Strain identifier
BacDive ID: 2857
Type strain: 
Species: Clostridium arbusti
Strain Designation: SL206
Strain history: <- YH Chang, KRIBB, SL206
NCBI tax ID(s): 1137848 (species)
version 8.1 (current version)
General
@ref: 17228
BacDive-ID: 2857
DSM-Number: 23575
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, motile, rod-shaped
description: Clostridium arbusti SL206 is an anaerobe, mesophilic, motile bacterium that was isolated from pear orchard soil .
NCBI tax id
- NCBI tax id: 1137848
- Matching level: species
strain history
| @ref | history |
|---|---|
| 17228 | <- B.-C. Kim, Korea Res. Inst. Biosci. & Biotechnol. (KRIBB), Taejon, South Korea; KCTC 5449 |
| 67770 | Y.-H. Chang SL206. |
| 67771 | <- YH Chang, KRIBB, SL206 |
doi: 10.13145/bacdive2857.20230509.8.1
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 arbusti
- full scientific name: Clostridium arbusti Jung et al. 2010
@ref: 17228
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium arbusti
full scientific name: Clostridium arbusti Jung et al. 2010
strain designation: SL206
type strain: yes
Morphology
cell morphology
| @ref | cell shape | motility | gram stain |
|---|---|---|---|
| 67771 | rod-shaped | yes | |
| 67771 | curved-shaped | ||
| 67771 | positive |
Culture and growth conditions
culture medium
- @ref: 17228
- name: PY + X MEDIUM (DSMZ Medium 104b)
- growth: yes
- link: https://mediadive.dsmz.de/medium/104b
- composition: Name: PY + X MEDIUM (DSMZ Medium 104b) Composition: Yeast extract 10.0 g/l D-Glucose 5.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Sodium resazurin 0.0005 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 17228 | positive | growth | 35 | mesophilic |
| 67770 | positive | growth | 37 | mesophilic |
| 67771 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 17228 | anaerobe |
| 67771 | anaerobe |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 17228 | pear orchard soil (30 cm depth) | Daejeon | Republic of Korea | KOR | Asia |
| 67770 | Soil sample from a pear orchard in Daejeon | Republic of Korea | KOR | Asia | |
| 67771 | From soil from a pear orchard | Daejeon | Republic of Korea | KOR | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Agriculture | #Grove (Orchard) |
| #Environmental | #Terrestrial | #Soil |
| #Host | #Plants | #Tree |
Safety information
risk assessment
- @ref: 17228
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 17228
- description: Clostridium arbusti SL206 16S ribosomal RNA gene, partial sequence
- accession: EU816420
- length: 1347
- database: ena
- NCBI tax ID: 545243
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Clostridium arbusti SL206 | GCA_000246895 | contig | ncbi | 545243 |
| 66792 | Clostridium arbusti SL206 | 545243.4 | wgs | patric | 545243 |
| 66792 | Clostridium arbusti SL206 | 2551306534 | draft | img | 545243 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 17228 | 31.1 | high performance liquid chromatography (HPLC) |
| 67771 | 31.1 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| gram-positive | yes | 80.14 | yes |
| anaerobic | yes | 96.655 | no |
| halophile | no | 98.291 | no |
| spore-forming | yes | 95.618 | no |
| glucose-util | yes | 87.948 | no |
| thermophile | no | 95.994 | yes |
| aerobic | no | 94.529 | yes |
| motile | yes | 83.97 | yes |
| flagellated | no | 50.722 | no |
| glucose-ferment | no | 51.078 | no |
External links
@ref: 17228
culture collection no.: DSM 23575, JCM 14858, KCTC 5449
straininfo link
- @ref: 72381
- straininfo: 400784
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 19915114 | Clostridium arbusti sp. nov., an anaerobic bacterium isolated from pear orchard soil. | Jung MY, Park IS, Kim W, Kim HL, Paek WK, Chang YH | Int J Syst Evol Microbiol | 10.1099/ijs.0.013953-0 | 2009 | Anaerobiosis, Clostridium/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, Pyrus/microbiology, RNA, Ribosomal, 16S/genetics, *Soil Microbiology | Metabolism |
| Genetics | 22535938 | Genome sequence of the anaerobic bacterium Clostridium arbusti SL206(T). | Kim DS, Jung MY, Sin Y, Kim DW, Paek J, Kim RN, Park IS, Kook JK, Nam SH, Kim A, Kang A, Park HS, Choi SH, Chang YH | J Bacteriol | 10.1128/JB.00368-12 | 2012 | Clostridium/*classification/*genetics, *Genome, Bacterial, Molecular Sequence Data, Republic of Korea, Soil Microbiology | Phylogeny |
| Metabolism | 27417332 | Synthesis of raffinose by transfructosylation using recombinant levansucrase from Clostridium arbusti SL206. | Li W, Yu S, Zhang T, Jiang B, Mu W | J Sci Food Agric | 10.1002/jsfa.7903 | 2016 | Bacterial Proteins/chemistry/genetics/isolation & purification/*metabolism, Clostridium/*enzymology, Enzyme Stability, Escherichia coli/genetics/metabolism, Fructose/metabolism, Hexosyltransferases/chemistry/genetics/isolation & purification/*metabolism, Melibiose/metabolism, Raffinose/*metabolism, Recombinant Proteins/chemistry/genetics/isolation & purification/metabolism, Sucrose/metabolism | Enzymology |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 17228 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23575) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23575 | |
| 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 | |
| 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 | ||
| 72381 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID400784.1 | StrainInfo: A central database for resolving microbial strain identifiers |