conditions
culture medium
- @ref: 6190
- name: WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339)
- growth: yes
- link: https://mediadive.dsmz.de/medium/339
- composition: Name: WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339) Composition: dehydrated Wilkins-Chalgren medium 33.0 g/l L-Cysteine HCl 0.3 g/l Sodium resazurin 0.0005 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
6190 | positive | growth | 30 | mesophilic |
31249 | positive | growth | 10-40 | |
31249 | positive | optimum | 30 | mesophilic |
67771 | positive | growth | 30 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
31249 | positive | growth | 5.5-9.5 | alkaliphile |
31249 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
6190 | anaerobe | |
31249 | anaerobe | |
67771 | anaerobe | |
69480 | anaerobe | 99.118 |
spore formation
@ref | spore formation | type of spore | confidence |
---|---|---|---|
31249 | yes | ||
67771 | yes | endospore | |
69481 | yes | 99 | |
69480 | yes | 99.676 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
31249 | NaCl | positive | growth | 0-1.5 % |
31249 | NaCl | positive | optimum | 0.25 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
31249 | 22599 | arabinose | + | carbon source |
31249 | 17057 | cellobiose | + | carbon source |
31249 | 28757 | fructose | + | carbon source |
31249 | 28260 | galactose | + | carbon source |
31249 | 17234 | glucose | + | carbon source |
31249 | 17716 | lactose | + | carbon source |
31249 | 17306 | maltose | + | carbon source |
31249 | 37684 | mannose | + | carbon source |
31249 | 16634 | raffinose | + | carbon source |
31249 | 33942 | ribose | + | carbon source |
31249 | 17992 | sucrose | + | carbon source |
31249 | 27082 | trehalose | + | carbon source |
31249 | 18222 | xylose | + | carbon source |
31249 | 4853 | esculin | + | hydrolysis |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
6190 | soil | Jeju island | Republic of Korea | KOR | Asia |
67771 | From soil | Jeju island | Republic of Korea | KOR | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_31168.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_33;96_1049;97_18627;98_23191;99_31168&stattab=map
- Last taxonomy: Anaerocolumna jejuensis subclade
- 16S sequence: AY494606
- Sequence Identity:
- Total samples: 1231
- soil counts: 640
- aquatic counts: 196
- animal counts: 212
- plant counts: 183
Safety information
risk assessment
- @ref: 6190
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 6190
- description: Clostridium jejuense strain HY-35-12 16S ribosomal RNA gene, partial sequence
- accession: AY494606
- length: 1466
- database: ena
- NCBI tax ID: 1121322
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Anaerocolumna jejuensis DSM 15929 | GCA_900142215 | scaffold | ncbi | 1121322 |
66792 | Anaerocolumna jejuensis DSM 15929 | 1121322.3 | wgs | patric | 1121322 |
66792 | Anaerocolumna jejuensis DSM 15929 | 2585428173 | draft | img | 1121322 |
GC content
@ref | GC-content | method |
---|---|---|
6190 | 41 | high performance liquid chromatography (HPLC) |
31249 | 41 | |
67771 | 41.0 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 99 | no |
motile | yes | 85.339 | yes |
flagellated | yes | 53.478 | no |
gram-positive | yes | 81.718 | yes |
anaerobic | yes | 97.289 | no |
aerobic | no | 96.057 | no |
halophile | no | 96.469 | yes |
spore-forming | yes | 94.251 | yes |
thermophile | no | 98.387 | no |
glucose-util | yes | 90.157 | yes |
glucose-ferment | yes | 69.587 | no |
External links
@ref: 6190
culture collection no.: DSM 15929, IMSNU 40003, KCTC 5026
straininfo link
- @ref: 72353
- straininfo: 130900
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 15388696 | Clostridium jejuense sp. nov., isolated from soil. | Jeong H, Yi H, Sekiguchi Y, Muramatsu M, Kamagata Y, Chun J | Int J Syst Evol Microbiol | 10.1099/ijs.0.63128-0 | 2004 | Acetic Acid/metabolism, Anaerobiosis, Anti-Bacterial Agents/pharmacology, Base Composition, Clostridium/*classification/cytology/*isolation & purification/physiology, DNA, Bacterial/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Fermentation, Formates/metabolism, Genes, rRNA, Glucose/metabolism, Hydrogen/metabolism, Hydrogen-Ion Concentration, Korea, Lactic Acid/metabolism, Molecular Sequence Data, Movement, Phylogeny, Pyruvic Acid/metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/pharmacology, *Soil Microbiology, Spores, Bacterial/cytology, Temperature | Metabolism |
Phylogeny | 24827706 | Mobilitalea sibirica gen. nov., sp. nov., a halotolerant polysaccharide-degrading bacterium. | Podosokorskaya OA, Bonch-Osmolovskaya EA, Beskorovaynyy AV, Toshchakov SV, Kolganova TV, Kublanov IV | Int J Syst Evol Microbiol | 10.1099/ijs.0.057109-0 | 2014 | Bacteria, Anaerobic/classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermentation, Gram-Positive Endospore-Forming Rods/*classification/genetics/isolation & purification, Hot Temperature, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, Polysaccharides/metabolism, RNA, Ribosomal, 16S/genetics, Russia, Salt Tolerance, Sequence Analysis, DNA, *Water Microbiology, Water Wells/*microbiology | Enzymology |
Phylogeny | 27126251 | Descriptions of Anaerotaenia torta gen. nov., sp. nov. and Anaerocolumna cellulosilytica gen. nov., sp. nov. isolated from a methanogenic reactor of cattle waste and reclassification of Clostridium aminovalericum, Clostridium jejuense and Clostridium xylanovorans as Anaerocolumna species. | Ueki A, Ohtaki Y, Kaku N, Ueki K | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001123 | 2016 | Animals, Bacteria, Anaerobic/classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Bioreactors/*microbiology, Cattle, Cellulose/metabolism, Clostridiales/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermentation, Manure/*microbiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Enzymology |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
---|---|---|---|---|---|---|---|
6190 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15929) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-15929 | ||||
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 | ||||
31249 | 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 | 27572 | 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) | ||||
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 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
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 | ||||
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 | ||||
72353 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID130900.1 | StrainInfo: A central database for resolving microbial strain identifiers |