Strain identifier
BacDive ID: 7186
Type strain: 
Species: Methylobacterium brachiatum
Strain Designation: B0021
Strain history: <- Y. Kato, Microbiol. and Analytical Group, Food Res. Lab., Mitsui Norin Co. Ltd., Shizuoka, Japan; B0021
NCBI tax ID(s): 269660 (species)
version 8.1 (current version)
General
@ref: 8184
BacDive-ID: 7186
DSM-Number: 19569
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped
description: Methylobacterium brachiatum B0021 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from water samples from food factories.
NCBI tax id
- NCBI tax id: 269660
- Matching level: species
strain history
- @ref: 8184
- history: <- Y. Kato, Microbiol. and Analytical Group, Food Res. Lab., Mitsui Norin Co. Ltd., Shizuoka, Japan; B0021
doi: 10.13145/bacdive7186.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Methylobacteriaceae
- genus: Methylobacterium
- species: Methylobacterium brachiatum
- full scientific name: Methylobacterium brachiatum Kato et al. 2008
@ref: 8184
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Methylobacteriaceae
genus: Methylobacterium
species: Methylobacterium brachiatum
full scientific name: Methylobacterium brachiatum Kato et al. 2008
strain designation: B0021
type strain: yes
Morphology
cell morphology
- @ref: 32496
- gram stain: negative
- cell length: 3.4 µm
- cell width: 1.1 µm
- cell shape: rod-shaped
- motility: yes
pigmentation
- @ref: 32496
- production: yes
Culture and growth conditions
culture medium
- @ref: 8184
- name: NUTRIENT AGAR (DSMZ Medium 1)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1
- composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 8184 | positive | growth | 28 | mesophilic |
| 32496 | positive | growth | 10-35 | |
| 32496 | positive | optimum | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 32496
- oxygen tolerance: aerobe
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 32496 | 22599 | arabinose | + | carbon source |
| 32496 | 18222 | xylose | + | carbon source |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 32496 | catalase | + | 1.11.1.6 |
| 32496 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 8184
- sample type: water samples from food factories
- country: Japan
- origin.country: JPN
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Food production | #Food |
| #Engineered | #Industrial | #Plant (Factory) |
| #Environmental | #Aquatic |
taxonmaps
- @ref: 69479
- File name: preview.99_1592.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15368;96_285;97_315;98_1257;99_1592&stattab=map
- Last taxonomy: Methylobacterium
- 16S sequence: AB175649
- Sequence Identity:
- Total samples: 1162
- soil counts: 88
- aquatic counts: 142
- animal counts: 737
- plant counts: 195
Safety information
risk assessment
- @ref: 8184
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 8184
- description: Methylobacterium brachiatum gene for 16S rRNA, partial sequence, strain: B0021
- accession: AB175649
- length: 1433
- database: ena
- NCBI tax ID: 269660
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Methylobacterium brachiatum B0021 | GCA_020523825 | scaffold | ncbi | 269660 |
| 66792 | Methylobacterium brachiatum DSM 19569 | 2928975616 | draft | img | 269660 |
GC content
- @ref: 32496
- GC-content: 69.2-69.7
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 76.669 | no |
| gram-positive | no | 97.471 | no |
| anaerobic | no | 98.086 | yes |
| aerobic | yes | 91.834 | no |
| halophile | no | 89.61 | no |
| spore-forming | no | 93.979 | no |
| motile | yes | 89.026 | yes |
| thermophile | no | 99.175 | no |
| glucose-util | yes | 89.131 | no |
| glucose-ferment | no | 89.014 | no |
External links
@ref: 8184
culture collection no.: DSM 19569, NBRC 103629, NCIMB 14379
straininfo link
- @ref: 76639
- straininfo: 400752
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 20127465 | Methylobacterium dankookense sp. nov., isolated from drinking water. | Lee SW, Oh HW, Lee KH, Ahn TY | J Microbiol | 10.1007/s12275-009-0126-6 | 2010 | Aerobiosis, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Fresh Water/*microbiology, Hydrogen-Ion Concentration, Methylobacterium/chemistry/*classification/genetics/*isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Temperature | Genetics |
| Phylogeny | 21222033 | Methylobacterium soli sp. nov. a methanol-utilizing bacterium isolated from the forest soil. | Cao YR, Wang Q, Jin RX, Tang SK, Jiang Y, He WX, Lai HX, Xu LH, Jiang CL | Antonie Van Leeuwenhoek | 10.1007/s10482-010-9535-0 | 2011 | Methanol/*metabolism, Methylobacterium/classification/*genetics/*metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Soil Microbiology, *Trees | Metabolism |
| Phylogeny | 23291886 | Methylobacterium trifolii sp. nov. and Methylobacterium thuringiense sp. nov., methanol-utilizing, pink-pigmented bacteria isolated from leaf surfaces. | Wellner S, Lodders N, Glaeser SP, Kampfer P | Int J Syst Evol Microbiol | 10.1099/ijs.0.047787-0 | 2013 | Bacterial Typing Techniques, Caryophyllaceae/*microbiology, DNA, Bacterial/genetics, Fatty Acids/analysis, Germany, Methanol/*metabolism, Methylobacterium/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, *Pigmentation, Plant Leaves/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Trifolium/*microbiology | Genetics |
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 8184 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19569) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19569 | |||
| 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 | |||
| 32496 | 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 | 28716 | 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) | |||
| 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 | |||
| 76639 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID400752.1 | StrainInfo: A central database for resolving microbial strain identifiers |