Strain identifier
BacDive ID: 6962
Type strain: 
Species: Methanobrevibacter ruminantium
Strain Designation: M1
Strain history: DSM 1093 <-- R. S. Wolfe <-- M. P. Bryant M1 <-- P. H. Smith and R. E. Hungate.
NCBI tax ID(s): 634498 (strain), 83816 (species)
version 8.1 (current version)
General
@ref: 547
BacDive-ID: 6962
DSM-Number: 1093
keywords: genome sequence, 16S sequence, Archaea, anaerobe, mesophilic
description: Methanobrevibacter ruminantium M1 is an anaerobe, mesophilic archaeon that was isolated from bovine rumen.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 634498 | strain |
| 83816 | species |
strain history
| @ref | history |
|---|---|
| 547 | <- R. S. Wolfe, University of Illinois, Urbana, USA; M1 <- M. P. Bryant <- P. H. Smith and R. E. Hungate, University of California, Davis, USA (Methanobacterium ruminantium) |
| 67770 | DSM 1093 <-- R. S. Wolfe <-- M. P. Bryant M1 <-- P. H. Smith and R. E. Hungate. |
doi: 10.13145/bacdive6962.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Methanobacteria
- order: Methanobacteriales
- family: Methanobacteriaceae
- genus: Methanobrevibacter
- species: Methanobrevibacter ruminantium
- full scientific name: Methanobrevibacter ruminantium (Smith and Hungate 1958) Balch and Wolfe 1981
synonyms
- @ref: 20215
- synonym: Methanobacterium ruminantium
@ref: 547
domain: Archaea
phylum: Euryarchaeota
class: Methanobacteria
order: Methanobacteriales
family: Methanobacteriaceae
genus: Methanobrevibacter
species: Methanobrevibacter ruminantium
full scientific name: Methanobrevibacter ruminantium (Smith and Hungate 1958) Balch and Wolfe 1981
strain designation: M1
type strain: yes
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 547 | MODIFIED METHANOBACTERIUM MEDIUM (DSMZ Medium 1523) | yes | https://mediadive.dsmz.de/medium/1523 | Name: MODIFIED METHANOBACTERIUM MEDIUM (DSMZ Medium 1523; with strain-specific modifications) Composition: Brain heart infusion 5.98802 g/l Proteose peptone 5.98802 g/l NaHCO3 3.99202 g/l Yeast extract 1.99601 g/l Na-formate 1.99601 g/l Na-acetate 0.998004 g/l 2-Mercaptoethanesulfonic acid 0.499002 g/l KH2PO4 0.499002 g/l Na2S x 9 H2O 0.499002 g/l L-Cysteine HCl x H2O 0.499002 g/l NH4Cl 0.399202 g/l NaCl 0.399202 g/l MgSO4 x 7 H2O 0.399202 g/l CaCl2 x 2 H2O 0.0499002 g/l HCl 0.00249501 g/l FeCl2 x 4 H2O 0.00149701 g/l Sodium resazurin 0.000499002 g/l Pyridoxine hydrochloride 0.000299401 g/l Nicotinic acid 0.000199601 g/l Thiamine-HCl x 2 H2O 0.000199601 g/l CoCl2 x 6 H2O 0.000189621 g/l Vitamin B12 9.98004e-05 g/l Calcium pantothenate 9.98004e-05 g/l MnCl2 x 4 H2O 9.98004e-05 g/l p-Aminobenzoic acid 7.98403e-05 g/l ZnCl2 6.98603e-05 g/l Na2MoO4 x 2 H2O 3.59281e-05 g/l NiCl2 x 6 H2O 2.39521e-05 g/l D-(+)-biotin 1.99601e-05 g/l H3BO3 5.98802e-06 g/l CuCl2 x 2 H2O 1.99601e-06 g/l Distilled water |
| 547 | METHANOBACTERIUM MEDIUM (DSMZ Medium 119) | yes | https://mediadive.dsmz.de/medium/119 | Name: METHANOBACTERIUM MEDIUM (DSMZ Medium 119) Composition: NaHCO3 3.98804 g/l Na-formate 1.99402 g/l Na-acetate 0.997009 g/l Na2S x 9 H2O 0.498504 g/l L-Cysteine HCl x H2O 0.498504 g/l KH2PO4 0.498504 g/l NH4Cl 0.398804 g/l NaCl 0.398804 g/l MgSO4 x 7 H2O 0.398804 g/l Yeast extract 0.199402 g/l CaCl2 x 2 H2O 0.0498504 g/l HCl 0.00249252 g/l FeSO4 x 7 H2O 0.00199402 g/l FeCl2 x 4 H2O 0.00149551 g/l Sodium resazurin 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l H3BO3 5.98205e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Isobutyric acid DL-2-Methylbutyric acid Valeric acid Isovaleric acid H2SO4 Sludge Distilled water |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 547 | positive | growth | 37 | mesophilic |
| 67770 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 547
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
- @ref: 547
- sample type: bovine rumen
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Mammals | #Bovinae (Cow, Cattle) |
| #Host Body-Site | #Organ | #Rumen |
taxonmaps
- @ref: 69479
- File name: preview.99_188043.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17668;96_68993;97_89655;98_121956;99_188043&stattab=map
- Last taxonomy: Methanobrevibacter ruminantium subclade
- 16S sequence: AY196666
- Sequence Identity:
- Total samples: 1348
- soil counts: 46
- aquatic counts: 14
- animal counts: 1166
- plant counts: 122
Safety information
risk assessment
- @ref: 547
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 67770
- description: Methanobrevibacter ruminantium 16S ribosomal RNA gene, partial sequence
- accession: AY196666
- length: 1260
- database: ena
- NCBI tax ID: 634498
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Methanobrevibacter ruminantium M1 | GCA_000024185 | complete | ncbi | 634498 |
| 66792 | Methanobrevibacter ruminantium M1 | 646311943 | complete | img | 634498 |
| 66792 | Methanobrevibacter ruminantium M1 | 634498.28 | complete | patric | 634498 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 547 | 30.6 | |
| 547 | 32.6 | sequence analysis |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | no | 92.584 | no |
| flagellated | no | 97.689 | no |
| gram-positive | no | 94.668 | no |
| anaerobic | yes | 98.831 | yes |
| aerobic | no | 96.061 | yes |
| halophile | no | 76.43 | no |
| spore-forming | no | 95.082 | no |
| thermophile | no | 97.743 | no |
| glucose-util | yes | 62.002 | no |
| glucose-ferment | no | 59.28 | no |
External links
@ref: 547
culture collection no.: DSM 1093, ATCC 35063, JCM 13430, OCM 146
straininfo link
- @ref: 76424
- straininfo: 40849
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Pathogenicity | 23710130 | The effect of saturated fatty acids on methanogenesis and cell viability of Methanobrevibacter ruminantium. | Zhou X, Meile L, Kreuzer M, Zeitz JO | Archaea | 10.1155/2013/106916 | 2013 | Cell Membrane/drug effects, Cell Membrane Permeability/drug effects, Fatty Acids/*metabolism/*pharmacology, Ion Transport/drug effects, Lauric Acids/pharmacology, Methane/*metabolism, Methanobrevibacter/*drug effects/*metabolism, Myristic Acid/pharmacology, Palmitic Acid/pharmacology, Potassium/metabolism, Stearic Acids/pharmacology | Metabolism |
| Transcriptome | 29454387 | The transcriptome response of the ruminal methanogen Methanobrevibacter ruminantium strain M1 to the inhibitor lauric acid. | Zhou X, Stevens MJA, Neuenschwander S, Schwarm A, Kreuzer M, Bratus-Neuenschwander A, Zeitz JO | BMC Res Notes | 10.1186/s13104-018-3242-8 | 2018 | Animals, Cell Culture Techniques, Lauric Acids/*pharmacology, Methane/*metabolism, Methanobrevibacter/*drug effects/genetics, Rumen/*microbiology, Sequence Analysis, RNA, Transcriptome/*drug effects | Pathogenicity |
| Biotechnology | 34776791 | The Ability of Hop Extracts to Reduce the Methane Production of Methanobrevibacter ruminantium. | Blaxland JA, Watkins AJ, Baillie LWJ | Archaea | 10.1155/2021/5510063 | 2021 | Animals, Anti-Bacterial Agents/pharmacology, Archaea, Cattle, *Greenhouse Gases, *Humulus/chemistry, Methane, Methanobrevibacter, Rumen/microbiology, *Tuberculosis, Bovine |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 547 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 1093) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-1093 | |||
| 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 | |||
| 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 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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 | |||
| 76424 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID40849.1 | StrainInfo: A central database for resolving microbial strain identifiers |