Strain identifier
BacDive ID: 7216
Type strain: 
Species: Methylocystis heyeri
Strain Designation: H2
Strain history: <- S. N. Dedysh; H2
NCBI tax ID(s): 391905 (species)
version 8.1 (current version)
General
@ref: 6591
BacDive-ID: 7216
DSM-Number: 16984
keywords: genome sequence, 16S sequence, Bacteria, aerobe, psychrophilic, Gram-negative, rod-shaped
description: Methylocystis heyeri H2 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from acidic Sphagnum peat bog lake.
NCBI tax id
- NCBI tax id: 391905
- Matching level: species
strain history
- @ref: 6591
- history: <- S. N. Dedysh; H2
doi: 10.13145/bacdive7216.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Methylocystaceae
- genus: Methylocystis
- species: Methylocystis heyeri
- full scientific name: Methylocystis heyeri Dedysh et al. 2007
@ref: 6591
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Methylocystaceae
genus: Methylocystis
species: Methylocystis heyeri
full scientific name: Methylocystis heyeri Dedysh et al. 2007
strain designation: H2
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | confidence |
|---|---|---|---|---|---|---|
| 31902 | negative | 2.7 µm | 1 µm | rod-shaped | no | |
| 69480 | negative | 99.999 |
Culture and growth conditions
culture medium
- @ref: 6591
- name: MINERAL MEDIUM (DSMZ Medium 1007)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1007
- composition: Name: MINERAL MEDIUM (DSMZ Medium 1007) Composition: KNO3 0.25 g/l KH2PO4 0.1 g/l MgSO4 x 7 H2O 0.05 g/l CaCl2 x 2 H2O 0.01 g/l EDTA 0.005 g/l FeSO4 x 7 H2O 0.002 g/l CoCl2 x 6 H2O 0.0002 g/l CuCl2 x 5 H2O 0.0001 g/l ZnSO4 x 7 H2O 0.0001 g/l Na2MoO4 3e-05 g/l MnCl2 x 4 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 6591 | positive | growth | 20 | psychrophilic |
| 31902 | positive | growth | 05-30 | |
| 31902 | positive | optimum | 25 | mesophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 31902 | positive | growth | 4.4-7.5 |
| 31902 | positive | optimum | 6 |
Physiology and metabolism
oxygen tolerance
- @ref: 31902
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 31902 | no | |
| 69481 | no | 100 |
| 69480 | no | 99.98 |
halophily
- @ref: 31902
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: <0.5 %
metabolite production
- @ref: 31902
- Chebi-ID: 16183
- metabolite: methane
- production: yes
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 31902 | catalase | + | 1.11.1.6 |
| 31902 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 6591
- sample type: acidic Sphagnum peat bog lake
- host species: Sphagnum
- geographic location: Teufelssee
- country: Germany
- origin.country: DEU
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Lake (large) |
| #Environmental | #Terrestrial | #Wetland (Swamp) |
| #Host | #Plants | #Peat moss |
| #Condition | #Acidic |
Safety information
risk assessment
- @ref: 6591
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 6591
- description: Methylocystis heyeri partial 16S rRNA gene, type strain H2T
- accession: AM283543
- length: 1425
- database: ena
- NCBI tax ID: 391905
Genome sequences
- @ref: 66792
- description: Methylocystis heyeri H2
- accession: GCA_004802635
- assembly level: complete
- database: ncbi
- NCBI tax ID: 391905
GC content
- @ref: 6591
- GC-content: 61.5
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | no | 77.92 | no |
| motile | no | 77.92 | no |
| flagellated | no | 93.397 | yes |
| flagellated | no | 93.397 | yes |
| gram-positive | no | 98.578 | yes |
| gram-positive | no | 98.578 | yes |
| anaerobic | no | 96.673 | no |
| anaerobic | no | 96.673 | no |
| aerobic | yes | 81.015 | yes |
| aerobic | yes | 81.015 | yes |
| halophile | no | 97.042 | yes |
| halophile | no | 97.042 | yes |
| spore-forming | no | 91.059 | yes |
| spore-forming | no | 91.059 | yes |
| thermophile | no | 98.306 | yes |
| thermophile | no | 98.306 | yes |
| glucose-util | yes | 80.61 | no |
| glucose-util | yes | 80.61 | no |
| glucose-ferment | no | 93.349 | no |
| glucose-ferment | no | 93.349 | no |
External links
@ref: 6591
culture collection no.: DSM 16984, VKM B-2426
straininfo link
- @ref: 76668
- straininfo: 297264
literature
- topic: Phylogeny
- Pubmed-ID: 17329771
- title: Methylocystis heyeri sp. nov., a novel type II methanotrophic bacterium possessing 'signature' fatty acids of type I methanotrophs.
- authors: Dedysh SN, Belova SE, Bodelier PLE, Smirnova KV, Khmelenina VN, Chidthaisong A, Trotsenko YA, Liesack W, Dunfield PF
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.64623-0
- year: 2007
- mesh: DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/*analysis, Mass Spectrometry, Methylocystaceae/*chemistry/classification/genetics, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Wetlands
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
|---|---|---|---|---|---|---|---|
| 6591 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16984) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-16984 | ||||
| 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 | ||||
| 31902 | 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 | 28160 | 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) | ||||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
| 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 | ||||
| 76668 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID297264.1 | StrainInfo: A central database for resolving microbial strain identifiers |