Strain identifier
BacDive ID: 428
Type strain: 
Species: Alicyclobacillus sacchari
Strain Designation: RB-718
Strain history: IAM 15230 <-- K. Goto RB718.
NCBI tax ID(s): 392010 (species)
version 8.1 (current version)
General
@ref: 7306
BacDive-ID: 428
DSM-Number: 17974
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, thermophilic, Gram-positive, motile, rod-shaped
description: Alicyclobacillus sacchari RB-718 is an aerobe, spore-forming, thermophilic bacterium that was isolated from liquid sugar.
NCBI tax id
- NCBI tax id: 392010
- Matching level: species
strain history
| @ref | history |
|---|---|
| 7306 | <- Keiichi Goto, RB718 |
| 67770 | IAM 15230 <-- K. Goto RB718. |
doi: 10.13145/bacdive428.20230509.8.1
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 sacchari
- full scientific name: Alicyclobacillus sacchari Goto et al. 2007
@ref: 7306
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Alicyclobacillaceae
genus: Alicyclobacillus
species: Alicyclobacillus sacchari
full scientific name: Alicyclobacillus sacchari Goto et al. 2007
strain designation: RB-718
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | confidence |
|---|---|---|---|---|---|---|
| 31943 | positive | 04-05 µm | 0.6-0.7 µm | rod-shaped | yes | |
| 69480 | yes | 94.122 | ||||
| 69480 | positive | 99.999 |
pigmentation
- @ref: 31943
- production: no
Culture and growth conditions
culture medium
- @ref: 7306
- 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 | range | confidence |
|---|---|---|---|---|---|
| 7306 | positive | growth | 50 | thermophilic | |
| 31943 | positive | growth | 30-55 | ||
| 31943 | positive | optimum | 45-50 | thermophilic | |
| 67770 | positive | growth | 50 | thermophilic | |
| 69480 | thermophilic | 98.991 |
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 | 100 |
| 69480 | yes | 99.461 |
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 | 17057 | cellobiose | + | carbon source |
| 31943 | 28260 | galactose | + | carbon source |
| 31943 | 17754 | glycerol | + | carbon source |
| 31943 | 28087 | glycogen | + | carbon source |
| 31943 | 17716 | lactose | + | carbon source |
| 31943 | 17306 | maltose | + | carbon source |
| 31943 | 29864 | mannitol | + | carbon source |
| 31943 | 28053 | melibiose | + | carbon source |
| 31943 | 16634 | raffinose | + | carbon source |
| 31943 | 26546 | rhamnose | + | carbon source |
| 31943 | 17814 | salicin | + | carbon source |
| 31943 | 17992 | sucrose | + | carbon source |
| 31943 | 27082 | trehalose | + | carbon source |
| 31943 | 18222 | xylose | + | carbon source |
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent |
|---|---|---|---|---|
| 7306 | liquid sugar | Japan | JPN | Asia |
| 67770 | Liquid sugar |
isolation source categories
- Cat1: #Engineered
- Cat2: #Food production
- Cat3: #Sugary food
taxonmaps
- @ref: 69479
- File name: preview.99_7326.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_313;96_2480;97_4206;98_5373;99_7326&stattab=map
- Last taxonomy: Alicyclobacillus
- 16S sequence: AB264020
- Sequence Identity:
- Total samples: 1443
- soil counts: 730
- aquatic counts: 153
- animal counts: 406
- plant counts: 154
Safety information
risk assessment
- @ref: 7306
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 7306
- description: Alicyclobacillus sacchari gene for 16S ribosomal RNA, partial sequence
- accession: AB264020
- length: 1518
- database: ena
- NCBI tax ID: 392010
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Alicyclobacillus sacchari strain DSM 17974 | 392010.3 | wgs | patric | 392010 |
| 66792 | Alicyclobacillus sacchari DSM 17974 | 2756170229 | draft | img | 392010 |
| 67770 | Alicyclobacillus sacchari DSM 17974 | GCA_004366795 | scaffold | ncbi | 392010 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 7306 | 56.6 | |
| 67770 | 56.6 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| gram-positive | yes | 83.764 | no |
| anaerobic | no | 97.678 | no |
| halophile | no | 93.063 | yes |
| spore-forming | yes | 95.139 | yes |
| glucose-util | yes | 90.512 | no |
| aerobic | yes | 91.997 | yes |
| flagellated | no | 73.71 | no |
| thermophile | yes | 99.727 | yes |
| motile | yes | 81.896 | no |
| glucose-ferment | no | 83.28 | no |
External links
@ref: 7306
culture collection no.: DSM 17974, IAM 15230, JCM 21684, NBRC 103105
straininfo link
- @ref: 70107
- straininfo: 309422
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 |
|---|---|---|---|---|---|---|
| 7306 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17974) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-17974 | |||
| 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/ | ||||
| 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 | |||
| 70107 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID309422.1 | StrainInfo: A central database for resolving microbial strain identifiers |