Strain identifier
BacDive ID: 7173
Type strain: 
Species: Methylorubrum suomiense
Strain Designation: F20
Strain history: <- Y. A. Trotsenko; F20 <- N. V. Doronina
NCBI tax ID(s): 144191 (species)
version 8.1 (current version)
General
@ref: 5363
BacDive-ID: 7173
DSM-Number: 14458
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic
description: Methylorubrum suomiense F20 is an aerobe, mesophilic bacterium that was isolated from forest soil near Lammi biological station.
NCBI tax id
- NCBI tax id: 144191
- Matching level: species
strain history
- @ref: 5363
- history: <- Y. A. Trotsenko; F20 <- N. V. Doronina
doi: 10.13145/bacdive7173.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Methylobacteriaceae
- genus: Methylorubrum
- species: Methylorubrum suomiense
- full scientific name: Methylorubrum suomiense (Doronina et al. 2002) Green and Ardley 2018
synonyms
- @ref: 20215
- synonym: Methylobacterium suomiense
@ref: 5363
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Methylobacteriaceae
genus: Methylorubrum
species: Methylorubrum suomiense
full scientific name: Methylorubrum suomiense (Doronina et al. 2002) Green and Ardley 2018
strain designation: F20
type strain: yes
Culture and growth conditions
culture medium
- @ref: 5363
- name: MEDIUM FOR DSM 14457 AND 14458 (DSMZ Medium 956)
- growth: yes
- link: https://mediadive.dsmz.de/medium/956
- composition: Name: MEDIUM FOR DSM 14457 AND 14458 (DSMZ Medium 956) Composition: Methanol 5.0 g/l Methylamine 3.0 g/l (NH4)2SO4 2.0 g/l KH2PO4 2.0 g/l NaCl 0.5 g/l MgSO4 x 7 H2O 0.125 g/l FeSO4 x 7 H2O 0.002 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 5363 | positive | growth | 28 | mesophilic |
| 60786 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 60786
- oxygen tolerance: aerobe
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent |
|---|---|---|---|---|
| 5363 | forest soil near Lammi biological station | Finland | FIN | Europe |
| 60786 | Soil |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Forest |
| #Environmental | #Terrestrial | #Soil |
taxonmaps
- @ref: 69479
- File name: preview.99_253.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15368;96_177;97_192;98_215;99_253&stattab=map
- Last taxonomy: Methylorubrum
- 16S sequence: AB175645
- Sequence Identity:
- Total samples: 110728
- soil counts: 23280
- aquatic counts: 23711
- animal counts: 47578
- plant counts: 16159
Safety information
risk assessment
- @ref: 5363
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Methylobacterium suomicum 16S ribosomal RNA gene, partial sequence | AY009404 | 1413 | ena | 144191 |
| 20218 | Methylobacterium suomiense gene for 16S ribosomal RNA, partial sequence, strain:NCIMB 13778 | AB175645 | 1433 | ena | 144191 |
Genome sequences
- @ref: 66792
- description: Methylorubrum suomiense DSM 14458
- accession: GCA_022179765
- assembly level: contig
- database: ncbi
- NCBI tax ID: 144191
GC content
- @ref: 5363
- GC-content: 65.8
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 71.611 | no |
| gram-positive | no | 98.137 | no |
| anaerobic | no | 97.657 | yes |
| aerobic | yes | 89.919 | yes |
| halophile | no | 88.706 | no |
| spore-forming | no | 94.175 | no |
| motile | yes | 89.562 | no |
| glucose-ferment | no | 89.767 | no |
| thermophile | no | 98.981 | yes |
| glucose-util | yes | 87.675 | no |
External links
@ref: 5363
culture collection no.: DSM 14458, NCIMB 13778, VKM B-2238, CCUG 55907
straininfo link
- @ref: 76626
- straininfo: 100758
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 12054237 | Methylobacterium suomiense sp. nov. and Methylobacterium lusitanum sp. nov., aerobic, pink-pigmented, facultatively methylotrophic bacteria. | Doronina NV, Trotsenko YA, Kuznetsov BB, Tourova TP, Salkinoja-Salonen MS | Int J Syst Evol Microbiol | 10.1099/00207713-52-3-773 | 2002 | Aerobiosis, Base Composition, DNA, Ribosomal/analysis, Methanol/*metabolism, Methylamines/metabolism, Methylobacterium/*classification/genetics/growth & development/metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pigments, Biological/*metabolism, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology, *Soil Microbiology | Metabolism |
| Phylogeny | 30024371 | Review of the genus Methylobacterium and closely related organisms: a proposal that some Methylobacterium species be reclassified into a new genus, Methylorubrum gen. nov. | Green PN, Ardley JK | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002856 | 2018 | Bacterial Typing Techniques, DNA, Bacterial/genetics, Methylobacterium/*classification, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 5363 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14458) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-14458 | |||
| 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 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 60786 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 55907) | https://www.ccug.se/strain?id=55907 | |||
| 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 | |||
| 76626 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID100758.1 | StrainInfo: A central database for resolving microbial strain identifiers |