Strain identifier
BacDive ID: 7225
Type strain: 
Species: Methylosinus sporium
Strain Designation: 5
Strain history: <- NCIMB <- R. Whittenbury, Univ. Warwick, Coventry, U.K. <- 5
NCBI tax ID(s): 428 (species)
version 8.1 (current version)
General
@ref: 7149
BacDive-ID: 7225
DSM-Number: 17706
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Methylosinus sporium 5 is a mesophilic, Gram-negative bacterium that was isolated from groundwater aquifer.
NCBI tax id
- NCBI tax id: 428
- Matching level: species
strain history
- @ref: 7149
- history: <- NCIMB <- R. Whittenbury, Univ. Warwick, Coventry, U.K. <- 5
doi: 10.13145/bacdive7225.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Methylocystaceae
- genus: Methylosinus
- species: Methylosinus sporium
- full scientific name: Methylosinus sporium (ex Whittenbury et al. 1970) Bowman et al. 1993
@ref: 7149
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Methylocystaceae
genus: Methylosinus
species: Methylosinus sporium
full scientific name: Methylosinus sporium (ex Whittenbury et al. 1970) Bowman et al. 1993
strain designation: 5
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.995
Culture and growth conditions
culture medium
- @ref: 7149
- name: METHYLOSARCINA QUISQUILLARUM AND M. FIBRATA MEDIUM (DSMZ Medium 921)
- growth: yes
- link: https://mediadive.dsmz.de/medium/921
- composition: Name: METHYLOSARCINA QUISQUILLARUM AND M. FIBRATA MEDIUM (DSMZ Medium 921) Composition: Agar 15.0 g/l MgSO4 x 6 H2O 1.0 g/l KNO3 1.0 g/l Na2HPO4 x 12 H2O 0.716 g/l KH2PO4 0.26 g/l CaCl2 x 2 H2O 0.2 g/l CuSO4 x 5 H2O 0.001 g/l FeSO4 x 7 H2O 0.0005 g/l ZnSO4 x 7 H2O 0.0004 g/l Fe(III)-EDTA 0.00038 g/l Na2MoO4 x 2 H2O 0.00026 g/l Na2-EDTA 0.00025 g/l CoCl2 x 6 H2O 5e-05 g/l MnCl2 x 4 H2O 2e-05 g/l H3BO3 1.5e-05 g/l NiCl2 x 6 H2O 1e-05 g/l Distilled water
culture temp
- @ref: 7149
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.993 |
Isolation, sampling and environmental information
isolation
- @ref: 7149
- sample type: groundwater aquifer
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Groundwater
taxonmaps
- @ref: 69479
- File name: preview.99_16338.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_86;96_208;97_227;98_1215;99_16338&stattab=map
- Last taxonomy: Methylosinus
- 16S sequence: Y18946
- Sequence Identity:
- Total samples: 332
- soil counts: 128
- aquatic counts: 166
- animal counts: 25
- plant counts: 13
Safety information
risk assessment
- @ref: 7149
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20218
- description: Methylosinus sporium 16S rRNA gene
- accession: Y18946
- length: 1408
- database: ena
- NCBI tax ID: 428
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Methylosinus sporium DSM 17706 | GCA_003113265 | contig | ncbi | 428 |
| 66792 | Methylosinus sporium DSM 17706 | GCA_009811675 | contig | ncbi | 428 |
| 66792 | Methylosinus sporium strain DSM 17706 | 428.4 | wgs | patric | 428 |
| 66792 | Methylosinus sporium strain DSM 17706 | 428.7 | wgs | patric | 428 |
| 66792 | Methylosinus sporium DSM 17706 | 2839752880 | draft | img | 428 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | no | 98.868 | no |
| anaerobic | no | 96.22 | no |
| halophile | no | 96.157 | no |
| spore-forming | no | 89.043 | no |
| glucose-util | yes | 71.34 | no |
| aerobic | yes | 78.884 | no |
| flagellated | no | 69.35 | no |
| motile | yes | 76.135 | no |
| thermophile | no | 98.465 | yes |
| glucose-ferment | no | 93.973 | no |
External links
@ref: 7149
culture collection no.: DSM 17706, ACM 3306, ATCC 35069, IMET 10545, NCIMB 11126, UNIQEM 60
straininfo link
- @ref: 76677
- straininfo: 45971
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 16514024 | Methylocystis rosea sp. nov., a novel methanotrophic bacterium from Arctic wetland soil, Svalbard, Norway (78 degrees N). | Wartiainen I, Hestnes AG, McDonald IR, Svenning MM | Int J Syst Evol Microbiol | 10.1099/ijs.0.63912-0 | 2006 | Arctic Regions, Base Composition, DNA, Ribosomal/chemistry, Methylocystaceae/*classification/genetics/isolation & purification/physiology, Norway, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology | Transcriptome |
| Metabolism | 23963715 | Partial oxidative conversion of methane to methanol through selective inhibition of methanol dehydrogenase in methanotrophic consortium from landfill cover soil. | Han JS, Ahn CM, Mahanty B, Kim CG | Appl Biochem Biotechnol | 10.1007/s12010-013-0410-0 | 2013 | Alcohol Oxidoreductases/genetics/*metabolism, Autotrophic Processes, Bacteria/enzymology/genetics/isolation & purification/*metabolism, Bacterial Proteins/genetics/*metabolism, Down-Regulation, Heterotrophic Processes, Methane/*metabolism, Methanol/*metabolism, Oxidation-Reduction, Oxygenases/genetics/metabolism, *Soil Microbiology | Enzymology |
| Metabolism | 26513269 | Non-linear dynamics of stable carbon and hydrogen isotope signatures based on a biological kinetic model of aerobic enzymatic methane oxidation. | Vavilin VA, Rytov SV, Shim N, Vogt C | Isotopes Environ Health Stud | 10.1080/10256016.2016.1092965 | 2015 | Aerobiosis, *Carbon Isotopes, Copper/metabolism, *Deuterium, Kinetics, Methane/*metabolism, Methylococcaceae/enzymology/*metabolism, Methylosinus/enzymology/*metabolism, *Models, Biological, Nonlinear Dynamics, Oxidation-Reduction, Oxygenases/*metabolism | Enzymology |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 7149 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17706) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-17706 | |||
| 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 | |
| 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 | |||
| 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 | |||
| 76677 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID45971.1 | StrainInfo: A central database for resolving microbial strain identifiers |