Strain identifier
BacDive ID: 6978
Type strain: 
Species: Methanobrevibacter millerae
Strain Designation: ZA-10
Strain history: <- S. Rea, CSIRO Livestock Industries, Queensland Bioscience Precinct, Brisbane, Australia; ZA-10 <- T. L. Miller, New York State Department of Health, Albany, New York, USA
NCBI tax ID(s): 230361 (species)
version 8.1 (current version)
General
@ref: 6546
BacDive-ID: 6978
DSM-Number: 16643
keywords: genome sequence, 16S sequence, Archaea, anaerobe, mesophilic
description: Methanobrevibacter millerae ZA-10 is an anaerobe, mesophilic archaeon that was isolated from bovine rumen fluid.
NCBI tax id
- NCBI tax id: 230361
- Matching level: species
strain history
- @ref: 6546
- history: <- S. Rea, CSIRO Livestock Industries, Queensland Bioscience Precinct, Brisbane, Australia; ZA-10 <- T. L. Miller, New York State Department of Health, Albany, New York, USA
doi: 10.13145/bacdive6978.20230509.8.1
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 millerae
- full scientific name: Methanobrevibacter millerae Rea et al. 2007
@ref: 6546
domain: Archaea
phylum: Euryarchaeota
class: Methanobacteria
order: Methanobacteriales
family: Methanobacteriaceae
genus: Methanobrevibacter
species: Methanobrevibacter millerae
full scientific name: Methanobrevibacter millerae Rea et al. 2007
strain designation: ZA-10
type strain: yes
Culture and growth conditions
culture medium
- @ref: 6546
- name: METHANOBACTERIUM MEDIUM (DSMZ Medium 119)
- growth: yes
- link: https://mediadive.dsmz.de/medium/119
- composition: 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: 6546
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
oxygen tolerance
- @ref: 6546
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
- @ref: 6546
- sample type: bovine rumen fluid
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Mammals | #Bovinae (Cow, Cattle) |
| #Host Body-Site | #Organ | #Rumen |
taxonmaps
- @ref: 69479
- File name: preview.99_189769.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17668;96_69069;97_89743;98_122048;99_189769&stattab=map
- Last taxonomy: Methanobrevibacter millerae
- 16S sequence: AY196673
- Sequence Identity:
- Total samples: 2205
- soil counts: 15
- aquatic counts: 58
- animal counts: 2129
- plant counts: 3
Safety information
risk assessment
- @ref: 6546
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 6546
- description: Methanobrevibacter millerae strain ZA-10 16S ribosomal RNA gene, partial sequence
- accession: AY196673
- length: 1262
- database: ena
- NCBI tax ID: 230361
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Methanobrevibacter millerae DSM 16643 | GCA_900103415 | scaffold | ncbi | 230361 |
| 66792 | Methanobrevibacter millerae DSM 16643 | 2593339167 | draft | img | 230361 |
| 66792 | Methanobrevibacter millerae strain DSM 16643 | 230361.8 | wgs | patric | 230361 |
GC content
- @ref: 6546
- GC-content: 31-32
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | no | 93.839 | no |
| flagellated | no | 97.885 | no |
| gram-positive | no | 92.987 | no |
| anaerobic | yes | 98.898 | yes |
| aerobic | no | 95.76 | yes |
| halophile | no | 82.977 | no |
| spore-forming | no | 96.009 | no |
| glucose-ferment | no | 57.662 | no |
| thermophile | no | 95.121 | yes |
| glucose-util | yes | 66.871 | no |
External links
@ref: 6546
culture collection no.: DSM 16643, OCM 820
straininfo link
- @ref: 76439
- straininfo: 404514
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 17329767 | Methanobrevibacter millerae sp. nov. and Methanobrevibacter olleyae sp. nov., methanogens from the ovine and bovine rumen that can utilize formate for growth. | Rea S, Bowman JP, Popovski S, Pimm C, Wright AG | Int J Syst Evol Microbiol | 10.1099/ijs.0.63984-0 | 2007 | Animals, Cattle/*microbiology, DNA, Archaeal/genetics, DNA, Ribosomal/genetics, Formates/*metabolism, Methanobrevibacter/*classification/genetics/growth & development/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Rumen/*microbiology, Sheep/*microbiology | Metabolism |
| Genetics | 27536339 | The complete genome sequence of the rumen methanogen Methanobrevibacter millerae SM9. | Kelly WJ, Pacheco DM, Li D, Attwood GT, Altermann E, Leahy SC | Stand Genomic Sci | 10.1186/s40793-016-0171-9 | 2016 |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 6546 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16643) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-16643 | |||
| 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 | |
| 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 | |||
| 76439 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID404514.1 | StrainInfo: A central database for resolving microbial strain identifiers |