Strain identifier
BacDive ID: 431
Type strain: 
Species: Alicyclobacillus kakegawensis
Strain Designation: 5-A83J
Strain history: IAM 15227 <-- K. Goto 5-A83J.
NCBI tax ID(s): 1220571 (strain), 392012 (species)
version 9.1 (current version)
General
@ref: 7311
BacDive-ID: 431
DSM-Number: 17979
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, Gram-positive, motile, rod-shaped
description: Alicyclobacillus kakegawensis 5-A83J is an aerobe, spore-forming, Gram-positive bacterium that was isolated from soil, crop field.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1220571 | strain |
| 392012 | species |
strain history
| @ref | history |
|---|---|
| 7311 | <- Keiichi Goto, 5-A83J |
| 67770 | IAM 15227 <-- K. Goto 5-A83J. |
doi: 10.13145/bacdive431.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Alicyclobacillaceae
- genus: Alicyclobacillus
- species: Alicyclobacillus kakegawensis
- full scientific name: Alicyclobacillus kakegawensis Goto et al. 2007
@ref: 7311
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Alicyclobacillaceae
genus: Alicyclobacillus
species: Alicyclobacillus kakegawensis
full scientific name: Alicyclobacillus kakegawensis Goto et al. 2007
strain designation: 5-A83J
type strain: yes
Morphology
cell morphology
- @ref: 31943
- gram stain: positive
- cell length: 04-05 µm
- cell width: 0.6-0.7 µm
- cell shape: rod-shaped
- motility: yes
pigmentation
- @ref: 31943
- production: no
Culture and growth conditions
culture medium
- @ref: 7311
- name: BACILLUS ACIDOCALDARIUS MEDIUM (DSMZ Medium 13)
- growth: yes
- link: https://mediadive.dsmz.de/medium/13
- composition: Name: BACILLUS ACIDOCALDARIUS MEDIUM (DSMZ Medium 13) Composition: Agar 20.0 g/l Glucose 1.0 g/l Yeast extract 1.0 g/l KH2PO4 0.6 g/l MgSO4 x 7 H2O 0.5 g/l CaCl2 x 2 H2O 0.25 g/l (NH4)2SO4 0.2 g/l Distilled water
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 7311 | positive | growth | 50 |
| 31943 | positive | growth | 40-60 |
| 31943 | positive | optimum | 50-55 |
| 67770 | positive | growth | 55 |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 31943 | positive | growth | 4.0-4.5 | acidophile |
| 31943 | positive | optimum | 4.25 |
Physiology and metabolism
oxygen tolerance
- @ref: 31943
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 31943 | yes | |
| 69481 | yes | 98 |
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 31943 | NaCl | positive | growth | 0-2 % |
| 31943 | NaCl | positive | optimum | 1 % |
observation
- @ref: 67770
- observation: quinones: MK-7
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 31943 | 22599 | arabinose | + | carbon source |
| 31943 | 18403 | L-arabitol | + | carbon source |
| 31943 | 17057 | cellobiose | + | carbon source |
| 31943 | 28260 | galactose | + | carbon source |
| 31943 | 17716 | lactose | + | carbon source |
| 31943 | 17306 | maltose | + | carbon source |
| 31943 | 29864 | mannitol | + | carbon source |
| 31943 | 26546 | rhamnose | + | carbon source |
| 31943 | 17814 | salicin | + | carbon source |
| 31943 | 30911 | sorbitol | + | carbon source |
| 31943 | 17992 | sucrose | + | carbon source |
| 31943 | 27082 | trehalose | + | carbon source |
| 31943 | 18222 | xylose | + | carbon source |
enzymes
- @ref: 31943
- value: catalase
- activity: +
- ec: 1.11.1.6
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 7311 | soil, crop field | Kakegawa city | Japan | JPN | Asia |
| 67770 | Soil of a crop field in Kakegawa City | Shizuoka Pref. | Japan | JPN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Agriculture | #Field |
| #Environmental | #Terrestrial | #Soil |
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
Safety information
risk assessment
- @ref: 7311
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 7311 | Alicyclobacillus kakegawensis gene for 16S ribosomal RNA, partial sequence | AB264022 | 1519 | nuccore | 392012 |
| 124043 | Alicyclobacillus kakegawensis gene for 16S rRNA, partial sequence, strain: NBRC 103104. | AB681943 | 1471 | nuccore | 392012 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Alicyclobacillus kakegawensis NBRC 103104 | 1220571.3 | wgs | patric | 1220571 |
| 66792 | Alicyclobacillus kakegawensis NBRC 103104 | 2731957595 | draft | img | 1220571 |
| 67770 | Alicyclobacillus kakegawensis NBRC 103104 | GCA_001552655 | contig | ncbi | 1220571 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 7311 | 61.3 | |
| 31943 | 61.3-61.7 | |
| 67770 | 61.3 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 98 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 68.957 | yes |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 94.562 | yes |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 89.315 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 75.879 | yes |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | yes | 55.151 | no |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 72.269 | no |
External links
@ref: 7311
culture collection no.: DSM 17979, IAM 15227, JCM 21681, NBRC 103104
straininfo link
- @ref: 70110
- straininfo: 309420
literature
- topic: Phylogeny
- Pubmed-ID: 17551043
- title: Proposal of six species of moderately thermophilic, acidophilic, endospore-forming bacteria: Alicyclobacillus contaminans sp. nov., Alicyclobacillus fastidiosus sp. nov., Alicyclobacillus kakegawensis sp. nov., Alicyclobacillus macrosporangiidus sp. nov., Alicyclobacillus sacchari sp. nov. and Alicyclobacillus shizuokensis sp. nov.
- authors: Goto K, Mochida K, Kato Y, Asahara M, Fujita R, An SY, Kasai H, Yokota A
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.64692-0
- year: 2007
- mesh: Aerobiosis, Bacterial Proteins/genetics, Bacterial Typing Techniques, Beverages/*microbiology, Carbohydrate Metabolism, Carboxylic Acids/metabolism, DNA Gyrase/genetics, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, *Environmental Microbiology, Fatty Acids/analysis, Genes, rRNA, Gram-Positive Endospore-Forming Bacteria/*classification/cytology/*isolation & purification/physiology, Guaiacol/metabolism, Hydrogen-Ion Concentration, Microscopy, Phase-Contrast, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Quinones/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Temperature
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 7311 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17979) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-17979 | |||
| 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 | |||
| 31943 | 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 | 28199 | 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/ | ||||
| 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 | |||
| 70110 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID309420.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
| 124043 | Dr. Isabel Schober, Dr. Julia Koblitz | Data extracted from sequence databases, automatically matched based on designation and taxonomy |